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 |
|
A5 F109 I1 R1
|
31 |
90.0 |
1985866 |
95.2% |
1890544 |
140.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
USA300TCH1516_ALE |
37,591 |
A→T |
intergenic (+615/‑222) |
USA300HOU_RS14915 → / → ugpQ_1 |
hypothetical protein/Glycerophosphodiester phosphodiesterase, cytoplasmic |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | USA300TCH1516_ALE | 37,591 | 0 | A | T | 100.0%
| 126.3
/ NA
| 50 | intergenic (+615/‑222) | USA300HOU_RS14915/ugpQ_1 | hypothetical protein/Glycerophosphodiester phosphodiesterase, cytoplasmic |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base T (20/30); total (20/30) |
GATAAGAGGTGCGTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTAAGTTAAAAGCAATCCTAAGTAAAATTGCAGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAACTCCATAATCAATACGAATCTATCGACTTCTTTATTTATGATATTC > USA300TCH1516_ALE/37512‑37726
|
gATAAGAGGTACGTTAAAAGCAGTTCTAGGCAAAATTGCAGATAAGAGGTGCGTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGAttt < 2:218573/141‑1 (MQ=11)
caaGTGGTACGTTAAAAGCAGTTCTAGGCAAAATTGCAGATAAGAGGTGCGTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTGGATTACAAAATGGAGCTTGGGACATAAATGAttttt < 1:296984/140‑1 (MQ=14)
agagGTACGTTAAAAGCAGTTCTAGGCAAAATTGCAGATAAGAGGTGCGTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTa < 2:822566/141‑1 (MQ=14)
agagGTAAGTTAAAAGCAGTTCTAGGCAAAATTGCAGATAAGAGGTGCGTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTa < 2:822641/141‑1 (MQ=11)
agGTACGTTAAAAGCAGTTCAAGGCAAAGTTGCAGATAAGAGGTGCGTTAAAAGGAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTaaa > 1:640516/1‑141 (MQ=14)
gcaacgctAACAGCAGTTCTAGGCAAAATTGCAGATAAGAGGTGCGTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTaaaa < 1:963906/134‑1 (MQ=14)
acGTTAAAAGCAGTTCTAGGCAAAATTGCAGATAAGAGGTGCGTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAatg > 1:621201/2‑141 (MQ=17)
cGTTAAAAGCAGTTCTAGGCAAAATTGCAGATAAGAGGTGCGTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAatga > 1:907092/1‑141 (MQ=14)
ttAAAAGCAGTTCTAGGCAACGTTGGCGCTAAGAGGTGCGTTAAAAGCAGCTCGCAGCAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAACTTGGGACATAAATGATTTTTTAAAAatgaga > 1:391889/1‑141 (MQ=12)
ttAAAAGCAGTTCTAGGCAAAATTGCAGATAAGAGGTGCGTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAACATGGAGCTTGGGACATAAATGATTTTTTAAAAatgaga < 2:308637/141‑1 (MQ=17)
aaaGCAGTTCTAGGCAAAATTGCAGATAAGAGCTGCGTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTATGCTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAatgaga‑tga < 1:660832/141‑1 (MQ=14)
aaGTAGTTCTAGGCAAAATTGCAGATAAGAGGTGCGTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAatgaga‑tgag < 1:198634/141‑1 (MQ=17)
aaGCAGTTCTAGGCAAAATTGCAGATAAGAGGTGCGTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAatgaga‑tgag < 1:388163/141‑1 (MQ=18)
tctaggcaaaaTTGCAGATAAGAGGTGCGTTAAAAGTAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGa < 1:252364/134‑1 (MQ=18)
ctaggcaaaaTTGCAGATAAGAGGTGCGTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGAt > 2:756856/7‑141 (MQ=18)
taggcaaaaTTGCAGATAAGAGGTGCGTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGAtt < 1:851400/136‑1 (MQ=18)
aggcaaaaTTGCAGATAAGAGGTGCGTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTa > 2:293827/5‑141 (MQ=18)
aggcaaaaTTGCAGATAAGAGGTGCGTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTa < 1:879526/137‑1 (MQ=21)
aggcaaaaTTGCAGATAAGAGGTGCGATAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTGTGGACATAAATGATTTGTTAAAAATGAGA‑TAAGACGAAGATTa > 2:263529/5‑141 (MQ=17)
gcaaaaTTGCAGATAAGAGGAGCGTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAAc < 1:991022/139‑1 (MQ=21)
gacaaaCTGCAGATAAGAGGGGAGGTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAAc < 2:153299/138‑1 (MQ=25)
aaaTTGCAGATAAGAGGTGCGTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAACTcc > 1:646615/1‑141 (MQ=21)
aaaTTGCAGATAAGAGGTGCGTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAACTcc > 1:251116/1‑141 (MQ=21)
aTTGCAGATAAGAGGTGCGTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAACTCCAt < 2:707206/141‑1 (MQ=25)
aTTGCAGATAAGAGGTGCGTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAACTCCAt > 1:379725/1‑141 (MQ=21)
tgcagATAAGAGGTGCGTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAACTCCCTaa > 2:83769/5‑141 (MQ=21)
tgcagATAAGAGGTGCGTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAACTCCATaa < 1:97304/137‑1 (MQ=25)
ggtgcgTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAACTCCATAATCAATACGAAt > 1:837221/6‑141 (MQ=38)
gtgcgTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAACTCCATAATCAATACGAATc < 2:117320/137‑1 (MQ=38)
gtgcgTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAACTCCATAATCAATACGAATc < 2:618913/137‑1 (MQ=38)
gtgcgTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAACTCCATAATCAATACGAATc < 2:595386/137‑1 (MQ=38)
gcgTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAACTCCATAATCAATACGAATCTa > 1:681040/3‑141 (MQ=38)
gcgTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAACTCCATAATCAATACGAATCTa > 2:125978/3‑141 (MQ=38)
gTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGACAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAACTCCATAATCAATACGAATCTATc < 2:391889/141‑1 (MQ=39)
gTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTTTTTTTTATA‑TGAAAAGTAGATTAACTCCATAATCAATCCGAATCTacg > 2:238041/1‑139 (MQ=25)
tAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAACTCCATAATCAATACGAATCTATCGa > 1:350516/1‑141 (MQ=39)
ttctcaGTAAAATTGCTGATAAGGGGTACAGAAAAACTAGCCTGGTTAATAGAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAACTCCATAATCAATACGAATCTATCGACTTCtttat > 1:932360/6‑141 (MQ=255)
tcaGTAAAATTGCTGATAAGGGGGACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAACTCCATAATCAATACGAATCTATCGACTTCtttattta > 2:307250/3‑141 (MQ=255)
caGTAAACTTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAACCTGGAGCTTGGGACGTAAATGA‑CTCTAAACAACGCCAGAGAAAGATACGTTAACTCCATAATCAATACGAATCTATCGACTACTttatttat > 2:697044/2‑141 (MQ=255)
caGTAAAATTGCTGATAAGGGGTACAAAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAACTCCATAATCAATACGAATCTATCGACTTCTttattgat > 2:612902/2‑141 (MQ=255)
gTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAACTCCATAATCAATACGAATCTATCGACTTCTTTATTTATGa < 1:646942/141‑1 (MQ=255)
gTAAAATTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAACTCCATAATCAATACGAATCTATCGACTTCTTTATTTATGa < 1:646911/141‑1 (MQ=255)
aaaaTTGATGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAACTCCATAATCAATACGAATCTATCGACTTCTTTATTTATGata < 1:806059/141‑1 (MQ=255)
aaaTTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAACTCCATAATCAATACGAATCTATCGACTTCTTTATTTATGatat < 2:375813/141‑1 (MQ=255)
aaTTGCTGATAAGGGGTACAGAAGAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAACTCCATAATCAATACGAATCTATCGACTTCTTTATTTATGATAtt < 2:22000/141‑1 (MQ=255)
aaTTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAACTCCATAATCAATACGAATCTATCGACTTCTTTATTTATGATAtt < 2:355977/141‑1 (MQ=255)
aaTTGCTGAAAAGTGGTACAGAAAAACAAACCTGTATTACCAAATGGAGCTTGGGACATAAAAAAAAAAAAAAAAATGAGA‑TGAGACGTAGATTGACTCCATAATCAATACGAATCTATCGACTTCTTTATTTATGATAtt < 2:630510/141‑1 (MQ=255)
aTTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGTCGTAGATTAACTCCATAATCAATACGAATCTATCGACTTCTTTATTTATGATATTc < 2:571521/141‑1 (MQ=255)
aTTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAACTCCATAATCAATACGAATCTATCGACTTCTTTATTTATGATATTc < 1:912376/141‑1 (MQ=255)
aTTGCTGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAACTCCATAATCAATACGAATCTATCGACTTCTTTATTTATGATATTc < 2:25075/141‑1 (MQ=255)
|
GATAAGAGGTGCGTTAAAAGCAGTTCTCAGTAAAATTGCTGATAAGGGGTAAGTTAAAAGCAATCCTAAGTAAAATTGCAGATAAGGGGTACAGAAAAACTAGACTTGATTACAAAATGGAGCTTGGGACATAAATGATTTTTTAAAAATGAGA‑TGAGACGTAGATTAACTCCATAATCAATACGAATCTATCGACTTCTTTATTTATGATATTC > USA300TCH1516_ALE/37512‑37726
|
| 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
