Your Weeder Web Results

NEW: Starting a large job on file examples/yst10.fasta

Organism code: SC
./weederlauncher.out examples/yst10.fasta SC large


Searching for motifs of length 6 with 1 mutations.....

(Actual commandline is :
./weederTFBS.out -f examples/yst10.fasta -R 50 -O SC -W 6 -e 1 -N -N -T 10 )
1) CCCCAC 1.80
2) CGAAGA 1.45
3) TTTGCG 1.38
4) AAACAC 1.34
5) CTAATG 1.33
6) AAGTGT 1.31
7) GGCAGA 1.31
8) ACGACG 1.31
9) CGGCAG 1.28
10) TAGGAT 1.28

Elapsed time : 0 min. 0 sec.


Searching for motifs of length 8 with 2 mutations.....

(Actual commandline is :
./weederTFBS.out -f examples/yst10.fasta -R 50 -O SC -W 8 -e 2 -N -N -T 10 )
1) GACAAAGT 2.40
2) TCACAATA 2.25
3) CGACGCTA 2.20
4) GTATTTTG 2.18
5) AGATCCAT 2.17
6) TGCGAATA 2.05
7) TTCTAAAA 2.01
8) AAAAGTGT 2.01
9) TAGGTTGA 1.98
10) ATCGTGCT 1.98

Elapsed time : 0 min. 5 sec.


Searching for motifs of length 10 with 3 mutations.....

(Actual commandline is :
./weederTFBS.out -f examples/yst10.fasta -R 50 -O SC -W 10 -e 3 -N -N -T 10 )
1) AGTCACAATA 2.97
2) ACAAAGTTTT 2.85
3) GACAAAGTTT 2.79
4) CTAGTATCCT 2.75
5) ATTACTAGTG 2.67
6) TTATAGAAGA 2.62
7) CCCGAGCCTA 2.58
8) TATTACTAGT 2.54
9) TGGCAGAAGA 2.53
10) TAACCAGTGC 2.51

Elapsed time : 1 min. 36 sec.


Searching for motifs of length 12 with 4 mutations.....

(Actual commandline is :
./weederTFBS.out -f examples/yst10.fasta -R 50 -O SC -W 12 -e 4 -N -N -T 10 )
1) TTGGCGCGGCAG 4.18
2) CTAGTATCCTGT 3.99
3) AGATCGGAGTGT 3.95
4) GACAAAGTTTTG 3.76
5) CTTGATGAACGT 3.65
6) CTTGGTGAACGT 3.63
7) CAGTAAAATACT 3.58
8) TGGCGCGGCAGA 3.56
9) CTATATGATCAC 3.47
10) AACTCATTAAGG 3.46

Elapsed time : 26 min. 36 sec.


Your sequences:

Sequence 1 : > seq_0
Sequence 2 : > seq_1
Sequence 3 : > seq_2
Sequence 4 : > seq_3
Sequence 5 : > seq_4


**** MY ADVICE ****


*** Interesting motifs (highest-ranking) seem to be :


GACAAAGT

1 redundant motifs found:
GACAAAGTTT -

Best occurrences (match percentage):
Seq St oligo pos match
1 + [GTAAAAGT] 46 (88.67)
1 + [AAAAAAGA] 124 (89.00)
1 + [AAAAAAAT] 313 (86.07)
1 + [TACAATGT] 429 (89.27)
1 + [GACAATTT] 696 (86.57)
1 + .GACAAAGT. 752 (100.00)
1 + [AAAAAATT] 926 (86.07)
2 + [AAAAAAAT] 254 (86.07)
2 + [AAAAAATT] 255 (86.07)
2 + [AAGAAACT] 494 (87.24)
2 + [GACGAAGA] 512 (86.50)
2 + .CAAAAAGT. 581 (91.50)
2 + .AAAAAAGT. 730 (95.11)
2 + [GACAGACT] 741 (85.57)
2 + .GACAAAGT. 905 (100.00)
3 + .GGCAAAGT. 12 (92.84)
3 + [AAAAAAGA] 179 (89.00)
3 + [CACAAACT] 298 (88.63)
3 + .GATAAAGT. 333 (91.84)
3 + [GAGAAAGA] 430 (88.89)
3 + [GAGAAAGG] 890 (85.73)
3 + .GCAAAAGT. 900 (90.67)
4 + .GAAAAACT. 296 (92.79)
4 + [GAAGATGT] 389 (86.04)
4 + .AACAATGT. 415 (92.88)
4 + [AAAATAGT] 508 (85.72)
4 + .GAAAATGT. 583 (93.43)
4 + [AACCAAGT] 633 (87.89)
4 + [AGGAAAGT] 664 (85.12)
4 + [AAACAAGT] 804 (85.72)
5 + [GACGATGT] 388 (88.21)
5 + [AACACAGT] 438 (87.89)
5 + .AACAAACT. 474 (92.24)
5 + [ACAAAAGT] 501 (87.95)
5 + [GAAATAGT] 553 (88.44)
5 + [GGGAAAGT] 591 (87.84)
5 + [AAAAAATT] 711 (86.07)
5 + .AAAAAAGT. 747 (95.11)
5 + .AACAAAGA. 861 (91.17)
5 + .GACAAAGT. 909 (100.00)

Frequency Matrix
All Occs Best Occs
ACGT ACGT
1 7 2 18 2| 5 1 8 0
2 24 2 2 1| 12 1 1 0
3 8 17 3 1| 6 7 0 1
4 26 1 2 0| 14 0 0 0
5 26 1 1 1| 14 0 0 0
6 23 0 1 5| 12 0 0 2
7 1 4 23 1| 0 2 12 0
8 3 0 1 25| 1 0 0 13





AGTCACAATA

1 redundant motifs found:
TCACAATA -

Best occurrences (match percentage):
Seq St oligo pos match
1 + [AGTGAAAATT] 79 (88.09)
1 + .AGTAAAAAAA. 309 (90.69)
1 + [AGTTACATCA] 372 (85.73)
1 + .AGTCACAATA. 412 (100.00)
1 + [TGTCCTAATA] 434 (88.24)
2 + [AATTAGAATA] 259 (87.48)
2 + [AGAGAAAAAA] 517 (85.68)
2 + [AATAAAAAAA] 724 (87.06)
2 + [CATAACAATA] 869 (87.48)
3 + [AGGCAAAGTA] 11 (86.02)
3 + .AGTAACATTA. 338 (91.85)
3 + [AGGCACCAAA] 515 (87.12)
3 + [AAATAAAATA] 732 (85.81)
4 + [AGTCAAAAAC] 17 (88.36)
4 + .AGGAAAAATA. 58 (90.13)
4 + [AGTGCGAATA] 809 (87.11)
4 + .AGTCACAATA. 979 (100.00)
5 + .AGTCCCAATA. 239 (96.00)
5 + .TTTCACAATA. 409 (91.80)
5 + [AGATACCATA] 422 (86.84)
5 + [TGTGAAAATA] 569 (89.87)
5 + [AGTCCTAATT] 596 (86.45)
5 + [AAACACAACA] 983 (86.63)

Frequency Matrix
All Occs Best Occs
ACGT ACGT
1 20 2 0 4| 6 0 0 1
2 4 1 18 3| 0 0 6 1
3 3 2 3 18| 0 0 1 6
4 4 16 3 3| 3 4 0 0
5 21 4 1 0| 6 1 0 0
6 6 15 2 3| 2 5 0 0
7 22 3 0 1| 7 0 0 0
8 22 0 1 3| 6 0 0 1
9 4 2 1 19| 1 0 0 6
10 21 2 1 2| 7 0 0 0





TTGGCGCGGCAG

1 redundant motifs found:
TGGCGCGGCAGA -

Best occurrences (match percentage):
Seq St oligo pos match
1 + [TTGTTGCTGGAG] 402 (88.96)
1 + .TTGGCGCGGCAG. 714 (100.00)
3 + [TTGACGAGTCAT] 22 (88.31)
3 + [TTGTAGCAACAT] 636 (86.13)
3 + .TTGGTTCGGCAG. 718 (93.93)
3 + [TTGGCAGGCCAC] 954 (87.33)
4 + .TTATAGCGGCAG. 233 (92.37)
4 + .TTGCAGCGACAT. 555 (90.91)
4 + [TTGCCACCGCAA] 594 (88.89)
4 + [TATACGCAGCAG] 673 (86.16)
5 + [TTAGCGCCACAC] 259 (88.89)
5 + .TTGGGGTGGCAG. 446 (92.02)
5 + [ATGGTGCTGAAG] 825 (86.29)
5 + [TAGCCGGGTCAG] 959 (89.81)

Frequency Matrix
All Occs Best Occs
ACGT ACGT
1 1 0 0 12| 0 0 0 5
2 2 0 0 11| 0 0 0 5
3 2 0 10 1| 1 0 4 0
4 2 3 6 2| 0 1 3 1
5 2 7 1 3| 2 1 1 1
6 2 0 10 1| 0 0 4 1
7 1 9 2 1| 0 4 0 1
8 1 2 8 2| 0 0 5 0
9 2 1 8 2| 1 0 4 0
10 1 11 1 0| 0 5 0 0
11 13 0 0 0| 5 0 0 0
12 1 2 8 2| 0 0 4 1




*** Interesting motifs (not highest-ranking) can also be :


ACAAAGTTTT

2 redundant motifs found:
GACAAAGTTTTG - GACAAAGTTT -

Best occurrences (match percentage):
Seq St oligo pos match
1 + [AAAGTGTTTT] 49 (85.63)
1 + [ATAAAATTTA] 184 (87.61)
1 + [ATAAAGATTT] 214 (89.71)
1 + [ATGATGTTTT] 236 (85.51)
1 + [ACAACCTTTT] 520 (88.75)
1 + [AGAGAGTTTT] 724 (85.25)
1 + .ACAAAGTTTT. 753 (100.00)
1 + [GAAAAGTCTT] 947 (85.85)
2 + .AAGAAGTTTT. 686 (91.40)
2 + .ACAAAGTTTT. 906 (100.00)
3 + [CTAAATTTTT] 81 (86.31)
3 + [ATAAATATTT] 94 (85.17)
3 + [CAAAAGTTTA] 901 (85.52)
4 + [CCAAAGATTT] 219 (86.95)
4 + .ACAATGTTTT. 416 (94.98)
4 + [AAAATGTTAT] 584 (86.92)
5 + [GTAAAGTTAT] 191 (85.12)
5 + [ACACAGTTTG] 439 (85.25)
5 + .AAAAAATTTT. 711 (94.67)
5 + .AAAAATTTTT. 712 (93.13)
5 + .AAAAAGTGTT. 748 (92.35)
5 + .ACAAAGTATT. 910 (92.59)
5 + .ACAACATTTT. 987 (90.29)

Frequency Matrix
All Occs Best Occs
ACGT ACGT
1 36 5 5 3| 9 0 0 0
2 12 26 2 9| 4 5 0 0
3 40 3 5 1| 8 0 1 0
4 41 4 4 0| 9 0 0 0
5 37 4 1 7| 7 1 0 1
6 10 6 27 6| 2 0 6 1
7 4 1 2 42| 0 0 0 9
8 3 5 6 35| 1 0 1 7
9 6 2 1 40| 0 0 0 9
10 5 2 3 39| 0 0 0 9





GACAAAGTTT

3 redundant motifs found:
GACAAAGTTTTG - ACAAAGTTTT - GACAAAGT -

Best occurrences (match percentage):
Seq St oligo pos match
1 + [TATAAAATTT] 183 (89.53)
1 + [AATAAAGATT] 213 (87.10)
1 + [GATATACTTT] 546 (85.83)
1 + .GACAATTTTT. 696 (90.27)
1 + .GACAAAGTTT. 752 (100.00)
2 + [AAAAAAATTA] 254 (86.75)
2 + [CACAATTTTT] 331 (87.01)
2 + .CAAAAAGTTA. 581 (90.71)
2 + [CAAGAAGTTT] 685 (88.80)
2 + [AAAAAAGTGT] 730 (89.20)
2 + [GACAGACTTT] 741 (88.55)
2 + .GACAAAGTTT. 905 (100.00)
3 + [CACAAACTTA] 298 (88.22)
3 + [GATAAAGTAA] 333 (85.55)
3 + .GCAAAAGTTT. 900 (91.15)
4 + .GAAAAACTTA. 296 (90.55)
4 + .AACAATGTTT. 415 (90.97)
4 + [GAAAATGTTA] 583 (88.20)
4 + [GAAGAATTTT] 719 (88.10)
4 + [GATATATTTT] 943 (85.29)
5 + [AACACAGTTT] 438 (86.66)
5 + .TAAAAAATTT. 710 (91.32)
5 + .AAAAAATTTT. 711 (91.86)
5 + [AAAAATTTTT] 712 (86.09)
5 + [AAAAAAGTGT] 747 (89.20)
5 + .GACAAAGTAT. 909 (93.38)

Frequency Matrix
All Occs Best Occs
ACGT ACGT
1 6 6 18 5| 2 1 6 1
2 29 2 2 2| 9 1 0 0
3 11 15 3 6| 5 5 0 0
4 32 0 3 0| 10 0 0 0
5 30 1 2 2| 10 0 0 0
6 28 2 1 4| 8 0 0 2
7 5 6 19 5| 1 1 6 2
8 3 1 0 31| 0 0 0 10
9 3 1 3 28| 1 0 0 9
10 5 1 1 28| 2 0 0 8