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 |
|
A108 F1 I1 R1
|
80 |
195.1 |
12639756 |
93.3% |
11792892 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
1,602,152 |
2 bp→AT |
intergenic (+175/+52) |
pinQ → / ← ECB_01505 |
predicted site‑specific recombinase/conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 1,602,152 | 0 | T | A | 98.8%
| 331.6
/ ‑3.5
| 83 | intergenic (+175/+53) | pinQ/ECB_01505 | predicted site‑specific recombinase/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (0/1); new base A (35/47); total (35/48) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.86e-01 |
| * | REL606 | 1,602,153 | 0 | G | T | 98.8%
| 327.0
/ ‑3.7
| 83 | intergenic (+176/+52) | pinQ/ECB_01505 | predicted site‑specific recombinase/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (0/1); new base T (35/47); total (35/48) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.81e-01 |
TGCAGTTGACGTATCAACACGGTTCAGCAACACCCGATACTTTTTCCTGGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGATTAACCAA > REL606/1602105‑1602222
||
tgCAGTTGACGTATCAACACGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTtcctcc < 2:6196064/76‑1 (MQ=255)
tgCAGTTGACGTATCAACACGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTtcctcc < 2:770563/76‑1 (MQ=255)
tgCAGTTGACGTATCAACACGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTtcctcc < 2:770564/76‑1 (MQ=255)
cAGTTGACGTATCAACACGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGt > 1:1063823/1‑76 (MQ=255)
aGTTGACGTATCAACACGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGtt < 2:2315904/76‑1 (MQ=255)
aGTTGACGTATCAACACGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGtt > 1:4763606/1‑76 (MQ=255)
ttGACGTATCAACACGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGc < 2:6300231/76‑1 (MQ=255)
tGACGTATCAACACGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCa > 2:3411361/1‑76 (MQ=255)
tGACGTATCAACACGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCa < 1:282968/76‑1 (MQ=255)
aCGTATCAACACGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCata < 2:5817806/76‑1 (MQ=255)
cGTATCAACACGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCatat < 2:2375910/76‑1 (MQ=255)
cGTATCAACACGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCatat < 1:2240931/76‑1 (MQ=255)
cGTATCAACACGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCatat > 1:2522390/1‑76 (MQ=255)
cGTATCAACACGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCatat < 1:5892438/76‑1 (MQ=255)
tATCAACACGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATAc < 1:1601603/76‑1 (MQ=255)
tATCAACACGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATAc > 2:1838676/1‑76 (MQ=255)
tATCAACACGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATAc < 1:2728526/76‑1 (MQ=255)
tATCAACACGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATAc > 2:255326/1‑76 (MQ=255)
aTCAACACGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACa < 1:518610/76‑1 (MQ=255)
aTCAACACGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACa > 2:4074005/1‑76 (MQ=255)
aTCAACACGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACa < 1:4298858/76‑1 (MQ=255)
cAACACGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGc > 1:2390782/1‑76 (MQ=255)
aaCACGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCt < 1:2599392/76‑1 (MQ=255)
aaCACGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCt > 1:1567369/1‑76 (MQ=255)
acacGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTc < 1:3370861/76‑1 (MQ=255)
acacGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTc < 2:3882051/76‑1 (MQ=255)
cacGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCa < 2:4404085/76‑1 (MQ=255)
cacGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCa > 2:876187/1‑76 (MQ=255)
cacGGTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCa < 2:4332160/76‑1 (MQ=255)
gTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCtt > 2:3326213/1‑76 (MQ=255)
gTTCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCtt < 2:3484692/76‑1 (MQ=255)
ttCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCttt > 1:1732151/1‑76 (MQ=255)
ttCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCttt < 2:4417051/76‑1 (MQ=255)
tCAGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCtttt < 2:5668884/76‑1 (MQ=255)
aGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCtttttt < 1:5345227/76‑1 (MQ=255)
aGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCtttttt > 2:5723004/1‑76 (MQ=255)
aGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCtttttt < 2:6044238/76‑1 (MQ=255)
aGCAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCtttttt > 1:3327984/1‑76 (MQ=255)
gCAACACCCGATACTTTTTCCTGGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTc < 1:2231130/76‑1 (MQ=255)
cAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCa < 2:3888384/76‑1 (MQ=255)
cAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCa > 2:4189275/1‑76 (MQ=255)
cAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCa < 1:5629392/76‑1 (MQ=255)
cAACACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCa > 2:1181244/1‑76 (MQ=255)
aaCACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCAc > 2:622940/1‑76 (MQ=255)
aaCACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCAc > 1:1139251/1‑76 (MQ=255)
aaCACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCAc < 1:5360790/76‑1 (MQ=255)
aaCACCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCAc > 1:5239519/1‑76 (MQ=255)
acacCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCAcc > 2:3835753/1‑76 (MQ=255)
cacCCGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCAccc < 1:4374304/76‑1 (MQ=255)
cacCCGATACTTTTTCCATGCTTAAAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCAccc > 2:4194965/1‑76 (MQ=11)
cacCCGATACTTGTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCAccc < 2:667387/76‑1 (MQ=11)
ccccGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCa < 2:984581/75‑1 (MQ=255)
cccGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCAc < 1:5106451/76‑1 (MQ=255)
ccGATACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACg < 1:3375390/76‑1 (MQ=255)
aTACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGAtt < 2:532670/76‑1 (MQ=255)
aTACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGAtt > 2:2960614/1‑76 (MQ=255)
aTACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGAtt > 2:4356431/1‑76 (MQ=255)
tACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGATTa < 1:5081699/76‑1 (MQ=255)
tACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGATTa < 2:3809602/76‑1 (MQ=255)
tACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGATTa > 2:2701736/1‑76 (MQ=255)
tACTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGATTa < 1:6214923/76‑1 (MQ=255)
aCTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGATTaa < 2:1893008/76‑1 (MQ=255)
aCTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGATTaa < 1:241400/76‑1 (MQ=255)
aCTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGATTaa > 1:1545774/1‑76 (MQ=255)
aCTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGATTaa < 1:729286/76‑1 (MQ=255)
aCTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGATTaa > 2:924768/1‑76 (MQ=255)
aCTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGATTaa < 2:1992867/76‑1 (MQ=255)
cTTTTTCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGATTAAc > 2:249290/1‑76 (MQ=255)
tttttCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGATTAAcc > 2:2981666/1‑76 (MQ=255)
tttttCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGATTAAcc < 2:451087/76‑1 (MQ=255)
tttttCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGATTAAcc < 1:5267713/76‑1 (MQ=255)
tttttCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGATTAAcc < 1:3475471/76‑1 (MQ=255)
tttttCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGATTAAcc > 1:1846850/1‑76 (MQ=255)
tttttCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGATTAAcc > 1:1717509/1‑76 (MQ=255)
tttttCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGATTAAcc > 1:1606863/1‑76 (MQ=255)
ttttCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGATTAACCa > 1:5806226/1‑76 (MQ=255)
ttttCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGATTAACCa < 2:4086093/76‑1 (MQ=255)
ttttCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGATTAACCa < 1:5109913/76‑1 (MQ=255)
ttttCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGATTAACCa > 1:2581430/1‑76 (MQ=255)
tttCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGATTAACCaa > 1:3955730/1‑76 (MQ=255)
tttCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGATTAACCaa > 1:3356258/1‑76 (MQ=255)
tttCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGATTAACCaa < 1:4003975/76‑1 (MQ=255)
tttCCATGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGATTAACCaa < 2:3878946/76‑1 (MQ=255)
||
TGCAGTTGACGTATCAACACGGTTCAGCAACACCCGATACTTTTTCCTGGCTTCCAGCAACGGGGTTTCTTCCTCCGTTGCATATACAGCTCACCTTTTTTCACCCACGATTAACCAA > REL606/1602105‑1602222
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
