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 |
2,464,528 |
C→T |
37.4% |
S62S (AGC→AGT) |
atpB → |
F0 sector of membrane‑bound ATP synthase, subunit a |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,464,528 | 0 | C | T | 37.4%
| 25.8
/ 27.0
| 48 | S62S (AGC→AGT) | atpB | F0 sector of membrane‑bound ATP synthase, subunit a |
| Reads supporting (aligned to +/- strand): ref base C (17/13); new base T (6/12); total (23/25) |
| Fisher's exact test for biased strand distribution p-value = 1.45e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.91e-01 |
TCAATATTGACTCCATGTTCTTCTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGCGGTGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGC > minE/2464464‑2464594
|
tcaatATTGACTCCATGTTCTTCTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCcgtagcgta > 1:814629/1‑68 (MQ=255)
gACTCCATGTTCTTCTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCaaaaa < 1:2917140/68‑1 (MQ=255)
gACTCCATGTTCTTCTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCaaaaa < 1:2549328/68‑1 (MQ=255)
gACTCCATGTTCTTCTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCaaaaa < 1:2360918/68‑1 (MQ=255)
gACTCCATGTTCTTCTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCaaaaa < 1:757247/68‑1 (MQ=255)
gACTCCATGTTCTTCTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAg > 1:1864896/1‑69 (MQ=255)
tCCATGTTCTTCTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCg < 1:2863718/69‑1 (MQ=255)
tCCATGTTCTTCTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCg < 1:495661/69‑1 (MQ=255)
tCCATGTTCTTCTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCg < 1:170026/69‑1 (MQ=255)
tCCATGTTCTTCTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCg < 1:749206/69‑1 (MQ=255)
ccATGTTCTTCTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCg > 1:10237/1‑68 (MQ=255)
ccATGTTCTTCTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCg < 1:745138/68‑1 (MQ=255)
cATGTTCTTCTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCg > 1:1888053/1‑67 (MQ=255)
cATGTTCTTCTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCg > 1:1684890/1‑67 (MQ=255)
ttcttcTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAg > 1:1568094/1‑60 (MQ=255)
ttcttcTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGc > 1:1776264/1‑69 (MQ=255)
ttcttcTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGc > 1:1931486/1‑69 (MQ=255)
ttcttcTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGc > 1:559901/1‑69 (MQ=255)
ttcttcTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGc > 1:1609370/1‑69 (MQ=255)
ttcttcTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGc > 1:490844/1‑69 (MQ=255)
ttcttcTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGc > 1:22680/1‑69 (MQ=255)
ttcttcTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGc > 1:1581254/1‑69 (MQ=255)
ttcttcTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGc > 1:3363957/1‑69 (MQ=255)
ttcttcTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGc > 1:1535536/1‑69 (MQ=255)
ttcttcTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGc > 1:2798242/1‑69 (MQ=255)
ttattctCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGc > 1:466801/4‑69 (MQ=255)
ggtggtGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGcc > 1:1051871/1‑69 (MQ=255)
ggtggtGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGcc > 1:2913635/1‑69 (MQ=255)
ggtggtGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGcc > 1:912934/1‑69 (MQ=255)
ggtggtGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGcc > 1:1236865/1‑69 (MQ=255)
ggtggtGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGcc > 1:1951186/1‑69 (MQ=255)
ggtggtGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGCCGTGcc > 1:2631172/1‑69 (MQ=255)
tCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGttt < 1:2307074/67‑1 (MQ=255)
tCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGttt < 1:19419/67‑1 (MQ=255)
tCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGttt < 1:689547/67‑1 (MQ=255)
tCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGttt < 1:2039268/67‑1 (MQ=255)
tCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGttt < 1:2251824/67‑1 (MQ=255)
tCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGttt < 1:2821417/67‑1 (MQ=255)
tCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGttt < 1:465947/67‑1 (MQ=255)
tCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGttt < 1:417408/67‑1 (MQ=255)
tCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGttt < 1:2380945/67‑1 (MQ=255)
tCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGttt < 1:3308366/67‑1 (MQ=255)
tCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGttt < 1:3137957/67‑1 (MQ=255)
tCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGttt < 1:2586080/67‑1 (MQ=255)
tCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGCGGTGTGCCAGGTAAGttt < 1:71188/67‑1 (MQ=255)
tCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGCGGTGTGCCAGGTAAGttt < 1:1142123/67‑1 (MQ=255)
tCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGCGGTGTGCCAGGTAAGTTTCAGACcgcg < 1:3401413/68‑1 (MQ=255)
tCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGCGGTGTGCCAGGTAAGTTTCAGACcgcg < 1:1633615/68‑1 (MQ=255)
ttATTCCGTAGCGTAGCCAAAAAGGCGACCAGCGGTGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTg > 1:1884471/1‑69 (MQ=255)
agcgtagcCAAAAAGGCGACCAGCGGTGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGc < 1:402823/69‑1 (MQ=255)
agcgtagcCAAAAAGGCGACCAGCGGTGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGc < 1:2626123/69‑1 (MQ=255)
|
TCAATATTGACTCCATGTTCTTCTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGCGGTGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGC > minE/2464464‑2464594
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
