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 |
|
A0 F0 I1 R1
|
715 |
38.4 |
1606192 |
96.6% |
1551581 |
120.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,980,957 |
(G)6→7 |
coding (71/1386 nt) |
yifK → |
putative APC family amino acid transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,980,951 | 1 | . | G | 98.3%
| 217.3
/ ‑3.8
| 60 | coding (65/1386 nt) | yifK | putative APC family amino acid transporter |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base G (32/27); total (32/28) |
| Fisher's exact test for biased strand distribution p-value = 4.67e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GATGTACCCATAACGATAACCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGTTCGTCTTTTTCATCATGCGTTCAATGGGCGAAA > NC_000913/3980827‑3981082
|
gATGTACCCATAACGATAACCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCAtt > 2:312036/1‑139 (MQ=255)
cccATAACGATAACCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTc > 1:114851/1‑139 (MQ=255)
ccATAACGATAACCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCg < 1:426844/139‑1 (MQ=255)
cATAACGATAACCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCgg > 1:681411/1‑139 (MQ=255)
aTAACGATAACCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGc < 2:205926/139‑1 (MQ=255)
tAACGATAACCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGcc > 1:86286/1‑139 (MQ=255)
tAACGATAACCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGcc > 1:437730/1‑139 (MQ=255)
gATAACCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGtt > 2:280932/1‑139 (MQ=255)
tAACCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTa > 1:738717/1‑139 (MQ=255)
aaCCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTAt > 1:337260/1‑139 (MQ=255)
aaCCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTAt > 2:685991/1‑139 (MQ=255)
ggTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATgggg < 2:681411/139‑1 (MQ=255)
tAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGgc > 1:260273/1‑139 (MQ=255)
aaCACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGgcc > 2:680047/1‑139 (MQ=255)
cacCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGgccgc > 1:34997/1‑139 (MQ=255)
cacCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGgccgc < 1:337101/139‑1 (MQ=255)
cacCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGgccgc > 1:420669/1‑139 (MQ=255)
ccGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCa < 2:767412/139‑1 (MQ=255)
cGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAg > 2:655836/1‑139 (MQ=255)
tGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCTTGGG‑GGGGCACCATTGGCGTCGGc > 2:754990/1‑110 (MQ=255)
tGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGc < 1:754990/110‑1 (MQ=255)
tGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGaa < 1:586484/139‑1 (MQ=255)
cacGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATgggccgggc < 1:238548/139‑1 (MQ=255)
cacGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATgggccgggc > 2:231304/1‑139 (MQ=255)
cacGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATgggccgggc > 2:579545/1‑139 (MQ=255)
aggAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGGACCCTGAAATgggccgggcc < 1:470223/137‑1 (MQ=255)
gATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCg < 2:260273/139‑1 (MQ=255)
tGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTAttgt < 2:420669/139‑1 (MQ=255)
tGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTAttgt < 2:34997/139‑1 (MQ=255)
tGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTAttgt < 2:738717/139‑1 (MQ=255)
acagtAACAAACCCGGGCTACAGCGTGGGCTGGAAGCTCGACATAACGAACTCATCGCCCT‑GGAGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATtggtgg < 1:514900/135‑1 (MQ=255)
gATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGc > 2:134803/1‑82 (MQ=255)
gATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGc < 1:134803/82‑1 (MQ=255)
gATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGcc > 2:596584/1‑139 (MQ=255)
agagCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGc > 2:675136/1‑139 (MQ=255)
agCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCg > 2:593452/1‑139 (MQ=255)
agCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATGGTTGGCCTATatcatcctgt > 2:514900/1‑135 (MQ=255)
agCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑gg‑gggggca < 2:134245/55‑4 (MQ=255)
agCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑gg‑gggggca > 1:134245/1‑52 (MQ=255)
cTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCggg < 1:312036/139‑1 (MQ=255)
ggCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCa < 2:554939/76‑1 (MQ=255)
ggCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCa > 1:554939/1‑76 (MQ=255)
ggCTGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGTTCGTCt > 2:397825/1‑139 (MQ=255)
tGGAAGCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGTTCGTCtttt < 1:596584/139‑1 (MQ=255)
gCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGTTCGTCTTTTtcatc < 2:273860/139‑1 (MQ=255)
gCTCGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGTTCGTCTTTTtcatc < 2:772122/139‑1 (MQ=255)
cGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGc > 2:35584/1‑46 (MQ=255)
cGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGc < 1:612885/46‑1 (MQ=255)
cGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGc > 2:612885/1‑46 (MQ=255)
cGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGc < 1:35584/46‑1 (MQ=255)
cGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATgggccgggcc < 2:799864/87‑1 (MQ=255)
cGACATATCGAACTCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATgggccgggcc > 1:799864/1‑87 (MQ=255)
tCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAg < 2:701215/53‑1 (MQ=255)
tCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAg > 1:701215/1‑53 (MQ=255)
tCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTAttgttg < 2:25624/87‑1 (MQ=255)
tCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTAttgttg > 1:25624/1‑87 (MQ=255)
tCATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGTTCGTCTTTTTCATCATTCGTTCAATGGGCg > 2:682869/1‑139 (MQ=255)
cATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCCGTTTATGGGGGCCGCCAGTACCCTGAAATgggccgggc > 2:125906/1‑72 (MQ=255)
cATCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCCGTTTATGGGGGCCGCCAGTACCCTGAAATgggccgggc < 1:125906/72‑1 (MQ=255)
aTCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGTTCGTCTTTTTCATCATGCGTTCAATGGGCGaa < 2:461789/139‑1 (MQ=255)
aTCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGTTCGTCTTTTTCATCATGCGTTCAATGGGCGaa > 1:603593/1‑139 (MQ=255)
tCGCCCTGGG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGTTCGTCTTTTTCATCATGCGTTCAATGGGCGaaa < 1:231304/139‑1 (MQ=255)
|
GATGTACCCATAACGATAACCGGTAACACCGGAAAGCATGCAAACACAACACGAGGATTTATGGCAGATAACAAACCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GG‑GGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTACCCTGAAATGGGCCGGGCCATCCGTATTGTTGGCCTATATCATCGCCGGGCTGTTCGTCTTTTTCATCATGCGTTCAATGGGCGAAA > NC_000913/3980827‑3981082
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
