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 F17 I0 R2
|
278 |
43.2 |
2215644 |
94.6% |
2095999 |
61.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,605,272 |
A→G |
31.5% |
L50L (CTT→CTC) |
uspA ← |
universal stress global response regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,605,272 | 0 | A | G | 31.5%
| 65.5
/ 47.6
| 54 | L50L (CTT→CTC) | uspA | universal stress global response regulator |
| Reads supporting (aligned to +/- strand): ref base A (19/18); new base G (3/14); total (22/32) |
| Fisher's exact test for biased strand distribution p-value = 3.52e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GGTCAGTGCATGATGTGTCTCTTCAGAGATGCGTTTCTGCATATCACCCAGATTCACATCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGTGGATCAGAGAAACTTTCGCATTGTAG > minE/2605209‑2605335
|
ggTCAGTGCATGATGTTTCTCTTCAGAGATGCGTTTCTGCATATCACCCAGATTCACATCAATGAGCCCg < 1:1154830/70‑1 (MQ=255)
ggTCAGTGCATGATGTGTCTCTTCAGAGATGCGTTTCTGCATATCACCCAGATTCACATCAATAAGCCCgg > 1:2153935/1‑71 (MQ=255)
tCAGTGCATGATGTGTCTCTTCAGAGATGCGTTTCTGCATATCACCCAGATTCACATCAATAAGCCCGgtg < 1:750460/71‑1 (MQ=255)
tGCATGATGTGTCTCTTCAGAGATGCGTTTCTGCATATCACCCAGATTCACATCAATGAGCCCGGTGtata < 1:1151697/71‑1 (MQ=255)
tGCATGATGTGTCTCTTCAGAGATGCGTTTCTGCATATCACCCAGATTCACATCAATGAGCCCGGTGtata < 1:356908/71‑1 (MQ=255)
atgTGTCTCTTCAGAGATGCGTTTCTGCATATCACCCAGATTCACATCAATAAGCCCGGTGTATAGGt > 1:1516326/1‑68 (MQ=255)
tttgtCTCTTCAGAGATGCGTTTCTGCATATCACCCAGATTCACATCAATGAGCCCGgtgt < 1:1495131/59‑1 (MQ=255)
tgtgTCTCTTCAGAGATGCGTTTCTGCATATCACCCAGATTCACATCAATGAGCCCGgtgt < 1:2205481/61‑1 (MQ=255)
tgtgTCTCTTCAGAGATGCGTTTCTGCATATCACCCAGATTCACATCAATGAGCCCGgtgt < 1:547031/61‑1 (MQ=255)
tgtCTCTTCAGAGATGCGTTTCTGCATATCACCCAGATTCACATCAATAAGCCCGGTGTATAGGTCAGagt < 1:1474070/71‑1 (MQ=255)
tctcTTCAGAGATGCGTTTCTGCATATCACCCAGATTCACATCAATAAGccc < 1:1449643/52‑1 (MQ=255)
tctcTTCAGAGATGCGTTTCTGCATATCACCCAGATTCACATCAATAAGCCCGGTGTATAGGTCa < 1:2190916/65‑1 (MQ=255)
ttCAGAGATGCGTTTCTGCATATCACCCAGATTCACATCAATGAGCCCGgtg < 1:310152/52‑1 (MQ=255)
cAGAGATGCGTTTCTGCATATCACCCAGATTCACATCAATGAGCCCGGTGTATAGGTCAGAGTAGttt < 1:721132/68‑1 (MQ=255)
agaTGCGTTTCTGCATATCACCCAGATTCACATCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACATCt < 1:1842206/71‑1 (MQ=255)
gCGTTTCTGCATATCACCCAGATTCACATCAATAAGCCCGGTGtata > 1:443634/1‑47 (MQ=255)
ttCTGCATATCACCCAGATTCACATCAATAAGCCCGGTGTATAGGTCAGagta < 1:1041374/53‑1 (MQ=255)
ttCTGCATATCACCCAGATTCACATCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGTGGAt > 1:862336/1‑71 (MQ=255)
tCTGCATATCACCCAGATTCACATAAATAAGCCCGGTGTATAGGTCAGAGTAGTTTAc > 1:1893782/1‑58 (MQ=255)
cATATCACCCAGATTCACATGAATGAGCCCGGTGTATAGGTCAGAGTAGTTTa > 1:2016927/1‑53 (MQ=255)
cATATCACCCAGATTCACATCAATGAGCCCGGTGTATAGGTCAGAGTAGTTTa > 1:1954542/1‑53 (MQ=255)
atatCACCCAGATTCACATCAATGAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGTGGATCagag > 1:316307/1‑70 (MQ=255)
atatCACCCAGATTCACATCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGTGGATCAgaga < 1:608444/71‑1 (MQ=255)
tatCACCCAGATTCACATCAATAAGCCCGGTGtat < 1:131857/35‑1 (MQ=255)
atCACCCAGATTCACATCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGTGGAt > 1:1882699/1‑63 (MQ=255)
tCACCCAGATTCACATCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGTGTATCAGAGAAAc > 1:2157450/1‑71 (MQ=255)
tCACCCAGATTCACATCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGTGGATCa > 1:782918/1‑64 (MQ=255)
tCACCCAGATTCACATCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGTGGATCa > 1:324915/1‑64 (MQ=255)
tCACCCAGATTCACATCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGTGGATCAGAGAAAc < 1:1459579/71‑1 (MQ=255)
tCACCCAGATTCACATCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGTGGATCAGAGAAAc > 1:79777/1‑71 (MQ=255)
cACCCAGATTCACATCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACATc > 1:1014366/1‑52 (MQ=255)
cACCCAGATTCACATCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACATc > 1:1283663/1‑52 (MQ=255)
cACCCAGATTCACATCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGTGGATCAGAGAAACt > 1:696500/1‑71 (MQ=255)
cACCCAGATTCACATCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGTGGATCAGAGAAACt > 1:141140/1‑71 (MQ=255)
aCCCAGATTCACATCAATGAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGTGGATCAGAGAAACt < 1:1410160/70‑1 (MQ=255)
aCCCAGATTCACATCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGTGGATCAGAGAAACtt < 1:544154/71‑1 (MQ=255)
aGATTCACATCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGTGGAt > 1:2175968/1‑56 (MQ=255)
gATTCACATCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGt < 1:108419/51‑1 (MQ=255)
aTTCACATCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGt < 1:1017184/50‑1 (MQ=255)
aTTCACATCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGTGGATCAGAGAAACTTTCGCAt < 1:1572346/71‑1 (MQ=255)
aTTCACATCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGTGGATCAGAGAAACTTTCGCAt > 1:1463623/1‑71 (MQ=255)
aTTCACATCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGTGGATCAGAGAAACTTTCGCAt > 1:1461022/1‑71 (MQ=255)
ttCACATCAATGAGCCCGGTGTATAGGTCAGAGTAGtt < 1:595565/38‑1 (MQ=255)
ttCACATCAATGAGCCCGGTGTATAGGTCAGAGTAGtt < 1:1261680/38‑1 (MQ=255)
ttCACATCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACa > 1:971626/1‑42 (MQ=255)
ttCACATCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGTGGATCAGAGAAACTTTCGCAtt > 1:1296604/1‑71 (MQ=255)
cacaTCAATGAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGTGGATCAGAGAAACTTTCGCATTg < 1:130532/70‑1 (MQ=255)
acaTCAATGAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGTGGATCAGAGAAACTTTCGCATTGTa < 1:135305/71‑1 (MQ=255)
acaTCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGTGGATCAGAGAAACTTTCTCATTGt < 1:644819/70‑1 (MQ=255)
acaTCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGTGGATCAGAGAAACTTTCGCATTg < 1:2096503/69‑1 (MQ=255)
caTCAATGAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGTGGATCAGAGAAACTTTCGCATTGTAg < 1:2154392/71‑1 (MQ=255)
caTCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGTGGATCAGAGAAACtt < 1:1465092/60‑1 (MQ=255)
caTCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGTGGATCAGAGAAACTTTCGc < 1:1288417/64‑1 (MQ=255)
caTCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGTGGATCAGAGAAACTTTCGCa < 1:1814009/65‑1 (MQ=255)
|
GGTCAGTGCATGATGTGTCTCTTCAGAGATGCGTTTCTGCATATCACCCAGATTCACATCAATAAGCCCGGTGTATAGGTCAGAGTAGTTTACATCTACGTGGATCAGAGAAACTTTCGCATTGTAG > minE/2605209‑2605335
|
| 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
