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 |
2,814,290 |
C→G |
59.7% |
intergenic (‑375/‑55) |
yjcB ← / → yjcC |
predicted inner membrane protein/predicted signal transduction protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,814,290 | 0 | C | G | 59.7%
| 29.0
/ 54.1
| 57 | intergenic (‑375/‑55) | yjcB/yjcC | predicted inner membrane protein/predicted signal transduction protein |
| Reads supporting (aligned to +/- strand): ref base C (14/9); new base G (27/7); total (41/16) |
| Fisher's exact test for biased strand distribution p-value = 1.45e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.47e-01 |
CAGGCAAAAGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTACCCAGGGTTTTCACCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTG > minE/2814241‑2814357
|
cAGGCAAAAGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTACCCa > 1:939433/1‑53 (MQ=255)
cAGGCAAAAGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTACCCAGGGtttt > 1:961534/1‑60 (MQ=255)
cAGGCAAAAGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTACCCAGGGtttt > 1:3380283/1‑60 (MQ=255)
cAGGCAAAAGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTACCCAGGGtttt > 1:1871432/1‑60 (MQ=255)
cAGGCAAAAGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTACCCAGGGtttt > 1:419139/1‑60 (MQ=255)
cAGGCAAAAGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTACCCAGGGtttt > 1:1295836/1‑60 (MQ=255)
cAGGCAAAAGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTACCCAGGGtttt > 1:1158801/1‑60 (MQ=255)
cAGGCAAAAGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTACCCAGGGTTTTCACCTTGCa > 1:1552646/1‑69 (MQ=255)
cAGGCAAAAGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTACCCAGGGTTTTCACCTTGCa > 1:257376/1‑69 (MQ=255)
cAGGCAAAAGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTACCCAGGGTTTTCACCTTGCa > 1:3232746/1‑69 (MQ=255)
cAGGCAAAAGTGATATTTATACCGTAAGATTTATCTAAAGACGTCGGTAc > 1:3189635/1‑50 (MQ=255)
aGGCAAAAGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTAGCCAGGGt > 1:1415400/1‑56 (MQ=255)
aGGCAAAAGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTAGCCAGGGt > 1:3035270/1‑56 (MQ=255)
aGGCAAAAGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTAGCCAGGGt > 1:270162/1‑56 (MQ=255)
aGGCAAAAGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTAGCCAGGGt > 1:3095417/1‑56 (MQ=255)
aGGCAAAAGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTAGCCAGGGt > 1:2459305/1‑56 (MQ=255)
aGGCAAAAGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTAGCCAGGGt > 1:2311706/1‑56 (MQ=255)
aGGCAAAAGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTAGCCAGGGt > 1:2239490/1‑56 (MQ=255)
aGGCAAAAGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTAGCCAGGGt > 1:1997933/1‑56 (MQ=255)
aGGCAAAAGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTAGCCAGGGt > 1:1995520/1‑56 (MQ=255)
aGGCAAAAGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTAGCCAGGGt > 1:324184/1‑56 (MQ=255)
aGGCAAAAGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTAGCCAGGGt > 1:1227565/1‑56 (MQ=255)
aGGCAAAAGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTAGCCAGGGt > 1:532623/1‑56 (MQ=255)
aGGCAAAAGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTAGCCAGGGt > 1:621900/1‑56 (MQ=255)
aGGCAAAAGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTAGCCAGGGt > 1:1342838/1‑56 (MQ=255)
aGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTAGCCAGGG‑TTTCACCTTGCAATAACCggg < 1:3238308/69‑1 (MQ=255)
aGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTAGCCAGGG‑TTTCACCTTGCAATAACCggg < 1:2987433/69‑1 (MQ=255)
aGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTAGCCAGGG‑TTTCACCTTGCAATAACCggg < 1:578851/69‑1 (MQ=255)
aGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTAGCCAGGG‑TTTCACCTTGCAATAACCggg < 1:2724986/69‑1 (MQ=255)
aGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTAGCCAGGG‑TTTCACCTTGCAATAACCggg < 1:1905066/69‑1 (MQ=255)
aGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTAGCCAGGG‑TTTCACCTTGCAATAACCggg < 1:2693249/69‑1 (MQ=255)
tataCCGTAAGATTTATCTAAAGACGTCGGTACCCAGGGTTTTCACCTTGCAATGGCCGGGtata < 1:403885/65‑1 (MQ=255)
tataCCGTAAGATTTATCTAAAGACGTCGGTACCCAGGGTTTTCACCTTGCAATGGCCGGGtata < 1:2711607/65‑1 (MQ=255)
tataCCGTAAGATTTATCTAAAGACGTCGGTACCCAGGGTTTTCACCTTGCAATGGCCGGGTATAAAca > 1:1488352/1‑69 (MQ=255)
aaGATTTATCTAAAGACGTCGGTACCCAGGGTTTTCACCTTGCAATGGCCGGGTATAAACAGGCAGGaa > 1:659808/1‑69 (MQ=255)
aaGATTTATCTAAAGACGTCGGTACCAAGGGTTTTCACCTTGCAATGGCCGGGTATAAACAGGCAGGaa > 1:603210/1‑69 (MQ=255)
ttATCTAAAGACGTCGGTACCCAGGGTTTTCACCTTGCa > 1:1515769/1‑39 (MQ=255)
ttATCTAAAGACGTCGGTACCCAGGGTTTTCACCTTGCa < 1:1978052/39‑1 (MQ=255)
ttATCTAAAGACGTCGGTACCCAGGGTTTTCACCTTGCa < 1:465300/39‑1 (MQ=255)
tATCTAAAGACGTCGGTACCCAGGGTTTTCACCTTGCa < 1:1644111/38‑1 (MQ=255)
aCGTCGGTAGCCAGGG‑TTTCACCTTGCAATAACCggg < 1:461719/37‑1 (MQ=255)
cGGTAGCCAGGG‑TTTCACCTTGCAATAACCGGGTATAAACAGGCAGGGAATTGATAGCATTGAGTCATc > 1:3080792/1‑69 (MQ=255)
cGGTAGCCAGGG‑TTTCACCTTGCAATAACCGGGTATAAACAGGCAGGGAATTGATAGCAATGAGTCATc > 1:1478700/1‑69 (MQ=255)
cGGTAGCCAGGG‑TTTCACCTTGCAATAACCGGGTATAAACAGGCAGGGAATTGATAGCAATGAGTCATc > 1:656043/1‑69 (MQ=255)
cGGTAGCCAGGG‑TTTCACCTTGCAATAACCGGGTATAAACAGGCAGGGAATTGATAGCAATGAGTCATc > 1:488769/1‑69 (MQ=255)
cGGTAGCCAGGG‑TTTCACCTTGCAATAACCGGGTATAAACAGGCAGGGAATTGATAGCAATGAGTCATc > 1:1021446/1‑69 (MQ=255)
cGGTAGCCAGGG‑TTTCACCTTGCAATAACCGGGTATAAACAGGCAGGGAATTGATAGCAATGAGTCATc > 1:1760979/1‑69 (MQ=255)
cGGTAGCCAGGG‑TTTCACCTTGCAATAACCGGGTATAAACAGGCAGGGAATTGATAGCAATGAGTCATc > 1:355684/1‑69 (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 > 1:2594754/1‑69 (MQ=255)
cGGTAGCCAGGG‑TTTCACCTTGCAATAACCGGGTATAAACAGGCAGGGAATTGATAGCAATGAGTCATc > 1:3187634/1‑69 (MQ=255)
cGGTAGCCAGGG‑TTTCACCTTGCAATAACCGGGTATAAACAGGCAGGGAATTGATAGCAATGAGTCATc > 1:3108455/1‑69 (MQ=255)
aCCCAGGGTTTTCACCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTg < 1:1976477/69‑1 (MQ=255)
aCCCAGGGTTTTCACCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTg < 1:3097213/69‑1 (MQ=255)
aCCCAGGGTTTTCACCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTg < 1:3093138/69‑1 (MQ=255)
aCCCAGGGTTTTCACCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTg < 1:1119463/69‑1 (MQ=255)
|
CAGGCAAAAGTGCTATTTATACCGTAAGATTTATCTAAAGACGTCGGTACCCAGGGTTTTCACCTTGCAATGGCCGGGTATAAACAGGCAGGAAATTGATAGCAATGAGTCATCGTG > minE/2814241‑2814357
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
