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 |
3,602,688 |
(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%
| 61.7
/ NA
| 15 | 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 . (8/7); total (8/7) |
GCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCG‑ATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGCGGGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACTGCGCCGCCGGCTCGCG > AM260479/3602561‑3602806
|
gCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATgg < 1:916947/134‑1 (MQ=255)
cTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGt > 2:1023524/1‑134 (MQ=255)
gcAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCccagcctg > 2:81451/1‑125 (MQ=255)
gcAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCccagcctg < 1:81451/127‑3 (MQ=255)
cGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGTATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATg < 2:76426/68‑1 (MQ=255)
cGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATg > 1:76426/1‑68 (MQ=255)
gaaTACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATgg < 2:515382/52‑1 (MQ=255)
gaaTACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATgg > 1:515382/3‑54 (MQ=255)
aaTACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGCgggggc < 1:691699/47‑2 (MQ=255)
aaTACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGCgggggc > 2:691699/2‑47 (MQ=255)
gggATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTTGCAGCGGAAAACTAg > 1:731932/1‑70 (MQ=255)
gggATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTTGCAGCGGAAAACTAg < 2:731932/70‑1 (MQ=255)
cGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTa > 1:642130/1‑64 (MQ=255)
cGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTa < 2:642130/64‑1 (MQ=255)
tGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAg > 1:574364/1‑63 (MQ=255)
tGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAg < 2:574364/63‑1 (MQ=255)
ttGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACTGCGCCGCCGGCTcgcg > 2:6918/1‑134 (MQ=255)
|
GCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCG‑ATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGCGGGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACTGCGCCGCCGGCTCGCG > AM260479/3602561‑3602806
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ 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
GGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCG‑ATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGCGGGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACTGCGCCGCCGGCTCGCGTGCCAGCGTCACCGGCAGCACCTGCAGCT > AM260479/3602556‑3602835
|
tttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGG < GWNJ‑0478:712:GW2002102894th:2:2113:17480:53254/78‑1 (MQ=60)
GGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGT < GWNJ‑0478:712:GW2002102894th:2:2211:5072:69195/150‑1 (MQ=60)
ttttttttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCC < GWNJ‑0478:712:GW2002102894th:2:2113:13649:34595/63‑1 (MQ=60)
GGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCTGCGCGtggcgccgggc < GWNJ‑0478:712:GW2002102894th:2:1107:5290:51885/150‑12 (MQ=60)
GCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatg > GWNJ‑0478:712:GW2002102894th:2:1107:4888:20405/1‑98 (MQ=60)
CGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGGGGTGGCGGGTctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttg > GWNJ‑0478:712:GW2002102894th:2:2101:1944:12635/1‑84 (MQ=60)
ATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTTGCAGCGGAAAACTAGTTCACTGGCCCAGCCctgtctcttatacacatctccgagcccacgagacggagctacatctcgt > GWNJ‑0478:712:GW2002102894th:2:2115:9748:92055/1‑100 (MQ=60)
GGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCtgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgt > GWNJ‑0478:712:GW2002102894th:2:2109:5939:60071/1‑95 (MQ=60)
AAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtc > GWNJ‑0478:712:GW2002102894th:2:2104:18761:22378/1‑93 (MQ=60)
CAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACTGCGCCGCCGGCTCGCGTGCCAGCGTCACCGGCAGCACCT > GWNJ‑0478:712:GW2002102894th:2:2208:18785:40670/1‑150 (MQ=60)
GGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACTGCGCCGCCGGCTCGCGTGCCAGCGTCACCGGCAGCACCTGCAGCT > GWNJ‑0478:712:GW2002102894th:2:2201:5164:41403/1‑150 (MQ=60)
|
GGTGGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCG‑ATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGCGGGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACTGCGCCGCCGGCTCGCGTGCCAGCGTCACCGGCAGCACCTGCAGCT > AM260479/3602556‑3602835
|
| 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: ‑ |
