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
|
155 |
25.8 |
2285122 |
88.0% |
2010907 |
104.3 |
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%
| 89.9
/ NA
| 24 | P275P (CCT→CCC) | h16_A3204 | transcriptional regulator, LysR‑family |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (12/12); total (12/12) |
GGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑GGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTC > AM260479/3461588‑3461823
|
gggCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCaa > 2:995757/1‑134 (MQ=255)
cTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATgg < 1:995757/134‑1 (MQ=255)
tCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATggg < 1:33568/132‑1 (MQ=255)
cTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑g > 1:576548/1‑115 (MQ=255)
cTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑g < 2:576548/115‑1 (MQ=255)
ggggATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGcgccgc > 1:460737/1‑116 (MQ=255)
ggggATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGcgccgc < 2:460737/116‑1 (MQ=255)
ggggATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGcaca > 2:852343/1‑132 (MQ=255)
gCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTcc > 2:1067598/1‑134 (MQ=255)
gcgcCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCAcc < 1:988916/134‑1 (MQ=255)
gggCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGccacc < 1:1067598/133‑1 (MQ=255)
gACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGc > 1:686943/1‑133 (MQ=255)
gCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATgg > 1:175335/1‑36 (MQ=37)
gCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATgg < 2:175335/36‑1 (MQ=37)
caAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTgccggc > 1:936316/1‑58 (MQ=255)
caAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTgccggc < 2:936316/58‑1 (MQ=255)
aCTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGcac < 2:958205/40‑1 (MQ=37)
aCTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGcac > 1:958205/1‑40 (MQ=37)
ccGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTc < 1:681481/126‑1 (MQ=255)
ccGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTc > 2:681481/1‑126 (MQ=255)
gcgcCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTcgcgcg > 2:520496/1‑60 (MQ=255)
gcgcCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTcgcgcg < 1:520496/60‑1 (MQ=255)
gcgcCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTcg > 2:203032/1‑56 (MQ=255)
gcgcCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTcg < 1:203032/56‑1 (MQ=255)
gcgcCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCg > 1:606167/1‑66 (MQ=255)
gcgcCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCg < 2:606167/66‑1 (MQ=255)
|
GGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑GGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTC > AM260479/3461588‑3461823
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ 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
CGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑GGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGAAACCGCCCACGCG > AM260479/3461582‑3461838
|
CGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCctgtc > GWNJ‑0478:712:GW2002102894th:2:2101:14206:18653/1‑145 (MQ=60)
GGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACctgt > GWNJ‑0478:712:GW2002102894th:2:1210:21188:37593/1‑146 (MQ=60)
GGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑GGgcgcagcctgtctcttatacacatct > GWNJ‑0478:712:GW2002102894th:2:2109:5790:30394/1‑124 (MQ=60)
GCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGC < GWNJ‑0478:712:GW2002102894th:2:2208:8584:51355/150‑1 (MQ=60)
ATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCG < GWNJ‑0478:712:GW2002102894th:2:1105:7312:15340/148‑1 (MQ=60)
agcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCC < GWNJ‑0478:712:GW2002102894th:2:1113:6588:86465/86‑1 (MQ=60)
gaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCA < GWNJ‑0478:712:GW2002102894th:2:1215:20170:35012/90‑1 (MQ=60)
AGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTC < GWNJ‑0478:712:GW2002102894th:2:2208:19168:12554/150‑1 (MQ=60)
CCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCC > GWNJ‑0478:712:GW2002102894th:2:2108:10943:10621/1‑149 (MQ=60)
GGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaattaata > GWNJ‑0478:712:GW2002102894th:2:1110:6120:41529/1‑66 (MQ=60)
GGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTG < GWNJ‑0478:712:GW2002102894th:2:2213:19847:33914/149‑1 (MQ=60)
GCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctg > GWNJ‑0478:712:GW2002102894th:2:2209:17316:9524/1‑88 (MQ=60)
GATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCcatctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaaaa > GWNJ‑0478:712:GW2002102894th:2:2206:1428:32566/1‑67 (MQ=60)
GCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgcc > GWNJ‑0478:712:GW2002102894th:2:2102:20977:11095/1‑97 (MQ=60)
ACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGAAACCGCCCACGCG < GWNJ‑0478:712:GW2002102894th:2:2106:16477:77505/149‑1 (MQ=60)
|
CGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑GGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGAAACCGCCCACGCG > AM260479/3461582‑3461838
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
