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 |
923,755 |
G→A |
34.5% |
G197S (GGT→AGT) |
mppA → |
murein tripeptide (L‑ala‑gamma‑D‑glutamyl‑meso‑DAP) transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 923,755 | 0 | G | A | 34.5%
| 59.7
/ 44.1
| 81 | G197S (GGT→AGT) | mppA | murein tripeptide (L‑ala‑gamma‑D‑glutamyl‑meso‑DAP) transporter subunit |
| Reads supporting (aligned to +/- strand): ref base G (16/37); new base A (20/8); total (36/45) |
| Fisher's exact test for biased strand distribution p-value = 8.23e-04 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.48e-01 |
GCCGTGGTTTGTGAATTTAACCGCTAACTTTGCCTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGCAATGGCGCTTATGTTCTTA > minE/923688‑923809
|
gCCGTGGTTTGTGAATTTAACCGCTAACTTTGCCTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCg > 1:169805/1‑68 (MQ=255)
tgtgAATTTAACCGCTAACTTTGCCTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTg > 1:2975304/1‑69 (MQ=255)
tgtgAATTTAACCGCTAACTTTGCCTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTg > 1:1275425/1‑69 (MQ=255)
tgtgAATTTAACCGCTAACTTTGCCTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTg > 1:414254/1‑69 (MQ=255)
tgtgAATTTAACCGCTAACTTTGCCTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTg > 1:2395983/1‑69 (MQ=255)
tgtgAATTTAACCGCTAACTTTGCCTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTg > 1:724243/1‑69 (MQ=255)
tgtgAATTTAACCGCTAACTTTGCCTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTg > 1:2757523/1‑69 (MQ=255)
tgtgAATTTAACCGCTAACTTTGCCTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTg > 1:1631709/1‑69 (MQ=255)
aaTTTAACCGCTAACTTTGCCTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCAGTAAAGAGTg < 1:2202344/65‑1 (MQ=255)
aaTTTAACCGCTAACTTTGCCTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCAGTAAAGAGTg < 1:2691679/65‑1 (MQ=255)
aaTTTAACCGCTAACTTTGCCTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCAGTAAAGAGTg < 1:3417280/65‑1 (MQ=255)
aaTTTAACCGCTAACTTTGCCTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCAGTAAAGAGTg < 1:3159085/65‑1 (MQ=255)
aaTTTAACCGCTAACTTTGCCTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCAGTAAAGAGTg < 1:1804708/65‑1 (MQ=255)
aaTTTAACCGCTAACTTTGCCTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCAGTAAAGAGTg < 1:2413331/65‑1 (MQ=255)
aaTTTAACCGCTAACTTTGCCTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCAGTAAAGAGTg < 1:336762/65‑1 (MQ=255)
aaTTTAACCCCTAACTTTGCCTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCAGTAAAGAGTg < 1:3119369/65‑1 (MQ=255)
tttAACCGCTAACTTTGCCTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGaa > 1:2713360/1‑69 (MQ=255)
ttAACCGCTAACTTTGCCTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTgg > 1:2070566/1‑63 (MQ=255)
ttAACCGCTAACTTTGCCTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGaaa > 1:2190668/1‑69 (MQ=255)
ttAACCGCTAACTTTGCCTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGaaa > 1:1570688/1‑69 (MQ=255)
ttAACCGCTAACTTTGCCTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGaaa > 1:249731/1‑69 (MQ=255)
ttAACCGCTAACTTTGCCTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGaaa > 1:1815165/1‑69 (MQ=255)
ttAACCGCTAACTTTGCCTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGaaa > 1:947265/1‑69 (MQ=255)
ttAACCGCTAACTTTGCCTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGaaa > 1:1292667/1‑69 (MQ=255)
tttGCCTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTg < 1:1925555/69‑1 (MQ=255)
tGCCTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGAt > 1:2615825/1‑69 (MQ=255)
ccTTCTTCCCGGTGCAAAAAGGCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATc < 1:1861062/68‑1 (MQ=255)
ccTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATc < 1:1580740/68‑1 (MQ=255)
ccTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATc < 1:1512129/68‑1 (MQ=255)
ttcttcCCGGTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGc < 1:2340820/69‑1 (MQ=255)
ttcttcCCGGTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGc < 1:2486402/69‑1 (MQ=255)
ttcttcCCGGTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGc < 1:157138/69‑1 (MQ=255)
ttcttcCCGGTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGc < 1:3094948/69‑1 (MQ=255)
ttcttcCCGGTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGc < 1:3055490/69‑1 (MQ=255)
cGGTGCAAAAAGCCAACGTAGAAAGCAGTAAAGAGTGGAc > 1:2623293/1‑40 (MQ=255)
cGGTGCAAAAAGCCAACGTAGAAAGCAGTAAAGAGTGGACGAAACCCGGAAAt > 1:3134903/1‑53 (MQ=255)
cGGTGCAAAAAGCCAACGTAGAAAGCAGTAAAGAGTGGACGAAACCCGGAAAt > 1:2745618/1‑53 (MQ=255)
cGGTGCAAAAAGCCAACGTAGAAAGCAGTAAAGAGTGGACGAAACCCGGAAAt > 1:2805665/1‑53 (MQ=255)
cGGTGCAAAAAGCCAACGTAGAAAGCAGTAAAGAGTGGACGAAACCCGGAAAt > 1:3032285/1‑53 (MQ=255)
cGGTGCAAAAAGCCAACGTAGAAAGCAGTAAAGAGTGGACGAAACCCGGAAAt > 1:2166842/1‑53 (MQ=255)
cGGTGCAAAAAGCCAACGTAGAAAGCAGTAAAGAGTGGACGAAACCCGGAAAt > 1:3310546/1‑53 (MQ=255)
cGGTGCAAAAAGCCAACGTAGAAAGCAGTAAAGAGTGGACGAAACCCGGAAAt > 1:2359369/1‑53 (MQ=255)
cGGTGCAAAAAGCCAACGTAGAAAGCAGTAAAGAGTGGACGAAACCCGGAAAt > 1:2296435/1‑53 (MQ=255)
cGGTGCAAAAAGCCAACGTAGAAAGCAGTAAAGAGTGGACGAAACCCGGAAAt > 1:2241590/1‑53 (MQ=255)
cGGTGCAAAAAGCCAACGTAGAAAGCAGTAAAGAGTGGACGAAACCCGGAAAt > 1:364083/1‑53 (MQ=255)
cGGTGCAAAAAGCCAACGTAGAAAGCAGTAAAGAGTGGACGAAACCCGGAAAt > 1:408854/1‑53 (MQ=255)
cGGTGCAAAAAGCCAACGTAGAAAGCAGTAAAGAGTGGACGAAACCCGGAAAt > 1:45974/1‑53 (MQ=255)
cGGTGCAAAAAGCCAACGTAGAAAGCAGTAAAGAGTGGACGAAACCCGGAAAt > 1:1681731/1‑53 (MQ=255)
cGGTGCAAAAAGCCAACGTAGAAAGCAGTAAAGAGTGGACGAAACCCGGAAAt > 1:1630464/1‑53 (MQ=255)
cGGTGCAAAAAGCCAACGTAGAAAGCAGTAAAGAGTGGACGAAACCCGGAAAt > 1:868058/1‑53 (MQ=255)
cGGTGCAAAAAGCCAACGTAGAAAGCAGTAAAGAGTGGACGAAACCCGGAAAt > 1:1422249/1‑53 (MQ=255)
cGGTGCAAAAAGCCAACGTAGAAAGCAGTAAAGAGTGGACGAAACCCGGAAAt > 1:1075236/1‑53 (MQ=255)
cGGTGCAAAAAGCCAACGTAGAAAGCAGTAAAGAGTGGACGAAACCCGGAAAt > 1:1007577/1‑53 (MQ=255)
cGGTCCAAAAAGCCAACGTAGAAAGCAGTAAAGAGTGGACGAAACCCGGAAAt > 1:1557602/1‑53 (MQ=255)
gTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGCAATGGCGCt < 1:3374037/69‑1 (MQ=255)
gTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGCAATGGCGCt < 1:99436/69‑1 (MQ=255)
gTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGCAATGGCGCt < 1:3005833/69‑1 (MQ=255)
gTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGCAATGGCGCt < 1:1520255/69‑1 (MQ=255)
gTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGCAATGGCGCt < 1:1555740/69‑1 (MQ=255)
gTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGCAATGGCGCt < 1:2118961/69‑1 (MQ=255)
gTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGCAATGGCGCt < 1:2399991/69‑1 (MQ=255)
gTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGCAATGGCGCt < 1:2723539/69‑1 (MQ=255)
gTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGCAATGGCGCt < 1:2767507/69‑1 (MQ=255)
gTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGCAATGGCGCt < 1:2805731/69‑1 (MQ=255)
cAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGc < 1:2447974/57‑1 (MQ=255)
cAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGc < 1:2289614/57‑1 (MQ=255)
cAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGc < 1:3420883/57‑1 (MQ=255)
cAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGc < 1:3422474/57‑1 (MQ=255)
cAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGc < 1:349924/57‑1 (MQ=255)
cAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGc < 1:1938417/57‑1 (MQ=255)
cAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGc < 1:872126/57‑1 (MQ=255)
ccAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGCAATGGCGCTTATGTTCTTa < 1:948534/69‑1 (MQ=255)
ccAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGCAATGGCGCTTATGTTCTTa < 1:1124009/69‑1 (MQ=255)
ccAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGCAATGGCGCTTATGTTCTTa < 1:919997/69‑1 (MQ=255)
ccAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGCAATGGCGCTTATGTTCTTa < 1:1015291/69‑1 (MQ=255)
ccAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGCAATGGCGCTTATGTTCTTa < 1:1883956/69‑1 (MQ=255)
ccAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGCAATGGCGCTTATGTTCTTa < 1:2146159/69‑1 (MQ=255)
ccAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGCAATGGCGCTTATGTTCTTa < 1:2512600/69‑1 (MQ=255)
ccAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGCAATGGCGCTTATGTTCTTa < 1:2810477/69‑1 (MQ=255)
cAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGCAATGGCGCTTATGTTCTTa < 1:1983289/68‑1 (MQ=255)
gTAGAAAGCGGTAAAGAGTGGACGAAACCCGTAAATCTGATCGGc < 1:918443/45‑1 (MQ=255)
aaaGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGc < 1:825151/41‑1 (MQ=255)
|
GCCGTGGTTTGTGAATTTAACCGCTAACTTTGCCTTCTTCCCGGTGCAAAAAGCCAACGTAGAAAGCGGTAAAGAGTGGACGAAACCCGGAAATCTGATCGGCAATGGCGCTTATGTTCTTA > minE/923688‑923809
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
