Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 207 of 208
Found at i:63693730 original size:20 final size:20
Alignment explanation
Indices: 63693707--63693745 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
63693697 TTTTAAAATT
63693707 TATTTTTTAAAGAAAAATAC
1 TATTTTTTAAAGAAAAATAC
*
63693727 TATTTTTTAAGGAAAAATA
1 TATTTTTTAAAGAAAAATA
63693746 TTAAAAAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (20 bp):
TATTTTTTAAAGAAAAATAC
Found at i:63697153 original size:15 final size:16
Alignment explanation
Indices: 63697133--63697162 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
63697123 CACTGATGAG
63697133 TCAGTT-CATAGAAAC
1 TCAGTTCCATAGAAAC
63697148 TCAGTTCCATAGAAA
1 TCAGTTCCATAGAAA
63697163 TCTGACTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (16 bp):
TCAGTTCCATAGAAAC
Found at i:63697600 original size:3 final size:3
Alignment explanation
Indices: 63697592--63697691 Score: 94
Period size: 3 Copynumber: 32.3 Consensus size: 3
63697582 CCTATGAACC
*
63697592 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA TATTGA AGA A-A GGGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA -A--GA AGA AGA -AGA
* ** * **
63697640 ACA CTA TGA ACC AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
63697688 AGA A
1 AGA A
63697692 TTAATGGAAG
Statistics
Matches: 80, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
2 1 0.01
3 74 0.93
4 2 0.03
5 1 0.01
6 2 0.03
ACGTcount: A:0.61, C:0.04, G:0.30, T:0.05
Consensus pattern (3 bp):
AGA
Found at i:63698736 original size:3 final size:3
Alignment explanation
Indices: 63698728--63698756 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
63698718 CAATCTTACA
63698728 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
63698757 CACTCCATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:63703267 original size:18 final size:18
Alignment explanation
Indices: 63703230--63703291 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
63703220 TGTCCTATTA
*
63703230 TTATTAT-TA-TTATAAC
1 TTATTATATATTTATATC
63703246 -TATT-TATATTTATCATC
1 TTATTATATATTTAT-ATC
63703263 TTATTATATATTTATATC
1 TTATTATATATTTATATC
63703281 TTATTATATAT
1 TTATTATATAT
63703292 ATCTATATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
14 1 0.03
15 6 0.15
16 4 0.10
17 2 0.05
18 18 0.45
19 9 0.22
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATTATATATTTATATC
Found at i:63703310 original size:22 final size:20
Alignment explanation
Indices: 63703250--63703299 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
63703240 TATAACTATT
63703250 TATATTTATCATCTTA-T-TA
1 TATATTTAT-ATCTTATTATA
63703269 TATATTTATATCTTATTATA
1 TATATTTATATCTTATTATA
*
63703289 TATATCTATAT
1 TATATTTATAT
63703300 ATCTCTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 6 0.21
19 10 0.36
20 12 0.43
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (20 bp):
TATATTTATATCTTATTATA
Found at i:63711933 original size:86 final size:87
Alignment explanation
Indices: 63711788--63712174 Score: 607
Period size: 87 Copynumber: 4.5 Consensus size: 87
63711778 AAATCAGTGA
* * *
63711788 AGATCGAAAATAAAGCCTTGCATTCATTGGTTGCAGTGGAGCTGGTTAAAGA-ATCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
63711852 CTTACTGCATTAACAGCGAAGC
66 CTTCCTGCATTAACAACGAAGC
63711874 AGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGA-AGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
63711938 CTTCCTGCATTAACAACGAAGC
66 CTTCCTGCATTAACAACGAAGC
* * *
63711960 AGATCGAAAACAAAGCATTGCCTTCATTGGTTGCAGTGGAGCTGGTCAAAGATAGCATATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
63712025 ATTCCTGCATTAACAACGAAGC
66 CTTCCTGCATTAACAACGAAGC
* * * *
63712047 AGATCGAAAACAAAGCCTTGCCTTCATTGGCTGCAATGGAGCTAGTTGAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
63712112 TTTCCTGCGTTAACAACGAAGC
66 CTTCCTGCATTAACAACGAAGC
* *
63712134 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAG
1 AGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAG
63712175 TAGATTGAAG
Statistics
Matches: 278, Mismatches: 22, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
86 131 0.47
87 147 0.53
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCATTAACAACGAAGC
Found at i:63711937 original size:43 final size:42
Alignment explanation
Indices: 63711804--63711941 Score: 109
Period size: 43 Copynumber: 3.2 Consensus size: 42
63711794 AAAATAAAGC
*
63711804 CTTGCATTCATTGGTTGCAGTGGAGCTGGTTAAAGAATCAGAT
1 CTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAA-CAGAT
* * * * * * * ** * *
63711847 CTTGCCTT-ACTGCATTAACAGCGAAGCAGATCGAA-AACAAAGC
1 CTTGCCTTCATTG-GTT-GCAGTGGAGCTGGTTAAAGAACAGA-T
63711890 CTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGAT
1 CTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAA-CAGAT
63711933 CTTGCCTTC
1 CTTGCCTTC
63711942 CTGCATTAAC
Statistics
Matches: 66, Mismatches: 23, Indels: 12
0.65 0.23 0.12
Matches are distributed among these distances:
42 17 0.26
43 32 0.48
44 17 0.26
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (42 bp):
CTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAACAGAT
Found at i:63711981 original size:43 final size:42
Alignment explanation
Indices: 63711933--63712071 Score: 102
Period size: 43 Copynumber: 3.2 Consensus size: 42
63711923 AGAAGCAGAT
63711933 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAG
1 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAG
* * * ** * * * * * *
63711975 CATTGCCTTCATTG-GTT-GCAGTGGAGCTGGTCAAAGATAGCATAT
1 C-TTGCCTTC-CTGCATTAACAACGAAGCAGATCGAA-A-A-CAAAG
*
63712020 CTTGCATTCCTGCATTAACAACGAAGCAGATCGAAAACAAAG
1 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAG
63712062 CCTTGCCTTC
1 -CTTGCCTTC
63712072 ATTGGCTGCA
Statistics
Matches: 65, Mismatches: 24, Indels: 15
0.62 0.23 0.14
Matches are distributed among these distances:
42 15 0.23
43 22 0.34
44 13 0.20
45 15 0.23
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (42 bp):
CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAG
Found at i:63712076 original size:173 final size:173
Alignment explanation
Indices: 63711788--63712174 Score: 605
Period size: 173 Copynumber: 2.2 Consensus size: 173
63711778 AAATCAGTGA
* * * * *
63711788 AGATCGAAAATAAAGCCTTGCATTCATTGGTTGCAGTGGAGCTGGTTAAAGAATCAGATCTTGCC
1 AGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTCAAAGAAGCAGATCTTGCA
* * * *
63711853 TTACTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTG
66 TTACTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGCTGCAATGGAGCTA
63711918 GTTAAAGA-AGCAGATCTTGCCTTCCTGCATTAACAACGAAGC
131 GTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAACGAAGC
* *
63711960 AGATCGAAAACAAAGCATTGCCTTCATTGGTTGCAGTGGAGCTGGTCAAAGATAGCATATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTCAAAGA-AGCAGATCTTGC
*
63712025 ATTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGCTGCAATGGAGCT
65 ATTACTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGCTGCAATGGAGCT
* * *
63712090 AGTTGAAGATAGCAGATCTTGCTTTCCTGCGTTAACAACGAAGC
130 AGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAACGAAGC
* *
63712134 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAG
1 AGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAG
63712175 TAGATTGAAG
Statistics
Matches: 195, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
172 48 0.25
173 77 0.39
174 70 0.36
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (173 bp):
AGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTCAAAGAAGCAGATCTTGCA
TTACTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGCTGCAATGGAGCTA
GTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAACGAAGC
Found at i:63712421 original size:44 final size:44
Alignment explanation
Indices: 63712162--63712714 Score: 205
Period size: 44 Copynumber: 12.4 Consensus size: 44
63712152 TGCCTCCATC
* *
63712162 GGTTGCAGTGGAGTAGATTGAAGCCAGAGATCTTATCTCCCTGA
1 GGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGA
* * * * * ** * *
63712206 GATTGCAGCGGAGCAGATTAAAGACA-CTATCCTATCTCCCTAA
1 GGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGA
* ** *** * *
63712249 AGTTACAGTGGAGTGGATT-AAAATAAAGGATCTTATCTCTCTGA
1 GGTTACAGTGGAGCAGATTGAAGCCAGA-GATCTTATCTCCCTGA
* ** * * * * *
63712293 AGTTACAGCAGAGTAGATCGCA-TCAG-G-TCTTATCTCCTTGA
1 GGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGA
* * ** * *
63712334 GGTTATAGTGGAGTAGACCGAAG-AATTTCAGATCTTATCTCCCTGA
1 GGTTACAGTGGAGCAGATTGAAGCCA---GAGATCTTATCTCCCTGA
*
63712380 GGTTACAGTAGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGA
1 GGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGA
* * ** * ** *
63712424 GATTACAGCGGAGCAGATCAAAGACA-CTATCCTATCTCCCTGA
1 GGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGA
* * *** * *
63712467 AGTTACAGTGGAGCGGATTGAAATAAAAGATCTTATCTCTCTGA
1 GGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGA
* * * * *
63712511 AGTTACAGCAGAGTAGATCGCATCAGATTAAAACCA-AGGATCTTATCTCTCTGA
1 GGTT--A-C--AGT-G---G-AGCAGATTGAAGCCAGA-GATCTTATCTCCCTGA
* * * * * *
63712565 AGTTACAGTAGAACAGATTGCA-CCAG-G-TCTTATTTCCCTAA
1 GGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGA
* * * * *
63712606 GATTACAGTGGAACAGACTGAAG-AATTTCAGATCTTATCTCCCTGA
1 GGTTACAGTGGAGCAGATTGAAGCCA---GAGATCTTATCTCCCTGA
* * * *
63712652 GATTACAGCGGAGCAGATTGAAGCTAGTA-ATCCTATCTCCCTGA
1 GGTTACAGTGGAGCAGATTGAAGCCAG-AGATCTTATCTCCCTGA
* *
63712696 GATTACAGTGGAGCGGATT
1 GGTTACAGTGGAGCAGATT
63712715 AAAATAAAGG
Statistics
Matches: 379, Mismatches: 99, Indels: 62
0.70 0.18 0.11
Matches are distributed among these distances:
41 58 0.15
42 6 0.02
43 60 0.16
44 142 0.37
45 5 0.01
46 64 0.17
47 3 0.01
49 6 0.02
50 1 0.00
51 1 0.00
52 1 0.00
53 2 0.01
54 30 0.08
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
GGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGA
Found at i:63712460 original size:87 final size:87
Alignment explanation
Indices: 63712369--63712529 Score: 216
Period size: 87 Copynumber: 1.9 Consensus size: 87
63712359 TTTCAGATCT
* * * *
63712369 TATCTCCCTGAGGTTACAGTAGAGCAGATTGAAGCCAGAGATCTTATCTCCCTG-AGATTACAGC
1 TATCTCCCTGAAGTTACAGTAGAGCAGATTGAAACAAAAGATCTTATCTCCCTGAAG-TTACAGC
*
63712433 GGAGCAGATCAAAGACACTATCC
65 AGAGCAGATCAAAGACACTATCC
* * * *
63712456 TATCTCCCTGAAGTTACAGTGGAGCGGATTGAAATAAAAGATCTTATCTCTCTGAAGTTACAGCA
1 TATCTCCCTGAAGTTACAGTAGAGCAGATTGAAACAAAAGATCTTATCTCCCTGAAGTTACAGCA
*
63712521 GAGTAGATC
66 GAGCAGATC
63712530 GCATCAGATT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
87 61 0.97
88 2 0.03
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (87 bp):
TATCTCCCTGAAGTTACAGTAGAGCAGATTGAAACAAAAGATCTTATCTCCCTGAAGTTACAGCA
GAGCAGATCAAAGACACTATCC
Found at i:63712659 original size:46 final size:44
Alignment explanation
Indices: 63712592--63712707 Score: 126
Period size: 46 Copynumber: 2.6 Consensus size: 44
63712582 TTGCACCAGG
* * *
63712592 TCTTATTTCCCTAAGATTACAGTGGAACAGACTGAAGA-ATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACTGAAGATA-GT-A-A
* * * *
63712638 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACTGAAGATAGTAA
*
63712682 TCCTATCTCCCTGAGATTACAGTGGA
1 TCTTATCTCCCTGAGATTACAGTGGA
63712708 GCGGATTAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
44 25 0.42
45 1 0.02
46 33 0.55
47 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGACTGAAGATAGTAA
Found at i:63712733 original size:44 final size:44
Alignment explanation
Indices: 63712592--63712757 Score: 124
Period size: 44 Copynumber: 3.7 Consensus size: 44
63712582 TTGCACCAGG
* * * * *
63712592 TCTTATTTCCCTAAGATTACAGTGGAACAGACTGAAGAAT-TTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA-AATAGT--GA
* ** *
63712638 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAGTGA
* *
63712682 TCCTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAAT--AGTGA
* * *
63712726 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGAT
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGAT
63712758 CGCATTAGGT
Statistics
Matches: 96, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
43 4 0.04
44 57 0.59
45 3 0.03
46 32 0.33
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAGTGA
Found at i:63714479 original size:18 final size:18
Alignment explanation
Indices: 63714458--63714506 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
63714448 TTATTATAAC
63714458 TATTTATATATATCATCT
1 TATTTATATATATCATCT
*
63714476 TATTATATATTTAT-ATCT
1 TATT-TATATATATCATCT
63714494 TA-TTATATATATC
1 TATTTATATATATC
63714507 TATATATCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 8 0.30
17 1 0.04
18 10 0.37
19 8 0.30
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (18 bp):
TATTTATATATATCATCT
Found at i:63714479 original size:33 final size:35
Alignment explanation
Indices: 63714442--63714506 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
63714432 CCTATTATTA
63714442 TTATTAT-TA-TTATAAC-TATTTATATATATCATC
1 TTATTATATATTTATAACTTA-TTATATATATCATC
*
63714475 TTATTATATATTTATATCTTATTATATATATC
1 TTATTATATATTTATAACTTATTATATATATC
63714507 TATATATCTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 7 0.25
34 2 0.07
35 17 0.61
36 2 0.07
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (35 bp):
TTATTATATATTTATAACTTATTATATATATCATC
Found at i:63716821 original size:25 final size:27
Alignment explanation
Indices: 63716786--63716835 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
63716776 GCTAACAGTT
*
63716786 AGACTTAAATTT-TAAAATTAAAAAAA
1 AGACTTAAATTTCTAAAAATAAAAAAA
63716812 AGAC-TAAATTTCTAAAAATAAAAA
1 AGACTTAAATTTCTAAAAATAAAAA
63716836 TTTAACCTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (27 bp):
AGACTTAAATTTCTAAAAATAAAAAAA
Found at i:63719178 original size:6 final size:6
Alignment explanation
Indices: 63719167--63719193 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
63719157 GAAGTGATAG
63719167 AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAA
63719194 TCATCTACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:63726502 original size:2 final size:2
Alignment explanation
Indices: 63726495--63726535 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
63726485 CAAACAAACG
63726495 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
63726536 TTAGTATACC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:63726779 original size:2 final size:2
Alignment explanation
Indices: 63726772--63726807 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
63726762 GGAACCTTAT
63726772 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
63726808 AAAGATGGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:63727085 original size:37 final size:38
Alignment explanation
Indices: 63727010--63727097 Score: 97
Period size: 38 Copynumber: 2.3 Consensus size: 38
63727000 GTGTTCATGT
* * * * *
63727010 TTCTTTATTTGTGCGAATCCTCGTAATAGAATCTGTAA
1 TTCTTTATTTATACCAATCCTCATAATAGAATCGGTAA
*
63727048 TTCTTTATTTATACCAAT-CTCATAATGGAATCGGTAA
1 TTCTTTATTTATACCAATCCTCATAATAGAATCGGTAA
*
63727085 TTCAGTTATTTAT
1 TTC-TTTATTTAT
63727098 TACTAATGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
37 19 0.45
38 23 0.55
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.44
Consensus pattern (38 bp):
TTCTTTATTTATACCAATCCTCATAATAGAATCGGTAA
Found at i:63727724 original size:15 final size:14
Alignment explanation
Indices: 63727704--63727764 Score: 59
Period size: 15 Copynumber: 4.1 Consensus size: 14
63727694 TTGTTAATTG
63727704 TAATTAACTTTTAAT
1 TAATTAA-TTTTAAT
*
63727719 TAATTAAAGTTTAAT
1 TAATT-AATTTTAAT
* * *
63727734 TAAATAATTGTGAT
1 TAATTAATTTTAAT
63727748 TAATTATATTTTAAT
1 TAATTA-ATTTTAAT
63727763 TA
1 TA
63727765 CAAGTATATA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
14 11 0.31
15 23 0.64
16 2 0.06
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (14 bp):
TAATTAATTTTAAT
Found at i:63730415 original size:24 final size:24
Alignment explanation
Indices: 63730251--63730416 Score: 65
Period size: 24 Copynumber: 6.8 Consensus size: 24
63730241 CGTCCCGTTA
63730251 TATGGCTCTTTATGAGCTTCCTGAT
1 TATGGCTC-TTATGAGCTTCCTGAT
** *
63730276 TAATGGCTC-TCCGAAGCTTCCCGA-
1 T-ATGGCTCTTATG-AGCTTCCTGAT
* * *
63730300 TATAGCTCGCT-TGAACTT-CTCGAT
1 TATGGCTC-TTATGAGCTTCCT-GAT
* **
63730324 ATATGGCTATTCGGAGCTTCCTG-T
1 -TATGGCTCTTATGAGCTTCCTGAT
* ** *
63730348 TAATGTCTCTTCGGAGCTACCTG-T
1 T-ATGGCTCTTATGAGCTTCCTGAT
** * *
63730372 TATTGGCTCGCACGAACTTCCTGAT
1 TA-TGGCTCTTATGAGCTTCCTGAT
63730397 TATGGCTCTTATGAGCTTCC
1 TATGGCTCTTATGAGCTTCC
63730417 CGTTATACAG
Statistics
Matches: 103, Mismatches: 26, Indels: 25
0.67 0.17 0.16
Matches are distributed among these distances:
22 1 0.01
23 14 0.14
24 53 0.51
25 26 0.25
26 9 0.09
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (24 bp):
TATGGCTCTTATGAGCTTCCTGAT
Found at i:63736365 original size:16 final size:16
Alignment explanation
Indices: 63736322--63736366 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
63736312 AAATTATAAA
*
63736322 AAAAATTCAAAAATTT
1 AAAAATTCAAAAATAT
* *
63736338 AAAATTTTAAAAATAT
1 AAAAATTCAAAAATAT
63736354 AAAAATTCAAAAA
1 AAAAATTCAAAAA
63736367 AATCAACATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATTCAAAAATAT
Found at i:63738569 original size:24 final size:25
Alignment explanation
Indices: 63738516--63738574 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
63738506 TGGATGAGTT
*
63738516 GAAAGAAGAA-GATGAAGAAGAGCA
1 GAAAGAAGAAGGCTGAAGAAGAGCA
* *
63738540 GGAAG-AGAAGGCTGAAGAAGAGCC
1 GAAAGAAGAAGGCTGAAGAAGAGCA
63738564 GAAAGAAGAAG
1 GAAAGAAGAAG
63738575 AAGATGAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 4 0.14
24 20 0.69
25 5 0.17
ACGTcount: A:0.53, C:0.07, G:0.37, T:0.03
Consensus pattern (25 bp):
GAAAGAAGAAGGCTGAAGAAGAGCA
Found at i:63738639 original size:21 final size:21
Alignment explanation
Indices: 63738590--63738639 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
63738580 GAAGAGGAAC
*
63738590 ATGAAGAAAAGGATGGAGATG
1 ATGAAGAGAAGGATGGAGATG
*
63738611 ATGAAGAGAAGGATGGGGATG
1 ATGAAGAGAAGGATGGAGATG
63738632 ATGAAGAG
1 ATGAAGAG
63738640 GAACAAGAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.42, T:0.14
Consensus pattern (21 bp):
ATGAAGAGAAGGATGGAGATG
Found at i:63741216 original size:15 final size:15
Alignment explanation
Indices: 63741196--63741263 Score: 82
Period size: 15 Copynumber: 4.5 Consensus size: 15
63741186 GGATGAGTCT
* *
63741196 GAAGAAGAGGAGGAG
1 GAAGAAGAAGAGAAG
*
63741211 GAAGAAGAAGAAAAG
1 GAAGAAGAAGAGAAG
63741226 GAAGAAGAAGAGAAG
1 GAAGAAGAAGAGAAG
* * *
63741241 GAAGAGGAACAGAAT
1 GAAGAAGAAGAGAAG
63741256 GAAGAAGA
1 GAAGAAGA
63741264 GAAAAATGAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.57, C:0.01, G:0.40, T:0.01
Consensus pattern (15 bp):
GAAGAAGAAGAGAAG
Found at i:63741244 original size:27 final size:27
Alignment explanation
Indices: 63741214--63741266 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
63741204 GGAGGAGGAA
63741214 GAAGAAGAAAAGGAA-GAAGAAGAGAAG
1 GAAGAAGAAAA-GAATGAAGAAGAGAAG
* *
63741241 GAAGAGGAACAGAATGAAGAAGAGAA
1 GAAGAAGAAAAGAATGAAGAAGAGAA
63741267 AAATGAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.60, C:0.02, G:0.36, T:0.02
Consensus pattern (27 bp):
GAAGAAGAAAAGAATGAAGAAGAGAAG
Found at i:63753348 original size:21 final size:21
Alignment explanation
Indices: 63753322--63753362 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
63753312 ATCTGCTCAA
* *
63753322 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
63753343 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
63753363 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:63760965 original size:23 final size:23
Alignment explanation
Indices: 63760902--63760966 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 23
63760892 TTTTAATGTA
* *
63760902 TGAAATATAAATTTTAAATATTTG
1 TGAAAT-TTAATTTTAATTATTTG
* *
63760926 T-AAGTAATTAATATTAATTATTTG
1 TGAA--ATTTAATTTTAATTATTTG
63760950 TGAAATTTAATTTTAAT
1 TGAAATTTAATTTTAAT
63760967 ATATAATCTA
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
23 13 0.41
24 16 0.50
25 3 0.09
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (23 bp):
TGAAATTTAATTTTAATTATTTG
Found at i:63764422 original size:16 final size:16
Alignment explanation
Indices: 63764390--63764426 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
63764380 ATGCATATAC
63764390 ATATACATATATATGT
1 ATATACATATATATGT
* *
63764406 ATATGCATATATGTGT
1 ATATACATATATATGT
63764422 ATATA
1 ATATA
63764427 TATGATAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (16 bp):
ATATACATATATATGT
Found at i:63766353 original size:44 final size:46
Alignment explanation
Indices: 63766260--63766354 Score: 122
Period size: 44 Copynumber: 2.1 Consensus size: 46
63766250 ACAGAGCTAT
* * * *
63766260 AATGGAATAGAACTGTAATCAGTAATTCAATTGTTTGGTTGAATGG
1 AATGAAATAGAACTGTAATCACTAATTCAATTGTTTGATTGAATAG
**
63766306 AATGAAATAGAACTGTAAT-ACT-ATTCTTTTGTTTGATTGAATAG
1 AATGAAATAGAACTGTAATCACTAATTCAATTGTTTGATTGAATAG
63766350 AATGA
1 AATGA
63766355 TGTTGTAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 23 0.53
45 2 0.05
46 18 0.42
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.37
Consensus pattern (46 bp):
AATGAAATAGAACTGTAATCACTAATTCAATTGTTTGATTGAATAG
Found at i:63778589 original size:18 final size:17
Alignment explanation
Indices: 63778568--63778602 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
63778558 TTATTATTAA
*
63778568 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
63778586 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
63778603 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:63778656 original size:157 final size:157
Alignment explanation
Indices: 63778455--63778771 Score: 580
Period size: 157 Copynumber: 2.0 Consensus size: 157
63778445 TAGAATACCC
*
63778455 TTAGCATAAATTTGTCTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTCTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
* *
63778520 TTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
63778585 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
* * *
63778612 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTCTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
63778677 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
63778742 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
63778769 TTA
1 TTA
63778772 ATATTCTTAT
Statistics
Matches: 154, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 154 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTCTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:63778746 original size:18 final size:17
Alignment explanation
Indices: 63778725--63778759 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
63778715 TTATTATTAA
*
63778725 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
63778743 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
63778760 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:63780732 original size:11 final size:11
Alignment explanation
Indices: 63780716--63780752 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
63780706 ACAGGCACAT
63780716 TTATATATATA
1 TTATATATATA
63780727 TTATATATAT-
1 TTATATATATA
63780737 TTATATA-ATA
1 TTATATATATA
63780747 TT-TATA
1 TTATATA
63780753 CGTATTTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 6 0.24
10 9 0.36
11 10 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
TTATATATATA
Found at i:63780759 original size:21 final size:21
Alignment explanation
Indices: 63780714--63780752 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
63780704 TCACAGGCAC
63780714 ATTTATATATATATTATATAT
1 ATTTATATATATATTATATAT
63780735 ATTTATATA-ATATT-TATA
1 ATTTATATATATATTATATA
63780753 CGTATTTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 5 0.28
21 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTATATATATATTATATAT
Found at i:63785966 original size:16 final size:16
Alignment explanation
Indices: 63785934--63785970 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
63785924 ATGCATATAC
63785934 ATATACATATATATGT
1 ATATACATATATATGT
* *
63785950 ATATGCATATATGTGT
1 ATATACATATATATGT
63785966 ATATA
1 ATATA
63785971 TATGATAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (16 bp):
ATATACATATATATGT
Found at i:63791379 original size:30 final size:30
Alignment explanation
Indices: 63791339--63791412 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 30
63791329 TGAGGAGTGG
*
63791339 ATTCCTCCACCACCTCCTGATACTGAACAA
1 ATTCCTCCACCACCTCCTGATAATGAACAA
* *
63791369 ATTCCACCACCTCCTCCTGATAATGAACAA
1 ATTCCTCCACCACCTCCTGATAATGAACAA
* *
63791399 GTTCCTCCCCCACC
1 ATTCCTCCACCACC
63791413 ACCTAATGAG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.27, C:0.43, G:0.07, T:0.23
Consensus pattern (30 bp):
ATTCCTCCACCACCTCCTGATAATGAACAA
Found at i:63796016 original size:36 final size:36
Alignment explanation
Indices: 63795968--63796043 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
63795958 AAAAATGAAT
* *
63795968 AAACTTATAAAATCTTAAAAAGTTTTAAAAAG-TAA
1 AAACTAATAAAATCTTAAAAAGTTTCAAAAAGTTAA
* **
63796003 AAACTAATAAAAATTTTCCAAAGTTTCAAAAAGTTAA
1 AAACTAAT-AAAATCTTAAAAAGTTTCAAAAAGTTAA
63796040 AAAC
1 AAAC
63796044 ATTCAAATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 7 0.21
36 20 0.59
37 7 0.21
ACGTcount: A:0.57, C:0.09, G:0.05, T:0.29
Consensus pattern (36 bp):
AAACTAATAAAATCTTAAAAAGTTTCAAAAAGTTAA
Found at i:63799380 original size:16 final size:15
Alignment explanation
Indices: 63799333--63799388 Score: 53
Period size: 16 Copynumber: 3.7 Consensus size: 15
63799323 TTATTTCTTC
63799333 ATTTTAAGTTTA-AT
1 ATTTTAAGTTTAGAT
* *
63799347 A-TTTGAGTTTGGATT
1 ATTTTAAGTTTAGA-T
63799362 ATTTTAAGTTTAGAGT
1 ATTTTAAGTTTAGA-T
*
63799378 ATTTTAGGTTT
1 ATTTTAAGTTT
63799389 TGATTAAGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
13 8 0.24
14 2 0.06
15 2 0.06
16 21 0.64
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (15 bp):
ATTTTAAGTTTAGAT
Found at i:63803118 original size:33 final size:33
Alignment explanation
Indices: 63803080--63803146 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
63803070 TCGAACTAGA
63803080 AATAACTTAAAATTTAAAACCCATATCCATCCT
1 AATAACTTAAAATTTAAAACCCATATCCATCCT
63803113 AATAACTTAAAATTTAAAACCCATATCCATCCT
1 AATAACTTAAAATTTAAAACCCATATCCATCCT
63803146 A
1 A
63803147 TCGAAATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (33 bp):
AATAACTTAAAATTTAAAACCCATATCCATCCT
Found at i:63804955 original size:16 final size:17
Alignment explanation
Indices: 63804929--63804963 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
63804919 CTTGAGTTTC
*
63804929 TTGAGTTATTTTAGGTT
1 TTGAGTTATTTTAGATT
63804946 TTGA-TTATTTTAGATT
1 TTGAGTTATTTTAGATT
63804962 TT
1 TT
63804964 AATCAAGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.20, C:0.00, G:0.17, T:0.63
Consensus pattern (17 bp):
TTGAGTTATTTTAGATT
Found at i:63805521 original size:3 final size:3
Alignment explanation
Indices: 63805513--63805546 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
63805503 AATAGATATA
63805513 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
63805547 GAGCAACAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:63808678 original size:4 final size:4
Alignment explanation
Indices: 63808669--63808697 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
63808659 TCTCCAATAA
63808669 AAAT AAAT AAAT AAAT AAAT -AAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
63808698 GCAAACAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:63819632 original size:113 final size:113
Alignment explanation
Indices: 63819434--63819658 Score: 450
Period size: 113 Copynumber: 2.0 Consensus size: 113
63819424 ATTTGTGTTT
63819434 ACAAATTATTCGAATTCGATTTCAAAAACATTTAAACTTGATTCGGTAATTATCAAGTTGAGTTC
1 ACAAATTATTCGAATTCGATTTCAAAAACATTTAAACTTGATTCGGTAATTATCAAGTTGAGTTC
63819499 GAATAGTTCGAGTTATCGATTGAGTCGAATTTGAACATTGTAGTGCTC
66 GAATAGTTCGAGTTATCGATTGAGTCGAATTTGAACATTGTAGTGCTC
63819547 ACAAATTATTCGAATTCGATTTCAAAAACATTTAAACTTGATTCGGTAATTATCAAGTTGAGTTC
1 ACAAATTATTCGAATTCGATTTCAAAAACATTTAAACTTGATTCGGTAATTATCAAGTTGAGTTC
63819612 GAATAGTTCGAGTTATCGATTGAGTCGAATTTGAACATTGTAGTGCT
66 GAATAGTTCGAGTTATCGATTGAGTCGAATTTGAACATTGTAGTGCT
63819659 TGATTCGACT
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 112 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (113 bp):
ACAAATTATTCGAATTCGATTTCAAAAACATTTAAACTTGATTCGGTAATTATCAAGTTGAGTTC
GAATAGTTCGAGTTATCGATTGAGTCGAATTTGAACATTGTAGTGCTC
Found at i:63830216 original size:44 final size:45
Alignment explanation
Indices: 63830151--63830241 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
63830141 ACCTCTATTC
* * *
63830151 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
63830195 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
63830240 CA
1 CA
63830242 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:63830256 original size:17 final size:16
Alignment explanation
Indices: 63830222--63830274 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
63830212 GATTAGCTAT
63830222 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
63830238 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
63830255 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
63830271 TACA
1 TACA
63830275 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:63836091 original size:23 final size:23
Alignment explanation
Indices: 63836029--63836075 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
63836019 ATGGGGTAGG
* *
63836029 ATCTAAATCTGTATCTGTTATGC
1 ATCTGAATCTGTATTTGTTATGC
*
63836052 ATCTGAATCTATATTTGTTATGC
1 ATCTGAATCTGTATTTGTTATGC
63836075 A
1 A
63836076 CTTGTGTCTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.45
Consensus pattern (23 bp):
ATCTGAATCTGTATTTGTTATGC
Found at i:63837091 original size:7 final size:7
Alignment explanation
Indices: 63837079--63837115 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
63837069 GCTATGTTTG
63837079 TGTTTAA
1 TGTTTAA
63837086 TGTTTAA
1 TGTTTAA
63837093 TGTTTAA
1 TGTTTAA
63837100 TGTTTAA
1 TGTTTAA
63837107 TGTTTAA
1 TGTTTAA
63837114 TG
1 TG
63837116 ATCTATATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.27, C:0.00, G:0.16, T:0.57
Consensus pattern (7 bp):
TGTTTAA
Found at i:63842778 original size:27 final size:27
Alignment explanation
Indices: 63842722--63842781 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
63842712 CTTTAAATAT
**
63842722 TTTTTTATAAATATATTTGTTATTTAA
1 TTTTTTATAAATATATTTGTTACATAA
*
63842749 TTTTTTATAAATATATTTGTTACATGA
1 TTTTTTATAAATATATTTGTTACATAA
63842776 TTTTTT
1 TTTTTT
63842782 CCACCCATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (27 bp):
TTTTTTATAAATATATTTGTTACATAA
Found at i:63845281 original size:17 final size:18
Alignment explanation
Indices: 63845259--63845292 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
63845249 ACATTCACCA
*
63845259 CTCACATTACA-ATAGGG
1 CTCACAATACACATAGGG
63845276 CTCACAATACACATAGG
1 CTCACAATACACATAGG
63845293 ATCGCAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.21
Consensus pattern (18 bp):
CTCACAATACACATAGGG
Found at i:63845329 original size:18 final size:18
Alignment explanation
Indices: 63845284--63845335 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
63845274 GGCTCACAAT
*
63845284 ACACATA-GGATCGCAATA
1 ACACATAGGGTTCGC-ATA
*
63845302 ACAAAT-GGGTTCGCATA
1 ACACATAGGGTTCGCATA
63845319 ACACATAGGGTTCGCAT
1 ACACATAGGGTTCGCAT
63845336 TACATAGGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 8 0.28
18 21 0.72
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (18 bp):
ACACATAGGGTTCGCATA
Found at i:63845342 original size:16 final size:16
Alignment explanation
Indices: 63845321--63845351 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
63845311 TTCGCATAAC
*
63845321 ACATAGGGTTCGCATT
1 ACATAGGATTCGCATT
63845337 ACATAGGATTCGCAT
1 ACATAGGATTCGCAT
63845352 GCCTTACTAT
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:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (16 bp):
ACATAGGATTCGCATT
Found at i:63845389 original size:18 final size:18
Alignment explanation
Indices: 63845366--63845400 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
63845356 TACTATTCAT
63845366 TACTATTCATTACTGACC
1 TACTATTCATTACTGACC
63845384 TACTATTCATTACTGAC
1 TACTATTCATTACTGAC
63845401 TGCCGAAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.26, G:0.06, T:0.40
Consensus pattern (18 bp):
TACTATTCATTACTGACC
Found at i:63845397 original size:10 final size:10
Alignment explanation
Indices: 63845355--63845379 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
63845345 TTCGCATGCC
63845355 TTACTATTCA
1 TTACTATTCA
63845365 TTACTATTCA
1 TTACTATTCA
63845375 TTACT
1 TTACT
63845380 GACCTACTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.20, G:0.00, T:0.52
Consensus pattern (10 bp):
TTACTATTCA
Found at i:63852375 original size:6 final size:7
Alignment explanation
Indices: 63852359--63852383 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
63852349 ATATTTTCTA
63852359 TTTTAAT
1 TTTTAAT
63852366 TTTTAAT
1 TTTTAAT
63852373 TTTTAAT
1 TTTTAAT
63852380 TTTT
1 TTTT
63852384 TTATAAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTAAT
Found at i:63859118 original size:6 final size:6
Alignment explanation
Indices: 63859109--63859151 Score: 77
Period size: 6 Copynumber: 7.2 Consensus size: 6
63859099 CTTAATAAGA
*
63859109 ATATAT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT A
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT A
63859152 AGAAGAATAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (6 bp):
ATATGT
Found at i:63861277 original size:45 final size:45
Alignment explanation
Indices: 63861227--63861365 Score: 215
Period size: 45 Copynumber: 3.1 Consensus size: 45
63861217 TAACGGTAGT
* * * *
63861227 AGTAACGGTATTCAACACACAAAGTGCTGAATCTGTAACAGTAAC
1 AGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAACAGTAAC
* * *
63861272 GGTAACAGTATTCGACACACAAAGTGCCGAGTCGGTAACAGTAAC
1 AGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAACAGTAAC
63861317 AGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAACAGTAAC
1 AGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAACAGTAAC
63861362 AGTA
1 AGTA
63861366 GTCGGCACAA
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 85 1.00
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (45 bp):
AGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAACAGTAAC
Found at i:63861392 original size:38 final size:39
Alignment explanation
Indices: 63861265--63861392 Score: 132
Period size: 45 Copynumber: 3.2 Consensus size: 39
63861255 GAATCTGTAA
* * *
63861265 CAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAGTCGGTAA
1 CAGTAACAGTAACAGTAGTCGACACACAAAGTGCCGA------AT
*
63861310 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
1 CAGTAACAGTAACAGTAGTCGACACACAAAGTGCCGAAT
* *
63861349 CAGTAACAGTAACAGTAGTCGGCACA-AAAGTGCCTAAT
1 CAGTAACAGTAACAGTAGTCGACACACAAAGTGCCGAAT
*
63861387 TAGTAA
1 CAGTAA
63861393 GCCGACAAAT
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
38 16 0.21
39 25 0.32
45 36 0.47
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (39 bp):
CAGTAACAGTAACAGTAGTCGACACACAAAGTGCCGAAT
Found at i:63864516 original size:16 final size:17
Alignment explanation
Indices: 63864490--63864533 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
63864480 AGTTTTTATT
63864490 TATTTTATTTTTAAAAA
1 TATTTTATTTTTAAAAA
63864507 TATTTT-TTTTT-AAAA
1 TATTTTATTTTTAAAAA
63864522 T-TTTTATGTTTT
1 TATTTTAT-TTTT
63864534 GTTTAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.16
15 6 0.24
16 9 0.36
17 6 0.24
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (17 bp):
TATTTTATTTTTAAAAA
Found at i:63864568 original size:18 final size:19
Alignment explanation
Indices: 63864547--63864585 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
63864537 TAAAATAAGA
63864547 AAAAAAATTA-AT-TTTTT
1 AAAAAAATTACATATTTTT
*
63864564 TAAAAAATTACATATTTTT
1 AAAAAAATTACATATTTTT
63864583 AAA
1 AAA
63864586 GTGTATGAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
17 9 0.50
18 2 0.11
19 7 0.39
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAAAAATTACATATTTTT
Found at i:63864570 original size:17 final size:18
Alignment explanation
Indices: 63864548--63864585 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
63864538 AAAATAAGAA
*
63864548 AAAAAATTA-ATTTTTTT
1 AAAAAATTACATATTTTT
63864565 AAAAAATTACATATTTTT
1 AAAAAATTACATATTTTT
63864583 AAA
1 AAA
63864586 GTGTATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (18 bp):
AAAAAATTACATATTTTT
Found at i:63869424 original size:9 final size:9
Alignment explanation
Indices: 63869410--63869441 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
63869400 TGGTTTTCTC
63869410 AATCTGATT
1 AATCTGATT
63869419 AATCTGATT
1 AATCTGATT
63869428 AATCTGATT
1 AATCTGATT
63869437 AATCT
1 AATCT
63869442 ATCACCCCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.44
Consensus pattern (9 bp):
AATCTGATT
Found at i:63871183 original size:2 final size:2
Alignment explanation
Indices: 63871176--63871211 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
63871166 AGCTATGTCG
63871176 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
63871212 TTCGATTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:63874159 original size:20 final size:19
Alignment explanation
Indices: 63874124--63874164 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
63874114 AAAAATAACA
63874124 TTAATAATAATTTTAATAT
1 TTAATAATAATTTTAATAT
63874143 TTAAGTAAT-ATTCTTAATAT
1 TTAA-TAATAATT-TTAATAT
63874163 TT
1 TT
63874165 TATTTAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
TTAATAATAATTTTAATAT
Found at i:63874252 original size:23 final size:24
Alignment explanation
Indices: 63874224--63874268 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
63874214 ATATTTAGTA
* *
63874224 ATAAATGTTTT-ATAGTATAAAAT
1 ATAAATATTTTAATAATATAAAAT
63874247 ATAAATATTTTAATAATATAAA
1 ATAAATATTTTAATAATATAAA
63874269 TATGAGTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (24 bp):
ATAAATATTTTAATAATATAAAAT
Found at i:63875111 original size:31 final size:32
Alignment explanation
Indices: 63875066--63875127 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
63875056 CCCTATACAT
63875066 TAATTCGATCAATTTTAAACCATGTACTTTTC
1 TAATTCGATCAATTTTAAACCATGTACTTTTC
* **
63875098 TAATT-GATTAATTTTAATTCATGTACTTTT
1 TAATTCGATCAATTTTAAACCATGTACTTTT
63875128 GACCCAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 22 0.81
32 5 0.19
ACGTcount: A:0.31, C:0.13, G:0.06, T:0.50
Consensus pattern (32 bp):
TAATTCGATCAATTTTAAACCATGTACTTTTC
Found at i:63880191 original size:29 final size:31
Alignment explanation
Indices: 63880123--63880201 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 31
63880113 ATCTCAAAAT
* *
63880123 TATACATGAATTTTAATTTAATGTGTAATTG
1 TATACATGAACTTTAATTTAATGTGCAATTG
*
63880154 TATAAATGAACTTTAATTT-A-GTGCAATTG
1 TATACATGAACTTTAATTTAATGTGCAATTG
*
63880183 TATACATGAAACTCTAATT
1 TATACATG-AACTTTAATT
63880202 GTGGTTCAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 15 0.36
30 10 0.24
31 17 0.40
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (31 bp):
TATACATGAACTTTAATTTAATGTGCAATTG
Found at i:63882236 original size:34 final size:34
Alignment explanation
Indices: 63882198--63882266 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
63882188 CCAAAAGAAC
*
63882198 ATAAACATATCAATGTCGGACACATACATAGCTA
1 ATAAACATATCAATGTCAGACACATACATAGCTA
*
63882232 ATAAACATATCAATGTCAGACACATACATATCTA
1 ATAAACATATCAATGTCAGACACATACATAGCTA
63882266 A
1 A
63882267 CAAGTCAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.46, C:0.20, G:0.09, T:0.25
Consensus pattern (34 bp):
ATAAACATATCAATGTCAGACACATACATAGCTA
Found at i:63883090 original size:31 final size:31
Alignment explanation
Indices: 63883048--63883109 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
63883038 GTTGAGCCTG
*
63883048 ATGGCAGTAAAATAATTAGTACCAATTGAAC
1 ATGGCAATAAAATAATTAGTACCAATTGAAC
63883079 ATGGCAATAAAATAATTAGTACCAATTGAAC
1 ATGGCAATAAAATAATTAGTACCAATTGAAC
63883110 TTAAAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.47, C:0.13, G:0.15, T:0.26
Consensus pattern (31 bp):
ATGGCAATAAAATAATTAGTACCAATTGAAC
Found at i:63889907 original size:16 final size:17
Alignment explanation
Indices: 63889886--63889919 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
63889876 AATAAAACAG
*
63889886 ACAATA-AGTGAAGGAA
1 ACAATAGAGGGAAGGAA
63889902 ACAATAGAGGGAAGGAA
1 ACAATAGAGGGAAGGAA
63889919 A
1 A
63889920 AAAAAAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.56, C:0.06, G:0.29, T:0.09
Consensus pattern (17 bp):
ACAATAGAGGGAAGGAA
Found at i:63893102 original size:22 final size:22
Alignment explanation
Indices: 63893077--63893162 Score: 93
Period size: 22 Copynumber: 3.9 Consensus size: 22
63893067 AACCATATTA
*
63893077 AAAATATATATTTAATATATAT
1 AAAATATATATTTAATATAAAT
* *
63893099 AAAATATATATTTGAT-TAAAA
1 AAAATATATATTTAATATAAAT
* *
63893120 ATAAATATATATTTGATTAAAAAT
1 A-AAATATATATTT-AATATAAAT
*
63893144 AAAAAATATATTTAATATA
1 AAAATATATATTTAATATA
63893163 TAATTCGGGC
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
21 4 0.08
22 31 0.61
23 12 0.24
24 4 0.08
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
AAAATATATATTTAATATAAAT
Found at i:63893547 original size:26 final size:27
Alignment explanation
Indices: 63893493--63893557 Score: 105
Period size: 26 Copynumber: 2.4 Consensus size: 27
63893483 ATAAAAAATA
63893493 ACCAAAATATTATAACTTTTTTTTTATTT
1 ACCAAAATATTATAA--TTTTTTTTATTT
63893522 ACCAAAATATTATAA-TTTTTTTATTT
1 ACCAAAATATTATAATTTTTTTTATTT
63893548 ACCAAAATAT
1 ACCAAAATAT
63893558 ACCAAAACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
26 21 0.58
29 15 0.42
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (27 bp):
ACCAAAATATTATAATTTTTTTTATTT
Found at i:63893579 original size:13 final size:12
Alignment explanation
Indices: 63893561--63893590 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
63893551 AAAATATACC
63893561 AAAACAAAAACAA
1 AAAACAAAAA-AA
63893574 AAAACAAAAAAA
1 AAAACAAAAAAA
63893586 AAAAC
1 AAAAC
63893591 CTGACACAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAACAAAAAAA
Found at i:63894305 original size:19 final size:19
Alignment explanation
Indices: 63894249--63894312 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
63894239 AATTTTTTTA
*
63894249 AAATTAAAATAGAGCTATT
1 AAATTAAAATAGAGTTATT
* * *
63894268 AAATGAGAATAG-TTTATT
1 AAATTAAAATAGAGTTATT
*
63894286 ACATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
63894305 AAATTAAA
1 AAATTAAA
63894313 CTATTTTAAT
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
18 13 0.37
19 22 0.63
ACGTcount: A:0.52, C:0.03, G:0.11, T:0.34
Consensus pattern (19 bp):
AAATTAAAATAGAGTTATT
Found at i:63894754 original size:28 final size:28
Alignment explanation
Indices: 63894711--63894773 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
63894701 TTTTTTCTGT
* *
63894711 TTTTAGTAAATGAAAAAAAATTATAATA
1 TTTTGGTAAATAAAAAAAAATTATAATA
*
63894739 TTTTGGTAAATAAAAAAAATTTATAATA
1 TTTTGGTAAATAAAAAAAAATTATAATA
63894767 TTTTGGT
1 TTTTGGT
63894774 TATTTTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (28 bp):
TTTTGGTAAATAAAAAAAAATTATAATA
Found at i:63899136 original size:19 final size:19
Alignment explanation
Indices: 63899097--63899136 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
63899087 TAATACTTAT
**
63899097 ATATTAAATCAAAGATTAC
1 ATATTAAATCAAAGAGCAC
*
63899116 ATATTAGATCAAAGAGCAC
1 ATATTAAATCAAAGAGCAC
63899135 AT
1 AT
63899137 TAATCCTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (19 bp):
ATATTAAATCAAAGAGCAC
Found at i:63903109 original size:10 final size:10
Alignment explanation
Indices: 63903086--63903118 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
63903076 AAGCGAGAGC
63903086 AAAAAGAAAG
1 AAAAAGAAAG
63903096 -AAAAGAAAG
1 AAAAAGAAAG
*
63903105 AAAAAGAGAG
1 AAAAAGAAAG
63903115 AAAA
1 AAAA
63903119 TCTTCCATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:63906567 original size:9 final size:9
Alignment explanation
Indices: 63906553--63906585 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
63906543 GAGGATTTGG
63906553 TTAATTAAA
1 TTAATTAAA
63906562 TTAATTAAA
1 TTAATTAAA
*
63906571 TTAACTAAA
1 TTAATTAAA
63906580 TTAATT
1 TTAATT
63906586 TTCTAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (9 bp):
TTAATTAAA
Found at i:63915040 original size:46 final size:46
Alignment explanation
Indices: 63914954--63915043 Score: 117
Period size: 46 Copynumber: 2.0 Consensus size: 46
63914944 ATATATAAAA
* *
63914954 AAATCTATTCATGCTTTAGATAGCACATTCTCGAAGTCAAGCCAGC
1 AAATCTAATCATGCTTTAGATAGCACAATCTCGAAGTCAAGCCAGC
* * * * *
63915000 AAATCTAATCATGCTTTAGATTGGAGAATCTTGAATTCAAGCCA
1 AAATCTAATCATGCTTTAGATAGCACAATCTCGAAGTCAAGCCA
63915044 AAATTTCTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (46 bp):
AAATCTAATCATGCTTTAGATAGCACAATCTCGAAGTCAAGCCAGC
Found at i:63934650 original size:21 final size:17
Alignment explanation
Indices: 63934607--63934640 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
63934597 TATTTAATAT
63934607 ATATATTTGATTAAAAA
1 ATATATTTGATTAAAAA
63934624 ATATATTTGATTAAAAA
1 ATATATTTGATTAAAAA
63934641 TAAAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
ATATATTTGATTAAAAA
Found at i:63934658 original size:21 final size:20
Alignment explanation
Indices: 63934602--63934658 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
63934592 AAAAATATTT
**
63934602 AATATATATATTTGATTAAAA
1 AATATATATATTT-AAAAAAA
*
63934623 AATATATTTGA-TTAAAAATAA
1 AATATATAT-ATTTAAAAA-AA
63934644 AATATATATATTTAA
1 AATATATATATTTAA
63934659 TATATACTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
20 4 0.14
21 24 0.83
22 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (20 bp):
AATATATATATTTAAAAAAA
Found at i:63943620 original size:286 final size:286
Alignment explanation
Indices: 63943108--63943678 Score: 1079
Period size: 286 Copynumber: 2.0 Consensus size: 286
63943098 ACAGAGAGGA
63943108 CAAGGCAGCAACAATTGTTGAACTTGAGGAGAGACTTTGAGAATTTGAAGATGAAGGAAGAAAAA
1 CAAGGCAGCAACAATTGTTGAACTTGAGGAGAGACTTTGAGAATTTGAAGATGAAGGAAGAAAAA
* *
63943173 ACTGTCAAGCAGTATTTTGACAGGATTATGGCTGTGGTAAACAGCATAAAGCTCCTTGGTGAGCA
66 ACTGTCAAGCAGTATTTTGACAGGATTATGGCTGTGGTAAACAACATAAAGCTCATTGGTGAGCA
*
63943238 GTTCAGTGAAGCAAAGATAATGGAGAATGTGATTTCAACCTTACCAGAGAGGTATGAGGCAAAAA
131 GTTCAGTGAAGCAAAGATAATGGAGAAGGTGATTTCAACCTTACCAGAGAGGTATGAGGCAAAAA
*
63943303 TCTCATCTCTCGAAGACTCAAGGGATCTGACCAGTATTCCCTTAACAGAGCTCATTAATGCTCTA
196 TCTCATCTCTCGAAGACTCAAGGGATCTGACCAGCATTCCCTTAACAGAGCTCATTAATGCTCTA
*
63943368 TATGCACCAGAGCAGAGAAGAGCTAG
261 TATGCACAAGAGCAGAGAAGAGCTAG
*
63943394 CAAGGCAGCAACAATTGTTGAACTTGAGGAGAGACTTTGAGAATTTGAAGATGAAGGAAGAAGAA
1 CAAGGCAGCAACAATTGTTGAACTTGAGGAGAGACTTTGAGAATTTGAAGATGAAGGAAGAAAAA
63943459 ACTGTCAAGCAGTATTTTGACAGGATTATGGCTGTGGTAAACAACATAAAGCTCATTGGTGAGCA
66 ACTGTCAAGCAGTATTTTGACAGGATTATGGCTGTGGTAAACAACATAAAGCTCATTGGTGAGCA
*
63943524 GTTCAGTGAAGCAAAGATAGTGGAGAAGGTGATTTCAACCTTACCAGAGAGGTATGAGGCAAAAA
131 GTTCAGTGAAGCAAAGATAATGGAGAAGGTGATTTCAACCTTACCAGAGAGGTATGAGGCAAAAA
63943589 TCTCATCTCTCGAAGACTCAAGGGATCTGACCAGCATTCCCTTAACAGAGCTCATTAATGCTCTA
196 TCTCATCTCTCGAAGACTCAAGGGATCTGACCAGCATTCCCTTAACAGAGCTCATTAATGCTCTA
63943654 TATGCACAAGAGCAGAGAAGAGCTA
261 TATGCACAAGAGCAGAGAAGAGCTA
63943679 ACAGACTGGA
Statistics
Matches: 278, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
286 278 1.00
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (286 bp):
CAAGGCAGCAACAATTGTTGAACTTGAGGAGAGACTTTGAGAATTTGAAGATGAAGGAAGAAAAA
ACTGTCAAGCAGTATTTTGACAGGATTATGGCTGTGGTAAACAACATAAAGCTCATTGGTGAGCA
GTTCAGTGAAGCAAAGATAATGGAGAAGGTGATTTCAACCTTACCAGAGAGGTATGAGGCAAAAA
TCTCATCTCTCGAAGACTCAAGGGATCTGACCAGCATTCCCTTAACAGAGCTCATTAATGCTCTA
TATGCACAAGAGCAGAGAAGAGCTAG
Found at i:63948730 original size:42 final size:42
Alignment explanation
Indices: 63948683--63948769 Score: 97
Period size: 42 Copynumber: 2.1 Consensus size: 42
63948673 TGCAAGGAAC
63948683 CTGCAACATCTTCAGT-TGAGACTAGAGAATT-CTTGAGCTTAT
1 CTGCAACATCTTCA-TCTGAGACTAGAG-ATTCCTTGAGCTTAT
** * * *
63948725 CTGCAAGGTCTTCATCTGAGAGTTGAGATTCCTTGATCTTAT
1 CTGCAACATCTTCATCTGAGACTAGAGATTCCTTGAGCTTAT
63948767 CTG
1 CTG
63948770 GTATGGATAC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
41 4 0.11
42 34 0.89
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.36
Consensus pattern (42 bp):
CTGCAACATCTTCATCTGAGACTAGAGATTCCTTGAGCTTAT
Found at i:63949237 original size:16 final size:16
Alignment explanation
Indices: 63949213--63949244 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
63949203 TTTATGCATA
63949213 CTTTATTATCTTCATC
1 CTTTATTATCTTCATC
*
63949229 CTTTTTTATCTTCATC
1 CTTTATTATCTTCATC
63949245 TGTAGTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.25, G:0.00, T:0.59
Consensus pattern (16 bp):
CTTTATTATCTTCATC
Found at i:63957591 original size:4 final size:4
Alignment explanation
Indices: 63957584--63957618 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
63957574 TTATATATGT
*
63957584 ATGG ATGG ATAG ATGG ATGG ATGG ATGG ATGG ATG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATG
63957619 TGTGTGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.46, T:0.26
Consensus pattern (4 bp):
ATGG
Found at i:63958109 original size:12 final size:13
Alignment explanation
Indices: 63958092--63958175 Score: 81
Period size: 12 Copynumber: 6.9 Consensus size: 13
63958082 GAACGATCCA
63958092 ATATATA-ATATT
1 ATATATAGATATT
63958104 ATATATAGATA-T
1 ATATATAGATATT
*
63958116 AGATATAGATA-T
1 ATATATAGATATT
*
63958128 AGATATAGATA-T
1 ATATATAGATATT
*
63958140 AGATATAGATA-T
1 ATATATAGATATT
*
63958152 AGATATAGATA-T
1 ATATATAGATATT
*
63958164 AGATATAGATAT
1 ATATATAGATAT
63958176 AGATATCTGA
Statistics
Matches: 69, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
12 66 0.96
13 3 0.04
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (13 bp):
ATATATAGATATT
Found at i:63958117 original size:6 final size:6
Alignment explanation
Indices: 63958106--63958181 Score: 152
Period size: 6 Copynumber: 12.7 Consensus size: 6
63958096 ATAATATTAT
63958106 ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG
1 ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG
63958154 ATATAG ATATAG ATATAG ATATAG ATAT
1 ATATAG ATATAG ATATAG ATATAG ATAT
63958182 CTGACAACTG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 70 1.00
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (6 bp):
ATATAG
Found at i:63963723 original size:15 final size:16
Alignment explanation
Indices: 63963693--63963723 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
63963683 AATTTGTTGG
63963693 TTTATAATATATATTT
1 TTTATAATATATATTT
63963709 TTTATAATA-ATATTT
1 TTTATAATATATATTT
63963724 AAAGAGTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTATAATATATATTT
Found at i:63964113 original size:6 final size:6
Alignment explanation
Indices: 63964102--63964133 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
63964092 CTCATATTTT
63964102 TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TC
1 TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TC
63964134 CTTGTGTGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (6 bp):
TCTTCC
Found at i:63974086 original size:18 final size:18
Alignment explanation
Indices: 63974072--63974106 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
63974062 GTAATTAATT
63974072 TAAAATT-TTTAATTAAA
1 TAAAATTATTTAATTAAA
*
63974089 TAAATTTATTTAATTAAA
1 TAAAATTATTTAATTAAA
63974107 AACCTATTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAAATTATTTAATTAAA
Found at i:63982501 original size:18 final size:19
Alignment explanation
Indices: 63982468--63982505 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
63982458 AATTTTGTTT
*
63982468 ATAATTTTTATGATTTTAA
1 ATAATTTTTATAATTTTAA
63982487 ATAATTTTTA-AATTTTAA
1 ATAATTTTTATAATTTTAA
63982505 A
1 A
63982506 AGGGCTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
ATAATTTTTATAATTTTAA
Found at i:63983253 original size:191 final size:187
Alignment explanation
Indices: 63982911--63983287 Score: 551
Period size: 191 Copynumber: 2.0 Consensus size: 187
63982901 TTTCAAACTT
*
63982911 TTTTTTTGCATTCAATTGAGTATTAAAACTTTTAAAATGTATCAGAAAGGCCCTCAAAATTAAAA
1 TTTTTTTGCATTCAATTGAGTATTAAAACTTTTAAAATGTATCAAAAAGGCCCTCAAAATTAAAA
* * *
63982976 AAAGAAATGAAGCTCTTGCTTTTTTTTTGCACTCAATTGGTTACTTAAACTGCTAAAATGCATCA
66 AAAGAAATGAAGCTCTTGCTTTTTTTTTGCACTCAACTGGGTACTTAAACTACTAAAATGCATCA
* *
63983041 AAAAGGCCCTAAGATTTTTTCAAAAAATAAAAAATAAAAATTAAGCCCCTGCTTTTTTTA
131 AAAAGGCCCTAAGACTTTTTCAAAAAAT--AAAATAAAAATTAAGCCCCT-ATTTTTTTA
* **
63983101 TTTTTTTGCATTCAATTG-GATATTTAAACTTTTAAAATGTATCAAAAATTCCCTCAAAATTAAA
1 TTTTTTTGCATTCAATTGAG-TATTAAAACTTTTAAAATGTATCAAAAAGGCCCTCAAAATT--A
* * *
63983165 AAAAAAGCAATTAAGCTCTTGCTTTTTTTTT-CACTCAACTGGGTACTTGAACTACTAAAATGCA
63 AAAAAAGAAATGAAGCTCTTGCTTTTTTTTTGCACTCAACTGGGTACTTAAACTACTAAAATGCA
* * *
63983229 TCAAAAAGGCTCTCAGACTTTTTCAAAAAATAAAATAAAAATTAATCCCCTATTTTTTT
128 TCAAAAAGGCCCTAAGACTTTTTCAAAAAATAAAATAAAAATTAAGCCCCTATTTTTTT
63983288 CACTCAATTG
Statistics
Matches: 169, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
188 7 0.04
189 20 0.12
190 55 0.33
191 57 0.34
192 30 0.18
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (187 bp):
TTTTTTTGCATTCAATTGAGTATTAAAACTTTTAAAATGTATCAAAAAGGCCCTCAAAATTAAAA
AAAGAAATGAAGCTCTTGCTTTTTTTTTGCACTCAACTGGGTACTTAAACTACTAAAATGCATCA
AAAAGGCCCTAAGACTTTTTCAAAAAATAAAATAAAAATTAAGCCCCTATTTTTTTA
Found at i:63983490 original size:26 final size:27
Alignment explanation
Indices: 63983419--63983520 Score: 91
Period size: 27 Copynumber: 3.6 Consensus size: 27
63983409 AATAAAAATC
* *
63983419 AATAAAAGTTATAAAAATGATTAAATTTT
1 AATAAAA-ATATAAAAA-AATTAAATTTT
63983448 AATAAAAATATAAAAAAATTAAATTTT
1 AATAAAAATATAAAAAAATTAAATTTT
* * *
63983475 ATTAAAAAT-TAGAAAAATTGTAAA-ATT
1 AATAAAAATATA-AAAAAAT-TAAATTTT
63983502 ATATAAAAATCATAAAAAA
1 A-ATAAAAAT-ATAAAAAA
63983521 TATAAAATGC
Statistics
Matches: 62, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
26 2 0.03
27 27 0.44
28 19 0.31
29 12 0.19
30 2 0.03
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (27 bp):
AATAAAAATATAAAAAAATTAAATTTT
Found at i:63983526 original size:28 final size:28
Alignment explanation
Indices: 63983399--63983528 Score: 101
Period size: 28 Copynumber: 4.8 Consensus size: 28
63983389 AATTAAAAAT
*
63983399 AAATTAT-AAAAATA-AAAATCA-ATAA
1 AAATTATAAAAAATATAAAATTATATAA
* * *
63983424 AAGTTAT-AAAAATGATTAAATTTTAATAA
1 AAATTATAAAAAAT-ATAAAATTAT-ATAA
* *
63983453 AAA-TATAAAAAA-ATTAAATTTTATTAA
1 AAATTATAAAAAATATAAAATTATA-TAA
* * *
63983480 AAATTAGAAAAATTGTAAAATTATATAA
1 AAATTATAAAAAATATAAAATTATATAA
*
63983508 AAATCATAAAAAATATAAAAT
1 AAATTATAAAAAATATAAAAT
63983529 GCATGAAAAA
Statistics
Matches: 83, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
25 12 0.14
26 2 0.02
27 20 0.24
28 30 0.36
29 19 0.23
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.32
Consensus pattern (28 bp):
AAATTATAAAAAATATAAAATTATATAA
Found at i:63983845 original size:19 final size:18
Alignment explanation
Indices: 63983823--63983876 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
63983813 TTTTTTTACG
63983823 ATTTTTTGTAATTTTTAAT
1 ATTTTTT-TAATTTTTAAT
**
63983842 ATTTTTATTAAAATTTAAT
1 ATTTTT-TTAATTTTTAAT
*
63983861 AATTTTTATAATTTTT
1 -ATTTTTTTAATTTTT
63983877 TGACACATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
ATTTTTTTAATTTTTAAT
Found at i:63989507 original size:14 final size:14
Alignment explanation
Indices: 63989485--63989522 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
63989475 ACCTAAACCC
*
63989485 AAACCCTAAACTTT
1 AAACCCTAAACATT
*
63989499 AAACTCTAAACATT
1 AAACCCTAAACATT
63989513 AAACCCTAAA
1 AAACCCTAAA
63989523 TTTGGTCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (14 bp):
AAACCCTAAACATT
Found at i:63989582 original size:20 final size:20
Alignment explanation
Indices: 63989546--63989595 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
63989536 TTTAAGGTTT
*
63989546 GGGTTCAAGGTTTGAGTTCA
1 GGGTTCAAGGTTCGAGTTCA
*
63989566 GGGTTCAAGGTTCGAGTTTA
1 GGGTTCAAGGTTCGAGTTCA
*
63989586 GGATTCAAGG
1 GGGTTCAAGG
63989596 CTGAGGTTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.22, C:0.10, G:0.36, T:0.32
Consensus pattern (20 bp):
GGGTTCAAGGTTCGAGTTCA
Found at i:63993034 original size:38 final size:38
Alignment explanation
Indices: 63992983--63993059 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
63992973 CAGTCCAATC
*
63992983 GTTGAAACAAACTCAAATTTAGAAATGTCACTTTTGAA
1 GTTGAAACAAACTCAAATTTAAAAATGTCACTTTTGAA
*
63993021 GTTGAAATAAACTCAAATTTAAAAATGTCACTTTTGAA
1 GTTGAAACAAACTCAAATTTAAAAATGTCACTTTTGAA
63993059 G
1 G
63993060 GGGAAACTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (38 bp):
GTTGAAACAAACTCAAATTTAAAAATGTCACTTTTGAA
Found at i:63995105 original size:23 final size:23
Alignment explanation
Indices: 63995078--63995121 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
63995068 TAACTATCAT
*
63995078 TAAAATAATAAAGTAAA-TAAACA
1 TAAAAGAATAAAG-AAACTAAACA
63995101 TAAAAGAATAAAGAAACTAAA
1 TAAAAGAATAAAGAAACTAAA
63995122 AGAATAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.70, C:0.05, G:0.07, T:0.18
Consensus pattern (23 bp):
TAAAAGAATAAAGAAACTAAACA
Found at i:63995123 original size:17 final size:18
Alignment explanation
Indices: 63995091--63995134 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
63995081 AATAATAAAG
*
63995091 TAAATAAACATAAAAGAA
1 TAAAGAAACATAAAAGAA
63995109 TAAAGAAAC-TAAAAGAA
1 TAAAGAAACATAAAAGAA
63995126 TAAAAGAAA
1 T-AAAGAAA
63995135 GAAATGAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.73, C:0.05, G:0.09, T:0.14
Consensus pattern (18 bp):
TAAAGAAACATAAAAGAA
Found at i:63997939 original size:52 final size:48
Alignment explanation
Indices: 63997920--63998220 Score: 357
Period size: 46 Copynumber: 6.3 Consensus size: 48
63997910 TGACAAGTGG
* *
63997920 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
* **
63997966 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
* *
63998014 GTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 ----AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
63998064 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
63998116 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** * *
63998162 AAAGTGATAAGTGATAGCTTTAGCTACTCTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
63998208 AAAGTGATAAGTG
1 AAAGTGATAAGTG
63998221 GCTACACTTA
Statistics
Matches: 225, Mismatches: 18, Indels: 24
0.84 0.07 0.09
Matches are distributed among these distances:
46 140 0.62
52 85 0.38
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:63998023 original size:98 final size:98
Alignment explanation
Indices: 63997854--63998209 Score: 631
Period size: 98 Copynumber: 3.6 Consensus size: 98
63997844 TTTGAGTACT
*
63997854 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
63997919 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
63997952 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
63998017 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
63998050 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* *
63998115 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* * *
63998148 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACTCTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAA
63998210 AGTGATAAGT
Statistics
Matches: 248, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 248 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:63998231 original size:37 final size:37
Alignment explanation
Indices: 63998184--63998292 Score: 168
Period size: 37 Copynumber: 3.0 Consensus size: 37
63998174 GATAGCTTTA
*
63998184 GCTACTCTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
63998221 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
63998258 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
63998293 ATCATACGTA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.17
36 4 0.06
37 51 0.77
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.26
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:63999121 original size:21 final size:22
Alignment explanation
Indices: 63999093--63999156 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
63999083 GCTTTGCCAA
63999093 TCAGGCACTATATGTGTCGTAT
1 TCAGGCACTATATGTGTCGTAT
* **
63999115 T-AGGCACCACGTGTGTCGT-T
1 TCAGGCACTATATGTGTCGTAT
* *
63999135 TCAGGCACTTTATGTGTTGTAT
1 TCAGGCACTATATGTGTCGTAT
63999157 ACTGTTACTG
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 2 0.06
21 28 0.88
22 2 0.06
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.38
Consensus pattern (22 bp):
TCAGGCACTATATGTGTCGTAT
Found at i:64006033 original size:21 final size:21
Alignment explanation
Indices: 64006004--64006059 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 21
64005994 TTTTATTAAC
*
64006004 TTTTGTCTTTTTCTTAAATTT
1 TTTTTTCTTTTTCTTAAATTT
*
64006025 TTTTTTCTTTTT-TTAAGTTT
1 TTTTTTCTTTTTCTTAAATTT
* *
64006045 TATATT-TTTTTCTTA
1 TTTTTTCTTTTTCTTA
64006060 TTTTATTTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 5 0.17
20 14 0.47
21 11 0.37
ACGTcount: A:0.14, C:0.07, G:0.04, T:0.75
Consensus pattern (21 bp):
TTTTTTCTTTTTCTTAAATTT
Found at i:64006054 original size:9 final size:8
Alignment explanation
Indices: 64006024--64006085 Score: 52
Period size: 8 Copynumber: 7.4 Consensus size: 8
64006014 TTCTTAAATT
*
64006024 TTTTTTTC
1 TTTTTTTA
64006032 TTTTTTTAA
1 TTTTTTT-A
* *
64006041 GTTTTATA
1 TTTTTTTA
*
64006049 TTTTTTTC
1 TTTTTTTA
*
64006057 TTATTTTA
1 TTTTTTTA
64006065 TTTTGTTTA
1 TTTT-TTTA
64006074 TTTTATTTA
1 TTTT-TTTA
64006083 TTT
1 TTT
64006086 ATTGTTGTTA
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
8 22 0.52
9 20 0.48
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (8 bp):
TTTTTTTA
Found at i:64006184 original size:32 final size:33
Alignment explanation
Indices: 64006146--64006214 Score: 106
Period size: 32 Copynumber: 2.1 Consensus size: 33
64006136 ATATATATAT
64006146 TTTTTAAAATTTTAAATATTATTGTT-AA-ATTA
1 TTTTTAAAATTTTAAATATTATT-TTGAATATTA
*
64006178 TTTTTAAAATTTTGAATATTATTTTGAATATTA
1 TTTTTAAAATTTTAAATATTATTTTGAATATTA
64006211 TTTT
1 TTTT
64006215 GAATAAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 2 0.06
32 24 0.71
33 8 0.24
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.59
Consensus pattern (33 bp):
TTTTTAAAATTTTAAATATTATTTTGAATATTA
Found at i:64006201 original size:12 final size:12
Alignment explanation
Indices: 64006154--64006219 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
64006144 ATTTTTTAAA
*
64006154 ATTTTAAATATT
1 ATTTTGAATATT
64006166 ATTGTT-AA-ATT
1 ATT-TTGAATATT
*
64006177 ATTTTTAA-A--
1 ATTTTGAATATT
64006186 ATTTTGAATATT
1 ATTTTGAATATT
64006198 ATTTTGAATATT
1 ATTTTGAATATT
64006210 ATTTTGAATA
1 ATTTTGAATA
64006220 AATAAAATAA
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
9 7 0.15
10 3 0.06
11 9 0.19
12 27 0.56
13 2 0.04
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (12 bp):
ATTTTGAATATT
Found at i:64006217 original size:24 final size:24
Alignment explanation
Indices: 64006154--64006219 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 24
64006144 ATTTTTTAAA
64006154 ATTTTAAATATTATTGTT-AA-ATT
1 ATTTTAAATATTATT-TTGAATATT
*
64006177 ATTTTTAA-A--ATTTTGAATATT
1 ATTTTAAATATTATTTTGAATATT
*
64006198 ATTTTGAATATTATTTTGAATA
1 ATTTTAAATATTATTTTGAATA
64006220 AATAAAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 10 0.28
22 2 0.06
23 7 0.19
24 10 0.28
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (24 bp):
ATTTTAAATATTATTTTGAATATT
Found at i:64006280 original size:20 final size:21
Alignment explanation
Indices: 64006257--64006299 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
64006247 AGAAAAATAT
64006257 AAAACTTAAAAAAAAAGA-AA
1 AAAACTTAAAAAAAAAGACAA
* *
64006277 AAAATTTAAAGAAAAAGACAA
1 AAAACTTAAAAAAAAAGACAA
64006298 AA
1 AA
64006300 GTAAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.77, C:0.05, G:0.07, T:0.12
Consensus pattern (21 bp):
AAAACTTAAAAAAAAAGACAA
Found at i:64009436 original size:39 final size:40
Alignment explanation
Indices: 64009359--64009436 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 40
64009349 CTATAAGGGA
* * *
64009359 ACATATATATATACATATAATATTGTTACAACTTATATAG
1 ACATATACATATACATATAAGATTGTTACAACTGATATAG
**
64009399 ACATATACATATA-ATATAAGATTGTTGGAACTGATATA
1 ACATATACATATACATATAAGATTGTTACAACTGATATA
64009437 TATATGTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 21 0.64
40 12 0.36
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.37
Consensus pattern (40 bp):
ACATATACATATACATATAAGATTGTTACAACTGATATAG
Found at i:64010800 original size:12 final size:12
Alignment explanation
Indices: 64010759--64010802 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
64010749 AGAAGAAATA
*
64010759 AAAGAGGAGAAG
1 AAAGATGAGAAG
*
64010771 AAAGAAGAGAAG
1 AAAGATGAGAAG
64010783 AAAGATGAGAAG
1 AAAGATGAGAAG
64010795 AAAGATGA
1 AAAGATGA
64010803 TGAAAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.61, C:0.00, G:0.34, T:0.05
Consensus pattern (12 bp):
AAAGATGAGAAG
Found at i:64012286 original size:16 final size:15
Alignment explanation
Indices: 64012261--64012290 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
64012251 TAAGATTCTC
64012261 TAATTAAAATTTTAA
1 TAATTAAAATTTTAA
64012276 TAATATAAAATTTTA
1 TAAT-TAAAATTTTA
64012291 GAAAGAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATTAAAATTTTAA
Found at i:64017998 original size:17 final size:17
Alignment explanation
Indices: 64017976--64018009 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
64017966 GATTGCTAAG
64017976 AAATAAAATTGAAATTC
1 AAATAAAATTGAAATTC
64017993 AAATAAAATTGAAATTC
1 AAATAAAATTGAAATTC
64018010 GATTTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (17 bp):
AAATAAAATTGAAATTC
Found at i:64018025 original size:11 final size:11
Alignment explanation
Indices: 64018011--64018052 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
64018001 TTGAAATTCG
64018011 ATTTTTTTATA
1 ATTTTTTTATA
64018022 ATTTTTTTATAA
1 ATTTTTTTAT-A
*
64018034 ATTTTGATTAT-
1 ATTTT-TTTATA
64018045 ATTTTTTT
1 ATTTTTTT
64018053 TGTTACACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 2 0.07
11 15 0.56
12 6 0.22
13 4 0.15
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (11 bp):
ATTTTTTTATA
Found at i:64026699 original size:18 final size:18
Alignment explanation
Indices: 64026666--64026718 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
64026656 ATTCACCTAA
*
64026666 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
64026685 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
64026703 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
64026719 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:64026824 original size:9 final size:9
Alignment explanation
Indices: 64026810--64026858 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
64026800 GTAGTGATTC
64026810 AATTCGGTT
1 AATTCGGTT
*
64026819 AATTCGGGT
1 AATTCGGTT
* *
64026828 AATCCGGGT
1 AATTCGGTT
64026837 AATTCGGTT
1 AATTCGGTT
64026846 AATTCGGTT
1 AATTCGGTT
64026855 AATT
1 AATT
64026859 TTTAACCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (9 bp):
AATTCGGTT
Found at i:64042801 original size:25 final size:24
Alignment explanation
Indices: 64042751--64042798 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
64042741 CATTCCATAA
* *
64042751 TTTTTCTTAATTTGGTATCTAAAT
1 TTTTTCTCAATTTGATATCTAAAT
64042775 TTTTTACTCAATTTGATATTCTAA
1 TTTTT-CTCAATTTGATA-TCTAA
64042799 TTTGACCCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 10 0.50
26 5 0.25
ACGTcount: A:0.27, C:0.10, G:0.06, T:0.56
Consensus pattern (24 bp):
TTTTTCTCAATTTGATATCTAAAT
Done.