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 |
|
A5 F20 I0 R1
|
33 |
26.4 |
1163560 |
84.9% |
987862 |
142.8 |
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%
| 36.8
/ ‑6.7
| 19 | H366H (CAC→CAT) | icd | isocitrate dehydrogenase |
| Reads supporting (aligned to +/- strand): ref base C (1/0); major base T (8/8); minor base G (0/1); total (9/10) |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CGGTATCGCCCCTGGTGCAAACATCGGTGACGAATGCGCCCTGTTTGAAGCCACCCACGGTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGA > NC_000913/1196082‑1196311
|
cggtatcgCCCCTGGTGCAAACATCGGTGACGAATGCGCCCTGTTTGAAGCCACCCACGGTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCACGTGAGATGATGCTGCGCCATATgg > 1:477368/1‑143 (MQ=255)
tcgCCTCTGGTGCAAACGTCGGTGACGAAGGCGTCCGGTTTGCAGACACCCTCGGTACTGCGCAGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTgg < 2:465571/143‑1 (MQ=255)
tcgCCCCTGGTGCAAACATCGGCGACGAATGCGCCCTGTTTGAAGCCACCCACGGGACTGCGCCAACATATGCCGGTCAGGACAAAGTAAATCCTGCACCTATTATTCTCCCCCCTCACATGATACCGAGCCACACGGGtcga > 2:235987/1‑140 (MQ=255)
cgaccgtGGTGCAATCATCTGTGACGAATGCGACCTGTTTGAAGTCAACCACGGTACTGGGACGAAATAGGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGa < 1:364403/137‑1 (MQ=255)
tGCAAACATCGGTGACGAATGCGCCCTGTTTGAAGCCACCCACGGTACTGCGCTGATATTTGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATCCTCGCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCgg < 1:417196/143‑1 (MQ=255)
gCAAACATCGGTGACGAATGCGCCCTGTTTGAAGCTACCCACGGTACTGCGCCGAAATATGACGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGc < 1:439554/143‑1 (MQ=255)
aTCGGTGACGACCGCGCCCTGCTTGACGCCTCCCACGGTTCTGCGCTTAAATATGCCGGTCAGTACATACTAGATCCTGGCTTTATTATTCTCTCCGCTGAGATGATGCCGCGCCAATTTGCGTGGTTTGAAGCGGCTGAcct < 2:278595/143‑3 (MQ=255)
gTGACGAATGCGCCCTGTTTGAAGCCACCCACGGTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTATATCAAATGAGATAATACTGCGCCATATGGAATGGACTGAAGCGGCTGACCTGAtt > 1:4549/1‑143 (MQ=37)
gTGACGAATGCGCCCTGTTTGAAGCCACCCACGGTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAAACCTGGCTCTATTATTCGCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGAcctgatt < 1:500537/143‑7 (MQ=38)
gACGAACGCGCCCTGTTGGAAGCCACCCACGGTACTGCGCCGAAAGATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTAGTCGCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGt < 1:371937/143‑1 (MQ=37)
gcCCTGTTTGAAGCCACCCACGGTACTGCGCCGAAATATGCCGGTCAGTACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTAt < 1:295938/143‑1 (MQ=37)
aaGCCACCCACGGTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGTCTCTATTATTCTCTCCTCTGAGATGATTCTGCGCCATATGGGTGGGACTGAAACGCCTCACCTGATTGTAAAAGGAATGCAAGGCGCa > 1:167499/1‑143 (MQ=255)
cacacTGTACTCCGCCGAAATTTGCCGGTCAGGACAAAGTAACTCCTGGCTCTATTATTCTCGCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCaat < 2:249990/141‑2 (MQ=21)
cGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCCAACAATGCCAAGACCGTAAct > 2:556030/1‑142 (MQ=18)
aaaTATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTTTCCTCTGAGATGATGCTGCGCCAGATGGGATGGACGGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTa < 1:64429/143‑1 (MQ=17)
tGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGTGGCTAACCTGATTGATAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGACt > 1:280524/1‑143 (MQ=17)
gTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGAATTCGaa > 2:413165/1‑142 (MQ=14)
tCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGCTGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGGATGGAAGGCGCAATCCATGCCAAGACCGTAACTTATGACTTccaac > 2:444172/1‑139 (MQ=14)
cAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTCTGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGACTTCAAACGTCTga > 1:536987/1‑143 (MQ=14)
|
CGGTATCGCCCCTGGTGCAAACATCGGTGACGAATGCGCCCTGTTTGAAGCCACCCACGGTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGA > NC_000913/1196082‑1196311
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
