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 |
|
A3 F75 I1 R1
|
13 |
22.6 |
534182 |
93.9% |
501596 |
139.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
USA300TCH1516_ALE |
1,514,749 |
C→T |
A351T (GCA→ACA) |
rlmL ← |
Ribosomal RNA large subunit methyltransferase L |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | USA300TCH1516_ALE | 1,514,749 | 0 | C | T | 100.0%
| 61.4
/ NA
| 23 | A351T (GCA→ACA) | rlmL | Ribosomal RNA large subunit methyltransferase L |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (15/8); total (15/8) |
ACTTAATTATTACTAATTTTAGTCACGCATTAGAAACACTTTAGTTTTCAATAGTTTTACGTTCTGTCTTTTTACCCCAGTATTGATAATAAGTACATTCTATATATCCATTAAATAACTTACGTCGCTTTGTTGCTTTACGATCTACTAAATATTCAAATTCTTTATTACTTGTTAAAATGTATGTAGATAAAAATGGATGTTGTTTCATTAGTTTACCAATATAACGGTACATTTCTTCAACTTCTTCACGATCACCAATACGTT > USA300TCH1516_ALE/1514614‑1514880
|
aCTTAATTATTACTAATTTTAGTCACGCATTAGAAACACTTTAGTTTTCAATAGTTTTACGTTCTGTCTTTTTACCCCAGTATTGATAATAAGTACATTCTATATATCCATTAAATAACTTACGTCGCTTTGTTGTTTTa > 1:175163/1‑140 (MQ=255)
aaTTATTACTAATTGTAGTCACGCATTAGAAACACTTTAGTTTTCAATAGTTTTACGTTCTGTCTTTTTACCCCAGTATTGATAATAAGTACATTCTATATATCCATTAAATAACTTACGTCGCTTTGTTGTTTTACGAt < 2:172680/140‑1 (MQ=255)
aCTAATTTTAGTCACGCATTAGAAACACTTTAGTTTTCAATAGTTTTACGTTCTGTCTTTTTACCCCAGTATTGATAATAAGTACATTCTATATATTCATTAAATAACTTACGTCGCTTTTTTTTTTTACGATCTACTaa > 2:113564/1‑140 (MQ=255)
aTTTTAGTCACGCATTAGAAACACTTTAGTTTTCAATAGTTTTACGTTCTGTCTTTTTACCCCAGTATTGATAATAAGTACATTCTATATATCCATTAAATAACTTACGTCGCTTTGTTGTTTTACGATCTACTAAatat > 1:23962/1‑140 (MQ=255)
ttttAGTCACGCATTAGAAACACTTTAGTTTTCAATAGTTTTACGTTCTGTCTTTTTACCCCAGTATTGATAATAAGTACATTCTATATATCCATTAAATAACTTACGTCGCTTTGTTGTTTTACGATCTACTAAATAtt < 1:145460/140‑1 (MQ=255)
taatCACGCATTAGAAACACTTTATTTTTTAATAGTTTTACGTTATGTCTTTTTACCCCAGTATTGATAATAAGTACATTCTATATATCCATTAAATAACTTACGTCGCTTTGTTGTTTTACGATCTACTAAATATTCaa < 1:7011/137‑1 (MQ=255)
aCGCATTAGAAACACTTTAGTTTTCAATAGTTTTACGTTCTGTCTTTTTACCCCAGTATTGATAATAAGTACATTCTATATATCCATTAAATAACTTACGTCGCTTTGTTGTTTTACGATCTACTAAATATTCAAATTCt > 2:88330/1‑140 (MQ=255)
gTTTTCAATAGTTTTACGTTCTGTCTTTTTACCCCAGTATTGATAATAAGTACATTCTATATATCCATTAAATAACTTACGTCGCTTTGTTGTTTTACGATCTACTAAATATTCAAATTCTTTATTACTTTTTAAAatgt > 1:217587/1‑140 (MQ=255)
tttCAATAGTTTTACGTTCTGTCTTTTTACCCCAGTATTGATAATAAGTACATTCTATATATCCATTAAATAACTTACGTCGCTTTGTTGTTTTACGATCTACTAAATATTAAAATTCTTTATTACTTGTTAAAatgtat > 1:84300/1‑140 (MQ=255)
gTTTTACGTTCTGTCTTTTTTTTTTTTTTTTGATATTAAGTACATTCTATATATTCATTAAATAATTTAGGTTTCTTTGTTTTTTTACTTTCTACTATATTTTCATATTTTTTTTTTTTTTTTATTATTTATGTatatta > 2:36216/1‑138 (MQ=255)
cTGTCTTTTTACCCCAGTATTGATAATAAGTACATTCTATATATCCATTAAATAACTTACGTCGCTTTGTTGTTTTACGATCTACTAAATATTCAAATTCTTTATTACTTGTTAAAATGTATGTAGATAAAAATGGAtgt < 1:81569/140‑1 (MQ=255)
tttACCCCAGTATTGATAATAAGTACATTCTATATATCCATTAAATAACTTACGTCGCTTTGTTGTTTTACGATCTACTAAATATTCAAATTCTTTATTACTTGTTAAAATGTATGTAGATAAAAATGGATGTTGTTTCa < 2:130285/140‑1 (MQ=255)
taaGTACATTCTATATATCCATTAAATAACTTACGTCGCTTTGTTGTTTTACGATCTACTAAATATTCAAATTCTTTATTACTTGTTAAAATGTATGTAGATAAAAATGGATGTTGTTTCATTAGTTTACCAATATAACg > 1:139287/1‑140 (MQ=255)
cATTCTATATATCCATTAAATAACTTACGTCGCTTTGTTGTTTTACGATCTACTAAATATTCAAATTCTTTATTACTTGTTAAAATGTATGTAGATAAAAATGGATGTTGTTTCATTAGTTTACCAATATAACGGTACAt > 1:34393/1‑140 (MQ=255)
atatatCCATTAAATAACTTACGTCGCTTTGTTTTTTTACGTTTTACTATATATTCAATTTTTTTTTTACTTGTTTAAATGTATGTAGATAAAATTGGATGTTGTTTCATTAGTTTTTTATTATAACGGTCCATttcttt > 2:64292/1‑139 (MQ=255)
atatatCCATTAAATAACTTACGTCGCTTTGTTGTTTTACGATCTACTAAATATTCAAATTCTTTATTACTTGTTAAAATGTATGTAGATAAAAATGGATGTTGTTTCATTAGTTTACCAATATAACGGTACATttcttc > 1:61628/1‑140 (MQ=255)
atatatCCATTAAATAACTTACGTCGCTTTGTTGTTTTACGATCTACTAAATATTCAAATTCTTTATTACTTGTTAAAATGTATGTAGATAAAAATGGATGTTGTTTCATTAGTTTACCAATATAACGGTACATttcttc > 2:151149/1‑140 (MQ=255)
tatatCCATTAAATAACTTACGTCGCTTTGTTGTTTTACGATCCACTAAATATTCAAATTCTTTATTACTTGTTAAAATGTATGTAGATAAAAATGGATGTTGTTTCATTAGTTTACCAATATAACGGTACATTTCTTCa < 1:128539/140‑1 (MQ=255)
ttACGTCGCTTTGTTGTTTTACGATCTACTAAATATTCAAATTCTTTATTACTTGTTAAAATGTATGTAGATAAAAATGGATGTTGTTTCATTAGTTTACCAATATAACGGTACATTTCTTCAACTTCTTCACGATCAcc > 1:69022/1‑140 (MQ=255)
aCGTCGCTTTGTTGTTTTACGATCTACTAAATATTCAAATTCTTTATTACTTGTTAAAATGTATGTAGATAAAAATGGATGTTGTTTCATTAGTTTACCAATATAACGGTACATTTCTTCAACTTCTTCCCGATCACCaa > 1:173736/1‑140 (MQ=255)
aCGGCGCTATGTTGTTTTACGGGCTACTAAATAGTCAGATTCTGTATTATTTGTTAAAATGTATGTAGATAAAACTGGATGTTGTTTCGTTAGTTTACCAATATAACGGTACATTTCTTCAACTTCTTCACGATCACCaa < 2:232747/140‑1 (MQ=255)
cGTCGCTTTGTTGTTTTACGATCTACTAAATATTCAAATTCTTTATTACTTGTTAAAATGTATGTAGATAAAAATGGATGTTGTTTCATTAGTTTACCAATATAACGGTACATTTCTTCAACTTCTTCACGATCACCAAt < 2:126168/140‑1 (MQ=255)
cTTTGTTGTTTTACGATCTACTAAATATTCAAATTCTTTATTACTTGTTAAAATGTATGTAGATAAAAATGGATGTTGTTTCATTAGTTTACCAATATAACGGTACATTTCTTCAACTTCTTCACGATCACCAATACGtt > 1:178800/1‑140 (MQ=255)
|
ACTTAATTATTACTAATTTTAGTCACGCATTAGAAACACTTTAGTTTTCAATAGTTTTACGTTCTGTCTTTTTACCCCAGTATTGATAATAAGTACATTCTATATATCCATTAAATAACTTACGTCGCTTTGTTGCTTTACGATCTACTAAATATTCAAATTCTTTATTACTTGTTAAAATGTATGTAGATAAAAATGGATGTTGTTTCATTAGTTTACCAATATAACGGTACATTTCTTCAACTTCTTCACGATCACCAATACGTT > USA300TCH1516_ALE/1514614‑1514880
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
