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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,814,333 |
A→G |
31.7% |
intergenic (‑418/‑12) |
yjcB ← / → yjcC |
predicted inner membrane protein/predicted signal transduction protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,814,333 | 0 | A | G | 31.7%
| 52.1
/ 29.6
| 63 | intergenic (‑418/‑12) | yjcB/yjcC | predicted inner membrane protein/predicted signal transduction protein |
| Reads supporting (aligned to +/- strand): ref base A (21/22); new base G (13/7); total (34/29) |
| Fisher's exact test for biased strand distribution p-value = 2.84e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.89e-01 |
AAGATTTATCTAAAGACGTCGGTACCCAGGGTTTTCACCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGACACCAATTACTGGCGTTGCCGGGCATTATCTTTTTAGTT > minE/2814266‑2814401
|
aaGATTTATCTAAAGACGTCGGTACCCAGGGTTTTCACCTTGCAATGGCCGGGTATAAACAGGCAGGaa > 1:659808/1‑69 (MQ=255)
aaGATTTATCTAAAGACGTCGGTACCAAGGGTTTTCACCTTGCAATGGCCGGGTATAAACAGGCAGGaa > 1:603210/1‑69 (MQ=255)
cGGTAGCCAGGG‑TTTCACCTTGCAATAACCGGGTATAAACAGGCAGGGAATTGATAGCATTGAGTCATc > 1:3080792/1‑69 (MQ=255)
cGGTAGCCAGGG‑TTTCACCTTGCAATAACCGGGTATAAACAGGCAGGGAATTGATAGCAATGAGTCATc > 1:1021446/1‑69 (MQ=255)
cGGTAGCCAGGG‑TTTCACCTTGCAATAACCGGGTATAAACAGGCAGGGAATTGATAGCAATGAGTCATc > 1:3369078/1‑69 (MQ=255)
cGGTAGCCAGGG‑TTTCACCTTGCAATAACCGGGTATAAACAGGCAGGGAATTGATAGCAATGAGTCATc > 1:2281768/1‑69 (MQ=255)
cGGTAGCCAGGG‑TTTCACCTTGCAATAACCGGGTATAAACAGGCAGGGAATTGATAGCAATGAGTCATc > 1:322369/1‑69 (MQ=255)
cGGTAGCCAGGG‑TTTCACCTTGCAATAACCGGGTATAAACAGGCAGGGAATTGATAGCAATGAGTCATc > 1:1760979/1‑69 (MQ=255)
cGGTAGCCAGGG‑TTTCACCTTGCAATAACCGGGTATAAACAGGCAGGGAATTGATAGCAATGAGTCATc > 1:355684/1‑69 (MQ=255)
cGGTAGCCAGGG‑TTTCACCTTGCAATAACCGGGTATAAACAGGCAGGGAATTGATAGCAATGAGTCATc > 1:3187634/1‑69 (MQ=255)
cGGTAGCCAGGG‑TTTCACCTTGCAATAACCGGGTATAAACAGGCAGGGAATTGATAGCAATGAGTCATc > 1:3108455/1‑69 (MQ=255)
cGGTAGCCAGGG‑TTTCACCTTGCAATAACCGGGTATAAACAGGCAGGGAATTGATAGCAATGAGTCATc > 1:1478700/1‑69 (MQ=255)
cGGTAGCCAGGG‑TTTCACCTTGCAATAACCGGGTATAAACAGGCAGGGAATTGATAGCAATGAGTCATc > 1:488769/1‑69 (MQ=255)
cGGTAGCCAGGG‑TTTCACCTTGCAATAACCGGGTATAAACAGGCAGGGAATTGATAGCAATGAGTCATc > 1:2594754/1‑69 (MQ=255)
cGGTAGCCAGGG‑TTTCACCTTGCAATAACCGGGTATAAACAGGCAGGGAATTGATAGCAATGAGTCATc > 1:656043/1‑69 (MQ=255)
aCCCAGGGTTTTCACCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTg < 1:3097213/69‑1 (MQ=255)
aCCCAGGGTTTTCACCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTg < 1:3093138/69‑1 (MQ=255)
aCCCAGGGTTTTCACCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTg < 1:1976477/69‑1 (MQ=255)
aCCCAGGGTTTTCACCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTg < 1:1119463/69‑1 (MQ=255)
ttttCACCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGc > 1:2554444/1‑62 (MQ=255)
ttttCACCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGaca > 1:2074376/1‑68 (MQ=255)
ttttCACCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGaca > 1:3316117/1‑68 (MQ=255)
ttttCACCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGaca > 1:1969554/1‑68 (MQ=255)
ttttCACCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGaca > 1:2289377/1‑68 (MQ=255)
ttttCACCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGaca > 1:2432490/1‑68 (MQ=255)
ttttCACCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGaca > 1:464038/1‑68 (MQ=255)
ttttCACCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGaca > 1:501819/1‑68 (MQ=255)
ttttCACCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGaca > 1:908047/1‑68 (MQ=255)
aCCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGATACCAAt < 1:439765/68‑1 (MQ=255)
aCCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGACACCAAt < 1:3404393/68‑1 (MQ=255)
aCCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGACACCAAt < 1:2876235/68‑1 (MQ=255)
aCCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGACACCAAt < 1:3421042/68‑1 (MQ=255)
aCCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGACACCAAt < 1:458023/68‑1 (MQ=255)
aCCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGACACCAAt < 1:3002310/68‑1 (MQ=255)
aCCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGACACCAAt < 1:2911339/68‑1 (MQ=255)
aCCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGACACCAAt < 1:1272227/68‑1 (MQ=255)
aCCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGACACCAAt < 1:249436/68‑1 (MQ=255)
aCCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGACACCAAt < 1:1329331/68‑1 (MQ=255)
aCCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGACACCAAt < 1:1365494/68‑1 (MQ=255)
aCCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGACACCAAt < 1:1663858/68‑1 (MQ=255)
aCCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGACACCAAt < 1:1890428/68‑1 (MQ=255)
aCCTTG‑AATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGACACCAAtt < 1:2380075/68‑1 (MQ=255)
taAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGACACCAATTACTGGCGTTGCCGGGCa > 1:1013706/1‑67 (MQ=255)
taAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGACACCAATTACTGGCGTTGCCGGGCa > 1:3384393/1‑67 (MQ=255)
taAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGACACCAATTACTGGCGTTGCCGGGCAtt > 1:915771/1‑69 (MQ=255)
taAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGACACCAATTACTGGCGTTGCCGGGCAtt > 1:76484/1‑69 (MQ=255)
taAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGACACCAATTACTGGCGTTGCCGGGCAtt > 1:742937/1‑69 (MQ=255)
taAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGACACCAATTACTGGCGTTGCCGGGCAtt > 1:3234347/1‑69 (MQ=255)
taAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGACACCAATTACTGGCGTTGCCGGGCAt > 1:2005615/1‑68 (MQ=255)
taAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGACACCAATTACTGGCGTTGCCGGGCAt > 1:2624632/1‑68 (MQ=255)
taAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGACACCAATTACTGGCGTTGCCGGGCAt > 1:3434512/1‑68 (MQ=255)
aaCAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGACACCAATTACTGGCGTTGCCGGGCATTa < 1:245130/68‑1 (MQ=255)
aaCAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGACACCAATTACTGGCGTTGCCGGGCATTa < 1:1734054/68‑1 (MQ=255)
caggcaggAAATTGATAGCAATGAGTCATCGTGCACGACACCAATTACTGGCGTTGCCGGGCATTATCt > 1:2242775/1‑69 (MQ=255)
caggcaggAAATTGATAGCAATGAGTCATCGTGCACGACACCAATTACTGGCGTTGCCGGGCATTATCt > 1:516627/1‑69 (MQ=255)
caggcaggAAATTGATAGCAATGAGTCATCGTGCACGACACCAATTACTGGCGTTGCCGGGCATTATCt > 1:1180577/1‑69 (MQ=255)
ggcaggGAATTGATAGCAATGAGTCATCGTGCACGACACCAATTACTGGCGTTTCCGGGCATTATCttt < 1:1727869/69‑1 (MQ=255)
ggcaggGAATTGATAGCAATGAGTCATCGTGCACGACACCAATTACTGGCGTTTCCGGGCATTATCttt < 1:1334811/69‑1 (MQ=255)
ggcaggGAATTGATAGCAATGAGTCATCGTGCACGACACCAATTACTGGCGTTTCCGGGCATTATCttt < 1:2132565/69‑1 (MQ=255)
ggcaggGAATTGATAGCAATGAGTCATCGTGCACGACACCAATTACTGGCGTTTCCGGGCATTATCttt < 1:2515618/69‑1 (MQ=255)
ggcaggGAATTGATAGCAATGAGTCATCGTGCACGACACCAATTACTGGCGTTTCCGGGCATTATCttt < 1:1237195/69‑1 (MQ=255)
ggcaggGAATTGATAGCAATGAGTCATCGTGCACGACACCAATTACTGGCGTTTCCGGGCATTATCttt < 1:1150389/69‑1 (MQ=255)
ggcaggGAATTGATAGCAATGAGTCATCGTGCACGACACCAATTACTGGCGTTTCCGGGCATTATCttt < 1:3032852/69‑1 (MQ=255)
gcaggAAATTGATAGCAATGAGTCATCGTGCACGACACCAATTACTGGCGTTGCCGGGCATTATCtttt < 1:724717/69‑1 (MQ=255)
gcaggAAATTGATAGCAATGAGTCATCGTGCACGACACCAATTACTGGCGTTGCCGGGCATTATCtttt < 1:3353566/69‑1 (MQ=255)
aaaTTGATAGCAATGAGTCATCGTGCACGACACCAATTACTGGCGTTGCCGGGCATTATCTTTTTAGtt > 1:2810907/1‑69 (MQ=255)
|
AAGATTTATCTAAAGACGTCGGTACCCAGGGTTTTCACCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTGCACGACACCAATTACTGGCGTTGCCGGGCATTATCTTTTTAGTT > minE/2814266‑2814401
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
