Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 252 of 318
Found at i:79441386 original size:15 final size:13
Alignment explanation
Indices: 79441354--79441382 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
79441344 TCAGCAGTGT
79441354 GAGTTCTGGTTAA
1 GAGTTCTGGTTAA
79441367 GAGTTCTGGTTAA
1 GAGTTCTGGTTAA
79441380 GAG
1 GAG
79441383 AGTTAGCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.07, G:0.34, T:0.34
Consensus pattern (13 bp):
GAGTTCTGGTTAA
Found at i:79445264 original size:40 final size:40
Alignment explanation
Indices: 79445205--79445346 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
79445195 AAATTGAATG
* * *
79445205 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
79445245 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
79445285 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
79445325 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
79445347 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:79445347 original size:40 final size:39
Alignment explanation
Indices: 79445244--79445356 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 39
79445234 TGCTGGAAAT
* * *
79445244 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
79445284 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
*
79445324 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGC
79445357 ACGTGATTAT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.05
40 60 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:79452384 original size:40 final size:39
Alignment explanation
Indices: 79452273--79452386 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 39
79452263 TTAATCACGT
* * *
79452273 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
79452313 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
*
79452353 GCACAATTGCCTTCGGGTCTTAACCCGGATATAA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAA
79452387 TTTCCAGCAT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.03
40 61 0.97
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:79455840 original size:18 final size:18
Alignment explanation
Indices: 79455819--79455854 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
79455809 GTACAATGTC
79455819 ATATCCAAGATATGGTCT
1 ATATCCAAGATATGGTCT
79455837 ATATCCAAGATATGGTCT
1 ATATCCAAGATATGGTCT
79455855 TACATGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (18 bp):
ATATCCAAGATATGGTCT
Found at i:79455941 original size:43 final size:43
Alignment explanation
Indices: 79455894--79455987 Score: 102
Period size: 43 Copynumber: 2.2 Consensus size: 43
79455884 CCCGAACAGT
* *
79455894 GTCTTACACAAAATAGATT-A-ACGATGCCAATGTCCTAGACATG
1 GTCTTACACAAAAT--ATTAATACAATGCCAATGTCCCAGACATG
* ** *
79455937 GTCTTGCACGTAATCTTAATACAATGCCAATGTCCCAGACATG
1 GTCTTACACAAAATATTAATACAATGCCAATGTCCCAGACATG
79455980 GTCTTACA
1 GTCTTACA
79455988 TGTAATCACA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
41 2 0.05
42 1 0.02
43 39 0.93
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (43 bp):
GTCTTACACAAAATATTAATACAATGCCAATGTCCCAGACATG
Found at i:79461962 original size:34 final size:34
Alignment explanation
Indices: 79461924--79461996 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 34
79461914 TGCATTCATA
*
79461924 TATAAAACTCATTGAAATCATTCACATTGTCCCT
1 TATAAAACTCATTCAAATCATTCACATTGTCCCT
79461958 TATAAAACTCATTCAAATCATTCACATTGTCCCT
1 TATAAAACTCATTCAAATCATTCACATTGTCCCT
79461992 TATAA
1 TATAA
79461997 GGCTCTATGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.36
Consensus pattern (34 bp):
TATAAAACTCATTCAAATCATTCACATTGTCCCT
Found at i:79471566 original size:5 final size:5
Alignment explanation
Indices: 79471556--79471652 Score: 83
Period size: 5 Copynumber: 18.2 Consensus size: 5
79471546 TGAATCCTCC
79471556 TATTT TATTT TA-TT TATTCT TATTTT TATTT TA--T TATTT TATTTT
1 TATTT TATTT TATTT TATT-T TA-TTT TATTT TATTT TATTT TA-TTT
*
79471601 TATTTT TCTTT TGATTTT TATTT TCATTT TAATTT TATTAT TATTT TATTT
1 TA-TTT TATTT T-A-TTT TATTT T-ATTT T-ATTT TATT-T TATTT TATTT
79471652 T
1 T
79471653 GAAAGACATA
Statistics
Matches: 79, Mismatches: 3, Indels: 20
0.77 0.03 0.20
Matches are distributed among these distances:
3 3 0.04
4 4 0.05
5 34 0.43
6 32 0.41
7 6 0.08
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (5 bp):
TATTT
Found at i:79471590 original size:17 final size:16
Alignment explanation
Indices: 79471556--79471652 Score: 90
Period size: 17 Copynumber: 5.7 Consensus size: 16
79471546 TGAATCCTCC
79471556 TATTTTA-TTTTA-TT
1 TATTTTATTTTTATTT
79471570 TATTCTTATTTTTATTTTAT
1 TATT-TTATTTTTA--TT-T
79471590 TATTTTATTTTTATTTT
1 TATTTTATTTTTA-TTT
*
79471607 TCTTTTGATTTTTATTT
1 TATTTT-ATTTTTATTT
*
79471624 TCATTTTAATTTTATTAT
1 T-ATTTTATTTTTATT-T
79471642 TATTTTATTTT
1 TATTTTATTTT
79471653 GAAAGACATA
Statistics
Matches: 70, Mismatches: 4, Indels: 15
0.79 0.04 0.17
Matches are distributed among these distances:
14 4 0.06
15 3 0.04
16 5 0.07
17 27 0.39
18 16 0.23
19 10 0.14
20 5 0.07
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (16 bp):
TATTTTATTTTTATTT
Found at i:79471597 original size:29 final size:29
Alignment explanation
Indices: 79471560--79471650 Score: 91
Period size: 29 Copynumber: 3.1 Consensus size: 29
79471550 TCCTCCTATT
79471560 TTATTTTA-TTTATTCTTATTTTTATTTTA
1 TTATTTTATTTTATT-TTATTTTTATTTTA
79471589 TTATTTTATTTTTATTTT-TCTTTTGA-TTT-
1 TTATTTTA-TTTTATTTTAT-TTTT-ATTTTA
*
79471618 TTATTTTCATTTTAATTTTATTATTATTTTA
1 TTATTTT-ATTTT-ATTTTATTTTTATTTTA
79471649 TT
1 TT
79471651 TTGAAAGACA
Statistics
Matches: 52, Mismatches: 1, Indels: 16
0.75 0.01 0.23
Matches are distributed among these distances:
29 21 0.40
30 21 0.40
31 10 0.19
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (29 bp):
TTATTTTATTTTATTTTATTTTTATTTTA
Found at i:79471619 original size:7 final size:6
Alignment explanation
Indices: 79471568--79471652 Score: 77
Period size: 6 Copynumber: 14.3 Consensus size: 6
79471558 TTTTATTTTA
* * *
79471568 TTTATT CTTATT TTTA-T TTTATTAT TTTATT TTTATT TTTCTT TTGATT
1 TTTATT TTTATT TTTATT TTTA-T-T TTTATT TTTATT TTTATT TTTATT
* * *
79471617 TTTATT TTCA-T TTTAAT TTTATT ATTA-T TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT
79471653 GAAAGACATA
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
5 13 0.21
6 44 0.70
7 1 0.02
8 5 0.08
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:79483622 original size:41 final size:41
Alignment explanation
Indices: 79483577--79483694 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
79483567 TGAAAGATAA
79483577 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
79483618 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
79483648 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
79483689 ATGTAG
1 ATGTAG
79483695 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:79483633 original size:71 final size:71
Alignment explanation
Indices: 79483545--79483708 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
79483535 GAGATGTATC
79483545 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
79483610 AGGACA
66 AGGACA
79483616 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
79483681 AGGACA
66 AGGACA
79483687 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
79483709 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:79490204 original size:13 final size:13
Alignment explanation
Indices: 79490188--79490220 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
79490178 TTTAATTAAA
*
79490188 TTAGTTAATTAGT
1 TTAGATAATTAGT
79490201 TTAGATAATTAGT
1 TTAGATAATTAGT
79490214 TTA-ATAA
1 TTAGATAA
79490221 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:79495529 original size:17 final size:16
Alignment explanation
Indices: 79495507--79495538 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
79495497 TCATTGAATC
79495507 TTCTTATTTTTTATTTA
1 TTCTTA-TTTTTATTTA
79495524 TTCTTATTTTTATTT
1 TTCTTATTTTTATTT
79495539 TATTTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (16 bp):
TTCTTATTTTTATTTA
Found at i:79495540 original size:17 final size:17
Alignment explanation
Indices: 79495507--79495587 Score: 71
Period size: 17 Copynumber: 4.9 Consensus size: 17
79495497 TCATTGAATC
79495507 TTCTTATTTTT-TATTTA
1 TTCTTATTTTTAT-TTTA
79495524 TTCTTATTTTTATTTTA
1 TTCTTATTTTTATTTTA
79495541 -T-TTA-TTTTATTTTA
1 TTCTTATTTTTATTTTA
* * *
79495555 TTTTTCTTTTTCTTTTGA
1 TTCTTATTTTTATTTT-A
* *
79495573 TTTTTATTTTCATTT
1 TTCTTATTTTTATTT
79495588 CAATTTTATT
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
14 10 0.19
15 4 0.07
16 3 0.06
17 23 0.43
18 14 0.26
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.78
Consensus pattern (17 bp):
TTCTTATTTTTATTTTA
Found at i:79495541 original size:5 final size:5
Alignment explanation
Indices: 79495515--79495608 Score: 61
Period size: 5 Copynumber: 18.0 Consensus size: 5
79495505 TCTTCTTATT
*
79495515 TTTTA -TTTA TTCTTA TTTTTA TTTTA -TTTA TTTTA TTTTA TTTTTCT
1 TTTTA TTTTA TT-TTA -TTTTA TTTTA TTTTA TTTTA TTTTA -TTTT-A
* *
79495562 TTTTC TTTTGA TTTTTA TTTTCA TTTCAA TTTTA --TTA TTTTA TTTTA
1 TTTTA TTTT-A -TTTTA TTTT-A TTT-TA TTTTA TTTTA TTTTA TTTTA
79495609 AAAGACATAT
Statistics
Matches: 72, Mismatches: 5, Indels: 24
0.71 0.05 0.24
Matches are distributed among these distances:
3 3 0.04
4 8 0.11
5 32 0.44
6 23 0.32
7 6 0.08
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:79495547 original size:25 final size:25
Alignment explanation
Indices: 79495516--79495608 Score: 82
Period size: 25 Copynumber: 3.6 Consensus size: 25
79495506 CTTCTTATTT
79495516 TTTA-TTTATTCTTATTTTTATTTTA
1 TTTATTTTATT-TTATTTTTATTTTA
* *
79495541 TTTATTTTATTTTATTTTTCTTTTTCT
1 TTTATTTTATTTTATTTTT-ATTTT-A
**
79495568 TTTGATTTTTATTTTCATTTCAATTTTA
1 TTT-A-TTTTATTTT-ATTTTTATTTTA
79495596 -TTATTTTATTTTA
1 TTTATTTTATTTTA
79495609 AAAGACATAT
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
24 1 0.02
25 21 0.38
26 11 0.20
27 5 0.09
28 1 0.02
29 13 0.23
30 4 0.07
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.75
Consensus pattern (25 bp):
TTTATTTTATTTTATTTTTATTTTA
Found at i:79495577 original size:7 final size:6
Alignment explanation
Indices: 79495510--79495587 Score: 61
Period size: 6 Copynumber: 13.0 Consensus size: 6
79495500 TTGAATCTTC
* * *
79495510 TTATTT TT-TAT TTATTC TTATTT TTA-TT TTATTT ATTTTATT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT -TTAT-TT TTATTT
* * * *
79495558 TTCTTT TTCTTT TGATTT TTATTT TCATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT
79495588 CAATTTTATT
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
5 9 0.16
6 40 0.70
7 6 0.11
8 2 0.04
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.78
Consensus pattern (6 bp):
TTATTT
Found at i:79498430 original size:46 final size:46
Alignment explanation
Indices: 79498363--79498530 Score: 185
Period size: 46 Copynumber: 3.6 Consensus size: 46
79498353 TATTTGGGCA
* *
79498363 TCCGAACTCATTGAGTTGAGTCCGAGTCCATTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAGCG
* ** * * * *
79498409 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAT-TTATGGATGCGA-GCG
* * *
79498456 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAGCG
* *
79498502 CCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
79498531 GCTTATGGGC
Statistics
Matches: 99, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
46 63 0.64
47 36 0.36
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAGCG
Found at i:79498518 original size:93 final size:93
Alignment explanation
Indices: 79498359--79498531 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
79498349 AGGATATTTG
* * *
79498359 GGCATCCGAACTCATTGAGTTGAGTCCGAGTCCATTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTCCACTTATGGATGCGAACGCCCGAACTCGTTGAG
79498424 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
79498452 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTCCACTTATGGATGCGAACGCCCGAACTCGTTGAG
79498517 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
79498532 CTTATGGGCT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTCCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:79499714 original size:46 final size:46
Alignment explanation
Indices: 79499542--79499717 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
79499532 TGTAACCCGC
* * *
79499542 CCATAAGTGAACTCAGACCCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
79499588 CCATAAGTGAACTCGGACTGAACTCAACGAGCGCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
79499634 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
79499681 CCATAAGTGAACTCGGACTCACCTCAACAAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
79499718 TGCCCAAATA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 64 0.62
47 30 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:79499718 original size:93 final size:93
Alignment explanation
Indices: 79499550--79499721 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
79499540 GCCCATAAGT
* *
79499550 GAACTCAGACCCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTGAACTCAA
1 GAACTCAGACCCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
79499615 CGAGCGCGGATGCCTAGTTACATCTCTC
66 CAAGCGCGGATGCCTAGTTACATCTCTC
* * * *
79499643 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCACCTCAA
1 GAACTCAGACCCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
**
79499708 CAAGTTCGGATGCC
66 CAAGCGCGGATGCC
79499722 CAAATATCCT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (93 bp):
GAACTCAGACCCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGCGCGGATGCCTAGTTACATCTCTC
Found at i:79500622 original size:13 final size:13
Alignment explanation
Indices: 79500604--79500635 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
79500594 CAAAATTGGC
79500604 TTTTAATTTTGTA
1 TTTTAATTTTGTA
79500617 TTTTAATTTTGTA
1 TTTTAATTTTGTA
79500630 TTTTAA
1 TTTTAA
79500636 GTTATGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (13 bp):
TTTTAATTTTGTA
Found at i:79501349 original size:24 final size:24
Alignment explanation
Indices: 79501322--79501367 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
79501312 TTAGATTTGG
79501322 ACGAAAGGGCAAGTTAAGTCCAAT
1 ACGAAAGGGCAAGTTAAGTCCAAT
79501346 ACGAAAGGGCAAGTTAAGTCCA
1 ACGAAAGGGCAAGTTAAGTCCA
79501368 CGTTTTATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.15
Consensus pattern (24 bp):
ACGAAAGGGCAAGTTAAGTCCAAT
Found at i:79507736 original size:47 final size:47
Alignment explanation
Indices: 79507673--79508061 Score: 643
Period size: 47 Copynumber: 8.3 Consensus size: 47
79507663 CCCTTCGGGA
* *
79507673 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
79507720 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
79507767 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
79507814 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
79507861 CCTATCACATATATACACTTTCACATCCATCACATTGGCCATCCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
79507908 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* **
79507955 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCGCTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
79508002 CCTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
79508049 CTTATCACATATA
1 CTTATCACATATA
79508062 CATATCTTGT
Statistics
Matches: 317, Mismatches: 25, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 317 1.00
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:79509997 original size:39 final size:39
Alignment explanation
Indices: 79509830--79510011 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
79509820 TCGTTCAAAC
* * ** * **
79509830 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
79509870 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
79509910 GCCTTCGGGCTTAGCCCGGATATCATAACTCGC-CAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
79509948 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
79509987 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
79510012 CTCGAACATT
Statistics
Matches: 126, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 38 0.30
39 50 0.40
40 38 0.30
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:79518012 original size:39 final size:39
Alignment explanation
Indices: 79517845--79518026 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
79517835 TCGTTCAAAC
* * ** * **
79517845 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
79517885 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
79517925 GCCTTCGGGCTTAGCCCGGATATCATAACTCGC-CAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
79517963 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
79518002 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
79518027 CTCGAACATT
Statistics
Matches: 126, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 38 0.30
39 50 0.40
40 38 0.30
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:79522519 original size:40 final size:40
Alignment explanation
Indices: 79522487--79522710 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
79522477 CCAGCATGCT
* * *
79522487 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
79522527 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
79522567 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
79522607 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
79522647 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
79522687 TGCTCTTCGGGACTTAACCCGGAT
1 TGCTCTTCGGGACTTAGCCCGGAT
79522711 CATCGTCGAG
Statistics
Matches: 165, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 165 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:79522812 original size:38 final size:38
Alignment explanation
Indices: 79522770--79522842 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
79522760 ATTTTAATCC
*
79522770 GGACATAATCTCTGCACATAGCCATCGGGTCTTTACCT
1 GGACATAATCTCTGCACATAGCCAGCGGGTCTTTACCT
* * *
79522808 GGACATAATCTCTTCATATAGTCAGCGGGTCTTTA
1 GGACATAATCTCTGCACATAGCCAGCGGGTCTTTA
79522843 AACTCGGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (38 bp):
GGACATAATCTCTGCACATAGCCAGCGGGTCTTTACCT
Found at i:79525333 original size:47 final size:47
Alignment explanation
Indices: 79525270--79525658 Score: 634
Period size: 47 Copynumber: 8.3 Consensus size: 47
79525260 CCCTTCGGGA
* *
79525270 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
79525317 CTTATCACGTATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
79525364 CTTCTCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
79525411 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
79525458 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATCCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
79525505 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * **
79525552 CTTATCACATATATACACTTTCATATTCATCACGTTGGCCGCTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
79525599 CCTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
79525646 CTTATCACATATA
1 CTTATCACATATA
79525659 CATATCTTGT
Statistics
Matches: 313, Mismatches: 29, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 313 1.00
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:79532401 original size:21 final size:23
Alignment explanation
Indices: 79532377--79532419 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
79532367 ATGGGGTCAA
*
79532377 TGATTATCGCA-TCTAG-CCACT
1 TGATGATCGCATTCTAGACCACT
*
79532398 TGATGATCTCATTCTAGACCAC
1 TGATGATCGCATTCTAGACCAC
79532420 CTCTTTTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.33
Consensus pattern (23 bp):
TGATGATCGCATTCTAGACCACT
Found at i:79541812 original size:15 final size:15
Alignment explanation
Indices: 79541792--79541830 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
79541782 ATATTAGTTT
79541792 AATTTTAGTTTTT-AC
1 AATTTTA-TTTTTGAC
79541807 AATTTTATTTTTGAC
1 AATTTTATTTTTGAC
*
79541822 TATTTTATT
1 AATTTTATT
79541831 ACGAGTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (15 bp):
AATTTTATTTTTGAC
Found at i:79548137 original size:17 final size:18
Alignment explanation
Indices: 79548110--79548143 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
79548100 AATTAAATAT
79548110 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
79548128 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
79548144 TAAACAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:79555202 original size:68 final size:65
Alignment explanation
Indices: 79554995--79555202 Score: 183
Period size: 67 Copynumber: 3.2 Consensus size: 65
79554985 CATGATTTTG
* * * * * *
79554995 GCTCTCTTGT-ACGCATGGTG-AACACTTAGTACCACCCATGTGACCTAGC--CAGTTTATCTCG
1 GCTCTCTTGTCA-ACATGGTGCTACACATAGAACCACCCATGCGACCTAGCTACA-TATATCTCG
79555056 TA
64 TA
* * * * *
79555058 GCTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCACGCATGTGACCTAGCTACATATATCTCG
1 GCTCTCTTGTCAACATGGTG--CTACACATAGAACCACCCATGCGACCTAGCTACATATATCTCG
79555123 TA
64 TA
* *
79555125 GCTCTCTTGTCAACATGGTG-TACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCT
1 GCTCTCTTGTCAACATGGTGCTACACATAGAACCACCCATGCGACCTAGCTACAT-AT-A--TCT
79555189 CGTA
62 CGTA
*
79555193 GCACTCTTGT
1 GCTCTCTTGT
79555203 ACACATGATG
Statistics
Matches: 119, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
63 17 0.14
64 28 0.24
65 2 0.02
66 25 0.21
67 29 0.24
68 18 0.15
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (65 bp):
GCTCTCTTGTCAACATGGTGCTACACATAGAACCACCCATGCGACCTAGCTACATATATCTCGTA
Found at i:79555238 original size:68 final size:64
Alignment explanation
Indices: 79555016--79555247 Score: 175
Period size: 68 Copynumber: 3.5 Consensus size: 64
79555006 CGCATGGTGA
* * * * * * *
79555016 ACACTTAGTACCACCCATGTGACCTAGC--CAGTTTATCTCGTAGCTCTCTTGTCTACATGGTGT
1 ACACATAGCACCACACATGTGACCTAGCTACA-TATATCTCGTAGCACTCTTGTCAACATGATG-
79555079 CCT
64 --T
* * * * * *
79555082 TCACCTAGAACCACGCATGTGACCTAGCTACATATATCTCGTAGCTCTCTTGTCAACATGGTGT
1 ACACATAGCACCACACATGTGACCTAGCTACATATATCTCGTAGCACTCTTGTCAACATGATGT
* * * *
79555146 ACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTCGTAGCACTCTTGT-ACACATG
1 ACACATAGCACCACACATGTGACCTAGCTACAT-AT-A--TCTCGTAGCACTCTTGTCA-ACATG
79555210 ATGT
61 ATGT
* *
79555214 GCAC-TCAGCACCATACATGTGACCTAGCTACATA
1 ACACAT-AGCACCACACATGTGACCTAGCTACATA
79555248 CCATCTGTAT
Statistics
Matches: 138, Mismatches: 20, Indels: 15
0.80 0.12 0.09
Matches are distributed among these distances:
64 28 0.20
65 2 0.01
66 25 0.18
67 32 0.23
68 51 0.37
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (64 bp):
ACACATAGCACCACACATGTGACCTAGCTACATATATCTCGTAGCACTCTTGTCAACATGATGT
Found at i:79557256 original size:30 final size:29
Alignment explanation
Indices: 79557162--79557263 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
79557152 TATAGTGAAT
* * *
79557162 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
79557191 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
79557219 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
79557249 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
79557264 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:79565185 original size:30 final size:29
Alignment explanation
Indices: 79565091--79565192 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
79565081 TATAGTGAAT
* * *
79565091 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
79565120 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
79565148 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
79565178 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
79565193 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:79569139 original size:2 final size:2
Alignment explanation
Indices: 79569132--79569158 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
79569122 CATCCACACG
79569132 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
79569159 CTTCTTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:79569429 original size:39 final size:40
Alignment explanation
Indices: 79569385--79569474 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 40
79569375 TACCAGCTCG
* *
79569385 TAGCCTGCGGGTCTCT-AGCCCGGATAGCATTCTAGCACGA
1 TAGCCTGCGGGTCTCTAAGCCCGGATAACATTCCAGCA-GA
** * *
79569425 -AGCCTAAGGGTCTTTAAGCCCGGATAACATTCCAGCATA
1 TAGCCTGCGGGTCTCTAAGCCCGGATAACATTCCAGCAGA
79569464 TAGCCTGCGGG
1 TAGCCTGCGGG
79569475 ACTTTAAACC
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
39 13 0.32
40 27 0.68
ACGTcount: A:0.23, C:0.28, G:0.27, T:0.22
Consensus pattern (40 bp):
TAGCCTGCGGGTCTCTAAGCCCGGATAACATTCCAGCAGA
Found at i:79569480 original size:40 final size:40
Alignment explanation
Indices: 79569347--79569490 Score: 100
Period size: 40 Copynumber: 3.6 Consensus size: 40
79569337 TTCTAGCACC
* * *
79569347 AGCCTGCGGGAATTTAAACCCGG-TATA-ATACCAGC-TCGT
1 AGCCTGCGGGACTTTAAACCCGGATA-ACATTCCAGCAT-AT
* * * * * *
79569386 AGCCTGCGGGTCTCT-AGCCCGGATAGCATTCTAGCACGA-
1 AGCCTGCGGGACTTTAAACCCGGATAACATTCCAGCA-TAT
** * *
79569425 AGCCTAAGGGTCTTTAAGCCCGGATAACATTCCAGCATAT
1 AGCCTGCGGGACTTTAAACCCGGATAACATTCCAGCATAT
*
79569465 AGCCTGCGGGACTTTAAACCTGGATA
1 AGCCTGCGGGACTTTAAACCCGGATA
79569491 CAATTCCTCA
Statistics
Matches: 79, Mismatches: 20, Indels: 11
0.72 0.18 0.10
Matches are distributed among these distances:
38 6 0.08
39 33 0.42
40 40 0.51
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.23
Consensus pattern (40 bp):
AGCCTGCGGGACTTTAAACCCGGATAACATTCCAGCATAT
Found at i:79574944 original size:39 final size:39
Alignment explanation
Indices: 79574890--79575051 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
79574880 TGTGAATGAA
79574890 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
79574929 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
79574968 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
79575007 TGTGC-AGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
79575046 TGTGCG
1 TGTGCG
79575052 GGTTACCATA
Statistics
Matches: 114, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 18 0.16
39 96 0.84
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:79575078 original size:40 final size:39
Alignment explanation
Indices: 79574890--79575081 Score: 242
Period size: 39 Copynumber: 4.9 Consensus size: 39
79574880 TGTGAATGAA
* *
79574890 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
79574929 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
79574968 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
79575007 TGTGC-AGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
79575046 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
79575082 TGTTTTGAAC
Statistics
Matches: 137, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 18 0.13
39 96 0.70
40 23 0.17
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:79582757 original size:38 final size:39
Alignment explanation
Indices: 79582665--79582826 Score: 236
Period size: 39 Copynumber: 4.2 Consensus size: 39
79582655 TGTGAATGAA
*
79582665 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
79582704 TGTGTGAATTGTGATATCCGGGCTAAGCCCG-AGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
79582742 TGTACGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
79582781 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
79582821 TGTGCG
1 TGTGCG
79582827 GGTTACCATA
Statistics
Matches: 110, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 33 0.30
39 60 0.55
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:79582842 original size:40 final size:40
Alignment explanation
Indices: 79582682--79582856 Score: 151
Period size: 39 Copynumber: 4.5 Consensus size: 40
79582672 ATTGTGATAT
* * *** *
79582682 CCGGGCTAAG-CCCGAAGGCAATTGTGTGAATTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * ** *
79582721 CCGGGCTAAG-CCCG-AGGCAATTGTACGAGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*** *
79582759 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * *
79582798 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*
79582838 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
79582857 TGTTTTGAAC
Statistics
Matches: 117, Mismatches: 17, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
38 33 0.28
39 44 0.38
40 40 0.34
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
Found at i:79590358 original size:56 final size:55
Alignment explanation
Indices: 79590219--79590396 Score: 286
Period size: 56 Copynumber: 3.2 Consensus size: 55
79590209 TCCCAGACAG
* *
79590219 GGTCTTACTCACACACATATATCAAAGTCACATATCGATGCCAACGTACTAAA-GT
1 GGTCTTACTCGCACACATATATCAAA-TCACATATCGATGCCAACGTATTAAACGT
79590274 GGTCTTACTCGCACACATATATCAAAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATC-AAATCACATATCGATGCCAACGTATTAAACGT
* *
79590330 GGTCTTACTTGCACACATATATCGAAATCAGATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATC-AAATCACATATCGATGCCAACGTATTAAACGT
79590386 GGTCTTACTCG
1 GGTCTTACTCG
79590397 TACATCACAT
Statistics
Matches: 115, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
55 47 0.41
56 68 0.59
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.28
Consensus pattern (55 bp):
GGTCTTACTCGCACACATATATCAAATCACATATCGATGCCAACGTATTAAACGT
Found at i:79591944 original size:29 final size:29
Alignment explanation
Indices: 79591872--79591968 Score: 117
Period size: 29 Copynumber: 3.4 Consensus size: 29
79591862 CATGTCTACA
* * *
79591872 TACATGCATATGGCCCACTAGG-CCTAAT
1 TACATTCATATGGCCCATTAGGCCCAAAT
79591900 CT-CATTCATATGGCCCATTAGGCCCAAAT
1 -TACATTCATATGGCCCATTAGGCCCAAAT
*
79591929 TACATTCATATGGCCCATTAGACCCAAAT
1 TACATTCATATGGCCCATTAGGCCCAAAT
**
79591958 CGCATTCATAT
1 TACATTCATAT
79591969 TCATGCTTTC
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
28 19 0.32
29 41 0.68
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (29 bp):
TACATTCATATGGCCCATTAGGCCCAAAT
Found at i:79592202 original size:8 final size:8
Alignment explanation
Indices: 79592179--79592229 Score: 66
Period size: 8 Copynumber: 6.4 Consensus size: 8
79592169 GTGGCCAAAC
*
79592179 TTTTGACA
1 TTTTGGCA
*
79592187 TTTCGGCA
1 TTTTGGCA
79592195 TTTTGGCA
1 TTTTGGCA
79592203 TTTTGGCA
1 TTTTGGCA
* *
79592211 TTTCGGCT
1 TTTTGGCA
79592219 TTTTGGCA
1 TTTTGGCA
79592227 TTT
1 TTT
79592230 CGGGATTTGC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 36 1.00
ACGTcount: A:0.12, C:0.16, G:0.22, T:0.51
Consensus pattern (8 bp):
TTTTGGCA
Found at i:79592204 original size:16 final size:16
Alignment explanation
Indices: 79592185--79592237 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
79592175 AAACTTTTGA
* *
79592185 CATTTCGGCATTTTGG
1 CATTTTGGCATTTCGG
79592201 CATTTTGGCATTTCGG
1 CATTTTGGCATTTCGG
*
79592217 CTTTTTGGCATTTCGG
1 CATTTTGGCATTTCGG
*
79592233 GATTT
1 CATTT
79592238 GCTTATCTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.11, C:0.17, G:0.25, T:0.47
Consensus pattern (16 bp):
CATTTTGGCATTTCGG
Found at i:79592212 original size:24 final size:24
Alignment explanation
Indices: 79592179--79592229 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
79592169 GTGGCCAAAC
79592179 TTTTGACATTTCGGCATTTTGGCA
1 TTTTGACATTTCGGCATTTTGGCA
* *
79592203 TTTTGGCATTTCGGCTTTTTGGCA
1 TTTTGACATTTCGGCATTTTGGCA
79592227 TTT
1 TTT
79592230 CGGGATTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.12, C:0.16, G:0.22, T:0.51
Consensus pattern (24 bp):
TTTTGACATTTCGGCATTTTGGCA
Found at i:79592237 original size:24 final size:24
Alignment explanation
Indices: 79592185--79592237 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
79592175 AAACTTTTGA
*
79592185 CATTTCGGCATTTTGGCATTTTGG
1 CATTTCGGCATTTTGGCATTTCGG
*
79592209 CATTTCGGCTTTTTGGCATTTCGG
1 CATTTCGGCATTTTGGCATTTCGG
*
79592233 GATTT
1 CATTT
79592238 GCTTATCTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.11, C:0.17, G:0.25, T:0.47
Consensus pattern (24 bp):
CATTTCGGCATTTTGGCATTTCGG
Found at i:79593791 original size:207 final size:207
Alignment explanation
Indices: 79593422--79593833 Score: 738
Period size: 207 Copynumber: 2.0 Consensus size: 207
79593412 AGTTTGGGAT
*
79593422 TTTTAGGGCGTTACATAAACATATTCAAATTAAACTCATTCAAACATAATTCTATTCAATTTAGT
1 TTTTAGGGCGTTACATAAAAATATTCAAATTAAACTCATTCAAACATAATTCTATTCAATTTAGT
*
79593487 CCAAAAACACATAAGTGGGAAAATTACTATTTTACCCTGACATTTTACACTTTTTACAATTTAGT
66 CCAAAAACACATAAGTGGCAAAATTACTATTTTACCCTGACATTTTACACTTTTTACAATTTAGT
*
79593552 CCAAATTGCACAAAACACAAAACATACAAAATTTGAATACACTGTGCTTAGACCGAATGTTCCTT
131 CCAAATTGCACAAAACACAAAACATACAAAATTTGAATACACTATGCTTAGACCGAATGTTCCTT
*
79593617 ATGTTTATACTA
196 ATGTTCATACTA
79593629 TTTT-GGGTCGTTACATAAAAATATTCAAATTAAACTCATTCAAACATAATTCTATTCAATTTAG
1 TTTTAGGG-CGTTACATAAAAATATTCAAATTAAACTCATTCAAACATAATTCTATTCAATTTAG
*
79593693 TCCAAAAACACATAAATTGGCAAAA-TACTATTTTACCCTGACATTTTACACTTTTTACAATTTA
65 TCCAAAAACACAT-AAGTGGCAAAATTACTATTTTACCCTGACATTTTACACTTTTTACAATTTA
*
79593757 GTCCAAATTGCACAAAACACAAAACATGCAAAATTTGAATACACTATGCTTAGACCGAATGTTCC
129 GTCCAAATTGCACAAAACACAAAACATACAAAATTTGAATACACTATGCTTAGACCGAATGTTCC
79593822 TTATGTTCATAC
194 TTATGTTCATAC
79593834 AAATCCATAC
Statistics
Matches: 197, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
206 3 0.02
207 185 0.94
208 9 0.05
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.34
Consensus pattern (207 bp):
TTTTAGGGCGTTACATAAAAATATTCAAATTAAACTCATTCAAACATAATTCTATTCAATTTAGT
CCAAAAACACATAAGTGGCAAAATTACTATTTTACCCTGACATTTTACACTTTTTACAATTTAGT
CCAAATTGCACAAAACACAAAACATACAAAATTTGAATACACTATGCTTAGACCGAATGTTCCTT
ATGTTCATACTA
Found at i:79598667 original size:39 final size:39
Alignment explanation
Indices: 79598624--79598704 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
79598614 TAACACAATT
79598624 TATTATCCAATAGCATTCACGGCATTAACAACTTAGCAA
1 TATTATCCAATAGCATTCACGGCATTAACAACTTAGCAA
*
79598663 TATTATCCAATAGCATTCATGGCATTAACAACTTAGCAA
1 TATTATCCAATAGCATTCACGGCATTAACAACTTAGCAA
79598702 TAT
1 TAT
79598705 GAATGTATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (39 bp):
TATTATCCAATAGCATTCACGGCATTAACAACTTAGCAA
Found at i:79600005 original size:39 final size:39
Alignment explanation
Indices: 79599951--79600029 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
79599941 CTTATCTTTC
79599951 AAATCATTTAAACTAGCACATACATGACATTTTAGCTTG
1 AAATCATTTAAACTAGCACATACATGACATTTTAGCTTG
79599990 AAATCATTTAAACTAGCACATACATGACATTTTAGCTTG
1 AAATCATTTAAACTAGCACATACATGACATTTTAGCTTG
79600029 A
1 A
79600030 TTTCTCATTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (39 bp):
AAATCATTTAAACTAGCACATACATGACATTTTAGCTTG
Found at i:79600239 original size:56 final size:56
Alignment explanation
Indices: 79600176--79600367 Score: 244
Period size: 56 Copynumber: 3.4 Consensus size: 56
79600166 TCTCAGACAG
* * * * * *
79600176 GGTCTTACTCGCATATATTTAT-TGAAGTCACATATTGATGCCTACATATTAAACGT
1 GGTCTTACTCGCACACATATATCAGAA-TCACATATTGATGCCAACGTATTAAACGT
* * * *
79600232 GGCCTTACTCGCACACATATATCAGAATCACATA-TCATTGCCAACGTATCAAAGGT
1 GGTCTTACTCGCACACATATATCAGAATCACATATTGA-TGCCAACGTATTAAACGT
* *
79600288 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCAGAATCACATATTGATGCCAACGTATTAAACGT
79600344 GGTCTTACTCGCACACATATATCA
1 GGTCTTACTCGCACACATATATCA
79600368 ATGCCATGGT
Statistics
Matches: 116, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
55 2 0.02
56 110 0.95
57 4 0.03
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.30
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCAGAATCACATATTGATGCCAACGTATTAAACGT
Found at i:79603498 original size:30 final size:30
Alignment explanation
Indices: 79603462--79603543 Score: 155
Period size: 30 Copynumber: 2.7 Consensus size: 30
79603452 CGTGGCCATA
79603462 GGCTGAGACACACGGCCGTGTCCTCCACAC
1 GGCTGAGACACACGGCCGTGTCCTCCACAC
*
79603492 GGCTGAGACATACGGCCGTGTCCTCCACAC
1 GGCTGAGACACACGGCCGTGTCCTCCACAC
79603522 GGCTGAGACACACGGCCGTGTC
1 GGCTGAGACACACGGCCGTGTC
79603544 TCTGCCCGTG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.20, C:0.37, G:0.29, T:0.15
Consensus pattern (30 bp):
GGCTGAGACACACGGCCGTGTCCTCCACAC
Found at i:79604440 original size:48 final size:46
Alignment explanation
Indices: 79604380--79604549 Score: 135
Period size: 48 Copynumber: 3.6 Consensus size: 46
79604370 GTGTCGATGC
* *
79604380 CATGTCCTAGACAGG-CTTTACAGTAGCTTGTATATCGCAAGGCCAATG
1 CATGTCCCAGACAGGTC-TTACACTAGCTT-T-TATCGCAAGGCCAATG
* * * * *
79604428 CATGTCCCAGACATGTCTTACACTAGCTTTTGTCTCAATGCCGATG
1 CATGTCCCAGACAGGTCTTACACTAGCTTTTATCGCAAGGCCAATG
* * * ** * * *
79604474 CATGTCCCAAACATGTCTTACACTGGCTAAAATATCTCAAGGCCGATA
1 CATGTCCCAGACAGGTCTTACACTAGCT--TTTATCGCAAGGCCAATG
* *
79604522 CATGTCCCAGACATGTCTTATACTAGCT
1 CATGTCCCAGACAGGTCTTACACTAGCT
79604550 CTCATGTTGT
Statistics
Matches: 102, Mismatches: 17, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
46 38 0.37
47 1 0.01
48 62 0.61
49 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACAGGTCTTACACTAGCTTTTATCGCAAGGCCAATG
Found at i:79604488 original size:46 final size:47
Alignment explanation
Indices: 79604411--79604549 Score: 172
Period size: 46 Copynumber: 3.0 Consensus size: 47
79604401 AGTAGCTTGT
* * *
79604411 ATATCGCAAGGCCAATGCATGTCCCAGACATGTCTTACACTAGCT-T
1 ATATCTCAAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTAA
* * * * *
79604457 TTGTCTCAATGCCGATGCATGTCCCAAACATGTCTTACACTGGCTAAA
1 ATATCTCAAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCT-AA
* *
79604505 ATATCTCAAGGCCGATACATGTCCCAGACATGTCTTATACTAGCT
1 ATATCTCAAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCT
79604550 CTCATGTTGT
Statistics
Matches: 76, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
46 38 0.50
48 38 0.50
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (47 bp):
ATATCTCAAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTAA
Found at i:79608214 original size:15 final size:15
Alignment explanation
Indices: 79608194--79608222 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
79608184 AATTCAAGAT
79608194 ATATCAATCAAAATC
1 ATATCAATCAAAATC
79608209 ATATCAATCAAAAT
1 ATATCAATCAAAAT
79608223 TTATCCTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (15 bp):
ATATCAATCAAAATC
Found at i:79622686 original size:24 final size:24
Alignment explanation
Indices: 79622442--79622684 Score: 387
Period size: 24 Copynumber: 10.1 Consensus size: 24
79622432 GCAAAGACCA
*
79622442 TATGGCACTATGTGTGCGGTTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
79622466 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
79622490 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
79622514 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
* *
79622538 TATGGCACTAGGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
* *
79622562 TACGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
79622586 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
79622610 TATAGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
79622634 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
79622658 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
79622682 TAT
1 TAT
79622685 AGTCACATTC
Statistics
Matches: 206, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 206 1.00
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:79636662 original size:40 final size:40
Alignment explanation
Indices: 79636613--79636846 Score: 175
Period size: 40 Copynumber: 5.8 Consensus size: 40
79636603 CGGAATTTAA
* * * *
79636613 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACATAGC
1 CCGGTTATAGTGACTCGCACGATTGCCTTCGGGACATAGC
* *
79636653 CCGGTTATAGTGATTCGCACAATTGCCTTCGGGA-ATTAGC
1 CCGGTTATAGTGACTCGCACGATTGCCTTCGGGACA-TAGC
* * * *
79636693 CCGGATT-TAGTAACTCGCACGAATGCCTTCGGGACTTAAC
1 CCGG-TTATAGTGACTCGCACGATTGCCTTCGGGACATAGC
* * * * * * *
79636733 CCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGTTATAGTGACTCGCACGATTGCCTTCGGGACATAGC
* * * * * * *
79636773 CCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGTTATAGTGACTCGCACGATTGCCTTCGGGACATAGC
* * * * *
79636813 CCGGTTTTGGTAACTCGCACAAATGCCTTCGGGA
1 CCGGTTATAGTGACTCGCACGATTGCCTTCGGGA
79636847 GTTGACCCAG
Statistics
Matches: 176, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 171 0.97
41 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGTTATAGTGACTCGCACGATTGCCTTCGGGACATAGC
Found at i:79636886 original size:41 final size:40
Alignment explanation
Indices: 79636639--79636897 Score: 320
Period size: 40 Copynumber: 6.5 Consensus size: 40
79636629 GCTCGATTGT
* * * * * * *
79636639 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
* * * * *
79636679 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
79636719 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
79636759 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
79636799 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
* * * * * * * *
79636839 CTTCGGGAGTTGACCCAGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAACCCGGTTTTGGTAAC-TCGCACAAATGC
*
79636880 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAACCCGG
79636898 ACACCATTCG
Statistics
Matches: 193, Mismatches: 25, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
40 169 0.88
41 24 0.12
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
Found at i:79644801 original size:40 final size:40
Alignment explanation
Indices: 79644757--79645014 Score: 302
Period size: 40 Copynumber: 6.5 Consensus size: 40
79644747 GCTCGATTGT
* * * * * * *
79644757 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
* * ** * *
79644797 CTTCGGGAATTAGCCCGAATTTAGTAACTCGCACGAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
79644837 CTTCGGGACTTAA-CCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
79644876 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
*
79644916 CTTCGGGACTTAACCCGGTTTTGGTAACTCACACAAATGC
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
* * * * * * *
79644956 CTTCGGGAGTTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAACCCGGTTTTGGTAAC-TCGCACAAATGC
*
79644997 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAACCCGG
79645015 ACACCATTCG
Statistics
Matches: 189, Mismatches: 27, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
39 35 0.19
40 130 0.69
41 24 0.13
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
Found at i:79644871 original size:79 final size:80
Alignment explanation
Indices: 79644757--79645014 Score: 313
Period size: 79 Copynumber: 3.2 Consensus size: 80
79644747 GCTCGATTGT
* * * * * * * *
79644757 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGCCCGAATTTAGT
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGT
*
79644822 AACTCGCACGAATGC
66 AACTCGCACAAATGC
* * * *
79644837 CTTCGGGACTTAA-CCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGT
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGT
79644901 AACTCGCACAAATGC
66 AACTCGCACAAATGC
* *
79644916 CTTCGGGACTTAACCCGGTTTTGGTAACTCACACAAATGCCTTCGGGAGTT-GACCCGGATTTAG
1 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTAG-CCCGGATTTAG
* * *
79644980 TCACTTAGCACAAAAGC
65 TAAC-TCGCACAAATGC
*
79644997 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAACCCGG
79645015 ACACCATTCG
Statistics
Matches: 153, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
79 68 0.44
80 58 0.38
81 27 0.18
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGT
AACTCGCACAAATGC
Found at i:79644943 original size:119 final size:121
Alignment explanation
Indices: 79644757--79645014 Score: 313
Period size: 119 Copynumber: 2.1 Consensus size: 121
79644747 GCTCGATTGT
* * * * *
79644757 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGCCCGAATTTAGT
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGAATTTAGT
* * * * * *
79644822 AACTCGCACGAATGCCTTCGGGACTT-AACCGGTTTTGGTAAC-TCGCACAAATGC
66 AACTCACACAAATGCCTTCGGGACTTGAACCGGATTTAGTAACTTAGCACAAAAGC
* * * * ** *
79644876 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGT
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGAATTTAGT
* * *
79644941 AACTCACACAAATGCCTTCGGGAGTTGACCCGGATTTAGTCACTTAGCACAAAAGC
66 AACTCACACAAATGCCTTCGGGACTTGAACCGGATTTAGTAACTTAGCACAAAAGC
79644997 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
79645015 ACACCATTCG
Statistics
Matches: 115, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
119 76 0.66
120 12 0.10
121 27 0.23
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (121 bp):
CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGAATTTAGT
AACTCACACAAATGCCTTCGGGACTTGAACCGGATTTAGTAACTTAGCACAAAAGC
Found at i:79651780 original size:69 final size:69
Alignment explanation
Indices: 79651669--79651813 Score: 263
Period size: 69 Copynumber: 2.1 Consensus size: 69
79651659 ATAAATAGGG
* *
79651669 TAATTTCGATCCTTAATTTATTTTTGCACACATTAGGGACAATGTGCTATATAAAGTGTGAGGGT
1 TAATTTCGATCCTTAATTTATTTTTGCACACATTAGGGACAATGTGCTAAATAAAATGTGAGGGT
79651734 GATA
66 GATA
79651738 TAATTTCGATCCTTAATTTATTTTTGCACACATTAGGGACAATGTGCTAAATAAAATGTGAGGGT
1 TAATTTCGATCCTTAATTTATTTTTGCACACATTAGGGACAATGTGCTAAATAAAATGTGAGGGT
79651803 GATA
66 GATA
79651807 TAGATTT
1 TA-ATTT
79651814 TTTAATTTTT
Statistics
Matches: 73, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
69 69 0.95
70 4 0.05
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (69 bp):
TAATTTCGATCCTTAATTTATTTTTGCACACATTAGGGACAATGTGCTAAATAAAATGTGAGGGT
GATA
Found at i:79656536 original size:39 final size:39
Alignment explanation
Indices: 79656380--79656561 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
79656370 TCGTTCAAAC
* * ** * **
79656380 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
79656420 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
79656460 GCCTTCGGGCTTAGCCC-GATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
79656498 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
79656537 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
79656562 CTCGAACATT
Statistics
Matches: 124, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
38 34 0.27
39 52 0.42
40 38 0.31
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:79658771 original size:16 final size:17
Alignment explanation
Indices: 79658738--79658774 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
79658728 TTCCAAATCA
79658738 AAAG-GAAGAATAGAGG
1 AAAGAGAAGAATAGAGG
*
79658754 AAAGAGAAGAAT-GGGG
1 AAAGAGAAGAATAGAGG
79658770 AAAGA
1 AAAGA
79658775 ACAATCACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.57, C:0.00, G:0.38, T:0.05
Consensus pattern (17 bp):
AAAGAGAAGAATAGAGG
Found at i:79662554 original size:97 final size:97
Alignment explanation
Indices: 79662442--79662733 Score: 575
Period size: 97 Copynumber: 3.0 Consensus size: 97
79662432 TTTTACAATG
79662442 CACACAGTCATGCCTCTAAACCGTGTACCTCACGGGCCGTGTGGCAGACCGTGTGGTACAAAGTA
1 CACACAGTCATGCCTCTAAACCGTGTACCTCACGGGCCGTGTGGCAGACCGTGTGGTACAAAGTA
79662507 AATTAGACCATTTGACCTATTTTTCAAGCCAA
66 AATTAGACCATTTGACCTATTTTTCAAGCCAA
*
79662539 CACACAGTCATGCCTCTAAACCGTGTACCTCACGGGCCGTGTGGTAGACCGTGTGGTACAAAGTA
1 CACACAGTCATGCCTCTAAACCGTGTACCTCACGGGCCGTGTGGCAGACCGTGTGGTACAAAGTA
79662604 AATTAGACCATTTGACCTATTTTTCAAGCCAA
66 AATTAGACCATTTGACCTATTTTTCAAGCCAA
79662636 CACACAGTCATGCCTCTAAACCGTGTACCTCACGGGCCGTGTGGCAGACCGTGTGGTACAAAGTA
1 CACACAGTCATGCCTCTAAACCGTGTACCTCACGGGCCGTGTGGCAGACCGTGTGGTACAAAGTA
79662701 AATTAGACCATTTGACCTATTTTTCAAGCCAA
66 AATTAGACCATTTGACCTATTTTTCAAGCCAA
79662733 C
1 C
79662734 CATTCCAACA
Statistics
Matches: 193, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 193 1.00
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (97 bp):
CACACAGTCATGCCTCTAAACCGTGTACCTCACGGGCCGTGTGGCAGACCGTGTGGTACAAAGTA
AATTAGACCATTTGACCTATTTTTCAAGCCAA
Found at i:79663595 original size:11 final size:11
Alignment explanation
Indices: 79663537--79663596 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
79663527 CAAACTGAAA
79663537 CACCACCATA-
1 CACCACCATAT
79663547 CAACCACCATAT
1 C-ACCACCATAT
* *
79663559 CACCACTATAC
1 CACCACCATAT
* *
79663570 CACCACTATAA
1 CACCACCATAT
*
79663581 CACCACCATCT
1 CACCACCATAT
79663592 CACCA
1 CACCA
79663597 ACCTTGCACC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
10 1 0.02
11 40 0.95
12 1 0.02
ACGTcount: A:0.38, C:0.47, G:0.00, T:0.15
Consensus pattern (11 bp):
CACCACCATAT
Found at i:79663596 original size:22 final size:22
Alignment explanation
Indices: 79663535--79663589 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
79663525 AACAAACTGA
*
79663535 AACACCACCATACAACCACCAT
1 AACACCACCATACCACCACCAT
* * *
79663557 ATCACCACTATACCACCACTAT
1 AACACCACCATACCACCACCAT
79663579 AACACCACCAT
1 AACACCACCAT
79663590 CTCACCAACC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.42, C:0.44, G:0.00, T:0.15
Consensus pattern (22 bp):
AACACCACCATACCACCACCAT
Found at i:79666740 original size:9 final size:9
Alignment explanation
Indices: 79666726--79666750 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
79666716 ACATACTATG
79666726 CATTTTATT
1 CATTTTATT
79666735 CATTTTATT
1 CATTTTATT
79666744 CATTTTA
1 CATTTTA
79666751 GTCCCTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (9 bp):
CATTTTATT
Found at i:79668624 original size:29 final size:29
Alignment explanation
Indices: 79668590--79668663 Score: 114
Period size: 29 Copynumber: 2.6 Consensus size: 29
79668580 TAATCAACCA
*
79668590 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
*
79668619 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAACT
79668648 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
79668664 ATCTCACAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 3 0.07
29 39 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:79669322 original size:8 final size:8
Alignment explanation
Indices: 79669309--79669345 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
79669299 GCCGAATATG
79669309 TATATCTA
1 TATATCTA
79669317 TATATCTA
1 TATATCTA
79669325 TATATCTA
1 TATATCTA
*
79669333 TATATATA
1 TATATCTA
79669341 TATAT
1 TATAT
79669346 ATATCAACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (8 bp):
TATATCTA
Found at i:79669328 original size:2 final size:2
Alignment explanation
Indices: 79669304--79669349 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
79669294 TGATGGCCGA
* * * *
79669304 AT AT GT AT AT CT AT AT AT CT AT AT AT CT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
79669346 AT AT
1 AT AT
79669350 CAACTATACT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:79669330 original size:16 final size:16
Alignment explanation
Indices: 79669304--79669345 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
79669294 TGATGGCCGA
*
79669304 ATATGTATATCTATAT
1 ATATATATATCTATAT
*
79669320 ATCTATATATCTATAT
1 ATATATATATCTATAT
79669336 ATATATATAT
1 ATATATATAT
79669346 ATATCAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.50
Consensus pattern (16 bp):
ATATATATATCTATAT
Found at i:79676206 original size:17 final size:17
Alignment explanation
Indices: 79676184--79676216 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
79676174 AAAAAGAATA
79676184 AAATAATGTTAA-ATTTC
1 AAATAA-GTTAACATTTC
79676201 AAATAAGTTAACATTT
1 AAATAAGTTAACATTT
79676217 ATTGTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (17 bp):
AAATAAGTTAACATTTC
Found at i:79677114 original size:24 final size:24
Alignment explanation
Indices: 79677087--79677133 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
79677077 TTTAGAGAAT
79677087 TTTGTGTTTACGTTTTAAGGGTTC
1 TTTGTGTTTACGTTTTAAGGGTTC
* ** *
79677111 TTTGTTTTTGGGTTTTCAGGGTT
1 TTTGTGTTTACGTTTTAAGGGTT
79677134 TAGTTTTTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.09, C:0.06, G:0.28, T:0.57
Consensus pattern (24 bp):
TTTGTGTTTACGTTTTAAGGGTTC
Found at i:79678619 original size:12 final size:12
Alignment explanation
Indices: 79678584--79678619 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
79678574 ATGCCATCTA
79678584 TCCACAACCAAT
1 TCCACAACCAAT
*
79678596 TCAACTAACCAAT
1 TCCAC-AACCAAT
79678609 TCCACAACCAA
1 TCCACAACCAA
79678620 AACATATCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.44, C:0.39, G:0.00, T:0.17
Consensus pattern (12 bp):
TCCACAACCAAT
Found at i:79681343 original size:41 final size:40
Alignment explanation
Indices: 79681125--79681344 Score: 264
Period size: 40 Copynumber: 5.5 Consensus size: 40
79681115 GCTCGATTGT
* * *
79681125 CTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAATTGC
1 CTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGC
*
79681165 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
* * *
79681205 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
* * *
79681245 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
* * * * *
79681285 CTTCGGGAATT-GACCCGGATTTAATCACTTAGCACAAAAGC
1 CTTCGGGACTTAG-CCCGGATTTAGTAAC-TCGCACAAATGC
79681326 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
79681345 CACCATTTGA
Statistics
Matches: 159, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
40 130 0.82
41 28 0.18
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:79682060 original size:2 final size:2
Alignment explanation
Indices: 79682053--79682084 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
79682043 ATGTGCAAAC
79682053 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
79682085 GCTAGAGCCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:79685438 original size:22 final size:21
Alignment explanation
Indices: 79685413--79685488 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 21
79685403 TACTTGTATC
79685413 TATAAATATATAAATAATTTTA
1 TATAAATA-ATAAATAATTTTA
79685435 TATAAATAATAAATATGATTTTA
1 TATAAATAATAAATA--ATTTTA
* *
79685458 TTTTAAGAAAAATAAAATAATTTTA
1 -TAT-A-AATAAT-AAATAATTTTA
79685483 TATAAA
1 TATAAA
79685489 GTATTTAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
21 7 0.16
22 10 0.22
23 7 0.16
24 4 0.09
25 7 0.16
26 5 0.11
27 5 0.11
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
TATAAATAATAAATAATTTTA
Found at i:79688291 original size:20 final size:20
Alignment explanation
Indices: 79688266--79688311 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
79688256 TATTTGTATG
*
79688266 ATGATTAGAAACATATTTAC
1 ATGATTAGAAACATAATTAC
* **
79688286 ATGATTTGAATGATAATTAC
1 ATGATTAGAAACATAATTAC
79688306 ATGATT
1 ATGATT
79688312 TTTATATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (20 bp):
ATGATTAGAAACATAATTAC
Found at i:79689404 original size:16 final size:16
Alignment explanation
Indices: 79689383--79689413 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
79689373 TAATAAATTG
*
79689383 ATAAGGTTGAGGTGTT
1 ATAAGGTCGAGGTGTT
79689399 ATAAGGTCGAGGTGT
1 ATAAGGTCGAGGTGT
79689414 GTCTTGGGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.03, G:0.39, T:0.32
Consensus pattern (16 bp):
ATAAGGTCGAGGTGTT
Found at i:79689980 original size:20 final size:20
Alignment explanation
Indices: 79689957--79690005 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
79689947 CCAAGCAAAA
79689957 AGTATCGATGCTTTAAGGTC
1 AGTATCGATGCTTTAAGGTC
79689977 AGTATCGATGCTTTAAGGTC
1 AGTATCGATGCTTTAAGGTC
79689997 AGTATCGAT
1 AGTATCGAT
79690006 ACCTTGTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (20 bp):
AGTATCGATGCTTTAAGGTC
Found at i:79696701 original size:16 final size:17
Alignment explanation
Indices: 79696680--79696713 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
79696670 TTAGTTTAGG
79696680 TTTAGTTTTTTTT-TTT
1 TTTAGTTTTTTTTATTT
79696696 TTTAGTTTTTTTTATTT
1 TTTAGTTTTTTTTATTT
79696713 T
1 T
79696714 ACTTTAGTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.85
Consensus pattern (17 bp):
TTTAGTTTTTTTTATTT
Found at i:79696706 original size:15 final size:16
Alignment explanation
Indices: 79696680--79696714 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
79696670 TTAGTTTAGG
*
79696680 TTTAGTTTTTTTTTTT
1 TTTAGTTTTTTTTTAT
79696696 TTTAG-TTTTTTTTAT
1 TTTAGTTTTTTTTTAT
79696711 TTTA
1 TTTA
79696715 CTTTAGTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (16 bp):
TTTAGTTTTTTTTTAT
Found at i:79701351 original size:27 final size:28
Alignment explanation
Indices: 79701321--79701374 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
79701311 TAAAATTCAT
*
79701321 ACTTTAATTA-TAAAATAATTAATTTTC
1 ACTTAAATTATTAAAATAATTAATTTTC
*
79701348 ACTTAAATTATTAACATAATTAATTTT
1 ACTTAAATTATTAAAATAATTAATTTT
79701375 ATTAGTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 9 0.38
28 15 0.62
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (28 bp):
ACTTAAATTATTAAAATAATTAATTTTC
Found at i:79708045 original size:4 final size:4
Alignment explanation
Indices: 79708038--79708063 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
79708028 TACCCCTCCC
79708038 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
79708064 CCTTTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:79713550 original size:43 final size:43
Alignment explanation
Indices: 79713430--79713592 Score: 158
Period size: 43 Copynumber: 3.8 Consensus size: 43
79713420 AGCTCATACA
* * **
79713430 ATGCCAACATCCCAGACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGATGTGGTCTTACACATAAATCAAATAT-G
* *
79713473 ATGCC-ACTGTCCCAGATAG-GGTCATACAC-GAAATCAAATATG
1 ATGCCAAC-GTCCCAGAT-GTGGTCTTACACATAAATCAAATATG
*
79713515 ATGCCAACGTCCTAGATGTGGTCTTACACATAAATCATAAGTCA--
1 ATGCCAACGTCCCAGATGTGGTCTTACACATAAATCA-AA-T-ATG
79713559 ATGCCAACGTCCCAGATGTGGTCTTACACGATAA
1 ATGCCAACGTCCCAGATGTGGTCTTACAC-ATAA
79713593 CACATATCAG
Statistics
Matches: 101, Mismatches: 9, Indels: 18
0.79 0.07 0.14
Matches are distributed among these distances:
41 1 0.01
42 25 0.25
43 38 0.38
44 31 0.31
45 5 0.05
46 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGATGTGGTCTTACACATAAATCAAATATG
Found at i:79713574 original size:86 final size:85
Alignment explanation
Indices: 79713430--79713589 Score: 191
Period size: 86 Copynumber: 1.9 Consensus size: 85
79713420 AGCTCATACA
** *
79713430 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGATAG-GG
1 ATGCCAACATCCCAGACGTGGTCTTACACATAATCAAATATCAATGCCACTGTCCCAGAT-GTGG
79713494 TCATACACGAAATCAAATATG
65 TCATACACGAAATCAAATATG
* * * *
79713515 ATGCCAACGTCCTAGATGTGGTCTTACACATAAATCATAA-GTCAATGCCAAC-GTCCCAGATGT
1 ATGCCAACATCCCAGACGTGGTCTTACACAT-AATCA-AATATCAATGCC-ACTGTCCCAGATGT
*
79713578 GGTCTTACACGA
63 GGTCATACACGA
79713590 TAACACATAT
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
85 27 0.43
86 32 0.51
87 4 0.06
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (85 bp):
ATGCCAACATCCCAGACGTGGTCTTACACATAATCAAATATCAATGCCACTGTCCCAGATGTGGT
CATACACGAAATCAAATATG
Found at i:79715879 original size:5 final size:5
Alignment explanation
Indices: 79715869--79715915 Score: 53
Period size: 5 Copynumber: 9.6 Consensus size: 5
79715859 TTTGAGTCTA
* *
79715869 TTTAT TTTAT TTTAT TTTCT TTTAAT TTT-T TGT-T TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTT-AT TTTAT TTTAT TTTAT TTTAT TTT
79715916 TCTATTTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
4 6 0.17
5 26 0.72
6 4 0.11
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:79715933 original size:29 final size:29
Alignment explanation
Indices: 79715873--79715934 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
79715863 AGTCTATTTA
* *
79715873 TTTTATTTTATTTTCTTTTAATTTTTTGT
1 TTTTATTTTATTTTCTTTTAATTTTGTAT
79715902 TTTTATTTTATTTTTCTATTT-A-TTTGTAT
1 TTTTATTTTA-TTTTCT-TTTAATTTTGTAT
79715931 TTTT
1 TTTT
79715935 CCAAGACTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 19 0.66
30 7 0.24
31 3 0.10
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (29 bp):
TTTTATTTTATTTTCTTTTAATTTTGTAT
Found at i:79722424 original size:29 final size:29
Alignment explanation
Indices: 79722391--79722550 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
79722381 GTGACGAGAT
79722391 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
79722420 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
79722449 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
79722478 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
79722507 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
79722536 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
79722551 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:79730385 original size:29 final size:29
Alignment explanation
Indices: 79730352--79730511 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
79730342 GTGACGAGAT
79730352 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
79730381 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
79730410 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
79730439 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
79730468 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
79730497 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
79730512 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:79738548 original size:29 final size:29
Alignment explanation
Indices: 79738515--79738645 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
79738505 GTGACGAGAT
79738515 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
79738544 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
79738573 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
79738602 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
79738631 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
79738646 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:79742542 original size:44 final size:42
Alignment explanation
Indices: 79742461--79742563 Score: 118
Period size: 44 Copynumber: 2.4 Consensus size: 42
79742451 TTCCATTATG
** * *
79742461 TGATTTCGTGTAAGACCACGTCTGGGATGTTGTCATCG-ACTTT
1 TGATTTCGTGTAAGACCACGTCTGGGACATCGACATCGTA--TT
* *
79742504 TGTTTTACGTGTAAGACCATGTCTGGGACATCGACATCGTATT
1 TGATTT-CGTGTAAGACCACGTCTGGGACATCGACATCGTATT
79742547 TGATTTCGTGTAAGACC
1 TGATTTCGTGTAAGACC
79742564 CTGTTTAGGA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
42 11 0.22
43 12 0.24
44 27 0.53
45 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.36
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCACGTCTGGGACATCGACATCGTATT
Found at i:79752880 original size:42 final size:43
Alignment explanation
Indices: 79752806--79752915 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 43
79752796 GACTTCTGTT
* * *
79752806 TTACGTGTAAGACCATGTTTGGGACATCGGCAT-TATATTTGA
1 TTACGTGTAAGACCCTGTCTGGGACATCGGCATCGATATTTGA
* *
79752848 TTTCGTGTAAGACCCTGTCTGGGACAGT-GGCATCGATGTTTGA
1 TTACGTGTAAGACCCTGTCTGGGACA-TCGGCATCGATATTTGA
* *
79752891 TTACATGTATGACCAC-GTCTGGGAC
1 TTACGTGTAAGACC-CTGTCTGGGAC
79752916 GTTGGCACTG
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
42 28 0.49
43 28 0.49
44 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (43 bp):
TTACGTGTAAGACCCTGTCTGGGACATCGGCATCGATATTTGA
Found at i:79752922 original size:43 final size:42
Alignment explanation
Indices: 79752759--79752922 Score: 145
Period size: 43 Copynumber: 3.8 Consensus size: 42
79752749 ATCCGTTATG
* * *
79752759 TGATTTCGTGTAAGACCACATCTGGGACGTTGGCATCGACTTC
1 TGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TTT
* * * * * *
79752802 TGTTTTACGTGTAAGACCATGTTTGGGACATCGGCAT-TATATT
1 TG-ATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TT
*
79752845 TGATTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATGTT
1 TGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT-TT
* *
79752888 TGATTACATGTATGACCACGTCTGGGACGTTGGCA
1 TGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
79752923 CTGTATATAT
Statistics
Matches: 94, Mismatches: 20, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
42 28 0.30
43 38 0.40
44 28 0.30
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (42 bp):
TGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATTT
Found at i:79755503 original size:25 final size:25
Alignment explanation
Indices: 79755472--79755528 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
79755462 CTTCCCATTA
* *
79755472 ATGGCTCTCCGGAGCTTCTTGTTAC
1 ATGGCTCACAGGAGCTTCTTGTTAC
* *
79755497 ATGGCTCACATGAGCTTCTTGTTAT
1 ATGGCTCACAGGAGCTTCTTGTTAC
79755522 ATGGCTC
1 ATGGCTC
79755529 GAAAGAGCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.37
Consensus pattern (25 bp):
ATGGCTCACAGGAGCTTCTTGTTAC
Found at i:79755536 original size:25 final size:25
Alignment explanation
Indices: 79755483--79755539 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
79755473 TGGCTCTCCG
*
79755483 GAGCTTCTTGTTACATGGCTCACAT
1 GAGCTTCTTGTTACATGGCTCACAA
*
79755508 GAGCTTCTTGTTATATGGCTCGA-AA
1 GAGCTTCTTGTTACATGGCTC-ACAA
79755533 GAGCTTC
1 GAGCTTC
79755540 CCGTTTATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (25 bp):
GAGCTTCTTGTTACATGGCTCACAA
Found at i:79757403 original size:43 final size:43
Alignment explanation
Indices: 79757355--79757461 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 43
79757345 GATTAATGAG
*
79757355 ATGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCATT
1 ATGTGATTATGTGTAAGACCATGTCTGGGAAATTGGCATCATT
* * * * *
79757398 ATGTGATTATGTCTAACACCATGTTTGGGAAATTGGTATCGTT
1 ATGTGATTATGTGTAAGACCATGTCTGGGAAATTGGCATCATT
* *
79757441 -TTTGATTTTGTGTAAGACCAT
1 ATGTGATTATGTGTAAGACCAT
79757462 AGCTGGGCTA
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 17 0.31
43 37 0.69
ACGTcount: A:0.25, C:0.12, G:0.23, T:0.39
Consensus pattern (43 bp):
ATGTGATTATGTGTAAGACCATGTCTGGGAAATTGGCATCATT
Found at i:79759484 original size:71 final size:71
Alignment explanation
Indices: 79759398--79759561 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
79759388 CGATTTGTCT
79759398 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
79759463 CTTTCA
66 CTTTCA
79759469 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
79759534 CTTTCA
66 CTTTCA
79759540 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
79759562 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:79759599 original size:71 final size:70
Alignment explanation
Indices: 79759398--79759595 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
79759388 CGATTTGTCT
* * * *
79759398 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
79759463 CTTTCA
65 CTTTCA
* * * *
79759469 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
79759534 CTTTCA
65 CTTTCA
* *
79759540 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
79759596 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:79766325 original size:71 final size:71
Alignment explanation
Indices: 79766239--79766402 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
79766229 CGATTTGTCT
79766239 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
79766304 CTTTCA
66 CTTTCA
79766310 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
79766375 CTTTCA
66 CTTTCA
79766381 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
79766403 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:79766440 original size:71 final size:70
Alignment explanation
Indices: 79766239--79766436 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
79766229 CGATTTGTCT
* * * *
79766239 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
79766304 CTTTCA
65 CTTTCA
* * * *
79766310 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
79766375 CTTTCA
65 CTTTCA
* * *
79766381 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATTACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
79766437 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 21 0.18
69 1 0.01
70 1 0.01
71 96 0.81
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:79773249 original size:22 final size:20
Alignment explanation
Indices: 79773209--79773257 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 20
79773199 CATGCCTTAA
*
79773209 TTTTTGAATTTGTTTATGAT
1 TTTTTGAATTTGTTGATGAT
79773229 TTTTTGAAGTGTTGTTGATGAT
1 TTTTTGAA-T-TTGTTGATGAT
*
79773251 TATTTGA
1 TTTTTGA
79773258 GCTTTTGGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.32
21 1 0.04
22 16 0.64
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.59
Consensus pattern (20 bp):
TTTTTGAATTTGTTGATGAT
Found at i:79773976 original size:42 final size:43
Alignment explanation
Indices: 79773863--79773969 Score: 162
Period size: 43 Copynumber: 2.5 Consensus size: 43
79773853 GATTTACGAG
** *
79773863 ATGTGATTATGTGTAAGACCATGTTTGGGACATTGGCATCATT
1 ATGTGATTCCGTGTAAGACCATGTCTGGGACATTGGCATCATT
*
79773906 ATGTGATTCCGTGTAAGACCATGTCTGGGACATTGGCATCTTT
1 ATGTGATTCCGTGTAAGACCATGTCTGGGACATTGGCATCATT
*
79773949 ATTTGATT-CGTGTAAGACCAT
1 ATGTGATTCCGTGTAAGACCAT
79773970 AGCTGGGTTA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
42 13 0.22
43 46 0.78
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.36
Consensus pattern (43 bp):
ATGTGATTCCGTGTAAGACCATGTCTGGGACATTGGCATCATT
Found at i:79773986 original size:42 final size:43
Alignment explanation
Indices: 79773863--79773986 Score: 144
Period size: 43 Copynumber: 2.9 Consensus size: 43
79773853 GATTTACGAG
** * *
79773863 ATGTGATTATGTGTAAGACCATGTTTGGGACATTGGCATCATT
1 ATGTGATTCCGTGTAAGACCATGTCTGGGACATCGGCATCATT
* *
79773906 ATGTGATTCCGTGTAAGACCATGTCTGGGACATTGGCATCTTT
1 ATGTGATTCCGTGTAAGACCATGTCTGGGACATCGGCATCATT
* **
79773949 ATTTGATT-CGTGTAAGACCATAG-CTGGGTTATCGGCAT
1 ATGTGATTCCGTGTAAGACCAT-GTCTGGGACATCGGCAT
79773987 TGATATGTTA
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
42 25 0.35
43 47 0.65
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.35
Consensus pattern (43 bp):
ATGTGATTCCGTGTAAGACCATGTCTGGGACATCGGCATCATT
Found at i:79782812 original size:23 final size:25
Alignment explanation
Indices: 79782786--79782837 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
79782776 TTTTAATCCT
*
79782786 TTTTAAAT-TTTT-TATATAATTTA
1 TTTTAAATATTTTAAATATAATTTA
*
79782809 TTTTAAATATTTTAAATATTATTTA
1 TTTTAAATATTTTAAATATAATTTA
79782834 TTTT
1 TTTT
79782838 TACTATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 8 0.32
24 4 0.16
25 13 0.52
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (25 bp):
TTTTAAATATTTTAAATATAATTTA
Found at i:79782943 original size:27 final size:27
Alignment explanation
Indices: 79782906--79782979 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 27
79782896 TGTTATTCAT
*
79782906 ATTTTA-T-TATATATTTTATTTATAC
1 ATTTTATTATATATATTTTATCTATAC
*
79782931 ATTTTATTATATATCATTTTA-CTATAT
1 ATTTTATTATATAT-ATTTTATCTATAC
79782958 ATTATTCATTATAT-TATTTTAT
1 ATT-TT-ATTATATATATTTTAT
79782980 ATAATTATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
25 6 0.15
26 1 0.02
27 18 0.44
28 9 0.22
29 7 0.17
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (27 bp):
ATTTTATTATATATATTTTATCTATAC
Found at i:79782950 original size:15 final size:14
Alignment explanation
Indices: 79782904--79782979 Score: 72
Period size: 13 Copynumber: 5.6 Consensus size: 14
79782894 TGTGTTATTC
79782904 ATATTTTA-T-TAT
1 ATATTTTATTATAT
79782916 ATATTTTATT-TAT
1 ATATTTTATTATAT
*
79782929 ACATTTTATTATAT
1 ATATTTTATTATAT
*
79782943 ATCATTTTACTATAT
1 AT-ATTTTATTATAT
*
79782958 AT-TATTCATTATAT
1 ATAT-TTTATTATAT
79782972 -TATTTTAT
1 ATATTTTAT
79782980 ATAATTATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
12 8 0.15
13 19 0.36
14 13 0.25
15 13 0.25
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (14 bp):
ATATTTTATTATAT
Found at i:79782981 original size:10 final size:11
Alignment explanation
Indices: 79782898--79783001 Score: 60
Period size: 10 Copynumber: 9.6 Consensus size: 11
79782888 TATCTATGTG
79782898 TTATTCATATT-
1 TTATT-ATATTA
79782909 TTATTATA-TA
1 TTATTATATTA
79782919 TT-TTAT-TTA
1 TTATTATATTA
* *
79782928 TACATTTTATTA
1 T-TATTATATTA
* *
79782940 TATATCATTTTA
1 T-TATTATATTA
*
79782952 CTA-TATATTA
1 TTATTATATTA
79782962 TTCATTATATTA
1 TT-ATTATATTA
*
79782974 TT-TTATATAA
1 TTATTATATTA
79782984 TTATT-TATTA
1 TTATTATATTA
79782994 TTTATTAT
1 -TTATTAT
79783002 TATGTATAAT
Statistics
Matches: 71, Mismatches: 12, Indels: 19
0.70 0.12 0.19
Matches are distributed among these distances:
9 8 0.11
10 24 0.34
11 18 0.25
12 21 0.30
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATTATATTA
Found at i:79782993 original size:25 final size:27
Alignment explanation
Indices: 79782908--79783009 Score: 90
Period size: 25 Copynumber: 3.8 Consensus size: 27
79782898 TTATTCATAT
79782908 TTTATTATA-TATTTTATTTATACA-T-
1 TTTATTATATTATTTTA-TTATACATTA
* *
79782933 TTTATTATATATCATTTTACTATATATTA
1 TTTATTATAT-T-ATTTTATTATACATTA
*
79782962 TTCATTATATTATTTTA-TATA-ATTA
1 TTTATTATATTATTTTATTATACATTA
79782987 TTTATTAT-TTATTATTATGTATA
1 TTTATTATATTATT-TTAT-TATA
79783010 ATTTTAAAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
24 5 0.08
25 23 0.35
26 4 0.06
27 16 0.25
28 8 0.12
29 9 0.14
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (27 bp):
TTTATTATATTATTTTATTATACATTA
Found at i:79782994 original size:15 final size:14
Alignment explanation
Indices: 79782908--79783002 Score: 62
Period size: 15 Copynumber: 7.1 Consensus size: 14
79782898 TTATTCATAT
79782908 TTTATTATATA-T-
1 TTTATTATATATTA
*
79782920 TTTATT-TATA-CA
1 TTTATTATATATTA
*
79782932 TTTTATTATATATCA
1 -TTTATTATATATTA
*
79782947 TTTTACTATATATTA
1 -TTTATTATATATTA
*
79782962 TTCA-T-TATATTA
1 TTTATTATATATTA
79782974 -TT-TTATATAATTA
1 TTTATTATAT-ATTA
*
79782987 TTTATTATTTATTA
1 TTTATTATATATTA
79783001 TT
1 TT
79783003 ATGTATAATT
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
11 6 0.09
12 16 0.24
13 11 0.16
14 15 0.22
15 20 0.29
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTATTATATATTA
Found at i:79783578 original size:116 final size:112
Alignment explanation
Indices: 79783450--79783660 Score: 262
Period size: 116 Copynumber: 1.8 Consensus size: 112
79783440 TTATTTTAAG
* * *
79783450 TTATATTCGCATGAAATATTATTGTATATATATGTAATTTATATTGTTATATTCATTATTTTCTA
1 TTATATTCGCATGAAATATTAATGTATAT-TATGTAATTTATATCGTTAT-TT-ATCATTTTCTA
* * *
79783515 TGTTGTATTTTGCACGAAATGATAATGTATGTATATTTATGTTATTTACGA
63 TATTATA-TTTGCACGAAATGATAAAGTATGTATATTTATGTTATTTACGA
* * * *
79783566 TTATATAT-GCATGAAATGTTAATGTATATTGTGTACTTTATGTCGTTATTTATCATTTTCTATA
1 TTATAT-TCGCATGAAATATTAATGTATATTATGTAATTTATATCGTTATTTATCATTTTCTATA
* *
79783630 TTATATTTGCATGAAATGTTAAAGTATGTAT
65 TTATATTTGCACGAAATGATAAAGTATGTAT
79783661 CATGTAGTTT
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
112 23 0.28
113 15 0.18
114 2 0.02
115 16 0.20
116 25 0.30
117 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.50
Consensus pattern (112 bp):
TTATATTCGCATGAAATATTAATGTATATTATGTAATTTATATCGTTATTTATCATTTTCTATAT
TATATTTGCACGAAATGATAAAGTATGTATATTTATGTTATTTACGA
Found at i:79792633 original size:21 final size:20
Alignment explanation
Indices: 79792594--79792633 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
79792584 CTTTCTACTA
*
79792594 TCTCAATTATTACTTAGCAT
1 TCTCAATTATAACTTAGCAT
*
79792614 TCTCAATTCATAATTTAGCA
1 TCTCAATT-ATAACTTAGCA
79792634 ATTCATGCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.42
Consensus pattern (20 bp):
TCTCAATTATAACTTAGCAT
Found at i:79793255 original size:12 final size:12
Alignment explanation
Indices: 79793238--79793262 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
79793228 CAAAAATGTA
79793238 AAAATCATCAAG
1 AAAATCATCAAG
79793250 AAAATCATCAAG
1 AAAATCATCAAG
79793262 A
1 A
79793263 TCACTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:79798810 original size:10 final size:10
Alignment explanation
Indices: 79798795--79798824 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
79798785 AATAAAAAGG
79798795 CATATTATAA
1 CATATTATAA
79798805 CATATTATAA
1 CATATTATAA
*
79798815 CATATAATAA
1 CATATTATAA
79798825 AATCTATAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (10 bp):
CATATTATAA
Found at i:79800244 original size:37 final size:37
Alignment explanation
Indices: 79800187--79800308 Score: 217
Period size: 37 Copynumber: 3.3 Consensus size: 37
79800177 TATAAAAGAA
* *
79800187 GTCTTACCCGGACATGATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
79800224 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
79800261 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
79800298 GTCTCACCCGG
1 GTCTTACCCGG
79800309 AACATATTCC
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 82 1.00
ACGTcount: A:0.20, C:0.34, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Done.