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 |
|
A11 F142 I1 R1
|
99 |
64.8 |
3148104 |
96.3% |
3031624 |
99.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,600,288 |
C→T |
S128L (TCG→TTG) |
gcvR → |
transcriptional repressor, regulatory protein accessory to GcvA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,600,288 | 0 | C | T | 98.4%
| 219.0
/ ‑4.3
| 64 | S128L (TCG→TTG) | gcvR | transcriptional repressor, regulatory protein accessory to GcvA |
| Reads supporting (aligned to +/- strand): ref base C (1/0); new base T (32/31); total (33/31) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.94e-01 |
TGGGTTCAGGTCGATGTGGCAGACTCCCCGCATTTAATTGAACGCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTCGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCGCCCACAGCCCCGCATCTGCGGACGCAGCAAATATTGAGC > NC_000913/2600194‑2600383
|
tgGGTTCAGGTCGATGTGGCAGACTCCCCGCATTTAATTGAACGCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGcgca > 1:1092108/1‑100 (MQ=255)
gggTTCAGGTCGATGTGGCAGACTCCCCGCATTTAATTGAACGCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGcgcac > 1:751484/1‑100 (MQ=255)
ggTTCAGGTCGATGTGGCAGACTCCCCGCATTTAATTGAACGCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGcgcacg > 2:372098/1‑100 (MQ=255)
ttCAGGTCGATGTGGCAGACTCCCCGCATTTAATTGAACGCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGcgcacgca > 2:1182522/1‑100 (MQ=255)
cAGGTCGATGTGGCAGACTCCCCGCATTTAATTGAACGCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAAc > 1:1564863/1‑100 (MQ=255)
aGGTCGATGTGGCAGACTCCCCGCATTTAATTGAACGCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAAcc > 2:183454/1‑100 (MQ=255)
gTCGATGTGGCAGACTCCCCGCATTTAATTGAACGCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACctg < 1:1455065/100‑1 (MQ=255)
gATGTGGCAGACTCCCCGCATTTAATTGAACGCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGTGCGCAAcaccagc < 1:748510/100‑7 (MQ=255)
gATGTGGCAGACTCCCCGCATTTAATTGAACGCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACctgctg < 2:279838/100‑1 (MQ=255)
gATGTGGCAGACTCCCCGCATTTAATTAAACGCTTCACAGCACTTTTCAACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACctgct > 1:299897/1‑99 (MQ=255)
tctgCAGACTCCCCGCATTTAATTGAACGCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGaaa < 1:1251237/97‑1 (MQ=255)
gtgGCAGACTCCCCGCATTTAATTGAACGCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGaaa < 2:456106/100‑1 (MQ=255)
tgGCAGACTCCCCGCATTTAATTGAACGCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGaaaa > 1:810300/1‑100 (MQ=255)
gCAGACTCCCCGCATTTAATTGAACGCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGaaaaga > 2:1251229/1‑98 (MQ=255)
cAGACTCCCCGCATTTAATTGAACGCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGa > 1:1046979/1‑100 (MQ=255)
aCTCCCCGCATTTAATTGAACGCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACg < 1:725826/100‑1 (MQ=255)
cccGCATTTAATTGAACGCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCt > 1:92398/1‑100 (MQ=255)
cGCATTTAATTGAACGCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCCACCTGCTGAAAATGAACGGGCTg > 2:780990/1‑99 (MQ=255)
cATTTAATTGAACGCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTgcgc < 1:793480/100‑1 (MQ=255)
tttAATTGAACGCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAg < 2:347192/100‑1 (MQ=255)
tAATTGAACGGGTCACAGCACTTTTGGACGCGCATCATATGAAAATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAACTGAACGGGc < 2:1242552/91‑1 (MQ=255)
ttGAACGCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCa > 2:1159765/1‑100 (MQ=255)
gAACGCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCata > 2:1086467/1‑100 (MQ=255)
gAACGCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCata > 2:1086732/1‑100 (MQ=255)
gAACGCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCata > 1:438582/1‑100 (MQ=255)
aCGCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATAtt > 2:1110837/1‑100 (MQ=255)
cGCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTc < 2:1054917/100‑1 (MQ=255)
gCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCGGTTGCATATTCa < 1:1032242/100‑1 (MQ=255)
gCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCa < 1:1026577/100‑1 (MQ=255)
gCTTCACAGCACTTTTCGACGCGCATAATATGAAAATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAACATGAACGGGCTGCGCAGTTGCATATTCa < 1:1254866/100‑1 (MQ=255)
cTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAg > 1:904317/1‑100 (MQ=255)
cTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAg < 1:1182529/100‑1 (MQ=255)
ttCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGa > 1:63820/1‑100 (MQ=255)
caGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAAc < 2:213557/100‑1 (MQ=255)
caGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAAc > 2:436117/1‑100 (MQ=255)
caGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAAc < 2:604865/100‑1 (MQ=255)
gCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCg > 1:291665/1‑100 (MQ=255)
cTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCGccc > 1:1552967/1‑100 (MQ=255)
tttCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCGCCcac < 2:1083043/100‑1 (MQ=255)
tttCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCGCCcac < 1:753573/100‑1 (MQ=255)
ttCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCGCCcaca < 2:1072135/100‑1 (MQ=255)
tCGACGCGCATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACAGGCTGCGCAGTTGCATATTCAGATAACCGCCCACAg > 1:1101541/1‑100 (MQ=255)
gcgcATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCGCCCACAGccccn < 1:887743/100‑2 (MQ=255)
gcgcATCATATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCGCCCACAGCCCCg < 1:372099/100‑1 (MQ=255)
atcatATGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCGCCCACAGCCCCGCATc > 1:580064/1‑100 (MQ=255)
atatGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCGCCCACAGCCCCGCATCTGc > 2:583710/1‑100 (MQ=255)
atGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCGCCCACAGCCCCGCATCTGCgg < 2:1137422/100‑1 (MQ=255)
atGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCGCCCACAGCCCCGCATCTGCgg > 2:1193777/1‑100 (MQ=255)
atGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCGCCCACAGCCCCGCATCTGCgg < 1:783838/100‑1 (MQ=255)
tGAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCGCCCACAGCCCCGCCTCTGCGGa > 1:69754/1‑100 (MQ=255)
tGAACATTGCGGAGCTGGTGTCGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCGCCCACAGCCCCGCATCTGCGGa > 2:867354/1‑100 (MQ=255)
gAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCGCCCACAGCCCCGCATCTGCGGAc > 2:536153/1‑100 (MQ=255)
gAACATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCGCCCACAGCCCCGCATCTGCGGAc < 2:810295/100‑1 (MQ=255)
aCATTGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCGCCCACAGCCCCGCATCTGCGGACgc > 2:75428/1‑100 (MQ=255)
ttGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCGCCCACAGCCCCGCATCTGCGGACgcagc > 1:22566/1‑100 (MQ=255)
tGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCGCCCACAGCCCCGCATCTGCGGACgcagca < 1:1086739/100‑1 (MQ=255)
tGCGGAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCGCCCACAGCCCCGCATCTGCGGACgcagca < 1:1086474/100‑1 (MQ=255)
ggAGCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCGCCCACAGCCCCGCATCTGCGGACGCAGCAAat < 1:1509849/100‑1 (MQ=255)
gCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCGCCCACAGCCCCGCATCTGCGGACGCAGCAAATAtt > 1:1207840/1‑100 (MQ=255)
gCTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCGCCCACAGCCCCGCATCTGCGGACGCAGCAAATAtt > 1:1397656/1‑100 (MQ=255)
cTGGTGTTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCGCCCACAGCCCCGCATCTGCGGACGCAGCAAATATTg < 2:1564853/100‑1 (MQ=255)
gtgtTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCGCCCACAGCCCCGCATCTGCGGACGCAGCAAATATTGAGc < 2:438580/100‑1 (MQ=255)
gtgtTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCGCCCACAGCCCCGCATCTGCGGACGCAGCAAATATTGAGc < 2:480892/100‑1 (MQ=255)
gtgtTGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCGCCCACAGCCCCGCATCTGCGGACGCAGCAAATATTGAGc < 2:69754/100‑1 (MQ=255)
|
TGGGTTCAGGTCGATGTGGCAGACTCCCCGCATTTAATTGAACGCTTCACAGCACTTTTCGACGCGCATCATATGAACATTGCGGAGCTGGTGTCGCGCACGCAACCTGCTGAAAATGAACGGGCTGCGCAGTTGCATATTCAGATAACCGCCCACAGCCCCGCATCTGCGGACGCAGCAAATATTGAGC > NC_000913/2600194‑2600383
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
