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 |
2,366,274 |
T→A |
43.7% |
L393L (CTA→CTT) |
pepQ ← |
proline dipeptidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,366,274 | 0 | T | A | 43.7%
| 22.9
/ 75.3
| 71 | L393L (CTA→CTT) | pepQ | proline dipeptidase |
| Reads supporting (aligned to +/- strand): ref base T (27/13); new base A (9/22); total (36/35) |
| Fisher's exact test for biased strand distribution p-value = 1.83e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATACGGG > minE/2366216‑2366338
|
cTTCAATTTTCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGa < 1:251822/69‑1 (MQ=255)
cTTCAATTTTCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGa < 1:216225/69‑1 (MQ=255)
cTTCAATTTTCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGa < 1:2275311/69‑1 (MQ=255)
cTTCAATTTTCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGa < 1:2310726/69‑1 (MQ=255)
cTTCAATTTTCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGa < 1:2429037/69‑1 (MQ=255)
cTTCAATTTTCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGa < 1:2461059/69‑1 (MQ=255)
cTTCAATTTTCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGa < 1:1989590/69‑1 (MQ=255)
cTTCAATTTTCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGa < 1:2631599/69‑1 (MQ=255)
cTTCAATTTTCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGa < 1:3048971/69‑1 (MQ=255)
cTTCAATTTTCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGa < 1:1418331/69‑1 (MQ=255)
cTTCAATTTTCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGa < 1:3063283/69‑1 (MQ=255)
cTTCAATTTTCTGACAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGa < 1:2414311/69‑1 (MQ=255)
ttCAATTTTCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGa < 1:2463305/68‑1 (MQ=255)
ttCAATTTTCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGa < 1:622212/68‑1 (MQ=255)
ttCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGATGAAGTa > 1:2539727/1‑68 (MQ=255)
ttCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGATGAAGTa > 1:1048134/1‑68 (MQ=255)
ttCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGATGAAGTa > 1:3373294/1‑68 (MQ=255)
ttCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGATGAAGTa > 1:533071/1‑68 (MQ=255)
ttCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGATGAAGTa > 1:67257/1‑68 (MQ=255)
ttCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGATGAAGTa > 1:2260964/1‑68 (MQ=255)
ttCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGATGAAGTa > 1:2167911/1‑68 (MQ=255)
ttCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGATGAAGTa > 1:895384/1‑68 (MQ=255)
ttCTGCCAGTTGAAGTGTTTGCTGAACTGCCCTTCACGCCACGGTGCCAGAAGCGATTCGATGAAGTa > 1:2070778/1‑68 (MQ=255)
gAAGTGCTTGCTGAACTGCCCTTCACGCCACTGTGCCAGTAGCGATTCGATGAAGTa > 1:1582592/1‑57 (MQ=255)
gAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGt > 1:2037359/1‑56 (MQ=255)
gAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTa > 1:3044562/1‑57 (MQ=255)
gAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTa > 1:999200/1‑57 (MQ=255)
gAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTa > 1:761662/1‑57 (MQ=255)
gAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTa > 1:725986/1‑57 (MQ=255)
gAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTa > 1:1212274/1‑57 (MQ=255)
gAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTa > 1:382212/1‑57 (MQ=255)
gAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTa > 1:1382995/1‑57 (MQ=255)
gAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTa > 1:3094823/1‑57 (MQ=255)
gAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTa > 1:2985627/1‑57 (MQ=255)
gAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTa > 1:1592694/1‑57 (MQ=255)
tgctGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATg > 1:1137633/1‑44 (MQ=255)
tgctGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGtt > 1:452053/1‑68 (MQ=255)
tgctGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGtt > 1:34605/1‑68 (MQ=255)
tgctGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGtt > 1:2681551/1‑68 (MQ=255)
tgctGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGtt > 1:2696750/1‑68 (MQ=255)
gAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAacac < 1:2208743/69‑1 (MQ=255)
gAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAacac < 1:453729/69‑1 (MQ=255)
gAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAacac < 1:3395203/69‑1 (MQ=255)
gAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAacac < 1:205077/69‑1 (MQ=255)
gAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAacac < 1:1399478/69‑1 (MQ=255)
gAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAacac < 1:773574/69‑1 (MQ=255)
gAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAacac < 1:1046654/69‑1 (MQ=255)
gAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAacac < 1:2586729/69‑1 (MQ=255)
cACTCCACGTTGCCAGTAGAGATTAGATGAAGTAGATACACGGTTCGATGGTTAACACCAAGCCCGGc > 1:3317573/1‑68 (MQ=255)
cACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGc > 1:1860337/1‑68 (MQ=255)
cACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGc > 1:2961619/1‑68 (MQ=255)
cACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGc > 1:3122861/1‑68 (MQ=255)
cACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGc > 1:2888587/1‑68 (MQ=255)
cACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGc > 1:2876980/1‑68 (MQ=255)
cACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGc < 1:2477988/68‑1 (MQ=255)
cACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGc > 1:356526/1‑68 (MQ=255)
cACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGc > 1:2311158/1‑68 (MQ=255)
cACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGc > 1:463792/1‑68 (MQ=255)
cACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGc > 1:975859/1‑68 (MQ=255)
aCGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGaa < 1:2114346/69‑1 (MQ=255)
aCGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGaa < 1:450482/69‑1 (MQ=255)
cGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGaa < 1:1370544/68‑1 (MQ=255)
ccAGAAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATACggg < 1:532530/69‑1 (MQ=255)
ccAGAAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATACggg < 1:2315008/69‑1 (MQ=255)
ccAGAAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATACggg < 1:2035174/69‑1 (MQ=255)
ccAGAAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATACggg < 1:2062100/69‑1 (MQ=255)
ccAGAAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATACggg < 1:1995524/69‑1 (MQ=255)
ccAGAAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATACggg < 1:2117234/69‑1 (MQ=255)
ccAGAAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATACggg < 1:3020432/69‑1 (MQ=255)
ccAGAAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATACggg < 1:1797654/69‑1 (MQ=255)
aGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGc < 1:1613071/54‑1 (MQ=255)
|
CTTCAATTTTCTGCCAGTTGAAGTGCTTGCTGAACTGCCCTTCACGCCACGGTGCCAGTAGCGATTCGATGAAGTAGATACCCGGTTCGATGGTTAACACCATGCCCGGCTGGAGAATACGGG > minE/2366216‑2366338
|
| 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
