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 |
563,956 |
T→C |
23.0% |
V315V (GTA→GTG) |
ybjL ← |
predicted transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 563,956 | 0 | T | C | 23.0%
| 104.5
/ 25.5
| 82 | V315V (GTA→GTG) | ybjL | predicted transporter |
| Reads supporting (aligned to +/- strand): ref base T (17/46); new base C (6/13); total (23/59) |
| Fisher's exact test for biased strand distribution p-value = 7.73e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AATGACGCGGTTAAGGAAGCAACCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACGCATGTCGAGAAGGTCACGATCGAA > minE/563896‑564024
|
aaTGACGCGGTTAAGGAAGCAACCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGt < 1:1961869/68‑1 (MQ=255)
aaTGACGCGGTTAAGGAAGCAACCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGt < 1:2120073/68‑1 (MQ=255)
aaTGACGCGGTTAAGGAAGCAACCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGt < 1:1509623/68‑1 (MQ=255)
aaTGACGCGGTTAAGGAAGCAACCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGt < 1:1252723/68‑1 (MQ=255)
aaTGACGCGGTTAAGGAAGCAACCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGt < 1:751678/68‑1 (MQ=255)
gTTAAGGAAGCAACCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGttttt < 1:200300/69‑1 (MQ=255)
gTTAAGGAAGCAACCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGttttt < 1:831181/69‑1 (MQ=255)
ttAAGGAAGCAACCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGttttt < 1:2610642/68‑1 (MQ=255)
tAAGGAAGCAACCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTa > 1:1284520/1‑68 (MQ=255)
tAAGGAAGCAACCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTa > 1:714912/1‑68 (MQ=255)
tAAGGAAGCAACCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTa > 1:1422601/1‑68 (MQ=255)
tAAGGAAGCAACCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTa > 1:562943/1‑68 (MQ=255)
aaGGAAGCAACCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAAc < 1:1234861/69‑1 (MQ=255)
aaGGAAGCAACCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAAc < 1:1467601/69‑1 (MQ=255)
aaGGAAGCAACCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAAc < 1:675339/69‑1 (MQ=255)
aaGGAAGCAACCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAAc < 1:1208182/69‑1 (MQ=255)
aaGGAAGCAACCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAAc < 1:2037208/69‑1 (MQ=255)
aaGGAAGCAACCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAAc < 1:2006353/69‑1 (MQ=255)
aaGGAAGCAACCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAAc < 1:3333843/69‑1 (MQ=255)
gAAGCAACCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGAc < 1:1613261/69‑1 (MQ=255)
gCAACCGTGATCGGTCAACTTCAGTTTTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGTCCAc < 1:227716/69‑1 (MQ=255)
gCAACCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGACCAc < 1:740491/69‑1 (MQ=255)
gCAACCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGACCAc < 1:231999/69‑1 (MQ=255)
gCAACCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGACCAc < 1:1192223/69‑1 (MQ=255)
gCAACCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGACCAc < 1:1670857/69‑1 (MQ=255)
gCAACCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGACCAc < 1:1561458/69‑1 (MQ=255)
gCAACCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGACCAc > 1:1416453/1‑69 (MQ=255)
aCCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTGCCCACGGCGTTATGGttttt < 1:463194/57‑1 (MQ=255)
aCCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTGCCCACGGCGTTATGGttttt < 1:2834615/57‑1 (MQ=255)
aCCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTGCCCACGGCGTTATGGttttt < 1:2787635/57‑1 (MQ=255)
aCCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTGCCCACGGCGTTATGGttttt < 1:1275692/57‑1 (MQ=255)
aCCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTGCCCACGGCGTTATGGttttt < 1:2643931/57‑1 (MQ=255)
aCCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTGCCCACGGCGTTATGGttttt < 1:1313381/57‑1 (MQ=255)
aCCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTGCCCACGGCGTTATGGttttt < 1:431755/57‑1 (MQ=255)
aCCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTGCCCACGGCGTTATGGttttt < 1:2481670/57‑1 (MQ=255)
aCCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTGCCCACGGCGTTATGGttttt < 1:622355/57‑1 (MQ=255)
aCCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTGCCCACGGCGTTATGGttttt < 1:924322/57‑1 (MQ=255)
aCCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTGCCCACGGCGTTATGGttttt < 1:120833/57‑1 (MQ=255)
ccGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTGCCCACGGCGTTATGGttttt < 1:2085886/56‑1 (MQ=255)
gTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGACCACttcttc < 1:2566978/69‑1 (MQ=255)
tGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGt < 1:3382980/43‑1 (MQ=255)
aaCTTCAGTTGTGCGAGACGTTTGCCCACGGCGTTa > 1:2238669/1‑36 (MQ=37)
aaCTTCAGTTGTGCGAGACGTTTGCCCACGGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATa > 1:857078/1‑69 (MQ=255)
aaCTTCAGTTGTGCGAGACGTTTGCCCACGGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATa > 1:1188261/1‑69 (MQ=255)
aaCTTCAGTTGTGCGAGACGTTTGCCCACGGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATa > 1:688560/1‑69 (MQ=255)
aaCTTCAGTTGTGCGAGACGTTTGCCCACGGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATa > 1:1407351/1‑69 (MQ=255)
aaCTTCAGTTGTGCGAGACGTTTGCCCACGGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATa > 1:2297244/1‑69 (MQ=255)
cTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGATGATACg < 1:437493/69‑1 (MQ=255)
cTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACg < 1:413117/69‑1 (MQ=255)
cTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACg < 1:56471/69‑1 (MQ=255)
cTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACg < 1:3313751/69‑1 (MQ=255)
cTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACg < 1:3171179/69‑1 (MQ=255)
cTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACg < 1:1981943/69‑1 (MQ=255)
cTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACg < 1:634016/69‑1 (MQ=255)
cTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACg < 1:309408/69‑1 (MQ=255)
cTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACg < 1:3062235/69‑1 (MQ=255)
cTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACg < 1:2995880/69‑1 (MQ=255)
cTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACg < 1:2930703/69‑1 (MQ=255)
cTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACg < 1:2898586/69‑1 (MQ=255)
ttCAGTTGTGCGAGACGTTTGCCCACGGCGTTATGGttttt < 1:1828643/41‑1 (MQ=255)
tCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACGc > 1:1269622/1‑68 (MQ=255)
tgtgagaCGTTTACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACGCATGTCgag < 1:2323882/66‑1 (MQ=255)
gCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACGCATGTCgag < 1:657411/68‑1 (MQ=255)
gCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACGCATGTCgag < 1:2978238/68‑1 (MQ=255)
gCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACGCATGTCgag < 1:2851913/68‑1 (MQ=255)
gCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACGCATGTCgag < 1:1392232/68‑1 (MQ=255)
gCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACGCATGTCgag < 1:2013289/68‑1 (MQ=255)
agaCGTTTACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACGCATGTCGAGAAg < 1:92560/68‑1 (MQ=255)
agaCGTTTACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACGCATGTCGAGAAg < 1:3024983/68‑1 (MQ=255)
agaCGTTTACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACGCATGTCGAGAAg < 1:289986/68‑1 (MQ=255)
agaCGTTTACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACGCATGTCGAGAAg < 1:2345251/68‑1 (MQ=255)
tacatacaGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACGCATGTCGAGAAGGTCACGa > 1:554871/1‑68 (MQ=255)
tACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACGCATGTCGAGAAGGTCACGa > 1:562081/1‑68 (MQ=255)
tACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACGCATGTCGAGAAGGTCACGa > 1:54629/1‑68 (MQ=255)
tACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACGCATGTCGAGAAGGTCACGa > 1:540997/1‑68 (MQ=255)
tACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACGCATGTCGAGAAGGTCACGa > 1:3156521/1‑68 (MQ=255)
tACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACGCATGTCGAGAAGGTCACGa > 1:306408/1‑68 (MQ=255)
tACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACGCATGTCGAGAAGGTCACGa > 1:2745268/1‑68 (MQ=255)
tACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACGCATGTCGAGAAGGTCACGa > 1:2640529/1‑68 (MQ=255)
tACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACGCATGTCGAGAAGGTCACGa > 1:1563647/1‑68 (MQ=255)
tACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACGCATGTCGAGAAGGTCACGa > 1:1207484/1‑68 (MQ=255)
tACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGAGACGATACGCATGTCga > 1:1953331/1‑57 (MQ=255)
tACCTACAGAGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACGCATGTCGAGAAGGTCACGa > 1:2957314/1‑68 (MQ=255)
tACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACGCATGTCGAGAAGGTCACGATCGaa > 1:408761/1‑69 (MQ=255)
|
AATGACGCGGTTAAGGAAGCAACCGTGATCGGTCAACTTCAGTTGTGCGAGACGTTTACCTACAGCGTTATGGTTTTTAACGACCACTTCTTCAGTGACGATACGCATGTCGAGAAGGTCACGATCGAA > minE/563896‑564024
|
| 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
