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 |
1,229,092 |
C→A |
29.4% |
A23A (GCC→GCA) |
holE → |
DNA polymerase III, theta subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,229,092 | 0 | C | A | 29.4%
| 108.1
/ 42.0
| 78 | A23A (GCC→GCA) | holE | DNA polymerase III, theta subunit |
| Reads supporting (aligned to +/- strand): ref base C (28/27); new base A (17/6); total (45/33) |
| Fisher's exact test for biased strand distribution p-value = 8.00e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGCTGAAGAATCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTACAATATGCCGGTGATCGCTGAAGCGGTTGAACGTGAACA > minE/1229025‑1229154
|
tGCTGAAGAATCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCg > 1:2069001/1‑69 (MQ=255)
cTGAAGAATCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCgg < 1:3218497/68‑1 (MQ=255)
tGAAGAATCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCAggtg > 1:407488/1‑67 (MQ=255)
tGAAGAATCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCAgggg > 1:2317843/1‑69 (MQ=255)
tGAAGAATCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCAgggg > 1:2137566/1‑69 (MQ=255)
tGAAGAATCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCAgggg > 1:218123/1‑69 (MQ=255)
tGAAGAATCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCAgggg > 1:2106473/1‑69 (MQ=255)
tGAAGAATCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCAgggg > 1:3227181/1‑69 (MQ=255)
tGAAGAATCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCAgggg > 1:191628/1‑69 (MQ=255)
tGAAGAATCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCAgggg > 1:2207742/1‑69 (MQ=255)
tGAAGAATCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCAgggg > 1:488795/1‑69 (MQ=255)
tGAAGAATCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCAgggg > 1:1702278/1‑69 (MQ=255)
tGAAGAATCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCAgggg > 1:3117324/1‑69 (MQ=255)
tGAAGAATCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCAgggg > 1:2677547/1‑69 (MQ=255)
tGAAGAATCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCAgggg > 1:1310251/1‑69 (MQ=255)
tGAAGAATCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCAgggg > 1:2895097/1‑69 (MQ=255)
tGAAGAATCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCAgggg > 1:2605125/1‑69 (MQ=255)
tGAAGAATCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCAgggg > 1:1486743/1‑69 (MQ=255)
tGAAGAATCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCAggg > 1:557311/1‑68 (MQ=255)
aaTCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGc < 1:2192628/68‑1 (MQ=255)
aTCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCgg > 1:2761736/1‑61 (MQ=255)
aTCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCgg > 1:744858/1‑61 (MQ=255)
aTCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCgg > 1:2505750/1‑61 (MQ=255)
aTCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCgg > 1:1836795/1‑61 (MQ=255)
aTCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCgg > 1:1725357/1‑61 (MQ=255)
tCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCa > 1:156044/1‑67 (MQ=255)
tCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCa > 1:2966883/1‑67 (MQ=255)
tCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCAt > 1:2508612/1‑68 (MQ=255)
tCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCAt > 1:3142940/1‑68 (MQ=255)
tCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCAt > 1:2828545/1‑68 (MQ=255)
tCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCAt > 1:978343/1‑68 (MQ=255)
tCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCAt > 1:637297/1‑68 (MQ=255)
tCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCAt > 1:54946/1‑68 (MQ=255)
cTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCAtt > 1:953203/1‑68 (MQ=255)
cTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCAtt > 1:1375960/1‑68 (MQ=255)
cTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCAtt > 1:3275063/1‑68 (MQ=255)
cTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCAtt > 1:2263290/1‑68 (MQ=255)
tGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCAtt > 1:1265878/1‑67 (MQ=255)
ggATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTa < 1:2147979/69‑1 (MQ=255)
ggATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTa < 1:1495508/69‑1 (MQ=255)
ggATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTa < 1:1574416/69‑1 (MQ=255)
ggATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTa < 1:1714358/69‑1 (MQ=255)
ggATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTa < 1:2102030/69‑1 (MQ=255)
ggATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTa < 1:2108889/69‑1 (MQ=255)
ggATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTa < 1:2166230/69‑1 (MQ=255)
ggATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTa < 1:3219747/69‑1 (MQ=255)
tCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTACaa < 1:3044639/69‑1 (MQ=255)
tCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTACaa < 1:324405/69‑1 (MQ=255)
tCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTACaa < 1:2357917/69‑1 (MQ=255)
tCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTACaa < 1:2609444/69‑1 (MQ=255)
tCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTACaa < 1:1145160/69‑1 (MQ=255)
aaTGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTACAATATGCCGGt < 1:1522111/69‑1 (MQ=255)
aaTGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTACAATATGCCGGt < 1:429893/69‑1 (MQ=255)
aaTGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTACAATATGCCGGt < 1:705541/69‑1 (MQ=255)
aaTGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTACAATATGCCGGt < 1:3231023/69‑1 (MQ=255)
aaTGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTACAATATGCCGGt < 1:3116103/69‑1 (MQ=255)
aaTGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTACAATATGCCGGt < 1:2454587/69‑1 (MQ=255)
aaTGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGCTGGCATTTAAAGAACGCTACAATATGCCGGt < 1:2182630/69‑1 (MQ=255)
tAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTACAATATGCCGGTGATCg > 1:2086463/1‑68 (MQ=255)
tAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTACAATATGCCGGTGATCg > 1:1476654/1‑68 (MQ=255)
tCGATTTGGCGGTGGCCGGGGTGGCATTTAAAGAACGCTACAATATGCCGGTGAt > 1:684988/1‑55 (MQ=255)
tCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTACAATATGCCGGTGAt > 1:2134639/1‑55 (MQ=255)
tCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTACAATATGCCGGTGAt > 1:2129850/1‑55 (MQ=255)
tCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTACAATATGCCGGTGAt > 1:688093/1‑55 (MQ=255)
tCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTACAATATGCCGGTGAt > 1:805406/1‑55 (MQ=255)
tCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTACAATATGCCGGTGAt > 1:456290/1‑55 (MQ=255)
tCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTACAATATGCCGGTGATCGCTGAAGCGGTTg > 1:2062939/1‑69 (MQ=255)
ttttGCGGCGGCAGGGGTGGCATTTAAAGAACGCTACAATATGCCAGTGATCGCTGAAGCGGTTGAACg < 1:1878639/69‑1 (MQ=255)
tttGGCGGCGGCAGGGGTGGCATTTAAAGAACGCTACAATATGCCAGTGATCGCTGAAGCGGTTGAACg < 1:1513308/69‑1 (MQ=255)
tttGGCGGCGGCAGGGGTGGCATTTAAAGAACGCTACAATATGCCAGTGATCGCTGAAGCGGTTGAACg < 1:1226604/69‑1 (MQ=255)
tttGGCGGCGGCAGGGGTGGCATTTAAAGAACGCTACAATATGCCAGTGATCGCTGAAGCGGTTGAACg < 1:1695332/69‑1 (MQ=255)
tttGGCGGCGGCAGGGGTGGCATTTAAAGAACGCTACAATATGCCAGTGATCGCTGAAGCGGTTGAACg < 1:1887150/69‑1 (MQ=255)
ttGGCGGCGGCAGGGGTGGCATTTAAAGAACGCTACAATATGCCAGTGATCGCTGAAGCGGTTGAACg < 1:131114/68‑1 (MQ=255)
tGGCGGCGGCCTGGGTGGCATTTAAAGAACGCTACAATATGCCGGTGATCGCTGAAGCGGTTGAACGTg < 1:32672/69‑1 (MQ=255)
gtcggcCGGGGTGGCATTTAAAGAACGCTACAATATGCCGGTGATCGCTGAAGCGGTTGAACGTGAACa < 1:2987055/67‑1 (MQ=255)
ggcggcCGGGGTGGCATTTAAAGAACGCTACAATATGCCGGt < 1:2820244/42‑1 (MQ=255)
ggcggcCGGGGTGGCATTTAAAGAACGCTACAATATGCCGGTGATCGCTGAAGCGGTTGAACGTGAACa < 1:1811515/69‑1 (MQ=255)
ggcggcCGGGGTGGCATTTAAAGAACGCTACAATATGCCGGTGATCGCTGAAGCGGTTGAACGTGAACa < 1:2483815/69‑1 (MQ=255)
|
TGCTGAAGAATCTGGCTAAACTGGATCAAACAGAAATGGATAAAGTGAATGTCGATTTGGCGGCGGCCGGGGTGGCATTTAAAGAACGCTACAATATGCCGGTGATCGCTGAAGCGGTTGAACGTGAACA > minE/1229025‑1229154
|
| 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
