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 |
|
A82 F1 I1 R1
|
16 |
52.8 |
3323890 |
97.1% |
3227497 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
1,689,712 |
(C)6→5 |
intergenic (+360/‑251) |
nth → / → ydgR |
DNA glycosylase and apyrimidinic (AP) lyase (endonuclease III)/putative tripeptide transporter permease |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 1,689,707 | 0 | C | . | 94.6%
| 162.3
/ 4.5
| 37 | intergenic (+355/‑256) | nth/ydgR | DNA glycosylase and apyrimidinic (AP) lyase (endonuclease III)/putative tripeptide transporter permease |
| Reads supporting (aligned to +/- strand): ref base C (0/2); new base . (14/21); total (14/23) |
| Fisher's exact test for biased strand distribution p-value = 5.17e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.88e-01 |
GGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCACCCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTCCC > REL606/1689632‑1689778
|
ggCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCAc > 2:704343/1‑76 (MQ=255)
ggCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCAc < 2:469486/76‑1 (MQ=255)
ggCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCAc > 2:1172408/1‑76 (MQ=255)
ggCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCAc > 1:347809/1‑76 (MQ=255)
tttttCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCAccccct < 1:1094332/76‑2 (MQ=255)
tttCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCACCCCCctc < 2:975733/76‑1 (MQ=255)
tCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTca < 1:1102725/76‑1 (MQ=255)
cAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTcag > 1:1378063/1‑76 (MQ=255)
aGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTcagt > 2:563310/1‑76 (MQ=255)
aGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTcagt < 2:267491/76‑1 (MQ=255)
aaCTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTcagtgca < 2:1564823/76‑1 (MQ=255)
aaCTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTcagtgca > 1:58119/1‑76 (MQ=255)
aCTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTcagtgcag < 2:95621/76‑1 (MQ=255)
aCTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTcagtgcag < 2:939218/76‑1 (MQ=255)
cTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTcagtgcagt < 2:233174/76‑1 (MQ=255)
tGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTcagtgcagtg < 1:20091/76‑1 (MQ=255)
tATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGaaaaa < 1:788104/76‑1 (MQ=255)
aTCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGaaaaaa > 1:1079215/1‑76 (MQ=255)
tctcACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAAt < 2:1132899/76‑1 (MQ=255)
tcACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCt < 2:648994/76‑1 (MQ=255)
cACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTg < 2:1237740/76‑1 (MQ=255)
cACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTg > 1:1070896/1‑76 (MQ=255)
gTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCTGtt > 1:1200156/1‑76 (MQ=255)
aaaaCGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACg < 1:1470835/76‑1 (MQ=255)
cGCTAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGtttt < 1:1129469/76‑1 (MQ=255)
tAAATAGCAGAACATATCGCCGTTAAGCCATCACCCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGtttttt < 2:733690/76‑1 (MQ=255)
tAAATAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTg > 2:298300/1‑76 (MQ=255)
aaaTAGCAGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGa > 2:1537362/1‑76 (MQ=255)
aGAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAAttt > 1:973683/1‑76 (MQ=255)
gAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTa < 1:1561331/76‑1 (MQ=255)
gAACATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTa < 1:494967/76‑1 (MQ=255)
cATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACg < 1:492934/76‑1 (MQ=255)
cATATCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACg < 2:1271949/76‑1 (MQ=255)
atCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTg < 1:1512347/76‑1 (MQ=255)
atCGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTg > 2:65666/1‑76 (MQ=255)
cGCCGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGa < 2:629528/76‑1 (MQ=255)
ccGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATa < 2:878222/76‑1 (MQ=255)
cGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATaa > 1:1464203/1‑76 (MQ=255)
cGTTAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATaa < 2:347809/76‑1 (MQ=255)
ttAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACa > 1:491895/1‑76 (MQ=255)
tAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACAt > 2:256961/1‑76 (MQ=255)
tAAGCCATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACAt > 2:1423686/1‑76 (MQ=255)
cATCA‑CCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTccc > 1:1500911/1‑76 (MQ=255)
|
GGCTATTTTTCAGAAACTGGACTATCTCACTAGTAAAAACGCTAAATAGCAGAACATATCGCCGTTAAGCCATCACCCCCCTCTCAGTGCAGTGAAAAAATCTGCCGTTACGTTTTTTGAAAAATTTAACGCTGGATAACATTTCCC > REL606/1689632‑1689778
|
| 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
