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 |
|
A3 F1 I1 R1
|
781 |
46.9 |
2231650 |
93.5% |
2086592 |
109.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,557,112 |
C→T |
*309* (TAG→TAA) |
ddpF ← |
D,D‑dipeptide ABC transporter ATPase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,557,112 | 0 | C | T | 96.0%
| 74.2
/ ‑6.8
| 25 | *309* (TAG→TAA) | ddpF | D,D‑dipeptide ABC transporter ATPase |
| Reads supporting (aligned to +/- strand): ref base C (0/0); major base T (14/10); minor base G (0/1); total (14/11) |
| Fisher's exact test for biased strand distribution p-value = 4.40e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AAAAGCAGGATGCCCGGTCTCTCAGGTACTGAAAGCGGAAATTACGCTGGATTACCAGTTGAAATCGTAAAGCATTGCCGGATGACGCGTCAGGCGCGTGAATGCCTGATGCGTTGTTAGCATCTCTACAGCGCCCGCCAGCACCGGAGCTCACGTCCGTCCTCCCTTATTGCTAATGATTGCCGGACTTCACATCCGT‑GGGTTGCCAGCGGGCAACGTTCGTAGAAAAAACAGCCTTGCGGCAACGTGCGGT > NC_000913/1556987‑1557239
|
aaaagcaGGATGCCCGGTCTCTCAGGTACTGAAAGCGGAAATTACGCTGGATTACCAGTTGAAATCGTAAAGCATTGCCGGATGACGCGTCAGGCGCGTGAATGCCTGATGCGTTGTTAGCATCTTTACAGcgcccgcc > 2:445972/1‑139 (MQ=255)
ggATGCCCGGTCTCTCAGGTACTGAAAGCGGAAATTACGCTGGATTACCAGTTGAAATCGTAAAGCATTGCCGGATGACGCGTCAGGCGCGTGAATGCCTGATGCGTTGTTAGCATCTTTACAGCGCCCGCCAGCACCg < 1:298234/139‑1 (MQ=255)
aTGCCCGGTCTCTCAGGTACTGAAAGCGGAAATTACACTGGATTACCAGTTGAAATCGTAAAGCATTGCCGGATGACGCGTCAGGCGCGTGAATGCCTGATGCGTTGTTAGCATCTTTACAGCGCCCGCCAGCACCGGa > 2:937277/1‑139 (MQ=255)
ctctcAGGTACTGAAAGCGGAAATTATGCTGGATTACCAGTTGAAATCGTAAAGCATTGCCGGATGACGCGTCAGGCGCGTGAATGCCTGATGCGTTGTTAGCATCTTTACAGCGCCCGCCAGCACCGGAGCTCAcgtc > 2:487346/1‑139 (MQ=255)
aCTGAAAGCGGAAATTACGCTGGATTACCAGTTGAAATCGTAAAGCATTGCCGGATGACGCGTCAGGCGCGTGAATGCCTGATGCGTTGTTAGCATCTTTACAGCGCCCGCCAGCACCGGAGCTCACGTCCGTCCTccc > 2:543755/1‑139 (MQ=255)
aCTGAAAGCGGAAATTACGCTGGATTACCAGTTGAAATCGTAAAGCATTGCCGGATGACGCGTCAGGCGCGTGAATGCCTGATGCGTTGTTAGCATCTTTACAGCGCCCGCCAGCACCGGAGCTCACGTCCGTCCTccc > 1:156477/1‑139 (MQ=255)
tGAAAGCGGAAATTACGCTGGATTACCAGTTGAAATCGTAAAGCATTGCCGGATGACGCGTCAGGCGCGTGAATGCCTGATGCGTTGTTAGCATCTTTACAGCGCCCGCCAGCACCGGAGCTCACGTCCGTCCTCCCtt < 1:84112/139‑1 (MQ=255)
cTGGATTACCAGTTGAAATCGTAAAGCATTGCCGGATGACGCGTCAGGCGCGTGAATGCCTGATGCGTTGTTAGCATCTTTACAGCGCCCGCCAGCACCGGAGCTCACGTCCGTCCTCCCTTATTGCTAATGATTGCCg < 2:133061/139‑1 (MQ=255)
aaaGCATTGCCGGATGACGCGTCAGGCGCGTGAATGCCTGATGCGTTGTTAGCATCTTTACAgcg > 1:19806/1‑65 (MQ=255)
aaaGCATTGCCGGATGACGCGTCAGGCGCGTGAATGCCTGATGCGTTGTTAGCATCTTTACAgcg < 2:19806/65‑1 (MQ=255)
aaaGCATTGCCGGATGACGCGTCAGGCGCGTGAATGCCTGATGCGTTGTTAGCATCTTTACAGCGCCCGCCAGCACCGGAGCTCACGTCCGTCCTCCCTTATTGCTAATGATTGCCg < 2:345295/117‑1 (MQ=255)
aaaGCATTGCCGGATGACGCGTCAGGCGCGTGAATGCCTGATGCGTTGTTAGCATCTTTACAGCGCCCGCCAGCACCGGAGCTCACGTCCGTCCTCCCTTATTGCTAATGATTGCCg > 1:345295/1‑117 (MQ=255)
aaaGCATTGCCGGATGACGCGTCAGGCGCGTGAATGCCTGATGCGTTGTTAGCATCTTTACAGCGCCCGCCAGCACCGGAGCTCACGTCCGTCCTCCCTTATTGCTAATGATTGCCGGACTTCACATCCGT‑GGGTTGcc < 1:487346/139‑1 (MQ=255)
tGCCGGATGACGCGTCAGGCGCGTGAATGCCTGATGCGTTGTTAGCATCTTTACAGCGCCCGCCAGCACCGGAGCTCACGTCCGTCCTCCCTTATTGCTAATGATTGCCGGACTTCACATCCGT‑GGGTTGCCAGCGGGc < 2:156477/139‑1 (MQ=255)
gCCGGATGACGCGTCAGGCGCGTGAATGCCTGATGCGTTGTTAGCATCTGTACAGCGCCCGCCAGCACCGGAGCTCACGTCCGTCCTCCCTTATTGCTAATGATTGCCGGACTTCACATCCGT‑GGGTTGCCAGCGGGCa < 2:750406/139‑1 (MQ=255)
tGACGCGTCAGGCGCGTGAATGCCTGATGCGTTGTTAGCATCTTTACAGCGCCCGCCAGCACCGGAGCTCACGTCCGTCCTCCCTTATTGCTAATGATTGCCGGACTTCACATCCGT‑GGGTTGCCAGCGGGCAACGTTc > 2:1013008/1‑139 (MQ=255)
aCGCGTCAGGCGCGTGAATGCCTGATGCGTTGTTAGCATCTTTACAGTGCCCGCCAGCACCg > 1:79471/1‑62 (MQ=255)
aCGCGTCAGGCGCGTGAATGCCTGATGCGTTGTTAGCATCTTTACAGTGCCCGCCAGCACCg < 2:79471/62‑1 (MQ=255)
aGGCGCGTGAATGCCTGATGCGTTGTTAGCATCTTTACAGCGCCCGCCAGCACCGGAGCTCACGTCCGTCCTCCCTTATTGCTAATGATTGCCGGACTTCACATCCGTGGGGTTGCCAGCGGGCAACGTTCGTAGaaaa > 2:823324/1‑139 (MQ=255)
tGATGCGTTGTTAGCATCTTTACAGCGCCCGCCAGCACCGGAGCTCAcgtccgt < 2:639352/54‑1 (MQ=255)
tGATGCGTTGTTAGCATCTTTACAGCGCCCGCCAGCACCGGAGCTCAcgtccgt > 1:639352/1‑54 (MQ=255)
tGCGTTGTTAGCATCTTTACAGCGCCCGCCAGCACCGGAGCTCACGTCCGTCCTCCCTTATTGCTAATGATTGCCGGACTTCACATCCGT‑GGGTTGCCAGCGGGCAACGTTCGTAGAAAAAACAGCCTTGCGGCAACGt > 1:732624/1‑139 (MQ=255)
tgttAGCATCTTTACAGCGCCCGCCAGCACCGGAGCTCACGTCCGTCCTCCCTTATTGCTAATGATTGCCGGACTTCACATCCGT‑GGGTTGCCAGCGGGCAACGTTCGTAGAAAAAACAGCCTTGCGGCAACGTGCGGt > 1:550013/1‑139 (MQ=255)
gCATCTTTACAGCGCCCGCCAGCACCGGAGCTCACGTCCGTCCTCCCt < 2:589579/48‑1 (MQ=255)
gCATCTTTACAGCGCCCGCCAGCACCGGAGCTCACGTCCGTCCTCCCt > 1:589579/1‑48 (MQ=255)
|
AAAAGCAGGATGCCCGGTCTCTCAGGTACTGAAAGCGGAAATTACGCTGGATTACCAGTTGAAATCGTAAAGCATTGCCGGATGACGCGTCAGGCGCGTGAATGCCTGATGCGTTGTTAGCATCTCTACAGCGCCCGCCAGCACCGGAGCTCACGTCCGTCCTCCCTTATTGCTAATGATTGCCGGACTTCACATCCGT‑GGGTTGCCAGCGGGCAACGTTCGTAGAAAAAACAGCCTTGCGGCAACGTGCGGT > NC_000913/1556987‑1557239
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
