New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_007779	2411459 =	NA (NA)	20 (0.050)	18/178	NT	4.2%	intergenic (‑148/+14)	lrhA/insB	DNA‑binding transcriptional repressor/IS1 element protein
	?	NC_007779	2941509 =	466 (1.070)					intergenic (‑286/+65)	gcvA/ygdI	DNA‑binding transcriptional dual regulator/hypothetical protein

GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACc‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_007779/2411558‑2411459 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CTGTCCATAGTGATTAATGTAGCACCGCCTAATTGCGGTGCTTTTTTTTACCTTGCGATCGCGAATTACTGATCCAGTTCGACCATCTCTTTCACGTCAGT  >  NC_007779/2941509‑2941609                                                                                                                                                                                                           GACGGAAGTCTCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      <  1:20528904/101‑1 GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      <  1:17127407/101‑1 GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      >  1:18631717/1‑101 GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      <  1:18758289/101‑1 GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      <  1:1903340/101‑1 GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      <  1:20380962/101‑1 GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      <  1:21769431/101‑1 GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      <  1:2385596/101‑1 GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      <  1:2829334/101‑1 GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      >  1:3118677/1‑101 GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      >  1:4004525/1‑101 GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      <  1:6610642/101‑1 GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      >  1:6853927/1‑101 GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      >  1:6894335/1‑101 GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      <  1:7278487/101‑1 GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      <  1:9284837/101‑1 GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      >  1:96952/1‑101 GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      >  1:9717979/1‑101 GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      <  1:9874938/101‑1 GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      <  1:1005360/101‑1 GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      <  1:11369962/101‑1 GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      <  1:1212836/101‑1 GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      <  1:13324367/101‑1 GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      <  1:13982028/101‑1 GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      <  1:16013780/101‑1 GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      <  1:1586639/101‑1 GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      <  1:15148627/101‑1 GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGAGCATTATCTGAACATAAAACACTCTCAATAAGTTGGAGTCATTACC                                                                                                      >  1:14803506/1‑101 GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATAACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      <  1:21528782/101‑1 GACGGAAGTCGCTCTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC                                                                                                      <  1:14442123/101‑1               TCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTGTCCATAGTGATT                                                                                        <  1:18446142/101‑1                  TTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTGTCCATAGTGATTAAT                                                                                     >  1:21890274/1‑101                         AATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTGTCCATAGTGATTAATGTAGCAC                                                                              >  1:3855286/1‑101                                  AGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTGTCCATAGTGATTAATGTAGCACCGCCTAATT                                                                     <  1:15246070/101‑1                                     TGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTGTCCATAGTGATTAATGTAGCACCGCCTAATTGCG                                                                  >  1:10888165/1‑101                                      GCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTGTCCATAGTGATTAATGTAGCACCGCCTAATTGCag                                                                 >  1:4998587/1‑99                                        ATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTGTCCATAGTGATTAATGTAGCACCGCCTAATTGCGGTG                                                               >  1:16991576/1‑101                                        ATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTGTCCATAGTGATTAATGTAGCACCGCCTAATTGCGGTG                                                               >  1:13346163/1‑101                                             AAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTGTCCATAGTGATTAATGTAGCACCGCCTAATTGCGGTGCTTTT                                                          <  1:12723980/101‑1                                                 TCATCGTGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTGTCCATAGTGATTAATGTAGCACCGCCTAATTGCGGTGCTTTTTTTT                                                      >  1:13020209/1‑101                                                            TATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTGTCCATAGTGATTAATGTAGCACCGCCTAATTGCGGTGCTTTTTTTTACCTTGCGATC                                           <  1:1851250/101‑1                                                             ATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTGTCCATAGTGATTAATGTAGCACCGCCTAATTGCGGTGCTTTTTTTTACCTTGCGATCG                                          <  1:20235138/101‑1                                                              TCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCTGTCCATAGTGATTAATGTAGCACCGCCTAATTGCGGTGCTTTTTTTTACCTTGCGATCGC                                         >  1:2310663/1‑101                                                                 GAACATAAAACACTATCAATAAGTTGGAGTCATTACCTGTCCATAGTGATTAATGTAGCACCGCCTAATTGCGGTGCTTTTTTTTACCTTGCGATCGCGAA                                      <  1:2535464/101‑1                                                                  AACATAAAACACTATCAATAAGTTGGAGTCATTACCTGTCCATAGTGATTAATGTAGCACCGCCTAATTGCGGTGCTTTTTTTTACCTTGCGATCGCGAAT                                     <  1:18486064/101‑1                                                                   ACATAAAACACTATCAATAAGTTGGAGTCATTACCTGTCCATAGTGATTAATGTAGCACCGCCTAATTGCGGTGCTTTTTTTTACCTTGCGATCGCGAATT                                    >  1:18892933/1‑101                                                                        AAACACTATCAATAAGTTGGAGTCATTACCTGTCCATAGTGATTAATGTAGCACCGCCTAATTGCGGTGCTTTTTTTTACCTTGCGATCGCGAATTACTGA                               <  1:16977619/101‑1                                                                                    TAAGTTGGAGTCATTACCTGTCCATAGTGATTAATGTAGCACCGCCTAATTGCGGTGCTTTTTTTTACCTTGCGATCGCGAATTACTGATCCAGTTCGACC                   <  1:21839880/101‑1                                                                                              TCATTACCTGTCCATAGTGATTAATGTAGCACCGCCTAATTGCGGTGCTTTTTTTTACCTTGCGATCGCGAATTACTGATCCAGTTCGACCATCTCTTTCA         >  1:4523527/1‑101                                                                                              TCATTACCTGTCCATAGTGATTAATGTAGCACCACCTAATTGCGGTGCTTTTTTTTACCTTGCGATCGCGAATTACTGATCCAGTTCGACCATCTCTTTCA         >  1:7426371/1‑101                                                                                                   ggCTGTCCATAGTGATTAATATAGCACCGCCTAATTGCGGTGCTTTTTTTTACCTTGCGATCGCGAATTACTGATCCAGTTCGACCATCTCTTTCACGTCA    <  1:18099104/99‑1                                                                                                     CTGTCCATAGTGATTAATGTAGCACCGCCTAATTGCGGTGCTTTTTTTTACCTTGCGATCGCGAATTACTGATCCAGTTCGACCATCTCTTTCACGTCAGT  >  1:15382003/1‑101                                                                                                     CTGTCCATAGTGATTAATGTAGCACCGCCTAATTGCGGTGCTTTTTTTTACCTTGCGATCGCGAATTACTGATCCAGTTCGACCATCTCTTTCACGTCAGT  >  1:21817920/1‑101                                                                                                     CTGTCCATAGTGATTAATGTAGCACCGCCTAATTGCGGTGCTTTTTTTTACCTTGCGATCGCGAATTACTGATCCAGTTCGACCATCTCTTTCACGTCAGT  <  1:11512930/101‑1                                                                                                     CTGTCCATAGTGATTAATGTAGCACCGCCTAATTGCGGTGCTTTTTTTTACCTTGCGATCGCGAATTACTGATCCAGTTCGACCATCTCTTTCACGTCAGT  <  1:10222564/101‑1                                                                                                     CTGTCCATAGTGATTAATGTAGCACCGCCTAATTGCGGTGCTTTTTTTTACCTTGCGATCGCGAATTACTGATCCAGTTCGACCATCTCTTTCACATCAGT  >  1:19272683/1‑101                                                                                                                                                                                                           GACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACc‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_007779/2411558‑2411459 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CTGTCCATAGTGATTAATGTAGCACCGCCTAATTGCGGTGCTTTTTTTTACCTTGCGATCGCGAATTACTGATCCAGTTCGACCATCTCTTTCACGTCAGT  >  NC_007779/2941509‑2941609

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ 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.