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 I228 R1
|
214 |
26.5 |
1448192 |
97.1% |
1406194 |
86.4 |
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%
| 66.2
/ NA
| 21 | F525S (TTC→TCC) | feoB | Fe(2+) transporter permease subunit FeoB |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (16/5); total (16/5) |
CGTTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTTCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGC > NZ_CP009273/3535253‑3535418
|
cGTTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCt > 1:450906/1‑90 (MQ=255)
aTTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAAc < 1:493885/90‑1 (MQ=255)
aCCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCg > 2:170710/1‑90 (MQ=255)
ggCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGa > 2:630454/1‑90 (MQ=255)
cGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCggg > 2:155952/1‑90 (MQ=255)
gTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGGCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGa > 2:463741/1‑90 (MQ=255)
gCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAAtcgtcg > 2:695813/1‑90 (MQ=255)
tCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATa < 1:620261/90‑1 (MQ=255)
gCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCaa > 1:531354/1‑90 (MQ=255)
tGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGa > 1:186690/1‑90 (MQ=255)
tGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTc < 1:630454/90‑1 (MQ=255)
tGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTc < 1:407657/90‑1 (MQ=255)
aaGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGgcgc < 1:175342/90‑1 (MQ=255)
gATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGc > 1:670950/1‑90 (MQ=255)
gATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGc > 2:13902/1‑90 (MQ=255)
gATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGc > 2:679050/1‑90 (MQ=255)
tcatcatcGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGcgt > 2:308680/1‑90 (MQ=255)
tcatcatcGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGcgt > 1:404696/1‑90 (MQ=255)
catcatcGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGcgtc > 1:365275/1‑90 (MQ=255)
gTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGc > 1:419682/1‑90 (MQ=255)
gTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGc > 2:425013/1‑90 (MQ=255)
|
CGTTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTTCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGC > NZ_CP009273/3535253‑3535418
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 33 ≤ 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
ATCATGTACCACACGTTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTTCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGCCGGGTGATCACCCCGGTCT > NZ_CP009273/3535240‑3535437
|
ATCATGTACCACACGTTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTC > SRR3722112.206153/1‑100 (MQ=60)
ATGTACCACACGTTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCT > SRR3722112.457208/1‑100 (MQ=60)
CCACACGTTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCG < SRR3722112.300167/100‑1 (MQ=60)
ATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGC < SRR3722112.501027/100‑1 (MQ=60)
GCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAA > SRR3722112.539235/1‑100 (MQ=60)
TCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGA > SRR3722112.188981/1‑100 (MQ=60)
TCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGA < SRR3722112.629833/100‑1 (MQ=60)
CTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGC > SRR3722112.681429/1‑100 (MQ=60)
TGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCG < SRR3722112.413050/100‑1 (MQ=60)
TGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCG < SRR3722112.640204/100‑1 (MQ=60)
GGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGT > SRR3722112.410036/1‑100 (MQ=60)
GTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTC > SRR3722112.369964/1‑100 (MQ=60)
AAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGT < SRR3722112.177489/100‑1 (MQ=60)
GATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGC > SRR3722112.425242/1‑100 (MQ=60)
TCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGCCGGGTGAT > SRR3722112.314309/1‑100 (MQ=60)
GCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGCCGGGTGATCACCCC > SRR3722112.694028/1‑100 (MQ=60)
GCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGCCGGGTGATCACCCC > SRR3722112.731232/1‑100 (MQ=60)
TCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCctgtctcttatacacatctgac > SRR3722112.723081/1‑78 (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 < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
