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 |
2,064,259 |
T→G |
V93G (GTG→GGG) |
BW25113_RS10440 → |
GTPase family protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,064,259 | 0 | T | G | 95.5%
| 145.4
/ 0.0
| 44 | coding (278/711 nt) | BW25113_RS10440 | GTPase family protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); major base G (22/20); minor base . (1/1); total (23/21) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.05e-01 |
TACTGTGGCTGATTAAAGCCGATGACCGTGCCCTGTCTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGTGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATGGGATATGGCCGGTATTCAGCCTTCTCCTGCACAG > NZ_CP009273/2064172‑2064341
|
tACTGTGGCTGATTAAAGCCGATGACCGTGCCCTGTCTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGc > 2:299047/1‑90 (MQ=255)
gtgGCTGATTAAAGCCGATGACCGTGCCCTGTCTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGtt > 1:18593/1‑90 (MQ=255)
gtgGCTGATTAAAGCCGATGACCGTGCCCTGTCTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGtt > 1:800179/1‑90 (MQ=255)
ggCTGATTAAAGCCGATGACCGTGCCCTGTCTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTtg > 1:272701/1‑90 (MQ=255)
cTGATTAAAGCCGATGACCGTGCCCTGTCTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTtgtg > 2:474039/1‑90 (MQ=255)
gATTAAAGCCGATGACCGTGCCCTGTCTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCGGGGGCTGTTTgtggt > 1:320255/1‑90 (MQ=255)
aTTAAAGCCGATGACCGTGCCCTGTCTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTgtggtg > 2:899317/1‑90 (MQ=255)
aaaGCCGATGACCGTGCCCTGTCTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACg > 1:174816/1‑90 (MQ=255)
gATGACCGTGCCCTGTCTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGcc < 2:546035/90‑1 (MQ=255)
gATGACCGTGCCCTGTCTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGcc > 2:25022/1‑90 (MQ=255)
gATGACCGTGCCCTGTCTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGcc > 1:722003/1‑90 (MQ=255)
ctgtctgtGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAg < 1:792213/90‑1 (MQ=255)
gtctgtGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGcc > 1:393642/1‑90 (MQ=255)
tctgtGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGccc < 2:393642/90‑1 (MQ=255)
tctgtGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGccc < 1:25022/90‑1 (MQ=255)
gtgGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGc > 1:689263/1‑90 (MQ=255)
gtgGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGGGGTGGCGCGGGCCGACAAAACGGAGCCCTGc > 2:770040/1‑90 (MQ=255)
ggATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCa < 1:116313/90‑1 (MQ=255)
gATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCAt < 1:900337/90‑1 (MQ=255)
aTGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATg > 2:729506/1‑90 (MQ=255)
gAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCTGG‑GCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAAt > 2:474701/1‑90 (MQ=255)
gAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGaa > 1:521331/1‑90 (MQ=255)
gAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGaa > 2:386807/1‑90 (MQ=255)
gAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGaa > 1:324769/1‑90 (MQ=255)
tgtcttttTGCCGACCCACCCTGCAGTGCGGACACCAGCAGGGGCTGTTTGTGGTCACGCAGGCCGCCAAAACGGAGCCCTGCCATGAAt < 2:704917/86‑1 (MQ=255)
aGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAAt < 2:429363/90‑1 (MQ=255)
aGTATTTCTGGCGAACCATCAGGCAGTGAGGCCATCCGCAGGGGTTGTTTGTGGTGACCCAGGCCGACAAACCGGAGCCCTGCCATGAAt < 2:113389/90‑1 (MQ=255)
gTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATg > 1:743353/1‑90 (MQ=255)
cGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATGGGATATGGcc < 2:722003/90‑1 (MQ=255)
cacaTCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAAt < 2:687420/76‑1 (MQ=255)
cacaTCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAAt > 1:687420/1‑76 (MQ=255)
gCAGTGCGGACATCAGCTGG‑GCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATGGGATATGGCCGGTATTCAGCCt < 1:474701/90‑1 (MQ=255)
cAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATGGGATATGGCCGGTATTCAGCCt < 2:800179/90‑1 (MQ=255)
cAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATGGGATATGGCCGGTATTCAGCCt < 1:885886/90‑1 (MQ=255)
cAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATGGGATATGGCCGGTATTCAGCCt < 2:521331/90‑1 (MQ=255)
cAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATGGGATATGGCCGGTATTCAGCCt < 1:907203/90‑1 (MQ=255)
cAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATGGGATATGGCCGGTATTCAGCCt < 1:729506/90‑1 (MQ=255)
tGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGGCCTGCCATGAATGGGATATGGCCGGTATTCAGCCTtct > 1:541037/1‑90 (MQ=255)
gACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATGGGATATGGCCGGTATTCAGCCTTCTCCTg > 1:75877/1‑90 (MQ=255)
aTCAGCGGGGGCTGTTTGTGGGGCCGCAGGCCGACAAAACGGGGCCCTGCCATGAATGGGATATGGCCGGTATTCAGCCTTCTCCTgcac < 1:440292/90‑1 (MQ=255)
tCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATGGGATATGGCCGGTATTCAGCCTTCTCCTgcaca < 2:781671/90‑1 (MQ=255)
cagcagGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATGGGATATGGCCGGTATTCAGCCTTCTCCTgcacag > 1:213163/1‑90 (MQ=255)
cagcagGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATGGGATATGGCCGGTATTCAGCCTTCTCCTgcacag < 1:116479/90‑1 (MQ=255)
agGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATGGGATATGGCCGGTATTCAGCCt < 2:787254/74‑1 (MQ=255)
|
TACTGTGGCTGATTAAAGCCGATGACCGTGCCCTGTCTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGTGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATGGGATATGGCCGGTATTCAGCCTTCTCCTGCACAG > NZ_CP009273/2064172‑2064341
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
ACTTGACCTGGTACTGTGGCTGATTAAAGCCGATGACCGTGCCCTGTCTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGTGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATGGGATATGGCCGGTATTCAGCCTTCTCCTGCACAGGCACAGAATA > NZ_CP009273/2064161‑2064351
|
ACTTGACCTGGTACTGTGGCTGATTAAAGCCGATGACCGTGCCCTGTCTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGG > SRR3722072.748629/1‑100 (MQ=60)
ACCTGGTACTGTGGCTGATTAAAGCCGATGACCGTGCCCTGTCTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTT > SRR3722072.18943/1‑100 (MQ=60)
ACCTGGTACTGTGGCTGATTAAAGCCGATGACCGTGCCCTGTCTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTT > SRR3722072.814160/1‑100 (MQ=60)
CTGGTACTGTGGCTGATTAAAGCCGATGACCGTGCCCTGTCTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTG > SRR3722072.277363/1‑100 (MQ=60)
TACTGTGGCTGATTAAAGCCGATGACCGTGCCCTGTCTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCGGGGGCTGTTTGTGGT > SRR3722072.325852/1‑100 (MQ=60)
GTGGCTGATTAAAGCCGATGACCGTGCCCTGTCTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACG > SRR3722072.177838/1‑100 (MQ=60)
GATTAAAGCCGATGACCGTGCCCTGTCTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCC > SRR3722072.734843/1‑100 (MQ=60)
ACCGTGCCCTGTCTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCC > SRR3722072.400724/1‑100 (MQ=60)
TGCCCTGTCTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGC > SRR3722072.701593/1‑100 (MQ=60)
CTGTCTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATG < SRR3722072.806077/100‑1 (MQ=60)
GTCTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAA > SRR3722072.330454/1‑100 (MQ=60)
GTCTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAA > SRR3722072.530711/1‑100 (MQ=60)
TCTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAAT < SRR3722072.25462/100‑1 (MQ=60)
CTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATG > SRR3722072.756508/1‑100 (MQ=60)
GGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATGGGAT < SRR3722072.118454/100‑1 (MQ=60)
GATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATGGGATA < SRR3722072.915831/100‑1 (MQ=60)
TTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATGGGATATGGCCTGT > SRR3722072.699720/1‑100 (MQ=60)
CATCCTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGGCCTGCCATGAATGGGATATGGCCGGTATTCAGCCTTCT > SRR3722072.550781/1‑100 (MQ=60)
CTGCAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATGGGATATGGCCGGTATTCAGCCTTCTCCTG > SRR3722072.77287/1‑100 (MQ=60)
GCAGTGCGGACATCAGCTGG‑GCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATGGGATATGGCCGGTATTCAGCCTTCTCCTGCAC < SRR3722072.483353/100‑1 (MQ=60)
CAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATGGGATATGGCCGGTATTCAGCCTTCTCCTGCAC < SRR3722072.901127/100‑1 (MQ=60)
CAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATGGGATATGGCCGGTATTCAGCCTTCTCCTGCAC < SRR3722072.922813/100‑1 (MQ=60)
CAGTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATGGGATATGGCCGGTATTCAGCCTTCTCCTGCAC < SRR3722072.742450/100‑1 (MQ=60)
GTGCGGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATGGGATATGGCCGGTATTCAGCCTTCTCCTGCACAG > SRR3722072.216782/1‑100 (MQ=60)
GGACATCAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATGGGATATGGCCGGTATTCAGCCTTCTCCTGCACctgtct > SRR3722072.801047/1‑94 (MQ=60)
ATCAGCGGGGGCTGTTTGTGGGGCCGCAGGCCGACAAAACGGGGCCCTGCCATGAATGGGATATGGCCGGTATTCAGCCTTCTCCTGCACAGGCACAGAA < SRR3722072.448338/100‑1 (MQ=60)
CAGCAGGGGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATGGGATATGGCCGGTATTCAGCCTTCTCCTGCACAGGCACAGAATA < SRR3722072.118623/100‑1 (MQ=60)
|
ACTTGACCTGGTACTGTGGCTGATTAAAGCCGATGACCGTGCCCTGTCTGTGGATGAGTATTTCTGGCGACACATCCTGCAGTGCGGACATCAGCAGGTGCTGTTTGTGGTGACGCAGGCCGACAAAACGGAGCCCTGCCATGAATGGGATATGGCCGGTATTCAGCCTTCTCCTGCACAGGCACAGAATA > NZ_CP009273/2064161‑2064351
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
