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
|
154 |
26.6 |
2069536 |
90.2% |
1866721 |
108.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
3,461,712 |
+G |
coding (823/969 nt) |
h16_A3204 ← |
transcriptional regulator, LysR‑family |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 3,461,710 | 1 | . | G | 100.0%
| 63.9
/ NA
| 18 | P275P (CCT→CCC) | h16_A3204 | transcriptional regulator, LysR‑family |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (7/11); total (7/11) |
CGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑GGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGAAACCGCCCACG > AM260479/3461582‑3461836
|
cgccgcGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑gggc < 1:890630/133‑3 (MQ=255)
gccgcGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑gggcgc < 1:187225/134‑5 (MQ=255)
gccgcGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑gggcgc > 2:187225/1‑130 (MQ=255)
cTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATgg < 2:705645/134‑1 (MQ=255)
cTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATgg < 2:699100/134‑1 (MQ=255)
cTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATgg < 2:325231/134‑1 (MQ=255)
tAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCg > 1:434448/1‑134 (MQ=255)
ttGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCt > 1:1003280/1‑134 (MQ=255)
ccgccgAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑gggc < 2:957053/62‑3 (MQ=255)
ccgccgAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑gggc > 1:957053/1‑60 (MQ=255)
gccgAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCccgcc > 1:221919/1‑134 (MQ=255)
gggCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGccacc < 1:12504/133‑1 (MQ=255)
aTGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAg < 2:416438/134‑1 (MQ=255)
tGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGc < 2:221919/134‑1 (MQ=255)
cacaGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGc > 1:686868/1‑58 (MQ=255)
cacaGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGc < 2:686868/58‑1 (MQ=255)
cacaGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGCGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCAcc < 1:715474/99‑1 (MQ=255)
cacaGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGCGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCAcc > 2:715474/1‑99 (MQ=255)
cTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGAAAc < 2:752696/134‑1 (MQ=255)
ccGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGcca < 1:858055/107‑1 (MQ=255)
ccGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGcca > 2:858055/1‑107 (MQ=255)
ccGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGAAACCg < 2:434448/133‑1 (MQ=255)
gcgcCCAGGGCGCCGCATTGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGAAACCGCCCAcg > 1:195453/1‑134 (MQ=255)
|
CGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑GGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGAAACCGCCCACG > AM260479/3461582‑3461836
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
ATCATCCGCAATACATCCGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑GGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGAAACCGCCCACGCGCATGCGCATGCGCAGCACGCG > AM260479/3461565‑3461859
|
ATCATCCGCAATACATCCGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑GGgc < GWNJ‑0478:712:GW2002102894th:2:1107:12811:5433/150‑3 (MQ=60)
ATCATCCGCAATACATCCGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑GGgc > GWNJ‑0478:712:GW2002102894th:2:1205:16372:62504/1‑148 (MQ=60)
CCGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGC < GWNJ‑0478:712:GW2002102894th:2:2207:8396:75188/149‑1 (MQ=60)
CGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCG < GWNJ‑0478:712:GW2002102894th:2:1112:3452:4906/150‑1 (MQ=60)
GCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGC > GWNJ‑0478:712:GW2002102894th:2:1213:5074:39094/1‑150 (MQ=60)
TTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTC > GWNJ‑0478:712:GW2002102894th:2:2215:11817:28031/1‑150 (MQ=60)
CCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCtgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtct > GWNJ‑0478:712:GW2002102894th:2:2212:14283:72435/1‑93 (MQ=60)
AGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCG > GWNJ‑0478:712:GW2002102894th:2:1114:13037:3067/1‑150 (MQ=60)
ggagatgtgtataagagacagCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGCGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTC < GWNJ‑0478:712:GW2002102894th:2:2112:9621:73349/129‑1 (MQ=60)
CCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCtgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctg > GWNJ‑0478:712:GW2002102894th:2:2113:18562:5462/1‑89 (MQ=60)
gtataagagacaGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGC < GWNJ‑0478:712:GW2002102894th:2:2209:12981:70128/138‑1 (MQ=60)
GGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTG < GWNJ‑0478:712:GW2002102894th:2:1101:16021:91570/149‑1 (MQ=60)
GCACAAACTGCCGCTGCGCCCAGGGCGCCGCATTGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGAAACCGCCCACGC > GWNJ‑0478:712:GW2002102894th:2:1112:5117:52489/1‑150 (MQ=60)
G‑GGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGAAACCGCCCACGCGCATGCGCATGCGCAGCACGCG > GWNJ‑0478:712:GW2002102894th:2:2106:20111:26839/1‑150 (MQ=60)
|
ATCATCCGCAATACATCCGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑GGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGAAACCGCCCACGCGCATGCGCATGCGCAGCACGCG > AM260479/3461565‑3461859
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
