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 |
|
A14 F1 I1 R1
|
71 |
51.6 |
2219666 |
95.9% |
2128659 |
118.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,214,968 |
(T)6→7 |
coding (506/507 nt) |
mug ← |
G/U mismatch‑specific DNA glycosylase, xanthine DNA glycosylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,214,962 | 1 | . | T | 95.8%
| 77.3
/ ‑3.2
| 24 | intergenic (+74/+5) | rpoD/mug | RNA polymerase, sigma 70 (sigma D) factor/G/U mismatch‑specific DNA glycosylase, xanthine DNA glycosylase |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base T (11/12); total (11/13) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01 |
ACTGCGTCACCCGAGCCGTTCTGAAGTGCTGCGTAGCTTCCTGGACGATTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACGCCACCTTTTCGGTGGCG‑TT‑TTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACGCTTCAACCAGTTTCTCCAGTGAAACGCGACTTAAACCGCTGGGATTTGGCAGCACCCAAATCTGCGTCGAACCAATGGTGA > NC_000913/3214837‑3215091
|
aCTGCGTCACCCGAGCCGTTCTGAAGTGCTGCGTAGCTTCCTGGACGATTACTCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTTGGCCCTCTGCACAAACGCCACCTTTTCGGTGGCGTTT‑TTTTATCGcc < 2:706085/139‑1 (MQ=255)
aCTGCGTCACCCGAGCCGTTCTGAAGTGCTGCGTAGCTTCCTGGACGATTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACGCCACCTTTTCGGTGGCGTTT‑TTTTATCGcc < 1:177351/139‑1 (MQ=255)
aCTGCGTCACCCGAGCCGTTCTGAAGTGCTGCGTAGCTTCCTGGACGATTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACGCCACCTTTTCGGTGGCGTTT‑TTTTATCGcc < 1:949917/139‑1 (MQ=255)
tGCGTCACCCGAGCCGTTCTGAAGTGCTGCGTAGCTTCCTGGACGATTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACGCCACCTTTTCGGTGGCGTTT‑TTTTATCGCCCa < 1:1028900/139‑1 (MQ=255)
gAGCCGTTCTGAAGTGCTGCGTAGCTTCCTGGACGATTAATCGGTAGGTCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACGCCACCTTTTCGGTGGCGTTT‑TTTTATCGCCCACGCACTACCa < 1:412592/139‑1 (MQ=255)
gAGCCGTTCTGAAGTGCTGCGTAGCTTCCTGGACGATTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACGCCACCTTTTCGGTGGCGTTT‑TTTTATCGCCCACGCACTACCa > 2:677384/1‑139 (MQ=255)
cGTAGCTTCCTGGACGATTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACGCCACCTTTTCGGTGGCGTTT‑TTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTcgcg > 1:452913/1‑139 (MQ=255)
gCTTCCTGGACGATTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACGCCACCTTTTCGGTGGCGTTT‑TTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATAc < 1:103644/139‑1 (MQ=255)
gACGATTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACGCCACCTTTTCGGTGGCGTTT‑TTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACGCTTCAAc > 2:701491/1‑139 (MQ=255)
gATTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACGCCACCTTTTCGGTGGCGTTT‑TTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACGCTTCAACCAg > 1:1026802/1‑139 (MQ=255)
gCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACGCCACCTTTTCGGTGGCGTTT‑TTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACGCTTCAACCAGTTTCTCCAGTGAAACGCGACTTa > 2:394124/1‑139 (MQ=255)
tACGCCGCACCCGGCACTAGGCCCTCTGCACAAACGCCACCTTTTCGGTGGCGTTT‑TTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACGCTTCAACCAGt < 2:132794/113‑1 (MQ=255)
tACGCCGCACCCGGCACTAGGCCCTCTGCACAAACGCCACCTTTTCGGTGGCGTTT‑TTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACGCTTCAACCAGt > 1:132794/1‑113 (MQ=255)
cgccgcACCCGGCACTAGGCCCTCTGCACAAACGCCACCTTTTCGGTGGCGTTT‑TTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACGCTTCAACCAGTTTCTCCAGTGAAACGCGACTTAAACCGc < 2:127244/139‑1 (MQ=255)
cgccgcACCCGGCACTAGGCCCTCTGCACAAACGCCACCTTTTCGGTGGCGTTT‑TTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACGCTTCAACCAGTTTCTCCAGTGAAACGCGACTTAAACCGc < 2:452913/139‑1 (MQ=255)
cgccgcACCCGGCACTAGGCCCTCTGCACAAACGCCACCTTTTCGGTGGCGTTT‑TTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACGCTTCAACCAGTTTCTCCAGTGAAACGCGACTTAAACCGc < 1:251143/139‑1 (MQ=255)
cACCCGGCACTAGGCCCTCTGCACAAACGCCACCTTTTCGGTGGCGTTT‑TTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACGCTTCAACCAGTTTCTCCAGTGAAACGCGACTTAAACCGCTGGGa > 2:17767/1‑139 (MQ=255)
aCCCGGCACTAGGCCCTCTGCACAAACGCCACCTTTTCGGTGGCGTTT‑TTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACGCTTCAACCAGTTTCTCCAGTGAAACGCGACTTAAACCGCTGGGAt < 2:1055068/139‑1 (MQ=255)
ggCACTAGGCCCTCTGCACAAACGCCACCTTTTCGGTGGCGTTT‑TTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACGCTTCAACCAGTTTCTCCAGTGAAACGCGACTTAAACCGCTGGGATTTgg > 2:643006/1‑139 (MQ=255)
caATCGCCACCTTTTCGGTGGCG‑TTATTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACGCTTCAACCAGTTTCTCCAGTGAAACGCGACTTAAACCGCTGGGATTTGGCAGCACCCAAATCTGCGt < 2:717234/139‑1 (MQ=255)
cGCCACCTTTTCGGTGGCGTTT‑TTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACGCTTCAACCAGTTTCTCCAGTGAAACGCGACTTAAACCGCTGGGATTTGGCAGCACCCAAATCTGCGTCGaa < 2:334108/139‑1 (MQ=255)
cGCCACCTTTTCGGTGGCGTTT‑TTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACGCTTCAACCAGTTTCTCCAGTGAAACGCGACTTAAACCGCTGGGATTTGGCAGCACCCAAATCTGCGTCGaa > 2:1023265/1‑139 (MQ=255)
ccACCTTTTCGGTGGCGTTT‑TTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACGCTTCAACCAGTTTCTCCAGTGAAACGCGACTTAAACCGCTGGGATTTGGCAGCACCCAAATCTGCGTCGAAcc > 2:199104/1‑139 (MQ=255)
tCGGTGGCGTTT‑TTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACGCTTCAACCAGTTTCTCCAGTGAAACGCGACTTAAACCGCTGGGATTTGGCAGCACCCAAATCTGCGTCGAACCAATGGTGa > 2:566191/1‑139 (MQ=255)
|
ACTGCGTCACCCGAGCCGTTCTGAAGTGCTGCGTAGCTTCCTGGACGATTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACGCCACCTTTTCGGTGGCG‑TT‑TTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACGCTTCAACCAGTTTCTCCAGTGAAACGCGACTTAAACCGCTGGGATTTGGCAGCACCCAAATCTGCGTCGAACCAATGGTGA > NC_000913/3214837‑3215091
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
