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 F1 I1 R1
|
150 |
26.0 |
2053212 |
90.0% |
1847890 |
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%
| 68.1
/ NA
| 19 | noncoding (32/75 nt) | tRNA‑Pro (CGG) | tRNA‑Pro |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base G (9/10); total (9/10) |
GCGATTTTCCTCGCCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACCTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTT‑AAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAAC > AM260479/3514894‑3515139
|
gCGATTTTCCTCGCCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACg > 2:350963/1‑134 (MQ=255)
cTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTT‑aaaa < 1:159860/134‑1 (MQ=255)
gTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTT‑AAAAGGCCg < 1:176568/134‑1 (MQ=255)
tCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGtt < 2:757763/97‑1 (MQ=255)
tCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGtt > 1:757763/1‑97 (MQ=255)
gcAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTT‑AAAAGGCCGAATCAACGt > 1:319940/1‑133 (MQ=255)
cAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTT‑AAAAGGCCGAATCAACGt < 1:785964/132‑1 (MQ=255)
gACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTT‑AAAAGGCCGAATCAACGTCAGt < 2:319940/134‑1 (MQ=255)
tttGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTT‑AAAAGGCCGAATCAACGTCAGTTGGTTCGGCCtt > 2:275478/1‑134 (MQ=255)
ccAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCtttt < 1:350963/133‑1 (MQ=255)
aaaTCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTT‑AAAAGGCCGAAt > 1:113216/1‑98 (MQ=255)
aaaTCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTT‑AAAAGGCCGAAt < 2:113216/98‑1 (MQ=255)
tGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTT‑AAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGAtcctc < 2:843337/129‑1 (MQ=255)
tGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTT‑AAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGAtcctc > 1:843337/1‑129 (MQ=255)
gTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTT‑AAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAAc > 2:1010275/1‑134 (MQ=255)
agCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTT‑AAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCg > 2:717658/1‑125 (MQ=255)
agCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTT‑AAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCg < 1:717658/125‑1 (MQ=255)
gcgcTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCAcccc < 2:444147/48‑1 (MQ=255)
gcgcTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCAcccc > 1:444147/1‑48 (MQ=255)
|
GCGATTTTCCTCGCCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACCTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTT‑AAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAAC > AM260479/3514894‑3515139
|
| 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
AGCGGAAGCGGGCAGAACGGCGATTTTCCTCGCCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACCTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTT‑AAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAACTCATCCCTTGATCGCC > AM260479/3514875‑3515155
|
AGCGGAAGCGGGCAGAACGGCGATTTTCCTCGCCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGG < GWNJ‑0478:712:GW2002102894th:2:1105:17033:69520/150‑1 (MQ=60)
gtgggctcggagatgtgtataagagacagGCCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGAC < GWNJ‑0478:712:GW2002102894th:2:2213:15727:83852/121‑1 (MQ=60)
CCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGctgtctcttatacacatctccgagcccacg > GWNJ‑0478:712:GW2002102894th:2:1115:1381:56369/1‑118 (MQ=60)
CCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGctgtctcttatacacatctccgagcccacg > GWNJ‑0478:712:GW2002102894th:2:2208:3227:100463/1‑118 (MQ=60)
CCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACC > GWNJ‑0478:712:GW2002102894th:2:2203:11819:101213/1‑150 (MQ=60)
CTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCtgtctcttatacacatctccg > GWNJ‑0478:712:GW2002102894th:2:2116:16539:46223/1‑128 (MQ=60)
ACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTT‑AAAAGGCCGAATCAACGTC < GWNJ‑0478:712:GW2002102894th:2:1110:19926:40361/150‑1 (MQ=60)
CTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttct > GWNJ‑0478:712:GW2002102894th:2:1101:1849:99348/1‑89 (MQ=60)
CTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTT‑AAAAGGCCGAATCAACGTC > GWNJ‑0478:712:GW2002102894th:2:1204:18893:56095/1‑149 (MQ=60)
CGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTT‑AAAAGGCCGAATCAACGTCAGTTG < GWNJ‑0478:712:GW2002102894th:2:1113:14849:40576/150‑1 (MQ=60)
GCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTT‑AAAAGGCCGAATCAACGTCAGTTGGTTCGGCCT < GWNJ‑0478:712:GW2002102894th:2:2203:17978:36344/148‑1 (MQ=60)
GTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTT‑AAAAGGCCGAATCAACGTCAGTTGGTTCtgtctcttatacacatctccg > GWNJ‑0478:712:GW2002102894th:2:1108:4510:54169/1‑129 (MQ=60)
GCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTTAAAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCC < GWNJ‑0478:712:GW2002102894th:2:1206:5997:54076/149‑1 (MQ=60)
GGGTGTAGCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTT‑AAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCA > GWNJ‑0478:712:GW2002102894th:2:2209:14822:15730/1‑149 (MQ=60)
GCTTAGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTT‑AAAAGctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcctgaaaaa > GWNJ‑0478:712:GW2002102894th:2:1212:2621:3401/1‑78 (MQ=60)
AGCCTGGTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTT‑AAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAACTCATCCCTTG < GWNJ‑0478:712:GW2002102894th:2:2115:17768:11485/150‑1 (MQ=60)
GTAGAGCGCTACGTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTT‑AAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAACTCATCCCTTGATCGCC > GWNJ‑0478:712:GW2002102894th:2:2113:8447:53512/1‑150 (MQ=60)
|
AGCGGAAGCGGGCAGAACGGCGATTTTCCTCGCCCTCTTCCATTCCCCAAAAAACGCTGCTAAACTTACGTTCTTTGCTGCAGACGGTCAGACGTTTGCCAGCAAACCAAATCGGGGTGTAGCTTAGCCTGGTAGAGCGCTACCTTCGGGACGTAGAGGCCGGAGGTTCGAATCCTCTCACCCCGACCAGATTT‑AAAAGGCCGAATCAACGTCAGTTGGTTCGGCCTTTTGTCTTTCTGCCCCCCCTCCCCGATCCTCCGGCAACTCATCCCTTGATCGCC > AM260479/3514875‑3515155
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ 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: ‑ |
