Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A9 F28 I1 R1
|
151 |
87.4 |
2971636 |
99.2% |
2947862 |
138.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,825,038 |
(T)7→8 |
intergenic (‑101/+102) |
ves ← / ← spy |
HutD family protein Ves/ATP‑independent periplasmic chaperone |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,825,031 | 1 | . | T | 78.1%
| 88.0
/ 17.4
| 32 | intergenic (‑94/+109) | ves/spy | HutD family protein Ves/ATP‑independent periplasmic chaperone |
| Reads supporting (aligned to +/- strand): ref base . (0/7); new base T (23/2); total (23/9) |
| Fisher's exact test for biased strand distribution p-value = 1.07e-05 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.32e-01 |
TTCGCCACAGATTCACCGACATTTTACGCATATCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑C‑TTTTTTT‑ACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTAC > NC_000913/1824892‑1825165
|
ttCGCCACAGATTCACCGACATTTTACGCATATCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑c > 1:23895/1‑140 (MQ=255)
cGCCACAGATTCACCGACATTTTACGCATATCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑C‑tt < 2:1422666/140‑1 (MQ=255)
cGCCACAGATTCACCGACATTTTACGCATATCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑C‑tt < 1:1241776/140‑1 (MQ=255)
caGATTCACCGACATTTTACGCATATCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑C‑ttttttt > 1:384388/1‑140 (MQ=255)
cACCGACATTTTACGCATATCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑CTTTTTTTT‑ACAAc < 2:1191093/140‑1 (MQ=255)
ccGACATTTTACGCATATCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑C‑tttttttttacaa < 2:922660/138‑7 (MQ=255)
ccGACATTTTACGCATATCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑C‑tttttttttacaa > 1:922660/1‑132 (MQ=255)
aTTTTACGCATATCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑CTTTTTTTT‑ACAACTGTTTga > 1:548308/1‑140 (MQ=255)
aCGCATATCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑CTTTTTTTT‑ACAACTGTTTgagaaga < 1:1365594/140‑1 (MQ=255)
tatCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑CTTTTTTTT‑ACAACTGTTTGAGAAGagaaaa > 2:1388103/1‑140 (MQ=255)
tatCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑CTTTTTTTT‑ACAACTGTTTGAGAAGagaaaa > 1:1019862/1‑140 (MQ=255)
tCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑CTTTTTTTT‑ACAACTGTTTGAGAAGAGAAAAGAAAAccgccg > 1:142869/1‑140 (MQ=255)
cATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑CTTTTTTTT‑ACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGAt > 1:215255/1‑140 (MQ=255)
aCTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑CTTTTTTTT‑ACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCt > 1:1462863/1‑140 (MQ=255)
cTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑CTTTTTTTT‑ACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTg > 2:988742/1‑140 (MQ=255)
cccccccGGCCCTTTTTTTTCTTTTTTTTCTTTAGGTTAACGGTGGTTGTTTATCGCAACCTGGGGTGTTTTACGTTGGTGGTGATCGGTT‑T‑TTTTTTT‑ACAATTTTTTGAGAAAAAAAAAAAAAACCGCCGATCCTGTc < 2:699793/136‑1 (MQ=255)
gCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑CTTTTTTTT‑ACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTcc > 1:699793/1‑140 (MQ=255)
gCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑CTTTTTTTT‑ACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTcc > 2:494971/1‑140 (MQ=255)
gCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑CTTTTTTTT‑ACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTcc > 2:1100003/1‑140 (MQ=255)
cTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑CTTTTTTTT‑ACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCa > 1:1454007/1‑140 (MQ=255)
tCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑CTTTTTTTT‑ACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCAc > 1:844311/1‑140 (MQ=255)
ccccGGCCCGTTTTTTTCTTTGTTATCTTTCGGGTACCCGTGGATGTTTATCGGCAACGGGGGTGTTTTACGTTAGTGGTGATCGG‑GTT‑TTTTTTT‑ACAATTTTTTGAAAAGAAAAAAAAAAACCGCCGATCCTGTCCAc < 2:844311/139‑1 (MQ=255)
ccGGCCTTTTTTTTTATTTTTTTTCGTTCAGGAACCGGTGGTTGTTTACCGGAACCTGGGGTTTTTTAGTTTAGTGGTGATCAGTT‑T‑TTTTTTT‑ACATTTTTTTGAAAAAAAAAAAAAAAACCGCCGATCCTGTCCACCg < 2:1459537/140‑1 (MQ=255)
cGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑CTTTTTTTT‑ACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGc > 2:503251/1‑140 (MQ=255)
gCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCATGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑CTTTTTTTT‑ACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCAt > 1:547996/1‑140 (MQ=255)
ccctgTTTTTTTTTTTTTTATCGTTCAGGTACCGGTGGATGGTTACCGGCACCTGGGGTGTTTTACGTTAGGGGTGATCGG‑T‑T‑TTTTTTTAACATTTTTTTGAAAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCAt < 2:384388/136‑1 (MQ=255)
ccttttttttCATTTTTATCTTTCAGGTACCGGTGGTTGTTTATGGGAAACGGGGGTGATTTACTTTAGTGGTGATCAG‑GTT‑TTTTTTT‑ACAACTTTTGGAGAAGAAAAAAGAAAACCGCCGATCCTGTCCACCGCATTa < 2:1182401/134‑1 (MQ=255)
ttCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑CTTTTTTTT‑ACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTCTCCACCGCATTACTg > 1:170006/1‑140 (MQ=255)
aagtttttCGTTAAGGTACCGGTGGTTGGTTATCGGCAACTGGGGTGTTTTACGTTGGTGGTGATCGG‑G‑T‑TTTTTTTAACAATTGTTTGAGAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAg < 2:644497/133‑1 (MQ=255)
tGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑CTTTTTTTT‑ACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTg > 1:1235762/1‑140 (MQ=255)
aGGTAACCGTGGATGTTTATCGGCAACTGGGGTGATTTACGTTAGTGGTGATCAG‑GTT‑TTTTTTT‑ACAACTGTTGGAGAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACcgg < 1:503251/140‑1 (MQ=255)
ggTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑CTTTTTTTT‑ACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGAccctg > 1:644497/1‑137 (MQ=255)
aTGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑CTTTTTTTT‑ACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGtt > 1:86906/1‑140 (MQ=255)
aTGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑CTTTTTTTT‑ACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGtt > 2:254688/1‑140 (MQ=255)
ggCAACTGGGGTGTTTTCCTTTGGTGGTGATCGG‑GTT‑TTTTTTT‑ACAATTTTTTGAGAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTg < 2:1396889/140‑1 (MQ=255)
aaCTCGGGTGATTTACTTTAGTGGTGATCAG‑GTT‑TTTTTTT‑ACAACTTTTTAAAAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGaaa < 2:86906/140‑1 (MQ=255)
cTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑CTTTTTTTT‑ACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGa > 2:697103/1‑140 (MQ=255)
gggTGATTTACGTTAGTGGTGATCAG‑G‑CTTTTTTTT‑ACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGatta > 1:1069871/1‑140 (MQ=255)
ttttACGTTGGTGGTGATCGG‑T‑T‑TTTTTTTAACAATTTTTTAAAAAAAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTcag < 2:23895/139‑1 (MQ=255)
ttAGTGGTGATCAG‑GTT‑TTTTTTT‑ACAACTGTTTGAAAAGAAAAAAAAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGc < 1:1388103/140‑1 (MQ=255)
gATCAG‑G‑CTTTTTTTT‑ACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCAttt > 1:539880/1‑140 (MQ=255)
cAG‑G‑CTTTTTTTT‑ACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGGTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTAc > 1:649798/1‑140 (MQ=255)
|
TTCGCCACAGATTCACCGACATTTTACGCATATCAAAGTATTCCATACTCGCTCCCGGCCCGTTCTTTTCATTGTTATCGTTCAGGTAACCGTGGATGGTTATCGGCAACTCGGGTGATTTACGTTAGTGGTGATCAG‑G‑C‑TTTTTTT‑ACAACTGTTTGAGAAGAGAAAAGAAAACCGCCGATCCTGTCCACCGCATTACTGCAAGGTAGTGGACAAGACCGGCGGTCTTAAGTTTTTTGGCTGAAAGATTATTCAGCAGTTGCAGGCATTTTAC > NC_000913/1824892‑1825165
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
