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 |
|
A29 F31 I0 R2
|
34 |
11.4 |
409920 |
97.7% |
400491 |
142.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
3,828,334 |
A→T |
12.2% |
I111N (ATT→AAT) |
gltS ← |
glutamate transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,828,334 | 0 | A | T | 12.2%
| 120.1
/ 9.0
| 41 | I111N (ATT→AAT) | gltS | glutamate transporter |
| Reads supporting (aligned to +/- strand): ref base A (17/19); new base T (2/3); total (19/22) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.41e-01 |
ACTTCCGTCGCATTGGTGAAGCCATAACGTTCAATGAACAATTTACTCCACGCAGCGCCCGTACCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATGCCAACCACACGCCCACCGGCACGCAAACTGGCAATGTTGGCGTTCAGGCCAATGGTGGCGAAGAAAGCCAGCATTAACGGATCGCGCAGGGACATATCAAA > NC_000913/3828187‑3828482
|
aCTTCCGTCGCATTGGTGAAGCCATAACGTTCAATGAACAATTTACTCCACGCAGCGCCCGTACCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATAccaatgccaat < 1:36172/149‑1 (MQ=255)
aCTTCCGTCGCATTGGTGAAGCCATAACGTTCAATGAACAATTTACTCCACGCAGCGCCCGTACCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATAccaatgccaat < 4:43038/149‑1 (MQ=255)
ttCCGTCGCATTGGTGAAGCCATAACGTTCAATGAACAATTTACTCCACGCAGCGCCCGTACCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATgg > 4:18681/1‑149 (MQ=255)
ttCCGTCGCATTGGTGAAGCCATAACGTTCAATGAACAATTTACTCCACGCAGCGCCCGTACCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATgg > 2:31117/1‑149 (MQ=255)
gTCGCATTGGTGAAGCCATAACGTTCAATGAACAATTTACTCCACGCAGCGCCCGTACCGTGACCGCCCGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCATTGGCAtt < 4:80285/149‑1 (MQ=255)
ttGGTGAAGCCATAACGTTCAATGAACAATTTACTCCACGCAGCGCCCGTACCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCAt < 3:87857/149‑1 (MQ=255)
gTGAAGCCATAACGTTCAATGAACAATTTACTCCACGCAGCGCCCGTACCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCATCAc > 1:60656/1‑149 (MQ=255)
cATAACGTTCAATGAACAATTTACTCCACGCAGCGCCCGTACCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCATCACCAACAGa > 4:3015/1‑149 (MQ=255)
ttCAATGAACAATTTACTCCACGCAGCGCCCGTACCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCAATTTGCATCACCAACAGACcaacaa < 4:47495/149‑1 (MQ=255)
tCAATGAACAATTTACTCCACGCAGCGCCCGTACCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCATCACCAACAGACCaacaac < 4:82310/149‑1 (MQ=255)
aTGAACAATTTACTCCACGCAGCGCCCGTACCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCATCACCAACAGACCAACAACcac < 1:69959/149‑1 (MQ=255)
gAACAATTTACTCCACGCAGCGCCCGTACCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCATTGGCAttggtat > 3:31275/1‑120 (MQ=255)
gAACAATTTACTCCACGCAGCGCCCGTACCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCATTGGCAttggtat < 4:31275/125‑6 (MQ=255)
aaCAATTTACTCCACGCAGCGCCCGTACCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCa < 4:29398/117‑1 (MQ=255)
aaCAATTTACTCCACGCAGCGCCCGTACCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCa > 3:29398/1‑117 (MQ=255)
aTTTACTCCACGCAGCGCCCGTACCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCATCACCAACAGACCAACAACCACAATCgag > 1:44147/1‑149 (MQ=255)
tttACTCCACGCAGCGCCCGTACCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCATCACCaa < 2:27337/126‑1 (MQ=255)
tttACTCCACGCAGCGCCCGTACCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCATCACCaa > 1:27337/1‑126 (MQ=255)
tttACTCCACGCAGCGCCCGTACCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCATCACCAACAGACCAACAACCACAATCaaga > 4:15955/1‑149 (MQ=255)
ttACTCCACGCAGCGCCCGTACCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCATCACCAACAGACCAACAACCACAATCaagaa < 2:56725/149‑1 (MQ=255)
aCTCCACGCAGCGCCCGTACCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCATCACCAACAGACCAACAACCACAATCGagaaga < 2:44147/149‑1 (MQ=255)
tCCACGCAGCGCCCGTACCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATg > 2:28197/1‑149 (MQ=255)
tCCACGCAGCGCCCGTACCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATg < 3:75758/149‑1 (MQ=255)
aCGCAGCGCCCGTACCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCATTGGCAttgg < 4:79734/108‑3 (MQ=255)
aCGCAGCGCCCGTACCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCATTGGCAttgg > 3:79734/1‑106 (MQ=255)
gcCCGTACCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGAt < 2:47633/138‑1 (MQ=255)
gcCCGTACCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGAt > 1:47633/1‑138 (MQ=255)
aCCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATGCCAACCACACGCCCAc < 3:97790/149‑1 (MQ=255)
aaGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATGCCAACCACACGCCCACCGGCACGCAAACTgg < 2:36953/149‑1 (MQ=255)
agTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATGCCAACCACACGCCCACCGGCACGCAAACTGGCaa > 4:41974/1‑149 (MQ=255)
aTAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATGCCAACCACACGCCCACCGGCACGCAAACTGGCAATGtt < 1:31117/149‑1 (MQ=255)
tAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATGCCAACCACACGCCCACCGGCACGCAAACTGGCAATGTTg < 3:5935/149‑1 (MQ=255)
gAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATGCCAACCACACGCCCACCGGCACGCAAACTGGCAATGTTGGc < 2:80679/149‑1 (MQ=255)
aCAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCCATGGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATGCCAACCACACGCCCACCGGCACGCAATCTGGCAATGTTGGCGTTCAGGCCa < 3:85404/149‑1 (MQ=255)
cATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATGCCAACCACACGCCCACCGGCACGCAAACTGGCAATGTTGGCGTTCAGGCCAAtggtgg < 2:68332/149‑1 (MQ=255)
aGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATGCCAACCACACGCCCACCGGCACGCAAACTGGCAATGTTGGCGTTCAGGCCAATGGTGGCgaa < 2:50709/149‑1 (MQ=255)
ggATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATGCCAACCACACGCCCACCGGCACGCAAACTGGCAATGTTGGCGTTCAGGCCAATGGTGGCgaagaa > 3:51860/1‑149 (MQ=255)
aaGCCCTAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATGCCAACCACACGCCCACCGGCACGCAAACTGGCAATGTTGGCGTTCAGGCCAATGGTGGCGAAGAAAGCCa > 1:29232/1‑149 (MQ=255)
gCCCTAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATGCCAACCACACGCCCACCGGCACGCAAACTGGCAATGTTGGCGTTCAGGCCAATGGTGGCGAAGAAAGCCAGc > 4:48665/1‑149 (MQ=255)
tAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATGCCAACCACACGCCCACCGGCACGCAAACTGGCAATGTTGGCGTTCAGGCCAATGGTGGCGAAGAAAGCCAGCATTa > 3:96279/1‑149 (MQ=255)
aGCTAGCCATACCAATGCCAATGGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATGCCAACCACACGCCCACCGGCACGCAAACTGGCAATGTTGGCGTTCAGGCCAATGGTGGCGAAGAAAGCCAGCATTAACGGa < 4:36011/149‑1 (MQ=255)
aTACCAATGCCAATGGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATGCCAACCACACGCCCACCGGCACGCAAACTGGCAATGTTGGCGTTCAGGCCAATGGTGGCGAAGAAAGCCAGCATTAACGGATCGCGCAg > 2:22898/1‑149 (MQ=255)
tACCAATGCCAATGGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATGCCAACCACACGCCCACCGGCACGCAAACTGGCAATGTTGGCGTTCAGGCCAATGGTGGCGAAGAAAGCCAGCATTAACGGATCGCGCAgg > 3:78572/1‑149 (MQ=255)
gcaaaatgccattgGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATGCCAACCACACGCCCACCGGCACGCAAACTGGCAATGTTGGCGTTCAGGCCAATGGTGGCGAAGAAAGCCAGCATTAACGGATCGCGCAgg > 4:20859/5‑149 (MQ=255)
aaaatgccattgGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATGCCAACCACACGCCCACCGGCACGCAAACTGGCAATGTTGGCGTTCAGGCCAATGGTGGCGAAGAAAGCCAGCATTAACGGATCGCGCAGGGa > 2:11851/3‑149 (MQ=255)
aaaatgccattgGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATGCCAACCACACGCCCACCGGCACGCAAACTGGCAATGTTGGCGTTCAGGCCAATGGTGGCGAAGAAAGCCAGCATTAACGGATCGCGCAGGGa > 2:60931/3‑149 (MQ=255)
caatgccaatgGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATGCCAACCACACGCCCACCGGCACGCAAACTGGCAATGTTGGCGTTCAGGCCAATGGTGGCGAAGAAAGCCAGCATTAACGGATCGCGCAGGGAc < 3:15955/149‑1 (MQ=255)
aaatgccattgGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATGCCAACCACACGCCCACCGGCACGCAAACTGGCAATGTTGGCGTTCAgg < 1:92914/103‑1 (MQ=255)
aaatgccattgGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATGCCAACCACACGCCCACCGGCACGCAAACTGGCAATGTTGGCGTTCAgg > 2:92914/2‑104 (MQ=255)
aatgccaatgGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATGCCAACCACACGCCCACCGGCACGCAAACTGGCAATGTTGGCGTTCAGGCCAATGGTGGCGAAGAAAGCCAGCATTAACGGATCGCGCAGGGACa > 3:85982/1‑149 (MQ=255)
caatgGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATGCCAACCACACGCCCACCGGCACGCAAACTGGCAATGTTGGCGTTCAGGCCAATGGTGGCGAAGAAAGCCAGCATTAACGGATCGCGCAGGGACATATCa > 3:94732/1‑149 (MQ=255)
atgGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATGCCAACCACACGCCCACCGGCACGCAAACTGGCAATGTTGGCGTTCAGGCCAATGGTGGCGAAGAAAGCCAGCATTAACGGATCGCGCAGGGACATATCaaa < 3:19067/149‑1 (MQ=255)
|
ACTTCCGTCGCATTGGTGAAGCCATAACGTTCAATGAACAATTTACTCCACGCAGCGCCCGTACCGTGACCGCCGGAAAGAGTAATAGAACCGGCCAACAGCCCCATCAGCGGATCAAGCCCTAACAAGCTAGCCATACCAATGCCAATGGCATTTTGCATCACCAACAGACCAACAACCACAATCAAGAAGATGCCAACCACACGCCCACCGGCACGCAAACTGGCAATGTTGGCGTTCAGGCCAATGGTGGCGAAGAAAGCCAGCATTAACGGATCGCGCAGGGACATATCAAA > NC_000913/3828187‑3828482
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
