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 |
|
A13 F87 I0 R1
|
87 |
48.8 |
1893308 |
89.3% |
1690724 |
142.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
1,196,220 |
C→T |
100% |
H366H (CAC→CAT) |
icd → |
isocitrate dehydrogenase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,196,220 | 0 | C | T | 100.0%
| 72.2
/ NA
| 30 | H366H (CAC→CAT) | icd | isocitrate dehydrogenase |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (15/15); total (15/15) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TCGGTATCGCCCCTGGTGCAAACATCGGTGACGAATGCGCCCTGTTTGAAGCCACCCACGGTACTG‑CGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGAT‑GCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGAT > NC_000913/1196081‑1196312
|
tcggtatcgCCCCTGGTGCAAACATCGGTGACGAATGCGCCCTGTTTGAAGCCACCCACGGTACTG‑CGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGAT‑GCTGCGCCATATg > 2:348774/1‑143 (MQ=255)
tcggtatcgCCCCTGGTGCAAACATCGGTGACGAATGCGCCCTGTTTGAAGCCACCCACGGTACTG‑CGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGAT‑GCTGCGCCATATg > 1:740045/1‑143 (MQ=255)
gtatcgCCCCTGGTGCAAACATCGGTGACGAATGCGCCCTGTTTGAAGCCACCCACGGTACTG‑CGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGAT‑GCTGCGGAATATgggg > 1:333758/1‑142 (MQ=255)
atcgCCCCTGGTGCAATCGTCGCTGACGAATGCGCCCTGCTTGAAGCAATCTTCTGTACCG‑CGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGAT‑GCTGCGCCATATGGGTTg < 2:414147/143‑1 (MQ=255)
atcgCCCCTGGTGCAACCATCGGGTACGAATGCGCCCTGTTGGAAGCCACCCACTGTCCTG‑CGCCGAAATATGCCGGTCAGGACAAAGTAAACCCTGCCTCTATTATTCTCTCCGCTGAGATGAT‑GCTGCGCCATATGGGTTg < 2:632568/143‑1 (MQ=255)
cgCCCCTGGTGCAAACATCGGTGACGAATGCGCCCTGTTTGAAGCCACCCACGGTACTG‑CGCCGAAATATGCCTGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGAT‑GCTGCGCCATATGGGTTGGa < 2:597414/143‑1 (MQ=255)
gCAAACATCGGTGACGAATGCGCTCTGTTTGAAGCCACCCTCGGTACTG‑CGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGAT‑GCTGCGCCATATGGGTTGGACTGAAGCGGc < 1:765471/143‑1 (MQ=255)
gCAAACATCGGTGACGAATGCGCCCTGTTTGAAGCCACCCACGGTACTG‑CGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGAT‑GCTGCGCCATATGGGTTGGACTGAAGCGGc > 1:228898/1‑143 (MQ=255)
cAAACATCGGTGACGAATGCGCCCTGCTTGAGGTCACCCAC‑GTTCTGCCCCCGAAATATGCCGGTCAGTACAACGTAAATCCTGGCTCTAGTATTCGCTCCGCTGAGATGAT‑GCTGCGCCATATGGGTTGGACTGAAGCGGCt < 2:151606/143‑1 (MQ=255)
aCAGCGTTGTCGAATGTGCCCTGTTTGAAGCCACCCACGGTACTG‑CGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGAT‑GCTGCGCCATATGGGTTGGACTGAAGCGGCTGAc < 2:233883/143‑1 (MQ=39)
ggTGACCACTGCGCCCTGATTAAAACCACCCACGGTACTA‑CGCCGAAATATGACGGTACGTACAAAGTAAATCCTGGCTCTATTATTCTCTCCGATGAGCTGATAGCAG‑GCCGTATTGGTTAGACTGAAGCGGATGAcgcgat > 2:411558/1‑138 (MQ=255)
gTGCCGAATGCGCCCTGTTTGAAGCCACCCACGGTACTG‑CGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGAT‑GCTGCGCCATATGGGTTGGACTGAAGCGGCTGAcctgatt < 1:341716/143‑7 (MQ=38)
tGCGCCCTGTTTGAAGCCACCCACGGTACTG‑CGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGAT‑GCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAgg > 2:391714/1‑143 (MQ=255)
gcCCTGTTTTAAGCCACCCACGGTACTG‑TGTCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTTTCCGTTGAGATGAT‑GCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTAt < 2:669192/143‑1 (MQ=25)
ttGAAGCCAGCCACGGTACTG‑CGCCGAAATATGCCGGTCAGGACAAAGTAAGTCTTGGCTCTATTATTCTCTCCGCTGAGATGAT‑GCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGgc < 2:161489/143‑1 (MQ=25)
cccgccacGGGACGG‑CGCCGAAATAGGCCGGTCAGGACAGAGTAAAGCCTGGCTCTATTGTTCTCTCCGCTGCGATGAT‑GCTGTCCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATc < 2:620396/139‑1 (MQ=18)
ccacccacGGTACTG‑CGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGAT‑GCTGCGCCCTATGGGTTCGACTGAAGCGGCTGACCTGATTGTCAAAGCTCTGGAAGGCGCAGTc > 2:248249/1‑143 (MQ=25)
cacccacGGTACTG‑CGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGAT‑GCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGAGTGTTACAGGGATGTGCGGCGCCATCa > 2:608342/1‑143 (MQ=25)
cccacGGTACTG‑CGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGAT‑GCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCaat > 1:281407/1‑142 (MQ=255)
cccacGGTACTG‑CGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGAT‑GCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCaat > 1:510966/1‑142 (MQ=25)
cacGGTACTG‑CGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGAT‑GCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAAtgc < 2:680079/143‑1 (MQ=25)
g‑cgcCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGAT‑GCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGt > 2:447845/1‑143 (MQ=18)
cgcCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGAT‑GCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTa > 2:486870/1‑143 (MQ=18)
gtcggaaTGTGCCGGTCGGGAGAAAGTAAATGCTGGCTCTATTGTTCTCTCCGCTGGGATGAT‑GCTGCGCCATATGTGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTaa < 2:607465/138‑1 (MQ=14)
gcCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGAT‑GCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTaa < 2:740045/143‑1 (MQ=18)
cGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGAT‑GCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCCATCAATGCCAAGACCGTAAct > 1:550378/1‑142 (MQ=18)
aaTATGCCTGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGAT‑GCTGCGCCATATGGGGTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTAt < 1:662734/143‑1 (MQ=17)
gTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGAT‑GCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGACTTCGaa < 2:772900/143‑2 (MQ=14)
gACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGAT‑GCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGACGGCGCAATCAATGCCAAGACCGTAACTTATGACTTCGAACGTCt > 1:585599/1‑143 (MQ=14)
aaaGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGAT‑GCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTACCTTATGCCTCCGACCGTCCgat > 2:844388/1‑143 (MQ=14)
|
TCGGTATCGCCCCTGGTGCAAACATCGGTGACGAATGCGCCCTGTTTGAAGCCACCCACGGTACTG‑CGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGAT‑GCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGAT > NC_000913/1196081‑1196312
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
