New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 1397238	NA (NA)	8 (0.800)	6/322	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

GAAAAACGATAACCAACTGGCGATGTTATTCACGCTGGCCAACCTGTTTCGGGCGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGAAACTGAAGTCAGCGAAAGGGAAGAAATTTCTCTTTGGTTTGTTGGCGGTTTTCATTATTGCGGCGTCGGT  >  NC_000913/1397002‑1397447                                                                                                                                                                                                                                             |                                                                                                                                                                                                                  gAAAAACGATAACCAACTGGCGATGTTATTCACGCTGGCCAACCTGTTTCGGGCGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAACCGGTCTAAATAGGCTGATTCAAGGTATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATg                                                                                                                                                                                                     >  1:217359/1‑251 (MQ=18)      aCGATAACCAACTGGCGATGTTATTCACGCTGGCCAAACTGTTTCGGGCGGAGCAAATGATAAGTCAGTGGGAGCGCTATCACTAAAAACTGGGGATAACGCCTTAAATGGCGACGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAACACTCGGCTCAAACATGAAGCAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTg                                                                                                                                                                                                >  1:98171/1‑251 (MQ=11)                   ggCGATGTTATGCACGCTGGCCAACCTGTTTCGGGCGGACCAAATGATACGTCAGTGTGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGTCTCAAACATGAAGAAATGAAATGACTTAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATcc                                                                                                                                                                                     <  1:93165/249‑1 (MQ=255)                                aCGCTGGCCAACCTGTTTCGGGCGGACAAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAA‑TAGGCTGATTCAAGGCATTTACGGGAGAAAAATTCGGCTCAACCATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAgaggtgaggt                                                                                                                                                                     >  1:185960/1‑251 (MQ=255)                                       ccAACCTGTTTCGGGCGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAACAACTGGGGATAACGCCTTACATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAgaggtgagg                                                                                                                                                                      >  1:92262/1‑244 (MQ=255)                                       ccAACCTGTTTCGGGCGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTc                                                                                                                                                                 >  1:46899/1‑249 (MQ=255)                                           ccTGTTTCGGGCGGACCACATGATACGTCAGTGGGAGAGATCTCACTAACAACTGGGGCTAACGCCTTAAATGGCGACGAACCGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGc                                                                                                                                                            >  1:205574/1‑250 (MQ=255)                                                    ggCGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTACATGGCGCAGAAAAGGTATACATAGGCTGATTCAAGGCATTTACGGGAGAAACAATCGGCTCAAACATGAAGAAATGCAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAACTCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGt                                                                                                                                                  >  1:123343/1‑251 (MQ=17)                                                      cGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGCAGAAACGATCTAAATAGGCTGATTCACGGCATTTACGGGCGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTg                                                                                                                                                 >  1:141857/1‑250 (MQ=255)                                                                                           aaaaCTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCCTTTCCGGGACAAAAAATAGGCTCAAACATGAAGAACTGACATGACTGCGTCAGCCGAGAAGAATTTCCCAGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAAt                                                                                                           >  1:91470/1‑251 (MQ=25)                                                                                            aatcTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTTATGCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCTCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTTTAAATTCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTTAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAAtt                                                                                                          <  1:7455/248‑1 (MQ=21)                                                                                                                        cgaaACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGAtt                                                                               >  1:58645/2‑250 (MQ=255)                                                                                                                                tCTAAATAGGCTGATTCAAGGAATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATAAATGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACATTCACTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGaa                                                                       >  1:123685/1‑250 (MQ=255)                                                                                                                                                                                          atgaaatgtCTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCGGAGCAGACAACTGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGTCGAAACTGAAGTCAGCGAAAGGGAAGAAATTTCTCTTTGGTTTGTTGGCGGTTTTCATTATTg            <  1:220256/251‑1 (MQ=255)                                                                                                                                                                                            gaaatgaCTGAGTCAGCCGAGAAGAATTTCCCCGCTTCTTCGCACCTTCCCCACCTCATCAATGCGTTGATTGAACATCTAGCTAAGAGGTGCGGTATTCAGAGCAGACAACGGTGACATGTCATGGTATTGTTACGTTTAGGTAACATGAAATTTGTCTGAACAAGGATTACATCATGATTATGGCGAAACTGAAGTCAGCGAAAGGGAAGAAATTTCTCTTTGGTTTGTTGGCGGTTTTCATTATTgcg          >  1:212997/1‑251 (MQ=255)                                                                                                                                                                                                     gAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGAAACTGAAGTCAGCGAAAGGGAAGAAATTTCTCTTTGGTTTGTTGGCGGTTTTCATTATTGCGGCGTCGGt  <  1:113670/250‑1 (MQ=255)                                                                                                                                                                                                                                    cGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAAGGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGAAACTGAAg                                                                <  1:111062/157‑1 (MQ=255)                                                                                                                                                                                                                                             |                                                                                                                                                                                                                  GAAAAACGATAACCAACTGGCGATGTTATTCACGCTGGCCAACCTGTTTCGGGCGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGAAACTGAAGTCAGCGAAAGGGAAGAAATTTCTCTTTGGTTTGTTGGCGGTTTTCATTATTGCGGCGTCGGT  >  NC_000913/1397002‑1397447

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 32 ≤ 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.