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 |
3,602,688 |
(G)6→5 |
intergenic (‑85/+41) |
h16_A3328 ← / ← h16_A3329 |
conserved hypothetical membrane protein/unassigned peptidase, M61 subfamily (glycyl aminopeptidase) |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 3,602,683 | 0 | G | . | 100.0%
| 86.1
/ NA
| 20 | intergenic (‑80/+46) | h16_A3328/h16_A3329 | conserved hypothetical membrane protein/unassigned peptidase, M61 subfamily (glycyl aminopeptidase) |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base . (10/10); total (10/10) |
GCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCG‑ATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGCGGGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACTGCGC > AM260479/3602561‑3602794
|
gCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATgg > 2:283650/1‑134 (MQ=255)
ggTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGt > 1:119855/1‑134 (MQ=255)
tCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGc < 1:167866/134‑1 (MQ=255)
tCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGc < 2:414618/134‑1 (MQ=255)
cTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGt > 1:1093281/1‑134 (MQ=255)
cgcCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAg < 1:517923/134‑1 (MQ=255)
aGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCagcgcg < 2:1093281/134‑1 (MQ=255)
tAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGtgtg > 1:327503/1‑78 (MQ=255)
tAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGtgtg < 2:327503/78‑1 (MQ=255)
aGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGgtg < 2:1014493/75‑1 (MQ=255)
aGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGgtg > 1:1014493/1‑75 (MQ=255)
aTACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATgg < 1:410798/52‑1 (MQ=255)
aTACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATgg > 2:410798/1‑52 (MQ=255)
gggATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTg > 1:471012/1‑104 (MQ=255)
gggATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTg < 2:471012/104‑1 (MQ=255)
aTCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACTgcgc > 2:326835/1‑134 (MQ=255)
gcgTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGgtg > 2:408873/1‑43 (MQ=38)
gcgTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGgtg < 1:408873/43‑1 (MQ=38)
gcgTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGaaaa > 1:799203/1‑56 (MQ=255)
gcgTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGaaaa < 2:799203/56‑1 (MQ=255)
|
GCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCG‑ATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGCGGGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACTGCGC > AM260479/3602561‑3602794
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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
CCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCG‑ATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGCGGGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACTGCGCCGCCGGCTCGCGTGCCAGCGTCACCGGCAG > AM260479/3602549‑3602824
|
CCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTG > GWNJ‑0478:712:GW2002102894th:2:1108:1956:42489/1‑150 (MQ=60)
GCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTG > GWNJ‑0478:712:GW2002102894th:2:2213:11731:63163/1‑150 (MQ=60)
gcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑TGGGGCGATGGCGTGCGGTGGCGGGT < GWNJ‑0478:712:GW2002102894th:2:1201:3663:15984/87‑1 (MQ=60)
tcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGT < GWNJ‑0478:712:GW2002102894th:2:1208:15898:78684/83‑1 (MQ=60)
GTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGC < GWNJ‑0478:712:GW2002102894th:2:1110:11534:5955/150‑1 (MQ=60)
ttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACT < GWNJ‑0478:712:GW2002102894th:2:1208:7284:67682/75‑1 (MQ=60)
GCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCC < GWNJ‑0478:712:GW2002102894th:2:1215:7187:35474/150‑1 (MQ=60)
gtttttgttttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagcagcGGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCC < GWNJ‑0478:712:GW2002102894th:2:2104:17317:72121/59‑1 (MQ=60)
CGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGctgtctcttatacacatctccgagcccacgagacactcgct > GWNJ‑0478:712:GW2002102894th:2:1202:18184:79189/1‑108 (MQ=60)
GCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTctgtctcttatacacatctccgagcccacgagacactcgctaatc > GWNJ‑0478:712:GW2002102894th:2:2208:6152:58420/1‑105 (MQ=60)
ATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTgtctcttatacac > GWNJ‑0478:712:GW2002102894th:2:1213:8587:4629/1‑136 (MQ=60)
GTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgct > GWNJ‑0478:712:GW2002102894th:2:2112:6032:70909/1‑86 (MQ=60)
CGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACctgtctcttatacacatctccgagccc > GWNJ‑0478:712:GW2002102894th:2:1115:16337:61470/1‑123 (MQ=60)
GCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCctgtctcttatacacatctccgagcccacgagacactcgctaatctc > GWNJ‑0478:712:GW2002102894th:2:1102:17244:39520/1‑103 (MQ=60)
GCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACTGCGCCGCCGGCTCGCGTGCCAGCGTCACCGGC > GWNJ‑0478:712:GW2002102894th:2:1211:7660:44290/1‑148 (MQ=60)
GCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACTGCGCCGCCGGCTCGCGTGCCAGCGTCACCGGC > GWNJ‑0478:712:GW2002102894th:2:1211:7871:99644/1‑148 (MQ=60)
|
CCATCGCGGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCG‑ATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGCGGGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACTGCGCCGCCGGCTCGCGTGCCAGCGTCACCGGCAG > AM260479/3602549‑3602824
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
