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 |
|
A8 F1 I1 R1
|
82 |
28.6 |
1225488 |
97.4% |
1193625 |
116.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,984,452 |
(C)5→4 |
coding (1141/1182 nt) |
yqeF ← |
short chain acyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,984,448 | 0 | C | . | 96.2%
| 101.2
/ ‑2.5
| 26 | coding (1145/1182 nt) | yqeF | short chain acyltransferase |
| Reads supporting (aligned to +/- strand): ref base C (0/0); major base . (13/12); minor base T (0/1); total (13/13) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GGGAGCCCAGAAAATGTATGTCGACTTGCCAGCCATCATTATTCAACAGATTAATGACGGCAGATATTTATCGGTAAGGAGGAAATGCAGAGCTATTCGTCACGTTCAATGGTCAATGCCACACCCTGGCCCCCGCCGATACAAAGCGTTGCCAGTCCTTTGCGGGCATTACGTTTCACCATTTCATGAACCAGAGAAACCAGGATTCGGCAACCGGAAGCGCCTATCGGGTGACCGAGTGCGATCGCGCCACCATTGACA > NC_000913/2984319‑2984579
|
gggAGCCCAGAAAATGTATGTCGACTTGCCAGCCATCATTATTCAACAGATTAATGACGGCAGATATTTATCGGTAAGGAGGAAATGCAGAGCTATTCGTCACGTTCAATGGTCAATGCCACACCCTGG‑CCCCGCCGAt > 1:349191/1‑139 (MQ=255)
gAGCCCAGAAAATGTATGTCGACTTGCCAGCCATCATTATTCAACAGATTAATGACGGCAGATATTTATCGGTAAGGAGGAAATGCAGAGCTATTCGTCACGTTCAATGGTCAATGCCACACCCTGG‑CCCCGCCGATAc < 1:220768/139‑1 (MQ=255)
ccagccaCTATTATTCAACGGATTATTGACGGTAGATATTTATCGGTAAGGAGGAAATGCAGAGCTTTTCGTCACGTTAAATGGTAAATGCCACACCC‑GGTCCCCGCCGATACAAAGCGTTGCCAGTCCTTTGCGGGCa < 1:74315/139‑1 (MQ=255)
cagctaTAATTATTCAACAGATTAAGGAGGGTGAAAATTTTACGGGAAGGAGAAAATGCACAGCTATTCGTCACGTTAAATGTTCAATGCCAAACCCTAG‑CCCCGCCGATACAAAGCGTTGCCAGTCCTTTGCGGGCAt < 1:576277/139‑1 (MQ=255)
cAGATTAATGACGGCAGATATTTATCGGTAAGGAGGAAATGCAGAGCTATTCGTCACGTTCAATGGTCAATGCCACACCCTGG‑CCCCGCCGATACAAAGCGTTGCCAGTCCTTTGCGGGCATTACGTTTCACCATTTCa > 1:427966/1‑139 (MQ=255)
aTTAATGACGGCAGATATTTATCGGTAAGGAGGAAATGCAGAGCTATTCGTCACGTTCAATGGTCAATGCCACACCCTGG‑CCCCGCCGATACAAAGCGTTGCCAGTCCTTTGCGGGCATTACGTTTCACCATTTCATGa > 1:120605/1‑139 (MQ=255)
tGACGGCAGATATTTATCGGTAAGGAGGAAATGCAGAGCTATTCGTCACGTTCAATGGTCAATGCCACACCCTGG‑CCCCGCCGATACAAAGCGTTGCCAGTCCTTTGCGGGCATTACGTTTCACCATTTCATGAACCag > 1:85376/1‑139 (MQ=255)
atatTTATCGGTAAGGAGGAAATGCAGAGCTATTCGTCACGTTCAATGGTCAATGCCACACCCTGG‑CCCCGCCGATACAAAGCGTTGCCAGTCCTTTGCGGGCATTACGTTTCACCATTTCa > 2:508410/1‑122 (MQ=255)
atatTTATCGGTAAGGAGGAAATGCAGAGCTATTCGTCACGTTCAATGGTCAATGCCACACCCTGG‑CCCCGCCGATACAAAGCGTTGCCAGTCCTTTGCGGGCATTACGTTTCACCATTTCa < 1:508410/122‑1 (MQ=255)
aTCGGTAAGGAGGAAATGCAGAGCTATTCGTCACGTTCAATGGTCAATGCCACACCCTGGccccg > 2:211613/1‑64 (MQ=255)
aTCGGTAAGGAGGAAATGCAGAGCTATTCGTCACGTTCAATGGTCAATGCCACACCCTGG‑CCCCGCCGATACAAAGCGTTGCCAGTCCTTTGCGGGCATTACGTTTCACCATTTCATGAACCAGAGAAACCAGGATTCg < 2:255087/139‑1 (MQ=255)
aTCGGTAAGGAGGAAATGCAGAGCTATTCGTCACGTTAAATGGTCAATGCCACACCCTGGccccg < 1:211613/65‑2 (MQ=255)
aggaggAAATGCAGAGCTATTCGTCACTTTCAATGGTCAATGCCACACCCTGG‑CCCCGCCGATACAAAGCGTTGCCAGTCCTTTGCGGGCATTACGTTTCACCATTTCATGAACCaga < 1:106623/118‑1 (MQ=255)
aggaggAAATGCAGAGCTATTCGTCACGTTCAATGGTCAATGCCACACCCTGG‑CCCCGCCGATACAAAGCGTTGCCAGTCCTTTGCGGGCATTACGTTTCACCATTTCATGAACCaga > 2:106623/1‑118 (MQ=255)
ggaAATGCAGAGCTATTCGTCACGTTCAATGGTCAATGCCACACCCTGG‑CCCCGCCGATACAAAGCGTTGCCAGTCCTTTGCGGGCATTACGTTTCACCATTTCATGAACCAGAGAAACCAGGATTCGGCAACCGGAAg < 2:85376/139‑1 (MQ=255)
ggaAATGCAGAGCTATTCGTCACGTTCAATGGTCAATGCCACACCCTGG‑CCCCGCCGATACAAAGCGTTGCCAGTCCTTTGCGGGCATTACGTTTCACCATTTCATGAACCAGAGAAACCAGGATTCGGCAACCGGAAg < 2:119599/139‑1 (MQ=255)
aaTGCAGAGCTATTCGTCACGTTCAATGGTCAAAGCCACACCCTGG‑CCCCGCCGATACAAAGCGTTGCCAGTCCTTTGCGGGCATTACGTTTCACCATTTCATGAACCAGAGAAACCAGGATTCGGCAACCGGAAgcgc > 1:553777/1‑139 (MQ=255)
aTGCAGAGCTATTCGTCACGTTCAATGGTCAATGCCACACCCTGG‑CCCCGCCGATACAAAGCGTTGCCAGTCCTTTGCGGGCATTACGTTTCACCATTTCATGAACCAGAGAAACCAGGATTCGGCAACCGGAAGCGcc > 2:258406/1‑139 (MQ=255)
aTTCGTCACGTTCAATGGTCAATGCCACACCCTGG‑CCCCGCCGATACAAAGCGTTGCCAGTCCTTTGCGGGCATTACGTTTCACCATTTCATGAACCAGAGAAACCAGGATTCGGCAACCGGAAGCGCCTATCGGGTGa < 1:258406/139‑1 (MQ=255)
ttCGTCACGTTCAATGGTCAATGCCACACCCTGG‑CCCCGCCGATACAAAGCGTTGCCAGTCCTTTGCGGGCATTACGTTTCACCATTTCATGAACCAGAGAAACCAGGATTCGGCAACCGGAAGCGCCTATCGGGTGa < 1:72532/138‑1 (MQ=255)
ttCGTCACGTTCAATGGTCAATGCCACACCCTGG‑CCCCGCCGATACAAAGCGTTGCCAGTCCTTTGCGGGCATTACGTTTCACCATTTCATGAACCAGAGAAACCAGGATTCGGCAACCGGAAGCGCCTATCGGGTGa > 2:72532/1‑138 (MQ=255)
ttCGTCACGTTCAATGGTCAATGCCACACCCTGG‑CCCCGCCGATACAAAGCGTTGCCAGTCCTTTGCGGGCATTACGTTTCACCATTTCATGAACCAGAGAAACCAGGATTCGGCAACCGGAAGCGCCTATCGGGTGAc > 1:59412/1‑139 (MQ=255)
ttCGTCACGTTCAATGGTCAATGCCACACCCTGG‑CCCCGCCGATACAAAGCGTTGCCAGTCCTTTGCGGGCATTACGTTTCACCATTTCATGAACCAGAGAAACCAGGATTCGGCAACCGGAAGCGCCTATCGGGTGAc < 2:59412/139‑1 (MQ=255)
cAATGGTCAATGCCACACCCTGG‑CCCCGCCGATACAAAGCGTTGCCAGTCCTTTGCGGGCATTACGTTTCACCATTTCATGAACCAGAGAAACCAGGATTCGGCAACCGGAAGCGCCTATCGGGTGACCGAGTGCGATc > 1:422147/1‑139 (MQ=255)
tgttaaaTGCCCCACCCT‑GACACCGCCGATACAAAGCGTTGCCAGTCCTTTGCGGGCATTACGTTTCACCATTTCATGAACCAGAGAAACCAGGATACGGCAACCGGAAGCGCCTATCGGGTGACCGAGTGCGATcgcg < 1:226258/134‑1 (MQ=255)
tGGTCAATGCCACACCCTGG‑CCCCGCCGATACAAAGCGTTGCCAGTCCTTTGCGGGCATTACGTTTCACCATTTCATGAACCAGAGAAACCAGGATTCGGCAACCGGAAGCGCCTATCGGGTGACCGAGTGCGATcgcg < 2:376397/139‑1 (MQ=255)
cacCCTGG‑CCCCGCCGATACAAAGCGTTGCCAGTCCTTTGCGGGCATTACGTTTCACCATTTCATGAACCAGAGAAACCAGGATTCGGCAACCGGAAGCGCCTATCGGGTGACCGAGTGCGATCGCGCCACcattgaca > 1:440936/1‑139 (MQ=255)
acCCTGG‑CCCCGCCGATACAAAGCGTTGCCAGTCCTTTGCGGGCATTACGTTTCACCATTTCATGAACCAGAGAAACCAGGATTCGGCAACCGGAAg > 1:595472/1‑97 (MQ=255)
acCCTGG‑CCCCGCCGATACAAAGCGTTGCCAGTCCTTTGCGGGCATTACGTTTCACCATTTCATGAACCAGAGAAACCAGGATTCGGCAACCGGAAg < 2:595472/97‑1 (MQ=255)
|
GGGAGCCCAGAAAATGTATGTCGACTTGCCAGCCATCATTATTCAACAGATTAATGACGGCAGATATTTATCGGTAAGGAGGAAATGCAGAGCTATTCGTCACGTTCAATGGTCAATGCCACACCCTGGCCCCCGCCGATACAAAGCGTTGCCAGTCCTTTGCGGGCATTACGTTTCACCATTTCATGAACCAGAGAAACCAGGATTCGGCAACCGGAAGCGCCTATCGGGTGACCGAGTGCGATCGCGCCACCATTGACA > NC_000913/2984319‑2984579
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
