| New junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | USA300TCH1516_ALE | 512620 = | 33 (1.080) | 19 (0.920) +TTATCTTGTCCATTTTATTTTTTAACCAAAATTTGATTAAAAAAC |
15/190 | 0.3 | 47.1% | intergenic (+688/‑6075) | recR/speA_2 | Recombination protein RecR/Arginine decarboxylase |
| ? | USA300TCH1516_ALE | 2176447 = | 30 (0.990) | intergenic (+209/+5086) | ilvA/USA300TCH1516_02069 | L‑threonine dehydratase biosynthetic IlvA/tRNA‑Gly | |||||
CTTTACATTTCTCGTTTCGTCAGATTCAAACGTTTTCACTTCGCCAAGCCATCTTTCTTTGTGTTTGCTTTTATTTTGACGTTTTAGACATAAAAAAAGAGACCTTGCGGTCTCAATGCGGCTCATCGCATCCACTTTTTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCACCAGACATATGAATGTAAATTATACATTCA > USA300TCH1516_ALE/2176308‑2176587 | cTTTACATTTCTCGTTTCGTCAGATTCAAACGTTTTCACTTCGCCAAGCCATCTTTCTTTGTGTTTGCTTTTATTTTGACGTTTTAGACATAAAAAAAGAGACCTTGCGGTCTCAATGCGGCTCATCGCATCCACTTTTTg > 2:193300/1‑141 (MQ=255) ttACATTTCTCGTTTCGTCAGATTCAAACGTTTTCACTTCGCCAAGCCATCTTTCTTTGTGTTTGCTTTTATTTTGACGTTTTAGACATAAAAAAAGAGACCTTGCGGTCTCAATGCGGCTCATCGCATCCACTTTTTGcc < 1:344102/141‑1 (MQ=255) ttACATTTCTCGTTTCGTCAGATTCAAACGTTTTCACTTCGCCAAGCCATCTTTCTTTGTGTTTGCTTTTATTTTGACGTTTTAGACATAAAAAAAGAGACCTTGCGGTCTCAATGCGGCTCATCGCATCCACTTTTTGcc < 1:21276/141‑1 (MQ=255) tgacatattgtcattcagttttcaatgttcatttttcttaccgacaagaattaattatacattttatcaacatttaagtcaataactttttttatcttgtccattttattttttaaccaaaatttgattaaacaacTGCCt < 2:237371‑M2/5‑1 (MQ=255) tgacagattgtcattcagttttcaatgttcatttttcttaccgtcaagaattaattatacattttatcaacatttaagtcaataactttttttatcttgtccattttattttttaaccaaaatttgattaaaaaacTGCCt < 2:48733‑M2/5‑1 (MQ=255) acatattgtcattcagttttcaatgttcatttttcttaccgacaagaattaattatacattttatcaacatttaagtcaataactttttttatcttgtccattttattttttaaccaaaatttgattaaaaaacTGCCTgg > 1:78942‑M2/135‑141 (MQ=255) aTTTCTCGTTTCGTCAGATTCAAACGTTTTCACTTCGCCAAGCCATCTTTCTTTGTGTTTGCTTTTATTTTGACGTTTTAGACATAAAAAAAGAGACCTTGCGGTCTCAATGCGGCTCATCGCATCCACTTTTTGCCTGGc < 2:270867/141‑1 (MQ=40) tattgtcattcatttttaaatcttcatttttcttacctacaataattaattatacattttatcaacatttaagtcaataactttttttatcttttccattttattttttaaccaaaatttgattaaaaaacTGCC‑GGCAAc < 2:72015‑M2/10‑1 (MQ=255) tttgtcattccgttttcaatgttcatttttcttaccgacaagaattaattatacattttatcaacatttaagtcaataactttttttatcttgtccattttattttttaaccaaaatttgattaaaaaacTGCCTGGCAAc < 1:131935‑M2/11‑1 (MQ=255) ctcGTTTCGTCAGATTCAAACGTTTTCACTTCGCCAAGCCATCTTTCTTTGTGTTTGCTTTTATTTTGACGTTTTAGACATAAAAAAAGAGACCTTGCGGTCTCAATGCTGCTCATCGCATCCACTTTTTGCCTCGCAACg > 2:222258/1‑141 (MQ=255) ctcGTTTCGTCAGATTCAAACGTTTTCACTTCGCCAAGCCATCTTCCTTTGTGTTTGCTTTTATTTTGACGTTTTACACATATCAAAAGAGCCATTGCCGTCTCAATGCGGCTCATCGCATCAACTTTTTGCCTGGCTACg > 2:142953/1‑141 (MQ=14) cGTTTCGTCAGATTCAAACGTTTTCACTTCGCCAAGCCATCTTTCTTTGTGTTTGCTTTTATTTTGACGTTTTAGACATAAAAAAAGAGACCTTGCGGTCTCAATGCGGCTCATCGCATCCACTTTTTGCCTGGCAACGtt > 1:90144/1‑141 (MQ=39) tcattcagttttcaatgttcatttttcttaccgacaagaattaattatacattttatcaacatttaagtcaataactttttttatcttgtccattttattttttaaccaaaatttgattaaaaaacTGCCTGGCAACGTTc < 1:59173‑M2/15‑1 (MQ=255) gTTTCGTCAGATTCAAACGTTTTCACTTCGCCAAGCCATCTTTCTTTGTGTTTGCTTTTATTTTGACGTTTTAGACATAAAAAAAGAGACCTTGCGGTCTCAATGCGGCTCATCGCATCCACTTTTTGCCTGGCAACGTTc < 2:347225/141‑1 (MQ=39) tttCGTCAGATTCAAACGTTTTCACTTCGCCAAGCCATCTTTCTTTGTGTTTGCTTTTATTTTGACGTTTTAGACATAAAAAAAGAGACCTTGCGGTCTCAATGCGGCTCATCGCATCCACTTTTTGCCTGGCAACGTTCt < 1:215711/141‑1 (MQ=39) tCAGATTCAAACGTTTTCACTTCGCCAAGCCATCTTTCTTTGTGTTTGCTTTTATTTTGACGTTTTAGACATACAAAAAGATACGTTGCTGTCTCAATGCGGCTCATCGCATCCACTTTTTGTAAAGAAACGATCTActct > 1:31094/1‑141 (MQ=14) cAGATTGAAACTTTCTGATTTCTGCAAGCCATCTTTCTTTTTGTTTGCTTTTATTTTGACGTTTTAGACATAAAAAAAGAGACCTTGCGGTCTCAATGCGGCTTATCGCATCCACTTTTTGCCTGGCAACGTTCTACTCTa < 2:303340/141‑1 (MQ=14) tgttcatttttcttaccgacaagaattaattatacattttatcaacatttaagtcaataactttttttatcttgtccattttattttttaaccaaaatttgattaaaaaacTGCCTGGCAACGTTCTACTCTAGCGGAACg < 2:246185‑M2/30‑1 (MQ=255) aCGTTTTCACTTCGCCAAGCCATCTTTCTTTGTGTTTGCTTTTATTTTGACGTTTTAGACATAAAAAAAGAGACCTTGCGGTCTCAATGCGGCTCATCGCATCCACTTTTTGCCTGGCAACGTTCTACTCTAGCGGAACGt < 1:193300/141‑1 (MQ=40) tgaCTCCGCCAAGCCATCTTTCTTTGTGGTTGCTTTTATTTTGACGTTTTAGACATAAAAAAAGAGACCTTGCGGTCTCAATGCGGCTCATCGCATCCACTTTTTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTc < 2:228956/139‑1 (MQ=255) tttcttaccgacaagaattaattatacattttatcaacatttaagtcaataactttttttatcttgtccattttattttttaaccaaaatttgattaaaaaacTGCCTGGCAACGTTATACTCTCGCGAAACGTAagttat > 2:62654‑M2/104‑139 (MQ=255) taccgacaagaattaattatacattttatcaacatttaagtcaataactttttttatcttgtccattttattttttaaccaaaatttgattaaaaaacTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTAc < 1:115556‑M2/43‑1 (MQ=255) aGCCATCTTTCTTTGTGTTTGCTTTTATTTTGACGTTTTAGACATAAAAAAAGAGACCTTGCGGTCTCAATGCGGCTCATCGCATCCACTTTTTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCg < 1:203377/141‑1 (MQ=39) ccATCTTTCTTTGTGTTTGCTTTTATTTTGACGTTTTAGACATAAAAAAAGAGATATTGAGGTCTCAATGCGGCTCATCGCATCCACTTTTTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGaa > 1:206075/1‑140 (MQ=255) aagaatttattatacattttatcaacatttaagtcaataactttttttatcttgtccattttattttttaaccaaaatttgattaaaaaacTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGAc < 2:206553‑M2/50‑1 (MQ=255) agaattaattatacattttatcaacatttaagtcaataactttttttatcttgtccattttattttttaaccaaaatttgattaaaaaacTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACg > 1:328231‑M2/91‑141 (MQ=255) aattatacattttatcaacatttaagtcaataactttttttatcttgtccattttattttttaaccaaaatttgattaaaaaacTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAgg < 2:144325‑M2/57‑1 (MQ=255) tcgtgtTTGCTTTTATTTTGACGTTTTAGACATAAAAAAAGAGACCTTGCGGTCTCAATGCGGCTCATCGCATCCACTTTTTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGc < 1:120195/139‑1 (MQ=37) tacattttatcaacatttaagtcaataactttttttatcttgtccattttattttttaaccaaaatttgattaaaaaacTGCCTCGCCACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCtt > 1:166274‑M2/80‑141 (MQ=255) gCTTTTATTTTGACGTTTTAGACATAAAAAAAGAGACCTTGCGGTCTCAATGCGGCTCATCGCATCCACTTTTTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTc > 1:2442/1‑141 (MQ=34) tcgacatttaagtcaatagcttttttgatctggtccattttatgttttagacaaaatgtgattaaaaaacTGCCTGTCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCtgt < 2:52848‑M2/71‑1 (MQ=255) tccacatttaagtcaataactttttttatcttgtccattttattttttaaccaaaatttgattaaaaaacTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCtgt < 2:204659‑M2/71‑1 (MQ=255) tcaacatttaagtcaataactttttttatcttgtctattttattttttaaccaaaatttgattaaaaaacTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCtgt < 2:132936‑M2/71‑1 (MQ=255) aagatttaagtcaataactttttttatcttgtccattttattttttaaccaaaaattgattaaaaaacTGCCTGGCAAAGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTgtgt < 2:47491‑M2/73‑1 (MQ=255) aTTTTGACGTTTTAGACATAAAAAAAGAGACCTTGCGGTCTCAATGCGGCTCATCGCATCCACTTTTTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGtt > 1:34493/1‑141 (MQ=32) ttttcgcGTTTTAGACATAAAAAAAGAGACCTTGCGGTCTCAATGCGGCTCATCGCATCCACTTTTTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTc < 1:16621/135‑1 (MQ=17) taCGTTTTAGACATAAAAAAAGAGAATTTTTTGTGTCAATGCGGCTCATCGCATCCACTTTTTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCa < 2:264965/140‑1 (MQ=11) gtgcttAGACAGAAACAAGGAGCCCTTGCGGTCTCGATGCGGCTCATCGCATCCACTTTTTGCCTGGCAACGTTCTACTCTAGCGGCACGTAAGTTCTACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATg < 2:151790/137‑1 (MQ=11) gtgattaactttttttattttgtctgttttattttttaaccaaaatttgattaaaaaacTGCCTGGCAATGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATgg < 2:152851‑M2/82‑1 (MQ=255) ttttAGATATAAAAAAAGGGACATTGCGGTCGCAATCCGGCTAACCGCATCGACGTTTTGCCTGCCAACGTTCTACTCTAGCGGTACGTAAGTGCGACTACCATCGACGCTTAGGAGCCTAACTTCTGTGTTCGGCATggg < 2:75328/141‑1 (MQ=11) tttAGACATGAAAAAAGAGACCTTGCGGTCTCAATGCGGCTCATCGCATCCACTCTTTGCCTGGCCACGTTCTACTCTAGCGGAACGTAAGTTCGACTATCATCGACGCTCAGGAGCTTCACTTCTGTGTTCGGCATGGGa > 2:151551/1‑141 (MQ=11) tttAGACATAAAAAAAGAGACCTTGCGGTCTCAATGCGGCTCATCGCATCCACTTTTTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGa < 1:324332/141‑1 (MQ=34) taTAAAAAGAGAGACCTTGCGGTCTCAATGCGGCTCATCGCATCCACTTTTTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGgt < 2:166962/140‑1 (MQ=18) ctttttttatcttgtccattttattttttaaccaaaatttgattaaaaaacTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGgt < 2:78942‑M2/90‑1 (MQ=255) aacagaCCTTGCGGCCTCAATGCGGCTCATCGCATCCACTTTTTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGAcctc < 1:21362/138‑1 (MQ=17) gtacattttatttttaaaccaaaatttgattaaaaaacTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTTGGCATGGGAACAGGTGTGACCTCCTTGc < 1:183309‑M2/103‑1 (MQ=255) acccattttcttttttattcaaaatttgattaaaaaacTGCCTTGCAACGTTCTACTCTAGCGGATCGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGc < 2:83389‑M2/103‑1 (MQ=255) cGGTCTCAATGCGGCTCATCGCATCCACTTTTTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGCGTGGCCTCCTTGCTATAGt > 1:207879/1‑141 (MQ=17) ggTCTCAATGCGGCTCATCGCATCCACTTTTTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTAACATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTGTAGTc > 1:204156/1‑141 (MQ=17) ttttaaccaaaatttgattaaaaaacTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTCTAGTCACCAg > 2:49407‑M2/27‑141 (MQ=255) tttaaccaaaatttgattaaaaaacTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCACCAGa > 1:232786‑M2/26‑141 (MQ=255) tgtaacaaaaaggtaattaaaaaacTGCCTGGCAACGGTCTACTCTAGCGGAACGTAAGTTCTACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCACCAGa < 2:276645‑M2/116‑1 (MQ=255) accaaaatttgattaaaaaacTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCACCAGACata < 1:25017‑M2/120‑1 (MQ=255) aaacTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGCGTGACCTCCTTGCTATAGTAACCAGACATATGAATGTAAAATAGACa > 1:105464‑M2/5‑141 (MQ=255) ttttGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCACCAGACATATGAATGTAAATTATACAt > 1:298839/1‑141 (MQ=32) ttGCCAGGCAACGTTCTACTCTGGCGGAAAGTAAGTTCGACGATCAGCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATTGTCACCAAACATATGAATGTAAATTATACATTc < 2:346002/141‑1 (MQ=11) tGCCTGGCAACGTTCGACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCACCAGACATATGAATGTAAATTATACATTCa < 2:45686/141‑1 (MQ=17) | CTTTACATTTCTCGTTTCGTCAGATTCAAACGTTTTCACTTCGCCAAGCCATCTTTCTTTGTGTTTGCTTTTATTTTGACGTTTTAGACATAAAAAAAGAGACCTTGCGGTCTCAATGCGGCTCATCGCATCCACTTTTTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCACCAGACATATGAATGTAAATTATACATTCA > USA300TCH1516_ALE/2176308‑2176587 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ 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. |