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 |
|
A15 F177 I0 R1
|
51 |
26.9 |
575130 |
96.6% |
555575 |
140.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP000730 |
1,064,126 |
G→C |
100% |
Y121* (TAC→TAG) |
USA300HOU_1000 ← |
LytR family transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP000730 | 1,064,126 | 0 | G | C | 100.0%
| 68.1
/ NA
| 21 | Y121* (TAC→TAG) | USA300HOU_1000 | LytR family transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base C (11/10); total (11/10) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CCTCGACAAATGCTTTCATATTGACTCTCACATAATAATCAACAGGTACATTCATGGTAGCTTCTACCGAATCCATTGCGGCAATTGGACCACCATATGCATGTGCATGGGTAATCTTATCGTAATAGCCAACTTTAGGAATGTAGCTGATAGTATCACGTGGAATACTAAGCATTCTAATTTGATGTTTTGATTGATTAAAAGTAGTTAAAATCATAGCGTCTGATCTAGAGTGTTCAGCATCCTGTC > CP000730/1064005‑1064253
|
ccTCGACAAATGCTTTCATATTGACTCTCACATAATAATCAACAGGTACATTCATGGTAGCTTCTACCGAATCCATTGCGGCAATTGGACCACCATATGCATGTGCATGGGTAATCTTATCCTAATAGCCAACTTTAGGaa < 2:256032/141‑1 (MQ=255)
cGACAAATGCTTTCATATTGACTCTCACATAATAATCAACAGGTACATTCATGGTAGCTTCTACCGAATCCATTGCGGCAATTGGACTACCATATGCATGTGCATGGGTAATCTTATCCTAATAGCCAACTTTAGGAATGt < 2:87535/141‑1 (MQ=255)
aCAAATGCTTTCATATTGACTCTCACATAATAATCAACAGGTACATTCATGGTAGCTTCTACCGAATCCATTGCGGCAATTGGACCACCATATGCATGTGCATGGGTAATCTTATCCTAATAGCCAACTTTAGGAATGTAg > 2:7630/1‑141 (MQ=255)
aCAAATGCTTTCATATTGACTCTCACATAATAATCAACAGGTACATTCATGGTAGCTTCTACCGAATCCATTGCGGCAATTGGACCACCATATGCATGTGCATGGGTAATCTTATCCTAATAGCCAACTTTAGGAATGTAg > 2:178722/1‑141 (MQ=255)
tGCTTTCATATTGACTCTCACATAATAATCAACAGGTACATTCATGGTAGCTTCTACCGAATCCATTGCGGCAATTGGACCACCATATGCATGTGCATGGGTAATCTTATCCTAATAGCCAACTTTAGGAATGTAGCTGAt > 1:187681/1‑141 (MQ=255)
cATATTGACTCTCACATAATAATCAACAGGTACATTCATGGTAGCTTCTACCGAATCCATTGCGGCAATTGGACCACCATATGCATGTGCATGGGTAATCTTATCCTAATAGCCAACTTTAGGAATGTAGCTGATAGTATc > 1:282073/1‑141 (MQ=255)
tatCGACTCTCACATAATAAGCAACAGGTACATTCATGGTAGCTTCTACCGAATCCATTGCGGCAATTGGACCACCATATGCATGTGCATGGGTAATCTTATCCTAATAGCCAACTTTAGGAATGTAGCTGATAGTATCAc < 1:40432/141‑1 (MQ=255)
acaTAATAATCAACAGGTACATTCATGGTAGCTTCTACCGAATCCATTGCGGCAATTGGACCACCATATGCATGTGCATGGGTAATCTTATCCTACTAGCCAACTTTAGGAATGTAGCTGATAGTATCACGTGGAATACTa > 1:62956/1‑141 (MQ=255)
gTACATTCATGGTAGCTTCTACCGAATCCATTGCGGCAATTGGACCACCATATGCATGTGCATGGGTAATCTTATCCTAATAGCCAACTTTAGGAATGTAGCTGATAGTATCACGTGGAATACTAAGCATTCTAATTTGAt < 1:192917/141‑1 (MQ=255)
ctGGTAGCTTCTATCGAATCCATTGCGGCCATTGGACCACCATATGCATGTGCATGGGTTATCTTATCCTAATAGCCAACTTTAGGAATGTAGCTGATAGTATCACGTGGAATACTAAGCATTCTAATTTGATGTTttgat < 2:285841/140‑1 (MQ=255)
ggTAGCTTCTACCGAATCCATTGCGGCAATTGGACCACCATATGCATGTGCATGGGTAATCTTATCCTAATAGCCAACTTTAGGAATGTAGCTGATAGTATCACGTGGAATACTAAGCATTCTAATTTGATGTTttgattg > 1:120736/1‑141 (MQ=255)
gAATCCATTGCGGCAATTGGACCACCATATGCATGTGCATGGGTAATCTTATCCTAATAGCCAACTTTAGGAATGTAGCTGATAGTATCACGTGGAATACTAAGCATCCTAATTTGATGTTTTGATTGATTAAAAGTAGtt < 2:265420/141‑1 (MQ=255)
ttGCGGCAATTGGACCACCATATGCATGTGCATGGGTAATCTTATCCTAATAGCCAACTTTAGGAATGTAGCTGATAGTATCACGTGGAATACTAAGCATTCTAATTTGATGTTTTGATTGATTAAAAGTAGTTAAAATCa > 1:169120/1‑141 (MQ=255)
accaTATGCATGTGCATGGGTAATCTTATCCTAATAGCGATCTTTAGGAATGTAGCTGATAGTATCACGTGGAATACTAAGCGACCTAATTTTTTGTTTTGATTGATTGAAAGTAGCTAAATTCACAGCGTCTGATCTaga < 2:116459/141‑1 (MQ=255)
tatGCATGTGCATGGGTAATCTTATCCTAATAGCCAACTTTAGGAATGTAGCTGATAGTATCACGTGGAATACTAAGCATTCTAATTTGATGTTTTGATTGATTAAAAGTAGTTAAAATCATAGCGTCTGATcacgaatgc > 2:213045/1‑133 (MQ=255)
atGCATGTGCATGGGTAATCTTATCCTAATAGCCAACTTTAGGAATGTAGCTGATAGTATCACGTGGAATACTAAGCATTCTAATTTGATGTTTTGATTGATTAAAAGTAGTTAAAATCATAGCGTCTGATCTAGAGTGtt > 1:81472/1‑141 (MQ=255)
gtgcatgGGTAATCTTATCCTAATAGCCAACTTTAGGAATGTAGCTGATAGTATCACGTGGAATACTAAGCATTCTAATTTGATGTTTTGATTGATTAAAAGTAGTTAAAATCATAGCGTCTGATCTAGAGTGTTCAGCAt > 1:244193/1‑141 (MQ=255)
catgGGTAATCTTATCCTAATAGCCAACTTTAGGAATGTAGCTGATAGTATCACGTGGAATACTAAGCATTCTAATTTGATGTTTTGATTGATTAAAAGTAGTTAAAATCATAGCGTCTGATCTAGGGTGTTCAGCATCCt > 2:225338/1‑141 (MQ=255)
tgGGTAATCTTATCCTAATAGCCAACTTTATGAATGTAGCTGATAGTATCACGTGGAATACTAAGCATTCTAATTTGATGTTTTGATTGATTAAAAGTAGTTAAAATCATAGCGTCTGATCTACATTGTTCAGCATCCTGt < 1:225003/141‑1 (MQ=255)
tgGGTAATCTTATCCTAATAGCCAACTTTAGGAATGTAGCTGATAGTATCACGTGGAATACTAAGCATTCTAATTTGATGTTTTGATTGATTAAAAGTAGTTAAAATCATAGCGTCTGATCTAGAGTGTTCAGCATCCTGt < 1:166330/141‑1 (MQ=255)
gggTAATCTTATCCTAATAGCCAACTTTAGGAATGTAGCTGATAGTATCACGTGGAATACTAAGCATTCTAATTTGATGTTTTGATTGATTAAAAGTAGTTAAAATCATAGCGTCTGATCTAGAGTGTTCAGCATCCTGTc < 1:152436/141‑1 (MQ=255)
|
CCTCGACAAATGCTTTCATATTGACTCTCACATAATAATCAACAGGTACATTCATGGTAGCTTCTACCGAATCCATTGCGGCAATTGGACCACCATATGCATGTGCATGGGTAATCTTATCGTAATAGCCAACTTTAGGAATGTAGCTGATAGTATCACGTGGAATACTAAGCATTCTAATTTGATGTTTTGATTGATTAAAAGTAGTTAAAATCATAGCGTCTGATCTAGAGTGTTCAGCATCCTGTC > CP000730/1064005‑1064253
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
