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
|
146 |
27.9 |
2327082 |
89.7% |
2087392 |
107.8 |
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%
| 70.5
/ NA
| 19 | noncoding (32/75 nt) | tRNA‑Pro (CGG) | tRNA‑Pro |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base G (11/8); total (11/8) |
GAACGGCGATTTTCCTCGCCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACCTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAACTCATCCCT > AM260479/3514889‑3515147
|
gAACGGCGATTTTCCTCGCCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCg > 1:543441/1‑134 (MQ=255)
tCCTCGCCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAgg < 2:591954/133‑1 (MQ=255)
ccTCGCCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGc < 2:738170/133‑1 (MQ=255)
ccAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCa > 2:1103113/1‑134 (MQ=255)
cAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCAc > 1:1045669/1‑134 (MQ=255)
cAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCAc > 1:882427/1‑134 (MQ=255)
aaaaaCGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGtt < 2:772684/119‑1 (MQ=255)
aaaaaCGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGtt > 1:772684/1‑119 (MQ=255)
aaaaCGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCAcccc < 1:814201/134‑1 (MQ=255)
ctgcAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACg < 1:1103113/134‑1 (MQ=255)
aCGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCAccc > 1:891401/1‑92 (MQ=255)
aCGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCAccc < 2:891401/92‑1 (MQ=255)
gggTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGAtt < 2:256758/79‑1 (MQ=255)
gggTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGAtt > 1:256758/1‑79 (MQ=255)
gTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCAccc < 2:230068/52‑1 (MQ=255)
gTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCAccc > 1:230068/1‑52 (MQ=255)
gTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAAc > 2:791172/1‑134 (MQ=255)
agCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAACTCAt > 2:897714/1‑134 (MQ=255)
cTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAACTCATCCCt > 2:325717/1‑134 (MQ=255)
|
GAACGGCGATTTTCCTCGCCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACCTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAACTCATCCCT > AM260479/3514889‑3515147
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 37 ≤ 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
AAGGCAGCGGAAGCGGGCAGAACGGCGATTTTCCTCGCCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACCTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAACTCATCCCTTGATCGCCTTGCGCTGA > AM260479/3514870‑3515164
|
AAGGCAGCGGAAGCGGGCAGAACGGCGATTTTCCTCGCCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGTGCTACGT < GWNJ‑0478:712:GW2002102894th:2:2208:6043:20028/150‑1 (MQ=60)
CAGCGGAAGCGGGCAGAACGGCGATTTTCCTCGCCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGG > GWNJ‑0478:712:GW2002102894th:2:1214:16203:10173/1‑150 (MQ=60)
CCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACC > GWNJ‑0478:712:GW2002102894th:2:2201:8319:80814/1‑150 (MQ=60)
CCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACC > GWNJ‑0478:712:GW2002102894th:2:2210:13120:23718/1‑150 (MQ=60)
ccttctgtgttttttttttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCC < GWNJ‑0478:712:GW2002102894th:2:2211:7161:47281/57‑1 (MQ=60)
CTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCC > GWNJ‑0478:712:GW2002102894th:2:2113:9891:12570/1‑150 (MQ=60)
AAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAG < GWNJ‑0478:712:GW2002102894th:2:2115:9925:25125/150‑1 (MQ=60)
GCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAActgtctcttatacacatctccgagccc > GWNJ‑0478:712:GW2002102894th:2:2203:16793:37986/1‑122 (MQ=60)
GCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCC < GWNJ‑0478:712:GW2002102894th:2:2214:19778:15329/150‑1 (MQ=60)
CAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCActgtctcttatacacatctccgagcccacgagacactcgct > GWNJ‑0478:712:GW2002102894th:2:1114:4169:43365/1‑109 (MQ=60)
GTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAActgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttga > GWNJ‑0478:712:GW2002102894th:2:1115:9826:11404/1‑82 (MQ=60)
GCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgc > GWNJ‑0478:712:GW2002102894th:2:1113:4501:97794/1‑87 (MQ=60)
GTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaa > GWNJ‑0478:712:GW2002102894th:2:2209:7428:48896/1‑76 (MQ=60)
ACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAACTCATCCCTTGATCGCCTTGCGCTGA < GWNJ‑0478:712:GW2002102894th:2:1202:6757:44387/149‑1 (MQ=60)
|
AAGGCAGCGGAAGCGGGCAGAACGGCGATTTTCCTCGCCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACCTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAACTCATCCCTTGATCGCCTTGCGCTGA > AM260479/3514870‑3515164
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
