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 |
|
A4 F16 I1 R1
|
10 |
35.0 |
1256272 |
95.4% |
1198483 |
136.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
756,119 |
C→A |
D71E (GAC→GAA) |
sdhA → |
succinate dehydrogenase, flavoprotein subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 756,119 | 0 | C | A | 100.0%
| 78.7
/ NA
| 24 | D71E (GAC→GAA) | sdhA | succinate dehydrogenase, flavoprotein subunit |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base A (12/12); total (12/12) |
CGCTGCAAATTTCCCAGAGCGGCCAGACCTGTGCGCTGCTCTCTAAAGTCTTCCCGACCCGTTCCCATACCGTTTCTGCGCAAGGCGGCATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGACACCGTGAAAGGGTCGGACTATATCGGTGACCAGGACGCGATTGAATATATGTGTAAAACCGGGCCGGAAGCGATTCTGGAACTCGAACACATGGGCCTGCCGTTCTCGCGTCTCGATGATGGTCGTATCTATCAAC > NC_000913/755974‑756255
|
cgcTGCAAATTTCCCAGAGCGGCCAGACCTGTGCGCTGCTCTCTAAAGTCTTCCCGACCCGTTCCCATACCGTTTCTGCGCAAGGCGGCATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAAcc < 8:79768/149‑1 (MQ=255)
cTGCAAATTTCCCAGAGCGGCCAGACCTGTGCGCTGCTCTCTAAAGTCTTCCCGACCCGTTCCCATACCGTTTCTGCGCAAGGCGGCATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGt > 2:57371/1‑149 (MQ=255)
gCCAGACCTGTGCGCTGCTCTCTAAAGTATTCCCGACCCGTTCCCATACCGTTTCTGCGCAAGGCGGCATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATc > 5:143/1‑149 (MQ=255)
aCCTGTGCGCTGCTCTCTAAAGTCTTCCCGACCCGTTCCCATACCGTTTCTGCGCAAGGCGGCATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGa > 7:33009/1‑149 (MQ=255)
cTGTGCGCTGCTCTCTAAAGTCTTCCCGACCCGTTCCCATACCGTTTCTGCGCAAGGCGGCATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGAcc > 2:144674/1‑149 (MQ=255)
gtgCGCTGCTCTCTAAAGTCTTCCCGACCCGTTCCCATACCGTTTCTGCGCAAGGCGGCATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGACCAg > 1:23943/1‑149 (MQ=255)
ctctctAAAGTCTTCCCGACCCGTTCCCATACCGTTTCTGCGCAAGGCGGCATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGACCAGGACGCGa < 6:57282/148‑1 (MQ=255)
tctAAAGTCTTCCCGACCCGTTCCCATACCGTTTCTGCGCAAGGCGGCATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGACCAGGACGCGAtt < 2:23943/147‑1 (MQ=255)
tAAAGTCTTCCCGACCCGTTCCCATACCGTTTCTGCGCAAGGCGGCATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGACCAGGAcgc < 4:21368/141‑1 (MQ=255)
tAAAGTCTTCCCGACCCGTTCCCATACCGTTTCTGCGCAAGGCGGCATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGACCAGGAcgc > 3:21368/1‑141 (MQ=255)
ccGTTCCCATACCGTTTCTGCGCAAGGCGGCATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGACCAGGACGCGATTGAATATATGTGTAAAACCg > 5:100360/1‑149 (MQ=255)
cGTTCCCATACCGTTTCTGCGCAAGGCGGCATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGACCAGGACGCGATTGAATATATGTGTAAAACCgg < 1:57371/149‑1 (MQ=255)
ccATACCGTTTCTGCGCAAGGCGGCATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGACCAGGACGCGATTGAATATATGTGTAAAACCGGGCCg > 6:149066/1‑148 (MQ=255)
tttCTGCGCAAGGCGGCATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGACCAGGACGCGATTGAATATATGTGTAAAACCGGGCCGGAAGCGAtt < 8:33009/149‑1 (MQ=255)
cgcAAGGCGGCATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGTCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGACCAGGACGCGATTGAATATATGTGTAAAACCGGGCCTGAAGCGATTCTGGaa < 6:143/149‑1 (MQ=255)
cgcAAGGCGGCATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGACCAGGACGCGATTGAATATATGTGTAAAACCGGGCCGGAAGCGATTCTg < 5:149066/146‑1 (MQ=255)
gcAAGGCGGCATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGTGAGAGGGTCGGACTATATCGGTGACCAGGACGCGATTGAATATATGTGAAAAACCGGGCCGGAAGCGATTCTGGAAc > 1:106064/1‑149 (MQ=255)
ttACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGACCAGGACGCGATTGAATATATGTGTAAAACCGGGCCGGAAGCGATTCTGGAACTCGAACACATg < 1:144674/149‑1 (MQ=255)
aCCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGACCAGGACGCGATTGAATATATGTGAAAAACCGGGCCGGAAGCGATTCTGGAACTCGAACACATgg < 2:106064/148‑1 (MQ=255)
ccGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGACCAGGACGCGATTGAATATATGTGTAAAACCGGGCCGGAAGCGATTCTGGAACTCGAACACATGGGc > 1:55004/1‑149 (MQ=255)
tAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGACCAGGACGCGATTGAATATATGTGTAAAACCGGGCCGGAAGCGATTCTGGAACTCGAACACATGGGCCTGCCGTTCTcgc > 6:75578/1‑149 (MQ=255)
aTAACTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGACCAGGACGCGATTGAATATATGTGTAAAACCGGGCCGGAAGCGATTCTGGAACTCGAACACATGGGCCTGCCGTTCTCGCGTCTCGATGATGGt < 5:75578/149‑1 (MQ=255)
cTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGACCAGGACGCGATTGAATATATGTGTAAAACCGGGCCGGAAGCGATTCTGGAACTCGAACACATGGGCCTGCCGTTCTCGCGTCTCGATGATGGTCGta < 2:55004/149‑1 (MQ=255)
gCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGACCAGGACGCGATTGAATATATGTGTAAAACCGGGCCGGAAGCGATTCTGGAACTCGAACACATGGGCCTGCCGTTCTCGCGTCTCGATGATGGTCGTATCTATCAAc > 6:142206/1‑149 (MQ=255)
|
CGCTGCAAATTTCCCAGAGCGGCCAGACCTGTGCGCTGCTCTCTAAAGTCTTCCCGACCCGTTCCCATACCGTTTCTGCGCAAGGCGGCATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGACACCGTGAAAGGGTCGGACTATATCGGTGACCAGGACGCGATTGAATATATGTGTAAAACCGGGCCGGAAGCGATTCTGGAACTCGAACACATGGGCCTGCCGTTCTCGCGTCTCGATGATGGTCGTATCTATCAAC > NC_000913/755974‑756255
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GGCCAGACCTGTGCGCTGCTCTCTAAAGTCTTCCCGACCCGTTCCCATACCGTTTCTGCGCAAGGCGGCATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGACACCGTGAAAGGGTCGGACTATATCGGTGACCAGGACGCGATTGAATATATGTGTAAAACCGGGCCGGAAGCGATTCTGGAACTCGAACACATGGGCCTGCCGTTCTCGCGTCTCGATGATGGTCGTATCTA > NC_000913/755994‑756250
|
GGCCAGACCTGTGCGCTGCTCTCTAAAGTATTCCCGACCCGTTCCCATACCGTTTCTGCGCAAGGCGGCATTACAGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATCG > NB501016:228:HFK2FAFXY:3:11401:25319:2370/1‑151 (MQ=60)
GACCTGTGCGCTGCTCTCTAAAGTCTTCCCGACCCGTTCCCATACCGTTTCTGCGCAAGGCGGCATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGAC > NB501016:228:HFK2FAFXY:4:11504:3930:13466/1‑151 (MQ=60)
TGTGCGCTGCTCTCTAAAGTCTTCCCGACCCGTTCCCATACCGTTTCTGCGCAAGGCGGCATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGACCAGG > NB501016:228:HFK2FAFXY:1:11110:20847:8658/1‑151 (MQ=60)
CTAAAGTCTTCCCGACCCGTTCCCATACCGTTTCTGCGCAAGGCGGCATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGACCAGTACGCG > NB501016:228:HFK2FAFXY:2:11111:22308:16686/1‑143 (MQ=60)
CCCGTTCCCATACCGTTTCTGCGCAAGGCGGCATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGACCAGGACGCGATTGAATATATGTGTAAAACCGG > NB501016:228:HFK2FAFXY:3:21409:1851:8059/1‑151 (MQ=60)
CCGTTCCCATACCGTTTCTGCGCAAGGCGGCATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGACCAGGACGCGATTGAATATATGTGTAAAACCGGG < NB501016:228:HFK2FAFXY:1:11211:16316:18785/151‑1 (MQ=60)
GCGCAAGGCGGCATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGACCAGGACGCGATTGAATATATGTGTAAAACCGGGCCGGAAGCGATTCTGG < NB501016:228:HFK2FAFXY:3:21607:15252:13625/148‑1 (MQ=60)
CGCAAGGCGGCATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGTGAGAGGGTCGGACTATATCGGTGACCAGGACGCGATTGAATATATGTGAAAAACCGGGCCGGAAGCGATTCTGGAACT > NB501016:228:HFK2FAFXY:1:21107:16788:11681/1‑151 (MQ=60)
ATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGACCAGGACGCGATTGAATATATGTGTAAAACCGGGCCGGAAGCGATTCTGGAACTCGAACACATGG < NB501016:228:HFK2FAFXY:1:21211:9307:11530/151‑1 (MQ=60)
ACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGACCAGGACGCGATTGAATATATGTGTAAAACCGGGCCGGAAGCGATTCTGGAACTCGAACACATGGGCC > NB501016:228:HFK2FAFXY:1:11210:9532:19732/1‑151 (MQ=60)
GATAACTGGGAATGGCATATGTACGAAACCGTGAAAGGGTCGGACTATATCGGTGACCAGGACGCGATTGAATATATGTGTAAAACCGGGCCGGAAGCGATTCTGGAACTCGAACACATGGGCCTGCCGTTCTCGCGTCTCGATGATGGTC < NB501016:228:HFK2FAFXY:3:11610:20358:3450/151‑1 (MQ=60)
CGAAACCGTGAAAGGGTCGGACTATATCGGTGACCAGGACGCGATTGAATATATGTGTAAAACCGGGCCGGAAGCGATTCTGGAACTCGAACACATGGGCCTGCCGTTCTCGCGTCTCGATGATGGTCGTATCTA > NB501016:228:HFK2FAFXY:3:21610:25134:8153/1‑135 (MQ=60)
|
GGCCAGACCTGTGCGCTGCTCTCTAAAGTCTTCCCGACCCGTTCCCATACCGTTTCTGCGCAAGGCGGCATTACCGTTGCGCTGGGTAATACCCATGAAGATAACTGGGAATGGCATATGTACGACACCGTGAAAGGGTCGGACTATATCGGTGACCAGGACGCGATTGAATATATGTGTAAAACCGGGCCGGAAGCGATTCTGGAACTCGAACACATGGGCCTGCCGTTCTCGCGTCTCGATGATGGTCGTATCTA > NC_000913/755994‑756250
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
