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 |
|
A38 F1 I1 R1
|
17 |
54.1 |
3391312 |
97.1% |
3292963 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
1,886,204 |
G→A |
intergenic (‑34/+635) |
yobF ← / ← yebO |
hypothetical protein/hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 1,886,204 | 0 | G | A | 97.1%
| 257.3
/ ‑1.9
| 68 | intergenic (‑34/+635) | yobF/yebO | hypothetical protein/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (2/0); new base A (30/36); total (32/36) |
| Fisher's exact test for biased strand distribution p-value = 2.18e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.92e-01 |
CGTGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATAC > REL606/1886131‑1886276
|
cgtGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTAtt < 1:305541/76‑1 (MQ=255)
gtgtTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTa > 1:575302/1‑76 (MQ=255)
tgtTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCtattat < 2:27770/76‑1 (MQ=255)
tgtTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCtattat > 2:407999/1‑76 (MQ=255)
tttACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATca > 2:337175/1‑76 (MQ=255)
tttACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATca > 2:690938/1‑76 (MQ=255)
ttACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATcac > 2:1104352/1‑76 (MQ=255)
aCTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACAt < 1:1021504/76‑1 (MQ=255)
cTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATa < 1:1157518/76‑1 (MQ=255)
cTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATa < 1:5589/76‑1 (MQ=255)
tCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATAc < 2:14397/76‑1 (MQ=255)
cAGGACTTCTTTACTGAAAATNACACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACa < 2:273553/76‑1 (MQ=255)
cAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATAcn < 1:1427573/76‑2 (MQ=255)
cAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACa > 2:171341/1‑76 (MQ=255)
aGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACaa > 2:50529/1‑76 (MQ=255)
ggACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAAc > 2:1163383/1‑76 (MQ=255)
gACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACg < 2:90916/76‑1 (MQ=255)
gACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACg < 2:1333454/76‑1 (MQ=255)
cttcttTACTGAAAATGCCACACATAAACAGTACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGtt < 1:1366811/76‑1 (MQ=255)
tcttTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTaa > 2:1344786/1‑76 (MQ=255)
cttTACTGAAAATGCCACACATAAACAGAGCTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAAt < 2:288284/76‑1 (MQ=255)
tACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTAt > 1:1572129/1‑76 (MQ=255)
tACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTAt > 1:287409/1‑76 (MQ=255)
tACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTAt < 1:819528/76‑1 (MQ=255)
aCTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATg > 1:1169897/1‑76 (MQ=255)
aCTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATg > 2:353006/1‑76 (MQ=255)
cTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATgg > 1:1075996/1‑76 (MQ=255)
tGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGc < 1:483839/76‑1 (MQ=255)
gAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTATTTATGGCa > 2:387388/1‑76 (MQ=255)
aaaTGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAg < 2:529394/76‑1 (MQ=255)
aaaTGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAg < 2:95292/76‑1 (MQ=255)
tGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCa > 2:368838/1‑76 (MQ=255)
cacacaTAAACAGAACTGTACCTCGTTTAACCCGAAATCAATTATCACATACAACGTTAATTATGGCAAGCCAttt < 2:323242/76‑1 (MQ=255)
cacaTAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCAttttt < 2:1681038/76‑1 (MQ=255)
acaTAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTa < 2:1102886/76‑1 (MQ=255)
aTAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTaaa < 1:353006/76‑1 (MQ=255)
tAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAAc < 1:195542/76‑1 (MQ=255)
tAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAAc > 2:1658964/1‑76 (MQ=255)
tAAACAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAAc < 1:1365400/76‑1 (MQ=255)
aaaCAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACa > 2:98126/1‑76 (MQ=255)
aaCAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACAt > 1:1209579/1‑76 (MQ=255)
aaCAGAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATGTTTAAACAt > 1:1209563/1‑76 (MQ=255)
gAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGtct < 2:1281093/76‑1 (MQ=255)
gAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGtct < 1:1123145/76‑1 (MQ=255)
gAACTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGtct < 2:1127424/76‑1 (MQ=255)
aaCTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGtctc < 1:271631/76‑1 (MQ=255)
aaCTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGtctc > 1:630668/1‑76 (MQ=255)
aaCTGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGtctc > 1:830344/1‑76 (MQ=255)
tGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGAt < 1:270319/76‑1 (MQ=255)
tGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGAt < 1:737267/76‑1 (MQ=255)
tGTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGAt < 1:737278/76‑1 (MQ=255)
gTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATc > 2:1344758/1‑76 (MQ=255)
gTACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATc < 2:468866/76‑1 (MQ=255)
tACCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCa < 2:556294/76‑1 (MQ=255)
aCCTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAg < 1:1149/76‑1 (MQ=255)
ccTCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGa > 1:877031/1‑76 (MQ=255)
tCGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACg > 1:1574847/1‑76 (MQ=255)
cGTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGc > 2:387284/1‑76 (MQ=255)
gTTTAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGca < 1:1391009/76‑1 (MQ=255)
tttAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGcac > 1:845158/1‑76 (MQ=255)
tttAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGcac < 2:1160145/76‑1 (MQ=255)
ttAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGcaca < 2:1138524/76‑1 (MQ=255)
tAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGCACaa < 1:1238149/76‑1 (MQ=255)
tAACCCGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGCACaa > 2:717736/1‑76 (MQ=255)
cGAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGCACAAAtctc > 1:311707/1‑76 (MQ=255)
gAAATCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGCACAAATCTCg > 2:459996/1‑76 (MQ=255)
aaaTCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGa > 2:1257522/1‑76 (MQ=255)
aaaTCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGa > 1:889225/1‑76 (MQ=255)
aTCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATa < 2:1493428/76‑1 (MQ=255)
tCTATTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATAc > 2:1144875/1‑76 (MQ=255)
|
CGTGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATAC > REL606/1886131‑1886276
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
