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 |
2,082,504 |
T→C |
34.5% |
H217H (CAT→CAC) |
exuR → |
DNA‑binding transcriptional repressor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,082,504 | 0 | T | C | 34.5%
| 57.5
/ 47.6
| 84 | H217H (CAT→CAC) | exuR | DNA‑binding transcriptional repressor |
| Reads supporting (aligned to +/- strand): ref base T (4/51); new base C (22/7); total (26/58) |
| Fisher's exact test for biased strand distribution p-value = 1.56e-10 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.79e-01 |
CAAATCCTCAAGGCGCTGATTCGCAAAGATCCTCATGCTGCTAAGCTGGCAATGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTCAATGCC > minE/2082442‑2082564
|
cAAATCCTCAAGGCGCTGATTCGCAAAGATCCTCATGCTGCTAAGCTTGCAATGTGGCAGCAt > 1:2757021/1‑63 (MQ=255)
cAAATCCTCAAGGCGCTGATTCGCAAAGATCCTCATGCTGCTAAGCTGGCAATGTGGCAGCAt > 1:238692/1‑63 (MQ=255)
cAAATCCTCAAGGCGCTGATTCGCAAAGATCCTCATGCTGCTAAGCTGGCAATGTGGCAGCAt > 1:3070919/1‑63 (MQ=255)
cAAATCCTCAAGGCGCTGATTCGCAAAGATCCTCATGCTGCTAAGCTGGCAATGTGGCAGCAt > 1:1713851/1‑63 (MQ=255)
cAAATCCTCAAGGCGCTGATTCGCAAAGATCCTCATGCTGCTAAGCTGGCAATGTGGCAGCAt > 1:2772142/1‑63 (MQ=255)
cAAATCCTCAAGGCGCTGATTCGCAAAGATCCTCATGCTGCTAAGCTGGCAATGTGGCAGCATCTGGaa > 1:1767413/1‑69 (MQ=255)
aaaTCCTCAAGGCGCTGATTCGCAAAGATCCTCATGCTGCTAAGCTGGCAATGTGGCAGCATCTGGaaa < 1:1759355/69‑1 (MQ=255)
aaaTCCTCAAGGCGCTGATTCGCAAAGATCCTCATGCTGCTAAGCTGGCAATGTGGCAGCATCTGGaaa < 1:2518765/69‑1 (MQ=255)
aTCCTCAAGGCGCTGATTCGCAAAGATCCTCATGCTGCTAAGCTGGCAATGTGGCAGCATCTGGAAAac > 1:1682190/1‑69 (MQ=255)
cgcTGATTCGCAAAGATCCTCATGCTGCTAAGCTGGCAATGTGGCAGCATCTGGAAAACACCAAGATCa > 1:2617824/1‑69 (MQ=255)
gATCCTCATGCTGCTAAGCTGGCAATGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGaa < 1:2217422/69‑1 (MQ=255)
cATGCTGCTAAGCTGGCAATGTGGCAGCATCTGGAAAACACCAAGAt < 1:3345238/47‑1 (MQ=255)
cATGCTGCTAAGCTGGCAATGTGGCAGCATCTGGAAAACACCAAGAt < 1:842073/47‑1 (MQ=255)
gctgctAAGCTGGCAATGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGcgac < 1:822840/69‑1 (MQ=255)
gctgctAAGCTGGCAATGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGcgac < 1:3037088/69‑1 (MQ=255)
gctgctAAGCTGGCAATGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGcgac < 1:1328960/69‑1 (MQ=255)
gctgctAAGCTGGCAATGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGcgac < 1:1730115/69‑1 (MQ=255)
gctgctAAGCTGGCAATGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGcgac < 1:1204272/69‑1 (MQ=255)
cTGGCAATGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGTAACCAGCGACGACTTCg < 1:511703/67‑1 (MQ=255)
cTGGCAATGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCg < 1:2788991/67‑1 (MQ=255)
cTGGCAATGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCg < 1:429085/67‑1 (MQ=255)
cTGGCAATGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCg < 1:3143243/67‑1 (MQ=255)
cTGGCAATGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCg < 1:26554/67‑1 (MQ=255)
cAATGTGGCAGCACCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGcgac < 1:1601389/56‑1 (MQ=255)
cAATGTGGCAGCACCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGcgac < 1:1391861/56‑1 (MQ=255)
cAATGTGGCAGCACCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGcgac < 1:3232438/56‑1 (MQ=255)
cAATGTGGCAGCACCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGcgac < 1:3005419/56‑1 (MQ=255)
cAATGTGGCAGCACCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGcgac < 1:2197514/56‑1 (MQ=255)
cAATGTGGCAGCACCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGcgac < 1:608340/56‑1 (MQ=255)
cAATGTGGAAGCACCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGcgac < 1:324371/56‑1 (MQ=255)
aaTGTGTCAGCACCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAg > 1:3301853/1‑51 (MQ=255)
aaTGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTc < 1:2843194/67‑1 (MQ=255)
aaTGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTc < 1:2690662/67‑1 (MQ=255)
aaTGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTc < 1:2841518/67‑1 (MQ=255)
aaTGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTc < 1:29703/67‑1 (MQ=255)
aaTGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTc < 1:3304318/67‑1 (MQ=255)
aaTGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTc < 1:2959245/67‑1 (MQ=255)
aaTGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTc < 1:2310936/67‑1 (MQ=255)
aaTGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTc < 1:1048661/67‑1 (MQ=255)
aaTGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTc < 1:3112096/67‑1 (MQ=255)
aaTGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTc < 1:84964/67‑1 (MQ=255)
aaTGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTc < 1:1449797/67‑1 (MQ=255)
aaTGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTc < 1:162146/67‑1 (MQ=255)
aaTGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTc < 1:1759800/67‑1 (MQ=255)
aaTGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTc < 1:3015014/67‑1 (MQ=255)
aaTGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTc < 1:3006738/67‑1 (MQ=255)
aaTGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTc < 1:752212/67‑1 (MQ=255)
aaTGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTc < 1:724422/67‑1 (MQ=255)
aaTGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTc < 1:201514/67‑1 (MQ=255)
aaTGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTc < 1:2019356/67‑1 (MQ=255)
aaTGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTc < 1:2140453/67‑1 (MQ=255)
aaTGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTc < 1:3205204/67‑1 (MQ=255)
aaTGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTc < 1:2566220/67‑1 (MQ=255)
aaTGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTCa < 1:2254654/68‑1 (MQ=255)
aaTGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTCa < 1:268197/68‑1 (MQ=255)
aaTGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTCa < 1:2100750/68‑1 (MQ=255)
aaTGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTCa < 1:1640726/68‑1 (MQ=255)
aaTGTGGCAGCATCTGGAAAACACCAAGATCATGTTACTTAACGAAACCAGCGACGACTTCGAGTTc < 1:3084638/67‑1 (MQ=255)
aaTGTGGCAGCACCTGGAAAACACCAAGATCATGTTATTTaa > 1:1281128/1‑42 (MQ=255)
aaTGTGGCAGCACCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAg > 1:363500/1‑51 (MQ=255)
aaTGTGGCAGCACCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAg > 1:976764/1‑51 (MQ=255)
aaTGTGGCAGCACCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAg > 1:610518/1‑51 (MQ=255)
aaTGTGGCAGCACCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAg > 1:768933/1‑51 (MQ=255)
aaTGTGGCAGCACCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAg > 1:81851/1‑51 (MQ=255)
aaTGTGGCAGCACCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAg > 1:93034/1‑51 (MQ=255)
aaTGTGGCAGCACCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAg > 1:3003719/1‑51 (MQ=255)
aaTGTGGCAGCACCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAg > 1:1089136/1‑51 (MQ=255)
aaTGTGGCAGCACCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAg > 1:1101686/1‑51 (MQ=255)
aaTGTGGCAGCACCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAg > 1:1240300/1‑51 (MQ=255)
aaTGTGGCAGCACCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAg > 1:1448792/1‑51 (MQ=255)
aaTGTGGCAGCACCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAg > 1:1486560/1‑51 (MQ=255)
aaTGTGGCAGCACCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAg > 1:1992390/1‑51 (MQ=255)
aaTGTGGCAGCACCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAg > 1:210846/1‑51 (MQ=255)
aaTGTGGCAGCACCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAg > 1:2579679/1‑51 (MQ=255)
aaTGTGGCAGCACCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAg > 1:2652657/1‑51 (MQ=255)
aaTGTGGCAGCACCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAg > 1:2867123/1‑51 (MQ=255)
aaTGTGGCAGCACCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAg > 1:2872827/1‑51 (MQ=255)
aaTGTGGCAGCACCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAg > 1:2976989/1‑51 (MQ=255)
aaTGTGGCAGCACCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAg > 1:2985677/1‑51 (MQ=255)
tgGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGa < 1:2881088/41‑1 (MQ=255)
tgGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGa < 1:1999212/41‑1 (MQ=255)
tgGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGa < 1:2902775/41‑1 (MQ=255)
tgGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGa < 1:2972820/41‑1 (MQ=255)
tgGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGa < 1:3077071/41‑1 (MQ=255)
tgGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTCAATGcc > 1:711216/1‑69 (MQ=255)
tgGCAGCATCTGGAAAACACCAAGATCATCTTATTTAACGa < 1:1862760/41‑1 (MQ=255)
tgGCAGCATCTGGAAAACACCAAGATCATCTTATTTAACGa < 1:1858830/41‑1 (MQ=255)
ggCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGa < 1:2243698/40‑1 (MQ=255)
agcaTCTGGAAAACACCAAGATCATGTTATTTAACGa < 1:3226023/37‑1 (MQ=255)
|
CAAATCCTCAAGGCGCTGATTCGCAAAGATCCTCATGCTGCTAAGCTGGCAATGTGGCAGCATCTGGAAAACACCAAGATCATGTTATTTAACGAAACCAGCGACGACTTCGAGTTCAATGCC > minE/2082442‑2082564
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
