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 |
547,839 |
Δ1 bp |
intergenic (‑31/+6) |
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 | 547,837 | 0 | C | . | 100.0%
| 91.1
/ NA
| 21 | intergenic (‑29/+8) | glyS/h16_A0522 | Glycyl‑tRNA synthetase beta subunit/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base . (11/10); total (11/10) |
CCAGGCGCGCCAGCGCCTTGGGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTAT‑CAACAGGTTGTAGCGCGCGCCCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGAGCAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCCGCCGCGGCGCTGGCCGCGCCG > AM260479/547730‑547962
|
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 < 2:504121/93‑1 (MQ=255)
ctTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCagcagc > 1:504121/1‑93 (MQ=255)
gTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTa > 1:1130824/1‑95 (MQ=255)
gTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTa < 2:1130824/95‑1 (MQ=255)
aTCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGcgcg > 2:460194/1‑79 (MQ=255)
aTCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGcgcg < 1:460194/79‑1 (MQ=255)
cATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAgg > 2:153736/1‑134 (MQ=255)
aTGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCagcagc > 2:717117/1‑46 (MQ=255)
aTGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCagcagc < 1:717117/46‑1 (MQ=37)
aaCAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCa < 2:71830/96‑1 (MQ=255)
aaCAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCa > 1:71830/1‑96 (MQ=255)
aaCAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCCGCcgcg < 2:279600/128‑1 (MQ=255)
aaCAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCCGCcgcg > 1:279600/1‑128 (MQ=255)
aCAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGcc < 2:32098/86‑1 (MQ=255)
aCAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGcc > 1:32098/1‑86 (MQ=255)
tAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCgg < 1:543349/51‑2 (MQ=255)
tAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCgg > 2:543349/1‑50 (MQ=255)
tAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCCGCCGCGGCGCTGGCCGCGCCg > 1:374529/1‑134 (MQ=255)
gcgcgcg‑cCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTg > 1:440745/1‑71 (MQ=255)
gcgcgcg‑cCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTg < 2:379521/71‑1 (MQ=255)
gcgcgcg‑cCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTg < 2:440745/71‑1 (MQ=255)
gcgcgcg‑cCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTg > 1:379521/1‑71 (MQ=255)
|
CCAGGCGCGCCAGCGCCTTGGGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTAT‑CAACAGGTTGTAGCGCGCGCCCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGAGCAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCCGCCGCGGCGCTGGCCGCGCCG > AM260479/547730‑547962
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 38 ≤ 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
GCGCGAAGGCGTCGCCCAGGCGCGCCAGCGCCTTGGGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTAT‑CAACAGGTTGTAGCGCGCGCCCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGAGCAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCCGCCGCGGCGCTGGCCGCGCCGTTGCTGCCGCCGCGGCTGCCTGCA > AM260479/547715‑547986
|
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)
ggcctgtggctgctgtccggagtggaacctaatctttcgccgcgCCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCtgtctcttatacacatctccgagccc > GWNJ‑0478:712:GW2002102894th:2:2210:14975:40496/45‑124 (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:2:1207:15818:63057/4‑102 (MQ=60)
atcCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgt > GWNJ‑0478:712:GW2002102894th:2:1211:11420:3526/4‑102 (MQ=60)
CAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCCGCCGCGGCGCTGGCCGCGCCGTTGCTG > GWNJ‑0478:712:GW2002102894th:2:1103:4344:76352/1‑150 (MQ=60)
AGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCCGCCGCGGCGCTGGCCGCGCaatgcgcctac > GWNJ‑0478:712:GW2002102894th:2:1207:14439:49790/1‑138 (MQ=60)
GTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCCGCCGCGGCGCTGGCCGCGCCGTTGCTGCCGCCG > GWNJ‑0478:712:GW2002102894th:2:2116:9305:93732/1‑150 (MQ=60)
CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaa > GWNJ‑0478:712:GW2002102894th:2:2211:2544:81481/1‑77 (MQ=60)
CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCCGCCGCGGCGCTGGCCGCGCCGTTGCTGCCGCCGCGGCTGCCTGC > GWNJ‑0478:712:GW2002102894th:2:1201:13673:70993/1‑148 (MQ=60)
|
GCGCGAAGGCGTCGCCCAGGCGCGCCAGCGCCTTGGGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTAT‑CAACAGGTTGTAGCGCGCGCCCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGAGCAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCCGCCGCGGCGCTGGCCGCGCCGTTGCTGCCGCCGCGGCTGCCTGCA > AM260479/547715‑547986
|
| 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: ‑ |
