New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 1397238	NA (NA)	19 (1.080)	13/292	0.2	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

GCGATGTTATTCACGCTGGCCAACCTGTTTCGGGCGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGAAACTGAAGTCAGCGAAAGGGAAGAAATTTCTCTTTGGTTTGTTGGCGGTTTTCATTATTGCGGCGTCGGTTGTGACTCGCGCGACCATCGGCGGCGTTATAGAAC  >  NC_000913/1397021‑1397482                                                                                                                                                                                                                          |                                                                                                                                                                                                                                                     gCGATGTTATTCACGCTGGCCAACCTGTTTCGGGCGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGc                                                                                                                                                                                                                     <  1:365368/251‑1 (MQ=255)             aCGCTGGCCAACCTGTTTCGGGCGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAgaggtgagg                                                                                                                                                                                                         >  1:250567/1‑251 (MQ=255)               gCTGGCCAACCTGTTTCGGGCGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAAGCTGATTCAAGGCAGTGACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGtt                                                                                                                                                                                                       <  1:440483/251‑1 (MQ=255)                     cAACCTGTTTCGGGCGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAag                                                                                                                                                                                                                 >  1:394988/1‑235 (MQ=255)                                                 cGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGACACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGCAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGACGACTTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATgg                                                                                                                                                                         >  1:327630/1‑247 (MQ=255)                                                                               gggATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGCGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTg                                                                                                                                                                                    >  1:398061/1‑206 (MQ=255)                                                                                        ccTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCACGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCAGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTg                                                                                                                                       >  1:328756/1‑242 (MQ=255)                                                                                             aaTGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCAAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCATCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATTGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTAcat                                                                                                                         <  1:217059/251‑1 (MQ=255)                                                                                                         aCGGTCTAAAGGGGCTTTTTCAAGGCATATACGGGAGAAAAAAGCGGCTCAAACATGAAGAAATGAAATGACTGAGGCAGCCGAGAAGAATGTCCCCGCTTATGCGCACCTTCCCTAACTAATCAATTCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTAGGGc                                                                                                             <  1:321468/251‑1 (MQ=37)                                                                                                                aaagaGGCTGATTCAAGGCATTTACGGGAGATAAAATCGGCTCAAACAGGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCTAGCTAAGAGGTGAGGTTTTCAGAGCATACAACGGTGAAATGTCATGGTATGTTTACTTTGAGTTAACATGAAATTTGTCTTCACAAGGATTACATCATGATTATGTCGAAAc                                                                                                        <  1:261740/245‑1 (MQ=25)                                                                                                                           ttCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATAAATGCGTTGATTGTACATCCAGCTAAGAGGTGAGGATTTCAGAGCAGACAACGGTGAACTGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGAAACTGAAGTCAGCGa                                                                                            >  1:231918/1‑250 (MQ=255)                                                                                                                             cAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGACGAGAAGACTTTCCCCGCTTATTCGCACATTCCCTAACTAATCAATGCGTTGATTGTAAATCAAGCTAAGCGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAg                                                                                                                                 >  1:333508/1‑211 (MQ=255)                                                                                                                                                  aaTCGGCGCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAAATAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTAATGGTATTg                                                                                                                                                                    >  1:226042/1‑155 (MQ=255)                                                                                                                                                       gcgcAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCGTATGCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTc                                                                                                                                                                                                    <  1:443481/115‑1 (MQ=255)                                                                                                                                                       gCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGAAACTGAAGTCAGCGAAAGGgaag                                                                                    >  1:168299/1‑230 (MQ=255)                                                                                                                                                        cTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCATAACTAATCAATGCGTTGATTGTAAATCCAGATAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATgg                                                                                                                                                                         >  1:299073/1‑144 (MQ=255)                                                                                                                                                           aaaCATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGAAACTGAAGTCAGCGAAAGGGAAGAAATTGCTCTGTGGTTTGTTGGCgn                                                           <  1:117106/251‑2 (MQ=255)                                                                                                                                                            aaCATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAgn                                                                                                                                                                                                                     <  1:278578/96‑2 (MQ=255)                                                                                                                                                            aaCATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGc                                                                                                                                                                                                                     >  2:278578/1‑96 (MQ=255)                                                                                                                                                              cATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCAACTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGTGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACg                                                                                                                                                               >  1:397772/1‑148 (MQ=255)                                                                                                                                                                  aagaaATGAAATGACTGCGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGc                                                                                                             >  1:354654/1‑194 (MQ=255)                                                                                                                                                                    gaaatnncanNNCTNNGTCAGCCGAGAAGAATTTCCCCGNTTATTCGCACCTTCCCTAACTCATCAATGNGNTNATTGNNAATNCAGCTAAGAGNTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTNTNGGTAACAAGAAATTTGTCTGCACAAGGATTANATCATGATTATGGc                                                                                                             >  2:327070/1‑192 (MQ=38)                                                                                                                                                                    gaaatgaaatGACTGAGTCAGCCGAGAAGAATTGCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTTAGGTTTTCAGAGCAGACAACGGTGAAATGTCAGGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGc                                                                                                             <  1:327070/192‑1 (MQ=255)                                                                                                                                                                            atgaCTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGAAACTGAAGTCAGCGAAAGGGAAGAAATTTCTCTTTGGTTTGTTGGCGGTTTTCATTATTgcggcg                                          <  1:355776/251‑1 (MQ=255)                                                                                                                                                                                    ntCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGa                                                                                                                    >  1:130666/2‑169 (MQ=255)                                                                                                                                                                                    gTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGTTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGc                                                                                                                                      <  1:235707/151‑1 (MQ=255)                                                                                                                                                                                    gTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGAAACTGAAGTCAGCGAAAGGGAAGAAATTTCTCTTTGGTTTGTTGGCGGTTTTCATTATTGCGGCGTCGGTtgt                                  >  1:169987/1‑251 (MQ=255)                                                                                                                                                                                      cNGCCGAGAAGCATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAAc                                                                                                                                                                                        >  1:348823/1‑99 (MQ=255)                                                                                                                                                                                                                    aCCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGAAACTGAAGTCAGCGAAAGGGAAGAAATTTCTCTTTGGTTTGTTGGCGGTTTTCATTATTGCGGCGTCGGTTGTGACTCGCGCGACCATCGGCGGCGTTATAGAAc  <  1:396770/251‑1 (MQ=255)                                                                                                                                                                                                                          |                                                                                                                                                                                                                                                     GCGATGTTATTCACGCTGGCCAACCTGTTTCGGGCGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGAAACTGAAGTCAGCGAAAGGGAAGAAATTTCTCTTTGGTTTGTTGGCGGTTTTCATTATTGCGGCGTCGGTTGTGACTCGCGCGACCATCGGCGGCGTTATAGAAC  >  NC_000913/1397021‑1397482

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 33 ≤ 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.