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 |
|
A17 F172 I0 R1
|
42 |
33.2 |
716278 |
96.8% |
693357 |
139.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP000730 |
469,786 |
A→G |
100% |
G118G (GGA→GGG) |
USA300HOU_0445 → |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP000730 | 469,786 | 0 | A | G | 100.0%
| 80.7
/ NA
| 26 | G118G (GGA→GGG) | USA300HOU_0445 | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (21/5); total (21/5) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GATGGCGAATTTAAAAAGGGTGATAAAGGGATGTGGACGATATATACAGATTTCGCCAAAAGTAATAAACAAGGTGGATTGAGTAATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGACATTATTTTGTTAAGACATTCTATAATAAGGGCAAATTCCCAGATAGAAAAAATTATAAAGTTGAAATGAAAAATAATAAAATTATCTTATTAGATAAAGTAGAAGATACAAATCTAAAAAAGAGAATAGAAAACT > CP000730/469652‑469922
|
gaTGGAGAATTTAAAAAGGGTGATAAAGGGATGTGGACGATATATACAGATTTCGCCAAAAGTAATAAACAAGGTGGATTGAGTAATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGGCatta < 1:343965/140‑1 (MQ=255)
aTGGCGAATTTAAAAAGGGTGATAAAGGGATGTGGACGATATATACAGATTTCGCCAAAAGTAATAAACAAGGTGGATTGAGAAATGAAGGTATGGTCCTATACTTAGAAAGAAATACACGGACTGCAAAGGGGCattat > 2:182297/1‑140 (MQ=255)
ggtgAATTTAAAAAGGGTGATAAAGGGATGTGGACGATATATACAGATTTCGCCAAAAGTAATAAACAAGGTGGATTGAGTAATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGGCATTAttt < 2:233568/137‑1 (MQ=255)
gAATTTAAAAAGGGTGACAAAAAGTGGTGGACGCTATATACAGATTTAGCCAAAAGTAATAAACAAGGTGGATTGAGTAATGAAGGTATGGCCATATACTTAGATAGAAATACACGAACTGTAAAGGGGGATtttttttt > 2:164152/1‑138 (MQ=255)
aGGGTGATAAAGGGATGTGGACGATATATACAGATTTCGCCAAAAGTAATAAACAAGGTGGATTGAGTAATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGGCATTATTTTGTTAAGACATTc < 1:269663/140‑1 (MQ=255)
gggTGATAAAGGGATGTGGACGATATATACAGATTTCGCCAAAAGTAATAAACAAGGTGGATTGAGTAATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGGCATTATTTTGTTAAGACATTCt < 2:105900/140‑1 (MQ=255)
gATAAAGGACTGTGGACGATATATACAGATTTCGCCAAAAGTAATAAACAAGGTGGATTGAGTAATGAAGGTATGGTCTTATACTTAGATAGAGATACACGGACTGCAAAGGGGCATTATTTTGTTAAGACATTCTataa > 2:112434/1‑140 (MQ=255)
tgGACGATATATACAGATTTCGCCAAAAGTAATAAACAAGGTGGATTGAGTAATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGGCATTATTTTGTTAAGACATTCTATAATAAGGGCAAAtt > 1:72401/1‑140 (MQ=255)
aaCAGATTGCTCCAGAAGTAATAAGCAGGGTGGATTGAGTAATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGGCATTATTTTGTTAAGACATTCTATAATAAGGGCAAATTCCAAGATAGaa > 2:298859/2‑140 (MQ=255)
tCGCCAAAAGTAATAAACAAGGTGGATTGAGTAATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGGCATTATTTTGTTAAGACATTCTATAATAAGGGCAAATTCCCAGATAGAAAAAATtat > 2:238104/1‑140 (MQ=255)
cGCCAAAAGTACTAAACAAGGTGGATTGAGTAATGAAGGTATGGTCTTATACTGAGATAGACATACACGGACTGCAAAGGGGCATTATTTTGTTAAGACATTCTATAATAAAGGCCAATTCCCAGATAGaaaaacctcta > 2:155520/1‑134 (MQ=255)
cGCCAAAAGTAATAAACAAGGTGGATTGAGTAATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGGCATTATTTTGTTAAGACATTTTGTAATAAGGGCAAATTCGCAGATTGAAAAAATtata > 1:194134/1‑140 (MQ=255)
gTAATAATCAAGGTGGATTGGGTAATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGGCATTATTTGGTTAAGACATTCTATAATAAGGGCAAATTCCCAGCTAGAAAAAATTATAAAGTtgaa > 1:224686/1‑140 (MQ=38)
ataaACAAGGTGGATTGAGTAATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGGCATTATTTTGTTAAGACATTCTATAATAAGGGCAAATTCCCAGATAGAAAAAATTATAAAGTtgaaatg > 1:132002/1‑140 (MQ=255)
tGGATTGAGTAATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGGCATTATTTTGTTAAGACATTCTATAATAAGGGCAAATTCCCAGATAGAAAAAATTATAAAGTTGAAATGAAAAataata > 1:343397/1‑140 (MQ=255)
aGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGGCATTATTTTGTTAAGACATTCTATAATAAGGGCAAATTCCCAGATAGAAAAAATTATAAAGTTGAAATGAAAAATAATAAAATTATATAATTAg > 2:154748/1‑140 (MQ=255)
tagatagaAATACACGGACTGCAAAGGGGCATTATTTTGTTAAGACATTCTATAATAAGGGCAAATTCCCAGATAGAAAAAATTATAAAGTTGAAATGAAAAATAATAAAATTATCTTATTAGATAAAGTAGAAGATACa > 2:16387/1‑140 (MQ=255)
tagatagaAATACACGGACTGCAAAGGGGCATTATTTTGTTAAGACATTCTATAATAAGGGCAAATTCCCAGATAGAAAAAATGATAAAGTTGAAATGAAAAATAATAAAATTATCTTATTAGATAAAGTAGAGGATACa > 2:176772/1‑140 (MQ=255)
gatagaAATACACGGACTGCAAAGGGGCATTATTTTGTTAAGACATTCTATAATAAGGGCAAATTCCCAGATAGAAAAAATTATAAAGTTGAAATGAAAAATAATAAAATTATCTTATTAGATAAAGTAGAAGATACaaa < 1:182297/140‑1 (MQ=255)
tagaAATACACGGACTGCAAAGGGGCATTATTTTGTTAAGACATTCTATAATAAGGGCAAATTCCCAGATAGCGACTCATTTATTGGGGAAATGAAAAATAATAAAATTATCTTATTAGATAAAGTAGAAGATACAAATc > 1:259290/1‑140 (MQ=25)
ccacGGACTGCAAAGGGGCATTTTTTTGTTAAGACATTCTATAATGAGGGCAAATTCCCAGATAGAAAAAATTATAAAGTCGAAATGAAAAATAATAAAATTATCTTATTAGATAAAGTAGAAGATACAAATCAaaaaca > 2:255683/2‑138 (MQ=21)
cacGGACTGCAAAGGGGCATTATTTTGATAAGACATTCTATAATAAGGGCAAATTCCCAGATAGAAAAAATTATAAAGTTGAAATGAAAAATAATAAAATTATCTTATAAGATAAAGTAGAAGATACAAAACTAAAAAag > 2:213151/1‑140 (MQ=255)
cGGACTGCAAAGGGGCATTATTTTGTTAAGACATTCTATAATAAGGGCAAATTCCCAGATAGAAAAAATTATAAAGTTGAAATGAAAAATAATAAAATTATCTTATTAGATAAAGTAGAAGATACAAATCTAAAACagag > 1:256286/1‑140 (MQ=255)
cGGACTGCAAAGGGGCATTATTTTGTTAAGACATTCTATAATAAGGGCAAATTCCCAGATAGAAAAAATTATAAAGTTGAAATGAAAAATAATAAAATTATCTTATTAGATAAAGAAGAAGATACAAATCTAAAAAagag > 1:105885/1‑140 (MQ=255)
ggACTGCAAAGGGGCATTATTTTGTTAAGACATTCTATAATAAGGGCAAATTCCCAGATAGAAAAAATTATAAAGTTGACATGCAATTTAATAAAATTATCTTATTAGATAAAGTAGAAGATACAAATCTAAAAAagagc > 1:168927/1‑139 (MQ=21)
ggACTGCAAAGGGGCATTATTTTCTTAAGACATTCTATAATAAGGGCAAATTCCCAGATAGAAAAAATTATAAAGTTGAAATGAAAAATAATAAAATTATCTTATTAGATAAAGTAGAAGATACAAATCTAAAAAAaaga > 2:255041/1‑140 (MQ=255)
ggggCATTATTTTGTTAAGACATTCTATAATAAGGGCAAATTCCCAGATAGAAAAAATTATAAAGTTGAAATGAAAAATAATAAAATTATCTTATTAGATAAAGTAGAAGATACAAATCTAAAAAAGAGAATAGAAAACt > 2:21425/1‑140 (MQ=255)
|
GATGGCGAATTTAAAAAGGGTGATAAAGGGATGTGGACGATATATACAGATTTCGCCAAAAGTAATAAACAAGGTGGATTGAGTAATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGACATTATTTTGTTAAGACATTCTATAATAAGGGCAAATTCCCAGATAGAAAAAATTATAAAGTTGAAATGAAAAATAATAAAATTATCTTATTAGATAAAGTAGAAGATACAAATCTAAAAAAGAGAATAGAAAACT > CP000730/469652‑469922
|
| 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
