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 |
1,971,889 |
A→G |
73.7% |
I339I (ATT→ATC) |
speA ← |
biosynthetic arginine decarboxylase, PLP‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,971,889 | 0 | A | G | 73.7%
| 78.9
/ 23.4
| 68 | I339I (ATT→ATC) | speA | biosynthetic arginine decarboxylase, PLP‑binding |
| Reads supporting (aligned to +/- strand): ref base A (13/5); new base G (21/29); total (34/34) |
| Fisher's exact test for biased strand distribution p-value = 5.26e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGATAATGTTGTTGGCGTATTCATTGAGGCCGTAGTTCACCGAACAGTCGGACTGCGAACGAGTACCTTCATA > minE/1971823‑1971957
|
agATTCGGTGATTACCGTCGGATGTGGCAGACCATTTTCTTCACACGCATCACCAATCGCCCAgatgat < 1:275733/68‑1 (MQ=255)
agATTCGGTGATTACCGTCGGATGTGGCAGACCATTTTCTTCACACGCATCACCAATCGCCCAgatgat < 1:2720676/68‑1 (MQ=255)
agATTCGGTGATTACCGTCGGATGTGGCAGACCATTTTCTTCACACGCATCACCAATCGCCCAgatgat < 1:1075123/68‑1 (MQ=255)
agATTCGGTGATTACCGTCGGATGTGGCAGACCATTTTCTTCACACGCATCACCAATCGCCCAgatgat < 1:2828910/68‑1 (MQ=255)
agATTCGGTGATTACCGTCGGATGTGGCAGACCATTTTCTTCACACGCATCACCAATCGCCCAgatgat < 1:2947501/68‑1 (MQ=255)
agATTCGGTGATTACCGTCGGATGTGGCAGACCATTTTCTTCACACGCATCACCAATCGCCCAgatgat < 1:2542734/68‑1 (MQ=255)
agATTCGGTGATTACCGTCGGATGTGGCAGACCATTTTCTTCACACGCATCACCAATCGCCCAgatgat < 1:2988097/68‑1 (MQ=255)
agATTCGGTGATTACCGTCGGATGTGGCAGACCATTTTCTTCACACGCATCACCAATCGCCCAgatgat < 1:2128698/68‑1 (MQ=255)
agATTCGGTGATTACCGTCGGATGTGGCAGACCATTTTCTTCACACGCATCACCAATCGCCCAgatgat < 1:3168578/68‑1 (MQ=255)
agATTCGGTGATTACCGTCGGATGTGGCAGACCATTTTCTTCACACGCATCACCAATCGCCCAgatgat < 1:361707/68‑1 (MQ=255)
agATTCGGTGATTACCGTCGGATGTGGCAGACCATTTTCTTCACACGCATCACCAATCGCCCAgatgat < 1:1681679/68‑1 (MQ=255)
gATTCGGTGATTACCGTCGGATGTGGCAGACCATTTTCTTCACACGCATCACCAATCGCCCAgatgat < 1:982124/68‑1 (MQ=255)
gATTCGGTGATTACCGTCGGATGTGGCAGACCATTTTCTTCACACGCATCACCAATCGCCCAgatgat < 1:2637126/68‑1 (MQ=255)
tCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGATAAtgttg > 1:1436253/1‑69 (MQ=255)
tCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGATAAtgtt > 1:3333425/1‑68 (MQ=255)
tACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGATAATGTTGTTGGCg > 1:1304559/1‑67 (MQ=255)
tACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGATAATGTTGTTGGCGt > 1:3109256/1‑68 (MQ=255)
tACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGATAATGTTGTTGGCGt > 1:257588/1‑68 (MQ=255)
tACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGATAATGTTGTTGGCGt > 1:1391267/1‑68 (MQ=255)
tACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGATAATGTTGTTGGCGt > 1:190338/1‑68 (MQ=255)
tACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGATAATGTTGTTGGCGTa > 1:2424084/1‑69 (MQ=255)
ggCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGATAATGTTGTTGGCGTAtt < 1:3362527/58‑1 (MQ=255)
aCCATTTTCTTCACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGtt > 1:840556/1‑69 (MQ=255)
aCCATTTTCTTCACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGtt > 1:1743462/1‑69 (MQ=255)
tttCTTCACACGCATCGCCAATCGCCCAGATAATGTTGTTGGCGTATTCATTGAGGCCGTAGTTCACCg < 1:653378/69‑1 (MQ=255)
tttCTTCACACGCATCGCCAATCGCCCAGATAATGTTGTTGGCGTATTCATTGAGGCCGTAGTTCACCg < 1:338206/69‑1 (MQ=255)
tcttcACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCGTTGAGGCCGTAGTTTAc < 1:3272108/65‑1 (MQ=255)
tcttcACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTAc < 1:871705/65‑1 (MQ=255)
tcttcACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTAc < 1:2758550/65‑1 (MQ=255)
tcttcACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTAc < 1:799789/65‑1 (MQ=255)
tcttcACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTAc < 1:2838465/65‑1 (MQ=255)
tcttcACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTAc < 1:2873702/65‑1 (MQ=255)
tcttcACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTAc < 1:688253/65‑1 (MQ=255)
tcttcACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTAc < 1:301720/65‑1 (MQ=255)
tcttcACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTAc < 1:3052200/65‑1 (MQ=255)
tcttcACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTAc < 1:3093049/65‑1 (MQ=255)
tcttcACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTAc < 1:592336/65‑1 (MQ=255)
tcttcACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTAc < 1:3194919/65‑1 (MQ=255)
tcttcACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTAc < 1:3380881/65‑1 (MQ=255)
tcttcACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTAc < 1:2753399/65‑1 (MQ=255)
tcttcACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTAc < 1:1125042/65‑1 (MQ=255)
tcttcACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTAc < 1:1350291/65‑1 (MQ=255)
tcttcACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTAc < 1:14841/65‑1 (MQ=255)
tcttcACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTAc < 1:1619740/65‑1 (MQ=255)
tcttcACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTAc < 1:1656996/65‑1 (MQ=255)
tcttcACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTAc < 1:1744018/65‑1 (MQ=255)
tcttcACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTAc < 1:1957408/65‑1 (MQ=255)
tcttcACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTAc < 1:1960460/65‑1 (MQ=255)
tcttcACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTAc < 1:2702946/65‑1 (MQ=255)
tcttcACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTAc < 1:2616220/65‑1 (MQ=255)
tcttcACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTAc < 1:2577680/65‑1 (MQ=255)
cttcACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTAc < 1:2971062/64‑1 (MQ=255)
tcACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTAc < 1:319876/62‑1 (MQ=255)
cacaCGCATCGCCAATCGCCCAGATAATGTTGTTGGCGTATTCATTGAGGCCGTAGTTCACCGATCAGt > 1:2756158/1‑69 (MQ=255)
cacaCGCATCGCCAATCGCCCAGATAATGTTGTTGGCGTATTCATTGAGGCCGTAGTTCACCGAACAGt > 1:255302/1‑69 (MQ=255)
cacaCGCATCGCCAATCGCCCAGATAATGTTGTTGGCGTATTCATTGAGGCCGTAGTTCACCGAACAGt > 1:1919032/1‑69 (MQ=255)
aTCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTAc < 1:1401356/54‑1 (MQ=255)
accAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTAc < 1:2936259/50‑1 (MQ=255)
ccAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTACGGAGCAGTCAGACTGAGaa > 1:3113155/1‑69 (MQ=255)
ccAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTACGGAGCAGTCAGACTGAGaa > 1:902332/1‑69 (MQ=255)
ccAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTACGGAGCAGTCAGACTGAGaa > 1:1196652/1‑69 (MQ=255)
ccAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTACGGAGCAGTCAGACTGAGaa > 1:1229318/1‑69 (MQ=255)
ccAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTACGGAGCAGTCAGACTGAGaa > 1:3010784/1‑69 (MQ=255)
ccAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTACGGAGCAGTCAGACTGAGaa > 1:782268/1‑69 (MQ=255)
ccAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTACGGAGCAGTCAGACTGAGaa > 1:68579/1‑69 (MQ=255)
ccAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTACGGAGCAGTCAGACTGAGaa > 1:2784022/1‑69 (MQ=255)
ccAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTACGGAGCAGTCAGACTGAGaa > 1:529345/1‑69 (MQ=255)
ccAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTACGGAGCAGTCAGACTGAGaa > 1:473729/1‑69 (MQ=255)
ccAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTACGGAGCAGTCAGACTGAGaa > 1:389537/1‑69 (MQ=255)
ccAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTACGGAGCAGTCAGACTGAGaa > 1:380015/1‑69 (MQ=255)
ccAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTACGGAGCAGTCAGACTGAGaa > 1:370606/1‑69 (MQ=255)
ccAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTACGGAGCAGTCAGACTGAGaa > 1:2639000/1‑69 (MQ=255)
ccAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTACGGAGCAGTCAGACTGAGaa > 1:3423026/1‑69 (MQ=255)
ccAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTACGGAGCAGTCAGACTGAGaa > 1:1695219/1‑69 (MQ=255)
ccAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTACGGAGCAGTCAGACTGAGaa > 1:3331415/1‑69 (MQ=255)
ccAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTACGGAGCAGTCAGACTGAGaa > 1:1923788/1‑69 (MQ=255)
ccAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGTTTACGGAGCAGTCAGACTGAGaa > 1:230099/1‑69 (MQ=255)
aaTCGCCCAGATAATGTTGTTGGCGTATTCATTGAGGCCGTAGTTCACCGAACAGTCGGACTGCGAACg < 1:1523618/69‑1 (MQ=255)
aaTCGCCCAGATAATGTTGTTGGCGTATTCATTGAGGCCGTAGTTCACCGAACAGTCGGACTGCGAACg < 1:2124176/69‑1 (MQ=255)
cGCCCAGATAATGTTGTTGGCGTATTCATTGAGGCCGTAGTTCACCGAACAGTCGGACTGCGAACGAGt > 1:2364673/1‑69 (MQ=255)
cGCCCAGATAATGTTGTTGGCGTATTCATTGAGGCCGTAGTTCACCGAACAGTCGGACTGCGAACGAGt > 1:3208619/1‑69 (MQ=255)
aaTGTTGTTGGCGTATTCATTGAGGCCGTAGTTCACCGAACAGTCGGACTGCGAACGAGTACCTTCATa < 1:2483269/69‑1 (MQ=255)
aaTGTTGTTGGCGTATTCATTGAGGCCGTAGTTCACCGAACAGTCGGACTGCGAACGAGTACCTTCATa < 1:2487157/69‑1 (MQ=255)
|
CGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGATAATGTTGTTGGCGTATTCATTGAGGCCGTAGTTCACCGAACAGTCGGACTGCGAACGAGTACCTTCATA > minE/1971823‑1971957
|
| 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
