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 |
|
A13 F121 I0 R1
|
43 |
32.8 |
695000 |
96.9% |
673455 |
140.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP000730 |
479,553 |
G→A |
100% |
A194T (GCA→ACA) |
USA300HOU_0458 → |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP000730 | 479,553 | 0 | G | A | 100.0%
| 100.0
/ ‑6.5
| 34 | A194T (GCA→ACA) | USA300HOU_0458 | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (17/16); minor base T (0/1); total (17/17) |
| 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. |
GCAATAATAGATGAACAAGGTGAGCCACTTAGCGAACAAGTGAATCGTCAAATGATTAAATGGACGAAACTTTATATCGATCAATTTCTATCGAGTTGGACAATGCCGAAGCGTGAGCAAAGTTTTTACCATGCATGGTTGCATTTAGCGCAACATGACCATAGTTTTACTAAAGCACAGCGCCAAGTGATTAAAGGCTTACCCAATGATCCTGAAATGACGATAGAGTCAGTATTAACTCATTTTTCAATAGATCAGGAAGACTACC > CP000730/479421‑479688
|
gCAATAATAGATGAACAAGGTGAGCCACTTAGCGACCAAGTGAATCGTCAAATGATTAAATGGACGAAACTTTATATCGCTAAATTTCTATCGAGTTGGACAATGGCGCCGTGCGACCAAAGGTTTTACCATACATGGTTg > 2:314247/1‑141 (MQ=255)
gCAATAATAGATGAACAAGGTGAGCCACTTAGCGAACAAGTGAATCGTCAAATGATTAAATGGACGAAACTTTATATCGATCAATTTCTATCGAGTTGGACAATGCCGAAGCGTGAGCAAAGTTTTTACCATACATGGTTg < 2:122183/141‑1 (MQ=255)
aTGAACAAGGTGAGCCACTTAGCGAACAAGTGAATCGTCAAATGATTAAATGGACGAAACTTTATATCGATCAATTTCTATCGAGTTGGACAATGCCGAAGCGTGAGCAAAGTTTTTACCATACATGGTTGCATTTAgcgc < 2:16942/141‑1 (MQ=255)
aTGAACAAGGTGAGCCACTTAGCGAACAAGTGAAGCGTCAAATGATTAAATGGACGAAACTTTATATCGATCAATTTCTATCGAGTTGGACAATGCCGAAGCGTGAGCAAAGTTTTTACCATACATGGTTGCATTTAgcgc > 1:267937/1‑141 (MQ=255)
gAACAAGGTGAGCCACTTAGCGAACAAGTGAATCGTCAAATGATTAAATGGACGAAACTTTATATCGATCAATTTCTATCGAGTTGGACAATGACGAAGCGTGAGCAAAGTTTTTACAATACAGGGGTGCATTTAGCGCaa > 2:47201/1‑141 (MQ=255)
aGGTGAGCCACTTAGCGAACAAGTGAATCGTCAAATGATTAAATGGACGAAACTTTATATCGATCAATTTCTATCGAGTTGGACAATGCCGAAGCGTGAGCAAAGTTTTTACCATACATGGTTGCATTTAGCGCAACATGa > 1:268964/1‑141 (MQ=255)
ggTGAGCCACTTAGCGAACAAGTGAATCGTCAAATGATTAAATGGACGAAACTTTATATCGATCAATTTCTATCGAGTTGGACAATGCCGAAGCGTGAGCAAAGTTTTTACCATACATGGTTGCATTTAGCGCAACATgct > 2:346072/1‑139 (MQ=255)
ggAGCCACTTAGCGAACAAGTGAATCGTCAAATGATTAAATGGACGAATCTTGATATCGATCAATTTCTATCGAGTTGTAGAATGCCGAAGCGTGATCAAAGTTTTTACCATACATGGTTGCATTTAGCGCAACATGACCa < 2:56127/140‑1 (MQ=255)
ccACTTAGCGAACAAGTGAATCGTCAAATGATTAAATGGACGAAACTTTATATCGATCAATTTCTATCGAGTTGGACAATGCCGAAGCGTGAGCAAAGTTTTTACCATACATGGTTGCATTTAGCGCAACATGACCATAGt < 1:274683/141‑1 (MQ=255)
cTTAGCGAACAAGTGAATCGTCAAATGATTAAATGGACGAAACTTTATATCGATCAATTTCTATCGAGTTGGACAATGCCGAAGCGTGAGCAAAGTTTTTACCATACATGGTTGCATTTAGCGCAACATGACCATAGtttt < 1:247384/141‑1 (MQ=255)
aCAAGTGAATCGTCAAATGATTAAATGGACGAAACTTTATATCGATCAATTTCTATCGAGTTGGACAATGCCGAAGCGTGAGCAAAGTTTTTACCATACATGGTTGCATTTAGCGCAACATGACCATAGTTTTACTAAAGc > 2:89641/1‑141 (MQ=255)
aaGTGAATCGTCAAATGATTAAATGGACGAAACTTTATATCGATCAATTTCTATCGAGTTGGACAATGCCGAAGCGTGAGCAAAGTTTTTACCATACATGGTTGCATTTAGCGCAACATGACCATAGTTTTACTAAAGcac > 2:149822/1‑141 (MQ=255)
ggAATCGTCAAATGATTAAATGGACGAAACTTTATATCGATCAATTTCTATCGAGTTGGACAATGCCGAAGCGTGAGCAAAGTTTTTACCATACATGGTTGCATTTAGCGCAACATGACCATAGTTTTACTAAAGCACAgc < 1:280909/140‑1 (MQ=255)
gTCAAATGATTAAATGGACGAAACTTTATATCGATCAATTTCTATCGAGTTGGACAATGCCGAAGCGTGAGCAAAGTTTTTACCATACATGGTTGCATTTAGCGCAACATGACCATAGTTTTACTAAAGCACAGCGCCAAg < 2:267937/141‑1 (MQ=255)
tAAATGGACGAAACTTTATATCGATCAATTTCTATCGAGTTGGACAATGCCGAAGCGTGAGCAAAGTTTTTACCATACATGGTTGCATTTAGCGCAACATGACCATAGTTTTACTAAAGCACAGCGCCAAGTGATTAAAgg > 1:193991/1‑141 (MQ=255)
aTGGACGAAACTTTATATCGATCAATTTCTATCGAGTTGGACAATGCCGAAGCGTGAGCAAAGTTTTTACCATACATGGTTGCATTTAGCGCAACATGACCATAGTTTTACTAAAGCACAGCGCCAAGTGATTAAAGGCtt > 1:6099/1‑141 (MQ=255)
aCTTTATATCGATCAATTTCTATCGAGTTGGACAATGCCGAAGCGTGAGCAAAGTTTTTACCATACATGGTTGCATTTAGCGCAACATGACCATAGTTTTACTAAAGCACAGCGCCAAGTGATTAAAGGCTTACCCAATGa > 1:43913/1‑141 (MQ=255)
aCTTTATATCGATCAATTTCTATCGAGTTGGACAATGCCGAAGCGTGAGCAAAGTTTTTACCATACATGGTTGCATTTAGCGCAACATGACCATAGTTTTACTAAAGCACAGCGCCAAGTGATTAAAGGCTTACCCAATGa > 1:216794/1‑141 (MQ=255)
aCTTTATATCGAACAATTTCTATCGAGTTGGACAATGCCGAAGCGTGAGAAAAGTTTTTACCATACATGGTTGCATTTAGCGCAACATGACCATAGTTTTACTAAAGCACAGCGCCAAGTGATTAACGGATTACCCAAAGa > 2:133146/1‑141 (MQ=255)
ttATATCGATCAATTTCTATCGAGTTGGACAATGCCGAAGCGTGAGCAAAGTTTTTACCATACATGGTTGCATTTAGCGCAACATGACCATAGTTTTACTAAAGCACAGCGCCAAGTGATTAAAGGCTTACCCAATGATcc < 2:319532/141‑1 (MQ=255)
tCGATCAATTTCTATCGAGTTGGACAATGCCGAAGCGTGAGCAAAGTTTTTACCATACATGGTTGCATTTAGCGCAACATGACCATAGTTTTACTAAAGCACAGCGCCAAGTGATTAAAGGCTTACCCAATGATCCTGaaa > 1:316935/1‑141 (MQ=255)
cAATTTCTAGCGAGTTGGACAATGCCGAAGCGTGAGCAAAGTTTTTACCATACATGGTTGCATTTAGCGCAACATGACCATAGTTTTACTAAAGCACAGCGCCAAGTGATTAAAGGCTTACCCAATGATCCTGAAATGACg < 2:129324/141‑1 (MQ=255)
aaTTTCTATCGAGTTGGACAATGCCGAAGCGTGAGCAAAGTTTTTACCATACATGGTTGCATTTAGCGCAACATGACCATAGTTTTACTAAAGCACAGCGCCAAGTGATTAAAGGCTTACCCAATGATCCTGAAATGACGa < 2:144561/141‑1 (MQ=255)
tATCGAGTTGGACAATGCCGAAGCGTGAGCAAAGTTTTTACCATACATGGTTGCATTTAGCGCAACATGACCATAGTTTTACTAAAGCACAGCGCCAAGTGATTAAAGGCTTACCCAATGATCCTGAAATGACGATAGAGt > 1:298491/1‑141 (MQ=255)
gagaaTGTCGAAGAGTGAACTAAGTTTTTCCCGTTCATGGTTTCATGTAGCGAAATATCCACATACTTTTACTATAGCACTGCGCCAAGTGATTACACGCTGACGCAATGATTCTGAAATGACGATAGAGTCAGTATTCAc < 2:78477/138‑1 (MQ=255)
gACAATGCCGAAGCGTGAGCAAAGTTTTTCCCATACATGGTTGCATTTAGCGCAACATGACCATAGTTTTACTAAAGCACAGTGCCAAGTGATTAAAGGCTTACCCAATGATCCTGAAATGACGATAGAGTCAGTATTAAc < 1:207276/141‑1 (MQ=255)
cGAAGCGTGAGCAAAGTTTTTACCATACATGGTTGCATTTAGCGCAACATGACCATAGTTTTACTAAAGCACAGCGCAAGGAGCATAGAGGCTCACCCAATGATAATGAGATGACGATAGAGTCAGTATTAACTCAgtttt < 2:72445/141‑1 (MQ=255)
gAAGCGTGAGCAAAGTTTTTACCATACATGGTTGCATTTAGCGCAACATGACCATAGTTTTACTAAAGCACAGCGCCAAGTGATTAAAGGCTTACCCAATGATCCTGAGATGAGGATAGAGTCAGTATTCACTCAGGTTTc > 1:161305/1‑141 (MQ=255)
cctGAGCAAAGTTCTTACCATACATGGTTGCATTTAGCGCAACATGACCATAGTTTTACTAAAGCACAGCGCCAAGTGATTAAAGGCTTACCCAATGATCCTGAAATGACGATAGAGTCAGTATTAACTCATTTTTCAATa < 2:187247/139‑1 (MQ=255)
cGTGAGCAAAGTTTTTACCATACATGGTTGCATTTAGCGCAACATGACCATAGTTTTACTAAAGCACAGCGCCAAGTGATTAAAGGCTTACCCAATGATCCTGAAATGACGATAGAGTCAGTATTAACTCATTTTTCAATa < 2:316935/141‑1 (MQ=255)
gatcAAAGTTTTTACCATACCTTGTTGCATTTAGCGCAACATCACCCTCGTTTTACTAAAGCACAGCGCCAAGTGATTAAAGGCTTACTCAATGATCCTGAAATGACGATAGAGTCAGTATTAACTCATTTTTCAATAGAt < 2:16872/138‑1 (MQ=255)
cAAAGTTTTTACCATACATGGTTGCATTTAGCGCAACATGACCATAGTTTTACTAAAGCACAGCGCCAAGTGATTAAAGGCTTACCCAATGATCCTGTAATGACGATAGAGTCAGTATTAACTCATTTTTCAATAGATCAg < 2:6099/141‑1 (MQ=255)
ttttACCATACATGGTTGCATTTAGCGCAACATGACCATAGTTTTACTAAAGCACAGCGCCAAGTGATTAAAGGCTTACCCAATGATCCTGAAATGACGATAGAGTCAGTATTAACTCATTTTTCAATAGATCAGGAAGAc > 1:328932/1‑141 (MQ=255)
aCCATACATGGTTGCATTTAGCGCAACATGACCATAGTTTTACTAAAGCACAGCGCCAAGTGATTAAAGGCTTACCCAATGATCCTGAAATGACGATAAACTCAGTATCACCCCATTTTACGATAGATCAGGAAGACTAcc > 1:45574/1‑141 (MQ=255)
|
GCAATAATAGATGAACAAGGTGAGCCACTTAGCGAACAAGTGAATCGTCAAATGATTAAATGGACGAAACTTTATATCGATCAATTTCTATCGAGTTGGACAATGCCGAAGCGTGAGCAAAGTTTTTACCATGCATGGTTGCATTTAGCGCAACATGACCATAGTTTTACTAAAGCACAGCGCCAAGTGATTAAAGGCTTACCCAATGATCCTGAAATGACGATAGAGTCAGTATTAACTCATTTTTCAATAGATCAGGAAGACTACC > CP000730/479421‑479688
|
| 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
