New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 1397238	NA (NA)	32 (0.880)	30/488	0.3	100%	noncoding (1195/1195 nt)	IS5	repeat region
	?	NC_000913	= 1978494	0 (0.000)					intergenic (‑297/+24)	flhD/insB5	DNA‑binding transcriptional dual regulator FlhD/IS1 family protein InsB

GTTGCTGAAAAACGATAACCAACTGGCGATGTTATTCACGCTGGCCAACCTGTTTCGGGCGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGAAACTGAAGTCAGCGAAAGGGAAGAAATTTCTCTTTGGTTTGTTGGCGGTTTTCATTATTGCGGCGTCGGTTGTGACTCGCGCGACCATCGGCGGCGT  >  NC_000913/1396996‑1397474                                                                                                                                                                                                                                                   |                                                                                                                                                                                                                                             gTTGCTGAAAAACGATAACAAACTGGAGATGTTATTCACGCTGGCCAACCTGTTTCGGCCGGACCAGATGATCCGACAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCGGATTCAAGGCTTTTAGGGGAGAAAAACTAGGCTCAAACATGAAACAATGAAATGACTAAGTCAGCAGAGAAGATTATCCCCCATTATTCGCACCTTCCcgaactc                                                                                                                                                                                                                                       >  2:362085/1‑249 (MQ=11)         aaaaCGATAACCAACTGGCGATGTTATTCACGCTGGCCAACCTGTTTCGGGCGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTAGTCGCACCTTCCCTAACTAATCAATGCg                                                                                                                                                                                                                              <  1:386097/251‑1 (MQ=21)               aTAACCAACTGGCGATGTTATTCACGCTGGCCAACCTGTTTCGGGCGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGAtt                                                                                                                                                                                                                        >  1:342436/1‑251 (MQ=37)                    cAACTAGCGATGTTCATCCCGCTGGCCAAAATGTTACGGGCGGACCAAATGATACCTCAGTGGGAGAGACCTCCATAACAACTGGGGATAACGCCTTAAATGGCGCAGAACCGGTCTAAATAGGCTAATTCAAGGCCTTTACGGGAGAAAACATCGGCTCAAACATGAAGAAAAGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACATTCCCTAACTACTCAATGCGTTGATTGTaa                                                                                                                                                                                                                    >  2:298444/1‑250 (MQ=11)                           cGATGTTATTCACGCTGGCAAACCTGATTCGGGCGGACCACATGATAAGTAAGTGGGAGAGCTCTCACTAAAAACTGGGGATCACGACTTACATGGCGAAGACACGGTCTAAATAGGCTGATTAAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAAAGAACTGACTGCGACAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGCTTgaacatcccgct                                                                                                                                                                                                            >  2:94202/1‑240 (MQ=11)                             aTGTTATTCACGCTGGCCAACCTGTTTCGGGCGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTa                                                                                                                                                                                                           >  1:185335/1‑250 (MQ=255)                             aTGTTATTCACGCTGGCCAACCTGTTTCGGGCGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTa                                                                                                                                                                                                           >  1:49907/1‑250 (MQ=255)                                 tATTCACGCTGGCCAACCTGTTTCGGGCGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAagag                                                                                                                                                                                                       <  1:324437/250‑1 (MQ=255)                                      aCGCTGGCCAACCTGTTTCGGGCGGACCAAATGATACGTCAGTGGTAGAGATCTCACTAACAACTGGGGATAACGCCTTAAATAGCGAAGAACCGGTCTAAATAGGCTGCTTCAAGGCATTTACGGGCGAACAAATCGGCTCAACCATGAAGAAATGAAATGCCTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTACTCAATGCGTTGCTTTTCAATCCAGCTAagaggagagg                                                                                                                                                                                                 >  1:217035/1‑251 (MQ=14)                                               aaCCTGTTTCGGGCGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCagag                                                                                                                                                                                        <  1:206710/251‑1 (MQ=255)                                                 cccgTTTTGGGGGGACCAAAGGATACGTCAGTGGGAGAAAACTAACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTAAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATTACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTATCTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCa                                                                                                                                                                                      <  2:272108/248‑1 (MQ=17)                                                    gTTTCGGGCGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGa                                                                                                                                                                                    <  1:69259/250‑1 (MQ=255)                                                             ggACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGGTAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGaa                                                                                                                                                                          <  1:136812/251‑1 (MQ=255)                                                               aCCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCGGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTGCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTTAAAt                                                                                                                                                                        <  2:440361/251‑1 (MQ=255)                                                                             cAGTGGGAGAGATCGCACTAAAAACTGGGGATAACGCCGTAAACGGCGAATAAACGGTCTAAACAGGCTGATTCATGGCATTTACTGGAGAAAAAAGCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAATAATTTCCCCGCTTATTCGCACCTTCCCTAACTAAACAATGCGTTGATTGTAAAACCAGCTAAGAGGTGAGGTTTTCAGAGCGGACAACGGTGAAATGTCATGTTATTGtt                                                                                                                                                          <  2:340943/251‑1 (MQ=18)                                                                                tGGGAGAGCTCTCACTAAAAAATGGGGATAAAGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCCTTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATAAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAAATAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGttc                                                                                                                                                         >  2:448403/1‑248 (MQ=18)                                                                                                   aaCTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAAttt                                                                                                                                    <  1:66928/251‑1 (MQ=255)                                                                                                         ggATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAAGGTCATGGTATTGTGCCGTTTAGGTAACAAGAAATTTGTCTGc                                                                                                                              <  1:142723/251‑1 (MQ=255)                                                                                                                                  aCGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGACAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATACAACTAAGAGGTGAGGGTTTCAGAGAAGACAACGGTGAAGTGTAATGGTATTGTTACGTTAAGGTAACAAGAAATTTGTCTGCAAAAGGATTACATCATGCTTATGGc                                                                                                     >  2:350264/1‑251 (MQ=21)                                                                                                                                   cGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCg                                                                                                    <  1:282828/251‑1 (MQ=255)                                                                                                                                     gTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATTACCGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGaa                                                                                                  <  2:342436/251‑1 (MQ=255)                                                                                                                                                                                        aTGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGAAACTGAAGTCAGCGAAAGGGAAGAAATTTCTCTTTGGTTTGTTGGCGGtttt                                               >  1:411279/1‑251 (MQ=255)                                                                                                                                                                                              aaatgaaatgACTGAGTCAGACGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCGAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGAAACTGAAGTCAGCGAAAGGGAAGAAATTTCTCTTTGGTTTGTTGGCGGTTTTCattat                                         <  1:286346/251‑1 (MQ=255)                                                                                                                                                                                                     atgaatgtgTCAGCCGAGAATAAAGTACCCGCTTCTGTGCACCTTCCCTAACTAAGAAATGCGTTGATTGTAAATCCAGCTAAGAGTTGAGTTTGTCAGAGCAGACAACGGTGAATTGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCGGCACAAGGATTGCATCATGATTATGTCGAAACTGAAGTCATCGTAAGGGAAGAAATTTCTCTTTTGTTTGTTGTTGGTTTTCATTATTgcggcg                                  <  2:144083/243‑1 (MQ=255)                                                                                                                                                                                                                  ccgcgaagaaTTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGCGAGGTATTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGAAACTGAAGTACGCGAAAGGGACGAAATTTCTCTTTGGTTTGTTGGCGGTTTTCATTATTGCGGAGTCgggttttgtac                     >  2:147561/5‑242 (MQ=255)                                                                                                                                                                                                                   cGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGAAACTGAAGTCAGCGAAAGGGAAGAAATTTCTCTTTGGTTTGTTGGCGGTTTTCATTATTGCGGCGTCGGTTGTGACTcg                    <  1:225854/251‑1 (MQ=255)                                                                                                                                                                                                                    gataagaaTTTCCTCTATTATTCGCACCTTCCCTAACTAATCAAGGAGGTGATTGTAATTCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCACGATTATGTCGAAACTGAAGTCATCGAAAGGGAAGAACTCTCTCTTTGGGTTGTTTGCGGTTTTCATTATTGCGGCGTCGGTTGTGACTcgc                   <  2:269576/248‑1 (MQ=255)                                                                                                                                                                                                                          aaTTTCCCCGCTTATTCGCACCTTCCCTCACTAATCAATGCGTTGATTGTAAATCCCGCTAATAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGAAACTGAAGTCAGCGAAAGGGAAGAAATTTCTCTTTGGTTTGTTGGCGGTTTTCATTTTTGGGGCGTGGGTTGTGACTCGCGCGAcc             >  2:427881/1‑251 (MQ=255)                                                                                                                                                                                                                                     ttATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGAAACTGAAGTCAGCGAAAGGGAAGAAATTTCTCTTTGGTTTGTTGGCGGTTTTCATTATTGCGGCGTCGGTTGTGACTCGCGCGACCATCGGCGGCGt  >  1:42322/1‑251 (MQ=255)                                                                                                                                                                                                                                                   |                                                                                                                                                                                                                                             GTTGCTGAAAAACGATAACCAACTGGCGATGTTATTCACGCTGGCCAACCTGTTTCGGGCGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGAAACTGAAGTCAGCGAAAGGGAAGAAATTTCTCTTTGGTTTGTTGGCGGTTTTCATTATTGCGGCGTCGGTTGTGACTCGCGCGACCATCGGCGGCGT  >  NC_000913/1396996‑1397474

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.