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 |
|
A1 F1 I2 R1
|
524 |
31.4 |
1748232 |
97.8% |
1709770 |
80.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,199,503 |
(A)5→4 |
coding (809/894 nt) |
lit → |
e14 prophage; cell death peptidase Lit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,199,499 | 0 | A | . | 100.0%
| 64.9
/ NA
| 15 | coding (805/894 nt) | lit | e14 prophage; cell death peptidase Lit |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (7/8); total (7/8) |
TATTTCATGCTACCCTGTCGGAAATGAAGAGTTGATTGAAGCTCTATGTACAGTGATGCTTCAATATCTTTTCCATGGCAAAAATATCAATGTGAATCTAGATGGGGAGTCCTTTTCATCGATTTTAGGTGATCTTCTCTGTGATATTTCA > NC_000913/1199420‑1199570
|
tatTTCATGCTACCCTGTCGGAAATGAAGAGTTGATTGAAGCTCTATGTACAGTGATGCTTCAATATCTTTTCCATGGCa > 2:217524/1‑80 (MQ=255)
aTGCTACCCTGTCGGAAATGAAGAGTTGATTGAAGCTCTATGTACAGTGATGCTTCAATATCTTTTCCATGGCaaaatat > 1:217541/1‑77 (MQ=255)
aTGCTACCCTGTCGGAAATGAAGAGTTGATTGAAGCTCTATGTACAGTGATGCTTCAATATCTTTTCCATGGCaaaatat < 2:217511/80‑4 (MQ=255)
tGCTACCCTGTCGGAAATGAAGAGTTGATTGAAGCTCTATGTACAGTGATGCTTCAATATCTTTTCCATGGCaaaatatc > 1:217531/1‑76 (MQ=255)
cTGTCGGAAATGAAGAGTTGATTGAAGCTCTATGTACAGTGATGCTTCAATATCTTTTCCATGGC‑AAAATATCAATGTGaa < 2:217512/81‑1 (MQ=255)
gTCGGAAATGAAGAGTTGATTGAAGCTCTATGTACAGTGATGCTTCAATATCTTTTCCATGGC‑AAAATATCAATGTGAATc > 1:217529/1‑81 (MQ=255)
tCGGAAATGAAGAGTTGATTGAAGCTCTATGTACAGTGATGCTTCAATATCTTTTCCATGGC‑AAAATATCAATGTGAATCt < 2:217513/81‑1 (MQ=255)
gAAATGAAGAGTTGATTGAAGCTCTATGTACAGTGATGCTTCAATATCTTTTCCATGGC‑AAAATATCAATGTGAATCTAGa < 1:706936/81‑1 (MQ=255)
aaGAGTTGATTGAAGCTCTATGTACAGTGATGCTTCAATATCTTTTCCATGGC‑AAAATATCAATGTGAATCTAGATGGGGa < 1:217514/81‑1 (MQ=255)
gagTTGATTGAAGCTCTATGTACAGTGATGCTTCAATATCTTTTCCATGGC‑AAAATATCAATGTGAATCTAGATGGGGAGt < 2:217515/81‑1 (MQ=255)
agTTGATTGAAGCTCTATGTACAGTGATGCTTCAATATCTTTTCCATGGC‑AAAATATCAATGTGAATCTAGATGGGGAGTc < 1:217516/81‑1 (MQ=255)
gTTGATTGAAGCTCTATGTACAGTGATGCTTCAATATCTTTTCCATGGC‑AAAATATCAATGTGAATCTAGATGGGGAGTcc > 1:217535/1‑81 (MQ=255)
tGTACAGTGATGCTTCAATATCTTTTCCATGGC‑AAAATATCAATGTGAATCTAGATGGGGAGTCCTTTTCATCGATTTTAg > 1:217533/1‑81 (MQ=255)
cAGTGATGCTTCAATATCTTTTCCATGGC‑AAAATATCAATGTGAATCTAGATGGGGAGTCCTTTTCATCGATTTTAGGTg < 2:217517/80‑1 (MQ=255)
aGTGATGCTTCAATATCTTTTCCATGGC‑AAAATATCAATGTGAATCTAGATGGGGAGTCCTTTTCATCGATTTTAGGTGAt > 1:217537/1‑81 (MQ=255)
aaTATCTTTTCCATGGC‑AAAATATCAATGTGAATCTAGATGGGGAGTCCTTTTCATCGATTTTAGGTGATCTTCTCtgtg < 1:217518/80‑1 (MQ=255)
aaTATCTTTTCCATGGC‑AAAATATCAATGTGAATCTAGATGGGGAGTCCTTTTCATCGATTTTAGGTGATCTTCTCTGTGa > 2:217540/1‑81 (MQ=255)
tatCTTTTCCATGGC‑AAAATATCAATGTGAATCTAGATGGGGAGTCCTTTTCATCGATTTTAGGTGATCTTCTCTGTGata > 2:217534/1‑81 (MQ=255)
tttCCATGGC‑AAAATATCAATGTGAATCTAGATGGGGAGTCCTTTTCATCGATTTTAGGTGATCTTCTCTGTGATATTTCa > 2:217532/1‑81 (MQ=255)
|
TATTTCATGCTACCCTGTCGGAAATGAAGAGTTGATTGAAGCTCTATGTACAGTGATGCTTCAATATCTTTTCCATGGCAAAAATATCAATGTGAATCTAGATGGGGAGTCCTTTTCATCGATTTTAGGTGATCTTCTCTGTGATATTTCA > NC_000913/1199420‑1199570
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
