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 |
|
A6 F28 I1 R2
|
90 |
19.5 |
1203533 |
67.3% |
809977 |
57.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
minE |
2,353,663 |
G→T |
A251E (GCA→GAA) |
yihF ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,353,663 | 0 | G | T | 95.4%
| 197.0
/ 2.4
| 65 | A251E (GCA→GAA) | yihF | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (3/0); new base T (62/0); total (65/0) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01 |
CGTAGGTGAGATTGACATTGATATAATCTTTGTCTTTAACGCGATCCAGCCTGGTTTTTGCAACGAAAGCATCGATTTGGGCAACGTCTTCCCC > minE/2353604‑2353697
|
cGTAGGTGAGATTGACATTGATATAATCTTTGTCTTTAACGCGATCCAGCCTGGTTTTTGCa > 1:479672/1‑62 (MQ=255)
cGTAGGTGAGATTGACATTGATATAATCTTTGTCTTTAACGCGATCCAGCCTGGTTTTTGCa > 1:419499/1‑62 (MQ=255)
cGTAGGTGAGATTGACATTGATATAATCTTTGTCTTTAACGCGATCCAGCCTGGTTTTTGCa > 1:514054/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGc > 1:41468/1‑38 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATc > 1:329596/1‑41 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:729529/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:730583/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:717386/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:699519/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:681654/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:675852/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:579942/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:572050/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:545965/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:520964/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:510979/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:48273/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:452628/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:739661/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:759722/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:762570/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:773932/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:784452/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:814481/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:820795/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:874640/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:891790/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:895530/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:899282/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:915608/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:920820/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:943907/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:994928/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:1148267/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:102725/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:1032156/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:1051238/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:1056313/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:110264/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:1102687/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:1102866/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:1111319/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:1112605/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:1113212/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:1115721/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:1119665/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:1130733/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:452652/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:239398/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:1023815/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:371830/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:34478/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:310909/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:284157/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:267403/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:247421/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:1169529/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:219785/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:216984/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:205839/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:125488/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:1186910/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTcccc > 1:1183915/1‑62 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTccc > 1:780073/1‑61 (MQ=255)
tCTTTAACGCGATCCAGCCTGGTTTTTTCAACGAAAGCATCGATTTGGGCAACGTCTTaccc > 1:937316/1‑62 (MQ=255)
|
CGTAGGTGAGATTGACATTGATATAATCTTTGTCTTTAACGCGATCCAGCCTGGTTTTTGCAACGAAAGCATCGATTTGGGCAACGTCTTCCCC > minE/2353604‑2353697
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
