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 |
|
A80 F1 I1 R1
|
17 |
48.4 |
3161007 |
95.9% |
3031405 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,273,299 |
A→T |
intergenic (+227/‑115) |
nrfG → / → gltP |
heme lyase (NrfEFG) for insertion of heme into c552, subunit NrfG/glutamate/aspartate:proton symporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,273,299 | 0 | A | T | 96.3%
| 213.8
/ ‑1.1
| 54 | intergenic (+227/‑115) | nrfG/gltP | heme lyase (NrfEFG) for insertion of heme into c552, subunit NrfG/glutamate/aspartate:proton symporter |
| Reads supporting (aligned to +/- strand): ref base A (0/2); new base T (18/34); total (18/36) |
| Fisher's exact test for biased strand distribution p-value = 5.47e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01 |
GTTATTATGCATTAATGCAGCGAAAAGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGATCATAAGCGTTAAAAAAATCTACAAACCAACGCAACACAATTCATGCCCTGGCAGTATGTCACGTTCTCGC > REL606/4273227‑4273370
|
gTTATTATGCATTAATGCAGCGAAAAGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCa < 1:1436231/76‑1 (MQ=255)
gTTATTATGCATTAATGCAGCGAAAAGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCa < 1:1385366/76‑1 (MQ=255)
tattatGCATTAATGCAGCGAAAAGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATa < 2:676898/76‑1 (MQ=255)
attatGCATTAATGCAGCGAAAAGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATaa < 1:1260007/76‑1 (MQ=255)
tatGCATTAATGCAGCGAAAAGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGc > 1:228051/1‑76 (MQ=255)
tatGCATTAATGCAGCGAAAAGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGc > 1:494692/1‑76 (MQ=255)
tGCATTAATGCAGCGAAAAGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGt < 1:341313/76‑1 (MQ=255)
tGCATTAATGCAGCGAAAAGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGt < 1:760388/76‑1 (MQ=255)
tGCATTAATGCAGCGAAAAGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGt < 1:1301484/76‑1 (MQ=255)
gCATTAATGCAGCGAAAAGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGtt < 2:1069699/76‑1 (MQ=255)
gCATTAATGCAGCGAAAAGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGtt < 2:619962/76‑1 (MQ=255)
aTTAATGCAGCGAAAAGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTaa > 1:206338/1‑76 (MQ=255)
aTTAATGCAGCGAAAAGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTaa < 1:948761/76‑1 (MQ=255)
tAATGCAGCGAAAAGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTaaaa < 2:154609/76‑1 (MQ=255)
tAATGCAGCGAAAAGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTaaaa < 2:39103/76‑1 (MQ=255)
aTGCAGCGAAAAGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTaaaaan < 1:235457/76‑2 (MQ=255)
tGCAGCGAAAAGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTaaaaaaa > 1:1288162/1‑76 (MQ=255)
gCAGCGAAAAGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAAt < 2:823731/76‑1 (MQ=255)
cGAAAAGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTAc < 2:1294737/76‑1 (MQ=255)
cGAAAAGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTAc < 1:254643/76‑1 (MQ=255)
cGAAAAGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTAc < 1:39070/76‑1 (MQ=255)
cGAAAAGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTAc < 1:1124149/76‑1 (MQ=255)
cGAAAAGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTAc < 1:1124132/76‑1 (MQ=255)
gAAAAGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTACa < 1:1034404/76‑1 (MQ=255)
aaaaGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTACaa < 1:65974/76‑1 (MQ=255)
aaaGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTACaaa < 2:1021286/76‑1 (MQ=255)
aGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTACAAAcc < 1:1102898/76‑1 (MQ=255)
aGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTACAAAcc > 2:1069844/1‑76 (MQ=255)
ctGTTGTTAAAGGGTTGCGTAACATACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTACAAACCAACg > 2:620734/1‑76 (MQ=255)
ctGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTACAAACCAACg > 2:274723/1‑76 (MQ=255)
tgttgtTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTACAAACCAACGc > 1:89654/1‑76 (MQ=255)
tgttgtTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTACAAACCAACGc < 1:1042770/76‑1 (MQ=255)
gttgttAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTACAAACCAACGCa < 1:841691/76‑1 (MQ=255)
gttAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTACAAACCAACGCAaca < 1:295795/76‑1 (MQ=255)
ttAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTACAAACCAACGCAacac > 1:1471951/1‑76 (MQ=255)
ttAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTACAAACCAACGCAacac > 2:1074124/1‑76 (MQ=255)
ttAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTACAAACCAACGCAacac > 2:1146727/1‑76 (MQ=255)
tAAAGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTACAAACCAACGCAAcaca < 2:1236839/76‑1 (MQ=255)
tAAAGGGTTGCGCAACATACCGCGCAAATGATACTGATCATAAGCGTTAAAAAAATCTACAAACCAACGCAAcaca < 1:499345/76‑1 (MQ=255)
aaaGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTACAAACCAACGCAACACaa > 2:1313041/1‑76 (MQ=255)
aaGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTACAAACCAACGCAACACAAt > 2:217767/1‑76 (MQ=255)
aGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTACAAACCAACGCAACACAAtt > 2:1243467/1‑76 (MQ=255)
aGGGTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTACAAACCAACGCAACACAAtt < 2:266014/76‑1 (MQ=255)
ggTTGCGCAACATACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTACAAACCAACGCAACACAATTCa > 2:922825/1‑76 (MQ=255)
gTTGCGCAACATACCGCGCAAATGATACTGATCATAAGCGTTAAAAAAATCTACAAACCAACGCAACACAATTCAt < 1:409702/76‑1 (MQ=255)
aCATACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTACAAACCAACGCAACACAATTCATGCCCTGGc < 2:1446422/76‑1 (MQ=255)
aTACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTACAAACCAACGCAACACAATTCATGCCCTGGCAg < 2:903668/76‑1 (MQ=255)
tACCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTACAAACCAACGCAACACAATTCATGCCCTGGCAGt < 2:222785/76‑1 (MQ=255)
aCCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTACAAACCAACGCAACACAATTCATGCCCTGGCAGTa > 1:362006/1‑76 (MQ=255)
aCCGCGCAAATGATACTGTTCATAAGCGTTAAAAAAATCTACAAACCAACGCAACACAATTCATGCCCTGGCAGTa < 1:1157853/76‑1 (MQ=255)
cAAATGATACTGTTCATAAGCGTTAAAAAAATCTACAAACCAACGCAACACAATTCATGCCCTGGCAGTATGTCAc > 1:470714/1‑76 (MQ=255)
aaaTGATACTGTTCATAAGCGTTAAAAAAATCTACAAACCAACGCAACACAATTCATGCCCTGGCAGTATGTCACg < 1:1285968/76‑1 (MQ=255)
aTACTGTTCATAAGCGTTAAAAAAATCTACAAACCAACGCAACACAATTCATGCCCTGGCAGTATGTCACGTtctc < 2:1066368/76‑1 (MQ=255)
aCTGTTCATAAGCGTTAAAAAAATCTACAAACCAACGCAACACAATTCATGCCCTGGCAGTATGTCACGTTCTcgc > 1:964224/1‑76 (MQ=255)
|
GTTATTATGCATTAATGCAGCGAAAAGCTCTGTTGTTAAAGGGTTGCGCAACATACCGCGCAAATGATACTGATCATAAGCGTTAAAAAAATCTACAAACCAACGCAACACAATTCATGCCCTGGCAGTATGTCACGTTCTCGC > REL606/4273227‑4273370
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
