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 |
719,311 |
C→T |
43.5% |
V215V (GTC→GTT) |
mviN → |
predicted inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 719,311 | 0 | C | T | 43.5%
| 16.5
/ 44.9
| 62 | V215V (GTC→GTT) | mviN | predicted inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base C (22/13); new base T (16/11); total (38/24) |
| Fisher's exact test for biased strand distribution p-value = 7.98e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.30e-01 |
GGCGTCCTGCAGCTGGTGTATCAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCAATGCGCGTGGTGAAACAGATGGGACCGGCGATCC > minE/719255‑719378
|
ggcaTCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCAtt < 1:1007321/69‑1 (MQ=255)
ggcaTCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCAtt < 1:2497761/69‑1 (MQ=255)
ggcaTCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCAtt < 1:1809062/69‑1 (MQ=255)
ggcaTCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCAtt < 1:1662171/69‑1 (MQ=255)
ggcaTCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCAtt < 1:305441/69‑1 (MQ=255)
ggcaTCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCAtt < 1:3058580/69‑1 (MQ=255)
ggcaTCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCAtt < 1:519117/69‑1 (MQ=255)
ggcaTCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCAtt < 1:1215704/69‑1 (MQ=255)
gcatCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCAtt < 1:1179744/65‑1 (MQ=255)
gcatCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCAtt < 1:180919/65‑1 (MQ=255)
gcatCCTGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCAtt < 1:1664387/65‑1 (MQ=255)
tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc > 1:676065/1‑69 (MQ=255)
tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc > 1:2451184/1‑69 (MQ=255)
tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc > 1:977630/1‑69 (MQ=255)
tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc > 1:2527898/1‑69 (MQ=255)
tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc > 1:2840630/1‑69 (MQ=255)
tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc > 1:744967/1‑69 (MQ=255)
tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc > 1:2878638/1‑69 (MQ=255)
tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc > 1:2930962/1‑69 (MQ=255)
tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc > 1:3266404/1‑69 (MQ=255)
tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc > 1:3271658/1‑69 (MQ=255)
tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc > 1:3336319/1‑69 (MQ=255)
tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc > 1:3341224/1‑69 (MQ=255)
tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc > 1:1284906/1‑69 (MQ=255)
tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc > 1:1339772/1‑69 (MQ=255)
tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc > 1:1437206/1‑69 (MQ=255)
tGCAGCTGGTGTATCAGCTACCTCATCTGAAGAAGATCGGCATGCTGGTTTTGCCACGCATTAACTTcc > 1:1078713/1‑69 (MQ=255)
tCAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGGGc > 1:3311242/1‑69 (MQ=255)
tCAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGc < 1:1001672/69‑1 (MQ=255)
tCAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGc > 1:423474/1‑69 (MQ=255)
tCAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGc > 1:3189214/1‑69 (MQ=255)
tCAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGc > 1:2989108/1‑69 (MQ=255)
cAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGa > 1:779448/1‑66 (MQ=255)
cAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGc > 1:530596/1‑68 (MQ=255)
cAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCa > 1:2045926/1‑69 (MQ=255)
cAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCa > 1:229805/1‑69 (MQ=255)
cAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCa > 1:948896/1‑69 (MQ=255)
cAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCa > 1:3335340/1‑69 (MQ=255)
cAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCa > 1:1133267/1‑69 (MQ=255)
cAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCa > 1:939048/1‑69 (MQ=255)
cAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCa > 1:2138271/1‑69 (MQ=255)
cAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCa > 1:3179112/1‑69 (MQ=255)
cAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCa > 1:1111927/1‑69 (MQ=255)
cAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCa > 1:2553812/1‑69 (MQ=255)
cAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCa > 1:1609355/1‑69 (MQ=255)
cAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCa > 1:89494/1‑69 (MQ=255)
aCCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTc > 1:1445595/1‑49 (MQ=255)
aCCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTc > 1:2161743/1‑49 (MQ=255)
tGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCATGATGCCGGAGc < 1:2801505/55‑1 (MQ=255)
tGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGc < 1:791797/55‑1 (MQ=255)
tGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGc < 1:2204263/55‑1 (MQ=255)
tGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGc < 1:334645/55‑1 (MQ=255)
tGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGc < 1:3172925/55‑1 (MQ=255)
tGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGc < 1:1444867/55‑1 (MQ=255)
tGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGc < 1:1705785/55‑1 (MQ=255)
tGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGc < 1:2802416/55‑1 (MQ=255)
tGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGc < 1:2157990/55‑1 (MQ=255)
tGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCAATGCGCGTGGTGa < 1:1423096/69‑1 (MQ=255)
gaagaaGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGc < 1:2175895/54‑1 (MQ=255)
gaagaTCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCAATGCGCGTGGTGAAACa < 1:3146665/69‑1 (MQ=255)
atGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCaa > 1:3205655/2‑40 (MQ=255)
tCCTGCCGCGCATTAACTTCCACGATGCCGGAGCAATGCGCGTGGTGAAACAGATGGGACCGGCGATcc > 1:811962/1‑69 (MQ=255)
ccTGCCGCGCATTAACTTCCACGATGCCGGAGCAATGCGCGTGGTGAAACAGATGGGACCGGCGATc < 1:2435672/67‑1 (MQ=255)
|
GGCGTCCTGCAGCTGGTGTATCAGCTACCGCACCTGAAGAAGATCGGCATGCTGGTCCTGCCGCGCATTAACTTCCACGATGCCGGAGCAATGCGCGTGGTGAAACAGATGGGACCGGCGATCC > minE/719255‑719378
|
| 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
