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 |
|
A0 F0 I1 R1
|
149 |
26.7 |
2337422 |
87.5% |
2045244 |
105.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
3,515,018 |
C→G |
noncoding (32/75 nt) |
tRNA‑Pro (CGG) → |
tRNA‑Pro |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 3,515,018 | 0 | C | G | 100.0%
| 83.0
/ NA
| 22 | noncoding (32/75 nt) | tRNA‑Pro (CGG) | tRNA‑Pro |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base G (9/13); total (9/13) |
TCGCCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACCTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAACTCATCCC > AM260479/3514904‑3515146
|
tCGCCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGAGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCg > 2:586101/1‑133 (MQ=255)
ctctTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGtt < 1:455601/134‑1 (MQ=255)
ctctTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGtt < 2:137877/134‑1 (MQ=255)
ttCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCct < 2:1141912/134‑1 (MQ=255)
aaaaaaCGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGAGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCAcc < 1:586101/134‑1 (MQ=255)
aaaaaCGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGa < 2:580850/102‑1 (MQ=255)
aaaaaCGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGa > 1:580850/1‑102 (MQ=255)
aaaaaCGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCAccc < 2:978765/134‑1 (MQ=255)
cGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGAc > 2:770930/1‑133 (MQ=255)
gACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCgg < 1:770930/134‑1 (MQ=255)
aGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCt > 2:80548/1‑134 (MQ=255)
gCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAgg > 1:578621/1‑58 (MQ=255)
gCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAgg < 2:578621/58‑1 (MQ=255)
tAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGa > 1:904369/1‑134 (MQ=255)
gCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCg < 2:904369/134‑1 (MQ=255)
gTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGtt > 2:304267/1‑37 (MQ=255)
gTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGtt < 1:304267/37‑1 (MQ=255)
gTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAAc < 1:80548/134‑1 (MQ=255)
agCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTc < 2:1104194/98‑1 (MQ=255)
agCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTc > 1:1104194/1‑98 (MQ=255)
agCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAACTCAt > 1:411771/1‑134 (MQ=255)
gcTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAACTCATccc < 2:799461/134‑1 (MQ=255)
|
TCGCCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACCTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAACTCATCCC > AM260479/3514904‑3515146
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GCGGGCAGAACGGCGATTTTCCTCGCCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACCTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAACTCATCCCTTGATCGC > AM260479/3514882‑3515154
|
acgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGA < GWNJ‑0478:712:GW2002102894th:2:2216:14426:94452/102‑1 (MQ=60)
GCGATTTTCCTCGCCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACctgtctcttatacacat > GWNJ‑0478:712:GW2002102894th:2:2110:1420:24515/1‑133 (MQ=60)
attgtcttccggattgctttgtttttttttttttttttcaagcagaagacggcatacgagtttagcgagtgtctcgtgggctcggagatgtgtataagagacagGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACC < GWNJ‑0478:712:GW2002102894th:2:2101:4486:44858/46‑1 (MQ=60)
CCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCC < GWNJ‑0478:712:GW2002102894th:2:1210:13952:22788/150‑1 (MQ=60)
tttattttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCC < GWNJ‑0478:712:GW2002102894th:2:1203:17127:29305/68‑1 (MQ=60)
CTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGctgtctcttatacacatc > GWNJ‑0478:712:GW2002102894th:2:2101:5020:41324/1‑132 (MQ=60)
CAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGAGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAA < GWNJ‑0478:712:GW2002102894th:2:2101:3883:74006/150‑1 (MQ=60)
tcgatcttttgtgtttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagaggtgtataagagacaGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAA < GWNJ‑0478:712:GW2002102894th:2:1215:13919:62473/68‑1 (MQ=60)
CTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGActgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtc > GWNJ‑0478:712:GW2002102894th:2:2111:17545:95223/1‑93 (MQ=60)
GTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctg > GWNJ‑0478:712:GW2002102894th:2:2101:3590:27319/1‑90 (MQ=60)
AGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTG < GWNJ‑0478:712:GW2002102894th:2:2113:18373:30024/150‑1 (MQ=60)
AACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGAT > GWNJ‑0478:712:GW2002102894th:2:2202:17597:18904/1‑150 (MQ=60)
AGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCtgtctcttatacacatctccg > GWNJ‑0478:712:GW2002102894th:2:2214:11857:14307/1‑129 (MQ=60)
AGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAACTCATC > GWNJ‑0478:712:GW2002102894th:2:1208:20474:83869/1‑150 (MQ=60)
acagGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTaaatctggtcggggtgagaggattcgaacctccggcctctac < GWNJ‑0478:712:GW2002102894th:2:1203:3411:84346/146‑43 (MQ=60)
GGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAACTCATCCCTTGATCGC < GWNJ‑0478:712:GW2002102894th:2:1107:6723:10570/150‑1 (MQ=60)
|
GCGGGCAGAACGGCGATTTTCCTCGCCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACCTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAACTCATCCCTTGATCGC > AM260479/3514882‑3515154
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
