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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
516,365 |
T→A |
42.8% |
S189S (TCT→TCA) |
bioB → |
biotin synthase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 516,365 | 0 | T | A | 42.8%
| 21.5
/ 54.9
| 56 | S189S (TCT→TCA) | bioB | biotin synthase |
| Reads supporting (aligned to +/- strand): ref base T (22/10); new base A (19/5); total (41/15) |
| Fisher's exact test for biased strand distribution p-value = 5.44e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACGCACTTATCAGGAACGCCTCGATACGCTGGAAAAAGTGCGCGATGCCGGGATCAAAGTCTGTTCTGGCGGCATTGTGGGCTTAGGCGAAACGGTAAAAGATCGCGCCGGATTATTGCTGCAACTGGCA > minE/516299‑516428
|
ccGCACCTATCAGGAACGTCTTGATACGCTGGAAAAAGTGCGAGAAGCTGGGATTAAAGTCTGTTCAgg > 1:487252/2‑69 (MQ=255)
ccGCACCTATCAGGAACGTCTTGATACGCTGGAAAAAGTGCGAGAAGCTGGGATTAAAGTCTGTTCAgg > 1:2171489/2‑69 (MQ=255)
ccGCACCTATCAGGAACGTCTTGATACGCTGGAAAAAGTGCGAGAAGCTGGGATTAAAGTCTGTTCAgg > 1:2394844/2‑69 (MQ=255)
ccGCACCTATCAGGAACGTCTTGATACGCTGGAAAAAGTGCGAGAAGCTGGGATTAAAGTCTGTTCAgg > 1:2480938/2‑69 (MQ=255)
ccGCACCTATCAGGAACGTCTTGATACGCTGGAAAAAGTGCGAGAAGCTGGGATTAAAGTCTGTTCAgg > 1:2141110/2‑69 (MQ=255)
ccGCACCTATCAGGAACGTCTTGATACGCTGGAAAAAGTGCGAGAAGCTGGGATTAAAGTCTGTTCAgg > 1:2611706/2‑69 (MQ=255)
ccGCACCTATCAGGAACGTCTTGATACGCTGGAAAAAGTGCGAGAAGCTGGGATTAAAGTCTGTTCAgg > 1:2108761/2‑69 (MQ=255)
ccGCACCTATCAGGAACGTCTTGATACGCTGGAAAAAGTGCGAGAAGCTGGGATTAAAGTCTGTTCAgg > 1:2690297/2‑69 (MQ=255)
ccGCACCTATCAGGAACGTCTTGATACGCTGGAAAAAGTGCGAGAAGCTGGGATTAAAGTCTGTTCAgg > 1:2740157/2‑69 (MQ=255)
ccGCACCTATCAGGAACGTCTTGATACGCTGGAAAAAGTGCGAGAAGCTGGGATTAAAGTCTGTTCAgg > 1:2911204/2‑69 (MQ=255)
ccGCACCTATCAGGAACGTCTTGATACGCTGGAAAAAGTGCGAGAAGCTGGGATTAAAGTCTGTTCAgg > 1:1871857/2‑69 (MQ=255)
ccGCACCTATCAGGAACGTCTTGATACGCTGGAAAAAGTGCGAGAAGCTGGGATTAAAGTCTGTTCAgg > 1:3267887/2‑69 (MQ=255)
ccGCACCTATCAGGAACGTCTTGATACGCTGGAAAAAGTGCGAGAAGCTGGGATTAAAGTCTGTTCAgg > 1:1580494/2‑69 (MQ=255)
ccGCACCTATCAGGAACGTCTTGATACGCTGGAAAAAGTGCGAGAAGCTGGGATTAAAGTCTGTTCAgg > 1:729876/2‑69 (MQ=255)
ccGCACCTATCAGGAACGTCTTGATACGCTGGAAAAAGTGCGAGAAGCTGGGATTAAAGTCTGTTCAgg > 1:1428991/2‑69 (MQ=255)
ccGCACCTATCAGGAACGTCTTGATACGCTGGAAAAAGTGCGAGAAGCTGGGATTAAAGTCTGTTCAgg > 1:83141/2‑69 (MQ=255)
ccGCACCTATCAGGAACGTCTTGATACGCTGGAAAAAGTGCGAGAAGCTGGGATTAAAGTCTGTTCAgg > 1:133067/2‑69 (MQ=255)
ccGCACCTATCAGGAACGTCTTGATACGCTGGAAAAAGTGCGAGAAGCTGGGATTAAAGTCTGTTCAgg > 1:1153245/2‑69 (MQ=255)
ccGCACCTATCAGGAACGTCTTGATACGCTGGAAAAAGTGCGAGAAGCTGGGATTAAAGTCTGTTCAgg > 1:835675/2‑69 (MQ=255)
tATCAGGAACGCCTCGATACGCTGGAAAAAGTGCGCGATGCCGGGATCAAAGTCTGTTCTGGCGGCAtt > 1:497114/1‑69 (MQ=255)
tATCAGGAACGCCTCGATACGCTGGAAAAAGTGCGCGATGCCGGGATCAAAGTCTGTTCTGGCGGCAtt > 1:1902532/1‑69 (MQ=255)
tATCAGGAACGCCTCGATACGCTGGAAAAAGTGCGCGATGCCGGGATCAAAGTCTGTTCTGGCGGCAtt > 1:525333/1‑69 (MQ=255)
tATCAGGAACGCCTCGATACGCTGGAAAAAGTGCGCGATGCCGGGATCAAAGTCTGTTCTGGCGGCAtt > 1:115452/1‑69 (MQ=255)
tATCAGGAACGCCTCGATACGCTGGAAAAAGTGCGCGATGCCGGGATCAAAGTCTGTTCTGGCGGCAtt > 1:894929/1‑69 (MQ=255)
aTCAGGAACGCCTCGATACGCTGGAAAAAGTGCGCGATGCCGGGATCAAAGTCTGTTCTGGCGGCAtt > 1:1116876/1‑68 (MQ=255)
aCGCCTCGATACGCTGGAAAAAGTGCGCGATGCCGGGATCAAAGTCTGTTCTGGCGGCATTGTGGGCtt > 1:943425/1‑69 (MQ=255)
aCGCCTCGATACGCTGGAAAAAGTGCGCGATGCCGGGATCAAAGTCTGTTCTGGCGGCATTGTGGGCtt > 1:3424375/1‑69 (MQ=255)
aCGCCTCGATACGCTGGAAAAAGTGCGCGATGCCGGGATCAAAGTCTGTTCTGGCGGCATTGTGGGCtt > 1:1974029/1‑69 (MQ=255)
aaaaGTGCGCGATGCCGGGATCAAAGTCTGTTCTGGCGGCATTGTGGGCTTAGGCGAAACTGt > 1:952649/1‑63 (MQ=255)
aaaaGTGCGAGAAGCTGGGATTAAAGTCTGTTCAGGTGGCATTGTGGGCTTAGGCGAAACGGTGAAAg < 1:3379258/68‑1 (MQ=255)
aaaaGTGCGAGAAGCTGGGATTAAAGTCTGTTCAGGTGGCATTGTGGGCTTAGGCGAAACGGTGAAAg < 1:105884/68‑1 (MQ=255)
aaaaGTGCGAGAAGCTGGGATTAAAGTCTGTTCAGGTGGCATTGTGGGCTTAGGCGAAACGGTGAAAg < 1:3346759/68‑1 (MQ=255)
aaaaGTGCGAGAAGCTGGGATTAAAGTCTGTTCAGGTGGCATTGTGGGCTTAGGCGAAACGGTGAAAg < 1:1974904/68‑1 (MQ=255)
aaaaGTGCGAGAAGCTGGGATTAAAGTCTGTTCAGGTGGCATTGTGGGCTTAGGCGAAACGGTGAAAg < 1:2160617/68‑1 (MQ=255)
gCCGGGATCAAAGTCTGTTCTGGCGGCATTGTGGGCTTAGGCGAAACGGTAAAAGATCGCGCCGGatta > 1:2959342/1‑69 (MQ=255)
gCCGGGATCAAAGTCTGTTCTGGCGGCATTGTGGGCTTAGGCGAAACGGTAAAAGATCGCGCCGGatta > 1:1613775/1‑69 (MQ=255)
gCCGGGATCAAAGTCTGTTCTGGCGGCATTGTGGGCTTAGGCGAAACGGTAAAAGATCGCGCCGGatta > 1:711984/1‑69 (MQ=255)
gCCGGGATCAAAGTCTGTTCTGGCGGCATTGTGGGCTTAGGCGAAACGGTAAAAGATCGCGCCGGatta > 1:7056/1‑69 (MQ=255)
tCAAAGTCTGTTCTGGCGGCATTGTGGGCTTAGGCGAAACGGTAAAAGATCGCGCCGGATTATtgctgc > 1:11453/1‑69 (MQ=255)
tGTTCTGGCGGCATTGTGGGCTTAGGCGAAACGGTAAAAGATCGCGCCGGATTATTGCTGCAACTGGCa > 1:2109822/1‑69 (MQ=255)
tGTTCTGGCGGCATTGTGGGCTTAGGCGAAACGGTAAAAGATCGCGCCGGATTATTGCTGCAACTGGCa > 1:3181885/1‑69 (MQ=255)
tGTTCTGGCGGCATTGTGGGCTTAGGCGAAACGGTAAAAGATCGCGCCGGATTATTGCTGCAACTGGCa > 1:1707278/1‑69 (MQ=255)
tGTTCTGGCGGCATTGTGGGCTTAGGCGAAACGGTAAAAGATCGCGCCGGATTATTGCTGCAACTGGCa > 1:268721/1‑69 (MQ=255)
tGTTCTGGCGGCATTGTGGGCTTAGGCGAAACGGTAAAAGATCGCGCCGGATTATTGCTGCAACTGGCa > 1:2285675/1‑69 (MQ=255)
tGTTCTGGCGGCATTGTGGGCTTAGGCGAAACGGTAAAAGATCGCGCCGGATTATTGCTGCAACTGGCa > 1:2645870/1‑69 (MQ=255)
tGTTCTGGCGGCATTGTGGGCTTAGGCGAAACGGTAAAAGATCGAGCCGGATTATTGCTGCAACTGGCa > 1:1975528/1‑69 (MQ=255)
cTGGCGGCATTGTGGGCTTAGGCTAAACGGTAAAAGATCGCGCCGGattat < 1:429035/51‑1 (MQ=255)
cTGGCGGCATTGTGGGCTTAGGCTAAACGGTAAAAGATCGCGCCGGattat < 1:2723332/51‑1 (MQ=255)
cTGGCGGCATTGTGGGCTTAGGCGAAACGGTAAAAGATCGCGCCGGattat < 1:607195/51‑1 (MQ=255)
cTGGCGGCATTGTGGGCTTAGGCGAAACGGTAAAAGATCGCGCCGGattat < 1:1495902/51‑1 (MQ=255)
cTGGCGGCATTGTGGGCTTAGGCGAAACGGTAAAAGATCGCGCCGGattat < 1:1527601/51‑1 (MQ=255)
cTGGCGGCATTGTGGGCTTAGGCGAAACGGTAAAAGATCGCGCCGGattat < 1:1488136/51‑1 (MQ=255)
cTGGCGGCATTGTGGGCTTAGGCGAAACGGTAAAAGATCGCGCCGGattat < 1:811334/51‑1 (MQ=255)
cTGGCGGCATTGTGGGCTTAGGCGAAACGGTAAAAGATCGCGCCGGattat < 1:1382334/51‑1 (MQ=255)
cTGGCGGCATTGTGGGCTTAGGCGAAACGGTAAAAGATCGCGCCGGattat < 1:3005915/51‑1 (MQ=255)
cTGGCGGCATTGTGGGCTTAGGCGAAACGGTAAAAGATCGCGCCGGattat < 1:2153026/51‑1 (MQ=255)
|
ACGCACTTATCAGGAACGCCTCGATACGCTGGAAAAAGTGCGCGATGCCGGGATCAAAGTCTGTTCTGGCGGCATTGTGGGCTTAGGCGAAACGGTAAAAGATCGCGCCGGATTATTGCTGCAACTGGCA > minE/516299‑516428
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
