| New junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | USA300TCH1516_ALE | = 2383757 | 162 (0.800) | 13 (0.080) | 7/136 | NT | 8.1% | intergenic (‑76/+41) | swrC/femX | Swarming motility protein SwrC/Lipid II:glycine glycyltransferase |
| ? | USA300TCH1516_ALE | = 2383774 | 159 (0.920) | intergenic (‑93/+24) | swrC/femX | Swarming motility protein SwrC/Lipid II:glycine glycyltransferase | |||||
GAAAATTGTAATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAATCTGAACGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ > USA300TCH1516_ALE/2383656‑2383757‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑aaatctgaacgcTCATAAGACTGTCATTTGCGTTCAGATTTTTTTACACAATATAGAATGGTTGAGTAAAATATTTTTGAATATAGTGAAAGAGGGGGAAGT < USA300TCH1516_ALE/2383774‑2383685 GAAGATTGTAATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAA < 2:1127407/91‑1GAAAATTGTAATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAA < 1:3283368/91‑1GAAAATTGTAATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAA < 2:2797544/91‑1GAAAATTGTAATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAA < 2:1833503/91‑1GAAAATTGTAATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAA < 1:1663190/91‑1GAAAATTGTAATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAA < 1:2214838/91‑1GAAAATTGTAATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATACAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAA < 2:1920496/91‑1 AAAATTGTAATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATAGTGTAAAAAA < 2:2117623/91‑1 AAATTGTAATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAA > 1:1269083/1‑91 AATTGTAATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATCTTCAAAAATATTTTACTCAACCCTTCTATATTGTGTAAAAAAAT > 2:1147812/1‑91 AATTGTAATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTCTATTGTGTAAAAAAAT > 2:376937/1‑91 AATTGTAATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAAT > 1:3218334/1‑91 AATTGTAATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAAT > 1:2185581/1‑91 ATTGTAATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAATC > 1:2090883/1‑91 ATTGTAATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAATC > 2:1668220/1‑91 TTGTAATAGCTTTTTTATCACATTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAATCT > 2:782103/1‑91 TTGTAATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAACAAAATCT > 1:1984710/1‑91 TTGTAATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAACAAAATCT > 1:1984680/1‑91 TTGTAATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAATCT < 2:2092112/91‑1 TTGTAATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAATCT < 1:1872579/91‑1 TTGTAATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAATCT < 1:1350934/91‑1 TTGTAATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATTCAAAAAGATTTTACTCAACCATTCTATATTGTGTAAAAAAATCT < 1:711516/91‑1 TGTAATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAATCTG < 1:216157/91‑1 TGTAATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTAAAATGAGTAAAAAAATCTG < 2:3379204/91‑1 GTAATAGCTTTTTTATTTTAGTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAATCTGA > 2:956273/1‑91 GTAATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAATCTGA > 2:2539364/1‑91 GTAATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAATCTGA > 2:3177304/1‑91 AATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAATCTGAAC > 2:2017838/1‑91 ATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAATCTGAACG > 2:474911/1‑91 TAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAATCTGAACGC < 2:653520/91‑1 GTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAATCTGAACGCTCATAAGACTGTCATT < 2:2973057/91‑1 GTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAATCTGAACGCTCATAAGACTGTCATT < 2:190342/91‑1 TACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAATCTGAACGCTCATAAGACTGTCATTT < 2:3155970/91‑1 TACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAATCTGAACGCTCATAAGACTGTCATTT < 1:2886923/91‑1 TACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAATCTGAACGCTCATAAGACTGTCATTT < 1:1273330/91‑1 TACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAATCTGAACGCTCATAAGACTGTCATTT < 2:976572/91‑1 ACTTCCCCCACTTTAACTATATTCAAAATTATTTTACACAACCATTCTATATTGTGTAAAAAAATCTGAACGCTCATAAGACTGTCATTTG < 1:2780742/91‑1 CTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAATCTGAACGCTCATAAGACTGTCATTTGC < 2:601291/91‑1 CTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAATCTGAACGCTCATAAGACTGTCATTTGC < 2:601832/91‑1 CCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAATCTGAACGCTCATAAGACTGTCATTTGCGTT < 1:2576747/91‑1 CCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAATCTGAACGCTCATAAGACTGTCATTTGCGTTCAG < 2:2902405/91‑1 CTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAATCTGAACGCTCATAAGACTGTCATTTGCGTTCAGA < 2:2979206/91‑1 CTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAATCTGAACGCTCATAAGACTGTCATTTGCGTTCAGA < 2:2979156/91‑1 ATCTGAACGCTCATAAGACTGTCATTTGCGTTCAGATTTTTTTACACAATATAGAATGGTTGAGTAAAATATTTTTGAATATAGTGAAAGA > 2:1357800/1‑91 ATCTGAACGCTCATAAGACTGTCATTTGCGTTCAGATTTTTTTACACAATATAGAATGGTTGAGTAAAATATTTTTGAATATAGTGAAAGA > 1:2110632/1‑91 ATCTGAACGCTCATAAGACTGTCATTTGCGTTCAGATTTTTTTACACAATATAGAATGGTTGAGTAAAATATTTTTGAATATAGTGAAAGA > 1:2521680/1‑91 ATCTGAACGCTCATAAGACTGTCATTTGCGTTAAGAATTTTTTACACAATACAGAATGGTTGAGTAAAATATTATCGAAACTAGTGAAAGA > 2:211289/1‑91 CTGAACGCTCATAAGACTGTCATTTGCGTTCAGATTTTTTTACACAATATAGAATGGTTGAGTAAAATATTTTTGAATATAGTGAAAGAGG < 2:1784854/91‑1 TGAACGCTCATAAGACTGTCATTTGCGTTCAGATTTTTTTACACAATATAGAATGGTTGAGTAAAATATTTTTGAATATAGTGAAAGAGGG < 2:227445/91‑1 TGAACGCTCATAAGACTGTCATTTGCGTTCAGATTTTTTTACACAATATAGAATGGTTGAGTAAAATATTTTTGAATATAGTGAAAGAGGG > 1:3859501/1‑91 GAACGCTCATAAGACTGTCATTTGCGTTCAGATTTTTTTACACAATATAGAATGGTTGAGTAAAATATTTTTGAATATAGTGAAAGAGGGG > 1:1243668/1‑91 GAACGCTCATAAGACTGTCATTTGCGTTCAGATTTTTTTACACAATATAGAATGGTTGAGTAAAATATTTTTGAATATAGTGAAAGAGGGG > 1:1243728/1‑91 GAACGCTCATAAGACTGTCATTTGCGTTCAGATTTTTTTACACAATATAGAATGGTTGAGTAAAATATTTTTGAATATAGTGAAAGAGGGG > 1:1243739/1‑91 GAACGCTCATAAGACTGTCATTTGCGTTCAGATTTTTTTACACAATATAGAATGGTTGAGTAAAATATTTTTGAATATAGTGAAAGAGGGG < 1:590025/91‑1 GAACGCTCATAAGACTGTCATTTGCGTTCAGATTTTTTTACACAATATAGAATGGTTGAGTAAAATATTTTTGAATATAGTGAAAGAGGGG < 2:1156271/91‑1 GAACGCTCATAAGACTGTCATTTGCGTTCAGATTTTTTTACACAATATAGAATGGTTGAGTAAAATATTTTTGAATATAGTGAAAGAGGGG < 1:1064978/91‑1 GAACGCTCATAAGACTGTCATTTGCGTTCAGATTTTTTTACACAATATAGAATGGTTGAGTAAAATATTTTTGAAAATAGTGAAAGAGGGG > 2:159781/1‑91 AACGCTCATAAGACTGTCATTTGCGTTCAGATTTTTTTACACAATATAGAATGGTTGAGTAAAATATTTTTGAATATAGTGAAAGAGGGGG > 2:3232968/1‑91 AACGCTCATAAGACTGTCATTTGCGTTCAGATTTTTTTACACAATATAGAATGGTTGAGTAAAATATTTTTGAATATAGTGAAAGAGGGGG > 2:3233963/1‑91 ACGCTCATAAGAGTGTCATTTGCGTTCAGGTTTTTTTACACAATATAGAATGGTTGAGTAAAATAGTTTTGAATATAGTGAAAGAGGGGGA < 2:1355105/91‑1 ACGCTCATAAGACTGTCATTTGCGTTCAGATTTTTTTACACAATATAGAATGGTTGAGTAAAATATTTTTGAATATAGTGAAAGAGGGGGA < 1:2580177/91‑1 ACGCTCATAAGACTGTCATTTGCGTTCAGATTTTTTTACACAATATAGAATGGTTGAGTAAAATATTTTTGAATATAGTGAAAGAGGGGGA < 1:2579555/91‑1 CGCTCATAAGACTGTCATTTGCGTTCAGATTTTTTTACACAATATAGAATGGTTGAGTAAAATATTTTTGAATATAGTGAAAGAGGGGGAA > 2:1334346/1‑91 CGCTCATAAGACTGTCATTTGCGTTCAGATTTTTTTACACAATATAGAATGGTTGAGTAAAATATTTTTGAATATAGTGAAAGAGGGGGAA < 1:2845797/91‑1 CGCTCATAAGACTGTCATTTGCGTTCAGATTTTTTTACACAATATAGAATGGTTGAGTAAAATATTTTTGAATATAGTGAAAGAGGGGGAA > 1:2005067/1‑91 GCTCATAAGACTGTCATTTGCGTTTAGATTTTTTTACAGAAGATAGAAATGTTGAGTAAAATATTTTTGAATATAGTGAGAGAGGGGGAAG < 2:2313295/91‑1 GCTCATAAGACTGTCATTTGCGTTCAGATTTTTTTACACAATATAGAATGGTTGAGTAAAATATTTTTGAATATAGTGAAAGAGGGGGAAG > 2:1732526/1‑91 GCTCATAAGACTGGCAGTTGCGTTCAGATTTTTTTACACAATAGATAATGGTTGAGTAAAATATTTTTGAATATAGTGAAAGGGGGGGAAG < 2:2313261/91‑1 CTCATAAGACTGTCATTTGCGTTCAGATTTTTTTACACAATATAGAATGGTTGAGTAAAATATTTTTGAATATAGTGAAAGAGGGGGAAGT < 2:1193012/91‑1 CTCATAAGACTGTCATTTGCGTTCAGATTTTTTTACACAATATAGAATGGTTGAGTAAAATATTTTTGAATATAGTGAAAGAGGGGGAAGT < 2:2009705/91‑1 GAAAATTGTAATAGCTTTTTTATCACAGTACTTCCCCCTCTTTCACTATATTCAAAAATATTTTACTCAACCATTCTATATTGTGTAAAAAAATCTGAACGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ > USA300TCH1516_ALE/2383656‑2383757‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑aaatctgaacgcTCATAAGACTGTCATTTGCGTTCAGATTTTTTTACACAATATAGAATGGTTGAGTAAAATATTTTTGAATATAGTGAAAGAGGGGGAAGT < USA300TCH1516_ALE/2383774‑2383685 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ 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. |