Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 309 of 332
Found at i:101649150 original size:5 final size:5
Alignment explanation
Indices: 101649140--101649167 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
101649130 CTATGTGTTC
101649140 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
101649168 CACAAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:101656506 original size:64 final size:64
Alignment explanation
Indices: 101656387--101656509 Score: 178
Period size: 64 Copynumber: 1.9 Consensus size: 64
101656377 ATCATTATTT
101656387 TTTAAATATTTTTTACATATATATTTATAGTCTTATTTTTAATTTCTTAATAAATTATACAAACA
1 TTTAAATATTTTTTA-ATATATATTTATAGTCTTATTTTTAATTTCTTAATAAATTATACAAACA
* * *
101656452 TTTAAATATTTTTT-ATATATGTTTATAGT-TTGATTGTTTAGTTTGTTAATAAATTATA
1 TTTAAATATTTTTTAATATATATTTATAGTCTT-ATT-TTTAATTTCTTAATAAATTATA
101656510 TATTATATAT
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
62 2 0.04
63 17 0.32
64 20 0.38
65 14 0.26
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (64 bp):
TTTAAATATTTTTTAATATATATTTATAGTCTTATTTTTAATTTCTTAATAAATTATACAAACA
Found at i:101657316 original size:16 final size:16
Alignment explanation
Indices: 101657295--101657325 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
101657285 CTTATGTGTT
*
101657295 TTTTTTTAAATATTTA
1 TTTTTTAAAATATTTA
101657311 TTTTTTAAAATATTT
1 TTTTTTAAAATATTT
101657326 TACGATTTTT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTTAAAATATTTA
Found at i:101658451 original size:17 final size:18
Alignment explanation
Indices: 101658415--101658451 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
101658405 ATATATTCAT
* *
101658415 AAAAATTTGAGTTTGAAA
1 AAAAATTTGAGCTCGAAA
101658433 AAAAATTTGAGCTCGAAA
1 AAAAATTTGAGCTCGAAA
101658451 A
1 A
101658452 TGTTTGAGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.27
Consensus pattern (18 bp):
AAAAATTTGAGCTCGAAA
Found at i:101658730 original size:21 final size:24
Alignment explanation
Indices: 101658694--101658740 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 24
101658684 TAAATTATAA
*
101658694 ATGAAAATTGATATTTTTAAT-TT
1 ATGAAAATTGATATTTTAAATATT
101658717 ATGAAAA-T-ATATTTTAAATATT
1 ATGAAAATTGATATTTTAAATATT
101658739 AT
1 AT
101658741 ATAATTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 10 0.45
22 5 0.23
23 7 0.32
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (24 bp):
ATGAAAATTGATATTTTAAATATT
Found at i:101658749 original size:22 final size:21
Alignment explanation
Indices: 101658698--101658751 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
101658688 TTATAAATGA
*
101658698 AAATTGATATTTTTAATTTATG
1 AAATT-ATATTTTAAATTTATG
*
101658720 AAAATATATTTTAAATATTAT-
1 AAATTATATTTTAAAT-TTATG
101658741 ATAATTATATT
1 A-AATTATATT
101658752 AAAATTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (21 bp):
AAATTATATTTTAAATTTATG
Found at i:101658764 original size:19 final size:21
Alignment explanation
Indices: 101658730--101658779 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
101658720 AAAATATATT
*
101658730 TTAAATATTATATAATT-ATA
1 TTAAATATTTTATAATTCATA
101658750 TTAAA-ATTTTATAATTCATA
1 TTAAATATTTTATAATTCATA
*
101658770 ATAAATATTT
1 TTAAATATTT
101658780 ATGTTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 10 0.38
20 12 0.46
21 4 0.15
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAAATATTTTATAATTCATA
Found at i:101658787 original size:33 final size:29
Alignment explanation
Indices: 101658745--101658809 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 29
101658735 TATTATATAA
*
101658745 TTATATTAAAATTTTATAATTCATAATAAATAT
1 TTATATT-AAATTTTA-AATT-AGAATAAAT-T
*
101658778 TTATGTTAAATTTTAAATTAGAATAAATT
1 TTATATTAAATTTTAAATTAGAATAAATT
101658807 TTA
1 TTA
101658810 AAAGTATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 4 0.13
30 8 0.27
31 4 0.13
32 8 0.27
33 6 0.20
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (29 bp):
TTATATTAAATTTTAAATTAGAATAAATT
Found at i:101666500 original size:22 final size:23
Alignment explanation
Indices: 101666459--101666501 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
101666449 TATAATTTCT
* *
101666459 TTTTCGGTTTTGGGGGTTTTTTG
1 TTTTCGGTTTTAGGGATTTTTTG
101666482 TTTTC-GTTTTAGGGATTTTT
1 TTTTCGGTTTTAGGGATTTTT
101666502 AATTTGGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.05, C:0.05, G:0.28, T:0.63
Consensus pattern (23 bp):
TTTTCGGTTTTAGGGATTTTTTG
Found at i:101667721 original size:23 final size:26
Alignment explanation
Indices: 101667667--101667722 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
101667657 ATGAAAATAA
101667667 TTTAATAAAAAATTAAAATTAACAAAT
1 TTTAATAAAAAA-TAAAATTAACAAAT
*
101667694 TTTAATAAAAAA-ATAATT-AC-AAT
1 TTTAATAAAAAATAAAATTAACAAAT
101667717 TTTAAT
1 TTTAAT
101667723 TACTCAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 9 0.32
24 2 0.07
25 5 0.18
27 12 0.43
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.38
Consensus pattern (26 bp):
TTTAATAAAAAATAAAATTAACAAAT
Found at i:101668745 original size:11 final size:11
Alignment explanation
Indices: 101668710--101668796 Score: 57
Period size: 11 Copynumber: 7.5 Consensus size: 11
101668700 TTTCGCTGTC
*
101668710 ATTTTGTTATT
1 ATTTTATTATT
*
101668721 ATATTATTATT
1 ATTTTATTATT
*
101668732 ATTTTATTGTT
1 ATTTTATTATT
*
101668743 ATTGTTTGAATATT
1 A-T-TTT-ATTATT
* * * *
101668757 ATATAACTCTT
1 ATTTTATTATT
101668768 ATTTTATTATT
1 ATTTTATTATT
*
101668779 AATTTTATTACT
1 -ATTTTATTATT
101668791 ATTTTA
1 ATTTTA
101668797 AAGGCATCTG
Statistics
Matches: 57, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
11 36 0.63
12 12 0.21
13 4 0.07
14 5 0.09
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (11 bp):
ATTTTATTATT
Found at i:101669614 original size:24 final size:24
Alignment explanation
Indices: 101669583--101669642 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
101669573 ATTTATTTGC
101669583 ACAT-CATTTAATTTATTAATAAT
1 ACATACATTTAATTTATTAATAAT
*
101669606 ACATACATTTAATTTATTGATAAT
1 ACATACATTTAATTTATTAATAAT
*
101669630 --ATACATATAATTT
1 ACATACATTTAATTT
101669643 TAAGTAACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 12 0.35
23 4 0.12
24 18 0.53
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (24 bp):
ACATACATTTAATTTATTAATAAT
Found at i:101673438 original size:24 final size:22
Alignment explanation
Indices: 101673411--101673456 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 22
101673401 GAAACAGAGC
101673411 AGGGAAAGAAAGAAAGAAAGAAAA
1 AGGGAAAGAAA-AAA-AAAGAAAA
101673435 AGGGAAAGAAAAAAAAAGAAAA
1 AGGGAAAGAAAAAAAAAGAAAA
101673457 TTTTAGGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 8 0.36
23 3 0.14
24 11 0.50
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (22 bp):
AGGGAAAGAAAAAAAAAGAAAA
Found at i:101673441 original size:16 final size:16
Alignment explanation
Indices: 101673422--101673452 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
101673412 GGGAAAGAAA
*
101673422 GAAAGAAAGAAAAAGG
1 GAAAGAAAAAAAAAGG
101673438 GAAAGAAAAAAAAAG
1 GAAAGAAAAAAAAAG
101673453 AAAATTTTAG
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:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (16 bp):
GAAAGAAAAAAAAAGG
Found at i:101675243 original size:20 final size:20
Alignment explanation
Indices: 101675218--101675262 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
101675208 GCCCCACAAC
*
101675218 CATGTTCCAAGCCACACGGG
1 CATGTTCCAAGCCACACGAG
*
101675238 CATGTTCCAGGCCACACGAG
1 CATGTTCCAAGCCACACGAG
101675258 CATGT
1 CATGT
101675263 GCCCCTATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.24, C:0.33, G:0.24, T:0.18
Consensus pattern (20 bp):
CATGTTCCAAGCCACACGAG
Found at i:101676450 original size:20 final size:20
Alignment explanation
Indices: 101676393--101676452 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
101676383 AATACTACAT
101676393 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
101676412 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
101676435 AAATATGTACATAATATA
1 AAATATGTACATAATATA
101676453 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:101676491 original size:22 final size:23
Alignment explanation
Indices: 101676430--101676528 Score: 83
Period size: 25 Copynumber: 4.1 Consensus size: 23
101676420 ACGTGATAAT
*
101676430 ATTAAAAATATGTACATAATATA
1 ATTAAAAATATATACATAATATA
* *
101676453 GTGTAAAAAATACATACATAATATA
1 AT-T-AAAAATATATACATAATATA
*
101676478 ATT-AAAATATATACATAAAATAA
1 ATTAAAAATATATACATAATAT-A
* *
101676501 CATGTAAAAAATATATATATAAAATA
1 -AT-T-AAAAATATATACATAATATA
101676527 AT
1 AT
101676529 ATAGTATTAA
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
22 16 0.26
23 2 0.03
24 4 0.06
25 22 0.35
26 1 0.02
27 17 0.27
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (23 bp):
ATTAAAAATATATACATAATATA
Found at i:101676531 original size:16 final size:15
Alignment explanation
Indices: 101676505--101676568 Score: 51
Period size: 15 Copynumber: 4.1 Consensus size: 15
101676495 AAATAACATG
101676505 TAAAAAATATATATA
1 TAAAAAATATATATA
101676520 TAAAATAATATAGTAT-
1 TAAAA-AATATA-TATA
* *
101676536 T-AAAGATATATACA
1 TAAAAAATATATATA
*
101676550 TAAAATAGTATAATATA
1 TAAAA-AATAT-ATATA
101676567 TA
1 TA
101676569 TATACGTAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
13 2 0.05
14 6 0.16
15 11 0.29
16 10 0.26
17 9 0.24
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (15 bp):
TAAAAAATATATATA
Found at i:101676557 original size:25 final size:25
Alignment explanation
Indices: 101676510--101676647 Score: 85
Period size: 25 Copynumber: 5.8 Consensus size: 25
101676500 ACATGTAAAA
* *
101676510 AATATATATATAAAATAATATAGTATT
1 AATAGATATAT-ACATAATATAGTA-T
*
101676537 AA-AGATATATACATAAAATAGTAT
1 AATAGATATATACATAATATAGTAT
* * *
101676561 AATATATATATACGTAATATAGAAT
1 AATAGATATATACATAATATAGTAT
* *
101676586 -TTAGA-ATATACCTAATATA-T-T
1 AATAGATATATACATAATATAGTAT
* * *
101676607 AAAAGA-ATATATATAATATAATAT
1 AATAGATATATACATAATATAGTAT
* *
101676631 TA-AGAAATATA-ATAATA
1 AATAGATATATACATAATA
101676648 ACAAAAAAAG
Statistics
Matches: 90, Mismatches: 16, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
21 1 0.01
22 15 0.17
23 23 0.26
24 13 0.14
25 29 0.32
26 7 0.08
27 2 0.02
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.36
Consensus pattern (25 bp):
AATAGATATATACATAATATAGTAT
Found at i:101677170 original size:30 final size:30
Alignment explanation
Indices: 101677136--101677221 Score: 154
Period size: 30 Copynumber: 2.9 Consensus size: 30
101677126 GTGGTGGTGG
* *
101677136 AGTGTGGCTAGTGGAGTAGGTAGTGGAGCA
1 AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
101677166 AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
1 AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
101677196 AGTGTGGCTAGTGGAGTTGGTGGTGG
1 AGTGTGGCTAGTGGAGTTGGTGGTGG
101677222 CAAAGGCTAG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.17, C:0.06, G:0.50, T:0.27
Consensus pattern (30 bp):
AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
Found at i:101677179 original size:18 final size:18
Alignment explanation
Indices: 101677156--101677211 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
101677146 GTGGAGTAGG
101677156 TAGTGGAGCAAGTGTGGC
1 TAGTGGAGCAAGTGTGGC
101677174 TAGT-G-G--AGT-TGG-
1 TAGTGGAGCAAGTGTGGC
*
101677186 TGGTGGAGCAAGTGTGGC
1 TAGTGGAGCAAGTGTGGC
101677204 TAGTGGAG
1 TAGTGGAG
101677212 TTGGTGGTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
12 3 0.10
13 4 0.13
14 4 0.13
16 4 0.13
17 4 0.13
18 11 0.37
ACGTcount: A:0.20, C:0.07, G:0.48, T:0.25
Consensus pattern (18 bp):
TAGTGGAGCAAGTGTGGC
Found at i:101678175 original size:75 final size:74
Alignment explanation
Indices: 101678025--101678435 Score: 562
Period size: 75 Copynumber: 5.5 Consensus size: 74
101678015 CATGTGATCC
* *
101678025 GAGGCTTC-ACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAA-ACAGAGA-TCAAAATTACCT
1 GAGGC-TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAA-TACCT
* *
101678086 CAGCGTGTCCT
64 CAACGTGTCTT
*
101678097 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTATTTTGAAAGACAGAAATTGAAATTACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTGAAAGACAGAAATTGAAAATACCTC
*
101678162 AGCGTGTCTT
65 AACGTGTCTT
101678172 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAATACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAATACCTCA
101678237 ACGTGTCTT
66 ACGTGTCTT
* * * *
101678246 GTGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTTTTGAAAGACAGAAATTGAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTG-A-TTTTTTGAAAGACAGAAATTGAAAATACCT
101678311 CAACGTGTCTT
64 CAACGTGTCTT
* * * *
101678322 GAGGCTCAACTCACTTATTGCAATATGAGTTGA-TTTTTGAAAGGCAGAAATTGAAAATACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAATACCTCA
* *
101678386 ACATGTCAGTC
66 ACGTGTC--TT
* *
101678397 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
101678436 TGAACCGTAG
Statistics
Matches: 310, Mismatches: 19, Indels: 16
0.90 0.06 0.05
Matches are distributed among these distances:
71 2 0.01
72 30 0.10
73 37 0.12
74 73 0.24
75 89 0.29
76 79 0.25
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (74 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAATACCTCA
ACGTGTCTT
Found at i:101690441 original size:16 final size:15
Alignment explanation
Indices: 101690415--101690449 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
101690405 TGATGTGAAT
101690415 AATATAAAATATTAA
1 AATATAAAATATTAA
*
101690430 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
101690446 AATA
1 AATA
101690450 ATAATTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:101690618 original size:20 final size:20
Alignment explanation
Indices: 101690561--101690667 Score: 63
Period size: 22 Copynumber: 5.0 Consensus size: 20
101690551 AATACTACAT
101690561 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
101690580 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
101690603 AAATATGTACATAATATAGTGTAA
1 AAATATGTACATAATATA----AA
**
101690627 AAATACATACATAATATAATTA
1 AAATATGTACATAATATAA--A
* *
101690649 AAATATATACATAAAATAA
1 AAATATGTACATAATATAA
101690668 CATGTAAAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 17
0.72 0.11 0.18
Matches are distributed among these distances:
19 8 0.12
20 8 0.12
22 20 0.29
23 14 0.21
24 18 0.26
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.31
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:101690629 original size:25 final size:24
Alignment explanation
Indices: 101690600--101690742 Score: 121
Period size: 24 Copynumber: 5.9 Consensus size: 24
101690590 GTGATAATAT
*
101690600 TAAAAATATGTACATAATATAGTG
1 TAAAAATATATACATAATATAGTG
* *
101690624 TAAAAATACATACATAATATAAT-
1 TAAAAATATATACATAATATAGTG
* *
101690647 T-AAAATATATACATAAAATAACATG
1 TAAAAATATATACATAATAT-A-GTG
* *
101690672 TAAAAAATATATAAATAATATAGTAT
1 T-AAAAATATATACATAATATAGT-G
* * *
101690698 TAAAGATATATACATAAAATAGTA
1 TAAAAATATATACATAATATAGTG
* *
101690722 T-AATATATATACGTAATATAG
1 TAAAAATATATACATAATATAG
101690743 AATTTAGAAT
Statistics
Matches: 97, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
22 16 0.16
23 19 0.20
24 23 0.24
25 21 0.22
26 2 0.02
27 16 0.16
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.32
Consensus pattern (24 bp):
TAAAAATATATACATAATATAGTG
Found at i:101690805 original size:23 final size:25
Alignment explanation
Indices: 101690762--101690807 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
101690752 TATACCTAAT
101690762 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
101690787 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
101690808 ACAAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:101691199 original size:19 final size:18
Alignment explanation
Indices: 101691169--101691215 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
101691159 TTTACAGTAA
*
101691169 CTTTCTCCCCAAAAACTT
1 CTTTCTCCCCCAAAACTT
101691187 CTTTCTCCCCCAAAACTT
1 CTTTCTCCCCCAAAACTT
*
101691205 CTTCCTCCCCC
1 CTTTCTCCCCC
101691216 TTTAATACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.19, C:0.49, G:0.00, T:0.32
Consensus pattern (18 bp):
CTTTCTCCCCCAAAACTT
Found at i:101697184 original size:12 final size:12
Alignment explanation
Indices: 101697164--101697199 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
101697154 TGGGATATGC
*
101697164 AATGTATGAATG
1 AATGCATGAATG
101697176 AATGCATGAATG
1 AATGCATGAATG
101697188 AATGCATGAATG
1 AATGCATGAATG
101697200 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:101698755 original size:14 final size:14
Alignment explanation
Indices: 101698727--101698774 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
101698717 TGATGTGAAT
101698727 AATA-AAATATATAA
1 AATATAAATAT-TAA
101698741 AATATAAATATTAA
1 AATATAAATATTAA
*
101698755 AATATCAAAATATTAG
1 AATAT--AAATATTAA
101698771 AATA
1 AATA
101698775 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 12 0.40
15 6 0.20
16 12 0.40
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (14 bp):
AATATAAATATTAA
Found at i:101698755 original size:23 final size:22
Alignment explanation
Indices: 101698724--101698778 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
101698714 TAATGATGTG
*
101698724 AATAATAAAATATATAAAATATA
1 AATAATAAAATAT-CAAAATATA
*
101698747 AATATTAAAATATCAAAATATTA
1 AATAATAAAATATCAAAATA-TA
101698770 GAATAATAA
1 -AATAATAA
101698779 TAATTAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.22
23 14 0.52
24 7 0.26
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
AATAATAAAATATCAAAATATA
Found at i:101698759 original size:8 final size:8
Alignment explanation
Indices: 101698724--101698774 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
101698714 TAATGATGTG
*
101698724 AATAATAA
1 AATATTAA
101698732 AATATATAA
1 AATAT-TAA
101698741 AATA-T-A
1 AATATTAA
101698747 AATATTAA
1 AATATTAA
*
101698755 AATATCAA
1 AATATTAA
*
101698763 AATATTAG
1 AATATTAA
101698771 AATA
1 AATA
101698775 ATAATAATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
6 5 0.14
7 2 0.06
8 22 0.61
9 7 0.19
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:101698765 original size:16 final size:15
Alignment explanation
Indices: 101698728--101698774 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
101698718 GATGTGAATA
101698728 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
101698744 AT-AAATATTAAAAT
1 ATAAAATATTAAAAT
*
101698758 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
101698774 A
1 A
101698775 ATAATAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 8 0.29
15 6 0.21
16 14 0.50
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:101698986 original size:22 final size:24
Alignment explanation
Indices: 101698923--101698987 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
101698913 CGTGATAATA
*
101698923 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
101698948 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
101698971 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
101698988 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:101699012 original size:30 final size:29
Alignment explanation
Indices: 101698976--101699037 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
101698966 TATAGTTAAG
*
101698976 ATATATACATAAGATAACATGTAAAAATAT
1 ATATATAAATAAGATAACAT-TAAAAATAT
* * *
101699006 ATATATAAATAATATAATATTAAAGATAT
1 ATATATAAATAAGATAACATTAAAAATAT
101699035 ATA
1 ATA
101699038 CAAAATAGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 11 0.39
30 17 0.61
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (29 bp):
ATATATAAATAAGATAACATTAAAAATAT
Found at i:101699034 original size:25 final size:25
Alignment explanation
Indices: 101699006--101699137 Score: 68
Period size: 23 Copynumber: 5.6 Consensus size: 25
101698996 GTAAAAATAT
101699006 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * *
101699031 ATATATACA-AA-ATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
* *
101699054 ATATATATACGTAATATAGA-ATTTAA-
1 ATATATA-A-ATAATATA-ATATTAAAG
** *
101699080 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
101699102 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
101699125 AAATAT-AATAATA
1 ATATATAAATAATA
101699138 ACAAAAAAGG
Statistics
Matches: 80, Mismatches: 17, Indels: 22
0.67 0.14 0.18
Matches are distributed among these distances:
21 4 0.05
22 12 0.15
23 34 0.43
24 7 0.09
25 13 0.16
26 3 0.04
27 7 0.09
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:101699069 original size:50 final size:46
Alignment explanation
Indices: 101698999--101699131 Score: 121
Period size: 50 Copynumber: 2.8 Consensus size: 46
101698989 ATAACATGTA
101698999 AAAATATATATATAAATAATATAATATTAAAGATATATACAAAATAGTA-T
1 AAAATATATATAT--ATAATATAATATT-AAGA-ATATACAAAATA-TATT
**
101699049 AAAATATATATATACGTAATATAGA-ATTTAA-AATATACCTAATATATT
1 AAAATATATATATA--TAATATA-ATA-TTAAGAATATACAAAATATATT
*
101699097 AAAAGA-ATATATATAATATAATATTAAGAAATATA
1 AAAATATATATATATAATATAATATTAAG-AATATA
101699132 ATAATAACAA
Statistics
Matches: 72, Mismatches: 3, Indels: 20
0.76 0.03 0.21
Matches are distributed among these distances:
44 5 0.07
45 8 0.11
46 6 0.08
47 9 0.12
48 17 0.24
49 1 0.01
50 23 0.32
51 3 0.04
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.35
Consensus pattern (46 bp):
AAAATATATATATATAATATAATATTAAGAATATACAAAATATATT
Found at i:101699135 original size:23 final size:25
Alignment explanation
Indices: 101699092--101699137 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
101699082 TATACCTAAT
101699092 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
101699117 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
101699138 ACAAAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:101699719 original size:30 final size:30
Alignment explanation
Indices: 101699672--101699751 Score: 133
Period size: 30 Copynumber: 2.7 Consensus size: 30
101699662 TGGAAAAAGA
*
101699672 GTGGCAAAAGAGTGGCTAGTGGAGTTGGTG
1 GTGGAAAAAGAGTGGCTAGTGGAGTTGGTG
* *
101699702 GTGGAAAAGGTGTGGCTAGTGGAGTTGGTG
1 GTGGAAAAAGAGTGGCTAGTGGAGTTGGTG
101699732 GTGGAAAAAGAGTGGCTAGT
1 GTGGAAAAAGAGTGGCTAGT
101699752 TGAGAAAAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.25, C:0.05, G:0.46, T:0.24
Consensus pattern (30 bp):
GTGGAAAAAGAGTGGCTAGTGGAGTTGGTG
Found at i:101711015 original size:12 final size:13
Alignment explanation
Indices: 101710988--101711019 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
101710978 ATTTCCTGTA
101710988 TTTTT-TTTTACG
1 TTTTTATTTTACG
101711000 TTTTTATTTTAC-
1 TTTTTATTTTACG
101711012 TTTTTATT
1 TTTTTATT
101711020 ACAAATCTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.12, C:0.06, G:0.03, T:0.78
Consensus pattern (13 bp):
TTTTTATTTTACG
Found at i:101714631 original size:25 final size:25
Alignment explanation
Indices: 101714602--101714667 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
101714592 AAAAGGTATA
101714602 TATAAAGCTTCAAAAT-AACAATAAG
1 TATAAAG-TTCAAAATAAACAATAAG
* * * *
101714627 TATAATGGTTTAAGATAAACAATATG
1 TATAA-AGTTCAAAATAAACAATAAG
101714653 TATAAAGTTCAAAAT
1 TATAAAGTTCAAAAT
101714668 GAATAATAGT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
25 18 0.56
26 14 0.44
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.30
Consensus pattern (25 bp):
TATAAAGTTCAAAATAAACAATAAG
Found at i:101719975 original size:26 final size:26
Alignment explanation
Indices: 101719946--101719996 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
101719936 AAATCAAATA
* *
101719946 GTTTAAAATAAATAATATTTAAAAGG
1 GTTTAAAATAAATAACATGTAAAAGG
*
101719972 GTTTAAGATAAATAACATGTAAAAG
1 GTTTAAAATAAATAACATGTAAAAG
101719997 AGAAATTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.53, C:0.02, G:0.14, T:0.31
Consensus pattern (26 bp):
GTTTAAAATAAATAACATGTAAAAGG
Found at i:101720272 original size:38 final size:36
Alignment explanation
Indices: 101720212--101720290 Score: 97
Period size: 36 Copynumber: 2.1 Consensus size: 36
101720202 AAAGGTCTAC
*
101720212 ATATAAATATTATACATATAAAAATATTTAAAATAGATA
1 ATATAAATAGTATACATAT-AAAA-ATTTAAAATA-ATA
* *
101720251 ATATAAAT-GTATACATGTAAAAGTTTAAAATAATA
1 ATATAAATAGTATACATATAAAAATTTAAAATAATA
101720286 ATATA
1 ATATA
101720291 CAAAACTTAC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 8 0.22
36 9 0.24
37 4 0.11
38 8 0.22
39 8 0.22
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (36 bp):
ATATAAATAGTATACATATAAAAATTTAAAATAATA
Found at i:101720308 original size:23 final size:20
Alignment explanation
Indices: 101720275--101720333 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
101720265 ATGTAAAAGT
*
101720275 TTAAAATAATAATATACAAAAC
1 TTAAAA-AATAATATA-AAAAA
101720297 TTACAACAAATAAT-TAAAAAA
1 TTA-AA-AAATAATATAAAAAA
101720318 TTAAAAAATATATATA
1 TTAAAAAATA-ATATA
101720334 TATATATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
19 5 0.16
20 4 0.12
21 9 0.28
22 5 0.16
23 8 0.25
24 1 0.03
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (20 bp):
TTAAAAAATAATATAAAAAA
Found at i:101720452 original size:19 final size:18
Alignment explanation
Indices: 101720400--101720455 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
101720390 AAAAAAATTC
*
101720400 AATACAAAAGTTTAAAATA
1 AATAAAAAAGTTT-AAATA
* *
101720419 AATAAAATGATTTTAAATA
1 AATAAAA-AAGTTTAAATA
101720438 AATAGAAAAAGTTTAAAT
1 AATA-AAAAAGTTTAAAT
101720456 TCACACCAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
19 23 0.77
20 7 0.23
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (18 bp):
AATAAAAAAGTTTAAATA
Found at i:101723185 original size:13 final size:13
Alignment explanation
Indices: 101723167--101723192 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
101723157 AAAAGTTAAA
101723167 ATTATGGATTGGT
1 ATTATGGATTGGT
101723180 ATTATGGATTGGT
1 ATTATGGATTGGT
101723193 CCCTAAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (13 bp):
ATTATGGATTGGT
Found at i:101723834 original size:27 final size:27
Alignment explanation
Indices: 101723803--101723857 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
101723793 TTTTACTAAA
*
101723803 ATTCCATTCGGAGAAACAACATGAATG
1 ATTCCATTAGGAGAAACAACATGAATG
101723830 ATTCCATTAGGAGAAACAACATGAATG
1 ATTCCATTAGGAGAAACAACATGAATG
101723857 A
1 A
101723858 AATTAAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.22
Consensus pattern (27 bp):
ATTCCATTAGGAGAAACAACATGAATG
Found at i:101726054 original size:12 final size:12
Alignment explanation
Indices: 101726039--101726150 Score: 51
Period size: 12 Copynumber: 9.3 Consensus size: 12
101726029 TTTTCACCCC
101726039 TATTATATTTAT
1 TATTATATTTAT
101726051 TATTA-A--TAT
1 TATTATATTTAT
*
101726060 TAGTATATATT-T
1 TATTATAT-TTAT
*
101726072 TATTATACGTGTA-
1 TATTATA--TTTAT
101726085 TATATATACTTT-T
1 TAT-TATA-TTTAT
101726098 TATATATAGTATTAT
1 TAT-TATA-T-TTAT
*
101726113 T-TT-TATATAT
1 TATTATATTTAT
*
101726123 CATTATATTTAT
1 TATTATATTTAT
*
101726135 TATTATACTTAT
1 TATTATATTTAT
101726147 TATT
1 TATT
101726151 TTCACTATTG
Statistics
Matches: 76, Mismatches: 11, Indels: 26
0.67 0.10 0.23
Matches are distributed among these distances:
9 7 0.09
10 4 0.05
11 4 0.05
12 34 0.45
13 17 0.22
14 8 0.11
15 2 0.03
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.59
Consensus pattern (12 bp):
TATTATATTTAT
Found at i:101726117 original size:18 final size:18
Alignment explanation
Indices: 101726094--101726152 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
101726084 ATATATATAC
*
101726094 TTTTTATATATAGTATTA
1 TTTTTATATATATTATTA
101726112 TTTTTATATATCATTA-TA
1 TTTTTATATAT-ATTATTA
101726130 TTTATTAT-TATACTTATTA
1 TTT-TTATATATA-TTATTA
101726149 TTTT
1 TTTT
101726153 CACTATTGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 1 0.03
18 23 0.64
19 12 0.33
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTTTATATATATTATTA
Found at i:101729510 original size:13 final size:13
Alignment explanation
Indices: 101729492--101729518 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
101729482 AATATTGAAA
101729492 TTGATAAATTGGC
1 TTGATAAATTGGC
101729505 TTGATAAATTGGC
1 TTGATAAATTGGC
101729518 T
1 T
101729519 AAGGTGGGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (13 bp):
TTGATAAATTGGC
Found at i:101735776 original size:28 final size:28
Alignment explanation
Indices: 101735717--101735776 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
101735707 TATAGATACA
* * *
101735717 TAAATATATAAAAATTTAGAACACAAAT
1 TAAATATATAAAAATTTAAAACAAAAAC
* * *
101735745 TAAATTTATTAAAATTTAAAATAAAAAC
1 TAAATATATAAAAATTTAAAACAAAAAC
101735773 TAAA
1 TAAA
101735777 AGTTGCTTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (28 bp):
TAAATATATAAAAATTTAAAACAAAAAC
Found at i:101736591 original size:19 final size:20
Alignment explanation
Indices: 101736521--101736589 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 20
101736511 ATAAAAATTA
101736521 ATAAAATATTTG-AAAGTTT
1 ATAAAATATTTGAAAAGTTT
* *
101736540 AAAAAATATTTAAAAAGTTATT
1 ATAAAATATTTGAAAAG-T-TT
101736562 CATTCAAAA-ATTTGAAAAGTTT
1 -A-T-AAAATATTTGAAAAGTTT
101736584 ATAAAA
1 ATAAAA
101736590 ATCTAAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
19 14 0.35
20 5 0.12
21 2 0.05
22 4 0.10
23 2 0.05
24 9 0.22
25 4 0.10
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (20 bp):
ATAAAATATTTGAAAAGTTT
Found at i:101736620 original size:22 final size:23
Alignment explanation
Indices: 101736594--101736638 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
101736584 ATAAAAATCT
101736594 AAAAA-TAT-TAAAATTTATAAAA
1 AAAAATTATATAAAATTTA-AAAA
101736616 AAAAATTATATAAAATTTAAAAA
1 AAAAATTATATAAAATTTAAAAA
101736639 GGATTCTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.24
23 7 0.33
24 9 0.43
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAAATTATATAAAATTTAAAAA
Found at i:101740511 original size:37 final size:37
Alignment explanation
Indices: 101740470--101740552 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 37
101740460 AAAAAATTTG
* * *
101740470 AAATATTATTAAATTATATTTAATAATAATTATATTA
1 AAATATAATTAAATTATATTTAAAAATAATCATATTA
* *
101740507 AAATATAATTAAATTATTTTTAAAAATAATCCTATTA
1 AAATATAATTAAATTATATTTAAAAATAATCATATTA
*
101740544 AAATTTAAT
1 AAATATAAT
101740553 AACAATAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (37 bp):
AAATATAATTAAATTATATTTAAAAATAATCATATTA
Found at i:101740514 original size:16 final size:17
Alignment explanation
Indices: 101740481--101740522 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
101740471 AATATTATTA
*
101740481 AATTATATT-TAATAAT
1 AATTATATTAAAATAAT
101740497 AATTATATTAAAAT-AT
1 AATTATATTAAAATAAT
*
101740513 AATTAAATTA
1 AATTATATTA
101740523 TTTTTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTATATTAAAATAAT
Found at i:101740521 original size:21 final size:20
Alignment explanation
Indices: 101740477--101740536 Score: 56
Period size: 21 Copynumber: 3.1 Consensus size: 20
101740467 TTGAAATATT
*
101740477 ATTAAATTATATT--TAATA
1 ATTAAATTATATTAAAAATA
101740495 A-T-AATTATATTAAAATATA
1 ATTAAATTATATTAAAA-ATA
*
101740514 ATTAAATTATTTTTAAAAATA
1 ATTAAATTA-TATTAAAAATA
101740535 AT
1 AT
101740537 CCTATTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
16 9 0.26
17 1 0.03
18 2 0.06
19 4 0.12
20 1 0.03
21 10 0.29
22 7 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTAAATTATATTAAAAATA
Found at i:101741292 original size:16 final size:16
Alignment explanation
Indices: 101741271--101741318 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
101741261 TTTTTGTATG
* *
101741271 ATATAAATTACATAAT
1 ATATAAATTAAAAAAT
*
101741287 ATATAAAATAAAAAAT
1 ATATAAATTAAAAAAT
* *
101741303 ATATATATTATAAAAT
1 ATATAAATTAAAAAAT
101741319 TGAAAAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
ATATAAATTAAAAAAT
Found at i:101743400 original size:20 final size:22
Alignment explanation
Indices: 101743363--101743402 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
101743353 ATTATGTAAA
101743363 ATGTTTTAATATTATATTATAT
1 ATGTTTTAATATTATATTATAT
101743385 ATGTTTT-ATA-TATATTAT
1 ATGTTTTAATATTATATTAT
101743403 GAACATGTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 3 0.17
22 7 0.39
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (22 bp):
ATGTTTTAATATTATATTATAT
Found at i:101743410 original size:22 final size:23
Alignment explanation
Indices: 101743348--101743410 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 23
101743338 ATTATATGTG
101743348 TATATATTATGTAAAATGTTTTAA
1 TATATATTATG-AAAATGTTTTAA
*
101743372 TATTATATTAT--ATATGTTTT-A
1 TA-TATATTATGAAAATGTTTTAA
*
101743393 TATATATTATGAACATGT
1 TATATATTATGAAAATGT
101743411 CTTTTCAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
20 8 0.24
21 3 0.09
22 13 0.38
24 2 0.06
25 8 0.24
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (23 bp):
TATATATTATGAAAATGTTTTAA
Found at i:101755862 original size:76 final size:76
Alignment explanation
Indices: 101755647--101755955 Score: 423
Period size: 75 Copynumber: 4.1 Consensus size: 76
101755637 CAAATTCTAC
* * * *
101755647 TTTCAATTACTGTTTGTC---AAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCA
1 TTTCAATTATTGTTTGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *
101755709 TGCTGGGGTAT
66 CGCTGAGGTAT
* * * *
101755720 TTTCAATTATTGTTTGT-AAAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAACCTCGGGGCA
1 TTTCAATTATTGTTTGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
101755784 CGCTAAGGTAT
66 CGCTGAGGTAT
101755795 TTTCAATTATTGTTTGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTATTGTTTGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
101755860 CGCTGAGGTAT
66 CGCTGAGGTAT
* *
101755871 TTTCAATT-TCTGTCCT-TCAAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGG
1 TTTCAATTAT-TGT-TTGTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
*
101755934 ACACGCTGAGCTAT
63 ACACGCTGAGGTAT
101755948 TTTCAATT
1 TTTCAATT
101755956 GATGTTTTTT
Statistics
Matches: 216, Mismatches: 13, Indels: 10
0.90 0.05 0.04
Matches are distributed among these distances:
73 16 0.07
75 69 0.32
76 66 0.31
77 65 0.30
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (76 bp):
TTTCAATTATTGTTTGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTAT
Found at i:101756095 original size:91 final size:89
Alignment explanation
Indices: 101755891--101756148 Score: 279
Period size: 91 Copynumber: 2.9 Consensus size: 89
101755881 TGTCCTTCAA
* * *
101755891 AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGG-ACACGCTGAGCTATTTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTACACGCTGAGGTATTTTCAAT
** * *
101755955 TGATGTTTTTTCAATTTACGCTTT
66 TTCTGTTCTTTCAATTTACGCTTC
** * * *
101755979 TCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCATACGCTGAGGTATTTTCCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT-ACACGCTGAGGTATTTTCAA
*
101756044 TTTCTGTTCTTT-AATTTCTACGGTTC
65 TTTCTGTTCTTTCAA-TT-TACGCTTC
* * * ** *
101756070 AAAAAAATTAGCTCATATTGCGAGAGGTGAGTTGAGCCTTGACTGACACGCTGAGGTATTTTCGA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT-ACACGCTGAGGTATTTTCAA
*
101756135 TTTCCGTT-TTTCAA
65 TTTCTGTTCTTTCAA
101756149 AAATCAACTC
Statistics
Matches: 140, Mismatches: 25, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
88 38 0.27
89 2 0.01
90 31 0.22
91 69 0.49
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (89 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTACACGCTGAGGTATTTTCAAT
TTCTGTTCTTTCAATTTACGCTTC
Found at i:101756436 original size:177 final size:175
Alignment explanation
Indices: 101756140--101756712 Score: 792
Period size: 177 Copynumber: 3.3 Consensus size: 175
101756130 TTCGATTTCC
101756140 GTTTTTCAAAAATCAACTCATAATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
1 GTTTTTCAAAAATCAACTCAT-ATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
* *
101756205 TTAATTTCTGCTTTCTGATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
65 TCAATTTCTGCTTTCTGATTTATGCTTTT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
**
101756270 GCCTCAGGACAAGCTGAGGTATTTTTTATTTCCGTTTTTCAATTTAT
129 GCCTCAGGACAAGCTGAGGTATTTTCAATTTCCGTTTTTCAATTTAT
101756317 GTTTTTCAAAAATCAACTCATAATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
1 GTTTTTCAAAAATCAACTCAT-ATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
* *
101756382 TCAATTTCTGCTTTCTGATTTTTTCTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
65 TCAATTTCTGCTTTCTGATTTATGCTTTT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * *
101756447 GCCTTAGGACACGCTGAGGTATTTTCGATTTCCGTTTTTCAATTTAT
129 GCCTCAGGACAAGCTGAGGTATTTTCAATTTCCGTTTTTCAATTTAT
* * *
101756494 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGTTATTCT
1 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTT
** * * * *
101756559 CAATTAATG-TTTTTCAATTTATGCTTTT-CAAAAATCAACTCATATTACGAGAGGTGAGTTGAG
66 CAATTTCTGCTTTCT-GATTTATGCTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* * * ** ** * * *
101756622 CCTCGGGTCACATGCCGAGGTATTTTCAAAATCTATTTTGCAAATTCT
130 CCTCAGG--ACAAGCTGAGGTATTTTCAATTTCCGTTTTTCAATTTAT
**
101756670 G-TTTTCAAAAATCAACTCATATTGCGAGAATTGAGTTGAGCCT
1 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
101756713 TTGCTCACGT
Statistics
Matches: 360, Mismatches: 33, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
174 38 0.11
175 44 0.12
176 88 0.24
177 190 0.53
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (175 bp):
GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTT
CAATTTCTGCTTTCTGATTTATGCTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
CTCAGGACAAGCTGAGGTATTTTCAATTTCCGTTTTTCAATTTAT
Found at i:101756547 original size:87 final size:87
Alignment explanation
Indices: 101756140--101756799 Score: 718
Period size: 89 Copynumber: 7.5 Consensus size: 87
101756130 TTCGATTTCC
101756140 GTTTTTCAAAAATCAACTCATAATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
1 GTTTTTCAAAAATCAACTCAT-ATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
* * * *
101756205 TTAATTTCTG-CTTTCTGATTTCT
65 TCAATTTCTGTTTTTC-AATTTAT
* * *
101756228 GCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAAGCTGAGGTATT
1 GTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATT
** *
101756293 TTTTATTTCCGTTTTTCAATTTAT
64 TTCAATTTCTGTTTTTCAATTTAT
101756317 GTTTTTCAAAAATCAACTCATAATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
1 GTTTTTCAAAAATCAACTCAT-ATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
* * * *
101756382 TCAATTTCTGCTTTCTGATTTTTT
65 TCAATTTCTG-TTTTTCAATTTAT
* ** * *
101756406 CTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTGAGGTATTT
1 GTTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
* *
101756471 TCGATTTCCGTTTTTCAATTTAT
65 TCAATTTCTGTTTTTCAATTTAT
* * *
101756494 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGTTATTCT
1 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTT
**
101756559 CAATTAATGTTTTTCAATTTAT
66 CAATTTCTGTTTTTCAATTTAT
* * *
101756581 GCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC-GGGTCACATGCCGAGGTAT
1 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG-CAC--GCTGAGGTAT
** * * * *
101756645 TTTCAAAATCTATTTTGCAAATTCT
63 TTTCAATTTCTGTTTTTCAATTTAT
** ** ** *
101756670 G-TTTTCAAAAATCAACTCATATTGCGAGAATTGAGTTGAGCCTTTGCTCACGTGCTGAGCTATT
1 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC--GCTGAGGTATT
* * *
101756734 TTCAATTTCTATTTTTTATGTTTA-
64 TTCAATTTCTGTTTTTCA-ATTTAT
* * **
101756758 GTTTTT-AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAGC
1 GTTTTTCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGC
101756800 TCGAGATCAC
Statistics
Matches: 486, Mismatches: 73, Indels: 25
0.83 0.12 0.04
Matches are distributed among these distances:
86 3 0.01
87 131 0.27
88 137 0.28
89 183 0.38
90 32 0.07
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (87 bp):
GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTT
CAATTTCTGTTTTTCAATTTAT
Found at i:101759144 original size:25 final size:22
Alignment explanation
Indices: 101759113--101759170 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
101759103 ATTATATGTG
101759113 TATATATTATGTAAAATGTTTTAA
1 TATATATTATGT-AAATGTTTT-A
** *
101759137 TATTATATTAAATATATGTTTTA
1 TA-TATATTATGTAAATGTTTTA
101759160 TATATATTATG
1 TATATATTATG
101759171 AACATGTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
22 7 0.25
23 3 0.11
24 10 0.36
25 8 0.29
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (22 bp):
TATATATTATGTAAATGTTTTA
Found at i:101759177 original size:22 final size:23
Alignment explanation
Indices: 101759113--101759177 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 23
101759103 ATTATATGTG
101759113 TATATATTATGTAAAATGTTTTAA
1 TATATATTATG-AAAATGTTTTAA
101759137 TATTATATTA--AATATATGTTTT-A
1 TA-TATATTATGAA-A-ATGTTTTAA
*
101759160 TATATATTATGAACATGT
1 TATATATTATGAAAATGT
101759178 ATTTTCAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
22 13 0.37
23 4 0.11
24 11 0.31
25 7 0.20
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.51
Consensus pattern (23 bp):
TATATATTATGAAAATGTTTTAA
Found at i:101762020 original size:16 final size:18
Alignment explanation
Indices: 101761999--101762031 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
101761989 TATTGAAAGT
101761999 AAATTAG-AA-AATTTTA
1 AAATTAGTAACAATTTTA
101762015 AAATTAGTAACAATTTT
1 AAATTAGTAACAATTTT
101762032 TTTAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (18 bp):
AAATTAGTAACAATTTTA
Found at i:101769967 original size:16 final size:17
Alignment explanation
Indices: 101769948--101769989 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
101769938 AATAGATCGT
101769948 AAAATAAATAA-AAATA
1 AAAATAAATAATAAATA
*
101769964 AAAATAAATAATACATA
1 AAAATAAATAATAAATA
101769981 AAATATAAA
1 AAA-ATAAA
101769990 GTTTAACATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.48
17 7 0.30
18 5 0.22
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAATAAATAATAAATA
Found at i:101771549 original size:12 final size:12
Alignment explanation
Indices: 101771518--101771543 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
101771508 ATAGATTTAT
101771518 AAAAAAAACAAA
1 AAAAAAAACAAA
101771530 AAAAAAAACAAA
1 AAAAAAAACAAA
101771542 AA
1 AA
101771544 TGAAAAATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAACAAA
Found at i:101772986 original size:42 final size:43
Alignment explanation
Indices: 101772938--101773050 Score: 120
Period size: 44 Copynumber: 2.6 Consensus size: 43
101772928 GATTTCAACT
* *
101772938 TGCTCCACTACTGCTTAGGGAGATAGGA-TGATGGCTTAAATC
1 TGCTCCACTACTGCTTAGGGAGATAAGATTGATAGCTTAAATC
* * * * * **
101772980 TGCTCCACTATTGCTTAGAGAGACAAGATTTGTTATCTTTGATC
1 TGCTCCACTACTGCTTAGGGAGATAAGA-TTGATAGCTTAAATC
*
101773024 TGCTCTACTACTGCTTAGGGAGATAAG
1 TGCTCCACTACTGCTTAGGGAGATAAG
101773051 CTCTACAATT
Statistics
Matches: 56, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 24 0.43
44 32 0.57
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (43 bp):
TGCTCCACTACTGCTTAGGGAGATAAGATTGATAGCTTAAATC
Found at i:101773116 original size:88 final size:88
Alignment explanation
Indices: 101773015--101773210 Score: 277
Period size: 88 Copynumber: 2.2 Consensus size: 88
101773005 AGATTTGTTA
* * *
101773015 TCTTTGATCTGCTCTACTACTGCTTAGGGAGATAAGCTCTACAA-TTTCTAGCCTGTTATCCTAC
1 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTC-AGCCTGTTACCCTAC
101773079 TGCTTAGGGGGTTAAGGCTCATCG
65 TGCTTAGGGGGTTAAGGCTCATCG
* **
101773103 TCTTTGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACT
1 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAGCCTGTTACCCTACT
*
101773168 GCTTAGGGGGTTAAGGCTCACCG
66 GCTTAGGGGGTTAAGGCTCATCG
* ** *
101773191 TATTCAATCTGTTCCACTAC
1 TCTTTGATCTGCTCCACTAC
101773211 AACTTCAGAA
Statistics
Matches: 95, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
88 91 0.96
89 4 0.04
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.35
Consensus pattern (88 bp):
TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAGCCTGTTACCCTACT
GCTTAGGGGGTTAAGGCTCATCG
Found at i:101773430 original size:133 final size:131
Alignment explanation
Indices: 101773197--101773671 Score: 688
Period size: 131 Copynumber: 3.6 Consensus size: 131
101773187 ACCGTATTCA
* * * * * *
101773197 ATCTGTTCCACTACAACTTCAGAAAGACAAGATTTGTAATCTTCAGCCTACTCTACTACTGCTTA
1 ATCTGTTCTACTGCAACTTCAGAGAGACAAGATCTGCAATCTTCAGCCTACTCCACTACTGCTTA
* * *
101773262 GGGAGATAAGATGGTGGCTTAAATCTGCTCCACTACTGGTTAGGAAGGCAAGATTCGTCGTCTTC
66 GGGAGATAGGATGGTGACTTAAATCTGCTCCACTACTGGTTAGGAAGACAAGATTCGTCGTCTTC
101773327 G
131 G
* *
101773328 ATCTGTTTTACTGCAACTTCAGGGAGACAAGATCTGCAATCTT-AGCCTACTCCACTACTGCTTA
1 ATCTGTTCTACTGCAACTTCAGAGAGACAAGATCTGCAATCTTCAGCCTACTCCACTACTGCTT-
* *
101773392 GAGAGGAGATAGGATGGTGACTTAAATCTGCTCCACTACTGGTTA-GAGAGATAAGATTCGCCGT
65 -AG-GGAGATAGGATGGTGACTTAAATCTGCTCCACTACTGGTTAGGA-AGACAAGATTCGTCGT
101773456 CTTCG
127 CTTCG
*
101773461 ATCTGTTCTACTGCAACTTCA-AGGAGACAAGATCTGCAATCTTCAGCCTACTCCACTACTACTT
1 ATCTGTTCTACTGCAACTTCAGA-GAGACAAGATCTGCAATCTTCAGCCTACTCCACTACTGCTT
* * * *
101773525 AGGAAGATAGGATGGTGACTTAAATCTGCCCCATTACTGATTAGGGAA-ACAAGATTCGTCGTCT
65 AGGGAGATAGGATGGTGACTTAAATCTGCTCCACTACTGGTTA-GGAAGACAAGATTCGTCGTCT
101773589 TCG
129 TCG
* *
101773592 ATCTGTTCCACTGCAACTTCAGAGAGACAAGATCTGTAATCTTCAGCCTACTCCACTACTGCTTA
1 ATCTGTTCTACTGCAACTTCAGAGAGACAAGATCTGCAATCTTCAGCCTACTCCACTACTGCTTA
101773657 GGGAGATAGGATGGT
66 GGGAGATAGGATGGT
101773672 CAATCCTCAG
Statistics
Matches: 309, Mismatches: 26, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
130 19 0.06
131 164 0.53
132 8 0.03
133 99 0.32
134 19 0.06
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (131 bp):
ATCTGTTCTACTGCAACTTCAGAGAGACAAGATCTGCAATCTTCAGCCTACTCCACTACTGCTTA
GGGAGATAGGATGGTGACTTAAATCTGCTCCACTACTGGTTAGGAAGACAAGATTCGTCGTCTTC
G
Found at i:101773509 original size:264 final size:262
Alignment explanation
Indices: 101773188--101773671 Score: 722
Period size: 264 Copynumber: 1.8 Consensus size: 262
101773178 TTAAGGCTCA
* * *
101773188 CCGTATTCAATCTGTTCCACTACAACTTCAGAAAGACAAGATTTGTAATCTTCAGCCTACTCTAC
1 CCGTATTCAATCTGTTCCACTACAACTTCAGAAAGACAAGATCTGCAATCTTCAGCCTACTCCAC
* * * * * *
101773253 TACTGCTTAGGGAGATAAGATGGTGGCTTAAATCTGCTCCACTACTGGTTA-GGAAGGCAAGATT
66 TACTACTTAGGAAGATAAGATGGTGACTTAAATCTGCCCCACTACTGATTAGGGAA-ACAAGATT
** *
101773317 CGTCGTCTTCGATCTGTTTTACTGCAACTTCAGGGAGACAAGATCTGCAATCTT-AGCCTACTCC
130 CGTCGTCTTCGATCTGTTCCACTGCAACTTCAGAGAGACAAGATCTGCAATCTTCAGCCTACTCC
101773381 ACTACTGCTTAGAGAGGAGATAGGATGGTGACTTAAATCTGCTCCACTACTGGTTAGAGAGATAA
195 ACTACTGCTT--AG-GGAGATAGGATGGTGACTTAAATCTGCTCCACTACTGGTTAGAGAGATAA
101773446 GATTCG
257 GATTCG
* * * * *
101773452 CCGTCTTCGATCTGTTCTACTGCAACTTCA-AGGAGACAAGATCTGCAATCTTCAGCCTACTCCA
1 CCGTATTCAATCTGTTCCACTACAACTTCAGA-AAGACAAGATCTGCAATCTTCAGCCTACTCCA
* *
101773516 CTACTACTTAGGAAGATAGGATGGTGACTTAAATCTGCCCCATTACTGATTAGGGAAACAAGATT
65 CTACTACTTAGGAAGATAAGATGGTGACTTAAATCTGCCCCACTACTGATTAGGGAAACAAGATT
*
101773581 CGTCGTCTTCGATCTGTTCCACTGCAACTTCAGAGAGACAAGATCTGTAATCTTCAGCCTACTCC
130 CGTCGTCTTCGATCTGTTCCACTGCAACTTCAGAGAGACAAGATCTGCAATCTTCAGCCTACTCC
101773646 ACTACTGCTTAGGGAGATAGGATGGT
195 ACTACTGCTTAGGGAGATAGGATGGT
101773672 CAATCCTCAG
Statistics
Matches: 197, Mismatches: 20, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
262 14 0.07
263 3 0.02
264 156 0.79
265 24 0.12
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (262 bp):
CCGTATTCAATCTGTTCCACTACAACTTCAGAAAGACAAGATCTGCAATCTTCAGCCTACTCCAC
TACTACTTAGGAAGATAAGATGGTGACTTAAATCTGCCCCACTACTGATTAGGGAAACAAGATTC
GTCGTCTTCGATCTGTTCCACTGCAACTTCAGAGAGACAAGATCTGCAATCTTCAGCCTACTCCA
CTACTGCTTAGGGAGATAGGATGGTGACTTAAATCTGCTCCACTACTGGTTAGAGAGATAAGATT
CG
Found at i:101776268 original size:40 final size:40
Alignment explanation
Indices: 101776213--101776293 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
101776203 TTCTACCATC
101776213 CTTGACAAATCAGGAGATAGGCTACAATCTCTATCATCTT
1 CTTGACAAATCAGGAGATAGGCTACAATCTCTATCATCTT
101776253 CTTGACAAATCAGGAGATAGGCTACAATCTCTATCATCTT
1 CTTGACAAATCAGGAGATAGGCTACAATCTCTATCATCTT
101776293 C
1 C
101776294 AAGGTCCTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (40 bp):
CTTGACAAATCAGGAGATAGGCTACAATCTCTATCATCTT
Found at i:101778113 original size:254 final size:254
Alignment explanation
Indices: 101777662--101778128 Score: 668
Period size: 254 Copynumber: 1.8 Consensus size: 254
101777652 GTGAATATTG
* * *
101777662 AGATTCTCTTATTTCGAAGAAATGAAACATCACATCCAGCACGTAGGACATAACATTTCAAACCT
1 AGATTCTCTTATTTCGAAGAAATAAAACATCACATCCAACACGTAGGACACAACATTTCAAACCT
* * *
101777727 TCGATATCAAAATCATCTCATAATTCCCAGAATTTATGCATTCAAAATTTAAAAAGGATACTTGG
66 TCGATACCAAAATCATCTCATAATTCCCAGAACTCATGCATTCAAAATTTAAAAAGGATACTTGG
* * * * *
101777792 TCGTTCGGTCAAACGATAAATCGAAACCCAACACATAGGGCACAATTTCTCGAAATTTCCGAACA
131 TCGTTCAGTCAAACGACAAATCAAAACCCAACACATAGGGCACAATCTCTCGAAATTTCCAAACA
* *
101777857 CGAAATATTGCCTTGTTTAAAAAAATCTTGAATAAAAATGTAATAGTATGAAACGATTA
196 CGAAATATTACATTGTTTAAAAAAATCTTGAATAAAAATGTAATAGTATGAAACGATTA
* ** * * *
101777916 AGATTCTCTTGTTTCGAAGAAATAAAATGTCACATCCAACACGTAGGACACGATATTTCGAACCT
1 AGATTCTCTTATTTCGAAGAAATAAAACATCACATCCAACACGTAGGACACAACATTTCAAACCT
* * * * *
101777981 TTGATACCAAAATCATCTCATAATTTCC-GAAACTCATGTC-TTGAAATTTTAAAAAGGATATTT
66 TCGATACCAAAATCATCTCATAATTCCCAG-AACTCATG-CATTCAAAATTTAAAAAGGATACTT
* *
101778044 GGTTGTTCAGTCAAACGACAAATCAAAACCCAACACGTAGGGCACAATCTCTCGAAATTTCCAAA
129 GGTCGTTCAGTCAAACGACAAATCAAAACCCAACACATAGGGCACAATCTCTCGAAATTTCCAAA
101778109 CACGAAATATTACATTGTTT
194 CACGAAATATTACATTGTTT
101778129 TGAATAAAAC
Statistics
Matches: 185, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
253 1 0.01
254 183 0.99
255 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (254 bp):
AGATTCTCTTATTTCGAAGAAATAAAACATCACATCCAACACGTAGGACACAACATTTCAAACCT
TCGATACCAAAATCATCTCATAATTCCCAGAACTCATGCATTCAAAATTTAAAAAGGATACTTGG
TCGTTCAGTCAAACGACAAATCAAAACCCAACACATAGGGCACAATCTCTCGAAATTTCCAAACA
CGAAATATTACATTGTTTAAAAAAATCTTGAATAAAAATGTAATAGTATGAAACGATTA
Found at i:101778371 original size:21 final size:22
Alignment explanation
Indices: 101778347--101778394 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
101778337 AAAAGAAATA
*
101778347 AAATGAACAATAAGACAATT-T
1 AAATAAACAATAAGACAATTCT
*
101778368 AAATAAACAATGAGACAATTCT
1 AAATAAACAATAAGACAATTCT
101778390 AAATA
1 AAATA
101778395 GATAATAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.58, C:0.10, G:0.08, T:0.23
Consensus pattern (22 bp):
AAATAAACAATAAGACAATTCT
Found at i:101779927 original size:18 final size:18
Alignment explanation
Indices: 101779906--101779959 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
101779896 TCTCTGCTAC
101779906 TGTTTCTTTTTCTGTTGT
1 TGTTTCTTTTTCTGTTGT
* *
101779924 TGTTTCTTTGTTGCTCTTTT
1 TGTTTCTTT-TT-CTGTTGT
101779944 TG-TTCTTGTTTCTGTT
1 TGTTTCTT-TTTCTGTT
101779960 TCTTCCTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 13 0.43
19 9 0.30
20 8 0.27
ACGTcount: A:0.00, C:0.13, G:0.17, T:0.70
Consensus pattern (18 bp):
TGTTTCTTTTTCTGTTGT
Found at i:101780801 original size:19 final size:18
Alignment explanation
Indices: 101780777--101780825 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 18
101780767 GTGAAAATCT
101780777 AATGCAAATGATGCAATG
1 AATGCAAATGATGCAATG
*
101780795 CAATGCAAATGCATGGAATG
1 -AATGCAAATG-ATGCAATG
101780815 AATGCAAATGA
1 AATGCAAATGA
101780826 AAGAAAGACG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 1 0.04
19 20 0.71
20 7 0.25
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.20
Consensus pattern (18 bp):
AATGCAAATGATGCAATG
Found at i:101782226 original size:14 final size:14
Alignment explanation
Indices: 101782203--101782246 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
101782193 AAATAGATTT
101782203 ATAAAAAAAATAAA
1 ATAAAAAAAATAAA
*
101782217 ATAAATAAAATAAA
1 ATAAAAAAAATAAA
101782231 A-AAACAAAAATGAAA
1 ATAAA-AAAAAT-AAA
101782246 A
1 A
101782247 ATGAACAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 3 0.12
14 19 0.73
15 4 0.15
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.14
Consensus pattern (14 bp):
ATAAAAAAAATAAA
Found at i:101787238 original size:32 final size:31
Alignment explanation
Indices: 101787202--101787281 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
101787192 TTTTTGGCCC
* * **
101787202 AATTTATTACTTGAACTTGAATTTTTTTTCCT
1 AATTTAATACTTAAACTT-AATACTTTTTCCT
*
101787234 AATTTAATATTTAAACTTAATACTTTTTCCT
1 AATTTAATACTTAAACTTAATACTTTTTCCT
*
101787265 AATTTAGTACTTAAACT
1 AATTTAATACTTAAACT
101787282 AGCAATGTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 26 0.63
32 15 0.37
ACGTcount: A:0.33, C:0.12, G:0.04, T:0.51
Consensus pattern (31 bp):
AATTTAATACTTAAACTTAATACTTTTTCCT
Found at i:101787407 original size:31 final size:31
Alignment explanation
Indices: 101787352--101787422 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
101787342 TGTTTAAAAA
* * *
101787352 TATCAAATTAAGAAATTGTATCAAGT-TCATG
1 TATCAAATTAAGAAAATATATCAAGTCT-AAG
*
101787383 TATCAAATTAAGAAAATATGTCAAGTCTAAG
1 TATCAAATTAAGAAAATATATCAAGTCTAAG
101787414 TATCAAATT
1 TATCAAATT
101787423 GAATAAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 34 0.97
32 1 0.03
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (31 bp):
TATCAAATTAAGAAAATATATCAAGTCTAAG
Found at i:101787601 original size:32 final size:32
Alignment explanation
Indices: 101787564--101787631 Score: 84
Period size: 31 Copynumber: 2.1 Consensus size: 32
101787554 TTTTGATAAG
* **
101787564 AAAATGTGTCAAGTTCATGTACTAAATTAA-AA
1 AAAATG-GTCAAATTCAAATACTAAATTAAGAA
*
101787596 AAAATGGTCAAATTTAAATACTAAATTAAGAA
1 AAAATGGTCAAATTCAAATACTAAATTAAGAA
101787628 AAAA
1 AAAA
101787632 AATATTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 19 0.61
32 12 0.39
ACGTcount: A:0.54, C:0.07, G:0.10, T:0.28
Consensus pattern (32 bp):
AAAATGGTCAAATTCAAATACTAAATTAAGAA
Found at i:101789967 original size:29 final size:30
Alignment explanation
Indices: 101789907--101789979 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 30
101789897 GTTCGTGATT
* * **
101789907 TGTG-AAAATTAAATTAAATTAAAATTTTA
1 TGTGTAAAATTACATAAAATTAAAATTACA
101789936 TGTGTAAAATTACATAAAATTAAAA-TACA
1 TGTGTAAAATTACATAAAATTAAAATTACA
*
101789965 TGTATAAAAATTACA
1 TGTGT-AAAATTACA
101789980 CATTAAATCA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 10 0.27
30 27 0.73
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.36
Consensus pattern (30 bp):
TGTGTAAAATTACATAAAATTAAAATTACA
Found at i:101795233 original size:21 final size:22
Alignment explanation
Indices: 101795192--101795235 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
101795182 AATAAAAAAA
101795192 TCATGTCTCGAGACAATACACC
1 TCATGTCTCGAGACAATACACC
**
101795214 TCATGTCTTTAGAC-ATACACC
1 TCATGTCTCGAGACAATACACC
101795235 T
1 T
101795236 AAGAATGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.30
Consensus pattern (22 bp):
TCATGTCTCGAGACAATACACC
Found at i:101796788 original size:21 final size:21
Alignment explanation
Indices: 101796764--101796809 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
101796754 TTAGGCTTCG
101796764 CGGCGGCAGGTTTCTTAGCTA
1 CGGCGGCAGGTTTCTTAGCTA
* *
101796785 CGGCGGCTGGTTTCTTAGCTG
1 CGGCGGCAGGTTTCTTAGCTA
101796806 CGGC
1 CGGC
101796810 ATAAGCCGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.09, C:0.26, G:0.37, T:0.28
Consensus pattern (21 bp):
CGGCGGCAGGTTTCTTAGCTA
Found at i:101801567 original size:24 final size:24
Alignment explanation
Indices: 101801516--101801567 Score: 97
Period size: 23 Copynumber: 2.2 Consensus size: 24
101801506 TGAATGAATG
101801516 GTTTTAAATGGAAATTTTTCCATA
1 GTTTTAAATGGAAATTTTTCCATA
101801540 -TTTTAAATGGAAATTTTTCCATA
1 GTTTTAAATGGAAATTTTTCCATA
101801563 GTTTT
1 GTTTT
101801568 TATAGTGGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 23 0.85
24 4 0.15
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.50
Consensus pattern (24 bp):
GTTTTAAATGGAAATTTTTCCATA
Found at i:101808222 original size:12 final size:13
Alignment explanation
Indices: 101808199--101808228 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
101808189 AATTTGTGTG
101808199 TTTTTTATTTTTA
1 TTTTTTATTTTTA
101808212 TTTTTTA-TTTTA
1 TTTTTTATTTTTA
101808224 TTTTT
1 TTTTT
101808229 CACAATTGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:101809284 original size:13 final size:13
Alignment explanation
Indices: 101809238--101809292 Score: 60
Period size: 13 Copynumber: 4.3 Consensus size: 13
101809228 AATGGGTGAG
101809238 GGGTGTTACACTA
1 GGGTGTTACACTA
101809251 GGGT-TT-CATCTA
1 GGGTGTTACA-CTA
** *
101809263 GCTTCTTACACTA
1 GGGTGTTACACTA
101809276 GGGTGTTACACTA
1 GGGTGTTACACTA
101809289 GGGT
1 GGGT
101809293 TTCATCTAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
11 2 0.06
12 7 0.21
13 23 0.68
14 2 0.06
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (13 bp):
GGGTGTTACACTA
Found at i:101813641 original size:170 final size:173
Alignment explanation
Indices: 101813422--101813735 Score: 420
Period size: 171 Copynumber: 1.8 Consensus size: 173
101813412 ACATCGGTTT
101813422 CTTTTTATTTGACATTATAAGAAATGGTCAATTTTCAAATTTGATCCCTCTACAATTTT-AAATA
1 CTTTTTATTTGACATTAT-A-AAATGGTCAATTTTCAAATTTGATCCCTCTACAATTTTCAAATA
* * * * * * * *
101813486 ATATAAAAATGGTTAAATTTTAATTTTGTTCCTTATACTACGTCCAAATTTGAGATTTAATCTCT
64 ATATAAAAATGGTCAAAATTCAATTTTGATCCCTATACTACATCCAAATTTAAGATTTAAACTCT
101813551 ATATTTTAATTTTTAAGGCCTTTCAATAGAACATGTGTCCTTCCC
129 ATATTTTAATTTTTAAGGCCTTTCAATAGAACATGTGTCCTTCCC
* *** * *
101813596 CTTTTT-TTTGACATTAT-AAATGGTTGAA-TTTCAAATTTGATCCCTCTATTTTTTTCAAGTTA
1 CTTTTTATTTGACATTATAAAATGG-TCAATTTTCAAATTTGATCCCTCTACAATTTTCAAATAA
* **
101813658 TATAACAATGGTCAAAATTCAATTTTGATCCCTATACTACATTTAAATTTAAGATTTAAACTCTA
65 TATAAAAATGGTCAAAATTCAATTTTGATCCCTATACTACATCCAAATTTAAGATTTAAACTCTA
101813723 TATTTTAATTTTT
130 TATTTTAATTTTT
101813736 GACAAACTCT
Statistics
Matches: 121, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
170 30 0.25
171 74 0.61
173 11 0.09
174 6 0.05
ACGTcount: A:0.32, C:0.14, G:0.08, T:0.46
Consensus pattern (173 bp):
CTTTTTATTTGACATTATAAAATGGTCAATTTTCAAATTTGATCCCTCTACAATTTTCAAATAAT
ATAAAAATGGTCAAAATTCAATTTTGATCCCTATACTACATCCAAATTTAAGATTTAAACTCTAT
ATTTTAATTTTTAAGGCCTTTCAATAGAACATGTGTCCTTCCC
Found at i:101814086 original size:359 final size:359
Alignment explanation
Indices: 101813433--101814096 Score: 847
Period size: 359 Copynumber: 1.8 Consensus size: 359
101813423 TTTTTATTTG
* * * *
101813433 ACATTATAAGAAATGGTCAATTTTCAAATTTGATCCCTCTACAATTTTAAATAATATAAAAATGG
1 ACATTATAAGAAATAGTCAAATTTAAAATTTCATCCCTCTACAATTTTAAATAATATAAAAATGG
* * *
101813498 TTAAATTTTAATTTTGTTCCTTATACTACGTCCAAATTTGAGATTTAATCTCTATATTTTAATTT
66 TTAAATTTCAATTTTGGTCCCTATACTACGTCCAAATTTGAGATTTAATCTCTATATTTTAATTT
* *
101813563 TTAAGGCCTTTCAATAGAACATGTGTCCTTCCCCTTTTTTTTGACATTATAAATGGTTGAATTTC
131 TTAAGGCC--TC-ATAGAACATGTGCCCTTCCCCTTTTTTTTGACATTATAAATAGTTGAATTTC
* * * * * *
101813628 AAATTTGATCCCTCTATTTTTTTCAAGTTATATAACAATGGTCAAAATTCAATTTTGATCCCTAT
193 AAATGTGATCCCTCTATTTTTTTCAAGTTATACAACAATGGTCAAAATTCAAGTTTAATCCATAC
* *
101813693 ACTACATTTAAATTTAAGATTTAAACTCTATATTTTAATTTTTGACAAACTCTATATATAAGAAA
258 ACTACATTCAAATTTAAGATTTAAACTCTATATTTTAATATTTGACAAACTCTATATATAAGAAA
101813758 GGCCCTATGACCTGTCCCTTTTTCTTTTTTCCTTTTT
323 GGCCCTATGACCTGTCCCTTTTTCTTTTTTCCTTTTT
* ** * * * *
101813795 ACATTATAAGAAATAGTTAAATTTAAAATTTCATCCCTCTA-TTTTTTGATTTATATAATAATGG
1 ACATTATAAGAAATAGTCAAATTTAAAATTTCATCCCTCTACAATTTTAAATAATATAAAAATGG
* * ** *
101813859 TTAAATTTCAATTTTGGTCCCTATATTATGTTTAAATTTGAGATTTAATTTCTATATTTTAATTT
66 TTAAATTTCAATTTTGGTCCCTATACTACGTCCAAATTTGAGATTTAATCTCTATATTTTAATTT
* *
101813924 TTGAGGGC-C-TAGACACATGT-CCCTTTCCTCCTTTTTTTTTGACATTATAAATAGTTGAATTT
131 TTAAGGCCTCATAGA-ACATGTGCCC-TTCC-CC-TTTTTTTTGACATTATAAATAGTTGAATTT
* * * *
101813986 CAAATGTGATCCCTCTTTTTTTTTTAGAGTTATACAATAATGGTC-AAATGTTAAGTTTAAT-CA
192 CAAATGTGATCCCTCTATTTTTTTCA-AGTTATACAACAATGGTCAAAAT-TCAAGTTTAATCCA
* * *
101814049 TACACTACGTTCAAATTTGAGATTTAATA-TTTATATTTTAATATTTGA
255 TACACTACATTCAAATTTAAGATTTAA-ACTCTATATTTTAATATTTGA
101814097 ACAACTTATG
Statistics
Matches: 257, Mismatches: 38, Indels: 17
0.82 0.12 0.05
Matches are distributed among these distances:
356 6 0.02
357 10 0.04
358 3 0.01
359 97 0.38
360 25 0.10
361 80 0.31
362 36 0.14
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.45
Consensus pattern (359 bp):
ACATTATAAGAAATAGTCAAATTTAAAATTTCATCCCTCTACAATTTTAAATAATATAAAAATGG
TTAAATTTCAATTTTGGTCCCTATACTACGTCCAAATTTGAGATTTAATCTCTATATTTTAATTT
TTAAGGCCTCATAGAACATGTGCCCTTCCCCTTTTTTTTGACATTATAAATAGTTGAATTTCAAA
TGTGATCCCTCTATTTTTTTCAAGTTATACAACAATGGTCAAAATTCAAGTTTAATCCATACACT
ACATTCAAATTTAAGATTTAAACTCTATATTTTAATATTTGACAAACTCTATATATAAGAAAGGC
CCTATGACCTGTCCCTTTTTCTTTTTTCCTTTTT
Found at i:101814260 original size:14 final size:14
Alignment explanation
Indices: 101814235--101814269 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
101814225 TTAAACTACG
101814235 TTTAAA-TTTATAA
1 TTTAAATTTTATAA
*
101814248 TTTAAATTTTATAT
1 TTTAAATTTTATAA
101814262 TTTAAATT
1 TTTAAATT
101814270 GATATAGTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTAAATTTTATAA
Found at i:101814274 original size:13 final size:13
Alignment explanation
Indices: 101814235--101814274 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
101814225 TTAAACTACG
*
101814235 TTTAAATTTATAA
1 TTTAAATTTATAT
101814248 TTTAAATTTTATAT
1 TTTAAA-TTTATAT
*
101814262 TTTAAATTGATAT
1 TTTAAATTTATAT
101814275 AGTTCGCACC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (13 bp):
TTTAAATTTATAT
Found at i:101822547 original size:23 final size:24
Alignment explanation
Indices: 101822516--101822561 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
101822506 GATTTTAAAT
*
101822516 TTCATTTTAATTTTA-ATTTATTTA
1 TTCATTTT-ATTTTATATTGATTTA
101822540 TTCA-TTTATTTTATATTGATTT
1 TTCATTTTATTTTATATTGATTT
101822562 TCATTTCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 10 0.50
24 4 0.20
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (24 bp):
TTCATTTTATTTTATATTGATTTA
Found at i:101823416 original size:27 final size:26
Alignment explanation
Indices: 101823381--101823441 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
101823371 CTAATTTAAC
*
101823381 ATATTATTTATTTGAAATTTGCTTTAT
1 ATATTATTTATTTCAAA-TTGCTTTAT
*
101823408 ATATTATTTTATTTCAAATTGTTTTAT
1 ATATTA-TTTATTTCAAATTGCTTTAT
*
101823435 ATTTTAT
1 ATATTAT
101823442 CCATGTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 1 0.03
27 19 0.63
28 10 0.33
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (26 bp):
ATATTATTTATTTCAAATTGCTTTAT
Found at i:101829111 original size:15 final size:14
Alignment explanation
Indices: 101829091--101829123 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
101829081 TCATTTTGGG
101829091 GTGATTTGACAAAT
1 GTGATTTGACAAAT
101829105 AGTGATTTGACAAAT
1 -GTGATTTGACAAAT
101829120 GTGA
1 GTGA
101829124 AAAATTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.33
Consensus pattern (14 bp):
GTGATTTGACAAAT
Found at i:101829691 original size:18 final size:18
Alignment explanation
Indices: 101829668--101829706 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
101829658 TACATGACTG
101829668 AAAAATAAATT-TTTTTTA
1 AAAAAT-AATTATTTTTTA
*
101829686 AAAAATTATTATTTTTTA
1 AAAAATAATTATTTTTTA
101829704 AAA
1 AAA
101829707 GAAAGATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AAAAATAATTATTTTTTA
Found at i:101830594 original size:122 final size:121
Alignment explanation
Indices: 101830215--101830594 Score: 304
Period size: 122 Copynumber: 3.0 Consensus size: 121
101830205 ACACGACATT
*
101830215 TCAAACCTTCGATACCAAAATCATCTCGTAATTTCCAAAACTTATGCATTGAAATTTAAAAAAGG
1 TCAAACCTTCAATACCAAAATCATCTCGTAATTTCCAAAACTTATGCATTGAAATTTAAAAAAGG
*
101830280 ATATTCGGTTGTTCGGTCAAATGATAAATCAACACCCAACACGTAGGGCACAATTTC
66 ATATTCAGTTGTTCGGTCAAATGATAAATC-ACACCCAACACGTAGGGCACAATTTC
* * ** *** * ** *
101830337 TCAAA-ATTCCCAA-ACACAAAAT-AT-TGCCTCGTTAAAAAAATTTCAGATAAAAATGAAATAG
1 TCAAACCTT--CAATAC-CAAAATCATCT-CGTAATTTCCAAAACTT---AT-GCATTGAAAT--
* *** * ** *** * * * *
101830398 TGTGAAACGATTAAGATTCTCTTGTATCGAAGAAAT-AAAATATCACATCCAGCACGTAGGACAC
56 T-T-AAA-AAAGGATATTCAGTTGT-TCGGTCAAATGATAA-ATCACACCCAACACGTAGGGCAC
101830462 AATATT-
116 AAT-TTC
*
101830468 TCAAACCTTCAATACCAAAATCATCTCGTAATTTCCAAAGCTTATGCATTGAAATTTAAAAAAGG
1 TCAAACCTTCAATACCAAAATCATCTCGTAATTTCCAAAACTTATGCATTGAAATTTAAAAAAGG
101830533 ATATTCAGTTGTTCGGTCAAATGATAAATCGACACCCAACACGTAGGGCACAATTTC
66 ATATTCAGTTGTTCGGTCAAATGATAAATC-ACACCCAACACGTAGGGCACAATTTC
101830590 TCAAA
1 TCAAA
101830595 ATTCCCAAAC
Statistics
Matches: 183, Mismatches: 52, Indels: 46
0.65 0.19 0.16
Matches are distributed among these distances:
121 15 0.08
122 57 0.31
123 11 0.06
124 1 0.01
125 3 0.02
126 7 0.04
127 7 0.04
128 3 0.02
129 1 0.01
130 12 0.07
131 51 0.28
132 15 0.08
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.27
Consensus pattern (121 bp):
TCAAACCTTCAATACCAAAATCATCTCGTAATTTCCAAAACTTATGCATTGAAATTTAAAAAAGG
ATATTCAGTTGTTCGGTCAAATGATAAATCACACCCAACACGTAGGGCACAATTTC
Found at i:101830602 original size:253 final size:251
Alignment explanation
Indices: 101830154--101830848 Score: 1178
Period size: 253 Copynumber: 2.8 Consensus size: 251
101830144 TGAAGTGGAT
* * *
101830154 ATTAAGATTCTCTTGTTTCGAAGAAATAAAATATCACATCCAGCAAGTAGGACACGACATTTCAA
1 ATTAAGATTCTCTTGTTTCGAAGAAATAAAATATCACATCCAGCACGTAGGACACAATATTTCAA
*
101830219 ACCTTCGATACCAAAATCATCTCGTAATTTCCAAAACTTATGCATTGAAATTTAAAAAAGGATAT
66 ACCTTCGATACCAAAATCATCTCGTAATTTCCAAAGCTTATGCATTGAAATTTAAAAAAGGATAT
*
101830284 TCGGTTGTTCGGTCAAATGATAAATCAACACCCAACACGTAGGGCACAATTTCTCAAAATTCCCA
131 TCGGTTGTTCGGTCAAATGATAAATCGACACCCAACACGTAGGGCACAATTTCTCAAAATTCCCA
101830349 AACACAAAATATTGCCTCGTTAAAAAAATTTCAGATAAAAATGAAATAGTGTGAAACG
196 AACACAAAATATTGCCTCGTT-AAAAAATTTCAGATAAAAATGAAATAGTGTG-AACG
*
101830407 ATTAAGATTCTCTTGTATCGAAGAAATAAAATATCACATCCAGCACGTAGGACACAATATTTCAA
1 ATTAAGATTCTCTTGTTTCGAAGAAATAAAATATCACATCCAGCACGTAGGACACAATATTTCAA
*
101830472 ACCTTCAATACCAAAATCATCTCGTAATTTCCAAAGCTTATGCATTGAAATTTAAAAAAGGATAT
66 ACCTTCGATACCAAAATCATCTCGTAATTTCCAAAGCTTATGCATTGAAATTTAAAAAAGGATAT
*
101830537 TCAGTTGTTCGGTCAAATGATAAATCGACACCCAACACGTAGGGCACAATTTCTCAAAATTCCCA
131 TCGGTTGTTCGGTCAAATGATAAATCGACACCCAACACGTAGGGCACAATTTCTCAAAATTCCCA
* * **
101830602 AACACAAAATATTGTCTCGTTAAAAAATTTCGGATAAAAATGCTATAGTGTGAACG
196 AACACAAAATATTGCCTCGTTAAAAAATTTCAGATAAAAATGAAATAGTGTGAACG
* * *
101830658 ATTAAGGTTCTCTTGTTTCAAAGAAATAAAATATCATATCCAGCACGTAGGACACAATATTTCAA
1 ATTAAGATTCTCTTGTTTCGAAGAAATAAAATATCACATCCAGCACGTAGGACACAATATTTCAA
* * *
101830723 ATCTTTGATACCAAAATCATCTCGTAATTTCCAAAGCTTATGCATTAAAATTT-AAAAAGGATAT
66 ACCTTCGATACCAAAATCATCTCGTAATTTCCAAAGCTTATGCATTGAAATTTAAAAAAGGATAT
* *
101830787 TCGGTTATTCGGTCAAATGATAAATCGACACCCAACACGTAGAGCACAATTTCTC-AAATTCC
131 TCGGTTGTTCGGTCAAATGATAAATCGACACCCAACACGTAGGGCACAATTTCTCAAAATTCC
101830849 AAAAAAAAAA
Statistics
Matches: 419, Mismatches: 23, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
249 7 0.02
250 63 0.15
251 114 0.27
252 28 0.07
253 207 0.49
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (251 bp):
ATTAAGATTCTCTTGTTTCGAAGAAATAAAATATCACATCCAGCACGTAGGACACAATATTTCAA
ACCTTCGATACCAAAATCATCTCGTAATTTCCAAAGCTTATGCATTGAAATTTAAAAAAGGATAT
TCGGTTGTTCGGTCAAATGATAAATCGACACCCAACACGTAGGGCACAATTTCTCAAAATTCCCA
AACACAAAATATTGCCTCGTTAAAAAATTTCAGATAAAAATGAAATAGTGTGAACG
Found at i:101832098 original size:24 final size:23
Alignment explanation
Indices: 101832048--101832101 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
101832038 TCTTTCGAAT
101832048 TTTTTTATTTCTTTCTTTTTCTA
1 TTTTTTATTTCTTTCTTTTTCTA
*
101832071 TTTTTTATTT-TATT-TTTTTCTC
1 TTTTTTATTTCT-TTCTTTTTCTA
101832093 TCTTTTTAT
1 T-TTTTTAT
101832102 GCACATATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 9 0.32
23 19 0.68
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTTTATTTCTTTCTTTTTCTA
Found at i:101832741 original size:15 final size:15
Alignment explanation
Indices: 101832721--101832769 Score: 82
Period size: 15 Copynumber: 3.3 Consensus size: 15
101832711 ATTAATTTTG
*
101832721 ATATTTTCTATTATT
1 ATATTTACTATTATT
101832736 ATATTTACTATTATT
1 ATATTTACTATTATT
101832751 ATATTTACTATTATT
1 ATATTTACTATTATT
101832766 -TATT
1 ATATT
101832770 GTTATTGGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
14 4 0.12
15 29 0.88
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (15 bp):
ATATTTACTATTATT
Found at i:101833932 original size:23 final size:22
Alignment explanation
Indices: 101833876--101833937 Score: 58
Period size: 23 Copynumber: 2.9 Consensus size: 22
101833866 AAAAATAACA
*
101833876 ATACTAATAT-TATATAAAGAT
1 ATACTCATATATATATAAAGAT
* *
101833897 ATACTTATTTATATATTAAAGAT
1 ATACTCATATATATA-TAAAGAT
101833920 ATA-TACATATATA-ATAAA
1 ATACT-CATATATATATAAA
101833938 CGAATAATAC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 12 0.35
22 6 0.18
23 16 0.47
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (22 bp):
ATACTCATATATATATAAAGAT
Found at i:101833952 original size:23 final size:21
Alignment explanation
Indices: 101833906--101833996 Score: 55
Period size: 22 Copynumber: 4.3 Consensus size: 21
101833896 TATACTTATT
*
101833906 TATATATTAAAGATATATACA
1 TATATAATAAAGATATATACA
101833927 TATATAATAAACGA-ATAATACGA
1 TATATAATAAA-GATAT-ATAC-A
* * * *
101833950 TATTTAATATATATACGTA-ATA
1 TATATAATAAAGATA--TATACA
*
101833972 TGTATAATAAAGATA-ATA-A
1 TATATAATAAAGATATATACA
101833991 TATATA
1 TATATA
101833997 TAATATATAT
Statistics
Matches: 53, Mismatches: 10, Indels: 16
0.67 0.13 0.20
Matches are distributed among these distances:
19 7 0.13
20 1 0.02
21 12 0.23
22 19 0.36
23 12 0.23
24 1 0.02
25 1 0.02
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.36
Consensus pattern (21 bp):
TATATAATAAAGATATATACA
Found at i:101833994 original size:32 final size:32
Alignment explanation
Indices: 101833954--101834029 Score: 81
Period size: 30 Copynumber: 2.5 Consensus size: 32
101833944 ATACGATATT
* *
101833954 TAAT-ATATATACGTAATATGTATAATAA-AGA
1 TAATAATATATACGTAATATATATAA-AATACA
101833985 TAATAATATATA--TAATATATATAAAATACA
1 TAATAATATATACGTAATATATATAAAATACA
*
101834015 -CATAATATATACGTA
1 TAATAATATATACGTA
101834030 TGTAACAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
29 12 0.32
30 13 0.34
31 6 0.16
32 7 0.18
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (32 bp):
TAATAATATATACGTAATATATATAAAATACA
Found at i:101834189 original size:18 final size:19
Alignment explanation
Indices: 101834161--101834200 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
101834151 AACATAACAA
* *
101834161 AAATACTATATATATATAT
1 AAATACTATATACATAAAT
101834180 AAAT-CTATATACATAAAT
1 AAATACTATATACATAAAT
101834198 AAA
1 AAA
101834201 AGTTTACACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATACTATATACATAAAT
Found at i:101834367 original size:3 final size:3
Alignment explanation
Indices: 101834353--101834406 Score: 56
Period size: 3 Copynumber: 18.3 Consensus size: 3
101834343 TATATATATG
* * * *
101834353 ATA ATG ATA ATA ATA ATG ATA ATA ATA GTA ATA ATA CTA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
101834400 AAA ATA A
1 ATA ATA A
101834407 CAAGAATATT
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:101838034 original size:18 final size:19
Alignment explanation
Indices: 101838003--101838049 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
101837993 TATCTTGCTG
**
101838003 TTTCTGCTACTGTTTC-CT
1 TTTCTGCTTTTGTTTCTCT
101838021 TTTCTGCTTTTGTTTCTTCT
1 TTTCTGCTTTTGTTTC-TCT
101838041 TTT-TGCTTT
1 TTTCTGCTTT
101838050 CTTTTGCAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 14 0.56
19 6 0.24
20 5 0.20
ACGTcount: A:0.02, C:0.21, G:0.11, T:0.66
Consensus pattern (19 bp):
TTTCTGCTTTTGTTTCTCT
Found at i:101845972 original size:1 final size:1
Alignment explanation
Indices: 101845919--101845956 Score: 58
Period size: 1 Copynumber: 38.0 Consensus size: 1
101845909 TTAGTACTTA
* *
101845919 TTTTTTCTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
101845957 AAATTTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.00, C:0.05, G:0.00, T:0.95
Consensus pattern (1 bp):
T
Found at i:101846304 original size:118 final size:118
Alignment explanation
Indices: 101846080--101846310 Score: 381
Period size: 118 Copynumber: 2.0 Consensus size: 118
101846070 TTATTTCCGT
101846080 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* *
101846145 CCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
****
101846198 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
***
101846263 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGTTGTACTCATAACC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACC
101846311 ATGGAAAACA
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
118 104 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
Found at i:101847145 original size:42 final size:42
Alignment explanation
Indices: 101847099--101847205 Score: 153
Period size: 42 Copynumber: 2.5 Consensus size: 42
101847089 GGGATTCTAA
* *
101847099 GGCTGAAATAGGACTGTTTGGCT-GCAGAGATATGACATTCTG
1 GGCTGGAATAGAACTGTTTGG-TAGCAGAGATATGACATTCTG
* *
101847141 GGCTGGAATAGAACTGTTTGGTAGCAGAGATATGGCATTTTG
1 GGCTGGAATAGAACTGTTTGGTAGCAGAGATATGACATTCTG
*
101847183 GTCTGGAATAGAACTGTTTGGTA
1 GGCTGGAATAGAACTGTTTGGTA
101847206 CCATGGATAG
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 1 0.02
42 58 0.98
ACGTcount: A:0.26, C:0.11, G:0.32, T:0.31
Consensus pattern (42 bp):
GGCTGGAATAGAACTGTTTGGTAGCAGAGATATGACATTCTG
Found at i:101847320 original size:5 final size:5
Alignment explanation
Indices: 101847310--101847383 Score: 69
Period size: 5 Copynumber: 13.8 Consensus size: 5
101847300 AATATTTAAC
* *
101847310 TAAAA TAAAA TAAAA TAATAA -AATAA TAAAA TAAAA TAAAA TAAAG GAAAA
1 TAAAA TAAAA TAAAA TAA-AA TAA-AA TAAAA TAAAA TAAAA TAAAA TAAAA
101847361 TAATAAA TAAAAA TAAAAA TAAA
1 T-A-AAA T-AAAA T-AAAA TAAA
101847384 GATTGGGTTG
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
5 40 0.66
6 15 0.25
7 6 0.10
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:101847328 original size:26 final size:26
Alignment explanation
Indices: 101847310--101847378 Score: 95
Period size: 28 Copynumber: 2.6 Consensus size: 26
101847300 AATATTTAAC
101847310 TAAAATAAAATAAAATAATAAAATAA
1 TAAAATAAAATAAAATAATAAAATAA
*
101847336 TAAAATAAAATAAAATAAAGGAAAATAA
1 TAAAATAAAATAAAAT-AA-TAAAATAA
101847364 T-AAATAAAAATAAAA
1 TAAAAT-AAAATAAAA
101847379 ATAAAGATTG
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
26 16 0.41
27 6 0.15
28 17 0.44
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (26 bp):
TAAAATAAAATAAAATAATAAAATAA
Found at i:101847329 original size:13 final size:13
Alignment explanation
Indices: 101847310--101847372 Score: 67
Period size: 13 Copynumber: 4.8 Consensus size: 13
101847300 AATATTTAAC
101847310 TAAAATAAAATAA
1 TAAAATAAAATAA
101847323 -AATAATAAAATAA
1 TAA-AATAAAATAA
101847336 TAAAATAAAATAAAA
1 TAAAATAAAAT--AA
**
101847351 TAAAGGAAAATAA
1 TAAAATAAAATAA
101847364 T-AAATAAAA
1 TAAAATAAAA
101847373 ATAAAAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
12 8 0.19
13 21 0.50
14 2 0.05
15 11 0.26
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (13 bp):
TAAAATAAAATAA
Found at i:101847331 original size:8 final size:8
Alignment explanation
Indices: 101847318--101847367 Score: 55
Period size: 8 Copynumber: 5.8 Consensus size: 8
101847308 ACTAAAATAA
101847318 AATAAAAT
1 AATAAAAT
101847326 AATAAAAT
1 AATAAAAT
101847334 AATAAAAT
1 AATAAAAT
101847342 AAAATAAAAT
1 --AATAAAAT
*
101847352 AAAGGAAAAT
1 -AA-TAAAAT
101847362 AATAAA
1 AATAAA
101847368 TAAAAATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
8 19 0.51
9 5 0.14
10 13 0.35
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (8 bp):
AATAAAAT
Found at i:101847373 original size:13 final size:13
Alignment explanation
Indices: 101847312--101847383 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
101847302 TATTTAACTA
*
101847312 AAAT-AAAATAAA
1 AAATAAAAATAAT
101847324 ATAAT-AAAATAAT
1 A-AATAAAAATAAT
*
101847337 AAAATAAAATAAAAT
1 -AAATAAAA-ATAAT
**
101847352 AAAGGAAAATAAT
1 AAATAAAAATAAT
101847365 AAATAAAAATAA-
1 AAATAAAAATAAT
101847377 AAATAAA
1 AAATAAA
101847384 GATTGGGTTG
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
12 8 0.16
13 27 0.55
14 10 0.20
15 4 0.08
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (13 bp):
AAATAAAAATAAT
Found at i:101855576 original size:28 final size:30
Alignment explanation
Indices: 101855518--101855576 Score: 95
Period size: 28 Copynumber: 2.0 Consensus size: 30
101855508 AGGGATTAAA
101855518 AGGGTTGCTAGTTTAGCCTTATAAAAGCTAG
1 AGGGTTGCTAGTTTAGCC-TATAAAAGCTAG
101855549 AGGGTT-CTAGTTTAGCC-ATAAAAGCTAG
1 AGGGTTGCTAGTTTAGCCTATAAAAGCTAG
101855577 GAGAAAGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (30 bp):
AGGGTTGCTAGTTTAGCCTATAAAAGCTAG
Found at i:101858070 original size:25 final size:27
Alignment explanation
Indices: 101858033--101858086 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
101858023 TCAAACATGC
101858033 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
101858059 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
101858085 AT
1 AT
101858087 AACAATAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:101859607 original size:26 final size:26
Alignment explanation
Indices: 101859571--101859680 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
101859561 CATGAAATTT
101859571 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
101859597 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
101859623 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
101859649 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
101859675 TTATCA
1 TTATCA
101859681 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:101860787 original size:2 final size:2
Alignment explanation
Indices: 101860780--101860814 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
101860770 TTTGTTTGTT
101860780 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
101860815 ATTCACATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:101864050 original size:23 final size:24
Alignment explanation
Indices: 101864002--101864055 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
101863992 TTTAAATTAC
101864002 TAATTAATAAAATATTATTTAAATA
1 TAATTAATAAAATATTATTT-AATA
*
101864027 TAATTAATAATAAT-TTGTTT-ATA
1 TAATTAATAA-AATATTATTTAATA
101864050 TAATTA
1 TAATTA
101864056 TATATATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 9 0.33
25 15 0.56
26 3 0.11
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
TAATTAATAAAATATTATTTAATA
Found at i:101865617 original size:6 final size:6
Alignment explanation
Indices: 101865606--101865631 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
101865596 GAGGACCTTC
101865606 TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
101865632 AAAAAAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:101867695 original size:17 final size:16
Alignment explanation
Indices: 101867665--101867703 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
101867655 TTTTGATCAA
*
101867665 TTATTTTTTTAATGTT
1 TTATTTTTTAAATGTT
101867681 TTATATTTTTAAATGTT
1 TTAT-TTTTTAAATGTT
101867698 TTATTT
1 TTATTT
101867704 ATATATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (16 bp):
TTATTTTTTAAATGTT
Found at i:101867892 original size:25 final size:25
Alignment explanation
Indices: 101867854--101867902 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
101867844 TTTTTATAAT
**
101867854 AAATTATATTTTTTTCAAGTTTTTA
1 AAATTATAAATTTTTCAAGTTTTTA
* *
101867879 AAATTATAAATTTTTTAATTTTTT
1 AAATTATAAATTTTTCAAGTTTTT
101867903 GAATTTGGAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (25 bp):
AAATTATAAATTTTTCAAGTTTTTA
Done.