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 |
|
A2 F5 I179 R1
|
182 |
40.3 |
1547118 |
96.8% |
1497610 |
120.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
645,191 |
A→G |
D252D (GAT→GAC) |
citE ← |
citrate (pro‑3S)‑lyase subunit beta |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 645,191 | 0 | A | G | 100.0%
| 71.2
/ NA
| 22 | D252D (GAT→GAC) | citE | citrate (pro‑3S)‑lyase subunit beta |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (10/12); total (10/12) |
CGGAAAGTTCTGCACGGGAGAGCACCAGACGGGCGCGATCGATAACCGGACCGTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGATCCACTTCTTTCTGGGTCGGTGCGTAGAGGTTGTGCAGCAGATCAATCTGACGCGGGTTGATCAGCGATTTGCCGTCAAAGCCCAGCTGTTTGATGTGGGCGGCTTCTTG > NZ_CP009273/645055‑645301
|
cGGAAAGTTCTGCACGGGAGAGCACCAGACGGGCGCGATCGATAACCGGACCGTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTc < 1:385164/139‑1 (MQ=255)
ttCTGCACGGGAGAGCACCAGACGGGCGCGATCGATAACCGGACCGTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCActtct < 1:273945/139‑1 (MQ=255)
gggAGAGCACCAGACGGGCGCGATCGATAACCGGACCGTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTTCTGGGt < 1:375127/139‑1 (MQ=255)
gagaGCACCAGACGGGCGCGATCGATAACCGGACCGTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGGGGGGGCCACCTCTTTTTGGGGCg > 2:629187/1‑139 (MQ=255)
gagaGCACCAGACGGGCGCGATCGATAACCGGACCGTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTTCTGGGTCg > 1:147530/1‑139 (MQ=255)
agagCACCAGACGGGCGCGATCGATAACCGGACCGTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTTCTGGGTCgg < 1:695454/139‑1 (MQ=255)
agagCACCAGACGGGCGCGATCGATAACCGGACCGTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTTCTGGGTCgg < 2:705327/139‑1 (MQ=255)
agagCACCAGACGGGCGCGATCGATAACCGGACCGTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTTCTGGGTCgg < 1:231010/139‑1 (MQ=255)
agCACCAGACGGGCGCGATCGATAACCGGACCGTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGGGGGGGTCACCTCTTTCTTGGTCgggt > 2:695454/1‑137 (MQ=255)
cACCAGACGGGCGCGATCGATAACCGGACCGTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTTCTGGGTCGGTGCg < 1:644593/139‑1 (MQ=255)
ccGGACCGTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTTCTGGGTCGGTGCGTAGAGGTTGTGCAGCAGATCAAt < 1:259559/139‑1 (MQ=255)
cGGACCGTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGGCCACCTCTTTTTGGGGCGGGGCGTAGAGGGTGTGGAGCAGGTCAATc > 2:259559/1‑139 (MQ=255)
ggACCGTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTTCTGGGTCGGTGCGTAGAGGTTGTGCAGCAGATCAATCt < 2:147530/139‑1 (MQ=255)
ggACCGTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGGGGGCCACTTCTTTCTGGGTCGGGGGGTAGAGGGTGTGCAGGAGGTCAATCt > 2:137609/1‑139 (MQ=255)
caccaTCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTTCTGGGTCGGTGCGTAGAGGTTGTGCAGCAGATCAATCTGACGCggg < 1:137609/139‑1 (MQ=255)
tGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTTCTGGGTCGGGGCGTAGAGGGTGTGCAGCAGATCAATCTGACGCGGGTTGATCAg > 1:590716/1‑139 (MQ=255)
tGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGGCCACTTCTTTCTGGGTCGGGGCGTAGAGGTTGTGCAGCAGATCAATCTGACGCGGGTTGATCAg > 1:427118/1‑139 (MQ=255)
ccACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTTCTGGGTCGGTGCGTAGAGGTTGTGCAGCAGATCAATCTGACGCGGGTTGATCAGCGATTTGCCGTCa > 1:735688/1‑137 (MQ=255)
ggCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGGCCCCTTCTTTCTGGGGCGGGGCGTAGAGGGTGTGCAGCAGGTCAATCTGACGCGGGGTGGTCAGCGCTTTGGCGTCCAAGCCCAGCTg > 2:518663/1‑139 (MQ=255)
cgcgAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTTCTGGGGCGGTGCGTAGAGGTTGTGCAGCAGATCAATCTGACGCGGGTTGATCAGCGATTTGCCGTCAAAGCCCAGCTGTTTGAt > 1:282169/1‑139 (MQ=255)
cTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTTCTGGGTCGGTGCGTAGAGGTTGTGCAGCAGATCAATCTGACGCGGGTTGATCAGCGATTTGCCGTCAAAGCCCAGCTGTTTGATGTGGGCGGcttc < 1:697352/139‑1 (MQ=255)
aGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTTCTGGGTCGGTGCGTAGAGGTTGTGCAGCAGATCAATCTGACGCGGGTTGATCAGCGATTTGCCGTCAAAGCCCAGCTGTTTGATGTGGGCGGCTTCTTg < 2:735688/138‑1 (MQ=255)
|
CGGAAAGTTCTGCACGGGAGAGCACCAGACGGGCGCGATCGATAACCGGACCGTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGATCCACTTCTTTCTGGGTCGGTGCGTAGAGGTTGTGCAGCAGATCAATCTGACGCGGGTTGATCAGCGATTTGCCGTCAAAGCCCAGCTGTTTGATGTGGGCGGCTTCTTG > NZ_CP009273/645055‑645301
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GCCGGAAAGTTCTGCACGGGAGAGCACCAGACGGGCGCGATCGATAACCGGACCGTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGATCCACTTCTTTCTGGGTCGGTGCGTAGAGGTTGTGCAGCAGATCAATCTGACGCGGGTTGATCAGCGATTTGCCGTCAAAGCCCAGCTGTTTGATGTGGGCGGCTTCTTGCAGAAATC > NZ_CP009273/645053‑645309
|
gatgtgtataagagacaGGGAGAGCACCAGACGGGCGCGATCGATAACCGGACCGTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTTC < SRR3722133.25394/134‑1 (MQ=60)
CCGGAAAGTTCTGCACGGGAGAGCACCAGACGGGCGCGATCGATAACCGGACCGTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTTCT < SRR3722133.390533/151‑1 (MQ=60)
agtacggtctcgtgggctcggagatgtgtataagagacagTAACCGGACCGTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTTCTGG < SRR3722133.742212/110‑1 (MQ=60)
GTTCTGCACGGGAGAGCACCAGACGGGCGCGATCGATAACCGGACCGTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTTCTGGGGCGG > SRR3722133.149470/1‑151 (MQ=60)
GTTCTGCACGGGAGAGCACCAGACGGGCGCGATCGATAACCGGACCGTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTGCTGGGTCGG < SRR3722133.277706/151‑1 (MQ=60)
CGGGAGAGCACCAGACGGGCGCGATCGATAACCGGACCGTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTTCTGGGTCGGTGCGTAGA < SRR3722133.380370/151‑1 (MQ=60)
GAGAGCACCAGACGGGCGCGATCGATAACCGGACCGTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTTCTGGGTCGGTGCGTAGAGGT < SRR3722133.234156/151‑1 (MQ=60)
GAGAGCACCAGACGGGCGCGATCGATAACCGGACCGTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTTCTGGGTCGGTGCGTAGAGGT < SRR3722133.704470/151‑1 (MQ=60)
GCACCAGACGGGCGCGATCGATAACCGGACCGTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTTCTGGGTCGGTGCGTAGAGGTTGTG < SRR3722133.653015/151‑1 (MQ=60)
ACCGGACCGTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTTCTGGGTCGGTGCGTAGAGGTTGTGCAGCAGATCAATCTGACGCGGGT < SRR3722133.263102/151‑1 (MQ=60)
GTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTTCTGGGTCGGGGCGTAGAGGGTGTGCAGCAGATCAATCTGACGCGGGTTGATCAGC > SRR3722133.598520/1‑151 (MQ=60)
GTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGGCCACTTCTTTCTGGGTCGGGGCGTAGAGGTTGTGCAGCAGATCAATCTGACGCGGGTTGATCAGC > SRR3722133.432980/1‑151 (MQ=60)
CCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTTCTGGGTCGGTGCGTAGAGGTTGTGCAGCAGATCAATCTGACGCGGGTTGATCAGCGA < SRR3722133.139440/151‑1 (MQ=60)
GTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTTCTGGGTCGGTGCGTAGAGGTTGTGCAGCAGATCAATCTGACGCGGGTTGATCAGCGATTTGCCGTCAA > SRR3722133.745201/1‑149 (MQ=60)
GCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTTCTGGGGCGGTGCGTAGAGGTTGTGCAGCAGATCAATCTGACGCGGGTTGATCAGCGATTTGCCGTCAAAGCCCAGCTGTTTGATG > SRR3722133.286019/1‑151 (MQ=60)
GCTTCAGCGGCTTCTACGACGCGGCGGGCGTGGTCCACTTCTTTCTGGGTCGGTGCGTAGAGGTTGTGCAGCAGATCAATCTGACGCGGGTTGATCAGCGATTTGCCGTCAAAGCCCAGCTGTTTGATGTGGGCGGCTTCTTGCAGAAATC < SRR3722133.706384/151‑1 (MQ=60)
|
GCCGGAAAGTTCTGCACGGGAGAGCACCAGACGGGCGCGATCGATAACCGGACCGTCCACCATCTTGCCGTTCAGGGAAACCACGCCGAGGCCTTCGCGAGCGGCGGCTTCAGCGGCTTCTACGACGCGGCGGGCGTGATCCACTTCTTTCTGGGTCGGTGCGTAGAGGTTGTGCAGCAGATCAATCTGACGCGGGTTGATCAGCGATTTGCCGTCAAAGCCCAGCTGTTTGATGTGGGCGGCTTCTTGCAGAAATC > NZ_CP009273/645053‑645309
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
