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 I194 R1
|
197 |
32.2 |
1845014 |
95.2% |
1756453 |
85.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
4,165,187 |
(A)5→4 |
intergenic (‑233/‑129) |
coaA ← / → BW25113_RS20630 |
type I pantothenate kinase/tRNA‑Thr |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 4,165,183 | 0 | A | . | 100.0%
| 148.4
/ NA
| 36 | intergenic (‑229/‑133) | coaA/BW25113_RS20630 | type I pantothenate kinase/tRNA‑Thr |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (23/13); total (23/13) |
AAGCAATGTGACAGATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTGAAAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGACCAATAAAACAAATTATGCA > NZ_CP009273/4165105‑4165263
|
aaGCAATGTGACAGATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTa < 1:196469/90‑1 (MQ=255)
aaTGTGACAGATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCt > 2:65951/1‑90 (MQ=255)
aGATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCg > 2:730772/1‑90 (MQ=255)
atatTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGtt > 1:719778/1‑90 (MQ=255)
tatTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTc > 2:509154/1‑90 (MQ=255)
tatTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTc > 1:422044/1‑90 (MQ=255)
tatTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTc > 1:671982/1‑90 (MQ=255)
ttCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCgg > 2:278453/1‑90 (MQ=255)
aTCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGt > 1:285482/1‑90 (MQ=255)
cTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGttt > 1:286608/1‑90 (MQ=255)
cTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGttt > 1:499425/1‑90 (MQ=255)
aTAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTttctt > 1:404877/1‑90 (MQ=255)
aTTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTc > 1:517941/1‑90 (MQ=255)
aTTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTc > 1:893131/1‑90 (MQ=255)
aTTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTc > 1:849181/1‑90 (MQ=255)
aTTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATAGTGTc < 2:600773/90‑1 (MQ=255)
ttATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCg > 2:55252/1‑90 (MQ=255)
tGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCAt < 1:65951/90‑1 (MQ=255)
tGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCAt < 1:342271/90‑1 (MQ=255)
ggTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATa < 1:39400/90‑1 (MQ=255)
ggTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATa < 2:404877/90‑1 (MQ=255)
ttAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATaaaa > 1:60872/1‑90 (MQ=255)
ttAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATaaaa > 2:304781/1‑90 (MQ=255)
ttAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATaaaa > 2:460572/1‑90 (MQ=255)
aGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGa < 1:144918/90‑1 (MQ=255)
aGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGa < 2:539869/90‑1 (MQ=255)
gAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGAcc > 1:830621/1‑90 (MQ=255)
aGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTc > 1:672542/1‑74 (MQ=255)
aGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTc < 2:672542/74‑1 (MQ=255)
gcATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGccc > 1:688796/1‑44 (MQ=38)
gcATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGccc < 2:688796/44‑1 (MQ=38)
gcATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCt < 1:178259/55‑1 (MQ=255)
gcATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCt > 2:178259/1‑55 (MQ=255)
ttgttgAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGACCAATaaaa < 2:35503/90‑1 (MQ=255)
caATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGACCAATAAAACAAATTATGc > 1:504887/1‑90 (MQ=255)
aaTGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGACCAATAAAACAAATTATGCa < 1:304781/90‑1 (MQ=255)
|
AAGCAATGTGACAGATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTGAAAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGACCAATAAAACAAATTATGCA > NZ_CP009273/4165105‑4165263
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
AGGAAGCTATCGTTGAAAAGCAATGTGACAGATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTGAAAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGACCAATAAAACAAATTATGCAATTTTTTAGTTGCATG > NZ_CP009273/4165088‑4165279
|
AGGAAGCTATCGTTGAAAAGCAATGTGACAGATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTGAAAAG < SRR3722072.423725/100‑1 (MQ=60)
AAGCTATCGTTGAAAAGCAATGTGACAGATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGT < SRR3722072.625011/100‑1 (MQ=60)
AAGCAATGTGACAGATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTC < SRR3722072.199861/100‑1 (MQ=60)
AATGTGACAGATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTT > SRR3722072.732582/1‑100 (MQ=60)
ATGTGACAGATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTC > SRR3722072.684013/1‑100 (MQ=60)
ATGTGACAGATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTC > SRR3722072.429707/1‑100 (MQ=60)
CAGATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGT > SRR3722072.290394/1‑100 (MQ=60)
GATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTT > SRR3722072.291541/1‑100 (MQ=60)
GATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTT > SRR3722072.508448/1‑100 (MQ=60)
ATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTT > SRR3722072.412184/1‑100 (MQ=60)
gctcggagatgtgtataagagacagTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCAT < SRR3722072.181342/75‑1 (MQ=60)
GATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTC > SRR3722072.527264/1‑100 (MQ=60)
GATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTC > SRR3722072.863861/1‑100 (MQ=60)
GATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTC > SRR3722072.908506/1‑100 (MQ=60)
GAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAA > SRR3722072.61983/1‑100 (MQ=60)
TGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGAC < SRR3722072.348301/100‑1 (MQ=60)
TGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGAC < SRR3722072.67168/100‑1 (MQ=60)
GGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGACC < SRR3722072.40122/100‑1 (MQ=60)
GGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGACC > SRR3722072.845037/1‑100 (MQ=60)
GTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGctgtct > SRR3722072.684586/1‑94 (MQ=60)
TAGCAGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCctgtctcttatacacatctccgagcccacgagacgt > SRR3722072.701122/1‑64 (MQ=60)
AGGAGCGCATTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGACCAATAAAAC < SRR3722072.147500/100‑1 (MQ=60)
TTGTTGAGCACAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGACCAATAAAACAAATTATGC > SRR3722072.513993/1‑100 (MQ=60)
CAATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGACCAATAAAACAAATTATGCAATTTTTTAG > SRR3722072.466377/1‑100 (MQ=60)
AATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGACCAATAAAACAAATTATGCAATTTTTTAGT < SRR3722072.310062/100‑1 (MQ=60)
ATGATGTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCtgtctcttatacacatctccgagcccacgagacgtccgattatc > SRR3722072.712527/1‑56 (MQ=60)
GTTG‑AAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGACCctgtctcttatacacatctccgagcccacgagac > SRR3722072.322302/1‑66 (MQ=60)
|
AGGAAGCTATCGTTGAAAAGCAATGTGACAGATATTCCATCTGATAAAAAGAATTATGGTTTAGCAGGAGCGCATTGTTGAGCACAATGATGTTGAAAAAGTGTGCTAATCTGCCCTCCGTTCGGCTGTTTCTTCATCGTGTCGCATAAAATGTGACCAATAAAACAAATTATGCAATTTTTTAGTTGCATG > NZ_CP009273/4165088‑4165279
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
