New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	257908 =	NA (NA)	28 (1.400)	25/284	0.0	100%	noncoding (768/768 nt)	IS1	repeat region
	?	NC_000913	= 1293039	0 (0.000)					intergenic (‑117/‑488)	hns/tdk	global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase

AGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATATTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGCCAATAAATATCTTTTCATAAAATTAGCCAGAAAAGACGCGGCATATAGCCCTATTTACACCGATGATTTCGCAGCACGTGAGGTTAAAACTTCCTGATTCATGTCACATTTTATGGGGAGATTATCGTAGGCTGACGACCT  >  NC_000913/1292900‑1293181                                                                                                                                            |                                                                                                                                               aGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATATTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTCCCGggt                                                                                                                                             <  2:339994‑M2/143‑4 (MQ=255) aGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATAATGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATACCCCGGAATGTAAGGAATTCACAATTGTCCTTGACTCTGTGCCGggt                                                                                                                                             <  2:142576‑M2/143‑4 (MQ=255) aGAATTTTAAGTGATTCGCTCATTGTAAAAATATCAAACTTATATTGGGGTGGTTTGTTAAGATAATAATACAGCCTTAAATTCAGTGGTGCAATAGCCAGAAATGTAAGGAAATAAAAATTGTCGTATATTTTAGgccggta                                                                                                                                             >  2:118903/1‑140 (MQ=255)  gAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATATTGGGGTGGTTTGTTGAGGTAATAATAGAGACTTAAATTCAGTTGTGAAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggta                                                                                                                                            <  1:103917‑M2/143‑5 (MQ=255)              cTTCGCTCATTGTAGTAATCTCAAACTTATATTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaact                                                                                                                                <  1:238584‑M2/143‑17 (MQ=255)               ttCGCTCATTGTAGTAATCTCAAACTTATATTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGagtaatgactccaactt                                                                                                                               <  1:317811‑M2/143‑18 (MQ=255)                  gCTCATTGTAGTAATCTCAAACTTATATTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTATATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttatt                                                                                                                            >  1:88499‑M2/1‑123 (MQ=255)                   ttcATTTTAGTTATCTTAATCTTATTTTGGGGTGGTTTGTTTATTTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattg                                                                                                                           >  1:209405‑M2/2‑122 (MQ=255)                              attctcaaATTGTTTTTTGGGTTGTTCGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGTACTGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgtttta                                                                                                                >  2:136791‑M2/3‑111 (MQ=255)                                tctcAAACTTATATTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatg                                                                                                              <  1:377661‑M2/143‑35 (MQ=255)                                 ctcAAACTTATATTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTACCGggtaatgaatccaaattattgaaagtgtgttatgt                                                                                                             <  1:249763‑M2/143‑36 (MQ=255)                                                     gtTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgact                                                                                         >  2:238584‑M2/1‑88 (MQ=255)                                                       ttgttgAGGTAATAATAGAGTCTTAAATTCAGTTGTGCATTAGCCAGGAATGTAAGTAATTCAATATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgacttt                                                                                       >  1:218403‑M2/1‑86 (MQ=255)                                                          ttgAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtc                                                                                    <  2:306352‑M2/143‑61 (MQ=255)                                                          ttgAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCATTATTTTGTGCCGggtaatgactccaactaattaatagtgttttacgttcagataatgcccgatgactttctc                                                                                    <  2:183990‑M2/143‑61 (MQ=255)                                                                      taGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAAAGTAAGCAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaactaattgatagtgttttatgatcagataatgcccgatgaccatgtcatgaagctccac                                                                        <  2:104995‑M2/143‑73 (MQ=255)                                                                          gCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgat                                                                    >  1:196090‑M2/1‑67 (MQ=255)                                                                           ccTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatggtagtcaacgatcagataatgcccgatgactttgtcatgcagctccaccgatt                                                                   <  1:81520‑M2/143‑78 (MQ=255)                                                                            cTTAAATTCAATTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattt                                                                  >  2:242911‑M2/1‑65 (MQ=255)                                                                             ttAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAACTTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagagttttatgttcagataatgcccgatgactttgtcatgaagctccaccgatttt                                                                 <  1:213002‑M2/143‑80 (MQ=255)                                                                                   tCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTTTTTTTTGCCTggtaatgactccaactgattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaac                                                           >  1:23940‑M2/1‑58 (MQ=255)                                                                                     ttttgtGCGATAGCCAGGAATGTTAGGTATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttatggatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacga                                                         >  2:50917‑M2/3‑56 (MQ=255)                                                                                           gCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgatttttagaacgacagcga                                                   <  1:316581‑M2/143‑94 (MQ=255)                                                                                                    aGGATTTTAAGTATTTCAAGATTGTTCTTTATTTTGTGCCGggtaatgactccaactgatggatagtgttgtatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgacttccgtcc                                          >  1:64201‑M2/1‑41 (MQ=255)                                                                                                                      aaaTTGTTCTTTATTTTGTGCCGggtaatgactctttcttattgatagttttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgacttccgtcccagccgtgccaggtgctg                        >  1:93788‑M2/1‑23 (MQ=255)                                                                                                                            ttCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgacttccgtcccagccgtgccaggtgctgcctcag                  <  1:45610‑M2/143‑127 (MQ=255)                                                                                                                                          ccGggtaatgactcaaacttatggagagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgacttccgtcccagccgtgccaggtgctgcctcagattcacgttatgcc    <  2:335996‑M2/143‑141 (MQ=255)                                                                                                                                           cGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgtagctccaccgattttgagaacgacagcgacttccgtcccagccgtgcccggtcctgccacagattcaggtcatgcag   <  2:365921‑M2/143‑142 (MQ=255)                                                                                                                                            gggtaatgactccaacttattgatagtgttttatgtccatataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgacttccgtcccagccgtgccaggtgctgcctcagattcaggttatgccgc  >  1:97052‑M2/1‑1 (MQ=255)                                                                                                                                            |                                                                                                                                               AGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATATTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGCCAATAAATATCTTTTCATAAAATTAGCCAGAAAAGACGCGGCATATAGCCCTATTTACACCGATGATTTCGCAGCACGTGAGGTTAAAACTTCCTGATTCATGTCACATTTTATGGGGAGATTATCGTAGGCTGACGACCT  >  NC_000913/1292900‑1293181

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 41 ≤ 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.