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 F54 I1 R2
|
10 |
34.7 |
881936 |
84.9% |
748763 |
134.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
CP000730 |
1,664,005 |
G→A |
P134L (CCT→CTT) |
pbp3 ← |
penicillin‑binding protein 3 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP000730 | 1,664,005 | 0 | G | A | 95.5%
| 59.6
/ NA
| 22 | P134L (CCT→CTT) | pbp3 | penicillin‑binding protein 3 |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (10/11); minor base T (1/0); total (11/11) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TTTAGAAGACAATTCATCTAATTGTGATTTTCCGATTTTCGATAACAGTTGTTTATCATATTGATCTTGTTTAATACTTCCATCTGCTAACATAGCTTGTTCTTTTGTCATCATTGCTTTTGCTTTTTTAGGATGCAACTGAATCCAGAAATCTTTCTTATCACGTTCTGTAATTTTCTTAGTATCCATCTTGATTAGCTTTGATAACTTTTCAGCCGTATCCAACATTTCCGATTGTGTTGTTTTTCGACCCCTAGTATATG > CP000730/1663875‑1664137
|
tttAGAAGACAATTCATCTAATTGTGATTTTCCGATTTTCGATAACAGTTGTTTATCATATTGATCTTGTTTAATACTTCCATCTGCTAACATAGCTTGTTCTTTTGTCATCATTGCTTTTGCTTTTTTAAGATGCAACTg < 2:403878/141‑1 (MQ=255)
aagaCAATTCATCTAATTGTGATTTTCCGATTTTCGATAACAGTTGTTTATCATATTGATCTTGTTTAATACTTCCATCTGCTAACATAGCTTGTTCTTTTGTCATCATTGCTTTTGCTTTTTTAAGATGCAACTGAATcc > 1:50191/1‑141 (MQ=255)
aagaCAATTCATCTAATTGTGATTTTCCGATTTTCGATAACAGTTGTTTATCATATTGATCTTGTTTAATACTTCCATCTGCTAACATAGCTTGTTCTTTTGTCATCATTGCTTTTGCTTTTTTAAGATGCAACTGAATcc < 2:334067/141‑1 (MQ=255)
gaCAATTCATCTAATTGTGATTTTCCGATTTTCGATAACAGTTGTTTATCATATTGATCTTGTTTAATACTTCCATCTGCTAACATAGCTTGTTCTTTTGTCATCATTGCTTTTGCTTTTTTAAGATGCAACTGAATCCAg > 2:236532/1‑141 (MQ=255)
aTTGTGATTTTCCGATTTTCGATAACAGTTGTTTATCATATTGATCTTGTTTAATACTTCCATCTGCTAACATAGCTTGTTCTTTTGTCATCATTGCTTTTGCTTTTTTAAGATGCAACTGAATCCAGAAATCTTTCTTAt < 1:269723/141‑1 (MQ=255)
gtgATTTTCCGATTTTCGATAACAGTTGTTTATCATATTGATCTTGTTTAATACTTCCATCTGCTAACATAGCTTGTTCTTTTGTCATCATTGCTTTTGCTTTTTTAAGATGCAACTGAATCCAGAAATCTTTCTTATCAc < 1:72389/141‑1 (MQ=255)
ttATCATATTGATCTTGTTTAATACTTCCATCTGCTAACATAGCTTGTTCTTTTGTCATCATTGCTTTTGCTTTTTTAAGATGCAACTGAATCCAGAAATCTTTCTTATCACGTTCTGTAATTTTCTTAGTATCCATCTTg < 1:237390/141‑1 (MQ=255)
tatTGATCTTGTTTAATACTTCCATCTGCTAACATAGCTTGTTCTTTTGTCATCATTGCTTTTGCTTTTTTAAGATGCAACTGAATCCAGAAATCTTTCTTATCACGTTCTGTAATTTTCTTAGTATCCATCTTGATTAGc < 1:295053/141‑1 (MQ=255)
gATCTTGTTTAATACTTCCATCTGCTAACATAGCTTGTTCTTTTGTCATCATTGCTTTTGCTTTTTTAAGATGCAACTGAATCCAGAAATCTTTCTTATCACGTTCTGTAATTTTCTTAGTATCCATCTTGATTAGCTTTg > 1:20237/1‑141 (MQ=255)
tCTTGTTTAATACTTCCATCTGCTAACATAGCTTGTTCTTTTGTCATCATTGCTTTTGCTTTTTTAAGATGCAACTGAATCCAGAAATCTTTCTTATCACGTTCTGTAATTTTCTTAGTATCCATCTTGATTAGCTTTGAt < 1:187821/141‑1 (MQ=255)
tGTTTAATACTTCCATCTGCTAACATAGCTTGTTCTTTTGTCATCATTGCTTTTGCTTTTTTAAGATGCAACTGAATCCAGAAATCTTTCTTATCACGTTCTGTAATTTTCTTAGTATCCATCTTGATTAGCTTTGATAAc < 1:44650/141‑1 (MQ=255)
tAATACTTCCATCTGCTAACATAGCTTGTTCTTTTGTCATCATTGCTTTTGCTTTTTTAAGATGCAACTGAATCCAGAAATCTTTCTTATCACGTTCTGTAATTTTCTTAGTATCCATCTTGATTAGCTTTGATAACtttt > 1:285889/1‑141 (MQ=255)
aTACTTCCATCTGCTAACATAGCTTGTTCTTTTGTCATCATTGCTTTTGCTTTTTTAAGATGCAACTGAATCCAGAAATCTTTCTTATCACGTTCTGTAATTTTCTTAGTATCCATCTTGATTAGCTTTGATAACTTTTCa > 2:94938/1‑141 (MQ=255)
aTCTGCTAACATAGCTTGTTCTTTTGTCATCATTGCTTTTGCTTTTTTAAGATGCAACTGAATCCAGAAATCTTTCTTATCACGTTCTGTAATTTTCTTAGTATCCATCCTTATTAGTTTTGATAACTTTTCATCCGTATc > 2:262315/1‑141 (MQ=255)
cTAACATAGCTTGTTCTTTTGTCATCATTGCTTTTGCTTTTTTAAGATGCAACTGAATCCAGAAATCTTTCTTATCACGTTCTGTAATTTTCTTAGTATCCATCTTGATTAGCTTTGATAACTTTTCAGCCGTATCCAACa > 1:314691/1‑141 (MQ=255)
aCATAGCTTGTTCTTTTGTCATCATTGCTTTTGCTTTTTTAAGATGCAACTGAATCCAGAAATCTTTCTTATCACGTTCTGTAATTTTCTTAGTATCCATCTTGATTAGCTTTGATAACTTTTCAGCCGTATCCAACAttt > 2:24064/1‑141 (MQ=255)
tGTTCTTTTGTCATCATTGCTTTTGCTTTTTTAAGATGCAACTGAATCCAGAAATCTTTCTTATCACGTTCTGTAATTTTCTTAGTATCCAACTTGATTAGCTTTGATAACTTTTCAGCCGTATCCAACATTTCCGATtgt > 1:239251/1‑141 (MQ=255)
tttGTCATCATTGCTTTTGCTTTTTTATTTTGCAACTGAATCCAGAAATCTTTCTTATCACGTTCTGTAATTTTCTTAGTATCCATCTTGATTAGCTTTGATAACTTTTCAGCCGTATCCAACATTTCCGATTGTgttgtt > 2:135580/1‑141 (MQ=255)
tttGTCATCATTGCTTTTGCTTTTTTAAGATGCAACTGAATCCAGAAATCTTTCTTATCACGTTCTGTAATTTTCTTAGTATTCATCTTGATTAGCTTTGATAACTTTTCAGCCGTATCCAACATTTCCGATTGTgttgtt < 2:23160/141‑1 (MQ=255)
tatTGCTTTTCCATCTTTAAGATCCATCTAAACTGAGACATCTGTATTCTCTCGTTCTGTAATTTTATATGTAAACAACTATAATAGCTTTGATAACTTTTCAGCCTTATCCAATAGTTCCGATTGGGTTGtttttgtacc < 2:191926/140‑6 (MQ=255)
ttgcttttTTAAGATGCAACTGAATCCAGAAATCTTTCTTATCACGTTCTGTAATTTTCTTAGTATCCATCTTGATTAGCTTTGATAACTTTTCAGCCGTATCCAACATTTCCGATTGTGTTGTTTTTCGACCCCTAGtat < 1:402683/141‑1 (MQ=255)
cttttTTAAGATGCAACTGAATCCAGAAATCTTTCTTATCACGTTCTGTAATTTTCTTAGTATCCATCTTGATTAGCTTTGATAACTTTTCAGCCGTATCCAACATTTCCGATTGTGTTGTTTTTCGACCCCTAGTATATg > 2:1678/1‑141 (MQ=255)
|
TTTAGAAGACAATTCATCTAATTGTGATTTTCCGATTTTCGATAACAGTTGTTTATCATATTGATCTTGTTTAATACTTCCATCTGCTAACATAGCTTGTTCTTTTGTCATCATTGCTTTTGCTTTTTTAGGATGCAACTGAATCCAGAAATCTTTCTTATCACGTTCTGTAATTTTCTTAGTATCCATCTTGATTAGCTTTGATAACTTTTCAGCCGTATCCAACATTTCCGATTGTGTTGTTTTTCGACCCCTAGTATATG > CP000730/1663875‑1664137
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
