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 |
547,818 |
+C |
intergenic (‑10/+27) |
glyS ← / ← h16_A0522 |
Glycyl‑tRNA synthetase beta subunit/conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 547,817 | 1 | . | C | 100.0%
| 41.7
/ NA
| 12 | intergenic (‑9/+28) | glyS/h16_A0522 | Glycyl‑tRNA synthetase beta subunit/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (6/6); total (6/6) |
CCAGGCGCGCCAGCGCCTTGGGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTAT‑CAACAGGTTGTAGCGCGCGCCCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGAGCAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGG > AM260479/547730‑547927
|
ccAGGCGCGCCAGCGCCTTGGGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGa > 1:563340/1‑130 (MQ=255)
gcgcgcCAGCGCCTTGGGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAg < 1:266327/134‑1 (MQ=255)
cTTGGGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCgg < 2:301249/134‑2 (MQ=255)
ctTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCagcagc > 1:504121/1‑93 (MQ=255)
ctTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCagcagc < 2:504121/93‑1 (MQ=255)
gTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTa > 1:1130824/1‑95 (MQ=255)
gTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTa < 2:1130824/95‑1 (MQ=255)
aTCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGcgcg < 1:460194/79‑1 (MQ=255)
aTCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGcgcg > 2:460194/1‑79 (MQ=255)
cATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAgg > 2:153736/1‑134 (MQ=255)
aTGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCagcagc < 1:717117/46‑1 (MQ=37)
aTGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCagcagc > 2:717117/1‑46 (MQ=255)
|
CCAGGCGCGCCAGCGCCTTGGGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTAT‑CAACAGGTTGTAGCGCGCGCCCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGAGCAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGG > AM260479/547730‑547927
|
| 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
CAGGTCGCGCTCGCCCAGGCCGGCGAACAGGCCCTGCGCGAAGGCGTCGCCCAGGCGCGCCAGCGCCTTGGGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTAT‑CAACAGGTTGTAGCGCGCGCCCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGAGCAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCCGCCGCGGCGCTGGCCGCGCCGTTGCTG > AM260479/547680‑547968
|
CAGGTCGCGCTCGCCCAGGCCGGCGAACAGGCCCTGCGCGAAGGCGTCGCCCAGGCGCGCCAGCGCCTTGGGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGT < GWNJ‑0478:712:GW2002102894th:2:2106:19020:22217/150‑1 (MQ=60)
attattgtttttttttttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCG < GWNJ‑0478:712:GW2002102894th:2:2111:8216:99468/58‑1 (MQ=60)
AACAGGCCCTGCGCGAAGGCGTCACCCAGGCGCGCCAGCGCCTTGGGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTAT‑Ccaacagctgtctcttatacacatctccgagcccacg > GWNJ‑0478:712:GW2002102894th:2:2216:12461:17042/1‑114 (MQ=60)
GCGCGAAGGCGTCGCCCAGGCGCGCCAGCGCCTTGGGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAA > GWNJ‑0478:712:GW2002102894th:2:1216:19544:3677/1‑146 (MQ=60)
tttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAG < GWNJ‑0478:712:GW2002102894th:2:2109:17710:14797/77‑1 (MQ=60)
agcgagtgtctcgtgggctcggagatgtgtataagagacagTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTT < GWNJ‑0478:712:GW2002102894th:2:1210:4654:2677/109‑1 (MQ=60)
GGCGCGCCAGCGCCTTGGGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGgaca < GWNJ‑0478:712:GW2002102894th:2:1114:21157:91254/150‑5 (MQ=60)
CCTTGGGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGctgtctcttatacacatctccgagccc > GWNJ‑0478:712:GW2002102894th:2:1212:11067:22056/1‑123 (MQ=60)
ttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaggtatcCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGC < GWNJ‑0478:712:GW2002102894th:2:1214:6942:9773/76‑1 (MQ=60)
GCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGgacctgtctcttatacacatctccgagc > GWNJ‑0478:712:GW2002102894th:2:2215:6971:48483/1‑122 (MQ=60)
GGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCG < GWNJ‑0478:712:GW2002102894th:2:2111:8505:9926/68‑1 (MQ=60)
GTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCtgtctcttatacacatctcc > GWNJ‑0478:712:GW2002102894th:2:1110:2532:90151/1‑130 (MQ=60)
GTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACCCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCtgtctcttatacacatctcc > GWNJ‑0478:712:GW2002102894th:2:1115:9850:47069/1‑130 (MQ=60)
ACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCctgtctcttatacacatctccg > GWNJ‑0478:712:GW2002102894th:2:1104:13408:46938/1‑126 (MQ=60)
ACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCCGCCGCGGCGCTGG > GWNJ‑0478:712:GW2002102894th:2:1116:12593:58640/1‑150 (MQ=60)
CATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGctgtctcttatacacatctccgagcccacgagac > GWNJ‑0478:712:GW2002102894th:2:1105:15458:4084/1‑116 (MQ=60)
GTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCCGCCGCGGCGCTGGCCGCGCCGT > GWNJ‑0478:712:GW2002102894th:2:1207:9283:35604/1‑150 (MQ=60)
atcCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgt > GWNJ‑0478:712:GW2002102894th:2:1211:11420:3526/4‑102 (MQ=60)
atcCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgt > GWNJ‑0478:712:GW2002102894th:2:1207:15818:63057/4‑102 (MQ=60)
CAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCCGCCGCGGCGCTGGCCGCGCCGTTGCTG > GWNJ‑0478:712:GW2002102894th:2:1103:4344:76352/1‑150 (MQ=60)
|
CAGGTCGCGCTCGCCCAGGCCGGCGAACAGGCCCTGCGCGAAGGCGTCGCCCAGGCGCGCCAGCGCCTTGGGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTAT‑CAACAGGTTGTAGCGCGCGCCCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGAGCAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCCGCCGCGGCGCTGGCCGCGCCGTTGCTG > AM260479/547680‑547968
|
| 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: ‑ |
