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 I230 R1
|
226 |
18.8 |
1048726 |
96.7% |
1014118 |
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%
| 98.1
/ NA
| 30 | F525S (TTC→TCC) | feoB | Fe(2+) transporter permease subunit FeoB |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (19/11); total (19/11) |
TAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTTCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGCCGGG > NZ_CP009273/3535256‑3535422
|
tAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAg < 2:353497/90‑1 (MQ=255)
aaGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAgcgc < 2:142218/90‑1 (MQ=255)
aTTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAAc < 2:187113/90‑1 (MQ=255)
cGTCTGAGAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCggg > 2:211197/1‑90 (MQ=255)
gTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGa > 1:331186/1‑90 (MQ=255)
gTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGa > 1:521501/1‑90 (MQ=255)
gAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAAt > 1:347503/1‑90 (MQ=255)
cTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGa < 1:302298/90‑1 (MQ=255)
cTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGa > 1:410201/1‑90 (MQ=255)
gCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCaa > 1:461188/1‑90 (MQ=255)
cTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACt > 2:258043/1‑90 (MQ=255)
tGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTc < 2:71693/90‑1 (MQ=255)
tGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTc < 2:291218/90‑1 (MQ=255)
gATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGc > 2:415451/1‑90 (MQ=255)
gATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGc > 1:107269/1‑90 (MQ=255)
gATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGc > 1:97745/1‑90 (MQ=255)
gATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGc > 2:360323/1‑90 (MQ=255)
gATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGc > 1:505039/1‑90 (MQ=255)
gATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGc > 1:415737/1‑90 (MQ=255)
tcatcatcGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGcgt > 1:63744/1‑90 (MQ=255)
tcatcatcGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGcgt > 1:523554/1‑90 (MQ=255)
tcatcatcGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGcgt > 1:309147/1‑90 (MQ=255)
tcatcatcGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGc > 2:67047/1‑88 (MQ=255)
tcatcatcGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGc < 1:67047/88‑1 (MQ=255)
cGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAg < 2:352103/90‑1 (MQ=255)
cAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGCCg < 1:258043/90‑1 (MQ=255)
cAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGG‑AAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGCCgg > 1:170209/1‑90 (MQ=255)
aGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATaa > 1:523945/1‑56 (MQ=255)
aGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATaa < 2:523945/56‑1 (MQ=255)
gCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGCCggg < 2:170626/90‑1 (MQ=255)
|
TAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTTCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGCCGGG > NZ_CP009273/3535256‑3535422
|
| 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
ATCATGTACCACACGTTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTTCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGCCGGGTGATCACC > NZ_CP009273/3535240‑3535430
|
ATCATGTACCACACGTTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTC > SRR3722114.188948/1‑100 (MQ=60)
ATCATGTACCACACGTTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTC > SRR3722114.65572/1‑100 (MQ=60)
cggcatacgagatctagtacggtctcgtgggctcggagatgtgtataagagacagGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTG < SRR3722114.522299/45‑1 (MQ=60)
ACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGA > SRR3722114.528036/1‑100 (MQ=60)
ACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGA > SRR3722114.334860/1‑100 (MQ=60)
GGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAAT > SRR3722114.351482/1‑100 (MQ=60)
GTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGA > SRR3722114.415219/1‑100 (MQ=60)
GCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAA > SRR3722114.466954/1‑100 (MQ=60)
CTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAAC < SRR3722114.305527/100‑1 (MQ=60)
CTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGC > SRR3722114.98777/1‑100 (MQ=60)
CTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGC > SRR3722114.108403/1‑100 (MQ=60)
CTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGC > SRR3722114.511364/1‑100 (MQ=60)
CTGGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGC > SRR3722114.420834/1‑100 (MQ=60)
GGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGT > SRR3722114.312446/1‑100 (MQ=60)
GGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGT > SRR3722114.530106/1‑100 (MQ=60)
GGTAAAGTGATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGT > SRR3722114.64387/1‑100 (MQ=60)
GATCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGC < SRR3722114.67734/100‑1 (MQ=60)
TCATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGG‑AAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGCCGG > SRR3722114.171902/1‑100 (MQ=60)
CATCATCGTCAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACctgtctcttatacacatctccgag > SRR3722114.530500/1‑76 (MQ=60)
CAGCATTTCCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGCCGGGTGATCACC < SRR3722114.260637/100‑1 (MQ=60)
|
ATCATGTACCACACGTTAAAAGCCTGATTATCCAGACCTGGCAGCGTCTGAAAGGCTTCGTTCTGCGTGCTGGTAAAGTGATCATCATCGTCAGCATTTTCCTGAGCGCTTTCAACAGCTTCTCGCTGAGCGGGAAAATCGTCGATAACATCAACGACTCGGCGCTGGCGTCCGTCAGCCGGGTGATCACC > NZ_CP009273/3535240‑3535430
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ 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: ‑ |
