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 |
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%
| 60.7
/ NA
| 17 | P275P (CCT→CCC) | h16_A3204 | transcriptional regulator, LysR‑family |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (10/7); total (10/7) |
CATCCGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑GGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGAAAC > AM260479/3461578‑3461828
|
cATCCGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑g < 2:559960/134‑1 (MQ=255)
cATCCGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑g < 1:786981/134‑1 (MQ=255)
cgGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGcgccgc > 2:981910/1‑133 (MQ=255)
ggggATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGcaca > 1:629863/1‑132 (MQ=255)
aTTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑g > 1:492093/1‑104 (MQ=255)
aTTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑g < 2:492093/104‑1 (MQ=255)
tGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGc < 1:135415/131‑1 (MQ=255)
tGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGc > 2:135415/1‑131 (MQ=255)
gTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTgccg < 2:86894/134‑1 (MQ=255)
cgcgTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTgccggccg > 1:620928/1‑134 (MQ=255)
cgcgTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTgccggccg > 2:509101/1‑134 (MQ=255)
cTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCAt > 1:498345/1‑134 (MQ=255)
aGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCAc < 2:620928/134‑1 (MQ=255)
ccgccgAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGc < 1:982667/90‑1 (MQ=255)
ccgccgAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGc > 2:982667/1‑90 (MQ=255)
ccccATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTgc < 2:629863/134‑1 (MQ=255)
cacaGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGcc > 1:574792/1‑132 (MQ=255)
cacaGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGcc < 2:574792/132‑1 (MQ=255)
cacaGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCAt > 2:88860/1‑134 (MQ=255)
aCTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGaaa > 2:1047346/1‑134 (MQ=255)
cTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGAAAc < 1:1047346/134‑1 (MQ=255)
|
CATCCGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑GGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGAAAC > AM260479/3461578‑3461828
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
ACATCCGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑GGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGAAACCGCCCACGCGCATGCGCATGCGCAGCACGCGGC > AM260479/3461577‑3461861
|
ACATCCGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGC < GWNJ‑0478:712:GW2002102894th:2:2113:4578:84079/150‑1 (MQ=60)
GGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAA > GWNJ‑0478:712:GW2002102894th:2:2102:15930:100850/1‑148 (MQ=60)
ATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCctgtctcttatacac > GWNJ‑0478:712:GW2002102894th:2:1213:7143:63583/1‑134 (MQ=60)
GGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGC > GWNJ‑0478:712:GW2002102894th:2:2102:8917:45186/1‑150 (MQ=60)
cgtgggctcggagatgtgtataagagacaGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCT < GWNJ‑0478:712:GW2002102894th:2:2206:5100:78969/121‑1 (MQ=60)
ATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCT < GWNJ‑0478:712:GW2002102894th:2:1109:20302:13706/150‑1 (MQ=60)
AGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATC > GWNJ‑0478:712:GW2002102894th:2:1213:20002:92542/1‑150 (MQ=60)
CCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATG > GWNJ‑0478:712:GW2002102894th:2:1216:20358:58064/1‑150 (MQ=60)
ACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGAAACCGCCCACGCGCATGC < GWNJ‑0478:712:GW2002102894th:2:2210:10742:32533/150‑1 (MQ=60)
G‑GGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCctgtctcttatacacatctccgagcccccgagacactcgctaatctcgtatgccgtcttctg > GWNJ‑0478:712:GW2002102894th:2:2106:15461:84655/1‑88 (MQ=60)
GCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGAAACCGCCCACGCGCATGCGCATGCGCAGCACGCGGC < GWNJ‑0478:712:GW2002102894th:2:2210:17584:97419/150‑1 (MQ=60)
|
ACATCCGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑GGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGAAACCGCCCACGCGCATGCGCATGCGCAGCACGCGGC > AM260479/3461577‑3461861
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
