New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	1979271 =	0 (0.000)	17 (1.210) +TTAAGTAATTGAGTG	12/278	0.1	100%	intergenic (‑56/‑482)	insA5/uspC	IS1 family protein InsA/universal stress protein C
	?	NC_000913	2996360 =	NA (NA)					intergenic (+2504/+12)	ygeI/insD4	protein YgeI/IS2 insertion element protein InsB

ATCAATGATTTTCTGGTGCGTACCGGGTTGAGAAGCGGTGTAAGTGAACTGCAGTTGCCATGTTTTACGGCAGTGAGAGCAGAGATAGCGCTGATGTCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAATTAAATACAAAGAAAGGCAACAATC  >  NC_000913/1979042‑1979514                                                                                                                                                                                                                                      |                                                                                                                                                                                                                                                    nttcgtgaaaacgataaagcgtgactacatcagtatcatgcccaaaccagacgggctaacggcagcaaagaaccttgcagaggcgttcgagcattataacgaatggcatccgcatagtgcgctgggttatcgctcgccacgggaatatctgcggcagcgggcttgtaatgggttaagtgataacagatgtctggaaatataggggcaaatccaacactcacttacttaaCATAAATGTATAAGTCATACtt                                                                                                                                                                                                                                <  1:65423‑M1/22‑1 (MQ=255)             gataaagcgtgactacatcagtatcatgcccaaaccagacgggttaacggcagcaaagaaccttgcagaggcgttcgagcattataacgaatggcatccgcatagtgcgctgggttatcgctcgccacgggaatatctgcggcagcgggcttgtaatgggttaagtgataacagatgtctggcaatataggggcaaatccaacactcaattacttaaCATAAATGTATAAGTCATACTTTTGTTTTGGgtg                                                                                                                                                                                                                    <  1:74937‑M1/34‑1 (MQ=255)             gataaagcgtgactacatcagtatcatgcccaaaccagacgggttaacggcagcaaagaaccttgcagaggcgttcgagcattataacgaatggcatccgcatagtgcgctgggttatcgctcgccacgggaatatctgcggcagcgggcttgtaatgggttaagtgataacagatgtctggaaatagaggggcaaatccaacactcaattacttaaCATAAATGTATAAGTCATACTTTTGTTTTGGgtg                                                                                                                                                                                                                    >  1:309275‑M1/218‑251 (MQ=255)                                            aaaccagacgggttaacggcagcaaagaaccttgcagaggcgttcgagcattataacgaatggcatccgcatagtgagctgggttatcgctcgccacgggaatatctgcggcagcgggcttgtaatgggttaagtgataacagatgtctggaaatataggggcaaatccaacactcaattacttaaCATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTcgctac                                                                                                                                                                                     <  1:294371‑M1/65‑1 (MQ=255)                                             aaccagacgggttaacggcagcaaagaaccttgcagaggcgttcgagcattataacgaatggcatccgcatagttcgctgggttatcgctcgccacgggaatatctgcggcagcgggcttgtaatgggttaagtgataacagatgtctggaaagagagtggcaaatccaacactcaagtacgtaaCATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTcgctacg                                                                                                                                                                                    >  1:351227‑M1/186‑251 (MQ=255)                                                                 gcaaagaaccttgcagaggcgttcgagcattataacgaatggcatccgcatagtgcgctgggttatcgctcgccacgggaatatctgcggcagcgggcttgtaatgggttaagtgataacagatgtctggacatataggggaaaatcctacactcaattacttaaCATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAAc                                                                                                                                                                <  1:356037‑M1/86‑1 (MQ=255)                                                                                                       atggcatccgcatagtgcgctgggttatcgctcgccacgggcatatctgcggcagagggcttgtaatgggttaagtgataacagatgtctggaaatataggggcaaatccaacactcaattacttaaCATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTcgc                                                                                                                                                                                        <  1:148167‑M1/62‑1 (MQ=255)                                                                                                                     gtgcgctgggttatcgctcgccacgggaatatctgcggcagcgggcttgtaatgggttaagtgataacagatgtctggaaatataggggcaaatccaacactcaatgacttaaCATAAAAGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTtcgctacgctan                                                                                                                                                                                >  1:36254‑M1/114‑182 (MQ=255)                                                                                                                            gggttatcgctcgccacgggaatatctgcggcagcgggcttgtaatgggttaagtgataacagatgtctggaaatataggggcaaatccaacactcaattacttaaCATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAatcatc                                                                                                     <  1:112434‑M1/145‑1 (MQ=255)                                                                                                                                    gctcgccacgggaatatctgcggcagcgggcttgtaatgggataagtgataacagatgtctggcaatataggggcaactccaacactcaattacttaaCATAAATGTATAAGTCATACTTTTGTTTTGGgt                                                                                                                                                                                                                     <  1:148083‑M1/33‑1 (MQ=255)                                                                                                                                                          gcagcgggcttgtaatgggttaagtgataacagatgtctggaaatataggggcaaatccaacactcaattacttaaCATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAataac                                                                       >  1:328242‑M1/77‑249 (MQ=255)                                                                                                                                                                gtcttgtaatgggttaagtgataacagatgtctggaaatataggtgcaaatccaacactcaattacttaaCATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTc                                                                                                                                                                                                              >  1:235785‑M1/71‑110 (MQ=255)                                                                                                                                                                                               ntggaaatataggggcaaatccaacactcaattacttaaCATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTCGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCacaac                                  <  1:37322‑M1/212‑1 (MQ=255)                                                                                                                                                                                                  gaaatataggggcaaatccaacactcaattacttaaCATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGacac                                              >  1:316348‑M1/37‑236 (MQ=255)                                                                                                                                                                                                            ngcaaatccaacactcaattacttaaCATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGaa                                                                                                                                                                  <  1:92421‑M1/84‑1 (MQ=255)                                                                                                                                                                                                            ggcaaatccaacactcaattacttaaCATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAATTAAAt                     <  1:194479‑M1/225‑1 (MQ=255)                                                                                                                                                                                                              caaatccaacactcacttacttaaCATAAATGTATAAGTCATACTTTTGCTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGACATGGGATGTTGCGCAAAGTCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGa                                                                    <  1:267405‑M1/178‑1 (MQ=255)                                                                                                                                                                                                                                acttaaCATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCTAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTGACCGCACAACAAACTAATTAAATACAAAGAAAGGCAACAATc  >  1:58422‑M1/7‑250 (MQ=255)                                                                                                                                                                                                                                      |                                                                                                                                                                                                                                                    ATCAATGATTTTCTGGTGCGTACCGGGTTGAGAAGCGGTGTAAGTGAACTGCAGTTGCCATGTTTTACGGCAGTGAGAGCAGAGATAGCGCTGATGTCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTGCTATAAATAATCACTTTCATGCAATACCAGATAAGCTATTTTTAAACAGACACTTACCGCACAACAAACTAATTAAATACAAAGAAAGGCAACAATC  >  NC_000913/1979042‑1979514

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 34 ≤ 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.