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 |
|
A1 F2 I175 R1
|
221 |
18.5 |
1047116 |
95.1% |
995807 |
84.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
4,595,668 |
A→G |
G16G (GGA→GGG) |
yjjZ → |
DUF1435 domain‑containing protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 4,595,668 | 0 | A | G | 100.0%
| 101.2
/ NA
| 28 | G16G (GGA→GGG) | yjjZ | DUF1435 domain‑containing protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (18/10); total (18/10) |
ATGATATTGGTTATCATTATCAATGAAAGAGATGAAATCATGTTGCAACGTACGCTGGGCAGTGGCTGGGGAGTGTTGCTGCCGGGATTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGATTGTCATTCTGATGGGATTAGTATTGACGCCGAT > NZ_CP009273/4595582‑4595754
|
atGATATTGGTTATCATTATCAATGAAAGAGATGAAATCATGTTGCAACGTACGCTGGGCAGTGGCTGGGGAGTGTTGCTGCCGGGGTTg > 2:41750/1‑90 (MQ=255)
atatTGGTTATCATTATCAATGAAAGAGATGAAATCATGTTGCAACGTACGCTGGGCAGTGGCTGGGGAGTGTTGCTGCCGGGGTTGCTg < 1:38019/90‑1 (MQ=255)
atcattatcaATGAAAGAGATGAAATCATGTTGCAACGTACGCTGGGCAGTGGCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAggg > 1:300225/1‑90 (MQ=255)
tcattatcaATGAAAGAGATGAAATCATGTTGCAACGTACGCTGGGCAGTGGCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGc > 1:282350/1‑90 (MQ=255)
atcaATGAAAGAGATGAAATCATGTTGCAACGTACGCTGGGCAGTGGCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGATg > 2:355816/1‑90 (MQ=255)
cATGTTGCAACGTACGCTGGGCAGTGGCTGGGGAGGGTTGCTGCCGGGGTCGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGa > 1:431613/1‑90 (MQ=255)
tGTTGCAACGTACGCTGGGCAGTGGCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGGTGTATGCGGATTTATCGTCAGATc > 2:279609/1‑90 (MQ=255)
gCAACGTACGCTGGGCAGTGGCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTg < 1:260993/90‑1 (MQ=255)
aaCGTACGCTGGGCAGTGGCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGc > 2:238002/1‑90 (MQ=255)
aaCGTACGCTGGGCAGTGGCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGc > 2:387336/1‑90 (MQ=255)
gTACGCTGGGCAGTGGCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGa > 2:104308/1‑90 (MQ=255)
tACGCTGGGCAGTGGCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGAt < 1:387336/90‑1 (MQ=255)
tACGCTGGGCAGTGGCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGAt < 1:238002/90‑1 (MQ=255)
aCGCTGGGCAGTGGCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGAtt > 1:135004/1‑90 (MQ=255)
gCTGGGCAGTGGCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGATTGt < 2:300225/90‑1 (MQ=255)
gggCAGTGGCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGATTGTCAt > 2:459720/1‑90 (MQ=255)
gggCAGTGGCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGATTGTCAt > 2:46982/1‑90 (MQ=255)
gggCAGTGGCTGGGGAGTGTTGCTGCCGGGGGTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGAATGGCAt > 2:237843/1‑90 (MQ=255)
cAGTGGCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGATTGTCATTCt > 1:377251/1‑90 (MQ=255)
gTGGCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGATTGTCATTCTGa > 1:158278/1‑90 (MQ=255)
ggCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGATTGTCATTCTGATg < 2:142972/90‑1 (MQ=255)
ggCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGATTGTCATTCTGATg < 1:459720/90‑1 (MQ=255)
gggAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGATTGTCATTCTGATGGGAtt < 2:325636/90‑1 (MQ=255)
ggAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGATTGTCATTCTGATGGGATTa < 2:331409/90‑1 (MQ=255)
aGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGATTGTCATTCTGATGGGATTAGt > 1:338849/1‑90 (MQ=255)
gtTGCTGCCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGATTGTCATTCTGATGGGATTAGTAtt > 1:454340/1‑90 (MQ=255)
gctgcCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCgg < 2:203699/61‑1 (MQ=255)
gctgcCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCgg > 1:203699/1‑61 (MQ=255)
ggggTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGATTGTCATTCTGATGGGATTAGTATTGACGCCgat < 2:509863/90‑1 (MQ=255)
|
ATGATATTGGTTATCATTATCAATGAAAGAGATGAAATCATGTTGCAACGTACGCTGGGCAGTGGCTGGGGAGTGTTGCTGCCGGGATTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGATTGTCATTCTGATGGGATTAGTATTGACGCCGAT > NZ_CP009273/4595582‑4595754
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GATATTGGTTATCATTATCAATGAAAGAGATGAAATCATGTTGCAACGTACGCTGGGCAGTGGCTGGGGAGTGTTGCTGCCGGGATTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGATTGTCATTCTGATGGGATTAGTATTGACGCCGATGATGCTGTATCAC > NZ_CP009273/4595584‑4595767
|
GATATTGGTTATCATTATCAATGAAAGAGATGAAATCATGTTGCAACGTACGCTGGGCAGTGGCTGGGGAGGGTTGCTGCCGGGGTTGCTGATTGCAGGG > SRR3722048.304720/1‑100 (MQ=60)
ATATTGGTTATCATTATCAATGAAAGAGATGAAATCATGTTGCAACGTACGCTGGGCAGTGGCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGC > SRR3722048.286546/1‑100 (MQ=60)
ATATTGGTTATCATTATCAATGAAAGAGATGAAATCATGTTGCAACGTACGCTGGGCAGTGGCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGC < SRR3722048.38547/100‑1 (MQ=60)
GAGATGAAATCATGTTGCAACGTACGCTGGGCAGTGGCTGGGGAGGGTTGCTGCCGGGGTCGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGA > SRR3722048.438671/1‑100 (MQ=60)
GTTGCAACGTACGCTGGGCAGTGGCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGATT > SRR3722048.136956/1‑100 (MQ=60)
GCAACGTACGCTGGGCAGTGGCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGATTGTC < SRR3722048.264794/100‑1 (MQ=60)
GTACGCTGGGCAGTGGCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGATTGTCATTCT > SRR3722048.383350/1‑100 (MQ=60)
TACGCTGGGCAGTGGCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGATTGTCATTCTG < SRR3722048.241343/100‑1 (MQ=60)
TACGCTGGGCAGTGGCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGATTGTCATTCTG < SRR3722048.393577/100‑1 (MQ=60)
ACGCTGGGCAGTGGCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGATTGTCATTCTGA > SRR3722048.160542/1‑100 (MQ=60)
GTGGCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGATTGTCATTCTGATGGGATTAGG > SRR3722048.344107/1‑100 (MQ=60)
GGCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGATTGTCATTCTGATGGGATTAGTAT < SRR3722048.467299/100‑1 (MQ=60)
GCTGGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGATTGTCATTCTGATGGGATTAGTATT > SRR3722048.461815/1‑100 (MQ=60)
GGGGAGTGTTGCTGCCGGGGTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGATTGTCATTCctgtctcttatacacatct > SRR3722048.206542/1‑81 (MQ=60)
GTTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCtgtctcttatacacatctccgagcccacgagacctctctacatctcgtat > SRR3722048.461569/1‑50 (MQ=60)
|
GATATTGGTTATCATTATCAATGAAAGAGATGAAATCATGTTGCAACGTACGCTGGGCAGTGGCTGGGGAGTGTTGCTGCCGGGATTGCTGATTGCAGGGCTGATGTATGCGGATTTATCGTCAGATCAGTGGCGGATTGTCATTCTGATGGGATTAGTATTGACGCCGATGATGCTGTATCAC > NZ_CP009273/4595584‑4595767
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
