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 F8 I0 R2
|
296 |
77.6 |
4260404 |
88.1% |
3753415 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,004,302 |
G→A |
51.3% |
S483F (TCT→TTT) |
hybC ← |
hydrogenase 2, large subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,004,302 | 0 | G | A | 51.3%
| ‑6.1
/ 121.7
| 78 | S483F (TCT→TTT) | hybC | hydrogenase 2, large subunit |
| Reads supporting (aligned to +/- strand): ref base G (19/19); new base A (15/25); total (34/44) |
| Fisher's exact test for biased strand distribution p-value = 3.61e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.77e-01 |
AGAGTTCCAGGTTGATGGAACAACCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAGAGAGCATACCGCGCGGCGCTTCGAGGAAGCCAACACCTTTGAATTCACCCGTTGCCGGAATGTTC > minE/2004232‑2004367
|
agagTTCCAGGTTGATGGAACAACCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTgag < 1:657532/71‑1 (MQ=255)
agagTTCCAGGTTGATGGAACAACCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTgag < 1:2592813/71‑1 (MQ=255)
agagTTCCAGGTTGATGGAACAACCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTgag < 1:3098401/71‑1 (MQ=255)
agTTCCAGGTTGATGGAACAACCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTgagag < 1:1333030/71‑1 (MQ=255)
gTTCCAGGTTGATGGAACAACCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTgaaaga < 1:1795757/71‑1 (MQ=255)
ttCCAGGTTGATGGAACAACCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGaaagag < 1:3398011/71‑1 (MQ=255)
ttCCAGGTTGATGGAACAACCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGaaagag < 1:3558389/71‑1 (MQ=255)
ccAGGTTGATGGAACAACCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAGAGAGCa > 1:896900/1‑71 (MQ=255)
ccAGGTTGATGGAACAACCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAGAGAGCa > 1:112286/1‑71 (MQ=255)
ccAGGTTGATGGAACAACCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAAAGAGCa > 1:336003/1‑71 (MQ=255)
cAGGTTGATGGAACAACCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAGAGAGCAt < 1:3002693/71‑1 (MQ=255)
cAGGTTGATGGAACAACCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAAAGAGCAt < 1:1292300/71‑1 (MQ=255)
cAGGTTGATGGAACAACCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAAAGAGCAt < 1:3475969/71‑1 (MQ=255)
gTTGATGGAACAACCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAAAGAGCa < 1:1664546/67‑1 (MQ=255)
tGATGGAACAACCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAGAGAGCATACcg > 1:2894769/1‑70 (MQ=255)
tGGAACAACCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAGAGAGCATACcgcgcg > 1:3975785/1‑71 (MQ=255)
tGGAACAACCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAGAGAGCATACcgcgc > 1:3367490/1‑70 (MQ=255)
gAACAACCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAAAGAGCATACCGCgcggc > 1:1966547/1‑71 (MQ=255)
acaacCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAGAGAGCATACCGCGCGgcgc > 1:666882/1‑71 (MQ=255)
acaacCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAGAGAGCATACCGCGCGgcgc > 1:2757327/1‑71 (MQ=255)
acaacCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAGAGAGCATACCGCGCGgcgc > 1:233844/1‑71 (MQ=255)
acaacCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAGAGAGCATACCGCGCGgcgc > 1:149713/1‑71 (MQ=255)
caacCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAGAGAGCATACCGCGCGGCGCt > 1:3366590/1‑71 (MQ=255)
caacCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAGAGAGCATACCGCGCGGCGCt > 1:1355308/1‑71 (MQ=255)
caacCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAAAGAGCATACCGCGCGGCGCt < 1:3552034/71‑1 (MQ=255)
caacCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAAAGAGCATACCGCGCGGCGCt < 1:2415114/71‑1 (MQ=255)
caacCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAAAGAGCATACCGCGCGGCGCt < 1:3146843/71‑1 (MQ=255)
aacCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAGAGAGCATAC‑‑CGCGGCGCTTCg < 1:2802897/71‑1 (MQ=255)
acCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAGAGAGCATACCACGCGGCGCTTc < 1:1358542/71‑1 (MQ=255)
acCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAAAGAGCATACCGCGCGGCGCTTc < 1:2064683/71‑1 (MQ=255)
acCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAAAGAGCATACCGCGCGGCGCTTc < 1:1902575/71‑1 (MQ=255)
ccGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAGAGAGCATACCGCGCGGCGCTTCg < 1:2853343/71‑1 (MQ=255)
ccGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAGAGAGCATACCGCGCGGCGCTTCg < 1:1892518/71‑1 (MQ=255)
ccGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAAAGAGCATACCGCGCGGCGCTTc < 1:3500845/70‑1 (MQ=255)
ccGCCTGGTAGTTGCTGATGATACCGTCTTTAATAAACATCCAGTGAGAGAGCATACCGCGCGGCGCTTCg < 1:59807/71‑1 (MQ=255)
cGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAAAGAGCATACCGCGCGGCGCTTc > 1:1807128/1‑69 (MQ=255)
tAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAGAGAGCATACCGCGCGGCGCTTCGAGGAAGcc < 1:3964480/71‑1 (MQ=255)
tAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAGAGAGCATACCGCGCGGCGCTTCGAGGAAGcc < 1:3756188/71‑1 (MQ=255)
tAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAAAGAGCATACCGCGCGGCGCTTCGAGGAAGcc < 1:1673158/71‑1 (MQ=255)
tAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAAAGAGCATACCGCGCGGCGCTTCGAGGAAGcc < 1:4252717/71‑1 (MQ=255)
ttGCTGATGATACCGTCTTTAATAACCATCCAGTGaaagag < 1:669759/41‑1 (MQ=255)
ttGCTGATGATACCGTCTTTAATAACCATCCAGTGaaagag < 1:3058984/41‑1 (MQ=255)
gCTGATGATACCGTCTTTAATAACCATCCAGTGAAAGAGCATACCGCGCGGCGCTTCGAGGAAGCCAaca > 1:961349/1‑70 (MQ=255)
gCTGATGATACCGTCTTTAATAACCATCCAGTGAAAGAGCATACCGCGCGGCGCTTCGAGGAAGCCAaca < 1:3830207/70‑1 (MQ=255)
atgatACCGTCTTTAATAACCATCCAGTGAAAGAGCATACCGCGCGGCGCTTCGAGGAAGCCAACACCttt > 1:3156050/1‑71 (MQ=255)
atgatACCGTCTTTAATAACCATCCAGTGAAAGAGCATACCGCGCGGCGCTTCGAGGAAGCCAACACCttt > 1:442972/1‑71 (MQ=255)
tACCGTCTTTAATAACCATCCAGTGAAAGAGCATACCGCGCGGCGCTTCGAGGAAGCCAACACCTTTGAAt > 1:3510646/1‑71 (MQ=255)
tACCGTCTTTAATAACCATCCAGTGAAAGAGCATACCGCGCGGCGCTTCGAGGAAGCCAACACCTTTGAAt > 1:2507850/1‑71 (MQ=255)
ccGTCTTTAATAACCATCCAGTGAGAGAGCATACCGCGCGGCGCTTCGAGGAAGCCAACACCTTTGAAtt > 1:3396703/1‑70 (MQ=255)
gTCTTTAATAACCATCCAGTGAAAGAGCATACCGCGCGGCGCTTCGAGGAAGCCAACACCTTTGAATTCAc < 1:3926249/71‑1 (MQ=255)
tCTTTAATAACCATCCAGTGAAAGAGCATACCGCGCGGCGCTTCGAGGAAGcc < 1:936907/53‑1 (MQ=255)
tCTTTAATAACCATCCAGTGAAAGAGCATACCGCGCGGCGCTTCGAGGAAGcc < 1:3955265/53‑1 (MQ=255)
tCTTTAATAACCATCCAGTGAAAGAGCATACCGCGCGGCGCTTCGAGGAAGcc < 1:3115646/53‑1 (MQ=255)
cTTTAATAACCATCCAGTGAGAGAGCATACCGCGCGGCGCTTCg < 1:3479314/44‑1 (MQ=255)
tttAATAACCATCCAGTGAAAGAGCATACCGCGCGGCGCTTCGAGGAAGCCaa > 1:415231/1‑53 (MQ=255)
tttAATAACCATCCAGTGAAAGAGCATACCGCGCGGCGCTTCGAGGAAGCCaa > 1:2410470/1‑53 (MQ=255)
aataaCCATCCAGTGAAAGAGCATACCGCGCGGCGCTTCGAGGAAGCCAACACCTTTGAATTCACCCGtt > 1:572628/1‑70 (MQ=255)
ataaCCATCCAGTGAGAGAGCATACCGCGCGGCGCTTCGAGGAAGCCAACACCTTTGAATTCa > 1:2131068/1‑63 (MQ=255)
ataaCCATCCAGTGAGAGAGCATACCGCGCGGCGCTTCGAGGAAGCCAACACCTTTGAATTCa > 1:3600432/1‑63 (MQ=255)
taaCCATCCAGTGAGAGAGCATACCGCGCGGCGCTTc < 1:2971467/37‑1 (MQ=255)
taaCCATCCAGTGAGAGAGCATACCGCGCGGCGCTTc < 1:3860320/37‑1 (MQ=255)
taaCCATCCAGTGAGAGAGCATACCGCGCGGCGCTTc < 1:252302/37‑1 (MQ=255)
taaCCATCCAGTGAGAGAGCATACCGCGCGGCGCTTc < 1:2650152/37‑1 (MQ=255)
taaCCATCCAGTGAGAGAGCATACCGCGCGGCGCTTCGAGGAAGCCAACACCTTTGAATTCACCCGTTGc > 1:3840970/1‑70 (MQ=255)
taaCCATCCAGTGAGAGAGCATACCGCGCGGCGCTTCGAGGAAG‑CAACACCttt > 1:2407506/1‑54 (MQ=255)
taaCCATCCAGTGAAAGAGCATACCGCGCGGCGCTTc < 1:3061568/37‑1 (MQ=255)
taaCCATCCAGTGAAAGAGCATACCGCGCGGCGCTTc < 1:920400/37‑1 (MQ=255)
aaCCATCCAGTGAAAGAGCATACCGCGCGGCGCTTCGAGGaa > 1:1252218/1‑42 (MQ=255)
aaCCATCCAGTGAAAGAGCATACCGCGCGGCGCTTCGAGGaa > 1:1757765/1‑42 (MQ=255)
aaCCATCCAGTGAAAGAGCATACCGCGCGGCGCTTCGAGGaa > 1:840531/1‑42 (MQ=255)
aCCATCCAGTGAGAGAGCATACCGCGCGGCGCTTCGa > 1:153332/1‑37 (MQ=255)
aCCATCCAGTGAAAGAGCATACCGCGCGGCGCTTCGAGGAAGCCAACACCTTTGAATTCACCCGTTGCCgg < 1:3944594/71‑1 (MQ=255)
aCCATCCAGTGAAAGAGCATACCGCGCGGCGCTTCGAGGAAGCCAACACCTTTGAATTCACCCGTTGCCg > 1:175698/1‑70 (MQ=255)
ccATCCAGTGAAAGAGCATACCGCGCGGCGCTTCGAGGAAGCCAACACCTTTGAATTCACCCGTTGCCGGa < 1:2606955/71‑1 (MQ=255)
ccATCCAGTGAAAGAGCATACCGCGCGGCGCTTCGAGGAAGCCAACACCTTTGAATTCACCCGTTGCCGGa < 1:95639/71‑1 (MQ=255)
ccATCCAGTGAAAGAGCATACCGCGCGGCGCTTCGAGGAAGCCAACACCTTTGAATTCACCCGTTGCCGGa < 1:1418984/71‑1 (MQ=255)
ccATCCAGTGAAAGAGCATACCGCGCGGCGCTTCGAGGAAGCCAACACCTTTGAATTCACCCGTTGCCGGa < 1:1752829/71‑1 (MQ=255)
ccATCCAGTGAAAGAGCATACCGCGCGGCGCTTCGAGGAAGCCAACACCTTTGAATTCACCCGTTGCCGGa < 1:3821176/71‑1 (MQ=255)
ccATCCAGTAAAAGAGCATACCGCGCGGCGCTTCGAGGAAGCCAACACCTTTGAATTCACCCGTTGCCGGa < 1:1716682/71‑1 (MQ=255)
aTCCAGTGAGAGAGCATACCGCGCGGCGCTTCGAGGAAGCCAACACCTTTGAATTCACCCGTTGCCGGAAt < 1:2345342/71‑1 (MQ=255)
tCCAGTGAGAGAGCATACCGCGCGGCGCTTCGAGGAAGcc < 1:2593495/40‑1 (MQ=255)
ccAGTGAGAGAGCATACCGCGCGGCGCTTCGAGGAAGCCAACACCTTTGAATTCACCCGTTGCCGGAATGt > 1:4124662/1‑71 (MQ=255)
ccAGTGAGAGAGCATACCGCGCGGCGCTTCGAGGAAGCCAACACCTTTGAATTCACCCGTTGCCGGAATGt > 1:1918869/1‑71 (MQ=255)
aGTGAGAGAGCATACCGCGCGGCGCTTCGAGGAAGCCAACACCTTTGAATTCACCCGTTGCCGGAATGTTc < 1:523973/71‑1 (MQ=255)
aGTGAGAGAGCATACCGCGCGGCGCTTCGAGGAAGCCAACACCTTTGAATTCACCCGTTGCCGGAATGTTc < 1:1588384/71‑1 (MQ=255)
aGTGAGAGAGCATACCGCGCGGCGCTTCGAGGAAGCCAACACCTTTGAATTCACCCGTTGCCGGAATGTTc < 1:2182353/71‑1 (MQ=255)
aGTGAGAGAGCATACAGCGCGGCGCTTCGAGGAAGCCAACACCTTTGAATTCACCCGTTGCCGGAATGTTc < 1:171824/71‑1 (MQ=255)
|
AGAGTTCCAGGTTGATGGAACAACCGCCTGGTAGTTGCTGATGATACCGTCTTTAATAACCATCCAGTGAGAGAGCATACCGCGCGGCGCTTCGAGGAAGCCAACACCTTTGAATTCACCCGTTGCCGGAATGTTC > minE/2004232‑2004367
|
| 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
