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 |
|
A5 F28 I2 R2
|
154 |
32.4 |
3140800 |
76.4% |
2399571 |
54.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,659,834 |
G→A |
A190A (GCC→GCT) |
wzxE ← |
O‑antigen translocase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,659,834 | 0 | G | A | 84.0%
| 117.9
/ 14.1
| 50 | A190A (GCC→GCT) | wzxE | O‑antigen translocase |
| Reads supporting (aligned to +/- strand): ref base G (7/1); new base A (42/0); total (49/1) |
| Fisher's exact test for biased strand distribution p-value = 1.60e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GGGATGACACCACGTTTGATCAACATGATGGCGGCAGGAATTACCACCAGCGCGGGAATCAGCGCCAGACCCAGCAACGCCCCTTCATAACC > W3110S.gb/3659802‑3659893
|
gggATGACACCACGTTTGATCAACATGATGGCGGCAGGa > 1:1749227/1‑39 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAGTTACCACCAGCGCGGGAATCAgcgc > 1:2182333/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:2917134/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:1974630/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:2026686/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:2117113/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:2348655/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:2367994/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:2436253/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:2506348/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:2589145/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:2593645/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:2280043/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:354342/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:362496/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:513960/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:733462/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:833855/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:861890/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:901173/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:912172/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:948078/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:981523/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:183791/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:1011386/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:1178782/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:1240901/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:1267539/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:1318952/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:1335253/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:1422134/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:1493599/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:1532401/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:1589848/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:166235/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:1674158/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:1697437/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:1826684/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:178223/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:1777830/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:1767432/1‑60 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGCGCGGGAATCAgcg > 1:449877/1‑59 (MQ=255)
gACACCACGTTTGATCAACATGATAACAGCAGGAATTACCACCAGAGCGGGAATCAgcg > 1:1864688/1‑59 (MQ=255)
cGTTTGATCAACATGATGGCGGCAGGAATTACCACCAGCGCgg < 1:2337825/43‑1 (MQ=255)
tgGCGGCAGGAATTACCACCAGCGCGGGAATCAGCGCCAGAccc > 1:74753/1‑44 (MQ=255)
tgGCGGCAGGAATTACCACCAGCGCGGGAATCAGCGCCAGACCCAGCAACGccc > 1:799071/1‑54 (MQ=255)
tgGCGGCAGGAATTACCACCAGCGCGGGAATCAGCGCCAGACCCAGCAACGccc > 1:2960512/1‑54 (MQ=255)
tgGCGGCAGGAATTACCACCAGCGCGGGAATCAGCGCCAGACCCAGCAACGccc > 1:1207528/1‑54 (MQ=255)
tgGCGGCAGGAATTACCACCAGCGCGGGAATCAGCGCCAGACCCAGCAACGccc > 1:2944920/1‑54 (MQ=255)
tgGCGGCAGGAATTACCACCAGCGCGGGAATCAGCGCCAGACCCAGCAACGccc > 1:2580817/1‑54 (MQ=255)
gcggcAGGAATTACCACCAGCGCGGGAATCAGCGCCAGACCCAGCAACGCCCCTTCATAAcc > 1:1355745/1‑62 (MQ=255)
gcggcAGGAATTACCACCAGCGCGGGAATCAGCGCCAGACCCAGCAACGCCCCTTCATAAcc > 1:70303/1‑62 (MQ=255)
gcggcAGGAATTACCACCAGCGCGGGAATCAGCGCCAGACCCAGCAACGCCCCTTCATAAcc > 1:1006622/1‑62 (MQ=255)
gcggcAGGAATTACCACCAGCGCGGGAATCAGCGCCAGACCCAGCAACGCCCCTTCATAAcc > 1:864696/1‑62 (MQ=255)
gcggcAGGAATTACCACCAGCGCGGGAATCAGCGCCAGACCCAGCAACGCCCCATCATAAcc > 1:1447934/1‑62 (MQ=255)
gcggcAGGAATTACCACCAGCGCGGGAATCAGCGCCAGACCAAGCAACGCCCCt > 1:550307/1‑54 (MQ=255)
|
GGGATGACACCACGTTTGATCAACATGATGGCGGCAGGAATTACCACCAGCGCGGGAATCAGCGCCAGACCCAGCAACGCCCCTTCATAACC > W3110S.gb/3659802‑3659893
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
