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 F169 I0 R1
|
132 |
34.5 |
794130 |
89.8% |
713128 |
140.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP000730 |
39,378 |
C→T |
100% |
D586N (GAT→AAT) |
mecA ← |
penicillin binding protein 2 prime |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP000730 | 39,378 | 0 | C | T | 100.0%
| 107.0
/ ‑6.5
| 38 | D586N (GAT→AAT) | mecA | penicillin binding protein 2 prime |
| Reads supporting (aligned to +/- strand): ref base C (0/0); major base T (21/15); minor base G (1/0); total (23/15) |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
ATAGCCATCATCATGTTTGGATTATCTTTATCATATGATATAAACCACCCAATTTGTCTGCCAGTTTCTCCTTGTTTCATTTTGAGTTCTGCAGTACCGGATTTGCCAATTAAGTTTGCATAAGATCTATAAATATCTTCTTTATGTGTTTTATTTACGACTTGTTGCATACCATCAGTTAATAGATTGATATTTTCTTTGGAAATAATATTTTTCTTCCAAACTTTGTTTTTCGTGTCTTTTAATAAGTGAGGTGCGTTAATATTGCCATT > CP000730/39242‑39513
|
aTAGCCATCATCATGTTTGGATTATCTTTATCATATGATATAAACCACCCAATTTGTCTGCCAGTTTCTCCTTGTTTCATTTTGAGTTCTGCAGTACCGGATTTGCCAATTACGTTTGCATAGGATTTTTAATTAttttct > 2:159266/1‑141 (MQ=255)
gCCATCATCATGTTTGGATTATCTTTATCATATGATATAAACCACCCAATTTGTCTGCCAGTTTCTCCTTGTTTCATTTTGAGTTCTGCAGTACCGGATTTGCCAATTAAGTTTGCATAAGATCTATAAATATTTTCtttt > 1:195549/1‑140 (MQ=255)
catcatcatGTTTGGATTATCTTTATCATATGATATAAACCACCCAATTTGTCTGCCAGTTTCGCCAGGTTACATTTTGAGTTCTGCAGTACCGGATTTGCCAATTAAGTTTGCATAAGATCTATAAATATAGTCTTAAtg > 2:107116/1‑141 (MQ=255)
ttGGATTATCTTTATCATATGATATAAACCACCCAATTTGTCTGCCAGTTTCTCCTTGTTTCATTTTGAGTTCTGCAGTACCGGATTTGCCAATTAAGTTTGCATAAGATCTATAATTAGTTTCTTTATGTGTtttattta < 2:122649/141‑1 (MQ=255)
ttGGATTATCTTTATCATATGATATAAACCACCCAATTTGTCTGCCAGTTTCTCCTTGTTTCATTTTGAGTTCTGCAGTACCGGATTTGCCAATTAAGTTTGCATAAGATCTATAAATATTTTCTTTATGTGTtttattta < 2:327638/141‑1 (MQ=255)
gatttccgttctCATATGATATAAACCACCCAATTTGTCTGCCAGTTTCTCCTTGTTTCATTTTGAGTTCTGCAGTACCGGATTTGCCAATTAAGTTTGCATAAGATCTATAAATATTTTCTTTATGTGTTTTATTTACGa < 2:275704/130‑1 (MQ=255)
ttgcTTTATCATATGATATTAACCACCCTATTTGTCTTCGATGTTCTCCTTGTTTCGTTTTGAGTTCTGCAGTACCTGTTTTGCCAATTTAGTTTGCATAAGATCTATTAATATTTTCTTTATGTGTTTTATTTACGACtt < 2:51890/138‑1 (MQ=255)
tgtATCATATGGTATAAACCACCCAATTTGTCTGCCAGTTGCTCCTTGTTTCATTTTGAGTTCTGCAGTACCGGATTTGCCAATTAAGTTTGCATAAGATCTATAAATATTTTCTTTATGTGTTTTATTTACGACttgttg < 2:371477/139‑1 (MQ=255)
ttATCATATGATATAAACCACCCAATTTGTCTGCCAGTTTCTCCTTGTTTCATTTTGAGTTCTGCAGTACCGGATTTGCCAATTAAGTTTGCATAAGATCTATAAATATTTTCTTTATGTGTTTTATTTACGACTTGTTGc > 2:371957/1‑141 (MQ=255)
tatGATATAAACCACCCAATTTGTCTGCCAGTTTCTCCTTGTTTCATTTTGAGTTCTGCAGTACCGGATTTGCCAATTAAGTTTGCATAAGATCTATAAATATTTTCTTTATGTGTTTTATTTACGACTTGTTGCATACCa > 2:311125/1‑141 (MQ=255)
caccCAATTTGTCTGCCAGTTTCTCCTTGTTTCATTTTGAGTTCTGCAGTACCGGATTTGCCAATTAAGTTTGCATAAGATCTATAAATATTTTCTTTATGTGTTTTATTTACGGCTTGTTGCATACCATCAGTTAATAGa > 1:22347/1‑141 (MQ=255)
aaTTTGTCTGCCAGTTTCTCCTTGTTTCATTTTGAGTTCTGCAGTACCGGATTTGCCAATTAAGTTTGCATAAGATCTATAAATATGTTCTTTATGTGTTTTATTTACGACTTGTTGCATACCATCAGTTAATAGATTGat > 1:348286/1‑141 (MQ=255)
aTTTGTCTGCCAGTTTCTCCTTGTTTCATTTTGAGTTCTGCAGTACCGGATTTGCCAATTAAGTTTGCATAAGATCTATAAATATTTTCTTTATGTGTTTTATTTACGACTTGTTGAACACGAGCAGTTCATAGATTGata > 2:276184/1‑141 (MQ=255)
ttGTCTGCCAGTTTCTCCTTGTCTCATCTTGAGTTCTGCAGTACCGGATTTGCCAATTAAGTTTGCATAAGATCTATAAATATTTTCTTTATGTATTTTATTTACGACTTGTTGCATACCATCAGTTAATAGATTGATAtt > 2:333703/1‑141 (MQ=255)
tCTGCCAGTTTCTCCTTGTTTCATTTTGAGTTCTGCAGTACCGGATTTGCCAATTAAGTTTGCATAAGATCTATAAATATTTTCTTTATGTGTTTTATTTTCGACTTGTTGCATACCATCAGTTAATAGATGTATAttttt > 2:124892/1‑140 (MQ=255)
ccAGTTTCTCCTTGTTTCATTTTGAGTTCTGCAGTACCGGATTTGCCAATTAAGTTTGCATAAGATCTATAAATATTTTCTTTATGTGTTTTATTTACGACTTGTTGCATACCATCAGTTAATAGATTGATATTTTCTTTg < 2:8388/141‑1 (MQ=255)
gTTTCTCCTTGTTTCATTTTGAGTTCTGCAGTACCGGATTTGCCAATTAAGGTTGCATAAGATGTATAAATATTTTCTTTATGTGTTTTATTTACGACTTGTTGCATACCATCAGTTTATAGATTGATATTTTCTTTGGaa > 2:966/1‑141 (MQ=255)
ttCTCCTTGTTTCAATTTGAGTTCTGCAGTACCGGATTTGCCAATTAAGTTTGCATAAGATCTATAAATATTTTCTTTATGTGTTTTATTTACGACTTGTTGCATACCATCAGTTAATAGATTGATATTTTCTTTGGAaat > 1:374647/1‑141 (MQ=255)
ctcCTTGTTTCATTTTGAGTTCTGCAGTACCGGATTTGCCAATTAAGTTTGCATAAGATCTATAAATATTTTCTTTATGTGTTTTATTTACGACTTGTTGCATACCATCAGTTAATAGATTGATATTTTCTTTGGAaataa > 2:227857/1‑141 (MQ=255)
ctcCTTGTTTCATTTTGAGTTCTGCAGTACCGGATTTGCCAATTAAGTTTGCATAAGATCTATAAATATTTTCTTTATGTGTTTTATTTACGACTTGTTGCATACCATCAGTTAATAGATTGATATTTTCTTTGGAaataa < 2:142139/141‑1 (MQ=255)
tcCTTGTTTCATTTTGAGTTCTGCAGTACCGGATTTGCCAATTAAGTTTGCATAAGATCTATAAATATTTTCTTTATGTGTTTTATTTACGACTTGTTGCATACCATCTGTTAATAGATTGTTTTTTTCTTTGGAaataat > 1:72653/1‑141 (MQ=255)
ttttGAGTTCTGCAGTACCGGATTTGCCAATTAAGTTTGCATAATATCTATAAATATTTTCTTTATGTGTTTTATTTACGACTTGTTGCATACCATCAGTTAATAGATTGATATTTTCTTTGGAAATAATATTTTTCTTcc > 2:210936/1‑141 (MQ=255)
ttttGAGTTCTGCAGTACCGGATTTGCCAATTAAGTTTGCATAAGATCTATAAATATTTTCTTTATGTGTTTTATTTACGACTTGTTGCATACCATCCGTTAATAGATTGATATTTTCTTTGGTAATAATATTTTTCTTcc > 2:192692/1‑141 (MQ=255)
tcttGCGTTCTGCAGTACCGGATTTGCCAATTAAGTTTGCATACGATCTATAAATATTTTCTTTATGTGTTTTATTTACGCCTTGTTGCATACGATCAGTTAATAGATTGATATTTTCTTTTGAAATAATCTTTTTCTTcc > 2:8581/3‑141 (MQ=255)
gTTCTTCAGTACCGGATTTGCCAATTAAGTTTGCATAAGATCTATAAATATTTTCTTTATGTGTTTTATTTACGACTTGTTGCATACCATCAGTTAATAGATTGATATTTTCTTTGGAACTAATATTTTTCTTCCAAACtt < 2:142979/141‑1 (MQ=255)
tCTGCAGTACCGGATTTGCCAATTAAGTTTGCATAAGATCTATAAATATTTTCTTTATGTGTTTTATTTACGACTTGTTGCATACCATCAGCTAATAGATTGCTATTTTCTTTGGAAATAAAATTTTTCTTcccacctgtg > 1:52409/1‑133 (MQ=255)
cTGCAGTACCGGATTGGCCAATTAAGTTTGCATGAGACCTATTAATATTTGCGTTATGTGTTTTATTTACGACGTGTTGCTTACCATCAGTGAACAGCTTGATATTTTCTTTGGAAATAATATTTTATGTCCAAAGttgct > 2:90418/1‑138 (MQ=255)
tGCAGTACCGGATTTGCCAATTAAGTTTGCATAAGATCTATAAATATTTTCTTTATGTGTTTTATTTACGACTTGTTGCATACCATCAGTTAATAGATTGATATTTTCTTTGGAAATAATATTTTTCTTCCAAACTTTGtt < 2:186975/141‑1 (MQ=255)
gCAGTACCGGATTTGCCAATTAAGTTTGCATAAGATCTATAAATATTTTCTTTATGTGTTTTATTTACGACTTGTTGCATACCATCAGTTAATAGATTGATATTTTCTTTGGAAATAATATTTTTCTTCCAAACtttcatc < 2:192116/141‑5 (MQ=255)
cAGTACCGGATTTGCCAATTAAGTTTGCATAAGATCTATAAATTTTTTCTTTATGTGTTTTATTTACGACTTGTTGCATACCATCAGTTAATAGATTGATATTTGCTTTGGAAATAATATTTTTCTTCCAAACTTTGtttt < 1:276184/141‑1 (MQ=255)
ccGGATTTGCCAATTAAGTGTGCATAAGATCTATAAATATTTTCTTTATGTGTTTTATTTACGACTTGTTGCATACCATCAGTTAATAGATTGATATTTTCTTTGGAAATAATATTTTTCTTCCACACTTTGTTTTTCgtg > 2:36036/1‑141 (MQ=255)
tGCCAATTAAGTTTGCATAAGATCTATAAATATTTTTTTTATGTGTTTTATTTACGACTTGTTGCATACCATCAGTTAATAGATTGATATTTTCTTTGGAAATAATATTTTTCTTCCAAACTTTGTTTTTCGTGTCTTTta < 2:204308/141‑1 (MQ=255)
aTTAAGTTTGCATAAGATCTATAAATATTTTCTTTATGTGTTTTATTTACGACTTGTTGCATACCATCAGTTAATAGATTGATATTTTCTTTGGAAGTAATATTTTTCTTCCAAACTTTGTTTTTCGTGTCTTTTAATAAg < 1:270932/141‑1 (MQ=255)
aTTAAGTGTGCATAAGATCTATAAATATTTTCTTGATGTGTTTTATTTACGACTTGTTGCATACCATCAGTTAATAGATTGATATTTTCTTTGGAAGTAATATTTTTCTTCCAAACTTTGTTTTTCGTGTCTTTTAATAAg < 1:333878/141‑1 (MQ=255)
ttGCATACGCTATATAAATATTTTCTTTATGTGTTTTATTAAAGCCTCGTCCCTTATTATCGGTGAATAGATTGATATTTTCTTTGGAAAAAATATTTTTCTTCCAAACTTTTTTTTTCTTGTCTTTTATTTAGTgtgctg > 2:279256/1‑136 (MQ=255)
tttaaTATTTTCTTTATGTGTTTTATTTACGACTTGTTGCATACCATCAGTTAATAGATTGATATTTTCTTTGGAAATAATATTTTTCTTCCAAACTTTGTTTTTCGTGTCTTTTAATAAGTGAGGTGCGTTAATATTGcc < 2:348286/138‑1 (MQ=255)
aaaTATTTTCTTTATGTGTTTTATTTACGACTTGTTGCATACCATCAGTTAATAGATTGATATTTTCTTTGGAAATAATATTTTTCTTCCAGACTTTGTTTTTCGTGTCTGTTAATAAGTGAGGTGCGTTAATATTACCat > 1:104821/1‑141 (MQ=255)
aaTATTTTCTTTATGTGTTTTATTTACGACTTGTTGCATACCATCAGTTAATAGATTGATATTTTCTTTGGAAATAATATTTTTCTTCCAAACTTTGTTTTTCGTGTCTTTTAATAAGTGAGGTGCGTTAATATTGCCatt > 1:89969/1‑141 (MQ=255)
aaTATTTTCTTTATGTGTTTTATTTACGACTTGTTGCATACCATCAGTTAATAGATTGATATTTTCTTTGGAAATAATATTTTTCTTCCAAACTTTGTTTTTCGTGTCTTTTAATAAGTGAGGTGCGTTAATATTGCCatt > 1:136285/1‑141 (MQ=255)
|
ATAGCCATCATCATGTTTGGATTATCTTTATCATATGATATAAACCACCCAATTTGTCTGCCAGTTTCTCCTTGTTTCATTTTGAGTTCTGCAGTACCGGATTTGCCAATTAAGTTTGCATAAGATCTATAAATATCTTCTTTATGTGTTTTATTTACGACTTGTTGCATACCATCAGTTAATAGATTGATATTTTCTTTGGAAATAATATTTTTCTTCCAAACTTTGTTTTTCGTGTCTTTTAATAAGTGAGGTGCGTTAATATTGCCATT > CP000730/39242‑39513
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
