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 |
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%
| 85.3
/ NA
| 23 | M1R (ATG→AGG) † | serB2 | phosphoserine phosphatase |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (12/11); total (12/11) |
CCAATGCGGCCCCGGCGCCTGCCTGCCTGCCCGCCCGACCTCTCGCCTTAAGGTAAAATCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAAT‑GGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCGGCACCCTCGATATCCAGGCCTTCCTGCGCTTTGCGCTG > AM260479/3333633‑3333884
|
ccAATGCGGCCCCGGCGCCTGCCTGCCTGCCCGCCCGACCTCTCGCCTTAAGGTAAAATCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAAT‑ggggcc > 1:711155/1‑131 (MQ=255)
aTGCGGCCCCGGCGCCTGCCTGCCTGCCCGCCCGACCTCTCGCCTTAAGGTAAAATCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCt > 2:478890/1‑134 (MQ=255)
ggCGCCTGCCTGCCTGCCCGCCCGACCTCTCGCCTTAAGGTAAAATCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCg > 1:253712/1‑134 (MQ=255)
cctgcctgcctgCCCGCCCGACCTCTCGCCTTAAGGTAAAATCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTg > 2:57152/1‑134 (MQ=255)
cTTAAGGTAAAATCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCgg > 2:495919/1‑132 (MQ=255)
aaaaTCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGcc < 1:569916/95‑1 (MQ=255)
aaaaTCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGcc > 2:569916/1‑95 (MQ=255)
gccgccCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAg < 1:457815/133‑1 (MQ=255)
gccgccCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAg < 2:711155/133‑1 (MQ=255)
gccgccCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGt > 1:288336/1‑134 (MQ=255)
cccATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTa < 1:654250/134‑1 (MQ=255)
ccATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTAc < 1:495919/134‑1 (MQ=255)
cATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACg > 1:562920/1‑134 (MQ=255)
ctctTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGc > 1:577551/1‑134 (MQ=255)
ctctTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAAT‑gg < 2:909623/51‑1 (MQ=255)
ctctTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAAT‑gg > 1:909623/1‑51 (MQ=255)
tGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCg < 2:562920/131‑1 (MQ=255)
aCCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCGGCAcc < 2:253712/134‑1 (MQ=255)
acacCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCGGCACCCTCGATATc < 2:577551/134‑1 (MQ=255)
acacCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCGGCACCCTCGATATc < 2:870957/134‑1 (MQ=255)
cacCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCGGCACCCTCGATATc > 2:595714/1‑133 (MQ=255)
cTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCGGCACCCTCGATATCCAGGc > 2:428696/1‑134 (MQ=255)
cTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCAACTACAAAGcc < 2:657056/114‑1 (MQ=255)
cTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCAACTACAAAGcc > 1:657056/1‑114 (MQ=255)
cgaccgacAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCGGCACCCTCGATATCCAGGCCTTCCTg > 1:71490/1‑134 (MQ=255)
aCCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCGGCACCCTCGATATCCAGGCCTTCCTGCGCTTTGCGCTg < 1:57152/134‑1 (MQ=255)
|
CCAATGCGGCCCCGGCGCCTGCCTGCCTGCCCGCCCGACCTCTCGCCTTAAGGTAAAATCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAAT‑GGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCGGCACCCTCGATATCCAGGCCTTCCTGCGCTTTGCGCTG > AM260479/3333633‑3333884
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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
CGGCGCCCATACCGCACCCAATGCGGCCCCGGCGCCTGCCTGCCTGCCCGCCCGACCTCTCGCCTTAAGGTAAAATCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAAT‑GGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCGGCACCCTCGATATCCAGGCCTTCCTGCGCTTTGCGCTGGCGCCGCTGGCGGCCAACCCGCGCGAC > AM260479/3333616‑3333911
|
gatgtgtataagagacagCAATGCGGCCCCGGCGCCTGCCTGCCTGCCCGCCCGACCTCTCGCCTTAAGGTAAAATCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAAT‑GGGGC < GWNJ‑0478:712:GW2002102894th:2:1205:21123:10448/132‑1 (MQ=60)
GGCGCCCATACCGCACCCAATGCGGCCCCGGCGCCTGCCTGCCTGCCCGCCCGACCTCTCGCCTTAAGGTAAAATCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAAT‑GGGgcc < GWNJ‑0478:712:GW2002102894th:2:2213:9047:22310/150‑4 (MQ=60)
GCGCCCATACCGCACCCAATGCGGCCCCGGCGCCTGCCTGCCTGCCCGCCCGACCTCTCGCCTTAAGGTAAAATCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCG > GWNJ‑0478:712:GW2002102894th:2:2112:10965:71335/1‑150 (MQ=60)
ACCCAATGCGGCCCCGGCGCCTGCCTGCCTGCCCGCCCGACCTCTCGCCTTAAGGTAAAATCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGC > GWNJ‑0478:712:GW2002102894th:2:1201:18794:9849/1‑150 (MQ=60)
gctcggagatgtgtataagagacagCTCTCGCCTTAAGGTAAAATCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACG < GWNJ‑0478:712:GW2002102894th:2:2105:20592:91956/125‑1 (MQ=60)
CCTTAAGGTAAAATCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTT > GWNJ‑0478:712:GW2002102894th:2:1202:14159:50626/1‑150 (MQ=60)
nttnnnttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaggaataGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTAC < GWNJ‑0478:712:GW2002102894th:2:2113:19504:101286/70‑1 (MQ=60)
GGTAAAATCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGG > GWNJ‑0478:712:GW2002102894th:2:2105:5629:44873/1‑150 (MQ=60)
tttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagtgGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGG < GWNJ‑0478:712:GW2002102894th:2:2211:9034:60854/72‑1 (MQ=60)
CGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTAC < GWNJ‑0478:712:GW2002102894th:2:1212:19602:80973/149‑1 (MQ=60)
GCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGC < GWNJ‑0478:712:GW2002102894th:2:2111:7501:32626/150‑1 (MQ=60)
CCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCtgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaa > GWNJ‑0478:712:GW2002102894th:2:2211:3757:25885/1‑82 (MQ=60)
CCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCC < GWNJ‑0478:712:GW2002102894th:2:1214:19907:91399/150‑1 (MQ=60)
CCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCC > GWNJ‑0478:712:GW2002102894th:2:2104:7426:42927/1‑150 (MQ=60)
catacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCGGC < GWNJ‑0478:712:GW2002102894th:2:1206:3060:33817/99‑1 (MQ=60)
gctccgtctcgtgggctcggagatgtgtataagagacaGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAACGCCGGCACCCTCGATATCC < GWNJ‑0478:712:GW2002102894th:2:1107:5856:14808/112‑1 (MQ=60)
GACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCAACTACAAAGCCGGCACCCTCGATATCCtgtct > GWNJ‑0478:712:GW2002102894th:2:2111:5244:49141/1‑145 (MQ=60)
ACCACACCCTGATCCCGACCGACAGCGACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCGGCACCCTCGATATCCAGGCCTTCCTGC > GWNJ‑0478:712:GW2002102894th:2:1104:10828:87861/1‑150 (MQ=60)
GACCATGAATGGGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCGGCACCCTCGATATCCAGGCCTTCCTGCGCTTTGCGCTGGCGCCGCTGGCGGCC < GWNJ‑0478:712:GW2002102894th:2:1102:1511:91655/150‑1 (MQ=60)
GGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCGGCACCCTCGATATCCAGGCCTTCCTGCGCTTTGCGCTGGCGCCGCTGGCGGCCAACCCGCGCGAC > GWNJ‑0478:712:GW2002102894th:2:2212:5549:83926/1‑150 (MQ=60)
|
CGGCGCCCATACCGCACCCAATGCGGCCCCGGCGCCTGCCTGCCTGCCCGCCCGACCTCTCGCCTTAAGGTAAAATCGCCGCCCATGAATCTGGCACTCTTTGACCTCGACCACACCCTGATCCCGACCGACAGCGACCATGAAT‑GGGCCGCTTCCTGGTCCGCCTGGGCGTCGTCGACGAGGAAACCTACCGGCAGAAGAACGACGAGTTCTACGGCCACTACAAAGCCGGCACCCTCGATATCCAGGCCTTCCTGCGCTTTGCGCTGGCGCCGCTGGCGGCCAACCCGCGCGAC > AM260479/3333616‑3333911
|
| 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: ‑ |
