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 F3 I122 R1
|
193 |
20.9 |
1228102 |
94.7% |
1163012 |
84.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
1,659,576 |
T→C |
F14S (TTC→TCC) |
clcB → |
voltage‑gated ClC‑type chloride channel ClcB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 1,659,576 | 0 | T | C | 100.0%
| 59.9
/ NA
| 17 | F14S (TTC→TCC) | clcB | voltage‑gated ClC‑type chloride channel ClcB |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (9/8); total (9/8) |
CTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATGCATCATCTACACATCTATCCGGATCTGCGCACTATGTTCCACCGTCTGCTTATCGCAACAGTCGTCGGTATTCTCGCGGCCTTTGCCGTTGCCGGGTTTCGTCATGCGATGCTGCTACTGGAG > NZ_CP009273/1659489‑1659661
|
ctTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATGCATCATCTACACATCTATCCGGATCTGCGCACTATGTccc < 1:358903/90‑1 (MQ=255)
aaaTAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATGCATCATCTACACATCTATCCGGATCTGCGCACTATGTCCCACCGTCTGCtt < 1:479014/90‑1 (MQ=255)
tAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATGCATCATCTACACATCTATCCGGATCTGCGCACTATGTCCCACCGTCTGCTTATc < 1:254150/90‑1 (MQ=255)
gCCCGTGTTTCATTGCCCATTTCTGCTCATGCATCATCTACACATCTATCCGGATCTGCGCACTATGTCCCACCGTCTGCTTATCGCAAc < 2:8969/90‑1 (MQ=255)
aTTGCCCATTTCTGCTCATGCATCATCTACACATCTATCCGGATCTGCGCACTATGTCCCACCGTCTGCTTATCGCAACAGTCGTCGGTa > 1:441538/1‑90 (MQ=255)
aTTGCCCATTTCTGCTCATGCATCATCTACACATCTATCCGGATCTGCGCACTATGTCCCACCGTCTGCTTATCGCAACAGTCGTCGGTa > 2:434087/1‑90 (MQ=255)
gCTCATGCATCATCTACACATCTATCCGGATCTGCGCACTATGTCCCACCGTCTGCTTATCGCAACAGTCGTCGGTATTCTCGCGGCCtt > 1:505666/1‑90 (MQ=255)
aTCTATCCGGATCTGCGCACTATGTCCCACCGTCTGCTTATCGCAACAGTCGTCGGTATTCTCGCGGCCTTTGCCGTTGCCGGGTTTCGt < 2:569443/90‑1 (MQ=255)
tCTATCCGGATCTGCGCACTATGTCCCACCGTCTGCTTATCGCAACAGTCGTCGGTATTCTCGCGGCCTTTGCCGTTGCCGGGTTTCGTc > 2:231623/1‑90 (MQ=255)
aTCCGGATCTGCGCACTATGTCCCACCGTCTGCTTATCGCAACAGTCGTCGGTATTCTCGCGGCCTTTGCCGTTGCCGGGTTTCGTCATg > 2:390249/1‑90 (MQ=255)
ccGGATCTGCGCACTATGTCCCACCGTCTGCTTATCGCAACAGTCGTCGGTATTCTCGCGGCCTTTGCCGTTGCCGGGTTTCGTCATGCg < 2:505666/90‑1 (MQ=255)
gATCTGCGCACTATGTCCCACCGTCTGCTTATCGCAACAGTCGTCGGTAt > 2:152212/1‑50 (MQ=255)
gATCTGCGCACTATGTCCCACCGTCTGCTTATCGCAACAGTCGTCGGTAt < 1:152212/50‑1 (MQ=255)
gATCTGCGCACTATGTCCCACCGTCTGCTTATCGCAACAGTCGTCGGTATTCTCGCGGCCTTTGCCGTTGCCGGGTTTCGTCATGCGAtg < 2:176435/90‑1 (MQ=255)
gATCTGCGCACTATGTCCCACCGTCTGCTTATCGCAACAGTCGTCGGTATTCTCGCGGCCTTTGCCGTTGCCGGGTTTCGTCATGCGAtg > 2:475093/1‑90 (MQ=255)
cACTATGTCCCACCGTCTGCTTATCGCAACAGTCGTCGGTATTCTCGCGGCCTTTGCCGTTGCCGGGTTTCGTCATGCGATGCTGCTACt < 2:205990/90‑1 (MQ=255)
aTGTCCCACCGTCTGCTTATCGCAACAGTCGTCGGTATTCTCGCGGCCTTTGCCGTTGCCGGGTTTCGTCATGCGATGCTGCTACTGGAg > 1:276341/1‑90 (MQ=255)
aTGTCCCACCGTCTGCTTATCGCAACAGTCGTCGGTATTCTCGCGGCCTTTGCCGTTGCCGGGTTTCGTCATGCGATGCTGCTACTGGAg > 2:398073/1‑90 (MQ=255)
|
CTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATGCATCATCTACACATCTATCCGGATCTGCGCACTATGTTCCACCGTCTGCTTATCGCAACAGTCGTCGGTATTCTCGCGGCCTTTGCCGTTGCCGGGTTTCGTCATGCGATGCTGCTACTGGAG > NZ_CP009273/1659489‑1659661
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATGCATCATCTACACATCTATCCGGATCTGCGCACTATGTTCCACCGTCTGCTTATCGCAACAGTCGTCGGTATTCTCGCGGCCTTTGCCGTTGCCGGGTTTCGTCATGCGATGCTGCTACTGGAGTGGTTGTTCCTC > NZ_CP009273/1659481‑1659673
|
ggcgaccaccgagatctacactccttacgtcgtcggcagcgtcagatgtgtataagagacagATCTACACATCTATCCGGATCTGCGCACTATGTCCCAC < SRR3721989.19377/38‑1 (MQ=60)
TGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATGCATCATCTACACATCTATCCGGATCTGCGCACTATGTCCCACCG < SRR3721989.128892/100‑1 (MQ=60)
TGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATGCATCATCTACACATCTATCCGGATCTGCGCACTATGTCCCACCG < SRR3721989.9438/100‑1 (MQ=60)
CTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATGCATCATCTACACATCTATCCGGATCTGCGCACTATGTCCCACCGTCTGCT < SRR3721989.365825/100‑1 (MQ=60)
AAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATGCATCATCTACACATCTATCCGGATCTGCGCACTATGTCCCACCGTCTGCTTATCGCAACAG < SRR3721989.489105/100‑1 (MQ=60)
TAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATGCATCATCTACACATCTATCCGGATCTGCGCACTATGTCCCACCGTCTGCTTATCGCAACAGTCG < SRR3721989.258672/100‑1 (MQ=60)
CCCGTGTTTCATTGCCCATTTCTGCTCATGCATCATCTACACATCTATCCGGATCTGCGCACTATGTCCCACCGTCTGCTTATCGCAACAGTCGTCGGTA > SRR3721989.450729/1‑100 (MQ=60)
tcggcagcgtcagatgtgtataagagacagCATCTATCCGGATCTGCGCACTATGTCCCACCGTCTGCTTATCGCAACAGTCGTCGGTATTCTCGCGGCC < SRR3721989.154971/70‑1 (MQ=60)
GCCCATTTCTGCTCATGCATCATCTACACATCTATCCGGATCTGCGCACTATGTCCCACCGTCTGCTTATCGCAACAGTCGTCGGTATTCTCGCGGCCTT > SRR3721989.516452/1‑100 (MQ=60)
TCTGCGCACTATGTCCCACCGTCTGCTTATCGCAACAGTCGTCGGTATTCTCGCGGCCTTTGCCGTTGCCGGGTTTCGTCATGCGATGCTGCTACTGGAG > SRR3721989.281360/1‑100 (MQ=60)
GTCCCACCGTCTGCTTATCGCAACAGTCGTCGGTATTCTCGCGGCCTTTGCCGTTGCCGGGTTTCGTCATGCGATGCTGCTACTGGAGTGGTTGTTCCTC > SRR3721989.388504/1‑100 (MQ=60)
|
GCTGGCCTCTTTTGCCGCAAAATAGTCGCCCGTGTTTCATTGCCCATTTCTGCTCATGCATCATCTACACATCTATCCGGATCTGCGCACTATGTTCCACCGTCTGCTTATCGCAACAGTCGTCGGTATTCTCGCGGCCTTTGCCGTTGCCGGGTTTCGTCATGCGATGCTGCTACTGGAGTGGTTGTTCCTC > NZ_CP009273/1659481‑1659673
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
