New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 1503923	1 (0.040)	22 (0.850)	19/268	NT	95.7%	noncoding (763/1748 nt)	IS609	repeat region
	?	CP009273	= 3577555	NA (NA)					intergenic (+15/‑1)	insB1/yrhA	IS1 transposase B/pseudogene, interrupted by IS1E

TGCGAGAGACAGTCGAAATTATGCGTTATCCCGTCACTCTTACACCCGCGCCGGAAGGCGGTTATATGGTTTCTTTTGTGGATATCCCTGAAGCGTTGACCCAGGGCGAAACTGTCGCTGAAGCGATGGAAGCGGCAAAAGATGCTTTACTGACCGCATTTGATTTTTATTTTGAAGATAACGAGCTTATCCCTTTACCTTCGCCATTAAATAGTCACGATCACTTTATTGAAGTACCTTTGAGCGTCGCCTCTAAGGTATTGCTGTTAAATGCTTTTTTACAGTCAGAAATCACTCAGCAAGAGTTAGCCAGGCGAATTGGCAAACCTAAACAGGAGATTACTCGCCTATTTAACTTGCATCATGCGACAAAAATCGACGCCGTCCAGCTCGCGGCAAAGGCGCTTGGCAAAGAGTTATCGCTGGTGATGGTTTAATTACAGTTAAC  >  CP009273/1503745‑1504192                                                                                                                                                                                   |                                                                                                                                                                                                                                                                              atgttttacggcagtgagagcagagatagcgctgatgtccggcggtgcttttgccgttacgcaccaccccgtcagtagctgaacaggagggacagctgatagaaacagaagccaatggagcacctcaaaaacaccatcatacactaaatcagtaagttggcagcatcaccTTTGAAGATAACGAGCTTATCCCTTTACCTTCGCCATTAAATAGTCACGAACACTTAATTGAAGTACCTTGGAGCGTCGCCTCTAAGGTAGTGCtgttaaagtat                                                                                                                                                                               >  2:144331‑M2/171‑271 (MQ=255)                    gcagagatggcgctgatgtccggcggtgcttttgccgttacgcaacaccccgtcagtagctgaacaggagggacagctgatagaaacagaagccactggagcacctcaaaaacaccatcatacactaaatcagtaagttggcagcatcaccTTTGAAGATAACGAGCTTATCCCTTTACCTTCGCCATTAAATAGTCACGATCACTTTATTGAAGTACCTTTGAGCGTCGCCTCTAAGGTATTGCTGTTAAATGCTTTTTTACAGTCAGAAATCa                                                                                                                                                            <  1:191426‑M2/124‑1 (MQ=255)                                                gcgcCGGAAGGCGGTTATATGGTTTCTTTTGTGGATATCCCTGAAGCGTTGACCCAGGGCGAAACTGTCGCTGAAGCGATGGAAGCGGCAAAAGATGCTTTACTGACCGCATTTGATTTTTATTTTGAAGATggtaatgactccaac                                                                                                                                                                                                                                                                >  1:403248‑M1/1‑132 (MQ=255)                                                    cGGAAGGCGGTTATATGGTTTCTTTTGTGGATATCCCTGAAGCGTTGACCCAGGGCGAAACTGTCGCTGAAGCGATGGAAGCGGCAAAAGATGCTTTACTGACCGCATTTGATTTTTATTTTGAAGATggtaatgactccaacttat                                                                                                                                                                                                                                                            <  2:403239‑M1/147‑20 (MQ=255)                                                                               tgGATATCCCTGAAGCGTTGACCCAGGGCGAAACTGTCGCTGAAGCGATGGAAGCGGCAAAAGATGATTTACTGACCGCATTTGATTTTTATTTTGAAGATggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgacttccgtcccagccgtgcaagatgctgcctcagattcagtttatgccgctcaattggatgcgtatatcgcttgcgtaacac                                                                                                 >  2:153125‑M1/1‑101 (MQ=255)                                                                                         tGAAGCGTTGACCCAGGGCGAAACTGTCGCTGAAGCGATGGAAGCGGCAAAAGATGCTTTACTGACCGCATTTGATTTTTATTTTGAAGATggtaat                                                                                                                                                                                                                                                                         >  2:43988‑M1/1‑91 (MQ=255)                                                                                             gCGTTGACCCAGGGCGAAACTGTCGCTGAAGCGATGGAAGCGGCAAAAGATGCTTTACTGACCGCATTTGATTTTTATTTTGAAGATggtaatgact                                                                                                                                                                                                                                                                     <  1:43988‑M1/97‑11 (MQ=255)                                                                                                ttGACCCAGTGCAAAACTGTCGCTGAAGCGATGGAAGCGGCAAAAGATGCTTTACTGACCGCATTTGATTTTTCTTTTGACGCTggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctcccccgattttgagaacgacagcgacttccttaccagccgtgcaaggtgctgcctcagatccaagttatgacgctccattcactgcgtatatagctttctccctacgttcgtatttcccttca                                                                                >  2:108837‑M1/1‑84 (MQ=255)                                                                                                ttGACCCAGGGCGAAACTGTCGCTGAAGCGATGGAAGCGGCAAAAGATGCTTTACTGACCGCATTTGATTTTTATTTTGAAGATggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcatctccaccgattttgagaacgacagcgacttccgtcccagccgtgccaggtgctgcctccgattcaggttatgccgctcaattcgctgcgtctatcgcttgctgattacgtgcacctttcccttca                                                                                >  1:40451‑M1/1‑84 (MQ=255)                                                                                                ttGACCCAGGGCGAAACTGTCGCTGAAGCGATGGAAGCGGCAAAAGATGCTTTACTGACCGCATTTGATTTTTATTTTGAAGATggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgacttccgtcccagccgtgccaggtgctgcctcagattcaggttatgccgctcaattcgctgcgtatatcgcttgctgattacgttaagctttcccttca                                                                                >  1:19426‑M1/1‑84 (MQ=255)                                                                                                 tGACCCAGGGCGAAACTGTCGCTGAAGCGATGGAAGCGGCAAAAGATGCTTTACTGACCGCATTTGATTTTTATTTTGAAGATggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgacttccgtcccagccgtgccaggtgctgcctcagattcaggttatgccgctcaattcgctgcgtatatcgcttcttgattacgtccatctttcccttc                                                                                 >  2:363748‑M1/1‑83 (MQ=255)                                                                                                        gggCGAAACTGTCGCTGAAGCGATGGAAGCGGCAAAAGATGCTTTACTGACCGCATTTGATTTTTATTTTGAAGATggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgacttccgtcccagccgtgccaggtgct                                                                                                                                                        >  1:50326‑M1/1‑76 (MQ=255)                                                                                                        gggCGAAACTGTCGCTGAAGCGATGGAAGCGGCAAAAGATGCTTTACTGACCGCATTTGATTTTTATTTTGAAGATggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgac                                                                                                                                                                                                                         >  1:232278‑M1/1‑76 (MQ=255)                                                                                                          cagaagccactggagcacctcaaaaacaccatcatacactaaatcagtaagttggcagcatcaccTTTGAAGATAACGAGCTTATCCCTTTACCTTCGCCATTAAATAGTCACg                                                                                                                                                                                                                                       >  1:404875‑M2/66‑114 (MQ=255)                                                                                                            gAAACTGTCGCTGAAGCGATGGAAGCGGCAAAAGATGCTTTACTGACCGCATTTGATTTTTATTTTGAAGATggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgacttccgtcccagccgtgccaggtgctgcct                                                                                                                                                    <  2:50326‑M1/195‑124 (MQ=255)                                                                                                            gAAACTGTCGCTGAAGCGATGGAAGCGGCAAAAGATGCTTTACTGACCGCATTTGATTTTTATTTTGAAGATggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttg                                                                                                                                                                                                                     <  2:232275‑M1/130‑59 (MQ=255)                                                                                                             aaaCTGTCGCTGAAGCGATGGAAGCGGCAAAAGATGCTTTACTGACCGCATTTGATTTTTATTTTGAAGATggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgacttccgtcccagccgtgccagg                                                                                                                                                            >  1:40540‑M1/1‑71 (MQ=255)                                                                                                              agccactggagcacctcaaaaacaccatcatacactaaatcagtaagttggcagcatcaccTTTGAAGATAACGAGCTTATCCCTTTACCTTCGCCATTAAATAGTCACGATCa                                                                                                                                                                                                                                   <  2:404866‑M2/53‑1 (MQ=255)                                                                                                                 tGTCGCTGAAGCGATGGAAGCGGCAAAAGATGCTTTACTGACCGCATTTGATTTTTATTTTGAAGATggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgacttccgtcccagccgtgccaggtgct                                                                                                                                                        <  2:40540‑M1/186‑120 (MQ=255)                                                                                                                  gTCGCTGAAGCGATGGAAGCGGCAAAAGATGCTTTACTGACCGCATTTGATTTTTATTTTGTAGATggtaatgactccaacatattgat                                                                                                                                                                                                                                                        <  2:100674‑M1/89‑24 (MQ=255)                                                                                                                                       gCAAAAGATGCTTTACTGACCGCATTTGATTTTTATTTTGAAGATggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgacttccgtcccagccgtgccaggtgctgcctca                                                                                                                                                  >  1:126895‑M1/1‑45 (MQ=255)                                                                                                                                           aaGATGCTTTACTGACCGCATTTGATTTTTATTTTGAAGATggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgacttccgtcccagccgtgccaggtgctgcctcagatt                                                                                                                                              <  2:126894‑M1/170‑130 (MQ=255)                                                                                                                                                   ttACTGACCGCATTTGATTTTTATTTTGAAGATggtaatgactccaacttattgatagtgtttta                                                                                                                                                                                                                                               >  1:316883‑M1/1‑33 (MQ=255)                                                                                                                                                   aatcagtaagttggcagcatcaccTTTGAAGATAACGAGCTTATCCCTTTACCTTCGCCATTAAATAGTCACGATCACTTTATTGAAGTACCTTTGAGCGTCGCCTCTAAGGTATTGCTGTTAAATGCTTTTTTACAGTCAGAAATCACTCAGCaa                                                                                                                                                    >  2:292478‑M2/25‑156 (MQ=255)                                                                                                                                                    tACTGACCGCATTTGATTTTTATTTTGAAGATggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgacttccgtcccagccgtgccaggtgctgcctcagattcaggttatgccgctcaattcgctgcgtatatcgcttgctgattacgtgcagctttcccttcaggcgggattcatacagcggccagccatccgtcatccatatcaccacgtcaa                             <  1:153126‑M1/274‑243 (MQ=255)                                                                                                                                                      tttcnnnnttttgatttttntTTTGGAAATggtaatgatcccacctttgtgttgtttttttttgttcagataatgcccgatgactttgtcatgcagctccacccattttgagaacgacagcgacttccgtcccagccgtgccaggtgctgcctcagattcaggttatgccgctcaattcgctgcgtatatcgcttgctgattacgtgcagctttcccttcaggcgggattcatacagcggccagccatccgtcatccatatcaccacgt                                <  2:19426‑M1/260‑240 (MQ=255)                                                                                                                                                       tGACCGCATTTGATTTTTATTTTGAAGATggtaatgactccaacttattgatagtgttttatgtt                                                                                                                                                                                                                                           <  2:316878‑M1/65‑37 (MQ=255)                                                                                                                                                       agtaagttggcagcatcaccTTTGAAGATAACGAGCTTATCCCTTTACCTTCGCCATTAAATAGTCACGATCACTTTATTGAAGTACCTTTGAGCGTCGCCTCTAAGGTATTGCTGTTAAATGCTTTTTTACAGTCAGAAATCACTCAGCAAGAGt                                                                                                                                                <  1:292482‑M2/136‑1 (MQ=255)                                                                                                                                                             ttggcagcatcaccTTTGAAGATAACGAGCTTATCCCTTTACCTTCGCCATTAAATAGTCACGATCACTTTATTGAAGTACCTTTGAGCGTCGCCTCTAAGGTATTGCTGTTAAATGCTTTTTTACAGTCAGAAATCACTCAGCAAGAGTTAGCCAGGCGAATTGGCAAACCTAAAc                                                                                                                     >  1:453036‑M2/15‑177 (MQ=255)                                                                                                                                                               ggcagcatcaccTTTGAAGATAACGAGCTTATCCCTTTACCTTCGCCATTAAATAGTCACGATCACTTTATTGAAGTACCTTTGAGCGTCGCCTCTAAGGTATTGCTGTTAAATGCTTTTTTACAGTCAGAAATCACTCAGCAAGAGTTAGCCAGGCGAATTGACAAACCTAAACAGGAGATTNCTCGCCTATTTAACTTGCATCATGCGACAAAAATCGACGCCGTCCAGCTCGCGGCAAAGGCGCTTGGAAAAGAGTTAACGCTGGTGATgg                  >  1:398444‑M2/13‑274 (MQ=255)                                                                                                                                                                 cagcatcaccTTTGAAGATAACGAGCTTATCCCTTTACCTTCGCCATTAAATAGTCACGATCACTTTATTGAAGTACCTTTGAGCGTCGCCTCTAAGGTATTGCTGTTAAATGCTTTTTTACAGTCAGAAATCACTCAGCAAGAGTTAGCCAGGCGAATTGGCAAACCTAAACAGga                                                                                                                 <  2:453027‑M2/167‑1 (MQ=255)                                                                                                                                                                              gAAGATAACGAGCTTATCCCTTTACCTTCGCCATTAAATAGTCACGATCACTTTATTGAAGTACCTTTGAGCGTCGCCTCTAAGGTATTGCTGTTAAATGCTTTTTTACAGTCAGAAATCACTCAGCAAGAGTTAGCCAGGCGAATTGGCAAACCTAAACAGGAGATTACTCGCCTATTTAACTTGCATCATGCGACAAAAATCGACGCCGTCCAGCTCGCGGCAAAGGCGCTTGGCAAAGAGTTATCGCTGGTGATGGTTTAATTACAGTTAAc  >  1:39927/1‑275 (MQ=255)                                                                                                                                                                                   |                                                                                                                                                                                                                                                                              TGCGAGAGACAGTCGAAATTATGCGTTATCCCGTCACTCTTACACCCGCGCCGGAAGGCGGTTATATGGTTTCTTTTGTGGATATCCCTGAAGCGTTGACCCAGGGCGAAACTGTCGCTGAAGCGATGGAAGCGGCAAAAGATGCTTTACTGACCGCATTTGATTTTTATTTTGAAGATAACGAGCTTATCCCTTTACCTTCGCCATTAAATAGTCACGATCACTTTATTGAAGTACCTTTGAGCGTCGCCTCTAAGGTATTGCTGTTAAATGCTTTTTTACAGTCAGAAATCACTCAGCAAGAGTTAGCCAGGCGAATTGGCAAACCTAAACAGGAGATTACTCGCCTATTTAACTTGCATCATGCGACAAAAATCGACGCCGTCCAGCTCGCGGCAAAGGCGCTTGGCAAAGAGTTATCGCTGGTGATGGTTTAATTACAGTTAAC  >  CP009273/1503745‑1504192

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ 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.