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 I199 R1
|
220 |
57.5 |
3163680 |
97.0% |
3068769 |
86.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
1,939,453 |
G→C |
A54G (GCC→GGC) |
ruvB ← |
Holliday junction branch migration DNA helicase RuvB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 1,939,453 | 0 | G | C | 100.0%
| 116.4
/ NA
| 36 | A54G (GCC→GGC) | ruvB | Holliday junction branch migration DNA helicase RuvB |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base C (15/21); total (15/21) |
AAATTAACGCCCATTTCATTGGCGACAATGTTGGCAAGCGTAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGGCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATCTGTGAACGAACCTGCGGCTGACCAACATACTCTTCCAGTAATTT > NZ_CP009273/1939366‑1939538
|
aaaTTAACGCCCATTTCATTGGCGACAATGTTGGCAAGCGTAGTTTTACCCAACCCCGGAGGACCAAAAATCAAC‑AATGATCGAGGCCAt < 2:190822/90‑1 (MQ=255)
gCCCATTTCATTGGCGACAATGTTGGCAAGCGTAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCcgcg > 1:495996/1‑90 (MQ=255)
cccATTTCATTGGCGACAATGTTGGCAAGCGTAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCgcgc < 2:215030/90‑1 (MQ=255)
cccATTTCATTGGCGACAATGTTGGCAAGCGTAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCgcgc < 1:541146/90‑1 (MQ=255)
cccATTTCATTGGCGACAATGTTGGCAAGCGTAGTTTTACCCAACCCCAGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCgcgc < 1:947631/90‑1 (MQ=255)
aTTTCATTGGCGACAATGTTGGCAAGCGTAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGt > 1:850531/1‑90 (MQ=255)
aTTGGCGACAATGTTGGCAAGCGTAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCgc < 1:1066111/90‑1 (MQ=255)
gCGACAATGTTGGCAAGCGTAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCgctgct > 2:1439628/1‑90 (MQ=255)
cGACAATGTTGGCAAGCGTAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCtt < 1:1478085/90‑1 (MQ=255)
gACAATGTTGGCAAGCGTAGTTTTACGCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCttt > 2:1377687/1‑90 (MQ=255)
cAATGTTGGCAAGCGTAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTtga > 1:1193897/1‑90 (MQ=255)
cAATGTTGGCAAGCGTAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTtga < 1:1337005/90‑1 (MQ=255)
gTTGGCAAGCGTAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGaa < 2:71978/90‑1 (MQ=255)
aaGCGTAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAAtctc > 1:912464/1‑90 (MQ=255)
gCGTAGTTTTACCCAACGCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCa > 1:1419655/1‑90 (MQ=255)
gCGTAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCa < 2:850531/90‑1 (MQ=255)
gCGTAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCa > 2:172309/1‑90 (MQ=255)
gTAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATc > 2:1022728/1‑90 (MQ=255)
gTAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATc < 2:234774/90‑1 (MQ=255)
tAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATCt < 1:553400/90‑1 (MQ=255)
aGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATCtg < 1:1240544/90‑1 (MQ=255)
aCCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATCTGTgaacg > 1:1016553/1‑90 (MQ=255)
cAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATcgc < 2:737756/44‑1 (MQ=255)
cAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATcgc > 1:737756/1‑44 (MQ=255)
aCCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATCTGTGAACGAACCt > 1:634571/1‑90 (MQ=255)
aCCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATCTGTGAACGAACCt > 2:1171961/1‑90 (MQ=255)
aggaCCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATCTGTGAACGAACCTGCGGCTg < 1:662683/90‑1 (MQ=255)
aggaCCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATCTGTGAACGAACCTGCGGCTg < 2:658688/90‑1 (MQ=255)
aggaCCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATCTGTGAACGAACCTGCGGCTg < 2:1075550/90‑1 (MQ=255)
ccAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATCTGTGAACGAACCTGCGGCTGACCa > 2:1249876/1‑90 (MQ=255)
aaTCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATCTGTGAACGAACCTGCGGCTGACCAACATa < 1:1443345/90‑1 (MQ=255)
aTCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATCTGTGAACGAACCTGCGGCTGACCAACATAc < 2:206358/90‑1 (MQ=255)
acaaATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATCTGTGAACGAACCTGCGGCTGACCAACATACTCtt < 2:1317584/90‑1 (MQ=255)
aTGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATCTGTGAACGAACCTGCGGCTGACCAACATACTCTTCCAg < 1:1377687/90‑1 (MQ=255)
aTGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATCTGTGAACGAACCTGCGGCTGACCAACATACTCTTCCAg < 2:1075595/90‑1 (MQ=255)
gAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATCTGTGAACGAACCTGCGGCTGACCAACATACTCTTCCAGTAAttt > 1:1578605/1‑90 (MQ=255)
|
AAATTAACGCCCATTTCATTGGCGACAATGTTGGCAAGCGTAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGGCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATCTGTGAACGAACCTGCGGCTGACCAACATACTCTTCCAGTAATTT > NZ_CP009273/1939366‑1939538
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ 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
GTAAATTAACGCCCATTTCATTGGCGACAATGTTGGCAAGCGTAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGGCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATCTGTGAACGAACCTGCGGCTGACCAACATACTCTTCCAGTAATTTGGGGCGA > NZ_CP009273/1939364‑1939545
|
GTAAATTAACGCCCATTTCATTGGCGACAATGTTGGCAAGCGTAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCG > SRR3722078.501870/1‑100 (MQ=60)
ATTAACGCCCATTTCATTGGCGACAATGTTGGCAAGCGTAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGT > SRR3722078.861889/1‑100 (MQ=60)
CCCATTTCATTGGCGACAATGTTGGCAAGCGTAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTG < SRR3722078.547537/100‑1 (MQ=60)
CCCATTTCATTGGCGACAATGTTGGCAAGCGTAGTTTTACCCAACCCCAGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTG < SRR3722078.960902/100‑1 (MQ=60)
TCATTGGCGACAATGTTGGCAAGCGTAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGA > SRR3722078.1212596/1‑100 (MQ=60)
ATTGGCGACAATGTTGGCAAGCGTAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATG < SRR3722078.1082188/100‑1 (MQ=60)
CGACAATGTTGGCAAGCGTAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAAT < SRR3722078.1502194/100‑1 (MQ=60)
CAATGTTGGCAAGCGTAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTC < SRR3722078.1358434/100‑1 (MQ=60)
CAATGTTGGCAAGCGTAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTC > SRR3722078.924813/1‑100 (MQ=60)
ATGTTGGCAAGCGTAGTTTTACCCAACGCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCA > SRR3722078.1442707/1‑100 (MQ=60)
GCGTAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATCTGTGAACG > SRR3722078.1031551/1‑100 (MQ=60)
TAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCtgtctcttatacacatctgacgctgccgacgatgg > SRR3722078.747059/1‑65 (MQ=60)
TAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATCTGTGAACGAAC < SRR3722078.559929/100‑1 (MQ=60)
AGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATCTGTGAACGAACC < SRR3722078.1260133/100‑1 (MQ=60)
GTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATCTGTGAACGAACCT > SRR3722078.641863/1‑100 (MQ=60)
AGGACCAAAAATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATCTGTGAACGAACCTGCGGCTGACCAACATAC < SRR3722078.670274/100‑1 (MQ=60)
AATCAACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATCTGTGAACGAACCTGCGGCTGACCAACATACTCTTCCAGT < SRR3722078.1466859/100‑1 (MQ=60)
ACAAATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATCTGTGAACGAACCTGCGGCTGACCAACATACTCTTCCAGTAATTT > SRR3722078.1604296/1‑100 (MQ=60)
ATGATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATCTGTGAACGAACCTGCGGCTGACCAACATACTCTTCCAGTAATTTGGGG < SRR3722078.1399906/100‑1 (MQ=60)
ATCGAGGCCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATCTGTGAACGAACCTGCGGCTGACCAACATACTCTTCCAGTAATTTGGGGCGA > SRR3722078.918845/1‑100 (MQ=60)
|
GTAAATTAACGCCCATTTCATTGGCGACAATGTTGGCAAGCGTAGTTTTACCCAACCCCGGAGGACCAAAAATCAACAAATGATCGAGGGCATCGCCGCGCAGTTTCGCTGCTTTGATGAAAATCTCCATCTGTGAACGAACCTGCGGCTGACCAACATACTCTTCCAGTAATTTGGGGCGA > NZ_CP009273/1939364‑1939545
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
