New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	275525 =	25 (0.650)	5 (0.130)	5/308	NT	23.5%	noncoding (117/768 nt)	IS1	repeat region
	?	CP009273	= 3576990	8 (0.210)					coding (148/276 nt)	insA	IS1 repressor TnpA

AAGAACGGTTAGTGATCGGGGATTATAGCATTTCAATATTTACTTATGACATTAAAGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCGCTATCTCTGCTCTCACTGCCGTAAAACATGGCAACTGCAGTTCACTTACACCGCTTCTCAACCCGGTACGCACCAGAAAATCATTGATATGGCCATGAATGGCGTTGGATGCCGGGCAACAGCCCGCATTATGGGCGTTGGCCTCAACACGATTTTACGTCACTTAAAAAACTCAGGCCGCAGTCGGTAACCTCGCGCATACAGCCGGGCAGTGACGTCATCGTCTGCGCGGAAATGGACGAACAGTGGGGCTATGTCGGGGCTAAATCGC  >  CP009273/3576732‑3577199                                                                                                                                                                                                                                                                   |                                                                                                                                                                                                                  aaaaagggTTAGAGGGCGGGGTTTATTGAATTTAAATTTTTATTTATGCCTTTAAAGGTGATGCTGCAAACTTACTGTTTTAGTGGATGTGGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTGTCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCGCTATCTCTGCTCTCACTGCCGTAAAACATGGCAACTGCAGTTCACTTACACCGCTTCGCAACCCGGTACGCACCAGaa                                                                                                                                                                                                   <  2:351110/269‑1 (MQ=11)             tGATCGGGGATTATAGCATTTCAATATTTACTTATGACATTAAAGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGGNGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCGCTATCTCTGCTCTCACTGCCGTAAAACATGGCAACTGCAGTTCACTTACACCGCTTCTCACCCCGGTACGCAGCAGAAAATCATTGata                                                                                                                                                                                        <  1:536455/274‑1 (MQ=255)                                   aaTATTTACTTATGACATTAAAGGTGATGCTGCCAACTTACTGATTTACTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCGCTATCTCTGCTCTCACTGCCGTAAAACATGGCAACTGCAGTTCACTTACACCGCTTCTCAACc                                                                                                                                                                                                                  >  1:386401‑M2/1‑225 (MQ=255)                                            ttATGACATTAAAGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCGCTATCTCTGCTCTCACTGCCGTAAAACATGGCAACTGCAGTTCACTTACACCGCTTCTCAACCCGGTACGCACCAGAAAATCATTGATATGGCCATGAATGGCGTTGGATGCCGGGCAACa                                                                                                                                                        <  1:346073/275‑1 (MQ=34)                                               tGACATTAAAGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCGCTATCTCTGCTCTCACTGCCGTAAAACATGGCAACTGCAGTTCACTTACACCGCTTCTCAACCCGGTACGCACCAGAAAATCATTGATATGGCCATGAATGGCGTTGGATGCCGGGCAACAGcc                                                                                                                                                     >  1:419683/1‑275 (MQ=33)                                                agagaaaaaGGTGTTCATGCCAAATTCCTGTTTTTGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTTTCCGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCGCTATCTCTGCTCTCACTGCCGTAAAACATGGCAACTGCAGTTCACTTACACCGCTTCTCAACCCGGTACGCACCAGAAAATCATTGATATGGCCATGAATGGCGTTGGATGCCGGGCAACAGcc                                                                                                                                                     <  2:585574/268‑1 (MQ=11)                                                                         tattgttttAGTGTATGTTGGTTTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGGCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCGCTATCTCTGCTCTCACTGCCGTAAAACATGGCAACTGCAGTTCACTTACACCGCTTCTCAACCCGGTACGCACCAGAAAATCATTGATATGGCCATGAATGGCGTTGGATGCCGGGCAACAGCCCGCATTATGGGCGTTGGCCTCAaca                                                                                                                            <  1:227215/268‑1 (MQ=0)                                                                                    ggtttgttgGTGTTTTTGAGGTGGTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTACTGTTCAGCTACTGACGGGGTGGTGNGTAACGGCNAAAGCACCGCCGTACATCAGCGCTATCTCTGCTCTCACTGCCGTAAAACATGGCAACTGCAGTTCACTTACACCGCTTCTCAACCCGGTACGCACCAGAAAATCATTGATATGGCCATGAATGGCGTTGGATGCCGGGCAACAGCCCGCATTATGGTCGTTGGCCTCAACACGATTTTACGTc                                                                                                                <  1:475754/268‑1 (MQ=0)                                                                                                                                       tCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCGCTATCTCTGCTCTCACTGCCGTAAAACATGGCAACTGCAGTTCACTTACACCGCTTCTCAACccg                                                                                                                                                                                                                <  2:595822‑M2/128‑4 (MQ=255)                                                                                                                                                                                           ggACATCAGCGCTATCTCTGCTCTCACTGCCGTAAAACATGGCAACTGCAGTTCACTTACACCGCTTCTCAACc                                                                                                                                                                                                                  >  1:366241‑M2/1‑73 (MQ=255)                                                                                                                                                                                              cATCAGCGCTATCTCTGCTCTCACTGCCGTAAAACATGGCAACTGCAGTTCACTTACACCGCTTCTCAACccgttacgcaccaccccgtcagtagctgaacaggagggacagctgataga                                                                                                                                                                 <  1:704808‑M2/120‑51 (MQ=255)                                                                                                                                                                                                  aGCGCTATCTCTGCTCTCACTGCCGTAAAACATGGCAACTGCAGTTCACTTACACCGCTTCTCAACccgttacgcaccaccccgtcagtagctgaacaggagggacagctgatagaaaca                                                                                                                                                             >  2:704798‑M2/1‑66 (MQ=255)                                                                                                                                                                                                   gcgcTATCTCTGCTCTCACTGCCGTAAAACATGGCAACTGCAGTTCACTTACACCGCTTCTCAACccgttacgcaccaccccgtcagtagctgaacaggagggccagctgatagaaacagaagccactggagcacctcaaaaacaccatcata                                                                                                                           <  2:632626‑M2/153‑89 (MQ=255)                                                                                                                                                                                                       tATCTCTGCTCTCACTGCCGTAAAACATGGCAACTGCAGTTCACTTACACCGCTTTTG‑‑cgtgccgcaccaccccgtcagtagctgaacaggagggac                                                                                                                                                                             >  1:438499‑M2/1‑59 (MQ=255)                                                                                                                                                                                                       tATCTCTGCTCTCACTGCCGTAAAACATGGCAACTGCAGTTCACTTACACCGCTTCTCAACccgttacgcaccaccccgtcagtagctgaacaggagggacagctgatagaaacagaagccactggagcacctcaaaaacaccatcatacact                                                                                                                       >  1:632635‑M2/1‑61 (MQ=255)                                                                                                                                                                                                                                     ttacggCAGTTCACTTACACCGCTTCTCAACCCGGTACGCACCAGAAAATCATTGATATGGCCATGAATGGCGTTGGATGCCGGGCAACAGCCCGCATTATGGGCGTTGGCCTCAACACGATTTTACGTCACTTAAAAAACTCAGGCCGCAGTCGGTAACCTCGCGCATACAGCCGGGCAGTGACGTCATCGTCTGCGCGGAAATGGACGAACAGTGGGGCTATGTCGGGGCTAAATcgc  >  1:478194/6‑240 (MQ=1)                                                                                                                                                                                                                                                                   |                                                                                                                                                                                                                  AAGAACGGTTAGTGATCGGGGATTATAGCATTTCAATATTTACTTATGACATTAAAGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCGCTATCTCTGCTCTCACTGCCGTAAAACATGGCAACTGCAGTTCACTTACACCGCTTCTCAACCCGGTACGCACCAGAAAATCATTGATATGGCCATGAATGGCGTTGGATGCCGGGCAACAGCCCGCATTATGGGCGTTGGCCTCAACACGATTTTACGTCACTTAAAAAACTCAGGCCGCAGTCGGTAACCTCGCGCATACAGCCGGGCAGTGACGTCATCGTCTGCGCGGAAATGGACGAACAGTGGGGCTATGTCGGGGCTAAATCGC  >  CP009273/3576732‑3577199

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 35 ≤ 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.