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 |
|
A1 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,629,792 |
T→C |
41.5% |
D467G (GAC→GGC) |
guaA ← |
GMP synthetase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,629,792 | 0 | T | C | 41.5%
| 18.3
/ 47.5
| 41 | D467G (GAC→GGC) | guaA | GMP synthetase |
| Reads supporting (aligned to +/- strand): ref base T (13/11); new base C (3/14); total (16/25) |
| Fisher's exact test for biased strand distribution p-value = 2.51e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.66e-01 |
CGGCAGATGCGCCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAACACAGTG > W3110S.gb/2629725‑2629848
|
cGGCAGATGCGCCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCAt < 1:3184255/71‑1 (MQ=255)
cAGATGCGCCGAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACt > 1:2348278/1‑71 (MQ=255)
gcgcCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGCCATACTTACGa > 1:4050847/1‑71 (MQ=255)
aGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCg > 1:189758/1‑71 (MQ=255)
tgtgCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGcc < 1:87456/71‑1 (MQ=255)
tgtgCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGCCATACTTACGACCATCGcc < 1:354136/71‑1 (MQ=255)
gtgCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGCCATACTTACGACCAt > 1:136119/1‑66 (MQ=255)
cGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCa > 1:2822912/1‑69 (MQ=255)
cGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCa > 1:723322/1‑69 (MQ=255)
cGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCa > 1:167759/1‑69 (MQ=255)
gTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATAc > 1:512188/1‑51 (MQ=255)
gTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATAc > 1:3414845/1‑51 (MQ=255)
gTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAAACCAGTCATAc > 1:1987824/1‑51 (MQ=255)
tAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGCCa < 1:1694232/44‑1 (MQ=255)
tAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGCCa < 1:1468616/44‑1 (MQ=255)
aaaGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCaa > 1:742157/1‑71 (MQ=255)
aaGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTa > 1:1174362/1‑48 (MQ=255)
aaGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTa > 1:2158580/1‑48 (MQ=255)
gTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACgg < 1:3189689/71‑1 (MQ=255)
gTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACgg < 1:742073/71‑1 (MQ=255)
gTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACgg < 1:3561490/71‑1 (MQ=255)
gTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACgg < 1:2852371/71‑1 (MQ=255)
gTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACg > 1:1582216/1‑70 (MQ=255)
gTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACCCCAACg > 1:1098071/1‑70 (MQ=255)
aTGGTTTCGACAGCACGCAGAGAGACAACCCAGCCATACTTACGACCATCGCCCATTACGCCAACGGAACg < 1:806414/71‑1 (MQ=255)
aTGGTTTCGACAGCACGCAGAGAGACAACCCAGCCATACTTACGACCATCGCCCATTACGCCAACGGAACg < 1:1178162/71‑1 (MQ=255)
tGGTTTCGACAGCACGCAGAGAGACAACCCAGCCATACTTACGACCATCGCCCATTACGCCAACGGAACGt < 1:3363032/71‑1 (MQ=255)
tGGTTTCGACAGCACGCAGAGAGACAACCCAGCCATACTTACGACCATCGCCCATTACGCCAACGGAACGt < 1:2119209/71‑1 (MQ=255)
tttCGACAGCACGCAGAGAGACAACCCAGCCATACTTACGACCATCGcc < 1:3191867/49‑1 (MQ=255)
tttCGACAGCACGCAGAGAGACAACCCAGCCATACTTACGACCATCGcc < 1:1694409/49‑1 (MQ=255)
tttCGACAGCACGCAGAGAGACAACCCAGCCATACTTACGACCATCGcc < 1:1716953/49‑1 (MQ=255)
tttCGACAGCACGCAGAGAGACAACCCAGCCATACTTACGACCATCGcc < 1:1886922/49‑1 (MQ=255)
tttCGACAGCACGCAGAGAGACAACCCAGCCATACTTACGACCATCGcc < 1:1618252/49‑1 (MQ=255)
tCGACAGCACGCAGAGAGACAACCCAGCCATACTTACGACCATCGCCCATTa > 1:3077827/1‑52 (MQ=255)
cACGCAGAGAGACAACCCAGCCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAac < 1:369101/71‑1 (MQ=255)
cGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAacac < 1:1448420/71‑1 (MQ=255)
gagtCAACCCAGCCATACTTACGACCATCGCCCATTACGCCAACGGAACGt < 1:629523/51‑1 (MQ=39)
ccAGTCATACTTACGACCATCGCCCATTACGCCAACgg < 1:475052/38‑1 (MQ=255)
gTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAACACAGTg < 1:2293045/58‑1 (MQ=255)
gTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAACACAGTg < 1:1052956/58‑1 (MQ=255)
gTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAACACAGTg < 1:293597/58‑1 (MQ=255)
|
CGGCAGATGCGCCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAACACAGTG > W3110S.gb/2629725‑2629848
|
| 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
