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 |
|
A17 F57 I0 R1
|
30 |
26.7 |
570066 |
96.5% |
550113 |
140.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP000730 |
1,744,454 |
C→T |
100% |
G73D (GGC→GAC) |
apt ← |
adenine phosphoribosyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP000730 | 1,744,454 | 0 | C | T | 95.8%
| 63.7
/ ‑3.4
| 24 | G73D (GGC→GAC) | apt | adenine phosphoribosyltransferase |
| Reads supporting (aligned to +/- strand): ref base C (0/1); new base T (12/11); total (12/12) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.92e-01 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
ATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCTGTTGCATAGCCATATGCTTC > CP000730/1744318‑1744581
|
atcTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTGTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAAt < 2:144557/141‑1 (MQ=255)
gTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTCGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATcccc > 1:68983/1‑141 (MQ=255)
cacacGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTACCAGGGGCAAAGTCAATCCCCCTTGAATa > 1:225878/1‑141 (MQ=255)
ttGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGAACAGCCAATGa > 1:107125/1‑141 (MQ=255)
tGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGAt < 1:242669/141‑1 (MQ=255)
aTCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATaaa > 1:138983/1‑141 (MQ=255)
aTCTTTGTGCATTGTTAAAACAGTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATaaa < 1:162678/141‑1 (MQ=255)
tCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAg > 1:43674/1‑141 (MQ=255)
gggCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGTGTCATTTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCAcg < 1:279347/139‑1 (MQ=255)
gccttGCTAGAACACTTTTCCCATATTTTAGGTCTTTCTCAGCACGCAGTTTTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCAcgcg < 1:250355/138‑1 (MQ=255)
cATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACgcgc < 1:160260/141‑1 (MQ=255)
gTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCa > 1:117390/1‑141 (MQ=255)
aaaaCATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTAGCATAGTTATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGt < 1:8182/141‑1 (MQ=255)
aaCATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGTTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTcc < 1:122397/141‑1 (MQ=255)
gttCATACTCATAACGGATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACAtctc < 2:108220/139‑1 (MQ=255)
tCATACTCATAACGAATGACTTAACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAACGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTg < 2:65322/141‑1 (MQ=255)
aTGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCt < 1:175025/141‑1 (MQ=255)
aCTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACa > 2:141444/1‑141 (MQ=255)
cTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCCACCTCTATGTCTTTTGCGTCTTCTACaa > 2:260324/1‑141 (MQ=255)
cTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCATGGTGATACTGCTCCTACAACAATATCAACATCTCTGTCTTTTGCGTATTcccgat > 1:78452/1‑136 (MQ=255)
tCACGAGGTAATTTCCCTTCTTTTCTTACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTATCTTTTGCCTATTCTCAAAtt > 1:238799/1‑141 (MQ=255)
acACGAGGTAATTTCCCTTCTTTTCTAACTGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACGTCTCTGTCTTTTGCGTATTCTACAAtt > 2:48132/2‑141 (MQ=255)
aaaCAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAACGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCTGTTGCATAGCCATATGCtt < 2:107125/140‑1 (MQ=255)
aaCAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGTTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTCTCTGTTGCATCGACATATGCTTc > 2:223305/1‑141 (MQ=255)
|
ATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCTGTTGCATAGCCATATGCTTC > CP000730/1744318‑1744581
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
