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 |
1,570,677 |
T→G |
60.6% |
A339A (GCT→GCG) |
nupC → |
nucleoside (except guanosine) transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,570,677 | 0 | T | G | 60.6%
| 58.2
/ 61.8
| 76 | A339A (GCT→GCG) | nupC | nucleoside (except guanosine) transporter |
| Reads supporting (aligned to +/- strand): ref base T (17/13); new base G (23/23); total (40/36) |
| Fisher's exact test for biased strand distribution p-value = 6.42e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GTTTCCAACGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGCATCATCTCTGTGTTCCTGGTTTCCTTCGCTAACTTCTCTTCAATCGGGATT > minE/1570612‑1570734
|
gTTTCCAACGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGaa > 1:195167/1‑69 (MQ=255)
tCCAACGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGc > 1:1552697/1‑69 (MQ=255)
tCCAACGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGc > 1:1863513/1‑69 (MQ=255)
tCCAACGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGc > 1:1995375/1‑69 (MQ=255)
tCCAACGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGc > 1:350908/1‑69 (MQ=255)
tCCAACGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGc > 1:3066170/1‑69 (MQ=255)
tCCAACGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGc > 1:1549696/1‑69 (MQ=255)
tCCAACGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGc > 1:855019/1‑69 (MQ=255)
tCCAACGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGc > 1:216709/1‑69 (MQ=255)
tCCAACGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGc > 1:2231244/1‑69 (MQ=255)
tCCAACGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGc > 1:1309620/1‑69 (MQ=255)
tCCAACGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGc > 1:1235718/1‑69 (MQ=255)
tCCAACGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGc > 1:547069/1‑69 (MQ=255)
cGAGTTCTTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCGGaa < 1:1828422/61‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTGTCCGCGTGCGGaa < 1:1788149/61‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGcatcat < 1:854918/69‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGcatcat < 1:698190/69‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGcatcat < 1:607044/69‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGcatcat < 1:806628/69‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGcatcat < 1:1872947/69‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGcatcat < 1:1828287/69‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGcatcat < 1:10028/69‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGcatcat < 1:1604935/69‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGcatcat < 1:966254/69‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGcatcat < 1:452933/69‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGcatcat < 1:1486979/69‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCGGaa < 1:2116510/61‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCGGaa < 1:601317/61‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCGGaa < 1:2652248/61‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCGGaa < 1:2791221/61‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCGGaa < 1:413218/61‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCGGaa < 1:362228/61‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCGGaa < 1:2911438/61‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCGGaa < 1:2980550/61‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCGGaa < 1:2991464/61‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCGGaa < 1:564715/61‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCGGaa < 1:3197936/61‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCGGaa < 1:604469/61‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCGGaa < 1:866445/61‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCGGaa < 1:1050986/61‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCGGaa < 1:1397966/61‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCGGaa < 1:1640139/61‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCGGaa < 1:1752632/61‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCGGaa < 1:2080695/61‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCGGaa < 1:2109833/61‑1 (MQ=255)
cGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCGGaa < 1:84193/61‑1 (MQ=255)
gAGTTCGTTGCGATTATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCGGaa < 1:2085280/60‑1 (MQ=255)
gAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCGACGCTCTCTCCGCGTGCTGAAGGcatcat < 1:959462/68‑1 (MQ=255)
gAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGcatcat < 1:2266513/68‑1 (MQ=255)
tCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGCATCATCTCTGTGTTCCTGGTTTCCtt > 1:1727660/1‑69 (MQ=255)
tCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGCATCATCTCTGTGTTCCTGGTTTCCt > 1:632776/1‑68 (MQ=255)
tCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGCATCATCTCTGTGTTCCTGGTTTCCt > 1:1925273/1‑68 (MQ=255)
aCGCTCTCTCCGCGTGCGGAAGGCATCATCTCTGTGTTCCTGGTTTc > 1:1480092/1‑47 (MQ=255)
aCGCTCTCTCCGCGTGCGGAAGGCATCATCTCTGTGTTCCTGGTTTCCTTCGCTAtcttct > 1:609844/1‑61 (MQ=255)
aCGCTCTCTCCGCGTGCGGAAGGCATCATCTCTGTGTTCCTGGTTTCCTTCGCTAACTtct > 1:704776/1‑61 (MQ=255)
aCGCTCTCTCCGCGTGCGGAAGGCATCATCTCTGTGTTCCTGGTTTCCTTCGCTAACTtct > 1:977083/1‑61 (MQ=255)
aCGCTCTCTCCGCGTGCGGAAGGCATCATCTCTGTGTTCCTGGTTTCCTTCGCTAACTtct > 1:976405/1‑61 (MQ=255)
aCGCTCTCTCCGCGTGCGGAAGGCATCATCTCTGTGTTCCTGGTTTCCTTCGCTAACTtct > 1:671973/1‑61 (MQ=255)
aCGCTCTCTCCGCGTGCGGAAGGCATCATCTCTGTGTTCCTGGTTTCCTTCGCTAACTtct > 1:3193053/1‑61 (MQ=255)
aCGCTCTCTCCGCGTGCGGAAGGCATCATCTCTGTGTTCCTGGTTTCCTTCGCTAACTtct > 1:135745/1‑61 (MQ=255)
aCGCTCTCTCCGCGTGCGGAAGGCATCATCTCTGTGTTCCTGGTTTCCTTCGCTAACTtct > 1:1447048/1‑61 (MQ=255)
aCGCTCTCTCCGCGTGCGGAAGGCATCATCTCTGTGTTCCTGGTTTCCTTCGCTAACTtct > 1:1592491/1‑61 (MQ=255)
aCGCTCTCTCCGCGTGCGGAAGGCATCATCTCTGTGTTCCTGGTTTCCTTCGCTAACTtct > 1:1830995/1‑61 (MQ=255)
aCGCTCTCTCCGCGTGCGGAAGGCATCATCTCTGTGTTCCTGGTTTCCTTCGCTAACTtct > 1:2005733/1‑61 (MQ=255)
aCGCTCTCTCCGCGTGCGGAAGGCATCATCTCTGTGTTCCTGGTTTCCTTCGCTAACTtct > 1:2145294/1‑61 (MQ=255)
aCGCTCTCTCCGCGTGCGGAAGGCATCATCTCTGTGTTCCTGGTTTCCTTCGCTAACTtct > 1:2199810/1‑61 (MQ=255)
aCGCTCTCTCCGCGTGCGGAAGGCATCATCTCTGTGTTCCTGGTTTCCTTCGCTAACTtct > 1:2221534/1‑61 (MQ=255)
aCGCTCTCTCCGCGTGCGGAAGGCATCATCTCTGTGTTCCTGGTTTCCTTCGCTAACTtct > 1:2319083/1‑61 (MQ=255)
aCGCTCTCTCCGCGTGCGGAAGGCATCATCTCTGTGTTCCTGGTTTCCTTCGCTAACTtct > 1:2548080/1‑61 (MQ=255)
aCGCTCTCTCCGCGTGCGGAAGGCATCATCTCTGTGTTCCTGGTTTCCTTCGCTAACTtct > 1:3022678/1‑61 (MQ=255)
aCGCTCTCTCCGCGTGCGGAAGGCATCATCTCTGTGTTCCTGGTTTCCTTCGCTAACTtct > 1:3055374/1‑61 (MQ=255)
aCGCTCTCTCCGCGTGCGGAAGGCATCATCTCTGTGTTCCTGGTTTCCTTCGCTAACTtct > 1:3092633/1‑61 (MQ=255)
aCGCTCTCTCCGCGTGCGGAAGGCATCATCTCTGTGTTCCTGGTTTCCTTCGCTAACTtct > 1:3093234/1‑61 (MQ=255)
aCGCTCTCTCCGCGTGCGGAAGGCATCATCTCTGTGTTCCTGGGTTCCTTCGCTAACTtct > 1:2308409/1‑61 (MQ=255)
aCGCTCTCTCCGCGTGCGGAAGGCATCATCTCTGTGTTC‑‑GGTTTCCTTCGCTAACTtct > 1:3350382/1‑59 (MQ=255)
tctcCGCGTGCTGAAGGCATCATCTCTGTGTTCCTGGTTTCCTTCGCTAACTTCTCTTCAATCGGGAtt > 1:2254477/1‑69 (MQ=255)
|
GTTTCCAACGAGTTCGTTGCGATGATGGATCTGCAGAAAATTGCTTCCACGCTCTCTCCGCGTGCTGAAGGCATCATCTCTGTGTTCCTGGTTTCCTTCGCTAACTTCTCTTCAATCGGGATT > minE/1570612‑1570734
|
| 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
