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 |
2,835,651 |
G→A |
22.7% |
N82N (AAC→AAT) |
yjeJ ← |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,835,651 | 0 | G | A | 22.7%
| 125.9
/ 27.0
| 92 | N82N (AAC→AAT) | yjeJ | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (31/40); new base A (8/13); total (39/53) |
| Fisher's exact test for biased strand distribution p-value = 8.03e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.75e-01 |
TCCAGCGTGTTAACCCGACGATTAATATCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGCTCATACTGAAGGTG > minE/2835586‑2835704
|
tCCAGCGTGTTAACCCGACGATTAATATCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGttt > 1:2672414/1‑69 (MQ=255)
tgtTAAGCCGACGATTAATATCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCa > 1:43160/1‑69 (MQ=255)
tgtTAACCCGACGATTAATATCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCa > 1:2421653/1‑69 (MQ=255)
tgtTAACCCGACGATTAATATCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCa > 1:357516/1‑69 (MQ=255)
ttAACCCGACGATTAATATCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCAtt > 1:2850976/1‑69 (MQ=255)
ttAACCCGACGATTAATATCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCAtt > 1:2403235/1‑69 (MQ=255)
ttAACCCGACGATTAATATCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCAtt < 1:1656586/69‑1 (MQ=255)
ttAACCCGACGATTAATATCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCAtt > 1:144532/1‑69 (MQ=255)
ttAACCCGACGATTAATATCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCAtt < 1:298252/69‑1 (MQ=255)
ttAACCCGACGATTAATATCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCAt > 1:385157/1‑68 (MQ=255)
ttAACCCGACGATTAATATCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCAt > 1:2972529/1‑68 (MQ=255)
ttAACCCGACGATTAATATCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCAt > 1:832826/1‑68 (MQ=255)
ccGACGATTAATATCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCtt < 1:2321629/69‑1 (MQ=255)
ccGACGATTAATATCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCtt < 1:142251/69‑1 (MQ=255)
ccGACGATTAATATCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCtt < 1:1483120/69‑1 (MQ=255)
ccGACGATTAATATCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCtt < 1:2341772/69‑1 (MQ=255)
ccGACGATTAATATCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCtt < 1:3365575/69‑1 (MQ=255)
ccGACGATTAATATCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCtt < 1:1208510/69‑1 (MQ=255)
ccGACGATTAATATCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCtt < 1:2703790/69‑1 (MQ=255)
ccGACGATTAATATCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCtt < 1:200606/69‑1 (MQ=255)
aTTAATATCGGCATTTTTAAGCTCATCAACCAGACTTTCTGGGATGTTTTCTGCCATTTTCTTAATGAc < 1:3234700/69‑1 (MQ=255)
aTTAATATCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGAc < 1:2307319/69‑1 (MQ=255)
tAATATCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACtt > 1:1789476/1‑69 (MQ=255)
tAATATCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACtt > 1:228767/1‑69 (MQ=255)
tAATATCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACtt > 1:2371510/1‑69 (MQ=255)
tAATATCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACtt > 1:484164/1‑69 (MQ=255)
tAATATCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACtt > 1:2890901/1‑69 (MQ=255)
tCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATc > 1:2021458/1‑68 (MQ=255)
tCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATc > 1:285813/1‑68 (MQ=255)
tCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATc > 1:1545291/1‑68 (MQ=255)
cATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAg < 1:508822/69‑1 (MQ=255)
aTTTTTAAGCTCATGAACCAGAATTTCTGGGATGTTTTCTGCCAtt < 1:3051006/46‑1 (MQ=255)
aTTTTTAAGCTCATCAACCAGAATTTCTGGGATATTTTCTg > 1:1569559/1‑41 (MQ=255)
aTTTTTAAGCTCATCAACCAGAATTTCTGGGATATTTTCTGCCATTTTCTTAATGACTTTATCGCGAGc > 1:2365184/1‑69 (MQ=255)
aTTTTTAAGCTCATCAACCAGAATTTCTGGGATATTTTCTGCCATTTTCTTAATGACTTTATCGCGAGc > 1:3387066/1‑69 (MQ=255)
aTTTTTAAGCTCATCAACCAGAATTTCTGGGATATTTTCTGCCATTTTCTTAATGACTTTATCGCGAGc > 1:1901480/1‑69 (MQ=255)
aTTTTTAAGCTCATCAACCAGAATTTCTGGGATATTTTCTGCCATTTTCTTAATGACTTTATCGCGAGc > 1:341710/1‑69 (MQ=255)
aTTTTTAAGCTCATCAACCAGAATTTCTGGGATATTTTCTGCCATTTTCTTAATGACTTTATCGCGAGc > 1:1366767/1‑69 (MQ=255)
aTTTTTAAGCTCATCAACCAGAATTTCTGGGATATTTTCTGCCATTTTCTTAATGACTTTATCGCGAGc > 1:53663/1‑69 (MQ=255)
aTTTTTAAGCTCATCAACCAGAATTTCTGGGATATTTTCTGCCATTTTCTTAATGACTTTATCGCGAGc > 1:1182404/1‑69 (MQ=255)
tttttAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCt < 1:2748227/69‑1 (MQ=255)
tttAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTa < 1:3104024/58‑1 (MQ=255)
tttAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTa < 1:245318/58‑1 (MQ=255)
tttAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTa < 1:592017/58‑1 (MQ=255)
tttAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTa < 1:2938744/58‑1 (MQ=255)
tttAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATcgcg > 1:218738/1‑63 (MQ=255)
tttAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTg > 1:336702/1‑69 (MQ=255)
tttAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTg > 1:1022593/1‑69 (MQ=255)
tttAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTg > 1:462575/1‑69 (MQ=255)
tttAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTg > 1:597492/1‑69 (MQ=255)
tttAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTg > 1:869678/1‑69 (MQ=255)
tttAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTg > 1:2154491/1‑69 (MQ=255)
tttAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTg > 1:1004129/1‑69 (MQ=255)
tttAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTg > 1:1127895/1‑69 (MQ=255)
tttAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTg > 1:2728221/1‑69 (MQ=255)
tttAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTg > 1:1331043/1‑69 (MQ=255)
aaGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGCt < 1:2990791/68‑1 (MQ=255)
aaGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGCt < 1:3348979/68‑1 (MQ=255)
aaGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGCt < 1:49112/68‑1 (MQ=255)
aaGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGCt < 1:2268788/68‑1 (MQ=255)
aaGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGCt < 1:1355350/68‑1 (MQ=255)
aaGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGCt < 1:432817/68‑1 (MQ=255)
aaGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGCt < 1:1556750/68‑1 (MQ=255)
aaGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGCt < 1:156291/68‑1 (MQ=255)
gCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCTTTTTCTTAATGACTTTATCGCGAGCTTGCt < 1:1416975/66‑1 (MQ=255)
gCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGCTCa < 1:30890/68‑1 (MQ=255)
gCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGCTCa < 1:1965484/68‑1 (MQ=255)
gCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGCTCa < 1:210621/68‑1 (MQ=255)
gCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGCTCa < 1:2856811/68‑1 (MQ=255)
gCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGCTCa < 1:2359659/68‑1 (MQ=255)
gCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGCTCa < 1:2624923/68‑1 (MQ=255)
gCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGCTCa < 1:2861124/68‑1 (MQ=255)
gCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGCTCAt > 1:2807949/1‑69 (MQ=255)
gCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGCTCAt > 1:2811911/1‑69 (MQ=255)
cTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGCTCa < 1:3374591/67‑1 (MQ=255)
aCCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTa < 1:2597152/45‑1 (MQ=255)
ccAGAATTTCTGGGATATTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGTTCATACTGAAggc < 1:963050/69‑2 (MQ=255)
ccAGAATTTCTGGGATATTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGTTCATACTGAAggc < 1:1683346/69‑2 (MQ=255)
ccAGAATTTCTGGGATATTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGTTCATACTGAAggc < 1:2928939/69‑2 (MQ=255)
ccAGAATTTCTGGGATATTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGTTCATACTGAAggc < 1:733946/69‑2 (MQ=255)
ccAGAATTTCTGGGATATTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGTTCATACTGAAggc < 1:72005/69‑2 (MQ=255)
ccAGAATTTCTGGGATATTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGTTCATACTGAAggc < 1:699341/69‑2 (MQ=255)
ccAGAATTTCTGGGATATTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGTTCATACTGAAggc < 1:1231824/69‑2 (MQ=255)
ccAGAATTTCTGGGATATTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGTTCATACTGAAggc < 1:1271975/69‑2 (MQ=255)
ccAGAATTTCTGGGATATTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGTTCATACTGAAggc < 1:3008960/69‑2 (MQ=255)
ccAGAATTTCTGGGATATTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGTTCATACTGAAggc < 1:3135102/69‑2 (MQ=255)
ccAGAATTTCTGGGATATTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGTTCATACTGAAggc < 1:1897617/69‑2 (MQ=255)
ccAGAATTTCTGGGATATTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGTTCATACTGAAggc < 1:405248/69‑2 (MQ=255)
cAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGCTCATACTGAAGgtg < 1:1382226/69‑1 (MQ=255)
cAGAATTTCTGGGATATTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGTTCATACTGAAggc < 1:2901062/68‑2 (MQ=255)
aTTTCTGGGATGTTTTCTGCAATTTTCTTAATGACTTTATCGCGAGCTTGCt < 1:3328470/52‑1 (MQ=255)
tCTTGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGCTCa < 1:1424159/51‑1 (MQ=255)
|
TCCAGCGTGTTAACCCGACGATTAATATCGGCATTTTTAAGCTCATCAACCAGAATTTCTGGGATGTTTTCTGCCATTTTCTTAATGACTTTATCGCGAGCTTGCTCATACTGAAGGTG > minE/2835586‑2835704
|
| 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
