Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 118 of 221
Found at i:36166034 original size:17 final size:18
Alignment explanation
Indices: 36165994--36166035 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
36165984 AAATGAAAAA
*
36165994 AGAAAAAAATAAATCGAG
1 AGAAAAAAAGAAATCGAG
**
36166012 TCAAAAAAAGAAAT-GAG
1 AGAAAAAAAGAAATCGAG
36166029 AGAAAAA
1 AGAAAAA
36166036 GAGGCAAGCT
Statistics
Matches: 19, Mismatches: 5, Indels: 1
0.76 0.20 0.04
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.69, C:0.05, G:0.17, T:0.10
Consensus pattern (18 bp):
AGAAAAAAAGAAATCGAG
Found at i:36168316 original size:22 final size:21
Alignment explanation
Indices: 36168290--36168332 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
36168280 GGGTAGAATT
*
36168290 GTAAATTAATAATAAAACTAAA
1 GTAAATTAATAAGAAAA-TAAA
36168312 GTAAATTAATAAGAAAATAAA
1 GTAAATTAATAAGAAAATAAA
36168333 CATTGTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (21 bp):
GTAAATTAATAAGAAAATAAA
Found at i:36169346 original size:20 final size:20
Alignment explanation
Indices: 36169321--36169360 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
36169311 GCTTGTATAG
**
36169321 ATTTGCACTTTGGTGCCTCT
1 ATTTGCACTTCAGTGCCTCT
36169341 ATTTGCACTTCAGTGCCTCT
1 ATTTGCACTTCAGTGCCTCT
36169361 GATCGCACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.12, C:0.28, G:0.17, T:0.42
Consensus pattern (20 bp):
ATTTGCACTTCAGTGCCTCT
Found at i:36173746 original size:62 final size:62
Alignment explanation
Indices: 36173641--36173759 Score: 186
Period size: 62 Copynumber: 1.9 Consensus size: 62
36173631 AAATCAGTAA
*
36173641 TCGCTCTACGACTGAGACCATCGGCCACCACATTGGCCATACCAGGATGATACTCTACCGTG
1 TCGCTCTACGACTAAGACCATCGGCCACCACATTGGCCATACCAGGATGATACTCTACCGTG
* * *
36173703 TCGCTCTACGACTAAGAGCATCGGCCACTACATTAGG-CTTACCAGGATGATACTCTA
1 TCGCTCTACGACTAAGACCATCGGCCACCACATT-GGCCATACCAGGATGATACTCTA
36173760 TCATGTACTC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
62 50 0.96
63 2 0.04
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (62 bp):
TCGCTCTACGACTAAGACCATCGGCCACCACATTGGCCATACCAGGATGATACTCTACCGTG
Found at i:36176239 original size:25 final size:25
Alignment explanation
Indices: 36176199--36176280 Score: 128
Period size: 25 Copynumber: 3.3 Consensus size: 25
36176189 GAGATTCATG
36176199 AACTCACGCCTACAAGCATCAACAT
1 AACTCACGCCTACAAGCATCAACAT
* * *
36176224 AGCTCGCGCCCACAAGCATCAACAT
1 AACTCACGCCTACAAGCATCAACAT
*
36176249 AACTCACACCTACAAGCATCAACAT
1 AACTCACGCCTACAAGCATCAACAT
36176274 AACTCAC
1 AACTCAC
36176281 ACCTTAGAAG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.39, C:0.38, G:0.09, T:0.15
Consensus pattern (25 bp):
AACTCACGCCTACAAGCATCAACAT
Found at i:36191706 original size:29 final size:29
Alignment explanation
Indices: 36191658--36191744 Score: 93
Period size: 29 Copynumber: 3.0 Consensus size: 29
36191648 ACCAATACGT
* * *
36191658 AGTACTTGATAAATATAACACTAGCACAA
1 AGTACCTGATAAATGTAACACCAGCACAA
* * *
36191687 AGTGCCTGATAACTGTAACACCAGTACAA
1 AGTACCTGATAAATGTAACACCAGCACAA
* *
36191716 AGTACCAGATAATTGTAATCACCAGCACA
1 AGTACCTGATAAATGTAA-CACCAGCACA
36191745 TTGTGTCTGA
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 38 0.81
30 9 0.19
ACGTcount: A:0.43, C:0.22, G:0.14, T:0.22
Consensus pattern (29 bp):
AGTACCTGATAAATGTAACACCAGCACAA
Found at i:36198130 original size:8 final size:8
Alignment explanation
Indices: 36198095--36198122 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
36198085 TTTTAAATGA
36198095 TATTTTAT
1 TATTTTAT
36198103 TATTTTAT
1 TATTTTAT
36198111 TATTTTAT
1 TATTTTAT
36198119 TATT
1 TATT
36198123 AATTTATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TATTTTAT
Found at i:36198208 original size:17 final size:17
Alignment explanation
Indices: 36198186--36198235 Score: 84
Period size: 17 Copynumber: 3.0 Consensus size: 17
36198176 TCATCTTCCA
36198186 TGCTTTCTTAACAATTT
1 TGCTTTCTTAACAATTT
36198203 TGCTTTCTTAACAA-TT
1 TGCTTTCTTAACAATTT
*
36198219 TGGTTTCTTAACAATTT
1 TGCTTTCTTAACAATTT
36198236 GGTCCTTCCT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 15 0.48
17 16 0.52
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (17 bp):
TGCTTTCTTAACAATTT
Found at i:36198225 original size:16 final size:16
Alignment explanation
Indices: 36198189--36198238 Score: 82
Period size: 16 Copynumber: 3.1 Consensus size: 16
36198179 TCTTCCATGC
*
36198189 TTTCTTAACAATTTTGC
1 TTTCTTAACAA-TTTGG
36198206 TTTCTTAACAATTTGG
1 TTTCTTAACAATTTGG
36198222 TTTCTTAACAATTTGG
1 TTTCTTAACAATTTGG
36198238 T
1 T
36198239 CCTTCCTCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 21 0.66
17 11 0.34
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.52
Consensus pattern (16 bp):
TTTCTTAACAATTTGG
Found at i:36200784 original size:101 final size:101
Alignment explanation
Indices: 36200664--36200848 Score: 311
Period size: 101 Copynumber: 1.8 Consensus size: 101
36200654 AAAGTGATGG
*
36200664 TCACGTGTGTAGTACTATGTCCAGGCTACTACGTGTATCGGAAT-G-ATGGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTCCAGGCTACTACGTGTATCGG-ATGGAAT-GGTCACATGTGTAGT
36200727 ACTATGTGCAGGCTACTATGCGTACCGAATGGCTTCGA
64 ACTATGTGCAGGCTACTATGCGTACCGAATGGCTTCGA
*
36200765 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGAAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTCCAGGCTACTACGTGTATCGGATGG-AATGGTCACATGTGTAGTA
36200830 CTATGTGCAGGCTACTATG
65 CTATGTGCAGGCTACTATG
36200849 TGAATCGGGT
Statistics
Matches: 79, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
100 2 0.03
101 41 0.52
102 34 0.43
103 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTCCAGGCTACTACGTGTATCGGATGGAATGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCGAATGGCTTCGA
Found at i:36200850 original size:26 final size:26
Alignment explanation
Indices: 36200770--36200850 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
36200760 TTCGATCACG
36200770 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * *
36200796 CGTGTA-T-CGGATG-GAAATGG-TCAC-A
1 TGTGTAGTAC-TATGTG-CA-GGCT-ACTA
36200821 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
36200847 TGTG
1 TGTG
36200851 AATCGGGTAC
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.40
26 20 0.50
27 2 0.05
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:36200856 original size:51 final size:50
Alignment explanation
Indices: 36200662--36200856 Score: 223
Period size: 51 Copynumber: 3.9 Consensus size: 50
36200652 TGAAAGTGAT
* * *
36200662 GGTCACGTGTGTAGTACTATGTCCAGGCTACTACGTGTATCGGAAT-GATG
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGG-ATGGATC
* * * * * *
36200712 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATGGCTTC
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGG-ATC
* *
36200763 GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGAAAT-
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGG--ATC
* *
36200814 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAATCGG
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGG
36200857 GTACCATTGA
Statistics
Matches: 120, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
49 2 0.02
50 37 0.31
51 80 0.67
52 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.30
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGATC
Found at i:36205277 original size:27 final size:27
Alignment explanation
Indices: 36205232--36205301 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
36205222 ATGTGACACG
* *
36205232 AAGGCGTCCCTTTACATAGATCACCACA
1 AAGGCTTCCATTT-CATAGATCACCACA
**
36205260 AAGGCTTCCATTTCATAGATTGCCACA
1 AAGGCTTCCATTTCATAGATCACCACA
*
36205287 AAGGCTTTCATTTCA
1 AAGGCTTCCATTTCA
36205302 CCGATGTGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 26 0.70
28 11 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
AAGGCTTCCATTTCATAGATCACCACA
Found at i:36208273 original size:27 final size:27
Alignment explanation
Indices: 36208211--36208275 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
36208201 TTCTTTCAAT
* * *
36208211 GTTCACCATACGCACTATTTCTTCAGA
1 GTTCACCATATGCAATATTCCTTCAGA
** *
36208238 GTTTTCCATATGTAATATTCCTTCAGA
1 GTTCACCATATGCAATATTCCTTCAGA
36208265 GTTCACCATAT
1 GTTCACCATAT
36208276 CTATCATTCT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.26, C:0.25, G:0.11, T:0.38
Consensus pattern (27 bp):
GTTCACCATATGCAATATTCCTTCAGA
Found at i:36208399 original size:28 final size:27
Alignment explanation
Indices: 36208359--36208412 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
36208349 AATGCACCAA
*
36208359 AAAAGCGTTCATTTCCATAGATTTCCAT
1 AAAAGCGTTCATTT-CAAAGATTTCCAT
36208387 AAAAGC-TTCCATTTCAAAGATTTCCA
1 AAAAGCGTT-CATTTCAAAGATTTCCA
36208413 CAAAGAATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.33
Consensus pattern (27 bp):
AAAAGCGTTCATTTCAAAGATTTCCAT
Found at i:36208457 original size:27 final size:27
Alignment explanation
Indices: 36208368--36208457 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 27
36208358 AAAAAGCGTT
* *
36208368 CATTTCCATAGATTTCCATAAAAGCTTC
1 CATTT-CATAGATTTCCACAAAGGCTTC
* **
36208396 CATTTCAAAGATTTCCACAAAGAATTC
1 CATTTCATAGATTTCCACAAAGGCTTC
* * * *
36208423 TATGTCATAGATTGCTACAAAGGCTTC
1 CATTTCATAGATTTCCACAAAGGCTTC
36208450 CATTTCAT
1 CATTTCAT
36208458 CGGCATGTTC
Statistics
Matches: 48, Mismatches: 14, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
27 43 0.90
28 5 0.10
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.34
Consensus pattern (27 bp):
CATTTCATAGATTTCCACAAAGGCTTC
Found at i:36210869 original size:66 final size:66
Alignment explanation
Indices: 36210694--36210858 Score: 188
Period size: 66 Copynumber: 2.5 Consensus size: 66
36210684 CAGGAACTTA
* * * * *
36210694 AGAAGACCAAATATCTCATTCTGGAGCTTGGGAGGACTCAATATCTCATTCAAGATCTTAGGATT
1 AGAAGACCTAATATCTCATTCAGGAGCTTGGGAAGACTCGATATCGCATTCAAGATCTTAGGATT
36210759 G
66 G
* * * * * * * *
36210760 AGAAGACATGATATCTCGTTTAGGAGATTCGAAAGACTCGATATCGCATTCAAGAGT-TTGGGAT
1 AGAAGACCTAATATCTCATTCAGGAGCTTGGGAAGACTCGATATCGCATTCAAGA-TCTTAGGAT
36210824 TG
65 TG
*
36210826 AGAAGACCTAATATCTCATTCAGGATCTTGGGA
1 AGAAGACCTAATATCTCATTCAGGAGCTTGGGA
36210859 CGATACGATA
Statistics
Matches: 77, Mismatches: 21, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
66 76 0.99
67 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.28
Consensus pattern (66 bp):
AGAAGACCTAATATCTCATTCAGGAGCTTGGGAAGACTCGATATCGCATTCAAGATCTTAGGATT
G
Found at i:36216367 original size:15 final size:15
Alignment explanation
Indices: 36216327--36216367 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
36216317 AAAAATTAAT
36216327 TTTTA-ATTATTATA
1 TTTTATATTATTATA
*
36216341 TTCTAT-TATATTATA
1 TTTTATAT-TATTATA
36216356 TTTTATATTATT
1 TTTTATATTATT
36216368 TCTCTCTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
14 5 0.23
15 16 0.73
16 1 0.05
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTTATATTATTATA
Found at i:36229615 original size:18 final size:19
Alignment explanation
Indices: 36229582--36229622 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
36229572 ATGTTCATAT
36229582 TTTTAAAATAATTTAATTA
1 TTTTAAAATAATTTAATTA
*
36229601 TTTTATAAT-ATTTAATTA
1 TTTTAAAATAATTTAATTA
36229619 TTTT
1 TTTT
36229623 TCGACAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTAAAATAATTTAATTA
Found at i:36229623 original size:19 final size:20
Alignment explanation
Indices: 36229579--36229637 Score: 68
Period size: 19 Copynumber: 3.0 Consensus size: 20
36229569 ATCATGTTCA
36229579 TATTTTTAAAATAATTTAAT
1 TATTTTTAAAATAATTTAAT
*
36229599 TA-TTTTATAAT-ATTTAAT
1 TATTTTTAAAATAATTTAAT
*
36229617 TATTTTTCGACAATAATTTAA
1 TATTTTT--AAAATAATTTAA
36229638 CCGAAATAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 9 0.27
19 12 0.36
20 2 0.06
21 4 0.12
22 6 0.18
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (20 bp):
TATTTTTAAAATAATTTAAT
Found at i:36231186 original size:57 final size:58
Alignment explanation
Indices: 36231106--36231236 Score: 178
Period size: 57 Copynumber: 2.3 Consensus size: 58
36231096 AGAAATGGTG
* *
36231106 AAATGAAGAATATGAAA-CATTTGGAAATGATTATGATTTTCTCCAAAATG-AAAATG-A
1 AAATGAA-AA-ATGAAATAATTTGGAAATGAATATGATTTTCTCCAAAATGAAAAATGAA
* *
36231163 AAATGCATAAATGAAATAATTTGGAAATGAATGTGATTTTCTCCAAAATGAAAAATGAA
1 AAATG-AAAAATGAAATAATTTGGAAATGAATATGATTTTCTCCAAAATGAAAAATGAA
36231222 AAATGAAAAATGAAA
1 AAATGAAAAATGAAA
36231237 AATGAAAAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
56 6 0.09
57 37 0.57
58 16 0.25
59 6 0.09
ACGTcount: A:0.51, C:0.06, G:0.15, T:0.27
Consensus pattern (58 bp):
AAATGAAAAATGAAATAATTTGGAAATGAATATGATTTTCTCCAAAATGAAAAATGAA
Found at i:36231302 original size:7 final size:7
Alignment explanation
Indices: 36231207--36231286 Score: 160
Period size: 7 Copynumber: 11.4 Consensus size: 7
36231197 GATTTTCTCC
36231207 AAAATGA
1 AAAATGA
36231214 AAAATGA
1 AAAATGA
36231221 AAAATGA
1 AAAATGA
36231228 AAAATGA
1 AAAATGA
36231235 AAAATGA
1 AAAATGA
36231242 AAAATGA
1 AAAATGA
36231249 AAAATGA
1 AAAATGA
36231256 AAAATGA
1 AAAATGA
36231263 AAAATGA
1 AAAATGA
36231270 AAAATGA
1 AAAATGA
36231277 AAAATGA
1 AAAATGA
36231284 AAA
1 AAA
36231287 TGACCTGAAA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 73 1.00
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AAAATGA
Found at i:36236730 original size:44 final size:44
Alignment explanation
Indices: 36236680--36237079 Score: 581
Period size: 44 Copynumber: 9.1 Consensus size: 44
36236670 CTGTTTAGGA
36236680 AGATAGGA-TCTACAATCTTCAACCTATTCCACTGCTGGTCAAGG
1 AGATAGGACT-TACAATCTTCAACCTATTCCACTGCTGGTCAAGG
* * * *
36236724 AGATAGGACTTGCAATCTACAACCTATTCCAATGCTGGTCAGGG
1 AGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTCAAGG
* *
36236768 AGATAGGACTTACAATCTTCAACCTATTTCACTGCTGGTCAGGG
1 AGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTCAAGG
*
36236812 AGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTCAGGG
1 AGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTCAAGG
* *
36236856 AGATAGGACTTACAATCTTCCACCTATTCCACTGCTAG-CAAGGG
1 AGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTCAA-GG
* ** * *
36236900 AGATAGAACTTGTAATCTTCAACCTATTGCACTACTGGTC-AGAG
1 AGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTCAAG-G
*
36236944 AGATAGGACTTACAATCTTCAACCTATCCCACTGCTGGTCAAGG
1 AGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTCAAGG
*
36236988 AGATAGGACTTACAATCTTCAACCTATCCCACTGCTGGTCAAGG
1 AGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTCAAGG
* * *
36237032 AGATAGGACTTACAATCTTCAACCTATTCCACTGTTGGCCAGGG
1 AGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTCAAGG
36237076 AGAT
1 AGAT
36237080 GAGGCTTTGT
Statistics
Matches: 322, Mismatches: 29, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
43 3 0.01
44 315 0.98
45 4 0.01
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (44 bp):
AGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTCAAGG
Found at i:36239310 original size:6 final size:6
Alignment explanation
Indices: 36239301--36239336 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
36239291 TGGCCTTTGC
36239301 TTTTCT TTTTCT TTTTCTT TTTTCTT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTC-T TTTTC-T TTTTCT TTTT
36239337 ATCATTTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 16 0.55
7 13 0.45
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTCT
Found at i:36239322 original size:7 final size:7
Alignment explanation
Indices: 36239301--36239336 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
36239291 TGGCCTTTGC
36239301 TTTTC-T
1 TTTTCTT
36239307 TTTTC-T
1 TTTTCTT
36239313 TTTTCTT
1 TTTTCTT
36239320 TTTTCTT
1 TTTTCTT
36239327 TTTTCTT
1 TTTTCTT
36239334 TTT
1 TTT
36239337 ATCATTTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 11 0.38
7 18 0.62
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTCTT
Found at i:36239324 original size:13 final size:12
Alignment explanation
Indices: 36239301--36239336 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
36239291 TGGCCTTTGC
36239301 TTTTCTTTTTCT
1 TTTTCTTTTTCT
36239313 TTTTCTTTTTTCTT
1 TTTTC-TTTTTC-T
36239327 TTTTCTTTTT
1 TTTTCTTTTT
36239337 ATCATTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.23
13 11 0.50
14 6 0.27
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTCTTTTTCT
Found at i:36239370 original size:19 final size:18
Alignment explanation
Indices: 36239348--36239396 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
36239338 TCATTTTCAT
36239348 ATTTTTTATTTTGACTT-TG
1 ATTTTTT-TTTTG-CTTCTG
36239367 ATTTTTGGTTTTTGCTTCTG
1 ATTTTT--TTTTTGCTTCTG
36239387 ATTTTTTTTT
1 ATTTTTTTTT
36239397 CGTTTTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 4 0.15
19 9 0.33
20 13 0.48
21 1 0.04
ACGTcount: A:0.10, C:0.06, G:0.12, T:0.71
Consensus pattern (18 bp):
ATTTTTTTTTTGCTTCTG
Found at i:36243885 original size:9 final size:9
Alignment explanation
Indices: 36243862--36243912 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
36243852 AATATTATCG
*
36243862 ATAATAGCA
1 ATAATAGTA
*
36243871 ACAATAGTA
1 ATAATAGTA
*
36243880 ATAATATTA
1 ATAATAGTA
*
36243889 ATAATAATA
1 ATAATAGTA
36243898 A-AAGTAGTA
1 ATAA-TAGTA
36243907 ATAATA
1 ATAATA
36243913 ATAGTGATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
8 2 0.06
9 30 0.88
10 2 0.06
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (9 bp):
ATAATAGTA
Found at i:36243896 original size:30 final size:29
Alignment explanation
Indices: 36243849--36243930 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 29
36243839 TATATAAGCG
36243849 AATAATATT-ATCGATAATAGCAACAATAGT
1 AATAATATTAAT-GATAATA-CAACAATAGT
* *
36243879 AATAATATTAATAATAATA-AA-AGTAGT
1 AATAATATTAATGATAATACAACAATAGT
* *
36243906 AATAATAATAGTGATAATACCAACA
1 AATAATATTAATGATAATA-CAACA
36243931 CAATGATCCT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
27 21 0.49
28 2 0.05
29 2 0.05
30 16 0.37
31 2 0.05
ACGTcount: A:0.55, C:0.07, G:0.09, T:0.29
Consensus pattern (29 bp):
AATAATATTAATGATAATACAACAATAGT
Found at i:36243917 original size:12 final size:12
Alignment explanation
Indices: 36243873--36243924 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
36243863 TAATAGCAAC
36243873 AATAGTAATAAT
1 AATAGTAATAAT
* *
36243885 ATTAATAATAAT
1 AATAGTAATAAT
36243897 AAAAGTAGTAATAAT
1 --AA-TAGTAATAAT
*
36243912 AATAGTGATAAT
1 AATAGTAATAAT
36243924 A
1 A
36243925 CCAACACAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
12 20 0.62
13 2 0.06
14 1 0.03
15 9 0.28
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.33
Consensus pattern (12 bp):
AATAGTAATAAT
Found at i:36260493 original size:28 final size:28
Alignment explanation
Indices: 36260461--36260518 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
36260451 TCTTTAATGA
36260461 GAGTAAACTGAAACTGTAGGGAGACCTT
1 GAGTAAACTGAAACTGTAGGGAGACCTT
36260489 GAGTAAACTGAAACTGTAGGGAGACCTT
1 GAGTAAACTGAAACTGTAGGGAGACCTT
36260517 GA
1 GA
36260519 TTTGCGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (28 bp):
GAGTAAACTGAAACTGTAGGGAGACCTT
Found at i:36262638 original size:27 final size:27
Alignment explanation
Indices: 36262608--36262681 Score: 121
Period size: 27 Copynumber: 2.7 Consensus size: 27
36262598 AGGTCAATAT
*
36262608 ATGATCGAAATACCCCTATAGGGTAAA
1 ATGATCGAAATACCCCCATAGGGTAAA
*
36262635 ATGATCTAAATACCCCCATAGGGTAAA
1 ATGATCGAAATACCCCCATAGGGTAAA
*
36262662 ATGACCGAAATACCCCCATA
1 ATGATCGAAATACCCCCATA
36262682 TACCCTCATA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.20
Consensus pattern (27 bp):
ATGATCGAAATACCCCCATAGGGTAAA
Found at i:36262694 original size:37 final size:37
Alignment explanation
Indices: 36262644--36262718 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
36262634 AATGATCTAA
*
36262644 ATACCCCCATAGGGTAAAATGACCGAAATACCCCCAT
1 ATACCCCCATAGGGTAAAATGACCAAAATACCCCCAT
*
36262681 ATACCCTCATAGGGTAAAATGACCAAAATACCCCCAT
1 ATACCCCCATAGGGTAAAATGACCAAAATACCCCCAT
36262718 A
1 A
36262719 GGATAAAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.40, C:0.31, G:0.12, T:0.17
Consensus pattern (37 bp):
ATACCCCCATAGGGTAAAATGACCAAAATACCCCCAT
Found at i:36262711 original size:27 final size:27
Alignment explanation
Indices: 36262681--36262915 Score: 278
Period size: 27 Copynumber: 8.8 Consensus size: 27
36262671 ATACCCCCAT
* * *
36262681 ATACCCTCATAGGGTAAAATGACCAAA
1 ATACCCCCATAGGGTAAAATGATCGAA
* *
36262708 ATACCCCCATAGGATAAAATGATTGAA
1 ATACCCCCATAGGGTAAAATGATCGAA
* *
36262735 ATACCCTCATAGGGTAAAACGATCGAA
1 ATACCCCCATAGGGTAAAATGATCGAA
* * *
36262762 ATA-CCACATAAGGTAAAATGA-CTAAA
1 ATACCCCCATAGGGTAAAATGATC-GAA
*
36262788 ATACCCTCATAGGGTAAAATGATCGAA
1 ATACCCCCATAGGGTAAAATGATCGAA
* * *
36262815 ATA-CACCATAGGGTAAAATAACCGAA
1 ATACCCCCATAGGGTAAAATGATCGAA
36262841 ATACCCCCATAGGGTAAAATGATCGAA
1 ATACCCCCATAGGGTAAAATGATCGAA
* **
36262868 ATACCCCCATAGAGTAGTATGATCGAA
1 ATACCCCCATAGGGTAAAATGATCGAA
*
36262895 ATACCACCATAGGGTAAAATG
1 ATACCCCCATAGGGTAAAATG
36262916 GCTGTTATAC
Statistics
Matches: 174, Mismatches: 30, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
25 1 0.01
26 42 0.24
27 130 0.75
28 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.20
Consensus pattern (27 bp):
ATACCCCCATAGGGTAAAATGATCGAA
Found at i:36262718 original size:64 final size:63
Alignment explanation
Indices: 36262621--36262745 Score: 187
Period size: 64 Copynumber: 2.0 Consensus size: 63
36262611 ATCGAAATAC
* * *
36262621 CCCTATAGGGTAAAATGATCTAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATATA
1 CCCTATAGGGTAAAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATACCCCCATATA
** *
36262684 CCCTCATAGGGTAAAATGACCAAAATACCCCCATAGGATAAAATGATTGAAATACCCTCATA
1 CCCT-ATAGGGTAAAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATACCCCCATA
36262746 GGGTAAAACG
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
63 4 0.07
64 51 0.93
ACGTcount: A:0.41, C:0.25, G:0.14, T:0.21
Consensus pattern (63 bp):
CCCTATAGGGTAAAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATACCCCCATATA
Found at i:36262802 original size:53 final size:53
Alignment explanation
Indices: 36262681--36262915 Score: 255
Period size: 53 Copynumber: 4.4 Consensus size: 53
36262671 ATACCCCCAT
* * * *
36262681 ATACCCTCATAGGGTAAAATGACCAAAATACCCCCAT-AGGATAAAATGATTGAA
1 ATACCCTCATAGGGTAAAATGATCGAAATA-CCACATAAGG-TAAAATGACTGAA
* *
36262735 ATACCCTCATAGGGTAAAACGATCGAAATACCACATAAGGTAAAATGACTAAA
1 ATACCCTCATAGGGTAAAATGATCGAAATACCACATAAGGTAAAATGACTGAA
* * *
36262788 ATACCCTCATAGGGTAAAATGATCGAAATA-CACCATAGGGTAAAATAACCGAA
1 ATACCCTCATAGGGTAAAATGATCGAAATACCA-CATAAGGTAAAATGACTGAA
* * **
36262841 ATACCCCCATAGGGTAAAATGATCGAAATACCCCCAT-AGAGTAGTATGA-TCGAA
1 ATACCCTCATAGGGTAAAATGATCGAAATA-CCACATAAG-GTAAAATGACT-GAA
36262895 ATACCAC-CATAGGGTAAAATG
1 ATACC-CTCATAGGGTAAAATG
36262916 GCTGTTATAC
Statistics
Matches: 156, Mismatches: 18, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
52 2 0.01
53 91 0.58
54 61 0.39
55 2 0.01
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.20
Consensus pattern (53 bp):
ATACCCTCATAGGGTAAAATGATCGAAATACCACATAAGGTAAAATGACTGAA
Found at i:36262857 original size:80 final size:80
Alignment explanation
Indices: 36262681--36262914 Score: 292
Period size: 80 Copynumber: 2.9 Consensus size: 80
36262671 ATACCCCCAT
* * * * *
36262681 ATACCCTCATAGGGTAAAATGACCAAAATACCCCCATAGGATAAAATGATTGAAATACCCTCATA
1 ATACCCACATAGGGTAAAATGACTAAAATACCCCCATAGGGTAAAATGATCGAAATACAC-CATA
** *
36262746 GGGTAAAACGATCGAA
65 GGGTAAAATAACCGAA
* *
36262762 ATA-CCACATAAGGTAAAATGACTAAAATACCCTCATAGGGTAAAATGATCGAAATACACCATAG
1 ATACCCACATAGGGTAAAATGACTAAAATACCCCCATAGGGTAAAATGATCGAAATACACCATAG
36262826 GGTAAAATAACCGAA
66 GGTAAAATAACCGAA
* * * **
36262841 ATACCCCCATAGGGTAAAATGA-TCGAAATACCCCCATAGAGTAGTATGATCGAAATACCACCAT
1 ATACCCACATAGGGTAAAATGACT-AAAATACCCCCATAGGGTAAAATGATCGAAATA-CACCAT
36262905 AGGGTAAAAT
64 AGGGTAAAAT
36262915 GGCTGTTATA
Statistics
Matches: 133, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
79 21 0.16
80 93 0.70
81 19 0.14
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.20
Consensus pattern (80 bp):
ATACCCACATAGGGTAAAATGACTAAAATACCCCCATAGGGTAAAATGATCGAAATACACCATAG
GGTAAAATAACCGAA
Found at i:36264572 original size:27 final size:27
Alignment explanation
Indices: 36264243--36264564 Score: 321
Period size: 27 Copynumber: 12.0 Consensus size: 27
36264233 GGGTATAACA
* * *
36264243 GTCATTTTACCCTAT-GGGGGCATTTTG
1 GTCATTTTACCC-ATCGAGGGTATTTCG
*
36264270 GTCATTTTACCCATC-AGGGGTATTTCA
1 GTCATTTTACCCATCGA-GGGTATTTCG
* * *
36264297 GTTATTTTACGCATCGGGGGTATTTCG
1 GTCATTTTACCCATCGAGGGTATTTCG
* * *
36264324 ATAATTTTACCCATCGAGGGTATTTCT
1 GTCATTTTACCCATCGAGGGTATTTCG
*
36264351 ATCATTTTACCCATC-AGGGTATTTCG
1 GTCATTTTACCCATCGAGGGTATTTCG
* * *
36264377 GTCATTTTACCTATTGAGGGTATTTCA
1 GTCATTTTACCCATCGAGGGTATTTCG
*
36264404 GTCATTTTACCCATCGAGGGTATTTTG
1 GTCATTTTACCCATCGAGGGTATTTCG
* * *
36264431 GTCATTTTACCCATCAAAGGTATTTCA
1 GTCATTTTACCCATCGAGGGTATTTCG
* *
36264458 GCCATTTTACCCATCGAGGATATTTCG
1 GTCATTTTACCCATCGAGGGTATTTCG
* * *
36264485 ATCATTTTACCTATCG-GGGATATTTCA
1 GTCATTTTACCCATCGAGGG-TATTTCG
* *
36264512 GTTATTTTACCCATTG-GAGGTATTTCG
1 GTCATTTTACCCATCGAG-GGTATTTCG
* * *
36264539 GCCATTTTACCCATTGGGGGTATTTC
1 GTCATTTTACCCATCGAGGGTATTTC
36264565 AATCATTTGC
Statistics
Matches: 244, Mismatches: 44, Indels: 14
0.81 0.15 0.05
Matches are distributed among these distances:
26 26 0.11
27 215 0.88
28 3 0.01
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCCATCGAGGGTATTTCG
Found at i:36265319 original size:29 final size:31
Alignment explanation
Indices: 36265261--36265320 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 31
36265251 GGAGAAAAGG
36265261 TTCGGCCAACAAGAAGAAAAGGGAAGAGAGA
1 TTCGGCCAACAAGAAGAAAAGGGAAGAGAGA
* *
36265292 TTCGGCCAA-AAGAA-AAAAGTGATGAGAGA
1 TTCGGCCAACAAGAAGAAAAGGGAAGAGAGA
36265321 AGAGAAACAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 13 0.48
30 5 0.19
31 9 0.33
ACGTcount: A:0.48, C:0.12, G:0.30, T:0.10
Consensus pattern (31 bp):
TTCGGCCAACAAGAAGAAAAGGGAAGAGAGA
Found at i:36271308 original size:27 final size:27
Alignment explanation
Indices: 36271277--36271454 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
36271267 TAAATTGTAC
36271277 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *** *
36271304 TGCACTAAGTGTGCGAAACGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36271330 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
36271358 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
36271386 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36271413 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
36271440 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
36271455 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:36271418 original size:82 final size:81
Alignment explanation
Indices: 36271278--36271433 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
36271268 AAATTGTACA
* *
36271278 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAACGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAAGTGT
36271343 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
*** *
36271359 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGAT-GCACTAAGT
*
36271423 GTGCGAGTTGA
64 GTGCGAATTGA
36271434 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:36271445 original size:82 final size:81
Alignment explanation
Indices: 36271274--36271454 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
36271264 GATTAAATTG
* *
36271274 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAACGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAA
36271339 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * *** *
36271355 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGAT-GCACT
* **
36271419 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
36271437 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
36271455 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:36274096 original size:28 final size:28
Alignment explanation
Indices: 36274057--36274110 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
36274047 TATCAGTACA
* *
36274057 GTGTAGGTCTTAGCCCATTACAGTAACT
1 GTGTAGGCCTTAGCCCAATACAGTAACT
36274085 GTGTAGGCCTTAGCCCAATACAGTAA
1 GTGTAGGCCTTAGCCCAATACAGTAA
36274111 TCAATGCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (28 bp):
GTGTAGGCCTTAGCCCAATACAGTAACT
Found at i:36274253 original size:26 final size:26
Alignment explanation
Indices: 36274223--36274292 Score: 131
Period size: 26 Copynumber: 2.7 Consensus size: 26
36274213 ACCAATATTA
36274223 CAGCAAAGCTGCCAGTAATAATGACG
1 CAGCAAAGCTGCCAGTAATAATGACG
*
36274249 TAGCAAAGCTGCCAGTAATAATGACG
1 CAGCAAAGCTGCCAGTAATAATGACG
36274275 CAGCAAAGCTGCCAGTAA
1 CAGCAAAGCTGCCAGTAA
36274293 CAGTATATGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAATAATGACG
Found at i:36274504 original size:27 final size:27
Alignment explanation
Indices: 36274474--36274757 Score: 154
Period size: 27 Copynumber: 10.5 Consensus size: 27
36274464 GGGTATAACA
*
36274474 GTCATTTTACCTTAT-GGGGGTACTTTG
1 GTCATTTTACC-CATCGGGGGTACTTTG
*
36274501 GTCATTTTACCCATCGGGGGTATTTTG
1 GTCATTTTACCCATCGGGGGTACTTTG
* * * *
36274528 ATTATTTTACCCATCAGTGGTA-TTTCG
1 GTCATTTTACCCATCGGGGGTACTTT-G
* ** * *
36274555 GTCATTTTACACATCAAGAGTA-TTTCA
1 GTCATTTTACCCATCGGGGGTACTTT-G
* * * *
36274582 ATCATTTTACCCGTCGAGGGTATTTTG
1 GTCATTTTACCCATCGGGGGTACTTTG
* *
36274609 GTTATTTTACCCATCGAGGGTA-TTTCG
1 GTCATTTTACCCATCGGGGGTACTTT-G
* * **
36274636 ATCATTTTATCCATCGAAGGTA-TTTCG
1 GTCATTTTACCCATCGGGGGTACTTT-G
* * *
36274663 ATCATTTTACCCATCGAGGGTA-TTTCA
1 GTCATTTTACCCATCGGGGGTACTTT-G
* *
36274690 GTCATTTTATCCATCGGGGGGTA-TTTCA
1 GTCATTTTACCCATC-GGGGGTACTTT-G
* ** *
36274718 ATCATTTTACCCATCAAGGGTA-TTTCA
1 GTCATTTTACCCATCGGGGGTACTTT-G
36274745 GTCA-TTTACCCAT
1 GTCATTTTACCCAT
36274758 GAAATCCAGG
Statistics
Matches: 215, Mismatches: 37, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
26 17 0.08
27 171 0.80
28 27 0.13
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCCATCGGGGGTACTTTG
Found at i:36274535 original size:54 final size:55
Alignment explanation
Indices: 36274475--36274755 Score: 267
Period size: 54 Copynumber: 5.2 Consensus size: 55
36274465 GGTATAACAG
* * * *
36274475 TCATTTTACCTTAT-GGGGGTACTTT-GGTCATTTTACCCATCGGGGGTATTTTGA
1 TCATTTTACCCTATCGAGGGTA-TTTCGGTCATTTTACCCATCGAGGGTATTTCGA
* * * * *
36274529 TTATTTTACCC-ATC-AGTGGTATTTCGGTCATTTTACACATCAAGAGTATTTCAA
1 TCATTTTACCCTATCGAG-GGTATTTCGGTCATTTTACCCATCGAGGGTATTTCGA
* * *
36274583 TCATTTTACCC-GTCGAGGGTATTTTGGTTATTTTACCCATCGAGGGTATTTCGA
1 TCATTTTACCCTATCGAGGGTATTTCGGTCATTTTACCCATCGAGGGTATTTCGA
* * *
36274637 TCATTTTATCC-ATCGAAGGTATTTCGATCATTTTACCCATCGAGGGTATTTC-A
1 TCATTTTACCCTATCGAGGGTATTTCGGTCATTTTACCCATCGAGGGTATTTCGA
* * ** *
36274690 GTCATTTTATCC-ATCGGGGGGTATTTCAATCATTTTACCCATCAAGGGTATTTC-A
1 -TCATTTTACCCTATC-GAGGGTATTTCGGTCATTTTACCCATCGAGGGTATTTCGA
36274745 GTCA-TTTACCC
1 -TCATTTTACCC
36274756 ATGAAATCCA
Statistics
Matches: 193, Mismatches: 28, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
53 7 0.04
54 145 0.75
55 41 0.21
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (55 bp):
TCATTTTACCCTATCGAGGGTATTTCGGTCATTTTACCCATCGAGGGTATTTCGA
Found at i:36274603 original size:81 final size:79
Alignment explanation
Indices: 36274502--36274757 Score: 311
Period size: 81 Copynumber: 3.2 Consensus size: 79
36274492 GGTACTTTGG
* *
36274502 TCATTTTACCCATCGGGGGTATTTTGATTATTTTACCCATC-AGTGGTATTTCGGTCATTTTACA
1 TCATTTTACCCATCGAGGGTATTTTGATTATTTTACCCATCGAG-GGTATTTCGATCATTTTAC-
36274566 CATCAAGAGTATTTCAA
64 CATCAAG-GTATTTCAA
* *
36274583 TCATTTTACCCGTCGAGGGTATTTTGGTTATTTTACCCATCGAGGGTATTTCGATCATTTTATCC
1 TCATTTTACCCATCGAGGGTATTTTGATTATTTTACCCATCGAGGGTATTTCGATCATTTTA-CC
*
36274648 ATCGAAGGTATTTCGA
65 ATC-AAGGTATTTCAA
* * * * *
36274664 TCATTTTACCCATCGAGGGTA-TTTCAGTCATTTTATCCATCGGGGGGTATTTCAATCATTTTAC
1 TCATTTTACCCATCGAGGGTATTTTGA-TTATTTTACCCATC-GAGGGTATTTCGATCATTTTA-
*
36274728 CCATCAAGGGTATTTCAG
63 CCATCAA-GGTATTTCAA
36274746 TCA-TTTACCCAT
1 TCATTTTACCCAT
36274758 GAAATCCAGG
Statistics
Matches: 154, Mismatches: 15, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
80 3 0.02
81 110 0.71
82 41 0.27
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (79 bp):
TCATTTTACCCATCGAGGGTATTTTGATTATTTTACCCATCGAGGGTATTTCGATCATTTTACCA
TCAAGGTATTTCAA
Found at i:36280775 original size:17 final size:18
Alignment explanation
Indices: 36280742--36280778 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
36280732 TGTCACTATG
36280742 TATTTTGAAATTAAAAAA
1 TATTTTGAAATTAAAAAA
36280760 TATTTT-AAATGTAAAAAA
1 TATTTTGAAAT-TAAAAAA
36280778 T
1 T
36280779 GTGATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (18 bp):
TATTTTGAAATTAAAAAA
Found at i:36287906 original size:20 final size:19
Alignment explanation
Indices: 36287867--36287933 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 19
36287857 CAACACAATG
*
36287867 AAAATAAAATAAAATAAAC
1 AAAATAAAATAAAAGAAAC
*
36287886 AAAATAACAATAAAAGCAAC
1 AAAATAA-AATAAAAGAAAC
* *
36287906 AAAACTTAAAA-AAATGAAAG
1 AAAA--TAAAATAAAAGAAAC
36287926 AAAATAAA
1 AAAATAAA
36287934 GAACTTTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
18 4 0.10
19 7 0.17
20 24 0.60
21 2 0.05
22 3 0.08
ACGTcount: A:0.75, C:0.07, G:0.04, T:0.13
Consensus pattern (19 bp):
AAAATAAAATAAAAGAAAC
Found at i:36295442 original size:16 final size:16
Alignment explanation
Indices: 36295418--36295452 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
36295408 ACTTAGGTTT
*
36295418 AAACTGGACCTAGTCG
1 AAACCGGACCTAGTCG
*
36295434 AAACCGGACCTATTCG
1 AAACCGGACCTAGTCG
36295450 AAA
1 AAA
36295453 GGAACAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.37, C:0.26, G:0.20, T:0.17
Consensus pattern (16 bp):
AAACCGGACCTAGTCG
Found at i:36296307 original size:25 final size:26
Alignment explanation
Indices: 36296243--36296319 Score: 93
Period size: 25 Copynumber: 2.9 Consensus size: 26
36296233 CATCCCGACC
** *
36296243 CACAGCTCGTGTGAGCAGACCAAATTT
1 CACAGCTCGTGTGAGCA-ATTATATTT
*
36296270 CACAGCTCATGTGAGCAATTATATTT
1 CACAGCTCGTGTGAGCAATTATATTT
36296296 -ACAGCTCGTGTGAGCAATTTATAT
1 CACAGCTCGTGTGAGCAA-TTATAT
36296320 CCAGTGTATT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
25 16 0.36
26 12 0.27
27 16 0.36
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAATTATATTT
Found at i:36301490 original size:14 final size:15
Alignment explanation
Indices: 36301464--36301492 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
36301454 ATTGAGTAAA
36301464 TTAATTAAATTCATT
1 TTAATTAAATTCATT
36301479 TTAATT-AATTCATT
1 TTAATTAAATTCATT
36301493 AACTAATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (15 bp):
TTAATTAAATTCATT
Found at i:36314894 original size:39 final size:39
Alignment explanation
Indices: 36314843--36314975 Score: 194
Period size: 39 Copynumber: 3.4 Consensus size: 39
36314833 TCGTAGATAA
* *
36314843 CTGTTGTACTTCGGTACCCGTGTTTGCACATACGTGCCC
1 CTGTTGTTCTTCGGTACCCCTGTTTGCACATACGTGCCC
* * *
36314882 CTATTGTTCTTCGATACCCCTGTTTGTACATACGTGCCC
1 CTGTTGTTCTTCGGTACCCCTGTTTGCACATACGTGCCC
* *
36314921 CTGTTGTTCTTCGGTACCCCTATTCGCACATACGTGCCC
1 CTGTTGTTCTTCGGTACCCCTGTTTGCACATACGTGCCC
*
36314960 CTGTTGTGCTTCGGTA
1 CTGTTGTTCTTCGGTA
36314976 ACATTTATTA
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.13, C:0.31, G:0.20, T:0.36
Consensus pattern (39 bp):
CTGTTGTTCTTCGGTACCCCTGTTTGCACATACGTGCCC
Found at i:36314921 original size:20 final size:20
Alignment explanation
Indices: 36314863--36314964 Score: 59
Period size: 20 Copynumber: 5.2 Consensus size: 20
36314853 TCGGTACCCG
*
36314863 TGTTTGCACATACGTGCCCC
1 TGTTTGTACATACGTGCCCC
* * * *
36314883 T-ATTGTTC-TTCGATACCCC
1 TGTTTGTACATACG-TGCCCC
36314902 TGTTTGTACATACGTGCCCC
1 TGTTTGTACATACGTGCCCC
* * *
36314922 TG-TTGTTC-TTCGGTACCCC
1 TGTTTGTACATAC-GTGCCCC
* * *
36314941 TATTCGCACATACGTGCCCC
1 TGTTTGTACATACGTGCCCC
36314961 TGTT
1 TGTT
36314965 GTGCTTCGGT
Statistics
Matches: 57, Mismatches: 19, Indels: 12
0.65 0.22 0.14
Matches are distributed among these distances:
18 5 0.09
19 22 0.39
20 25 0.44
21 5 0.09
ACGTcount: A:0.14, C:0.32, G:0.18, T:0.36
Consensus pattern (20 bp):
TGTTTGTACATACGTGCCCC
Found at i:36314940 original size:19 final size:19
Alignment explanation
Indices: 36314879--36314941 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
36314869 CACATACGTG
* *
36314879 CCCCTATTGTTCTTCGATA
1 CCCCTGTTGTTCTTCGGTA
* * *
36314898 CCCCTGTTTGTACATAC-GTG
1 CCCCTG-TTGTTC-TTCGGTA
36314918 CCCCTGTTGTTCTTCGGTA
1 CCCCTGTTGTTCTTCGGTA
36314937 CCCCT
1 CCCCT
36314942 ATTCGCACAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 2 0.06
19 17 0.52
20 12 0.36
21 2 0.06
ACGTcount: A:0.11, C:0.35, G:0.16, T:0.38
Consensus pattern (19 bp):
CCCCTGTTGTTCTTCGGTA
Found at i:36320735 original size:50 final size:50
Alignment explanation
Indices: 36320660--36320754 Score: 181
Period size: 50 Copynumber: 1.9 Consensus size: 50
36320650 CCAATCTTCC
36320660 GAATTCGATAGGAATAGATTAAAGGAGGATAGGATTTTGATTTACAGATT
1 GAATTCGATAGGAATAGATTAAAGGAGGATAGGATTTTGATTTACAGATT
*
36320710 GAATTCGATGGGAATAGATTAAAGGAGGATAGGATTTTGATTTAC
1 GAATTCGATAGGAATAGATTAAAGGAGGATAGGATTTTGATTTAC
36320755 TGGAAAGAGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.32
Consensus pattern (50 bp):
GAATTCGATAGGAATAGATTAAAGGAGGATAGGATTTTGATTTACAGATT
Found at i:36326108 original size:21 final size:21
Alignment explanation
Indices: 36326067--36326112 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
36326057 GTGTCTTTGC
* *
36326067 CACATGACTGTGTGCCACTTT
1 CACATGACTGTATGACACTTT
36326088 CACATGACTGTATAGAC-CTTT
1 CACATGACTGTAT-GACACTTT
36326109 CACA
1 CACA
36326113 CGACCCAGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.30
Consensus pattern (21 bp):
CACATGACTGTATGACACTTT
Found at i:36326679 original size:37 final size:37
Alignment explanation
Indices: 36326607--36326692 Score: 95
Period size: 37 Copynumber: 2.3 Consensus size: 37
36326597 TCCACATTTT
* *
36326607 TGGTGTGTAGGATGGATGGGCCTATCATGGTCCTATG
1 TGGTGTGTAGGATGGATGGGCCTATCATAGCCCTATG
*
36326644 TGGTGT-TCAGGATGGATGGGCTTA-CTATAGCCCTATTG
1 TGGTGTGT-AGGATGGATGGGCCTATC-ATAGCCCTA-TG
*
36326682 TTGTGTGTAGG
1 TGGTGTGTAGG
36326693 GTGGTTGGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
36 2 0.05
37 28 0.68
38 10 0.24
39 1 0.02
ACGTcount: A:0.16, C:0.13, G:0.36, T:0.35
Consensus pattern (37 bp):
TGGTGTGTAGGATGGATGGGCCTATCATAGCCCTATG
Found at i:36332883 original size:16 final size:16
Alignment explanation
Indices: 36332862--36332895 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
36332852 AAAGGAAAAT
36332862 AAGTGAAATA-AAATGA
1 AAGTGAAA-AGAAATGA
36332878 AAGTGAAAAGAAATGA
1 AAGTGAAAAGAAATGA
36332894 AA
1 AA
36332896 CATTTCATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 16 0.94
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.15
Consensus pattern (16 bp):
AAGTGAAAAGAAATGA
Found at i:36333904 original size:15 final size:16
Alignment explanation
Indices: 36333877--36333910 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
36333867 ACAATTTTGT
36333877 AAATAAAATTAAATTA
1 AAATAAAATTAAATTA
36333893 AAATAAAA-TAAATTA
1 AAATAAAATTAAATTA
36333908 AAA
1 AAA
36333911 GAAATAAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATAAAATTAAATTA
Found at i:36334934 original size:35 final size:35
Alignment explanation
Indices: 36334840--36334956 Score: 119
Period size: 35 Copynumber: 3.3 Consensus size: 35
36334830 ACTCTTTGTT
* *
36334840 TTGGTGTGTTTC-AATTGGACTAGCTATTATGAGCA
1 TTGGTGTGTTTCGGA-TGGACTAGCTCTTATGAGCA
** * * *
36334875 TTATTGTGTTTTGGAGGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTTCGGATGGACTAGCTCTTATGAGCA
* *
36334910 TTGGTGTGTTTCGGATCGACTAGCTCTTACGAGCA
1 TTGGTGTGTTTCGGATGGACTAGCTCTTATGAGCA
*
36334945 TCTGATGTGTTT
1 T-TGGTGTGTTT
36334957 GGCTAGTTTG
Statistics
Matches: 65, Mismatches: 15, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
35 55 0.85
36 10 0.15
ACGTcount: A:0.19, C:0.13, G:0.27, T:0.41
Consensus pattern (35 bp):
TTGGTGTGTTTCGGATGGACTAGCTCTTATGAGCA
Found at i:36349478 original size:11 final size:11
Alignment explanation
Indices: 36349450--36349481 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
36349440 GTGTTTAAAG
*
36349450 AATTTGATTTA
1 AATTTGGTTTA
36349461 AATTTGGTTTA
1 AATTTGGTTTA
36349472 AATTTGGTTT
1 AATTTGGTTT
36349482 TATATAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (11 bp):
AATTTGGTTTA
Found at i:36349652 original size:16 final size:16
Alignment explanation
Indices: 36349633--36349663 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36349623 CGCTGTAATA
*
36349633 GAATAGAAGTGTAAAG
1 GAATAGAAGCGTAAAG
36349649 GAATAGAAGCGTAAA
1 GAATAGAAGCGTAAA
36349664 AGTAATTTAA
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:0.52, C:0.03, G:0.29, T:0.16
Consensus pattern (16 bp):
GAATAGAAGCGTAAAG
Found at i:36356311 original size:40 final size:40
Alignment explanation
Indices: 36356128--36356297 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
36356118 TCCTCGTTCA
* * * ** *
36356128 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
36356167 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
36356207 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * *
36356247 AATGCCTTCGGGAGTTAACCCGGATTTAATATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
36356287 AAGGCCTTCGG
1 AATGCCTTCGG
36356298 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 34 0.29
40 85 0.71
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:36356334 original size:80 final size:79
Alignment explanation
Indices: 36356164--36356350 Score: 207
Period size: 80 Copynumber: 2.3 Consensus size: 79
36356154 TAGTAACTCA
* * *
36356164 CACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCG
1 CACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCG
* *
36356229 GATTTAACAACTCG
66 GATATAACAACTAG
* * * **
36356243 CACGAATGCCTTCGGGAGTTAACCCGGATTTAATATCTCGCACAAAGGCCTTC-GGATCTTAGTC
1 CAC-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACC
*
36356307 CGGATATATTC-ACTTAG
64 CGGATATA-ACAAC-TAG
* *
36356324 CACAAAGCCTTCGGGACTTAGCCCGGA
1 CACAATGCCTTCGGGACTTAACCCGGA
36356351 CAGCATTCAA
Statistics
Matches: 90, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
79 6 0.07
80 78 0.87
81 6 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
CACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCG
GATATAACAACTAG
Found at i:36356359 original size:41 final size:41
Alignment explanation
Indices: 36356282--36356359 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
36356272 TTAATATCTC
* * *
36356282 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
36356323 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
36356360 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:36358031 original size:30 final size:30
Alignment explanation
Indices: 36357995--36358055 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
36357985 CCTCAAAAAT
36357995 GAATGTCATTAAAAAGGTCCACTAGAGAAA
1 GAATGTCATTAAAAAGGTCCACTAGAGAAA
36358025 GAATGTCATTAAAAAGGTCCACTAGAGAAA
1 GAATGTCATTAAAAAGGTCCACTAGAGAAA
36358055 G
1 G
36358056 TATTATAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.20
Consensus pattern (30 bp):
GAATGTCATTAAAAAGGTCCACTAGAGAAA
Found at i:36360128 original size:41 final size:41
Alignment explanation
Indices: 36360076--36360169 Score: 125
Period size: 41 Copynumber: 2.3 Consensus size: 41
36360066 GTGTTTTTCT
* * *
36360076 TATAAATGCCACAAAAGGTAAAGCAATAGCGGCGTTTCTCC
1 TATAAACGCCACAAAAGATAAAGCAATAGAGGCGTTTCTCC
* *
36360117 TATAAACGCCACCAAAGATAAAGCAATAGAGGCGTTTTTCC
1 TATAAACGCCACAAAAGATAAAGCAATAGAGGCGTTTCTCC
* *
36360158 CATAAACACCAC
1 TATAAACGCCAC
36360170 GAATTTTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.20
Consensus pattern (41 bp):
TATAAACGCCACAAAAGATAAAGCAATAGAGGCGTTTCTCC
Found at i:36362973 original size:20 final size:20
Alignment explanation
Indices: 36362927--36362973 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
36362917 AGCTCGTTTC
*
36362927 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
36362947 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
36362967 CAGCTCA
1 CAGCTCA
36362974 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:36365119 original size:17 final size:18
Alignment explanation
Indices: 36365086--36365120 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
36365076 GTGTGGTTCA
*
36365086 CTCGTGTGGGCCTACAAG
1 CTCGTGTGGGCCCACAAG
36365104 CTCGTGT-GGCCCACAAG
1 CTCGTGTGGGCCCACAAG
36365121 GCCCAATTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.17, C:0.31, G:0.31, T:0.20
Consensus pattern (18 bp):
CTCGTGTGGGCCCACAAG
Found at i:36366917 original size:14 final size:15
Alignment explanation
Indices: 36366888--36366920 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
36366878 TTCTATGAAC
36366888 TTTTTATATTTATAT
1 TTTTTATATTTATAT
*
36366903 TTTTTAT-TTTTTAT
1 TTTTTATATTTATAT
36366917 TTTT
1 TTTT
36366921 ATAATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTATATTTATAT
Found at i:36367452 original size:13 final size:13
Alignment explanation
Indices: 36367434--36367474 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
36367424 GGTTGACAAT
36367434 ATATTTGTAACTA
1 ATATTTGTAACTA
36367447 ATATTTGTAACTA
1 ATATTTGTAACTA
*
36367460 ACT-TTTGTAATTA
1 A-TATTTGTAACTA
36367473 AT
1 AT
36367475 TAGGTCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 1 0.04
13 24 0.92
14 1 0.04
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (13 bp):
ATATTTGTAACTA
Found at i:36370653 original size:220 final size:220
Alignment explanation
Indices: 36370275--36370930 Score: 1149
Period size: 220 Copynumber: 3.0 Consensus size: 220
36370265 TGAACTATCC
* *
36370275 AATATAATGAAAGCTATTTGTGGCAAAGTTTTGATTGTTGAAGAACTTGAGAAAGTACTAGATC-
1 AATATAATGAATGCTATTTGTGGCAAAGTTTTGATTGTTGAAGAACTTGAGAAAGTACAAGATCA
*
36370339 A-A-GTCTTGACTTTATGCAACTTGGAAAAGATC-TTTCACCTTCGTTCTTCACTATTATGTTGC
66 AGACGTCTTGACTTTATGCAACTTGGAGAAGATCTTTTCACCTTCGTTCTTCACTATTATGTTGC
*
36370401 ACTTACTAATCCATCTCCCTCATGAAGCAAAACTTGGTGGACCAATTTTCTATCGGTGGATGTAT
131 ACTTACTAATCCATCTCCCTCATGAAGCAAAACTTGGTGGACCAGTTTTCTATCGGTGGATGTAT
36370466 CTTATAGAGAGGTGCTAATTTATTT
196 CTTATAGAGAGGTGCTAATTTATTT
* *
36370491 AATATAACGAATGCTATTTGTGGAAAAGTTTTGATTGTTGAAGAACTTGAGAAAGTACAAGATCA
1 AATATAATGAATGCTATTTGTGGCAAAGTTTTGATTGTTGAAGAACTTGAGAAAGTACAAGATCA
* *
36370556 AGACGACTTGACTTTATGCAACTTGGAGAAGATCTTTTCACCTTCATTCTTCACTATTATGTTGC
66 AGACGTCTTGACTTTATGCAACTTGGAGAAGATCTTTTCACCTTCGTTCTTCACTATTATGTTGC
*
36370621 ACTTACTAATCCATCTCCTTCATGAAGCAAAACTTGGTGGACCAGTTTTCTATCGGTGGATGTAT
131 ACTTACTAATCCATCTCCCTCATGAAGCAAAACTTGGTGGACCAGTTTTCTATCGGTGGATGTAT
*
36370686 CTAATAGAGAGGTGCTAATTTATTT
196 CTTATAGAGAGGTGCTAATTTATTT
* *
36370711 AATATAATGAATGCTATTTGTGGCCAAGTTTTGATTGTTGAAGAACTTGAGAAACTACAAGATCA
1 AATATAATGAATGCTATTTGTGGCAAAGTTTTGATTGTTGAAGAACTTGAGAAAGTACAAGATCA
* *
36370776 AGCCGTTTTGACTTTATGCAACTTGGAGAAGATCTTTTCACCTTCGTTCTTCACTATTATGTTGC
66 AGACGTCTTGACTTTATGCAACTTGGAGAAGATCTTTTCACCTTCGTTCTTCACTATTATGTTGC
36370841 ACTTACTAATCCATCTCCCTCATGAAGCAAAACTTGGTGGACCAGTTTTCTATCGGTGGATGTAT
131 ACTTACTAATCCATCTCCCTCATGAAGCAAAACTTGGTGGACCAGTTTTCTATCGGTGGATGTAT
*
36370906 CTTATAGAGAGGTGCCAATTTATTT
196 CTTATAGAGAGGTGCTAATTTATTT
36370931 GCCAAGTTAT
Statistics
Matches: 415, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
216 60 0.14
217 1 0.00
218 1 0.00
219 28 0.07
220 325 0.78
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (220 bp):
AATATAATGAATGCTATTTGTGGCAAAGTTTTGATTGTTGAAGAACTTGAGAAAGTACAAGATCA
AGACGTCTTGACTTTATGCAACTTGGAGAAGATCTTTTCACCTTCGTTCTTCACTATTATGTTGC
ACTTACTAATCCATCTCCCTCATGAAGCAAAACTTGGTGGACCAGTTTTCTATCGGTGGATGTAT
CTTATAGAGAGGTGCTAATTTATTT
Found at i:36374331 original size:43 final size:43
Alignment explanation
Indices: 36374283--36374425 Score: 139
Period size: 43 Copynumber: 3.3 Consensus size: 43
36374273 ATGCCGCTAT
36374283 AGAACAT-AGTCTTTAGCGGTGC-CTTT-ATTACAAACACCACTAA
1 AGAACATGA-TCTTTAGC-G-GCACTTTCATTACAAACACCACTAA
* * * *
36374326 AGAACATGATCTTTAACGGCACTTTCATTACAAACAGCTCTAT
1 AGAACATGATCTTTAGCGGCACTTTCATTACAAACACCACTAA
* * * * * * *
36374369 AGAACATGATCTTTAGTGGCTCTTTTACTAAAAACGCCGCTAA
1 AGAACATGATCTTTAGCGGCACTTTCATTACAAACACCACTAA
36374412 AGAACATGATCTTT
1 AGAACATGATCTTT
36374426 TGCAGTGTTT
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
41 2 0.02
42 5 0.06
43 75 0.90
44 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (43 bp):
AGAACATGATCTTTAGCGGCACTTTCATTACAAACACCACTAA
Found at i:36389561 original size:28 final size:30
Alignment explanation
Indices: 36389485--36389564 Score: 101
Period size: 30 Copynumber: 2.7 Consensus size: 30
36389475 TTTCAATACA
* * * *
36389485 GTGTAGGCCTTAGCCCATTATAGTAACAGT
1 GTGTGGGCCTTAGCCCAATACAGTAAAAGT
*
36389515 GTGTGAGCCTTAGCCCAATACAGTAAAAGT
1 GTGTGGGCCTTAGCCCAATACAGTAAAAGT
36389545 G-G-GGGCCTTAGCCCAATACA
1 GTGTGGGCCTTAGCCCAATACA
36389565 ATAATTAGTG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
28 17 0.39
29 1 0.02
30 26 0.59
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.24
Consensus pattern (30 bp):
GTGTGGGCCTTAGCCCAATACAGTAAAAGT
Found at i:36389708 original size:26 final size:26
Alignment explanation
Indices: 36389679--36389755 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 26
36389669 ACACCAATAT
* *
36389679 CACAGCAAAGCTGCCAGTAATAGTGA
1 CACAGCAAAGCTGCCAGTAACAGTAA
*
36389705 CACATCAAAGCTGCCAGTAACAGTAA
1 CACAGCAAAGCTGCCAGTAACAGTAA
** *
36389731 TGCAGCAAAACTGCCAGTAACAGTA
1 CACAGCAAAGCTGCCAGTAACAGTA
36389756 TACGTGGCAA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.40, C:0.25, G:0.19, T:0.16
Consensus pattern (26 bp):
CACAGCAAAGCTGCCAGTAACAGTAA
Found at i:36389961 original size:27 final size:26
Alignment explanation
Indices: 36389931--36390372 Score: 360
Period size: 27 Copynumber: 16.4 Consensus size: 26
36389921 GGTATAACAG
* *
36389931 TCATTTTACCCTATGAGGATATTTCGA
1 TCATTTTACCCT-TAAGGGTATTTCGA
* * *
36389958 TCATTTTATCCTATGAGGGTATTTCGG
1 TCATTTTACCCT-TAAGGGTATTTCGA
* *
36389985 TCATTTTACCCTTCAAGGGTATTTTGG
1 TCATTTTACCCTT-AAGGGTATTTCGA
* * *
36390012 TTATTTTACCCTTCAAGGGCATTTTGA
1 TCATTTTACCCTT-AAGGGTATTTCGA
* *
36390039 TTATTTTACCCTTTGAGGGTATTTC-A
1 TCATTTTACCC-TTAAGGGTATTTCGA
* * *
36390065 GTTATTTTACCATTCAAGGGTATTT-TA
1 -TCATTTTACCCTT-AAGGGTATTTCGA
36390092 GTCATTTTACCCTTCAAGGGTATTTCGA
1 -TCATTTTACCCTT-AAGGGTATTTCGA
* * *
36390120 TCATTTTACCTTTCGAA-GGTATTTTGG
1 TCATTTTACCCTT--AAGGGTATTTCGA
*
36390147 TCATTTTACCCTTCAGGGGTATTTCGA
1 TCATTTTACCCTT-AAGGGTATTTCGA
36390174 TCATTTTACCCTGTAAGGGTATTTC-A
1 TCATTTTACCCT-TAAGGGTATTTCGA
* *
36390200 CTCATTTTACCCTTCAGGGGTATTT-TA
1 -TCATTTTACCCTT-AAGGGTATTTCGA
* * *
36390227 GTTATTTTACCCTTCGAGGGTATTTCGG
1 -TCATTTTACCCTT-AAGGGTATTTCGA
* *
36390255 TTATTTTACCCTTTAAGGGTATTTCGG
1 TCATTTTACCC-TTAAGGGTATTTCGA
*
36390282 TCATTTTACCCTTCAGGGGTATTTCGA
1 TCATTTTACCCTT-AAGGGTATTTCGA
36390309 TCATTTTACCCTTCAAGGGTATTTC-A
1 TCATTTTACCCTT-AAGGGTATTTCGA
* *
36390335 GTCATTTTATCCTTCAAGGCTATTTC-A
1 -TCATTTTACCCTT-AAGGGTATTTCGA
36390362 GTCA-TTTACCC
1 -TCATTTTACCC
36390373 ATGAATCGCA
Statistics
Matches: 357, Mismatches: 42, Indels: 33
0.83 0.10 0.08
Matches are distributed among these distances:
26 16 0.04
27 333 0.93
28 8 0.02
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.44
Consensus pattern (26 bp):
TCATTTTACCCTTAAGGGTATTTCGA
Found at i:36389994 original size:54 final size:53
Alignment explanation
Indices: 36389930--36390372 Score: 423
Period size: 54 Copynumber: 8.2 Consensus size: 53
36389920 GGGTATAACA
* * * *
36389930 GTCATTTTACCCTATGAGGATATTTCGATCATTTTATCCTAT-GAGGGTATTTCG
1 GTCATTTTACCCT-TAAGGGTATTTCGATCATTTTACCCT-TCAAGGGTATTTCG
* * * * *
36389984 GTCATTTTACCCTTCAAGGGTATTTTGGTTATTTTACCCTTCAAGGGCATTTTG
1 GTCATTTTACCCTT-AAGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCG
* * * * * **
36390038 ATTATTTTACCCTTTGAGGGTATTTC-AGTTATTTTACCATTCAAGGGTATTTTA
1 GTCATTTTACCC-TTAAGGGTATTTCGA-TCATTTTACCCTTCAAGGGTATTTCG
* *
36390092 GTCATTTTACCCTTCAAGGGTATTTCGATCATTTTACCTTTCGAA-GGTATTTTG
1 GTCATTTTACCCTT-AAGGGTATTTCGATCATTTTACCCTTC-AAGGGTATTTCG
* *
36390146 GTCATTTTACCCTTCAGGGGTATTTCGATCATTTTACCCTGT-AAGGGTATTTCA
1 GTCATTTTACCCTT-AAGGGTATTTCGATCATTTTACCCT-TCAAGGGTATTTCG
* * * * *
36390200 CTCATTTTACCCTTCAGGGGTATTT-TAGTTATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTT-AAGGGTATTTCGA-TCATTTTACCCTTCAAGGGTATTTCG
* * *
36390254 GTTATTTTACCCTTTAAGGGTATTTCGGTCATTTTACCCTTCAGGGGTATTTCG
1 GTCATTTTACCC-TTAAGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCG
* * * *
36390308 ATCATTTTACCCTTCAAGGGTATTTC-AGTCATTTTATCCTTCAAGGCTATTTCA
1 GTCATTTTACCCTT-AAGGGTATTTCGA-TCATTTTACCCTTCAAGGGTATTTCG
36390362 GTCA-TTTACCC
1 GTCATTTTACCC
36390373 ATGAATCGCA
Statistics
Matches: 326, Mismatches: 48, Indels: 31
0.80 0.12 0.08
Matches are distributed among these distances:
53 17 0.05
54 301 0.92
55 8 0.02
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.44
Consensus pattern (53 bp):
GTCATTTTACCCTTAAGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCG
Found at i:36390056 original size:81 final size:81
Alignment explanation
Indices: 36389930--36390372 Score: 488
Period size: 81 Copynumber: 5.5 Consensus size: 81
36389920 GGGTATAACA
* * * *
36389930 GTCATTTTACCCTAT-GAGGATATTTCGATCATTTTATCCTATGAGGGTATTTCGGTCATTTTAC
1 GTCATTTTACCCT-TCAAGGGTATTTCGATCATTTTACCCTTTGAGGGTATTTCGGTCATTTTAC
*
36389994 CCTTCAAGGGTATTTTG
65 CCTTCAAGGGTATTTCG
* * * * * *
36390011 GTTATTTTACCCTTCAAGGGCATTTTGATTATTTTACCCTTTGAGGGTATTTCAGTTATTTTACC
1 GTCATTTTACCCTTCAAGGGTATTTCGATCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACC
* **
36390076 ATTCAAGGGTATTTTA
66 CTTCAAGGGTATTTCG
* *
36390092 GTCATTTTACCCTTCAAGGGTATTTCGATCATTTTA-CCTTTCGAAGGTATTTTGGTCATTTTAC
1 GTCATTTTACCCTTCAAGGGTATTTCGATCATTTTACCCTTT-GAGGGTATTTCGGTCATTTTAC
*
36390156 CCTTCAGGGGTATTTCG
65 CCTTCAAGGGTATTTCG
* * ** *
36390173 ATCATTTTACCCTGT-AAGGGTATTTC-ACTCATTTTACCC-TTCAGGGGTATTTTAGTTATTTT
1 GTCATTTTACCCT-TCAAGGGTATTTCGA-TCATTTTACCCTTTGA-GGGTATTTCGGTCATTTT
*
36390235 ACCCTTCGAGGGTATTTCG
63 ACCCTTCAAGGGTATTTCG
* * * * *
36390254 GTTATTTTACCCTTTAAGGGTATTTCGGTCATTTTACCC-TTCAGGGGTATTTCGATCATTTTAC
1 GTCATTTTACCCTTCAAGGGTATTTCGATCATTTTACCCTTTGA-GGGTATTTCGGTCATTTTAC
*
36390318 CCTTCAAGGGTATTTCA
65 CCTTCAAGGGTATTTCG
* *
36390335 GTCATTTTATCCTTCAAGGCTATTTC-AGTCA-TTTACCC
1 GTCATTTTACCCTTCAAGGGTATTTCGA-TCATTTTACCC
36390373 ATGAATCGCA
Statistics
Matches: 308, Mismatches: 45, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
80 16 0.05
81 289 0.94
82 3 0.01
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.44
Consensus pattern (81 bp):
GTCATTTTACCCTTCAAGGGTATTTCGATCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACC
CTTCAAGGGTATTTCG
Found at i:36393695 original size:13 final size:14
Alignment explanation
Indices: 36393673--36393715 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 14
36393663 CAAGTCCTTC
*
36393673 ACAGATACAGATA-
1 ACAGAAACAGATAT
36393686 ACAGAAACAGATAT
1 ACAGAAACAGATAT
*
36393700 GCAG-AACAGATAT
1 ACAGAAACAGATAT
36393713 ACA
1 ACA
36393716 AAATCCCACC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 23 0.88
14 3 0.12
ACGTcount: A:0.53, C:0.16, G:0.16, T:0.14
Consensus pattern (14 bp):
ACAGAAACAGATAT
Found at i:36394174 original size:13 final size:13
Alignment explanation
Indices: 36394152--36394201 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
36394142 TGGGCCCATA
*
36394152 TGCCCTTGTGGCT
1 TGCCCGTGTGGCT
* *
36394165 TGCCCATGTGTCT
1 TGCCCGTGTGGCT
* *
36394178 AGCCCGTGTGGTT
1 TGCCCGTGTGGCT
36394191 TGCCCGTGTGG
1 TGCCCGTGTGG
36394202 GCCCACACGC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.04, C:0.28, G:0.34, T:0.34
Consensus pattern (13 bp):
TGCCCGTGTGGCT
Found at i:36396704 original size:18 final size:18
Alignment explanation
Indices: 36396681--36396728 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
36396671 CTTTTCCCCC
*
36396681 TTCTTTCATTTGTTTATT
1 TTCTTTCATTTATTTATT
*
36396699 TTCTTTCGTTTATTTATT
1 TTCTTTCATTTATTTATT
*
36396717 TGCTTTC-TTTAT
1 TTCTTTCATTTAT
36396729 ATGCGAAACC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 5 0.19
18 22 0.81
ACGTcount: A:0.10, C:0.12, G:0.06, T:0.71
Consensus pattern (18 bp):
TTCTTTCATTTATTTATT
Found at i:36397969 original size:15 final size:15
Alignment explanation
Indices: 36397949--36397995 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
36397939 TATAATATGT
36397949 ATTAATTATTTTACC
1 ATTAATTATTTTACC
*
36397964 ATTAA-TATGTATA-C
1 ATTAATTAT-TTTACC
36397978 -TTAATTATTTTACC
1 ATTAATTATTTTACC
36397992 ATTA
1 ATTA
36397996 GCATGTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
13 7 0.27
14 8 0.31
15 11 0.42
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.51
Consensus pattern (15 bp):
ATTAATTATTTTACC
Found at i:36397975 original size:25 final size:27
Alignment explanation
Indices: 36397941--36397995 Score: 87
Period size: 28 Copynumber: 2.1 Consensus size: 27
36397931 ACAAAATTTA
36397941 TAATATG-TA-TTAATTATTTTACCAT
1 TAATATGATACTTAATTATTTTACCAT
36397966 TAATATGTATACTTAATTATTTTACCAT
1 TAATATG-ATACTTAATTATTTTACCAT
36397994 TA
1 TA
36397996 GCATGTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 7 0.26
27 2 0.07
28 18 0.67
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (27 bp):
TAATATGATACTTAATTATTTTACCAT
Found at i:36397987 original size:28 final size:27
Alignment explanation
Indices: 36397948--36398012 Score: 94
Period size: 28 Copynumber: 2.4 Consensus size: 27
36397938 TTATAATATG
*
36397948 TATTAATTATTTTACCATTAATATGTA
1 TATTAATTATTTTACCATTAACATGTA
*
36397975 TACTTAATTATTTTACCATTAGCATGTA
1 TA-TTAATTATTTTACCATTAACATGTA
*
36398003 TATTTATTAT
1 TATTAATTAT
36398013 ATTATCTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 9 0.26
28 25 0.74
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.52
Consensus pattern (27 bp):
TATTAATTATTTTACCATTAACATGTA
Found at i:36398981 original size:27 final size:27
Alignment explanation
Indices: 36398951--36399005 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
36398941 AGTCATTACT
36398951 CAGACCGTTTGAAATTTGCTATGTCCC
1 CAGACCGTTTGAAATTTGCTATGTCCC
36398978 CAGACCGTTTGAAATTTGCTATGTCCC
1 CAGACCGTTTGAAATTTGCTATGTCCC
36399005 C
1 C
36399006 GCAATCTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (27 bp):
CAGACCGTTTGAAATTTGCTATGTCCC
Found at i:36412363 original size:72 final size:74
Alignment explanation
Indices: 36412271--36412443 Score: 196
Period size: 72 Copynumber: 2.4 Consensus size: 74
36412261 AAAATTACAT
* * * * *
36412271 ATAAACAACTATTGATAAAACTAATTTAGT-A-AAAAATAAGTAGAATATAAATTCAATATCTAA
1 ATAAATAACTTTTAATAAAACTAATTTAGTCACAAAAATAAGTAGAACATAAATTCAATATCCAA
*
36412334 AGACCAAAC
66 AAACCAAAC
* *
36412343 ATAAATAACTTTTAATAAAACT-A--GAGTCCACATAAATAAGTAGAACATAAATTCAATATCCA
1 ATAAATAACTTTTAATAAAACTAATTTAGT-CACAAAAATAAGTAGAACATAAATTCAATATCCA
36412405 AAAACCAAAC
65 AAAACCAAAC
* *
36412415 ATAAATAAC-TATAGATAAAACTAGTTTAG
1 ATAAATAACTTTTA-ATAAAACTAATTTAG
36412444 CATTGTTGTT
Statistics
Matches: 83, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
69 3 0.04
71 5 0.06
72 73 0.88
75 2 0.02
ACGTcount: A:0.54, C:0.13, G:0.07, T:0.26
Consensus pattern (74 bp):
ATAAATAACTTTTAATAAAACTAATTTAGTCACAAAAATAAGTAGAACATAAATTCAATATCCAA
AAACCAAAC
Found at i:36412883 original size:18 final size:18
Alignment explanation
Indices: 36412860--36412907 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
36412850 TCCATCAATT
* *
36412860 TGAACATCATTTGAGATG
1 TGAACATCATTTAAAATG
36412878 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
36412896 TGAACATCATTT
1 TGAACATCATTT
36412908 CTCATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:36414756 original size:16 final size:17
Alignment explanation
Indices: 36414737--36414769 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
36414727 AACTAACTAA
36414737 CTAATCTTG-TAACTGC
1 CTAATCTTGCTAACTGC
*
36414753 CTAATTTTGCTAACTGC
1 CTAATCTTGCTAACTGC
36414770 TAACTACTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.39
Consensus pattern (17 bp):
CTAATCTTGCTAACTGC
Found at i:36417600 original size:21 final size:21
Alignment explanation
Indices: 36417570--36417613 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
36417560 GTGCCAAAGA
36417570 ATGGAAGAATCTGTAGAAGCC
1 ATGGAAGAATCTGTAGAAGCC
*
36417591 ATGGATGAATCTGTAGAAGCC
1 ATGGAAGAATCTGTAGAAGCC
36417612 AT
1 AT
36417614 TGTAACAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (21 bp):
ATGGAAGAATCTGTAGAAGCC
Found at i:36420107 original size:11 final size:11
Alignment explanation
Indices: 36420091--36420125 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
36420081 AAACAAAAGC
36420091 ACCAGCAGAGA
1 ACCAGCAGAGA
36420102 ACCAGCAGAGA
1 ACCAGCAGAGA
*
36420113 ACCAACAGAGA
1 ACCAGCAGAGA
36420124 AC
1 AC
36420126 AAAATTTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.49, C:0.29, G:0.23, T:0.00
Consensus pattern (11 bp):
ACCAGCAGAGA
Found at i:36420196 original size:14 final size:14
Alignment explanation
Indices: 36420179--36420208 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
36420169 AGCAGACAAC
36420179 AACCAGCAAAGAAG
1 AACCAGCAAAGAAG
*
36420193 AACCAGCAGAGAAG
1 AACCAGCAAAGAAG
36420207 AA
1 AA
36420209 AAATGTGTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.20, G:0.23, T:0.00
Consensus pattern (14 bp):
AACCAGCAAAGAAG
Found at i:36423055 original size:20 final size:20
Alignment explanation
Indices: 36422972--36423072 Score: 78
Period size: 20 Copynumber: 5.0 Consensus size: 20
36422962 TACACTACAC
* *
36422972 CAGAGGTATCAAAGATGCGTAA
1 CAGAGGCATCAAAG-TGC-AAA
* *
36422994 CAGAGGCATCAAAATGCAGA
1 CAGAGGCATCAAAGTGCAAA
* * *
36423014 CATAGGTA-CAAATGTCCAAA
1 CAGAGGCATCAAA-GTGCAAA
*
36423034 CAGAGGCACCAAAGTGCAAA
1 CAGAGGCATCAAAGTGCAAA
* *
36423054 CAGAGACATCGAAGTGCAA
1 CAGAGGCATCAAAGTGCAA
36423073 TCCCATACAA
Statistics
Matches: 62, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
19 4 0.06
20 39 0.63
21 7 0.11
22 12 0.19
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.13
Consensus pattern (20 bp):
CAGAGGCATCAAAGTGCAAA
Found at i:36430188 original size:33 final size:33
Alignment explanation
Indices: 36430151--36430216 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
36430141 AAAGATAGAA
36430151 AATGTTCCAGTAATTACATCAGATGCCAAAGCT
1 AATGTTCCAGTAATTACATCAGATGCCAAAGCT
36430184 AATGTTCCAGTAATTACATCAGATGCCAAAGCT
1 AATGTTCCAGTAATTACATCAGATGCCAAAGCT
36430217 TCCCCACGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.27
Consensus pattern (33 bp):
AATGTTCCAGTAATTACATCAGATGCCAAAGCT
Found at i:36432044 original size:54 final size:54
Alignment explanation
Indices: 36431924--36432045 Score: 129
Period size: 54 Copynumber: 2.3 Consensus size: 54
36431914 TGAGTTAGGT
* *
36431924 CACACGGTCGTGTCGCAGGTCATGTGCCAGATCGTGTAACACTCTAACTTGTGA
1 CACACGGTCGTGTCGCAGGCCATGTGCCAGACCGTGTAACACTCTAACTTGTGA
** * * * ** *
36431978 CACACGACCGTGTCGCAGGCCGTGTGCTAGGCCGTGTAACTTTCTGACTTGAT-A
1 CACACGGTCGTGTCGCAGGCCATGTGCCAGACCGTGTAACACTCTAACTTG-TGA
*
36432032 CACATGGTCGTGTC
1 CACACGGTCGTGTC
36432046 TTATGCCGTG
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
54 53 0.98
55 1 0.02
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.26
Consensus pattern (54 bp):
CACACGGTCGTGTCGCAGGCCATGTGCCAGACCGTGTAACACTCTAACTTGTGA
Found at i:36442254 original size:3 final size:3
Alignment explanation
Indices: 36442246--36442271 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
36442236 ATTAAATATT
36442246 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
36442272 GATCGAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:36452129 original size:16 final size:15
Alignment explanation
Indices: 36452105--36452168 Score: 60
Period size: 16 Copynumber: 4.2 Consensus size: 15
36452095 AAAAAACACT
36452105 AAAGAAAAAAGAAGAA
1 AAAG-AAAAAGAAGAA
* *
36452121 AGAAGAAAAAAAACAA
1 A-AAGAAAAAGAAGAA
*
36452137 AACAGAAAAAGAA-AC
1 AA-AGAAAAAGAAGAA
36452152 AAA-AAAAAGAAGAA
1 AAAGAAAAAGAAGAA
36452166 AAA
1 AAA
36452169 ATAGAGAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
13 8 0.20
14 5 0.12
15 4 0.10
16 20 0.50
17 3 0.08
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAGAAGAA
Found at i:36452138 original size:26 final size:26
Alignment explanation
Indices: 36452109--36452159 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
36452099 AACACTAAAG
*
36452109 AAAAAAGAAGAAAG-AAGAAAAAAAAC
1 AAAAAAGAA-AAAGAAACAAAAAAAAC
*
36452135 AAAACAGAAAAAGAAACAAAAAAAA
1 AAAAAAGAAAAAGAAACAAAAAAAA
36452160 GAAGAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (26 bp):
AAAAAAGAAAAAGAAACAAAAAAAAC
Found at i:36452155 original size:22 final size:22
Alignment explanation
Indices: 36452109--36452168 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
36452099 AACACTAAAG
36452109 AAAAAAGAAGAAAGAAGAAAAAA
1 AAAAAAGAAGAAA-AAGAAAAAA
* *
36452132 AACAAAA-CAGAAAAAGAAACAA
1 AA-AAAAGAAGAAAAAGAAAAAA
36452154 AAAAAAGAAGAAAAA
1 AAAAAAGAAGAAAAA
36452169 ATAGAGAGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 4 0.12
22 17 0.53
23 7 0.22
24 4 0.12
ACGTcount: A:0.82, C:0.05, G:0.13, T:0.00
Consensus pattern (22 bp):
AAAAAAGAAGAAAAAGAAAAAA
Found at i:36452623 original size:42 final size:41
Alignment explanation
Indices: 36452576--36452702 Score: 173
Period size: 42 Copynumber: 3.0 Consensus size: 41
36452566 AGAAAAGCAC
*
36452576 TCATTGCATTTAGAGGCCCAGGTGTGGAAGTCCATTTACTTT
1 TCATTGCATTTAGAGGCCCAGG-GTGGAGGTCCATTTACTTT
* *
36452618 TCATTGCATTTAGAGGCCCAAGGGTAGAGGACCATTTACTTT
1 TCATTGCATTTAGAGGCCC-AGGGTGGAGGTCCATTTACTTT
* * *
36452660 TCATTGCATTTAGAGGCTCAGGCATGGAGGTCCATTTATTTT
1 TCATTGCATTTAGAGGCCCAGG-GTGGAGGTCCATTTACTTT
36452702 T
1 T
36452703 TCCTTGTATA
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
41 3 0.04
42 69 0.92
43 3 0.04
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (41 bp):
TCATTGCATTTAGAGGCCCAGGGTGGAGGTCCATTTACTTT
Found at i:36452929 original size:3 final size:3
Alignment explanation
Indices: 36452921--36452978 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
36452911 ATGTTGAGTA
36452921 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT
36452969 ACT ACT ACT A
1 ACT ACT ACT A
36452979 TTAAATATTA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.34, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ACT
Found at i:36453581 original size:146 final size:147
Alignment explanation
Indices: 36453340--36453637 Score: 440
Period size: 146 Copynumber: 2.0 Consensus size: 147
36453330 AAGTTTTGAT
* * * *
36453340 TTTTTTTAAAAAAAGAAAGTTTAGATTTTTAAAAAGAAAAATATGATTTTTAGTTATTTTAAAGG
1 TTTTTTTAAAAAAAGAAAGTTTAAATTTTTAAAAAAAAAAATATGATTTTTAGTCATTTTAAAAG
36453405 AAAAGTTCAAATTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCAAAATAAAACTTTGATT
66 AAAAGTTCAAATTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCAAAATAAAACTTTGATT
*
36453470 ATT-AAGAAAAATAGTGA
131 -TTAAAAAAAAATAGTGA
* *
36453487 TTTTTTT-AAAAAAGAGAGTTTAAATTTTTAAAAATAAAAAATAT-TTTTTTAGTCATTTTAAAA
1 TTTTTTTAAAAAAAGAAAGTTTAAATTTTTAAAAA-AAAAAATATGATTTTTAGTCATTTTAAAA
* * * * *
36453550 GAAAAGTTTAATTTTTTAAAATAAAGTTTTGATCTTTTTCAACTATTTCCAAATAAAGCTTTGAT
65 GAAAAGTTCAAATTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCAAAATAAAACTTTGAT
36453615 TTTCAAAAAAAAATAGTGA
130 TTT-AAAAAAAAATAGTGA
36453634 TTTT
1 TTTT
36453638 AAAAAAAAAA
Statistics
Matches: 136, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
145 2 0.01
146 102 0.75
147 32 0.24
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (147 bp):
TTTTTTTAAAAAAAGAAAGTTTAAATTTTTAAAAAAAAAAATATGATTTTTAGTCATTTTAAAAG
AAAAGTTCAAATTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCAAAATAAAACTTTGATT
TTAAAAAAAAATAGTGA
Found at i:36457938 original size:23 final size:22
Alignment explanation
Indices: 36457912--36457989 Score: 111
Period size: 23 Copynumber: 3.4 Consensus size: 22
36457902 ACATATGTTC
*
36457912 CCTCCGAACACAACCAAATATAG
1 CCTCC-AACACAACCAAATATAA
*
36457935 CCTCTCAACACAACCAAATATAC
1 CCTC-CAACACAACCAAATATAA
36457958 CCTCCAAGCACAACCAAATATAA
1 CCTCCAA-CACAACCAAATATAA
36457981 CCTCCAACA
1 CCTCCAACA
36457990 TATCCACTTA
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
22 5 0.10
23 45 0.88
24 1 0.02
ACGTcount: A:0.44, C:0.38, G:0.04, T:0.14
Consensus pattern (22 bp):
CCTCCAACACAACCAAATATAA
Found at i:36462635 original size:61 final size:58
Alignment explanation
Indices: 36462521--36462636 Score: 135
Period size: 61 Copynumber: 1.9 Consensus size: 58
36462511 ATCATTTTAA
* *
36462521 TATTAAATTAATATAATACGTATGAAGATAAATATTAGATTAAATTTAGTATTAAATC
1 TATTAAATTAATATAATACGTATCAAGATAAATATTAGATTAAATTTAATATTAAATC
** * *
36462579 TATTAAATTAATATAATATTTATCTACAAGATAGATATTTA-ATTTAATTTAATATTAA
1 TATTAAATTAATATAATACGTA--T-CAAGATAAATA-TTAGATTAAATTTAATATTAA
36462637 GATAATCACT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
58 20 0.42
60 1 0.02
61 24 0.50
62 3 0.06
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.43
Consensus pattern (58 bp):
TATTAAATTAATATAATACGTATCAAGATAAATATTAGATTAAATTTAATATTAAATC
Found at i:36462675 original size:25 final size:26
Alignment explanation
Indices: 36462621--36462678 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
36462611 AGATATTTAA
*
36462621 TTTAAT-TTAATATTAAGATAATCAC
1 TTTAATATTAATATTAAGAAAATCAC
*
36462646 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAATATTAATATTAAGAAAATCAC
36462670 TATTAATAT
1 T-TTAATAT
36462679 ACGTATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 3 0.10
25 22 0.76
26 4 0.14
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (26 bp):
TTTAATATTAATATTAAGAAAATCAC
Found at i:36464990 original size:18 final size:16
Alignment explanation
Indices: 36464948--36464990 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
36464938 TTAGCATATT
36464948 TTTTTATTCACAATGC
1 TTTTTATTCACAATGC
* *
36464964 CTTTAATTCTAACAATGC
1 TTTTTATTC--ACAATGC
36464982 TTTTTATTC
1 TTTTTATTC
36464991 GCTCGCTTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 7 0.33
18 14 0.67
ACGTcount: A:0.26, C:0.19, G:0.05, T:0.51
Consensus pattern (16 bp):
TTTTTATTCACAATGC
Found at i:36468348 original size:22 final size:20
Alignment explanation
Indices: 36468310--36468354 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 20
36468300 TATATTTTTA
36468310 TTTCTATAAAATTTTGAAAT
1 TTTCTATAAAATTTTGAAAT
36468330 TTTCTAATAAATATTTTGAAAT
1 TTTCT-ATAAA-ATTTTGAAAT
36468352 TTT
1 TTT
36468355 GAAGATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 5 0.22
21 5 0.22
22 13 0.57
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (20 bp):
TTTCTATAAAATTTTGAAAT
Found at i:36470221 original size:20 final size:20
Alignment explanation
Indices: 36470179--36470219 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
36470169 TATAACACAA
*
36470179 TTCAATTTCATATTGAATAT
1 TTCAATTTCATATTCAATAT
*
36470199 TTCAATTT-TTATTCAATAT
1 TTCAATTTCATATTCAATAT
36470218 TT
1 TT
36470220 TCCTAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (20 bp):
TTCAATTTCATATTCAATAT
Found at i:36477216 original size:20 final size:19
Alignment explanation
Indices: 36477193--36477233 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
36477183 TATAACACAA
*
36477193 TTCAATTTCATATTTAATAT
1 TTCAATTT-ATACTTAATAT
*
36477213 TTCAATTTTTACTTAATAT
1 TTCAATTTATACTTAATAT
36477232 TT
1 TT
36477234 TCCTAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (19 bp):
TTCAATTTATACTTAATAT
Found at i:36479522 original size:20 final size:19
Alignment explanation
Indices: 36479478--36479524 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
36479468 TTGGATAACA
*
36479478 TTGAATTTTAAAATTTTTT
1 TTGATTTTTAAAATTTTTT
*
36479497 AT-ATTTTTAAAATATTTTT
1 TTGATTTTTAAAAT-TTTTT
36479516 TTGATTTTT
1 TTGATTTTT
36479525 TTATTTTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 10 0.43
19 7 0.30
20 6 0.26
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (19 bp):
TTGATTTTTAAAATTTTTT
Found at i:36479553 original size:16 final size:17
Alignment explanation
Indices: 36479521--36479553 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
36479511 TTTTTTTGAT
*
36479521 TTTTTTATTTTTCATAA
1 TTTTTTATTTTTAATAA
36479538 TTTTTTA-TTTTAATAA
1 TTTTTTATTTTTAATAA
36479554 ACTATAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTTATTTTTAATAA
Found at i:36479740 original size:24 final size:24
Alignment explanation
Indices: 36479689--36479764 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 24
36479679 TTCATATATC
* ** *
36479689 AAATTGAACAAAAAAAGTAGATACT
1 AAATTGGACAAAAAAAGTTTAT-GT
36479714 AAATTGGACAAAAAAAGTTTATGT
1 AAATTGGACAAAAAAAGTTTATGT
*
36479738 AAATTAGACAAAAAAAAAGTTTATGT
1 AAATTGGAC--AAAAAAAGTTTATGT
36479764 A
1 A
36479765 CCAAAACAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
24 9 0.20
25 19 0.43
26 16 0.36
ACGTcount: A:0.57, C:0.05, G:0.13, T:0.25
Consensus pattern (24 bp):
AAATTGGACAAAAAAAGTTTATGT
Found at i:36480982 original size:20 final size:19
Alignment explanation
Indices: 36480908--36480992 Score: 63
Period size: 19 Copynumber: 4.6 Consensus size: 19
36480898 AATAATTTTT
*
36480908 AAAATTC-AAAACATTGATA
1 AAAATTCTAAAAAATT-ATA
*
36480927 AAAATT-T-CAAAATT-T-
1 AAAATTCTAAAAAATTATA
* *
36480942 AAAATTTTAAAAAATTCTA
1 AAAATTCTAAAAAATTATA
*
36480961 AATATTCTAAAAAATATATA
1 AAAATTCTAAAAAAT-TATA
*
36480981 AAAATTTTAAAA
1 AAAATTCTAAAA
36480993 TTTTAAAAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
15 6 0.12
16 2 0.04
17 6 0.12
18 6 0.12
19 19 0.37
20 13 0.25
ACGTcount: A:0.59, C:0.06, G:0.01, T:0.34
Consensus pattern (19 bp):
AAAATTCTAAAAAATTATA
Found at i:36480994 original size:8 final size:9
Alignment explanation
Indices: 36480925--36481005 Score: 62
Period size: 8 Copynumber: 9.1 Consensus size: 9
36480915 AAAACATTGA
36480925 TAAAAA-TT
1 TAAAAATTT
*
36480933 TCAAAA-TT
1 TAAAAATTT
36480941 T-AAAATTT
1 TAAAAATTT
*
36480949 TAAAAAATTC
1 T-AAAAATTT
*
36480959 TAAATATTCT
1 TAAAAATT-T
* *
36480969 AAAAAATATA
1 TAAAAAT-TT
36480979 TAAAAATTT
1 TAAAAATTT
36480988 T-AAAATTT
1 TAAAAATTT
36480996 TAAAAATTT
1 TAAAAATTT
36481005 T
1 T
36481006 CTAAAATAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
7 4 0.07
8 19 0.33
9 16 0.28
10 18 0.31
11 1 0.02
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (9 bp):
TAAAAATTT
Found at i:36487627 original size:19 final size:20
Alignment explanation
Indices: 36487599--36487636 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
36487589 TATTTAATTT
36487599 ATTTTAAAC-AATAAAATAG
1 ATTTTAAACAAATAAAATAG
*
36487618 ATTTTCAACAAATAAAATA
1 ATTTTAAACAAATAAAATA
36487637 TTCCAACCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.32
Consensus pattern (20 bp):
ATTTTAAACAAATAAAATAG
Found at i:36488311 original size:51 final size:50
Alignment explanation
Indices: 36488247--36488346 Score: 114
Period size: 51 Copynumber: 2.0 Consensus size: 50
36488237 TGAAAAAGTT
* *
36488247 TAACTTTTAAAAAACTAT-AAAAAATAA-TATATATATTATAAAAATTTTAA
1 TAACTTTTAAAAAAAT-TGAAAAAATAAGT-TATATATTATAAAAAATTTAA
* * *
36488297 TAACTTTTTTAAAAAATTGAAAAAATAAGTTATATTTTTTAAAAAATTTA
1 TAAC-TTTTAAAAAAATTGAAAAAATAAGTTATATATTATAAAAAATTTA
36488347 TGATTTTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
50 5 0.12
51 36 0.86
52 1 0.02
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (50 bp):
TAACTTTTAAAAAAATTGAAAAAATAAGTTATATATTATAAAAAATTTAA
Found at i:36489283 original size:24 final size:22
Alignment explanation
Indices: 36489222--36489283 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 22
36489212 TTGGAAGTGA
36489222 AAAAAAACATAGTTAAGAGAAG
1 AAAAAAACATAGTTAAGAGAAG
* *
36489244 AAAGAAACAGTGAGTTAAGAGAGTTG
1 AAAAAAACA-T-AGTTAAGAGA--AG
*
36489270 AAAAAAATATAGTT
1 AAAAAAACATAGTT
36489284 GTCAAACAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
22 8 0.25
23 1 0.03
24 14 0.44
25 1 0.03
26 8 0.25
ACGTcount: A:0.56, C:0.03, G:0.21, T:0.19
Consensus pattern (22 bp):
AAAAAAACATAGTTAAGAGAAG
Found at i:36491443 original size:13 final size:12
Alignment explanation
Indices: 36491419--36491449 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
36491409 CGACCCGTAT
36491419 TAATTTTTTATA
1 TAATTTTTTATA
36491431 TAA-TTTTTATA
1 TAATTTTTTATA
36491442 TAATTTTT
1 TAATTTTT
36491450 AAATATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TAATTTTTTATA
Found at i:36491456 original size:13 final size:11
Alignment explanation
Indices: 36491423--36491450 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
36491413 CCGTATTAAT
36491423 TTTTTATATAA
1 TTTTTATATAA
36491434 TTTTTATATAA
1 TTTTTATATAA
36491445 TTTTTA
1 TTTTTA
36491451 AATATATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTTATATAA
Found at i:36491602 original size:30 final size:29
Alignment explanation
Indices: 36491568--36491628 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 29
36491558 CAACTTAACA
36491568 AACAAATGCCTCTAAAATAATAACAAAATT
1 AACAAATGCCTCTAAAATAATAAC-AAATT
* * *
36491598 AACAAATGCTTTTAAATTAATAACAAATT
1 AACAAATGCCTCTAAAATAATAACAAATT
36491627 AA
1 AA
36491629 TAGTAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.56, C:0.13, G:0.03, T:0.28
Consensus pattern (29 bp):
AACAAATGCCTCTAAAATAATAACAAATT
Done.