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 |
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%
| 94.2
/ NA
| 22 | 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 . (12/10); total (12/10) |
CGTCGCCCAGGCGCGCCAGCGCCTTGGGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTAT‑CAACAGGTTGTAGCGCGCGCCCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGAGCAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCCGCCGCGGCGCTGGCCGCGCCGTT > AM260479/547724‑547964
|
cGTCGCCCAGGCGCGCCAGCGCCTTGGGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCgcggc > 1:850815/1‑134 (MQ=255)
ccAGGCGCGCCAGCGCCTTGGGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTcagc > 2:655949/1‑120 (MQ=255)
ccAGGCGCGCCAGCGCCTTGGGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTcagc < 1:655949/120‑1 (MQ=255)
ggCGCGCCAGCGCCTTGGGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTa < 2:571765/134‑1 (MQ=255)
gTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGgacagc < 1:439824/134‑1 (MQ=255)
tGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAgcgc < 2:962081/103‑1 (MQ=255)
tGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAgcgc > 1:962081/1‑103 (MQ=255)
gTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTcagc < 1:726564/78‑1 (MQ=255)
gTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTcagc > 2:726564/1‑78 (MQ=255)
gTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGc > 1:600714/1‑134 (MQ=255)
agcagcGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTg < 2:850815/134‑1 (MQ=255)
gcagcGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGc < 2:600714/134‑1 (MQ=255)
gCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTgc > 1:285727/1‑134 (MQ=255)
aTGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGgc > 1:667845/1‑134 (MQ=255)
cGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCa < 1:358430/103‑1 (MQ=255)
cGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCa > 2:358430/1‑103 (MQ=255)
aaCAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCCGCCGCGGCGCTg > 1:769314/1‑134 (MQ=255)
aaCAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCCGCCGCGGCGCTg > 1:52489/1‑134 (MQ=255)
aCAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTgcg > 1:744337/1‑116 (MQ=255)
aCAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTgcg < 2:744337/116‑1 (MQ=255)
ttGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTa > 2:228651/1‑41 (MQ=38)
ttGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTa < 1:228651/41‑1 (MQ=38)
gcgcgcg‑cCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGc > 2:108401/1‑64 (MQ=255)
gcgcgcg‑cCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGc < 1:108401/64‑1 (MQ=255)
gcgcgcg‑cCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCCGCCGCGGCGCTGGCCGCGCCGtt > 2:177932/1‑134 (MQ=255)
|
CGTCGCCCAGGCGCGCCAGCGCCTTGGGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTAT‑CAACAGGTTGTAGCGCGCGCCCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGAGCAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCCGCCGCGGCGCTGGCCGCGCCGTT > AM260479/547724‑547964
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 36 ≤ 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
GCCCAGGCCGGCGAACAGGCCCTGCGCGAAGGCGTCGCCCAGGCGCGCCAGCGCCTTGGGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTAT‑CAACAGGTTGTAGCGCGCGCCCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGAGCAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCCGCCGCGGCGCTGGCCGCGCCGTTGCTGCCGCCG > AM260479/547692‑547974
|
GCCCAGGCCGGCGAACAGGCCCTGCGCGAAGGCGTCGCCCAGGCGCGCCAGCGCCTTGGGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCGCCTG > GWNJ‑0478:712:GW2002102894th:2:1116:19306:67857/1‑150 (MQ=60)
GGCCCTGCGCGAAGGCGTCGCCCAGGCGCGCCAGCGCCTTGGGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCG > GWNJ‑0478:712:GW2002102894th:2:2209:12731:60643/1‑150 (MQ=60)
gtagctccgtctcgtgggctcggagatgtgtataagagacagGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGAT < GWNJ‑0478:712:GW2002102894th:2:2115:15152:62395/108‑1 (MQ=60)
GCGCGAAGGCGTCGCCCAGGCGCGCCAGCGCCTTGGGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGAT < GWNJ‑0478:712:GW2002102894th:2:2111:10243:42605/150‑1 (MQ=60)
ttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagatcgtatcCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGgac < GWNJ‑0478:712:GW2002102894th:2:1114:7861:47539/63‑4 (MQ=60)
CGCCAGCGCCTTGGGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTctgtctcttatacacat > GWNJ‑0478:712:GW2002102894th:2:2213:6123:34454/1‑133 (MQ=60)
GGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTC < GWNJ‑0478:712:GW2002102894th:2:1213:8309:78733/150‑1 (MQ=60)
GCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCC > GWNJ‑0478:712:GW2002102894th:2:2107:15888:91595/1‑150 (MQ=60)
acggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagatcCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGA < GWNJ‑0478:712:GW2002102894th:2:1108:16127:24194/91‑1 (MQ=60)
acgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGT < GWNJ‑0478:712:GW2002102894th:2:2211:10668:62866/101‑1 (MQ=60)
agctccgtctcgtgggctcggagatgtgtataagagacagAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCG < GWNJ‑0478:712:GW2002102894th:2:1212:6314:92202/110‑1 (MQ=60)
atgtgtataagagacaGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGC < GWNJ‑0478:712:GW2002102894th:2:1208:11871:2017/134‑1 (MQ=60)
AGTCGGTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCG > GWNJ‑0478:712:GW2002102894th:2:1202:7646:33224/1‑150 (MQ=60)
GTCATGGGTTGCGACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCC > GWNJ‑0478:712:GW2002102894th:2:2110:3130:12916/1‑150 (MQ=60)
ACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCCGCCGCGGCGCTGG > GWNJ‑0478:712:GW2002102894th:2:2201:18236:22968/1‑150 (MQ=60)
ACATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCCGCCGCGGCGCTGG > GWNJ‑0478:712:GW2002102894th:2:1102:11172:59763/1‑150 (MQ=60)
CATGAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCCGCCGCGGCGCctgt > GWNJ‑0478:712:GW2002102894th:2:2114:3010:64792/1‑146 (MQ=60)
GAATCGTATCCAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCctgtctcttatacacatctccgagcccacgagacggagctacaactcgtatgccgtcttctgcttgaaaaaaaaaagcactggtgccgccagaccccaggca > GWNJ‑0478:712:GW2002102894th:2:2116:7739:6805/1‑46 (MQ=55)
CAACAGGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCctgtctcttatacacatctccgagcccacgagacggagct > GWNJ‑0478:712:GW2002102894th:2:1107:6837:50405/1‑110 (MQ=60)
GGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCCGCCGCGGCGCTGGCCGCGCCGTTGCTGCCGCC > GWNJ‑0478:712:GW2002102894th:2:1211:2236:19577/1‑150 (MQ=60)
GGTTGTAGCGCGCG‑CCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCCGCCGCGGCGCTGGCCGCGCCGTTGCTGCCGCC > GWNJ‑0478:712:GW2002102894th:2:1204:12727:45318/1‑150 (MQ=60)
atctttcgccgcgCCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGGACAGCAGCCACAGctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttcttcttgaaaaacaaaaaacgtc > GWNJ‑0478:712:GW2002102894th:2:1215:3597:10394/14‑68 (MQ=60)
|
GCCCAGGCCGGCGAACAGGCCCTGCGCGAAGGCGTCGCCCAGGCGCGCCAGCGCCTTGGGTGGCAGCTCTTCGGTGAACAGTTCGATCAGCAGCGAGTCGGTCATGGGTTGCGACATGAATCGTAT‑CAACAGGTTGTAGCGCGCGCCCGCTTGTCAGCAGCGCGGCGAAAGATTAGGTTCCACTCCGAGCAGCAGCCACAGGCCGTTCTGTTGCCGGAATTGCAGCGTGGTGTAGGCGCATTGCGCGGCCGCCGCGGCGCTGGCCGCGCCGTTGCTGCCGCCG > AM260479/547692‑547974
|
| 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: ‑ |
