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 |
2,243,208 |
C→T |
37.0% |
V130V (GTG→GTA) |
nfi ← |
endonuclease V |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,243,208 | 0 | C | T | 37.0%
| 31.1
/ 30.8
| 54 | V130V (GTG→GTA) | nfi | endonuclease V |
| Reads supporting (aligned to +/- strand): ref base C (17/17); new base T (13/7); total (30/24) |
| Fisher's exact test for biased strand distribution p-value = 3.96e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.64e-01 |
AGTGGGGCCAGCGCGCCCGGTTCGCTGGAGAGCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCGGCACATCCACCAATAAGCCAAAATGGCTGGCGACGCCAAGACGGCGAG > minE/2243143‑2243269
|
aGTGGGGCCAGCGCGCCCGGTTCGCTGGAGAGCGGTTCGAATTTACCGCAGAGCCGTTTTTTcgccac > 1:969535/1‑68 (MQ=255)
aGTGGGGCCAGCGCGCCCGGTTCGCTGGAGAGCGGTTCGAATTTACCGCAGAGCCGTTTTTTcgccac > 1:432495/1‑68 (MQ=255)
tGGGGCCAGCGCGCCCGGTTCGCTGGAGAGCGGTTCGAATTTACCGCAGAGCCGTTTTTTcgccacgcc < 1:2384593/69‑1 (MQ=255)
gggCCAGCGCGCCCGGTTCGCTGGAGAGCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCaa < 1:2835287/69‑1 (MQ=255)
aGCGCGCCCGGTTCGCTGGAGAGCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTc < 1:2366183/69‑1 (MQ=255)
cgcgcCCGGTTCGCTGGAGAGCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCgg < 1:467024/69‑1 (MQ=255)
cgcgcCCGGTTCGCTGGAGAGCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCgg < 1:1790329/69‑1 (MQ=255)
cgcgcCCGGTTCGCTGGAGAGCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGGCgg < 1:2779122/69‑1 (MQ=255)
gcCCGGTTCGCTGGAGAGCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCGGcac < 1:2635152/69‑1 (MQ=255)
gcCCGGTTCGCTGGAGAGCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCGGcac < 1:2340450/69‑1 (MQ=255)
gcCCGGTTCCCTGGAGAGCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCGGcac < 1:3178680/69‑1 (MQ=255)
cccGGTTCGCTGGAGAGCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCGGcac < 1:503125/68‑1 (MQ=255)
cccGGTTCGCTGGAGAGCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCGGcac < 1:2015350/68‑1 (MQ=255)
cccGGTTCGCTGGAGAGCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCGGcac < 1:2859660/68‑1 (MQ=255)
cGCTGGAGAGCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCGGCACATccacc > 1:2124378/1‑68 (MQ=255)
cGCTGGAGAGCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCGGCACATccacc > 1:2125619/1‑68 (MQ=255)
cGCTGGAGAGCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCGGCACATccacc > 1:3069927/1‑68 (MQ=255)
tGGATAGCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCTACGCCAATGGTCGGCACATCCACCAATa < 1:1771896/69‑1 (MQ=255)
tGGAGAGCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCTACGCCAATGGTCGGCACATCCACCAATa < 1:2496383/69‑1 (MQ=255)
tGGAGAGCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCTACGCCAATGGTCGGCACATCCACCAATa < 1:141944/69‑1 (MQ=255)
tGGAGAGCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCTACGCCAATGGTCGGCACATCCACCAATa < 1:3286401/69‑1 (MQ=255)
tGGAGAGCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCTACGCCAATGGTCGGCACATCCACCAATa < 1:631803/69‑1 (MQ=255)
agCGGTTCGAATTTACCGCAGAGCCGTTTTTTcgcc > 1:777575/1‑36 (MQ=255)
agCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCgg > 1:121536/1‑50 (MQ=255)
agCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCgg > 1:432184/1‑50 (MQ=255)
agCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCGGCACATCCACCAATAAGcc > 1:86983/1‑68 (MQ=255)
agCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCGGCACATCCACCAATAAGcc > 1:736623/1‑68 (MQ=255)
agCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCGGCACATCCACCAATAAGcc > 1:1179804/1‑68 (MQ=255)
agCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCGGCACATCCACCAATAAGcc > 1:1069291/1‑68 (MQ=255)
agCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCGGCACATCCACCAATAAGcc > 1:330693/1‑68 (MQ=255)
agCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCGGCACATCCACCAATAAGcc > 1:1620291/1‑68 (MQ=255)
agCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCGGCACATCCACCAATAAGcc > 1:3178358/1‑68 (MQ=255)
gCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCGGCACATCCACCAATAAGCCaa < 1:1110886/69‑1 (MQ=255)
gCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCGGCACATCCACCAATAAGCCaa < 1:359471/69‑1 (MQ=255)
cGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGt > 1:790268/1‑45 (MQ=255)
cGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCGGCACCTCCACCAATAAGCCaaa > 1:1496367/1‑69 (MQ=255)
cGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCGGCACATCCACCAATAAGCCaa > 1:965546/1‑68 (MQ=255)
tttACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCGGCACATCCACCAATAAGCCAAAAtggctggc < 1:2398984/69‑1 (MQ=255)
tttACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCGGCACATCCACCAATAAGCCAAAAtggctggc < 1:3006019/69‑1 (MQ=255)
ttACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCGGCACATCCACCAATAAGCCAAAAtggctggc < 1:2722536/68‑1 (MQ=255)
cAGAGCCGTTTTTTCGCTACGCCAATGGTCGGCACATCCACCAATa < 1:387095/46‑1 (MQ=255)
agagCCGTTTTTTCGCCACGCCAATGGTCGGCACATCCACCAATAAGCCAAAATGTCTGGCGACGCCaa < 1:2285851/69‑1 (MQ=255)
tttttCGCTACGCCAATGGTCGGCACATCCACCAATa < 1:2571964/37‑1 (MQ=255)
ttttCGCTACGCCAATGGTCGGCACATCCACCAATa > 1:705485/1‑36 (MQ=255)
ttttCGCTACGCCAATGGTCGGCACATCCACCAATAAGCCAAAATGGCTGGCTACGCCAAGACGGCGAg > 1:1329473/1‑69 (MQ=255)
ttttCGCTACGCCAATGGTCGGCACATCCACCAATAAGCCAAAATGGCTGGCTACGCCAAGACGGCGAg > 1:2180075/1‑69 (MQ=255)
ttttCGCTACGCCAATGGTCGGCACATCCACCAATAAGCCAAAATGGCTGGCTACGCCAAGACGGCGAg > 1:2504255/1‑69 (MQ=255)
ttttCGCTACGCCAATGGTCGGCACATCCACCAATAAGCCAAAATGGCTGGCTACGCCAAGACGGCGAg > 1:1807434/1‑69 (MQ=255)
ttttCGCTACGCCAATGGTCGGCACATCCACCAATAAGCCAAAATGGCTGGCTACGCCAAGACGGCGAg > 1:2368963/1‑69 (MQ=255)
ttttCGCTACGCCAATGGTCGGCACATCCACCAATAAGCCAAAATGGCTGGCTACGCCAAGACGGCGAg > 1:720447/1‑69 (MQ=255)
ttttCGCTACGCCAATGGTCGGCACATCCACCAATAAGCCAAAATGGCTGGCTACGCCAAGACGGCGAg > 1:684733/1‑69 (MQ=255)
ttttCGCTACGCCAATGGTCGGCACATCCACCAATAAGCCAAAATGGCTGGCTACGCCAAGACGGCGAg > 1:2183922/1‑69 (MQ=255)
ttttCGCTACGCCAATGGTCGGCACATCCACCAATAAGCCAAAATGGCTGGCTACGCCAAGACGGCGAg > 1:1517756/1‑69 (MQ=255)
ttttCGCTACGCCAATGGTCGGCACATCCACCAATAAGCCAAAATGGCTGGCTACGCCAAGACGGCGAg > 1:39435/1‑69 (MQ=255)
ttttCGCTACGCCAATGGTCGGCACATCCACCAATAAGCCAAAATGGCTGGCTACGCCAAGACGGCGAg > 1:378381/1‑69 (MQ=255)
ttttCGCTACGCCAATGGTCGGCACATCCACCAATAAGCCAAAATGGCTGGCTACGCCAAGACGGCGAg > 1:3163085/1‑69 (MQ=255)
ttttCGCCACGCCAATGGTCGGCACATCCACCAATAAGCCAAAAtggctg > 1:634270/1‑50 (MQ=255)
ttttCGCCACGCCAATGGTCGGCACATCCACCAATAAGCCAAAATGGCTGGCGACGCCAAGACGGCGAg > 1:2849295/1‑69 (MQ=255)
|
AGTGGGGCCAGCGCGCCCGGTTCGCTGGAGAGCGGTTCGAATTTACCGCAGAGCCGTTTTTTCGCCACGCCAATGGTCGGCACATCCACCAATAAGCCAAAATGGCTGGCGACGCCAAGACGGCGAG > minE/2243143‑2243269
|
| 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
