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 |
3,333,763 |
+G |
coding (5/615 nt) |
serB2 → |
phosphoserine phosphatase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 3,333,760 | 1 | . | G | 100.0%
| 79.1
/ NA
| 22 | M1R (ATG→AGG) † | serB2 | phosphoserine phosphatase |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (12/10); total (12/10) |
CGGCGCCTGCCTGCCTGCCCGCCCGACCTCTCGCCTTAAGGTAAAATCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAAT‑GGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCGGCACCCTCGATATCCAGGCCTTCCTG > AM260479/3333645‑3333872
|
cGGCGCCTGCCTGCCTGCCCGCCCGACCTCTCGCCTTAAGGTAAAATCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAAT‑g < 1:426120/117‑1 (MQ=255)
cGGCGCCTGCCTGCCTGCCCGCCCGACCTCTCGCCTTAAGGTAAAATCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAAT‑g > 2:426120/1‑117 (MQ=255)
cccgcccgACCTCTCGCCTTAAGGTAAAATCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTcgac > 2:733356/1‑134 (MQ=255)
gccgccCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCgtcgtc < 2:809728/100‑1 (MQ=255)
gccgccCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCgtcgtc > 1:809728/1‑100 (MQ=255)
tGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCg < 1:733356/131‑1 (MQ=255)
cacaCCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCt > 1:804992/1‑47 (MQ=39)
cacaCCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCt < 2:804992/47‑1 (MQ=39)
cacCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGaa < 1:732680/73‑1 (MQ=255)
cacCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGaa > 2:732680/1‑73 (MQ=255)
cccGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGt > 1:438393/1‑89 (MQ=255)
cccGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGt < 2:438393/89‑1 (MQ=255)
cccGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCg > 1:706292/1‑110 (MQ=255)
cccGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCg < 2:706292/110‑1 (MQ=255)
cgaccgacAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCag > 1:469510/1‑74 (MQ=255)
cgaccgacAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCag < 2:469510/74‑1 (MQ=255)
cgaccgacAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAg > 1:968952/1‑105 (MQ=255)
cgaccgacAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAg < 2:968952/105‑1 (MQ=255)
cgaccgacAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCGGCACCCTCGATATCCAGGCCTTCCTg > 1:1008780/1‑134 (MQ=255)
cgaccgacAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCGGCACCCTCGATATCCAGGCCTTCCTg > 2:888567/1‑134 (MQ=255)
acAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAg < 1:991928/80‑1 (MQ=255)
acAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAg > 2:991928/1‑80 (MQ=255)
tGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCg > 2:109154/1‑54 (MQ=39)
tGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCg < 1:109154/54‑1 (MQ=39)
|
CGGCGCCTGCCTGCCTGCCCGCCCGACCTCTCGCCTTAAGGTAAAATCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAAT‑GGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCGGCACCCTCGATATCCAGGCCTTCCTG > AM260479/3333645‑3333872
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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
GGCGCCCATACCGCACCCAATGCGGCCCCGGCGCCTGCCTGCCTGCCCGCCCGACCTCTCGCCTTAAGGTAAAATCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAAT‑GGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCGGCACCCTCGATATCCAGGCCTTCCTGC > AM260479/3333617‑3333873
|
gtctcgtgggctcggagatgtgaataagagacagCTGCCTGCCTGCCCGCCCGACCTCTCGCCTTAAGGTAAAATCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAAT‑GGGGC < GWNJ‑0478:712:GW2002102894th:2:2216:1396:87022/115‑1 (MQ=60)
CCCATACCGCACCCAATGCGGCCCCGGCGCCTGCCTGCCTGCCCGCCCGACCTCTCGCCTTAAGGTAAAATCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTT < GWNJ‑0478:712:GW2002102894th:2:2204:16307:52000/150‑1 (MQ=60)
CAGCACCCAATGCGGCCCCGGCGCCTGCCTGCCTGCCCGCCCGACCTCTCGCCTTAAGGTAAAATCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGT < GWNJ‑0478:712:GW2002102894th:2:1209:19390:55983/150‑1 (MQ=60)
gagattagcgagtgtctcgtgggctcggagatgtgtataagagacagCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAG < GWNJ‑0478:712:GW2002102894th:2:2111:18066:65001/103‑1 (MQ=60)
caagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGA < GWNJ‑0478:712:GW2002102894th:2:1106:9987:74234/84‑1 (MQ=60)
CCTTAAGGTAAAATCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCtgtctcttatacacatctc > GWNJ‑0478:712:GW2002102894th:2:2115:18819:70185/1‑131 (MQ=60)
gcgagtgtctcgtgggctcggagatgtgtataagagacagCCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGTCCACTAC < GWNJ‑0478:712:GW2002102894th:2:2208:6243:29500/110‑1 (MQ=60)
ggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCC < GWNJ‑0478:712:GW2002102894th:2:2112:16238:21326/96‑1 (MQ=60)
CTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaaacaagg > GWNJ‑0478:712:GW2002102894th:2:1206:20659:68708/1‑64 (MQ=60)
CTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaa > GWNJ‑0478:712:GW2002102894th:2:2115:6055:47673/1‑78 (MQ=60)
TTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCGGCACCCTCGATATCC < GWNJ‑0478:712:GW2002102894th:2:2111:3244:68765/147‑1 (MQ=60)
CGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACActgtctcttatacacatctccgagcccacg > GWNJ‑0478:712:GW2002102894th:2:1211:15915:22165/1‑119 (MQ=60)
CGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCGGCACCCTCGATATCCctgtctctt > GWNJ‑0478:712:GW2002102894th:2:2109:11366:21598/1‑140 (MQ=60)
ACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCctgtctcttatacacatctccgagcccacgagacactcgctaatct > GWNJ‑0478:712:GW2002102894th:2:1210:16519:82970/1‑104 (MQ=60)
ACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCGGCACCCTCGATActgtctcttatacac > GWNJ‑0478:712:GW2002102894th:2:2206:2607:96054/1‑135 (MQ=60)
ACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCGGCACCCTCGATATCCAGGCCTTCCTGC > GWNJ‑0478:712:GW2002102894th:2:2211:7084:25021/1‑150 (MQ=60)
cgtgggctcggagatgtgtataagagacaggaatgGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCGGCACCCTCGATATCCAGGCCTTCCTG < GWNJ‑0478:712:GW2002102894th:2:2208:1680:6874/112‑1 (MQ=60)
|
GGCGCCCATACCGCACCCAATGCGGCCCCGGCGCCTGCCTGCCTGCCCGCCCGACCTCTCGCCTTAAGGTAAAATCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAAT‑GGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCGGCACCCTCGATATCCAGGCCTTCCTGC > AM260479/3333617‑3333873
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ 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: ‑ |
