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
|
155 |
25.8 |
2285122 |
88.0% |
2010907 |
104.3 |
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%
| 121.4
/ NA
| 32 | noncoding (32/75 nt) | tRNA‑Pro (CGG) | tRNA‑Pro |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base G (15/17); total (15/17) |
CCTCGCCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACCTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAACTCATCCC > AM260479/3514902‑3515146
|
ccTCGCCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGc < 2:77898/133‑1 (MQ=255)
ctctTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTCGAGGCCGGAGGtt < 1:1027767/134‑1 (MQ=255)
ctctTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGtt < 2:285074/134‑1 (MQ=255)
cAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCAc > 2:701738/1‑134 (MQ=255)
aaaaaCGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCAccc < 2:885688/134‑1 (MQ=255)
aaaaaCGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCAccc > 1:837569/1‑134 (MQ=255)
aaaCGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCAccc < 1:168819/132‑1 (MQ=255)
aaaCGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCAccc > 2:168819/1‑132 (MQ=255)
cTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCAccc > 2:555957/1‑119 (MQ=255)
cTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCAccc < 1:555957/119‑1 (MQ=255)
gcAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAgg < 2:999401/80‑1 (MQ=255)
gcAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAgg > 1:999401/1‑80 (MQ=255)
gACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGt < 1:701738/134‑1 (MQ=255)
aCGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGtt < 2:898443/134‑1 (MQ=255)
gTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGt > 2:225583/1‑134 (MQ=255)
tCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGAt > 1:686251/1‑105 (MQ=255)
tCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGAt < 2:686251/105‑1 (MQ=255)
tCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACg > 2:289721/1‑124 (MQ=255)
tCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACg < 1:289721/124‑1 (MQ=255)
aCGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTaa < 1:859753/105‑1 (MQ=255)
aCGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTaa > 2:859753/1‑105 (MQ=255)
tttGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCAcccc < 1:1062752/90‑1 (MQ=255)
tttGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCAcccc > 2:1062752/1‑90 (MQ=255)
aaTCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGcccc > 1:344180/1‑134 (MQ=255)
ttAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCAcccc < 2:347039/61‑1 (MQ=255)
ttAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCAcccc > 1:347039/1‑61 (MQ=255)
tGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCtt > 1:304162/1‑106 (MQ=255)
tGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCtt < 2:304162/106‑1 (MQ=255)
agCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAAc > 2:403663/1‑75 (MQ=255)
agCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAAc < 1:403663/75‑1 (MQ=255)
agCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAACTCAt > 2:358775/1‑134 (MQ=255)
gcTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAACTCATccc < 1:225583/134‑1 (MQ=255)
|
CCTCGCCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACCTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAACTCATCCC > AM260479/3514902‑3515146
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ 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
AAGGCAGCGGAAGCGGGCAGAACGGCGATTTTCCTCGCCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACCTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAACTCATCCCTTGATCGCCTTGCGCTGACG > AM260479/3514870‑3515166
|
ggttatttcatttttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagCGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGT < GWNJ‑0478:712:GW2002102894th:2:2214:12151:94278/61‑1 (MQ=60)
GGGCAGAACGGCGATTTTCCTCGCCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGG > GWNJ‑0478:712:GW2002102894th:2:1215:9415:27943/1‑150 (MQ=60)
CCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTCGAGGCCGGAGGTTCGAATCCTCTCACCC < GWNJ‑0478:712:GW2002102894th:2:2210:16427:26028/150‑1 (MQ=60)
tgattttttgtttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCC < GWNJ‑0478:712:GW2002102894th:2:1214:2825:63777/62‑1 (MQ=60)
CTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCC > GWNJ‑0478:712:GW2002102894th:2:2116:11614:9352/1‑150 (MQ=60)
GAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAA < GWNJ‑0478:712:GW2002102894th:2:1216:5409:4863/150‑1 (MQ=60)
AAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAA < GWNJ‑0478:712:GW2002102894th:2:1110:4145:5870/150‑1 (MQ=60)
tttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAA < GWNJ‑0478:712:GW2002102894th:2:2102:5026:16098/72‑1 (MQ=60)
cgtgggctcggagatgtgtataagagacagGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAG < GWNJ‑0478:712:GW2002102894th:2:2213:3107:9497/120‑1 (MQ=60)
gtgtataagagacagGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACG < GWNJ‑0478:712:GW2002102894th:2:2201:6093:32708/135‑1 (MQ=60)
CTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTgtctcttatacacatctccgagcccacgagacactcgc > GWNJ‑0478:712:GW2002102894th:2:2208:7741:72019/1‑112 (MQ=60)
CTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCctgtctcttatacac > GWNJ‑0478:712:GW2002102894th:2:2108:20860:6360/1‑135 (MQ=60)
gattagcgagtgtctcgtgggctcggagatgtgtataagagacagAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGC < GWNJ‑0478:712:GW2002102894th:2:1208:20254:34726/105‑1 (MQ=60)
GCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCC < GWNJ‑0478:712:GW2002102894th:2:1201:20316:47396/150‑1 (MQ=60)
GCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaa > GWNJ‑0478:712:GW2002102894th:2:2209:16673:73121/1‑73 (MQ=60)
AGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTG < GWNJ‑0478:712:GW2002102894th:2:2108:6851:94672/150‑1 (MQ=60)
TTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCC > GWNJ‑0478:712:GW2002102894th:2:1205:14461:87469/1‑150 (MQ=60)
AAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtctt > GWNJ‑0478:712:GW2002102894th:2:1204:5443:5340/1‑91 (MQ=60)
GGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCtgtctcttatac > GWNJ‑0478:712:GW2002102894th:2:1203:1741:38583/1‑137 (MQ=60)
AGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaaaaaaataacagaaacatacaaatatgcaaaa > GWNJ‑0478:712:GW2002102894th:2:2206:5483:18431/1‑38 (MQ=60)
GCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaatgccccagtcacgcgc > GWNJ‑0478:712:GW2002102894th:2:2103:2312:5417/1‑58 (MQ=60)
GCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAACTCATCCCTTG > GWNJ‑0478:712:GW2002102894th:2:1104:15529:98806/1‑149 (MQ=60)
CGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAACTCATCCCTTGATCGCCTTGCGC < GWNJ‑0478:712:GW2002102894th:2:1115:17118:3931/150‑1 (MQ=60)
GTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGGCCCCCCTCCCCGctgtctcttataaacatctccgagcccacgagccanncnn > GWNJ‑0478:712:GW2002102894th:2:1209:1788:101289/1‑109 (MQ=60)
|
AAGGCAGCGGAAGCGGGCAGAACGGCGATTTTCCTCGCCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACCTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAACTCATCCCTTGATCGCCTTGCGCTGACG > AM260479/3514870‑3515166
|
| 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: ‑ |
