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 |
|
A77 F1 I1 R1
|
21 |
53.0 |
3608474 |
95.6% |
3449701 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,202,004 |
A→G |
Y186H (TAT→CAT) |
iclR ← |
DNA‑binding transcriptional repressor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,202,004 | 0 | A | G | 96.0%
| 191.9
/ ‑1.4
| 50 | Y186H (TAT→CAT) | iclR | DNA‑binding transcriptional repressor |
| Reads supporting (aligned to +/- strand): ref base A (2/0); new base G (30/18); total (32/18) |
| Fisher's exact test for biased strand distribution p-value = 5.30e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.99e-01 |
GAATAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATAGGCATGTAACCCTTTGCGGTGCAGCAGCTTCGTCACCTGTTCTTCGCTCAGTTGGGCTAAAAAGGCTTTACC > REL606/4201931‑4202076
|
gAATAACCCCGTTTGCGCGTTTGTGGCAGAATTTCTTTTAAAAGCTCAGGAGACACCAGCGTTGCGTGGGTATAgg < 2:588881/76‑1 (MQ=255)
aaTAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGc > 2:1562353/1‑76 (MQ=255)
aTAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCa > 1:1028562/1‑76 (MQ=255)
aaCCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATg > 2:985295/1‑76 (MQ=255)
ccccGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATAGGCATGTa > 2:1680163/1‑76 (MQ=255)
cccGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATGTaa < 2:395897/76‑1 (MQ=255)
cGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAAcc > 1:1553851/1‑76 (MQ=255)
ttGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCtt < 1:102895/76‑1 (MQ=255)
ttGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATAGGCATGTAACCCtt > 1:765620/1‑76 (MQ=255)
tGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCttt < 2:1442100/76‑1 (MQ=255)
tGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGAGGGTATGGGCATGTAACCCttt > 2:642161/1‑76 (MQ=255)
gcgcGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTg > 2:1424144/1‑76 (MQ=255)
cgcgTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGc > 2:834084/1‑76 (MQ=255)
cgcgTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGc > 1:1197316/1‑76 (MQ=255)
cgTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCgg < 1:1611323/76‑1 (MQ=255)
cgTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCgg < 1:285581/76‑1 (MQ=255)
cgTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCgg < 1:563086/76‑1 (MQ=255)
cgTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCgg < 1:648584/76‑1 (MQ=255)
gTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCGGt > 1:44362/1‑76 (MQ=255)
tttGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCGGTg < 1:1055277/76‑1 (MQ=255)
ttGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCGGTgc < 2:1566443/76‑1 (MQ=255)
tGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCGGTgca > 2:506855/1‑76 (MQ=255)
tGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCGGTgca < 1:1384060/76‑1 (MQ=255)
ggCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCGGTgcagc < 2:139080/76‑1 (MQ=255)
cGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCGGTGcagcag > 2:822137/1‑76 (MQ=255)
agaTCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCGGTGCAGCAGCt < 1:850786/76‑1 (MQ=255)
aTCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCGGCGCAGCAGCtcc > 2:1053436/1‑74 (MQ=255)
tcttTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCGGTGCAGCAGCTTCGTCa > 2:89388/1‑76 (MQ=255)
tcttTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCGGTGCAGCAGCTTCGTCa > 2:450546/1‑76 (MQ=255)
tttAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCGGTGCAGCAGCTTCGTCACCt > 1:1611088/1‑76 (MQ=255)
tttAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCGGTGCAGCAGCTTCGTCACCt > 1:591664/1‑76 (MQ=255)
ttAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCGGTGCAGCAGCTTCGTCACCTg < 2:1404539/76‑1 (MQ=255)
tAAATGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCGGTGCAGCAGCTTCGTCACCTGt > 2:854520/1‑76 (MQ=255)
aaTGCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCGGTGCAGCAGCTTCGTCACCTGttc < 2:1508631/76‑1 (MQ=255)
gCACAGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCGGTGCAGCAGCTTCGTCACCTGttcttc > 2:331748/1‑76 (MQ=255)
cacaGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCGGTGCAGCAGCTTCGTCACCTGTTCTTCg > 2:890254/1‑76 (MQ=255)
caGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCGGTGCAGCAGCTTCGTCACCTGTTCTTCGCt < 1:812664/76‑1 (MQ=255)
aGGAGACACCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCGGTGCAGCAGCTTCGTCACCTGTTCTTCGCTc > 2:285275/1‑76 (MQ=255)
acacCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCGGTGCAGCAGCTTCGTCACCTGTTCTTCGCTCAGTTg > 2:1370631/1‑76 (MQ=255)
acacCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCGGTGCAGCAGCTTCGTCACCTGTTCTTCGCTCAGTTg > 2:1232143/1‑76 (MQ=255)
cacCAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCGGTGCAGCAGCTTCGTCACCTGTTCTTCGCTCAGTTgg > 2:1108098/1‑76 (MQ=255)
ccAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCGGTGCAGCAGCTTCGTCACCTGTTCTTCGCTCAGTTGGGc > 2:923978/1‑76 (MQ=255)
cAGCGTTGCGTGGGTATGGGCATGTAACCCTTTGCGGTGCAGCAGCTTCGTCACCTGTTCTTCGCTCAGTTGGGCt < 1:1079894/76‑1 (MQ=255)
gTTGCGTGGGTATGGGCATGTAACCCTTTGCGGTGCAGCAGCTTCGTCACCTGTTCTTCGCTCAGTTGGGCTaaaa < 1:626457/76‑1 (MQ=255)
gTTGCGTGGGTATGGGCATGTAACCCTTTGCGGTGCAGCAGCTTCGTCACCTGTTCTTCGCTCAGTTGGGCTaaaa < 1:700638/76‑1 (MQ=255)
tGCGTGGGTATGGGCATGTAACCCTTTGCGGTGCAGCAGCTTCGTCACCTGTTCTTCGCTCAGTTGGGCTAAAAAg > 1:339496/1‑76 (MQ=255)
tGCGTGGGTATGGGCATGTAACCCTTTGCGGTGCAGCAGCTTCGTCACCTGTTCTTCGCTCAGTTGGGCTAAAAAg > 1:176882/1‑76 (MQ=255)
cGTGGGTATGGGCATGTAACCCTTTGCGGTGCAGCAGCTTCGTCACCTGTTCTTCGCTCAGTTGGGCTAAAAAGGc > 2:1671140/1‑76 (MQ=255)
cGTGGGTATGGGCATGTAACCCTTTGCGGTGCAGCAGCTTCGTCACCTGTTCTTCGCTCAGTTGGGCTAAAAAGGc > 1:982517/1‑76 (MQ=255)
cGTGGGTATGGGCATGTAACCCTTTGCGGTGCAGCAGCTTCGTCACCTGTTCTTCGCTCAGTTGGGCTAAAAAGGc > 2:1214125/1‑76 (MQ=255)
gTATGGGCATGTAACCCTTTGCGGTGCAGCAGCTTCGTCACCTGTTCTTCGCTCAGTTGGGCTAAAAAGGCTTTAc > 1:375944/1‑76 (MQ=255)
tatgGGCATGTAACCCTTTGCGGTGCAGCAGCTTCGTCACCTGTTCTTCGCTCAGTTGGGCTAAAAAGGCTTTAcc > 2:880802/1‑76 (MQ=255)
|
GAATAACCCCGTTTGCGCGTTTGGGCGAGATCTTCTTTTAAATGCACAGGAGACACCAGCGTTGCGTGGGTATAGGCATGTAACCCTTTGCGGTGCAGCAGCTTCGTCACCTGTTCTTCGCTCAGTTGGGCTAAAAAGGCTTTACC > REL606/4201931‑4202076
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
