| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP000730 | 1,929,796 | T→C | 42.9% | intergenic (‑879/‑289) | USA300HOU_1794 ← / → USA300HOU_1796 | hypothetical protein/hypothetical protein |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP000730 | 1,929,796 | 0 | T | C | 42.9% | 14.4 / 44.1 | 42 | intergenic (‑879/‑289) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (10/14); new base C (8/10); total (18/24) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.38e-01 | |||||||||||
TTGTCATAATAAAATCGCCTACTTTCTTAAATTAACAATATCTATTCTCATAGAATTTGTCCAATTAAGTGTAGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTT > CP000730/1929658‑1929930 | ttGTCATAATAAAATCGCCTACTTTCTTAAATTAACAATATCTATTCTCATAGAATTTGTCCAATTAAGTGTAGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGc < 1:200802/141‑1 (MQ=255) cATAATAAAATCGCCTACTTTCTTAAATTAACAATATCTATTCTCATAGAATTTGTCCAATTAAGTGTAGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCgat < 1:167988/141‑1 (MQ=255) aataaAATCGCCTACTTTCTTAAATTAACAATATCTATTCTCATAGAATTTGTCCAATTAAGTGTAGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCgatgat < 1:134826/141‑1 (MQ=255) tttAAATTAACAATATCTATTCTCATAGAATTTGTCCAATTAAGTGTAGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCt < 2:79189/140‑1 (MQ=255) ttAACAATATCTATTCTCATAGAATTTGTCCAATTAAGTGTAGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTAtctct > 2:331103/1‑141 (MQ=255) tAACAATATCTATTCTCATAGAATTTGTCCAATTAAGTGTAGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATGGTAGAGTCGCCTGactctc > 1:181922/1‑141 (MQ=255) aCAATCTCTATTCTCATAGAATTTGTCCAATTAAGTGTAGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAg < 2:304180/141‑1 (MQ=255) cAATATCTATTCTCATAGAATTTGTCCAATTAAGTGTAGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAgg > 1:374347/1‑141 (MQ=255) aaTATCTATTCTCATAGAATTTGTCCAATTAAGTGTAGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGc < 1:323341/141‑1 (MQ=255) cctataaTTTGTCCAATTAAGTGTAGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTctaaattgac < 2:333373/136‑10 (MQ=255) gactttGTACAATTAAGTGTAGAGGACTCAATCTATAAGCTAGAATCATATAAGTTATCAGAAGCAAGTGACTGTGCTTGTATATTTTACGATGAGCAAAAATNAGAGTCGACGATCTCTTAGTCTTCAAGTTAAACGCag > 2:626/4‑141 (MQ=255) gAATTTGTCCAATTAAGTGTAGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGAGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCag > 1:372521/1‑141 (MQ=255) tttGTCCAATTAAGTGTAGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCagaga < 1:82290/141‑1 (MQ=255) aaTCTATCAGCTAGAATCATATAACTTATCCGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTAttt < 1:45392/141‑1 (MQ=255) tCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGc < 1:148237/141‑1 (MQ=255) tCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGc < 2:119294/141‑1 (MQ=255) aataACCTATCAGAAGCAACTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCAcc < 2:371816/140‑1 (MQ=255) tCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAg < 1:331103/141‑1 (MQ=255) tCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGGCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAg > 1:352187/1‑141 (MQ=255) gAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCCGTgg > 2:228990/1‑141 (MQ=255) atcggaagtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGc < 1:258370/127‑1 (MQ=255) atcggaagtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGGGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGc > 1:309528/15‑141 (MQ=255) tcggaagtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCt < 2:159485/128‑1 (MQ=255) tcggaagaagatatgCTTGTATATTCACAGATGGTATAATAATATAGTCGCCTATCTCTCAGGCGTGAATT‑‑GATGACGAGAGGAGGGGCAGTAC‑G‑GT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTTGcg > 2:262988/14‑140 (MQ=255) aaGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCCCATCATAGCACCAGTCATCAGTGGc > 1:286233/1‑141 (MQ=255) agccagcgtcggtgCTTGTCTATTTGCTGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGGCTATTTAGCCGCAGAGAGGAGGTGTA‑TAA‑T‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCt < 1:240800/130‑1 (MQ=255) gaagtagttatgCTTGGATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGCCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTA‑CTTT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCtgtg < 1:4203/131‑1 (MQ=255) gaagtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCtgtg > 2:75261/11‑141 (MQ=255) gaagtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCtgtg < 1:4168/131‑1 (MQ=255) gaagtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCAATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCtgtg < 1:161606/131‑1 (MQ=255) agtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTTTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGct < 2:320757/133‑2 (MQ=255) agtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGct < 1:36955/133‑2 (MQ=255) gtagatatggttGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGctg < 2:157222/131‑3 (MQ=255) gtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGGA‑TTA‑C‑TTGGCTAATCATTTTCGTTCACATTATAGTACCAGTCATCCGTGGCTGTGctg > 2:325281/8‑139 (MQ=255) gtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGctg > 1:356263/8‑139 (MQ=255) gtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTATCAGGCGTTAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGctg > 1:254871/8‑139 (MQ=255) tagagatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGctgt < 1:327937/135‑4 (MQ=255) tGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGccc > 2:113043/1‑140 (MQ=255) gatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGCCCATT‑‑GACGAAGAGAGGAGGTGCA‑TTA‑CTTT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCGGTGctgttg > 2:133121/5‑136 (MQ=255) gCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTAATAAGTGGCTGTGCCATTGCGtt > 2:170420/1‑141 (MQ=255) gTATATTCACAGATGGTATAATAATAGCGTCGACTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGCGGTGCATTAC‑T‑TT‑GCTCATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGtattata < 2:19705/141‑7 (MQ=255) gTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGtattatc > 2:148393/1‑138 (MQ=255) | TTGTCATAATAAAATCGCCTACTTTCTTAAATTAACAATATCTATTCTCATAGAATTTGTCCAATTAAGTGTAGACGATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTT > CP000730/1929658‑1929930 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |