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 I208 R1
|
222 |
13.1 |
731276 |
96.6% |
706412 |
85.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
3,535,339 |
T→C |
F525S (TTC→TCC) |
feoB → |
Fe(2+) transporter permease subunit FeoB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 3,535,339 | 0 | T | C | 100.0%
| 70.6
/ NA
| 20 | F525S (TTC→TCC) | feoB | Fe(2+) transporter permease subunit FeoB |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (16/4); total (16/4) |
CGTTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTTCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGCCGG > NZ_CP009273/3535253‑3535421
|
cGTTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCt > 1:326149/1‑90 (MQ=255)
tAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAg < 2:65943/90‑1 (MQ=255)
cTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTc > 1:231665/1‑90 (MQ=255)
cTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTc > 2:294439/1‑90 (MQ=255)
gATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCaa > 1:231731/1‑90 (MQ=255)
gACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTtctc > 2:36952/1‑90 (MQ=255)
gACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTtctc > 2:286342/1‑90 (MQ=255)
gCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCgg > 1:211545/1‑90 (MQ=255)
cGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCggg > 1:276767/1‑90 (MQ=255)
cGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCggg > 1:67312/1‑90 (MQ=255)
cGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCggg > 2:113166/1‑90 (MQ=255)
cGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCggg > 2:136343/1‑90 (MQ=255)
tGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGaaaa < 2:211097/90‑1 (MQ=255)
ttCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGAt > 2:350582/1‑90 (MQ=255)
cTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATc > 1:159511/1‑90 (MQ=255)
tGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTc < 2:13225/90‑1 (MQ=255)
gATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGc > 1:116027/1‑90 (MQ=255)
tcatcatcGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGcgt > 2:8583/1‑90 (MQ=255)
catcatcGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGcgtc > 2:324865/1‑90 (MQ=255)
aGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGCCgg < 2:326149/90‑1 (MQ=255)
|
CGTTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTTCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGCCGG > NZ_CP009273/3535253‑3535421
|
| 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
ATCATGTACCACACGTTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTTCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGCCGGGTGATCACCCCGGTCT > NZ_CP009273/3535240‑3535437
|
ATCATGTACCACACGTTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTC > SRR3722090.116487/1‑100 (MQ=60)
ATCATGTACCACACGTTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTC > SRR3722090.13366/1‑100 (MQ=60)
ATCATGTACCACACGTTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTC > SRR3722090.134713/1‑100 (MQ=60)
ATCATGTACCACACGTTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTC > SRR3722090.246568/1‑100 (MQ=60)
ATCATGTACCACACGTTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTC > SRR3722090.319754/1‑100 (MQ=60)
ATGTACCACACGTTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCT > SRR3722090.330383/1‑100 (MQ=60)
CGTTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTC > SRR3722090.234356/1‑100 (MQ=60)
TTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAA > SRR3722090.234424/1‑100 (MQ=60)
AGACCTAGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGG > SRR3722090.213905/1‑100 (MQ=60)
GACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGG > SRR3722090.280200/1‑100 (MQ=60)
GACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGG > SRR3722090.68050/1‑100 (MQ=60)
AGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATC > SRR3722090.161126/1‑100 (MQ=60)
CTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGC > SRR3722090.117267/1‑100 (MQ=60)
CGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTgtctcttatacacatctccgagcccacga > SRR3722090.6332/1‑71 (MQ=60)
TCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGCCGGGTGATCAC < SRR3722090.225644/100‑1 (MQ=60)
TCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGCCGGGTGATCACCCCGGTCT > SRR3722090.164318/1‑100 (MQ=60)
|
ATCATGTACCACACGTTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTTCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGCCGGGTGATCACCCCGGTCT > NZ_CP009273/3535240‑3535437
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
