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 |
2,698,480 |
C→T |
C54C (TGC→TGT) |
yfhL → |
predicted 4Fe‑4S cluster‑containing protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,698,480 | 0 | C | T | 76.5%
| 90.0
/ 26.8
| 51 | C54C (TGC→TGT) | yfhL | predicted 4Fe‑4S cluster‑containing protein |
| Reads supporting (aligned to +/- strand): ref base C (0/12); new base T (39/0); total (39/12) |
| Fisher's exact test for biased strand distribution p-value = 6.30e-12 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.53e-01 |
AGCGATAAGTGTACCGAATGCGTAGGGCACTACGAGACACCAACCTGCCAGAAGGTGTGCCCGATCCCCAATACTATTGTGAAAGATCCGGCGCATGTCGAGACAG > W3110S.gb/2698421‑2698526
|
aGCGATAAGTGTACCGAATGCGTAGGGCACTACGAGACACCAACCTGCCAGAAGGTGTGccc < 1:348644/62‑1 (MQ=255)
aGCGATAAGTGTACCGAATGCGTAGGGCACTACGAGACACCAACCTGCCAGAAGGTGTGccc < 1:1701488/62‑1 (MQ=255)
aTGCGTAGGGCACTACGAGACACCAACCTGCCAGAAGGTGTGCCCGATCCCCAATACTATtg < 1:2509271/62‑1 (MQ=255)
aTGCGTAGGGCACTACGAGACACCAACCTGCCAGAAGGTGTGCCCGATCCCCAATACTATtg < 1:2679822/62‑1 (MQ=255)
cTGCCAGAAGGTGTGCCCGATCCCCAATACTTTTGTGAAAGATCCGGCGCATGTCGATACag < 1:2411279/62‑1 (MQ=255)
cTGCCAGAAGGTGTGCCCGATCCCCAATACTATTGTGAAAGATCCGGCGCATGTCGAGACag < 1:197124/62‑1 (MQ=255)
cTGCCAGAAGGTGTGCCCGATCCCCAATACTATTGTGAAAGATCCGGCGCATGTCGAGACag < 1:219946/62‑1 (MQ=255)
cTGCCAGAAGGTGTGCCCGATCCCCAATACTATTGTGAAAGATCCGGCGCATGTCGAGACag < 1:3022708/62‑1 (MQ=255)
cTGCCAGAAGGTGTGCCCGATCCCCAATACTATTGTGAAAGATCCGGCGCATGTCGAGACag < 1:2048980/62‑1 (MQ=255)
cTGCCAGAAGGTGTGCCCGATCCCCAATACTATTGTGAAAGATCCGGCGCATGTCGAGACag < 1:34262/62‑1 (MQ=255)
cTGCCAGAAGGTGTGCCCGATCCCCAATACTATTGTGAAAGATCCGGCGCATGTCGAGACag < 1:597034/62‑1 (MQ=255)
cTGCCAGAAGGTGTGCCCGATCCCCAATACTATTGTGAAAGATCCGGCGCATGTCGAGACag < 1:600722/62‑1 (MQ=255)
cTGCCAGAAGGTGTGCCCGATCCCCAATACTATTGTGAAAGATCCGGCGCATGTCGAGACag < 1:670278/62‑1 (MQ=255)
cTGCCAGAAGGTGTGCCCGATCCCCAATACTATTGTGAAAGATCCGGCGCATGTCGAGACag < 1:1371545/62‑1 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGaaa > 1:822378/1‑36 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:2369862/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:68307/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:700198/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:791078/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:3062284/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:608325/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:2706930/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:830705/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:2586527/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:863909/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:2560921/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:880660/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:2429225/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:96001/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:2011040/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:1101441/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:1104939/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:1195300/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:1239633/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:1269728/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:1298922/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:135691/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:1366821/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:1532568/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:1855622/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:1931532/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:2384206/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:2035755/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:2046788/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:2049185/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:2108928/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:215235/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:2187651/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:2191363/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:2283148/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATACTATTGTGAAAg > 1:103824/1‑37 (MQ=255)
cAGAAGGTGTGTCCGATCCCCAATAATATTGTGAAAg > 1:2952724/1‑37 (MQ=37)
cAGAAGGAGTGTCCGATCCCCAATACTATTGTGaaa > 1:2689998/1‑36 (MQ=38)
|
AGCGATAAGTGTACCGAATGCGTAGGGCACTACGAGACACCAACCTGCCAGAAGGTGTGCCCGATCCCCAATACTATTGTGAAAGATCCGGCGCATGTCGAGACAG > W3110S.gb/2698421‑2698526
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
