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 |
1,337,984 |
C→T |
22.8% |
S91S (TCG→TCA) |
wcaE ← |
predicted glycosyl transferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,337,984 | 0 | C | T | 22.8%
| 97.8
/ 21.4
| 74 | S91S (TCG→TCA) | wcaE | predicted glycosyl transferase |
| Reads supporting (aligned to +/- strand): ref base C (20/37); new base T (2/15); total (22/52) |
| Fisher's exact test for biased strand distribution p-value = 7.68e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.79e-01 |
ACGTTATCTTTTTGCATTTTTAACTTACGGACAAAATTTGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGCAATGCCTTTGTTCATGGCGTCGTA > minE/1337919‑1338046
|
aCGTTATCTTTTTGCATTTTTAACTTACGGACAAAATTTGCGGCATTCTGATGAAAAATATCGCCCGaa > 1:2262951/1‑69 (MQ=255)
aCGTTATCTTTTTGCATTTTTAACTTACGGACAAAATTTGCGGCATTCTGATGAAAAATATCGCCCGaa > 1:1055983/1‑69 (MQ=255)
gCATTTTTAACTTACGGACAAAATTTGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAaacaac > 1:1577171/1‑68 (MQ=255)
gCATTTTTAACTTACGGACAAAATTTGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAaacaac > 1:1386046/1‑68 (MQ=255)
gCATTTTTAACTTACGGACAAAATTTGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAaacaac > 1:517398/1‑68 (MQ=255)
gCATTTTTAACTTACGGACAAAATTTGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAaacaac > 1:386649/1‑68 (MQ=255)
gCATTTTTAACTTACGGACAAAATTTGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAaacaa > 1:306066/1‑67 (MQ=255)
ttttAACTTACGGACAAAATTTGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGaa < 1:2174220/69‑1 (MQ=255)
ttttAACTTACGGACAAAATTTGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGaa < 1:2447819/69‑1 (MQ=255)
ttttAACTTACGGACAAAATTTGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGaa < 1:2851986/69‑1 (MQ=255)
ttttAACTTACGGACAAAATTTGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGaa < 1:668319/69‑1 (MQ=255)
ttttAACTTACGGACAAAATTTGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGaa < 1:1091059/69‑1 (MQ=255)
tAACTTACGGACAAAATTTGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGaa < 1:802628/66‑1 (MQ=255)
aCTTACGGACAAAATTTGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGAACTTg < 1:1313588/68‑1 (MQ=255)
aTTTGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGc < 1:2771230/69‑1 (MQ=255)
aTTTGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGc < 1:2505998/69‑1 (MQ=255)
aTTTGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGc < 1:2782034/69‑1 (MQ=255)
aTTTGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGc < 1:2756605/69‑1 (MQ=255)
aTTTGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGc < 1:2746826/69‑1 (MQ=255)
aTTTGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGc < 1:3087067/69‑1 (MQ=255)
aTTTGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGc < 1:2180335/69‑1 (MQ=255)
aTTTGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGc < 1:1023828/69‑1 (MQ=255)
aTTTGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGc < 1:3096682/69‑1 (MQ=255)
aTTTGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGc < 1:1793977/69‑1 (MQ=255)
aTTTGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGc < 1:1499250/69‑1 (MQ=255)
aTTTGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGc < 1:1437758/69‑1 (MQ=255)
aTTTGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGc < 1:142918/69‑1 (MQ=255)
tttGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGc < 1:1538628/68‑1 (MQ=255)
tttGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGc < 1:664830/68‑1 (MQ=255)
tccTGATGAAAAATATCGCCTGAATTGAGAAACAGCGCGAACt > 1:2422006/3‑43 (MQ=37)
tccTGATGAAAAATATCGACTGAATTGAGAAACAGCGCGAACTTGCCTtg > 1:647211/3‑50 (MQ=255)
tCTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGaa < 1:2302390/40‑1 (MQ=255)
cTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGCAATGCCTTTGtt < 1:3099760/69‑1 (MQ=255)
cTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGCAATGCCTTTGtt < 1:3150088/69‑1 (MQ=255)
cTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGCAATGCCTTTGtt < 1:3221528/69‑1 (MQ=255)
cTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGCAATGCCTTTGtt < 1:1050338/69‑1 (MQ=255)
cTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGCAATGCCTTTGtt > 1:1225801/1‑69 (MQ=255)
cTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGCAATGCCTTTGtt < 1:2743160/69‑1 (MQ=255)
cTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGCAATGCCTTTGtt < 1:1768613/69‑1 (MQ=255)
cTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGCAATGCCTTTGtt < 1:2018488/69‑1 (MQ=255)
tgatgaAAAATATCGCCCGAATTGAGAAACAACGCGAACTTg < 1:3068316/42‑1 (MQ=255)
gatgaAAAATATCGCCTGAATTGAGAAACGGCGCGAACTTGCCTTGCGCCATTTCAATACCTTTGTTCa < 1:660185/69‑1 (MQ=255)
gatgaAAAATATCGCCTGAATTGAGAAACAGCGCGAACTTGCCTTGCGCCATTTCAATACCTTTGTTCa < 1:816265/69‑1 (MQ=255)
gatgaAAAATATCGCCTGAATTGAGAAACAGCGCGAACTTGCCTTGCGCCATTTCAATACCTTTGTTCa < 1:495382/69‑1 (MQ=255)
gatgaAAAATATCGCCTGAATTGAGAAACAGCGCGAACTTGCCTTGCGCCATTTCAATACCTTTGTTCa < 1:1730941/69‑1 (MQ=255)
gatgaAAAATATCGCCTGAATTGAGAAACAGCGCGAACTTGCCTTGCGCCATTTCAATACCTTTGTTCa < 1:627007/69‑1 (MQ=255)
gatgaAAAATATCGCCTGAATTGAGAAACAGCGCGAACTTGCCTTGCGCCATTTCAATACCTTTGTTCa < 1:242891/69‑1 (MQ=255)
gatgaAAAATATCGCCTGAATTGAGAAACAGCGCGAACTTGCCTTGCGCCATTTCAATACCTTTGTTCa < 1:1214916/69‑1 (MQ=255)
gatgaAAAATATCGCCTGAATTGAGAAACAGCGCGAACTTGCCTTGCGCCATTTCAATACCTTTGTTCa < 1:1119482/69‑1 (MQ=255)
gatgaAAAATATCGCCTGAATTGAGAAACAGCGCGAACTTGCCTTGCGCCATTTCAATACCTTTGTTCa < 1:2477654/69‑1 (MQ=255)
gatgaAAAATATCGCCTGAATTGAGAAACAGCGCGAACTTGCCTTGCGCCATTTCAATACCTTTGTTCa < 1:2843292/69‑1 (MQ=255)
gatgaAAAATATCGCCTGAATTGAGAAACAGCGCGAACTTGCCTTGCGCCATTTCAATACCTTTGTTCa < 1:73127/69‑1 (MQ=255)
gatgaAAAATATCGCCTGAATTGAGAAACAGCGCGAACTTGCCTTGCGCCATTTCAATACCTTTGTTCa < 1:2547468/69‑1 (MQ=255)
gatgaAAAATATCGCCTGAATTGAGAAACAGCGCGAACTTGCCTTGCGCCATTTCAATACCTTTGTTCa < 1:2558788/69‑1 (MQ=255)
gatgaAAAATATAGCCTGAATTGAGAAACAGCGCGAACTTGCCTTGCGCCATTTCAATACCTTTGTTCa < 1:2223816/69‑1 (MQ=255)
atgaAAAATATCGCCTGAATTGAGAAACAGCGCGAACTTGCCTTGCGCCATTTCAATACCTTTGTTCa < 1:3025518/68‑1 (MQ=255)
atCGCCCGAATTGAGAGACAACGCGAACTTGCCTTATGCCATCGCAATGCCTTTGTTCATGGCGTCGTa < 1:523982/69‑1 (MQ=255)
atCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGCAATGCCTTTGTTCATGGCGTCGTa < 1:743576/69‑1 (MQ=255)
atCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGCAATGCCTTTGTTCATGGCGTCGTa < 1:3158288/69‑1 (MQ=255)
atCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGCAATGCCTTTGTTCATGGCGTCGTa < 1:3239828/69‑1 (MQ=255)
atCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTCCCATCGCAATGCCTTTGTTCATGGCGTCGTa < 1:3379985/69‑1 (MQ=255)
tCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGCAATGCCTTTGTTCATGGCGTCGTa > 1:1284568/1‑68 (MQ=255)
tCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGCAATGCCTTTGTTCATGGCGTCGTa > 1:3368545/1‑68 (MQ=255)
tCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGCAATGCCTTTGTTCATGGCGTCGTa > 1:2036926/1‑68 (MQ=255)
tCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGCAATGCCTTTGTTCATGGCGTCGTa > 1:3092651/1‑68 (MQ=255)
tCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGCAATGCCTTTGTTCATGGCGTCGTa > 1:298016/1‑68 (MQ=255)
tCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGCAATGCCTTTGTTCATGGCGTCGTa > 1:1127848/1‑68 (MQ=255)
tCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGCAATGCCTTTGTTCATGGCGTCGTa > 1:2898201/1‑68 (MQ=255)
tCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGCAATGCCTTTGTTCATGGCGTCGTa > 1:699847/1‑68 (MQ=255)
tCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGCAATGCCTTTGTTCATGGCGTCGTa > 1:2836149/1‑68 (MQ=255)
tCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGCAATGCCTTTGTTCATGGCGTCGTa > 1:2478823/1‑68 (MQ=255)
tCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGCAATGCCTTTGTTCATGGCGTCGTa > 1:2639101/1‑68 (MQ=255)
tCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGCAATGCCTTCGTTCATGGCGTCGTa > 1:1093552/1‑68 (MQ=255)
cGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGCAATGCCTTTGtt < 1:3021850/55‑1 (MQ=255)
|
ACGTTATCTTTTTGCATTTTTAACTTACGGACAAAATTTGCGGCATTCTGATGAAAAATATCGCCCGAATTGAGAAACAACGCGAACTTGCCTTGTGCCATCGCAATGCCTTTGTTCATGGCGTCGTA > minE/1337919‑1338046
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
