| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| JC | USA300TCH1516_ALE | 567,290 | Δ3 bp | 5.5% | coding (194‑196/471 nt) | ctsR → | Transcriptional regulator CtsR |
| New junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | USA300TCH1516_ALE | 567293 = | 73 (1.130) | 4 (0.070) | 3/238 | NT | 5.5% | coding (197/471 nt) | ctsR | Transcriptional regulator CtsR |
| ? | USA300TCH1516_ALE | = 567289 | 70 (1.190) | coding (193/471 nt) | ctsR | Transcriptional regulator CtsR | |||||
TTTATTAACATTTTATCTAAAAGCCCATCAATAATATAATAAGCTTGTTGTTGAGAAATAGAAGGTCCAATCAGCTGAAGCAAATGATTAATATAACCTGTTGCATCTTTATTTTCAATTTTAGTGATTCGGATGTAAC‑‑CAC‑CACCAC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ < USA300TCH1516_ALE/567440‑567293‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ac‑‑cac‑caccacGTTTACTTTCGATTTCATAACCATGTTCATTAGTGAATCGTGTTTTGATTACATAATTTAATTGTGATGGTACGCAATCAAAACGCTGTGCGATATTCGCTCTCTGAATTTCAACGACATCTTCATTCGACTCTTCAAAT < USA300TCH1516_ALE/567289‑567150 TTTATTAACATTTTATCTAAAAGCCCATCAATAATATAATAAGCTTGTTGTTGAGAAATAGAAGGTCCAATCAGCTGAAGCAAATGATTAATATAACCAGATGCATCTTTATTTTCAATTTTATTGCTTCGTTTGTAAC‑‑Cc > 2:57916/1‑140 ATTAACATTTTATCTAAAAGCCCATCAATAATATAATAAGCTTGTTGTTGAGAAATAGAAGGTCCAATCAGCTGAAGCAAATGATTAATATAACCTGTTGCATCTTTATTTTCAATTTTAGTGATTCGGATGTAAC‑‑CAC‑CA < 2:673478/141‑1 TTAACATTTTATCTAAAAGCCCATCAATAATATAATAAGCTTGTTGTTGAGAAATAGAAGGTCCAATCAGCTGAAGCAAATGATTAATATAACCTGTTGCATCTTTATTTTCAATTTTAGTGATTCGGATGTAAC‑‑CAC‑CAC < 2:252998/141‑1 TTAACATTTTATCTAAAAGCCCATCAATAATATAATAAGCTTGTTGTTGAGAAATAGAAGGTCCAATCAGCTGAAGCAAATGATTAATATAACCTGTTGCATCTTTATTTTCAATTTTAGTGATTCGGATGTAAC‑‑CAC‑CAC < 1:706049/141‑1 TAACATTTTATCTAAAAGACCATCAATAATATAATAAGCTTGTTGTTGAGAAATAGAAGGTCCAATCAGCTGAAGCAAATGATTAATATAACCTGTTGCATCTTTATTTTCAATTTTAGTGATTCGGATGTAAC‑‑CAC‑CACC < 1:262387/141‑1 AACATTTTATCTAAAAGCCCATCAATAATATAATAAGCTTGTTGTTGAGAAATAGAAGGTCCAATCAGCTGAAGCAAATGATTAATATAACCTGTTGCATCTTTATTTTCAATTTTAGTGATTCGGATGTAAC‑‑CAC‑CACCA > 1:237229/1‑141 TTGTTGAGAAATAGAAGGTCCAATCAGCTGAAGCAAATGATTAATATAACCTGTTGCATCTTTATTTTCAATTTTAGTGATTCGGATGTAACCGCACGCACGACGTTTACTTTCGTTTTCATAACCATGTTCATTAGTGAA > 1:19614/1‑141 TTGTTGAGAAATAGAAGGTCCAATCAGCTGAAGCAAATGATTAATATAACCTGTTGCATCTTTATTTTCAATTTTAGTGATTCGGATGTAAC‑‑CAC‑CACCACGTTTACTTTCGATTTCATAACCATGTTCATTAGTGAATCG > 2:117977/1‑141 AATATAACCTGTTGCATCTTTATTTTCAATTTTAGTGATTCGGATGTAAC‑‑CAC‑CACCACGTTTACTTTCGATTTCATAACCATGTTCATTAGTGAATCGTGTTTTGATTACATAATTTAATTGTGATGGTACGCAATCAAA < 2:694906/141‑1 GTTGCATCTTTATTTTCAATTTTAGTGATTCGGATGTAAC‑‑CAC‑CACCACGTTTACTTTCGATTTCATAACCATGTTCAGTAGTGAATCGTGTTTTGATTCCATAATTTAATTGTGATGGTACGCAATCAAACCGCTGTtag > 1:255341/1‑138 AC‑‑CAC‑CACCACGTTTACTTTCGATTTCATAACCATGTTCATTAGTGAATCGTGTTTTGATTACATAATTTAATTGTGATGGTACGCAATCAAAACGCTGTGCGATATTCGCTCTCTGAATTTCAACGACATCTTCATTCGA > 1:684478/1‑141 C‑‑CAC‑CACCACGTTTACTTTCGATTTCATAACCATGTTCATTAGTGAATCGTGTTTTGATTACATAATTTAATTGTGATGGTACGCAATCAAAACGCTGTGCGATATTCGCTCTCTGAATTTCAACGACATCTTCTTTCGAC > 2:711795/1‑141 CAC‑CACCACGTTTACTTTCGATTTCATAACCATGTTCATTAGTGAATCGTGTTTTGATTACATAATTTAATTGTGATGGTACGCAATCAAAACGCTGTGCGATATTCGCTCTCTGAATTTCAACGACATCTTCATTCGACT < 2:498686/141‑1 AC‑CACCACGTTTACTTTCGATTTCATAACCATGTTCATTAGTGAATCGTGTTTTGATTACATAATTTAATTGTGATGGTACGCAATCAAAACGCTGTGCGATATTCGCTCTCTGAATTTCACCGACATCTTCATTCGACTC > 2:329195/1‑141 AC‑CACCACGTTTACTTTCGATTTCATAACCATGTTCATTAGTGAATCGTGTTTTGATTACATAATTTAATTGTGATGGTACGCAATCAAAACGCTGTGCGATATTCGCTCTCTGAATTTCAACGACATCTTCATTCGACTC > 2:547894/1‑141 AC‑CACCACGTTTACTTTCGATTTCATAACCATGTTCATTAGTGAATCGTGTTTTGATTACATAATTTAATTGTGATGGTACGCAATCAAAACGCTGTGCGATATTCGCTCTCTGAATTTCAACGACATCTTCATTCGACTC > 2:580649/1‑141 AC‑CACCACGTTTACTTTCGATTTCATAACCATGTTCATTAGTGAATCGTGTTTTGATTACATAATTTAATTGTGATGGTACGCAATCAAAAAGCTGTGCGATATTCGCTCTCTGAATTTCAACGACATCTTCATTCGACTC > 2:213748/1‑141 ACCACGTTTACTTTCGATTTCATAACCATGTTCATTAGTGAATCGTGTTTTGATTACATAATTTAATTGTGATGGTACGCAATCAAAACGCTGTGCGATATTCGCTCTCTGAATTTCAACGACATCTTCATTCGACTCTTC > 2:83062/1‑141 CCACGTTTACTTTCGATTTCATAACCATGTTCATTAGTGAATCGTGTTTTGATTACATAATTTAATTGTGATGGTACGCAATCAAAACGCTGTGCGATATTCGCTCTCTGAATTTCAACGACATCTTCATTCGACTCTTCA > 1:223873/1‑141 CGTTTACTTTCGATTTCATAACCATGTTCATTAGTGAATCGTGTTTTGATTACATAATTTAATTGTGATGGTACGCAATCAAAACGCTGTGCGATATTCGCTCTCTGAATTTCAACGACATCTTCATTCGACTCTTCAAAT < 1:442962/141‑1 TTTATTAACATTTTATCTAAAAGCCCATCAATAATATAATAAGCTTGTTGTTGAGAAATAGAAGGTCCAATCAGCTGAAGCAAATGATTAATATAACCTGTTGCATCTTTATTTTCAATTTTAGTGATTCGGATGTAAC‑‑CAC‑CACCAC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ < USA300TCH1516_ALE/567440‑567293‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ac‑‑cac‑caccacGTTTACTTTCGATTTCATAACCATGTTCATTAGTGAATCGTGTTTTGATTACATAATTTAATTGTGATGGTACGCAATCAAAACGCTGTGCGATATTCGCTCTCTGAATTTCAACGACATCTTCATTCGACTCTTCAAAT < USA300TCH1516_ALE/567289‑567150 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ 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. |