Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 186 of 216
Found at i:58086604 original size:13 final size:13
Alignment explanation
Indices: 58086586--58086615 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
58086576 AAAAATATAT
58086586 TTAATATTTAAAA
1 TTAATATTTAAAA
58086599 TTAATATTTAAAA
1 TTAATATTTAAAA
58086612 TTAA
1 TTAA
58086616 AAAATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TTAATATTTAAAA
Found at i:58086607 original size:20 final size:20
Alignment explanation
Indices: 58086576--58086623 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
58086566 AAATATTATT
* *
58086576 AAAAAT-ATATTTAATATTT
1 AAAAATAATATTTAAAATTA
*
58086595 AAAATTAATATTTAAAATTA
1 AAAAATAATATTTAAAATTA
58086615 AAAAATAAT
1 AAAAATAAT
58086624 TTCAAATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAATAATATTTAAAATTA
Found at i:58086662 original size:36 final size:34
Alignment explanation
Indices: 58086605--58086871 Score: 197
Period size: 36 Copynumber: 7.5 Consensus size: 34
58086595 AAAATTAATA
*
58086605 TTTAAAA-TTAAAAAATAATTTCAAATATATATT
1 TTTAAAATTTAAAAAATAATTTCAAAAATATATT
* * *
58086638 TTTCAAATTTATAAGAAATAATTTCAAAATTATATA
1 TTTAAAATTTA-AA-AAATAATTTCAAAAATATATT
*
58086674 TTTAAAATTTAAAAATATATATTT--GAAAT-TATT
1 TTTAAAATTTAAAAA-ATA-ATTTCAAAAATATATT
**** * *
58086707 TTATCTTGTTTAAAAATATATTTTTAAAAATATATTT
1 TT-TAAAATTTAAAAA-ATAATTTCAAAAATATA-TT
58086744 AAAATTTAAAATTTAGAAAAATTAATTTCAAAAATATATT
1 ----TTTAAAATTTA-AAAAA-TAATTTCAAAAATATATT
* * *
58086784 TTTAAAATTTATAAGACATAATTTGAAAAA-ATAATA
1 TTTAAAATTTA-AA-AAATAATTTCAAAAATAT-ATT
58086820 TTTAAAATTTAAAAAATAATTT-AAAAATA-ATT
1 TTTAAAATTTAAAAAATAATTTCAAAAATATATT
58086852 TTTAAAATTTTTAAAAAATA
1 TTTAAAA--TTTAAAAAATA
58086872 TATATTATAA
Statistics
Matches: 187, Mismatches: 26, Indels: 41
0.74 0.10 0.16
Matches are distributed among these distances:
32 9 0.05
33 19 0.10
34 41 0.22
35 15 0.08
36 71 0.38
37 4 0.02
40 8 0.04
41 20 0.11
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (34 bp):
TTTAAAATTTAAAAAATAATTTCAAAAATATATT
Found at i:58086687 original size:21 final size:22
Alignment explanation
Indices: 58086657--58086703 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
58086647 TATAAGAAAT
*
58086657 AATTTCAAAATTATATATTTAA
1 AATTTCAAAAATATATATTTAA
*
58086679 AATTT-AAAAATATATATTTGA
1 AATTTCAAAAATATATATTTAA
58086700 AATT
1 AATT
58086704 ATTTTATCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
AATTTCAAAAATATATATTTAA
Found at i:58086734 original size:14 final size:14
Alignment explanation
Indices: 58086715--58086790 Score: 59
Period size: 14 Copynumber: 5.5 Consensus size: 14
58086705 TTTTATCTTG
58086715 TTTAAAAATATATT
1 TTTAAAAATATATT
58086729 TTTAAAAATATA--
1 TTTAAAAATATATT
* *
58086741 TTTAAAATTTAAAATT
1 TTTAAAA-AT-ATATT
** *
58086757 TAGAAAAAT-TAAT
1 TTTAAAAATATATT
*
58086770 TTCAAAAATATATT
1 TTTAAAAATATATT
58086784 TTTAAAA
1 TTTAAAA
58086791 TTTATAAGAC
Statistics
Matches: 46, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
12 7 0.15
13 10 0.22
14 23 0.50
15 1 0.02
16 5 0.11
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (14 bp):
TTTAAAAATATATT
Found at i:58086835 original size:21 final size:21
Alignment explanation
Indices: 58086803--58086847 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
58086793 TATAAGACAT
*
58086803 AATTTGAAAAAATAATATTTAA
1 AATTTGAAAAAATAAT-TTAAA
58086825 AATTT-AAAAAATAATTTAAA
1 AATTTGAAAAAATAATTTAAA
58086845 AAT
1 AAT
58086848 AATTTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.32
21 10 0.45
22 5 0.23
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
AATTTGAAAAAATAATTTAAA
Found at i:58086843 original size:110 final size:110
Alignment explanation
Indices: 58086595--58086861 Score: 259
Period size: 110 Copynumber: 2.5 Consensus size: 110
58086585 TTTAATATTT
* * * *
58086595 AAAATTAATATTTAAAA-TTAAAAAATAATTT-CAAATATATATT----TTTCAAATTTATAAGA
1 AAAAATAATATTTAAAATTTAAAAAATAATTTAAAAATATAT-TTAAAATTTAAAATTTAGAAGA
* *
58086654 AATAATTTCAAAATTATATATTTAAAATTTAAAAATATATATTTGA
65 AATAATTTCAAAAATATATATTTAAAATTTAAAAACATATATTTGA
** ** * *
58086700 AATTATTTTATCTT---GTTTAAAAATATATTTTTAAAAATATATTTAAAATTTAAAATTTAGAA
1 AAAAATAATAT-TTAAAATTTAAAAA-ATA-ATTTAAAAATATATTTAAAATTTAAAATTTAGAA
* *
58086762 -AAATTAATTTCAAAAATATATTTTTAAAATTTATAAGACATA-ATTTGA
63 GAAA-TAATTTCAAAAATATATATTTAAAATTTA-AAAACATATATTTGA
*
58086810 AAAAATAATATTTAAAATTTAAAAAATAATTTAAAAATAATTTTTAAAATTT
1 AAAAATAATATTTAAAATTTAAAAAATAATTTAAAAAT-ATATTTAAAATTT
58086862 TTAAAAAATA
Statistics
Matches: 126, Mismatches: 21, Indels: 24
0.74 0.12 0.14
Matches are distributed among these distances:
104 7 0.06
105 9 0.07
106 7 0.06
107 8 0.06
109 5 0.04
110 61 0.48
111 21 0.17
112 8 0.06
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (110 bp):
AAAAATAATATTTAAAATTTAAAAAATAATTTAAAAATATATTTAAAATTTAAAATTTAGAAGAA
ATAATTTCAAAAATATATATTTAAAATTTAAAAACATATATTTGA
Found at i:58086847 original size:11 final size:12
Alignment explanation
Indices: 58086825--58086871 Score: 53
Period size: 11 Copynumber: 4.1 Consensus size: 12
58086815 TAATATTTAA
58086825 AATTTAAAAAAT
1 AATTTAAAAAAT
58086837 AATTT-AAAAAT
1 AATTTAAAAAAT
**
58086848 AATTTTTAAAAT
1 AATTTAAAAAAT
*
58086860 -TTTTAAAAAAT
1 AATTTAAAAAAT
58086871 A
1 A
58086872 TATATTATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 19 0.66
12 10 0.34
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AATTTAAAAAAT
Found at i:58086938 original size:9 final size:9
Alignment explanation
Indices: 58086911--58086954 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
58086901 TCAAATTTTT
*
58086911 TAAAATTAA
1 TAAAATAAA
58086920 TAACAATAAA
1 TAA-AATAAA
58086930 TAAAATAAA
1 TAAAATAAA
58086939 T-AAA-AAA
1 TAAAATAAA
58086946 TAAAATAAA
1 TAAAATAAA
58086955 ATAAGAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
7 4 0.13
8 6 0.19
9 13 0.42
10 8 0.26
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (9 bp):
TAAAATAAA
Found at i:58086953 original size:21 final size:21
Alignment explanation
Indices: 58086911--58086971 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
58086901 TCAAATTTTT
* *
58086911 TAAAATTAAT-AACAAT-AAA
1 TAAAATAAATAAAAAATAAAA
58086930 TAAAATAAATAAAAAATAAAA
1 TAAAATAAATAAAAAATAAAA
*
58086951 TAAAATAAGA-AAAATATAAAA
1 TAAAATAA-ATAAAAAATAAAA
58086972 CTTAAGAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 9 0.25
20 5 0.14
21 21 0.58
22 1 0.03
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (21 bp):
TAAAATAAATAAAAAATAAAA
Found at i:58086956 original size:26 final size:26
Alignment explanation
Indices: 58086918--58086971 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
58086908 TTTTAAAATT
58086918 AATAACAATAAATAA-AATAAATAAAA
1 AATAACAATAAATAAGAA-AAATAAAA
*
58086944 AATAA-AATAAAATAAGAAAAATATAA
1 AATAACAAT-AAATAAGAAAAATAAAA
58086970 AA
1 AA
58086972 CTTAAGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 3 0.12
26 20 0.80
27 2 0.08
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (26 bp):
AATAACAATAAATAAGAAAAATAAAA
Found at i:58086977 original size:18 final size:18
Alignment explanation
Indices: 58086947--58087026 Score: 67
Period size: 18 Copynumber: 4.5 Consensus size: 18
58086937 AATAAAAAAT
58086947 AAAATAAAA--TAAGAAA
1 AAAATAAAACTTAAGAAA
*
58086963 AATATAAAACTTAAGAAA
1 AAAATAAAACTTAAGAAA
*
58086981 AGAAAT-AAATTTAAAGAAA
1 A-AAATAAAACTT-AAGAAA
* * * *
58087000 AAGACAAAAGTTAATAAA
1 AAAATAAAACTTAAGAAA
58087018 AAAATAAAA
1 AAAATAAAA
58087027 AAAAAGTAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
16 8 0.16
18 27 0.54
19 15 0.30
ACGTcount: A:0.72, C:0.03, G:0.07, T:0.17
Consensus pattern (18 bp):
AAAATAAAACTTAAGAAA
Found at i:58088180 original size:43 final size:42
Alignment explanation
Indices: 58088125--58088220 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 42
58088115 TTTTCCTTGT
* * *
58088125 TTTTTTTATTTGTT-TTTCATTTTTTCCTT-TTTCCTTTTTCTG
1 TTTTTTTATTTGTTATTT--GTTTTTCCTTATTTACTTTTTCAG
*
58088167 ATTTTTTTATTTGTTATTTGTTTTTCTTTATTTACTTTTTCAG
1 -TTTTTTTATTTGTTATTTGTTTTTCCTTATTTACTTTTTCAG
58088210 TTTTTTTATTT
1 TTTTTTTATTT
58088221 ATTTGCTTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
42 19 0.40
43 25 0.53
44 3 0.06
ACGTcount: A:0.09, C:0.09, G:0.05, T:0.76
Consensus pattern (42 bp):
TTTTTTTATTTGTTATTTGTTTTTCCTTATTTACTTTTTCAG
Found at i:58088260 original size:18 final size:18
Alignment explanation
Indices: 58088232--58088279 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
58088222 TTTGCTTGTC
*
58088232 CTTTATTTATTTATTAGTT
1 CTTTCTTTATTT-TTAGTT
**
58088251 -TTTCTTTATTTTTCTTT
1 CTTTCTTTATTTTTAGTT
58088268 CTTTCTTTATTT
1 CTTTCTTTATTT
58088280 GTTTATTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.75
Consensus pattern (18 bp):
CTTTCTTTATTTTTAGTT
Found at i:58088276 original size:40 final size:38
Alignment explanation
Indices: 58088189--58088301 Score: 106
Period size: 40 Copynumber: 2.9 Consensus size: 38
58088179 GTTATTTGTT
*
58088189 TTTCTTTATTTACTTT-TTCAG-TTTTTTTATTTATTTGC
1 TTTCTTTATTTA-TTTATT-AGTTTTTTTTATTTTTTTGC
*
58088227 TTGTCCTTTATTTATTTATTAGTTTTTCTTTATTTTTCTTTC
1 TT-T-CTTTATTTATTTATTAGTTTTT-TTTATTTTT-TTGC
* *
58088269 TTTCTTTATTTGTTTATTA-TTTTTATTTGTTTT
1 TTTCTTTATTTATTTATTAGTTTTT-TTTATTTT
58088302 ATAATATTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
38 2 0.03
39 18 0.28
40 30 0.47
41 9 0.14
42 5 0.08
ACGTcount: A:0.12, C:0.09, G:0.05, T:0.73
Consensus pattern (38 bp):
TTTCTTTATTTATTTATTAGTTTTTTTTATTTTTTTGC
Found at i:58088843 original size:7 final size:7
Alignment explanation
Indices: 58088826--58088866 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
58088816 TAGTAAGGTA
*
58088826 TTTATAA
1 TTTATAT
*
58088833 TTTGTAT
1 TTTATAT
*
58088840 TTTGTAT
1 TTTATAT
58088847 TTTATAT
1 TTTATAT
58088854 TTTATAT
1 TTTATAT
58088861 TTTATA
1 TTTATA
58088867 GTTATTGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (7 bp):
TTTATAT
Found at i:58089566 original size:13 final size:13
Alignment explanation
Indices: 58089548--58089605 Score: 50
Period size: 14 Copynumber: 4.5 Consensus size: 13
58089538 AAAAAAGCTG
*
58089548 AGAAAATAAATAA
1 AGAAAACAAATAA
58089561 AGAAAAACAAATAA
1 AG-AAAACAAATAA
58089575 A-AAAACGAAA-AA
1 AGAAAAC-AAATAA
*
58089587 GGACAAACAAATAA
1 AGA-AAACAAATAA
58089601 A-AAAA
1 AGAAAA
58089606 TCAGAAAAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
12 10 0.27
13 10 0.27
14 17 0.46
ACGTcount: A:0.78, C:0.07, G:0.09, T:0.07
Consensus pattern (13 bp):
AGAAAACAAATAA
Found at i:58089572 original size:18 final size:19
Alignment explanation
Indices: 58089551--58089586 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
58089541 AAAGCTGAGA
*
58089551 AAATAAATAAA-GAAAAAC
1 AAATAAAAAAACGAAAAAC
58089569 AAATAAAAAAACGAAAAA
1 AAATAAAAAAACGAAAAA
58089587 GGACAAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.81, C:0.06, G:0.06, T:0.08
Consensus pattern (19 bp):
AAATAAAAAAACGAAAAAC
Found at i:58089579 original size:26 final size:25
Alignment explanation
Indices: 58089550--58089615 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 25
58089540 AAAAGCTGAG
58089550 AAAATAAATAAAGAAAAACAAATAAA
1 AAAATAAA-AAAGAAAAACAAATAAA
* * *
58089576 AAAACGAAAAAGGACAAACAAATAAA
1 AAAA-TAAAAAAGAAAAACAAATAAA
58089602 AAAATCAGAAAAAG
1 AAAAT-A-AAAAAG
58089616 GTAAAAATGA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
26 24 0.75
27 8 0.25
ACGTcount: A:0.76, C:0.08, G:0.09, T:0.08
Consensus pattern (25 bp):
AAAATAAAAAAGAAAAACAAATAAA
Found at i:58093757 original size:8 final size:8
Alignment explanation
Indices: 58093706--58093809 Score: 52
Period size: 8 Copynumber: 12.4 Consensus size: 8
58093696 ATTTTGTATG
58093706 AATATTGT
1 AATATTGT
*
58093714 AAT-TTTT
1 AATATTGT
*
58093721 TATA-TG-
1 AATATTGT
58093727 AATATTGT
1 AATATTGT
*
58093735 AATTTTGTAT
1 AATATTG--T
58093745 GAATATTGT
1 -AATATTGT
58093754 AATATTGT
1 AATATTGT
*
58093762 AATTTTGTAT
1 AATATTG--T
58093772 GAATATTGT
1 -AATATTGT
* * *
58093781 AATGTCGGG
1 AATAT-TGT
58093790 ATATATTGT
1 A-ATATTGT
58093799 AATATTGT
1 AATATTGT
58093807 AAT
1 AAT
58093810 TTTTTGTATG
Statistics
Matches: 71, Mismatches: 14, Indels: 22
0.66 0.13 0.21
Matches are distributed among these distances:
6 3 0.04
7 8 0.11
8 37 0.52
9 6 0.08
10 5 0.07
11 12 0.17
ACGTcount: A:0.34, C:0.01, G:0.15, T:0.50
Consensus pattern (8 bp):
AATATTGT
Found at i:58093758 original size:27 final size:27
Alignment explanation
Indices: 58093706--58093783 Score: 114
Period size: 27 Copynumber: 3.1 Consensus size: 27
58093696 ATTTTGTATG
58093706 AATATTGTAATTTT-T-T--ATA-TG-
1 AATATTGTAATTTTGTATGAATATTGT
58093727 AATATTGTAATTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGT
58093754 AATATTGTAATTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGT
58093781 AAT
1 AAT
58093784 GTCGGGATAT
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
21 14 0.27
22 1 0.02
23 1 0.02
25 3 0.06
26 2 0.04
27 30 0.59
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.53
Consensus pattern (27 bp):
AATATTGTAATTTTGTATGAATATTGT
Found at i:58093783 original size:19 final size:19
Alignment explanation
Indices: 58093623--58093762 Score: 99
Period size: 19 Copynumber: 7.1 Consensus size: 19
58093613 AGAGACGCCA
58093623 ATGAATATTGTAATTTTGT
1 ATGAATATTGTAATTTTGT
* *
58093642 ATTAATATTGTAATTATTTT
1 ATGAATATTGTAATT-TTGT
58093662 AT-AATTAAATTTGT-ATTTATAGTT
1 ATGAA-T--A-TTGTAATTT-T-G-T
* * *
58093686 TTGGAT-TAGT-ATTTTGT
1 ATGAATATTGTAATTTTGT
*
58093703 ATGAATATTGTAATTTTTTAT
1 ATGAATATTGTAA--TTTTGT
58093724 ATGAATATTGTAATTTTGT
1 ATGAATATTGTAATTTTGT
*
58093743 ATGAATATTGTAATATTGT
1 ATGAATATTGTAATTTTGT
58093762 A
1 A
58093763 ATTTTGTATG
Statistics
Matches: 96, Mismatches: 12, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
17 5 0.05
18 4 0.04
19 42 0.44
20 13 0.14
21 19 0.20
22 5 0.05
23 4 0.04
24 3 0.03
25 1 0.01
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (19 bp):
ATGAATATTGTAATTTTGT
Found at i:58093831 original size:21 final size:21
Alignment explanation
Indices: 58093697--58093783 Score: 97
Period size: 21 Copynumber: 4.0 Consensus size: 21
58093687 TGGATTAGTA
58093697 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
*
58093718 TTTTATATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
58093737 TTTTGTATGAATATTGTAATATTGT
1 TTTTGTATGAATATTGT-A-A-T-T
58093762 AATTTTGTATGAATATTGTAAT
1 --TTTTGTATGAATATTGTAAT
58093784 GTCGGGATAT
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
19 16 0.29
20 1 0.02
21 19 0.34
24 1 0.02
25 1 0.02
26 1 0.02
27 17 0.30
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (21 bp):
TTTTGTATGAATATTGTAATT
Found at i:58094027 original size:38 final size:38
Alignment explanation
Indices: 58093981--58094058 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
58093971 TAAAGTTTAA
58093981 AAAAAAATTAAAAATCATCTTATTAAAAGTTTAATTAT
1 AAAAAAATTAAAAATCATCTTATTAAAAGTTTAATTAT
*
58094019 AAAAAAATTAAAAATCATTTTATTAAAAGTTTAATTAT
1 AAAAAAATTAAAAATCATCTTATTAAAAGTTTAATTAT
58094057 AA
1 AA
58094059 CTGACTTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (38 bp):
AAAAAAATTAAAAATCATCTTATTAAAAGTTTAATTAT
Found at i:58094136 original size:15 final size:15
Alignment explanation
Indices: 58094095--58094136 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
58094085 ATTAACTAAT
*
58094095 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
58094110 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
58094126 TTAAATTTTAT
1 TTAAATTTTAT
58094137 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:58094250 original size:21 final size:21
Alignment explanation
Indices: 58094205--58094267 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
58094195 CATTTTTTTG
* * *
58094205 ATTACAAAATTACAAACACAAA
1 ATTACAATATT-CATACAAAAA
*
58094227 ATTACAATATTCATATAAAAA
1 ATTACAATATTCATACAAAAA
58094248 ATTACAATATTCATACAAAA
1 ATTACAATATTCATACAAAA
58094268 TACTAATCCA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 26 0.72
22 10 0.28
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.27
Consensus pattern (21 bp):
ATTACAATATTCATACAAAAA
Found at i:58094320 original size:19 final size:19
Alignment explanation
Indices: 58094301--58094338 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
58094291 AAATTTAATT
58094301 ATAAAATAATTACAATATTA
1 ATAAAA-AATTACAATATTA
*
58094321 ATACAAAATTACAATATT
1 ATAAAAAATTACAATATT
58094339 TATTGGCGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (19 bp):
ATAAAAAATTACAATATTA
Found at i:58094414 original size:27 final size:27
Alignment explanation
Indices: 58094340--58094403 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
58094330 TACAATATTT
58094340 ATTGGCGCCTCTCTATGAGGCACCTTC
1 ATTGGCGCCTCTCTATGAGGCACCTTC
* *
58094367 ATTGGTGCCTCTCTGTGAGGCACCTTC
1 ATTGGCGCCTCTCTATGAGGCACCTTC
58094394 ATTGGCGCCT
1 ATTGGCGCCT
58094404 ACCTAATAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.12, C:0.31, G:0.25, T:0.31
Consensus pattern (27 bp):
ATTGGCGCCTCTCTATGAGGCACCTTC
Found at i:58094483 original size:12 final size:12
Alignment explanation
Indices: 58094468--58094499 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
58094458 TCGTATTTTT
58094468 TTAAAAAAATTA
1 TTAAAAAAATTA
58094480 TTAAAAAAA-TA
1 TTAAAAAAATTA
58094491 -TAAAAAAAT
1 TTAAAAAAAT
58094500 ATTTTATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 8 0.42
11 2 0.11
12 9 0.47
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
TTAAAAAAATTA
Found at i:58101873 original size:3 final size:3
Alignment explanation
Indices: 58101865--58101890 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
58101855 GTAAAAGAGA
58101865 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
58101891 CAACAAACAA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:58108817 original size:22 final size:22
Alignment explanation
Indices: 58108790--58108838 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
58108780 TAAAAATTCC
58108790 AAAATTTAT-ATTTTTTTTGAAA
1 AAAATTTATAATTTTTTTT-AAA
58108812 AAAA-TTATAATTTTTTTTAAA
1 AAAATTTATAATTTTTTTTAAA
58108833 AAAATT
1 AAAATT
58108839 CTAAAGAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
AAAATTTATAATTTTTTTTAAA
Found at i:58108819 original size:21 final size:21
Alignment explanation
Indices: 58108790--58108838 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
58108780 TAAAAATTCC
*
58108790 AAAATTTAT-ATTTTTTTTGAA
1 AAAAATTATAATTTTTTTT-AA
58108811 AAAAATTATAATTTTTTTTAA
1 AAAAATTATAATTTTTTTTAA
58108832 AAAAATT
1 AAAAATT
58108839 CTAAAGAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
AAAAATTATAATTTTTTTTAA
Found at i:58112597 original size:21 final size:20
Alignment explanation
Indices: 58112569--58112607 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
58112559 CTTTCCAGAG
58112569 TTTTAATTTTGA-AAATCAAA
1 TTTTAA-TTTGATAAATCAAA
58112589 TTTTCAATTTGATAAATCA
1 TTTT-AATTTGATAAATCA
58112608 TAAGATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (20 bp):
TTTTAATTTGATAAATCAAA
Found at i:58113323 original size:22 final size:23
Alignment explanation
Indices: 58113267--58113324 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
58113257 CGGCCCGTTT
* * *
58113267 TTAATTAAAATTAAAATTATTTTT
1 TTAA-TAAAATTAAAACTATATTG
58113291 TTAATAAAATTAAAACTA-ATTG
1 TTAATAAAATTAAAACTATATTG
*
58113313 TTAGTAAAATTA
1 TTAATAAAATTA
58113325 TCAAATTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 13 0.43
23 13 0.43
24 4 0.13
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (23 bp):
TTAATAAAATTAAAACTATATTG
Found at i:58113403 original size:59 final size:59
Alignment explanation
Indices: 58113335--58113474 Score: 271
Period size: 59 Copynumber: 2.4 Consensus size: 59
58113325 TCAAATTATT
*
58113335 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
58113394 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
58113453 AATTATTAATTGTATTAATTGT
1 AATTATTAATTGTATTAATTGT
58113475 ATTAATTGTT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
59 80 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.47
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:58113468 original size:9 final size:9
Alignment explanation
Indices: 58113456--58113483 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
58113446 TTTATCAAAT
58113456 TATTAATTG
1 TATTAATTG
58113465 TATTAATTG
1 TATTAATTG
58113474 TATTAATTG
1 TATTAATTG
58113483 T
1 T
58113484 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:58114427 original size:50 final size:54
Alignment explanation
Indices: 58114343--58114445 Score: 169
Period size: 50 Copynumber: 2.0 Consensus size: 54
58114333 GGCCCATTTT
*
58114343 TATTTTAAAAATTTTAAAAAATTAAAATAAAGTATTTTAAAAATATTTTAAAAA
1 TATTTTAAAAATTTAAAAAAATTAAAATAAAGTATTTTAAAAATATTTTAAAAA
58114397 TATTTT-AAAA-TTAAAAAAATT-AAA-AAAGTATTTTAAAAATATTTTAAAA
1 TATTTTAAAAATTTAAAAAAATTAAAATAAAGTATTTTAAAAATATTTTAAAA
58114446 TTAAAATTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
50 25 0.52
51 3 0.06
52 10 0.21
53 4 0.08
54 6 0.12
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (54 bp):
TATTTTAAAAATTTAAAAAAATTAAAATAAAGTATTTTAAAAATATTTTAAAAA
Found at i:58114494 original size:16 final size:15
Alignment explanation
Indices: 58114418--58114478 Score: 58
Period size: 15 Copynumber: 4.2 Consensus size: 15
58114408 TAAAAAAATT
58114418 AAAAAAGTATTTT--
1 AAAAAAGTATTTTAA
58114431 -AAAAA-TATTTTAA
1 AAAAAAGTATTTTAA
* *
58114444 AATTAAAATTTTTTTAA
1 AA--AAAAGTATTTTAA
58114461 AAAAAAGTATTTTAA
1 AAAAAAGTATTTTAA
58114476 AAA
1 AAA
58114479 TATTTTAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
11 6 0.15
12 5 0.13
14 1 0.03
15 14 0.36
16 4 0.10
17 9 0.23
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.39
Consensus pattern (15 bp):
AAAAAAGTATTTTAA
Found at i:58114502 original size:17 final size:17
Alignment explanation
Indices: 58114472--58114505 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
58114462 AAAAAGTATT
* *
58114472 TTAAAAATATTTTAAAA
1 TTAAAAAAAATTTAAAA
58114489 TTAAAAAAAATTTAAAA
1 TTAAAAAAAATTTAAAA
58114506 AAGTATGTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAAAAAAATTTAAAA
Found at i:58114519 original size:84 final size:81
Alignment explanation
Indices: 58114381--58114535 Score: 265
Period size: 84 Copynumber: 1.9 Consensus size: 81
58114371 AAAGTATTTT
* *
58114381 AAAAATATTTTAAAAATATTTTAAAATTAAAAAAATTAAAAAAGTATTTTAAAAATATTTTAAAA
1 AAAAATATTTTAAAAATATTTTAAAATTAAAAAAATTAAAAAAGTATGTAAAAAATATTTTAAAA
58114446 TTAAAATTTTTTTAAA
66 TTAAAATTTTTTTAAA
58114462 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAATTTAAAAAAGTATGTAAAAAATATTTTA
1 AAAAA-TATTTTAAAAATATTTTAAAATT-AAAAAAA-TTAAAAAAGTATGTAAAAAATATTTTA
58114527 AAATTAAAA
63 AAATTAAAA
58114536 AAATAAATAT
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
81 5 0.07
82 23 0.33
83 7 0.10
84 34 0.49
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (81 bp):
AAAAATATTTTAAAAATATTTTAAAATTAAAAAAATTAAAAAAGTATGTAAAAAATATTTTAAAA
TTAAAATTTTTTTAAA
Found at i:58114529 original size:11 final size:11
Alignment explanation
Indices: 58114343--58114445 Score: 80
Period size: 11 Copynumber: 9.9 Consensus size: 11
58114333 GGCCCATTTT
58114343 TATTTT-AAAA
1 TATTTTAAAAA
58114353 -ATTTTAAAAA
1 TATTTTAAAAA
**
58114363 -ATTAAAATAAA
1 TATTTTAA-AAA
58114374 GTATTTTAAAAA
1 -TATTTTAAAAA
58114386 TATTTTAAAAA
1 TATTTTAAAAA
58114397 TATTTT--AAA
1 TATTTTAAAAA
58114406 -A--TTAAAAA
1 TATTTTAAAAA
* *
58114414 -AATTAAAAAA
1 TATTTTAAAAA
58114424 GTATTTTAAAAA
1 -TATTTTAAAAA
58114436 TATTTTAAAA
1 TATTTTAAAA
58114446 TTAAAATTTT
Statistics
Matches: 76, Mismatches: 7, Indels: 19
0.75 0.07 0.19
Matches are distributed among these distances:
6 2 0.03
8 5 0.07
9 8 0.11
10 15 0.20
11 30 0.39
12 11 0.14
13 5 0.07
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:58114538 original size:43 final size:41
Alignment explanation
Indices: 58114343--58114538 Score: 238
Period size: 43 Copynumber: 4.7 Consensus size: 41
58114333 GGCCCATTTT
* *
58114343 TATTTTAAAAAT-TTTAAAAAATTAAAATAAAGTATTTTAAAAA-
1 TATTTTAAAAATATTT-TAAAATTAAAA-AAA--ATTTAAAAAAG
58114386 TATTTTAAAAATATTTTAAAATT-AAAAAAA-TTAAAAAAG
1 TATTTTAAAAATATTTTAAAATTAAAAAAAATTTAAAAAAG
****
58114425 TATTTTAAAAATATTTTAAAATTAAAATTTTTTTAAAAAAAAG
1 TATTTTAAAAATATTTTAAAATTAAAAAAAATTT--AAAAAAG
58114468 TATTTTAAAAATATTTTAAAATTAAAAAAAATTTAAAAAAG
1 TATTTTAAAAATATTTTAAAATTAAAAAAAATTTAAAAAAG
* *
58114509 TATGTAAAAAATATTTTAAAATTAAAAAAA
1 TATTTTAAAAATATTTTAAAATTAAAAAAA
58114539 TAAATATATT
Statistics
Matches: 135, Mismatches: 12, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
38 7 0.05
39 24 0.18
40 3 0.02
41 40 0.30
42 3 0.02
43 55 0.41
44 3 0.02
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (41 bp):
TATTTTAAAAATATTTTAAAATTAAAAAAAATTTAAAAAAG
Found at i:58114539 original size:93 final size:93
Alignment explanation
Indices: 58114364--58114539 Score: 216
Period size: 93 Copynumber: 1.9 Consensus size: 93
58114354 TTTTAAAAAA
* ***
58114364 TTAAAATAAAGTATTTTAAAAATATTTTAAAAATATTTTAAAATTAAAAAAATTAAAAAAGTATT
1 TTAAAAAAAAGTATTTTAAAAATATTTTAAAAATATAAAAAAATTAAAAAAATTAAAAAAGTATT
***
58114429 TTAAAAATATTTTAAAATTAAAATTTTT
66 TTAAAAATATAAAAAAATTAAAATTTTT
*
58114457 TTAAAAAAAAGTATTTTAAAAATATTTTAAAATTA-AAAAAAATTTAAAAAAGTATGTAAAAAA-
1 TTAAAAAAAAGTATTTTAAAAATATTTTAAAAATATAAAAAAA-TTAAAAAA--AT-TAAAAAAG
58114520 TATTTT-AAAAT-TAAAAAAAT
62 TATTTTAAAAATATAAAAAAAT
58114540 AAATATATTT
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
92 4 0.06
93 47 0.66
94 5 0.07
95 8 0.11
96 7 0.10
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (93 bp):
TTAAAAAAAAGTATTTTAAAAATATTTTAAAAATATAAAAAAATTAAAAAAATTAAAAAAGTATT
TTAAAAATATAAAAAAATTAAAATTTTT
Found at i:58115554 original size:104 final size:104
Alignment explanation
Indices: 58115410--58115607 Score: 265
Period size: 104 Copynumber: 1.9 Consensus size: 104
58115400 GGCAAACCAC
* * * *
58115410 ATGGGCGTGTGCCTAGGCCGTGTAAGCCACACAGGTAAGGACATGGGCGTGTGTCCC-AGCCGTG
1 ATGGGCATATGCCTAAGCCGTGTAAGCCACACAGGTAAGGACATAGGCGTGTGTCCCGA-CCGTG
* *
58115474 TAACTCACTGTTTATTATTTAGAATCACACGATCAAGAAT
65 TAACTCACTATTTATGATTTAGAATCACACGATCAAGAAT
* * * *
58115514 ATGGGCATATGCCTAAGCCTTGTGAGCCACAC-GGTCAAGGACATAGGCGTGTGTCTCGACTGTG
1 ATGGGCATATGCCTAAGCCGTGTAAGCCACACAGGT-AAGGACATAGGCGTGTGTCCCGACCGTG
*
58115578 TAACTCACTATTTATGGTTTAGAATCACAC
65 TAACTCACTATTTATGATTTAGAATCACAC
58115608 AAGCAGGGGA
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
103 3 0.04
104 77 0.95
105 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (104 bp):
ATGGGCATATGCCTAAGCCGTGTAAGCCACACAGGTAAGGACATAGGCGTGTGTCCCGACCGTGT
AACTCACTATTTATGATTTAGAATCACACGATCAAGAAT
Found at i:58118576 original size:13 final size:14
Alignment explanation
Indices: 58118549--58118591 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
58118539 TTTTTCTTCT
58118549 AAAAATTAGCATAC
1 AAAAATTAGCATAC
*
58118563 AAAAATT-GCCTAC
1 AAAAATTAGCATAC
58118576 AAAAATTAGCATAC
1 AAAAATTAGCATAC
58118590 AA
1 AA
58118592 TCTTTGGTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 12 0.46
14 14 0.54
ACGTcount: A:0.56, C:0.16, G:0.07, T:0.21
Consensus pattern (14 bp):
AAAAATTAGCATAC
Found at i:58120154 original size:43 final size:43
Alignment explanation
Indices: 58120086--58120168 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
58120076 ATACGCTACT
58120086 AGATGGTTGTGAATACACAACATAAATGTAGATGAGAGCTGTC
1 AGATGGTTGTGAATACACAACATAAATGTAGATGAGAGCTGTC
* *
58120129 AGATGGTTGTGAATACATAAGATAAATGTAGATGAGAGCT
1 AGATGGTTGTGAATACACAACATAAATGTAGATGAGAGCT
58120169 ACCAGAAAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.27
Consensus pattern (43 bp):
AGATGGTTGTGAATACACAACATAAATGTAGATGAGAGCTGTC
Found at i:58122338 original size:21 final size:21
Alignment explanation
Indices: 58122301--58122353 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
58122291 GGAGAAGAGA
*
58122301 AATGG-GTTATGTAATATGTTT
1 AATGGAGTTTTGTAATAT-TTT
58122322 AATGGAGTTTTGT-ATATTTT
1 AATGGAGTTTTGTAATATTTT
*
58122342 -CTGGAGTTTTGT
1 AATGGAGTTTTGT
58122354 TATTAGAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 11 0.38
20 3 0.10
21 9 0.31
22 6 0.21
ACGTcount: A:0.23, C:0.02, G:0.25, T:0.51
Consensus pattern (21 bp):
AATGGAGTTTTGTAATATTTT
Found at i:58124025 original size:22 final size:23
Alignment explanation
Indices: 58123984--58124031 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
58123974 ACCAAACACA
*
58123984 TTTAATATAAAATTAAAAAATTT
1 TTTAATATAAAATTAAAAAATAT
58124007 TTTAA-ATGAAAA-TAAAAAATAT
1 TTTAATAT-AAAATTAAAAAATAT
58124029 TTT
1 TTT
58124032 CATAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
TTTAATATAAAATTAAAAAATAT
Found at i:58125292 original size:16 final size:17
Alignment explanation
Indices: 58125255--58125294 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
58125245 AAATATAAAA
58125255 TATTTTTATATTAATAT
1 TATTTTTATATTAATAT
58125272 T-TTTTTCAT-TTAAT-T
1 TATTTTT-ATATTAATAT
58125287 TATTTTTA
1 TATTTTTA
58125295 AAAACATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
15 3 0.14
16 15 0.71
17 3 0.14
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
TATTTTTATATTAATAT
Found at i:58145112 original size:19 final size:19
Alignment explanation
Indices: 58145071--58145112 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
58145061 AGATTTGTTT
*
58145071 TTTATTTTTGAATTATAGT
1 TTTATTTTTGAATTATAGA
58145090 TTTATTTTATGAATT-TAGA
1 TTTATTTT-TGAATTATAGA
58145109 TTTA
1 TTTA
58145113 AAAAAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.62
Consensus pattern (19 bp):
TTTATTTTTGAATTATAGA
Found at i:58150805 original size:30 final size:31
Alignment explanation
Indices: 58150764--58150845 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 31
58150754 ATGAGCATTG
*
58150764 AAACTAAACTCAAGTACCAAATT-AAAATATA
1 AAACAAAACTCAAGTACCAAATTGAAAAT-TA
* * *
58150795 AAA-AAAACTCAAATACTAAATTGAACATTA
1 AAACAAAACTCAAGTACCAAATTGAAAATTA
* *
58150825 AAACCAAACTTAAGTACCAAA
1 AAACAAAACTCAAGTACCAAA
58150846 GAGTATATTA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
30 21 0.51
31 20 0.49
ACGTcount: A:0.59, C:0.17, G:0.04, T:0.21
Consensus pattern (31 bp):
AAACAAAACTCAAGTACCAAATTGAAAATTA
Found at i:58151169 original size:25 final size:27
Alignment explanation
Indices: 58151141--58151198 Score: 93
Period size: 25 Copynumber: 2.2 Consensus size: 27
58151131 TTAAAAATCT
*
58151141 TTTTCATAAATA-TTTCAAAA-AAAAG
1 TTTTCATAAATATTTTAAAAAGAAAAG
58151166 TTTTCATAAATATTTTAAAAAGAAAAG
1 TTTTCATAAATATTTTAAAAAGAAAAG
58151193 TTTTCA
1 TTTTCA
58151199 AGTAAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 12 0.40
26 7 0.23
27 11 0.37
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (27 bp):
TTTTCATAAATATTTTAAAAAGAAAAG
Found at i:58156087 original size:113 final size:111
Alignment explanation
Indices: 58155888--58156112 Score: 387
Period size: 113 Copynumber: 2.0 Consensus size: 111
58155878 TTTTGTATGA
*
58155888 TGATGGCCACACATATATCTCAACCTAAAGTAAGAAGATTTAAGCAATTCCTATGTATTTACCTT
1 TGATGGCCACACATATATCTCAACCTAAAGTAAGAAGATTTAAGCAATTCCTATGTATTGACCTT
58155953 TAACTACTATTTAACGGAAGCTCATCTACATTAGATAAATTATTGT
66 TAACTACTATTTAACGGAAGCTCATCTACATTAGATAAATTATTGT
*
58155999 TGATGGCCACACATATATATCTCAAGCTAAAGTAAGAAGATTTAAGCAATTCCTATGTATTGACC
1 TGATGGCCACAC--ATATATCTCAACCTAAAGTAAGAAGATTTAAGCAATTCCTATGTATTGACC
* * *
58156064 TTTAACTAGTATTTAATGTAAGCTCATCTACATTAGATAAATTATTGT
64 TTTAACTACTATTTAACGGAAGCTCATCTACATTAGATAAATTATTGT
58156112 T
1 T
58156113 TATAATATTT
Statistics
Matches: 107, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
111 12 0.11
113 95 0.89
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.35
Consensus pattern (111 bp):
TGATGGCCACACATATATCTCAACCTAAAGTAAGAAGATTTAAGCAATTCCTATGTATTGACCTT
TAACTACTATTTAACGGAAGCTCATCTACATTAGATAAATTATTGT
Found at i:58173961 original size:49 final size:50
Alignment explanation
Indices: 58173893--58173990 Score: 144
Period size: 50 Copynumber: 2.0 Consensus size: 50
58173883 TCTTATAAAG
* * *
58173893 AACATATGGAAAGCATT-AAACACGTTATATTCTTTCCAAAAAGAATTAT
1 AACATATGGAAAACATTAAAAAACATTATATTCTTTCCAAAAAGAATTAT
* *
58173942 AACATATGGAAAACATTAAAAAATATTATATTTTTTCCAAAAAGAATTA
1 AACATATGGAAAACATTAAAAAACATTATATTCTTTCCAAAAAGAATTA
58173991 AAACTACCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 16 0.37
50 27 0.63
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (50 bp):
AACATATGGAAAACATTAAAAAACATTATATTCTTTCCAAAAAGAATTAT
Found at i:58176246 original size:9 final size:9
Alignment explanation
Indices: 58176232--58176262 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
58176222 GTTAAACGAA
58176232 TCGAGTTAT
1 TCGAGTTAT
*
58176241 TCGAGTTAA
1 TCGAGTTAT
58176250 TCGAGTTAT
1 TCGAGTTAT
58176259 TCGA
1 TCGA
58176263 ATGAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:58182335 original size:15 final size:15
Alignment explanation
Indices: 58182315--58182422 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
58182305 TTTATGGAAA
58182315 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
58182330 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
58182344 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
58182360 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
58182374 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
58182390 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
58182404 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
58182420 ATC
1 ATC
58182423 GAGATATTGG
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:58182344 original size:30 final size:30
Alignment explanation
Indices: 58182308--58182422 Score: 203
Period size: 30 Copynumber: 3.8 Consensus size: 30
58182298 ATCCATATTT
*
58182308 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
58182338 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
58182368 TTGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
58182398 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
58182423 GAGATATTGG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 83 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:58187026 original size:15 final size:15
Alignment explanation
Indices: 58187006--58187126 Score: 79
Period size: 15 Copynumber: 8.1 Consensus size: 15
58186996 TTTATGGAAA
58187006 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
58187021 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
58187035 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
58187051 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
58187065 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
58187081 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
*
58187095 AGTCAAAGATATAGGT
1 A-TCAAAGATATGGGT
* *
58187111 ATC-GAGATATTGGT
1 ATCAAAGATATGGGT
58187125 AT
1 AT
58187127 AATAAAATCT
Statistics
Matches: 79, Mismatches: 21, Indels: 13
0.70 0.19 0.12
Matches are distributed among these distances:
14 24 0.30
15 43 0.54
16 12 0.15
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.27
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:58187035 original size:30 final size:30
Alignment explanation
Indices: 58186999--58187113 Score: 194
Period size: 30 Copynumber: 3.8 Consensus size: 30
58186989 ATCCATATTT
*
58186999 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
58187029 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
58187059 TTGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
* *
58187089 TTGGAAAGTCAAAGATATAGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
58187114 GAGATATTGG
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 82 1.00
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:58209399 original size:17 final size:17
Alignment explanation
Indices: 58209379--58209432 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
58209369 TTATTTATTT
58209379 TTTTAATTTTAAAAT-A
1 TTTTAATTTTAAAATAA
* *
58209395 CTTT--TTTTAAAAAAA
1 TTTTAATTTTAAAATAA
* *
58209410 ATTTAATTTTAAAATAT
1 TTTTAATTTTAAAATAA
58209427 TTTTAA
1 TTTTAA
58209433 AATACATTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
14 8 0.28
15 4 0.14
16 3 0.10
17 14 0.48
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTAATTTTAAAATAA
Found at i:58209455 original size:40 final size:40
Alignment explanation
Indices: 58209411--58209490 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
58209401 TTAAAAAAAA
58209411 TTTAATTTTAAAATATTTTTAAAATACA-TTTTTAATTTTT
1 TTTAATTTTAAAATATTTTTAAAATA-ATTTTTTAATTTTT
58209451 TTTAATTTTAAAATATTTTTAAAATAATTTTTTAATTTTT
1 TTTAATTTTAAAATATTTTTAAAATAATTTTTTAATTTTT
58209491 AAAATAAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 1 0.03
40 38 0.97
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (40 bp):
TTTAATTTTAAAATATTTTTAAAATAATTTTTTAATTTTT
Found at i:58214594 original size:176 final size:178
Alignment explanation
Indices: 58214294--58214649 Score: 576
Period size: 176 Copynumber: 2.0 Consensus size: 178
58214284 AATTATTCTA
58214294 GGGACCCCACAATAAATAACCCAATTTAATTTAAACAAAATAAAAAAAATTAAATATAAAAGGGC
1 GGGACCCCACAATAAATAACCCAATTTAATTTAAACAAAATAAAAAAAATTAAATATAAAAGGGC
* *
58214359 TAAATTACGGAATAAAGCCTTTTTTTCAAATTTACGAAAATAGGCCAGTTTTTTTTAAATGACAT
66 TAAATTACGGAATAAAGCCTTTTTTTCAAAATTACGAAAATAGGCCAGTTTTTTTTAAATGACAG
* * *
58214424 AAATGGGCCGATTTTTCTAAAACGCATCTAACTAGTGTTGTTTTTATG
131 AAATGGGCCGATTTTACTAAAACGCATCCAACTAGTGTCGTTTTTATG
*
58214472 GGGACCCCACAATAAATAACCCAATTTAATTTAAACAAAAT-AAAAAAA-TAAATATAAAA-GGT
1 GGGACCCCACAATAAATAACCCAATTTAATTTAAACAAAATAAAAAAAATTAAATATAAAAGGGC
*
58214534 TAAATTACGGAATAAAGCCCTTTTTTTCAAAATTAC-AGAAATAGGCTAGTTTTTTTTAAATGAC
66 TAAATTACGGAATAAAG-CCTTTTTTTCAAAATTACGA-AAATAGGCCAGTTTTTTTTAAATGAC
* **
58214598 AGGAATGGGCCGATTTTACTAAAACGTGTCCAACTAGTGTCGTTTTTATG
129 AGAAATGGGCCGATTTTACTAAAACGCATCCAACTAGTGTCGTTTTTATG
58214648 GG
1 GG
58214650 AAAATCTAAA
Statistics
Matches: 166, Mismatches: 10, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
175 20 0.12
176 98 0.59
177 7 0.04
178 41 0.25
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (178 bp):
GGGACCCCACAATAAATAACCCAATTTAATTTAAACAAAATAAAAAAAATTAAATATAAAAGGGC
TAAATTACGGAATAAAGCCTTTTTTTCAAAATTACGAAAATAGGCCAGTTTTTTTTAAATGACAG
AAATGGGCCGATTTTACTAAAACGCATCCAACTAGTGTCGTTTTTATG
Found at i:58214780 original size:2 final size:2
Alignment explanation
Indices: 58214773--58214811 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
58214763 CCCAACAGTA
58214773 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
58214812 GAAAGACCCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:58215116 original size:20 final size:22
Alignment explanation
Indices: 58215070--58215116 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 22
58215060 CCACTTTTCA
*
58215070 TTTTTATTACTTCTAAAATGTT
1 TTTTTATTACTTCTAAAATATT
* *
58215092 ATTTTATT-C-TCTCAAATATT
1 TTTTTATTACTTCTAAAATATT
58215112 TTTTT
1 TTTTT
58215117 TGTTTAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 13 0.62
21 1 0.05
22 7 0.33
ACGTcount: A:0.26, C:0.11, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTTTATTACTTCTAAAATATT
Found at i:58217699 original size:3 final size:3
Alignment explanation
Indices: 58217691--58217717 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
58217681 GTGGGTTCTT
58217691 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
58217718 ATTAATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:58218751 original size:24 final size:24
Alignment explanation
Indices: 58218723--58218774 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
58218713 GACAAAGTTA
* *
58218723 ATTGTTAATGTGTTATAATGTTCT
1 ATTGTTAACGTGTCATAATGTTCT
58218747 ATTGTTAACGTGTCATAATGTTCT
1 ATTGTTAACGTGTCATAATGTTCT
58218771 ATTG
1 ATTG
58218775 ATGTTATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.25, C:0.08, G:0.17, T:0.50
Consensus pattern (24 bp):
ATTGTTAACGTGTCATAATGTTCT
Found at i:58219274 original size:10 final size:10
Alignment explanation
Indices: 58219259--58219289 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
58219249 TTTCTAAAAT
58219259 TATCAAATTA
1 TATCAAATTA
58219269 TATCAAATTA
1 TATCAAATTA
58219279 TATCAAATTA
1 TATCAAATTA
58219289 T
1 T
58219290 TAATTATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (10 bp):
TATCAAATTA
Found at i:58219338 original size:19 final size:19
Alignment explanation
Indices: 58219314--58219364 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 19
58219304 TACTAACATT
58219314 TTGTTAGTAAAATTATTAA
1 TTGTTAGTAAAATTATTAA
*
58219333 TTG-T--T-AATTGTATTAA
1 TTGTTAGTAAAAT-TATTAA
58219349 TTGTTAGTAAAATTAT
1 TTGTTAGTAAAATTAT
58219365 CAAATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 10
0.68 0.05 0.27
Matches are distributed among these distances:
15 3 0.12
16 10 0.40
17 1 0.04
18 1 0.04
19 7 0.28
20 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (19 bp):
TTGTTAGTAAAATTATTAA
Found at i:58227361 original size:110 final size:111
Alignment explanation
Indices: 58227024--58227719 Score: 678
Period size: 110 Copynumber: 6.1 Consensus size: 111
58227014 TACGAAAGAA
* * * **
58227024 AAAAAAACAAAAAAAATATTTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTA
1 AAAAAAATAAAAAAAA-A-ATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTA
* *
58227089 CCAAAAATTTTTTTT-TTGTTTTTTTGTGTCAGAATCAGATTTAAAAATACG
64 -C-AAAATTTTTTTTATT-TTTTTTCGTGTCAGAATCAGA-TAAAAAATACG
* *
58227140 AAAAAAAATAAAAAAAAAAGTTTTTTTTTGGTGCTGGCTTGTCAATGGCCGGCACCCAGTACACA
1 -AAAAAAATAAAAAAAAAA----TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACA
58227205 GTACGAAGAAAATTTTTTTTTATTTTTTTTCGTGTCAGAATCAGATAAAAAAATACG
61 GTAC----AAAA-TTTTTTTTATTTTTTTTCGTGTCAGAATCAGAT-AAAAAATACG
* *
58227262 AAAAAAATAAAAAAAAAATTTTTGGGTGCTGGTCTGTCAATGGCCGGCACCCAATACACAGTAC-
1 AAAAAAATAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACA
* * *
58227326 AAATTTTTTTTA-TTTTTTTCGTGTAAGAATTAGATAAAAAATATG
66 AAATTTTTTTTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACG
* * *
58227371 AAAAAAGTTTAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGCACAGTAC
1 AAAAAA-ATAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC
**** *
58227436 AAAA--AAAATTATTTTTTTTCGTGTTAGAATCAGATAAAAAATACG
65 AAAATTTTTTTTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACG
58227481 AAAAAAAT-AAAAAAAAA--TTT---TG--GG--TG-C--TGG-C--CACCCAGTACACAGTACG
1 AAAAAAATAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC-
*
58227530 AAAATTTTTTTTGTTTTTATTTTTTTTCGTGTCAAAATCAGATAAAAAATACG
65 AAAA-----TTT-TTTTTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACG
58227583 AAAAAAATAAAAAAAAAAAAACAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACA
1 AAAAAAAT-----AAAAAAAA-AA-TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACA
58227648 CAGTACGAAGAAATTTTTTATTTTATTTTTTTTTCGTGTCAGAATCAGATAAAAAAATACG
59 CAGTAC--A-AAA--TTTT-TTTTA-TTTTTTTTCGTGTCAGAATCAGAT-AAAAAATACG
58227709 AAAAAAATAAA
1 AAAAAAATAAA
58227720 TTTTTTTTTT
Statistics
Matches: 492, Mismatches: 37, Indels: 96
0.79 0.06 0.15
Matches are distributed among these distances:
93 16 0.03
94 4 0.01
95 1 0.00
96 3 0.01
98 1 0.00
99 2 0.00
101 2 0.00
102 43 0.09
103 2 0.00
106 3 0.01
108 16 0.03
109 21 0.04
110 110 0.22
111 12 0.02
112 6 0.01
115 2 0.00
116 1 0.00
117 59 0.12
118 1 0.00
119 44 0.09
120 1 0.00
121 26 0.05
122 40 0.08
123 4 0.01
124 10 0.02
125 40 0.08
126 19 0.04
127 3 0.01
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (111 bp):
AAAAAAATAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACA
AAATTTTTTTTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACG
Found at i:58227863 original size:117 final size:115
Alignment explanation
Indices: 58227706--58228007 Score: 365
Period size: 117 Copynumber: 2.6 Consensus size: 115
58227696 ATAAAAAAAT
*
58227706 ACGAAAAAAATAAATTTTTTTTTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCATC
1 ACGAAAAAAATAAATTTTTTTTTTCGTACTGTGTACTGGGTGCCGGCCATTGACAAGCCAGCA-C
* *
58227771 CAAAAAAAATTATTTTTTA-TTTTTTTTCGTATTTTT-TATCTGATTCTGAC
65 C-AAAAAAATTATTTTTTATTTTTTTTTCGTATTTTTAAATCTGATTCTAAC
* *
58227821 ACGAAAAAAATAATTTTTTTTTTCTTCGTACTGTGTATTGGGTGCCGGCCATTGACAAGCCAGCA
1 ACGAAAAAAATAA-ATTTTTTTT-TTCGTACTGTGTACTGGGTGCCGGCCATTGACAAGCCAGCA
* *
58227886 CCCAAAAAATTTTTTTTTATTTTTTTTTCGTATTTTTAAATCTGATTCTAAC
64 CCAAAAAAATTATTTTTTATTTTTTTTTCGTATTTTTAAATCTGATTCTAAC
* * ** * ** * *
58227938 ACAAAAAAAAAAACAAAAAAATTTTTTTTGGTACTGTACACTGGGTGTCGGCCATTGACAGGCCA
1 AC----GAAAAAA-ATAAATTTTTTTTTTCGTACTGTGTACTGGGTGCCGGCCATTGACAAGCCA
58228003 GCACC
61 GCACC
58228008 CAAATTTTTT
Statistics
Matches: 160, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
115 28 0.17
116 27 0.17
117 53 0.33
120 37 0.23
121 12 0.08
122 3 0.02
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (115 bp):
ACGAAAAAAATAAATTTTTTTTTTCGTACTGTGTACTGGGTGCCGGCCATTGACAAGCCAGCACC
AAAAAAATTATTTTTTATTTTTTTTTCGTATTTTTAAATCTGATTCTAAC
Found at i:58229795 original size:21 final size:19
Alignment explanation
Indices: 58229752--58229800 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
58229742 TGATTGAACC
58229752 AATTTTTTTATTTTTAAAT
1 AATTTTTTTATTTTTAAAT
*
58229771 -ATTTTTTTATGATTTTTAAT
1 AATTTTTTTAT--TTTTAAAT
*
58229791 AATTTATTTA
1 AATTTTTTTA
58229801 ATAGAACTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 10 0.40
20 7 0.28
21 8 0.32
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
AATTTTTTTATTTTTAAAT
Found at i:58233508 original size:10 final size:10
Alignment explanation
Indices: 58233493--58233522 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
58233483 TATCATATAT
58233493 ATATATCACA
1 ATATATCACA
58233503 ATATATCACA
1 ATATATCACA
*
58233513 CTATATCACA
1 ATATATCACA
58233523 GGACTTGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (10 bp):
ATATATCACA
Found at i:58236543 original size:24 final size:24
Alignment explanation
Indices: 58236515--58236561 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
58236505 GAGATAAAAA
58236515 ATGG-TTTGAAAAAAAATAAATGAG
1 ATGGTTTTG-AAAAAAATAAATGAG
58236539 ATGGTTTTGAAAAAAATAAATGA
1 ATGGTTTTGAAAAAAATAAATGA
58236562 TCAACTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (24 bp):
ATGGTTTTGAAAAAAATAAATGAG
Found at i:58238758 original size:45 final size:46
Alignment explanation
Indices: 58238709--58238805 Score: 151
Period size: 46 Copynumber: 2.1 Consensus size: 46
58238699 TTGTAATTTA
* *
58238709 AATTTTCAAGTTTGT-ATTAATTTAATTATAACAACTATTTGGCTT
1 AATTTTCAAGTTTGTAATTAATTTAATTATAACAAATATTTGACTT
* *
58238754 AATTTTCAAGTTTGTAATTAATTTAATTATAGCAAATGTTTGACTT
1 AATTTTCAAGTTTGTAATTAATTTAATTATAACAAATATTTGACTT
58238800 AATTTT
1 AATTTT
58238806 ATTTGAAAAC
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 15 0.32
46 32 0.68
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.49
Consensus pattern (46 bp):
AATTTTCAAGTTTGTAATTAATTTAATTATAACAAATATTTGACTT
Found at i:58250642 original size:21 final size:21
Alignment explanation
Indices: 58250616--58250656 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
58250606 AGTAATATTA
58250616 CAGTAAAATTAGT-TATTGTAT
1 CAGTAAAATT-GTATATTGTAT
58250637 CAGTAAAATTGTATATTGTA
1 CAGTAAAATTGTATATTGTA
58250657 ACATTGAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.41
Consensus pattern (21 bp):
CAGTAAAATTGTATATTGTAT
Found at i:58262221 original size:19 final size:19
Alignment explanation
Indices: 58262197--58262233 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
58262187 CGTTCATGTG
*
58262197 TTTTAACAATACTAGTGGT
1 TTTTAACAATACAAGTGGT
58262216 TTTTAACAATACAAGTGG
1 TTTTAACAATACAAGTGG
58262234 AAACATGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (19 bp):
TTTTAACAATACAAGTGGT
Found at i:58266493 original size:21 final size:20
Alignment explanation
Indices: 58266467--58266505 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
58266457 TGAGGTAGTT
58266467 TTGAAATGGAAAAGTATTGAA
1 TTGAAAT-GAAAAGTATTGAA
*
58266488 TTGAAATGTAAAGTATTG
1 TTGAAATGAAAAGTATTG
58266506 CATGGAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.33
Consensus pattern (20 bp):
TTGAAATGAAAAGTATTGAA
Found at i:58266762 original size:29 final size:27
Alignment explanation
Indices: 58266690--58266762 Score: 67
Period size: 29 Copynumber: 2.6 Consensus size: 27
58266680 ACAATTGAAG
*
58266690 GTACTATGTACCGGTGTTTCAGTTCTA
1 GTACTATGTACCAGTGTTTCAGTTCTA
* * *
58266717 G-ACATTCTGTGCTAGTGTTTACAGTTCTAA
1 GTAC--TATGTACCAGTGTTT-CAGTTCT-A
58266747 GTACTATGTACCAGTG
1 GTACTATGTACCAGTG
58266763 GTGGATACCA
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
26 2 0.06
27 1 0.03
28 11 0.32
29 16 0.47
30 2 0.06
31 2 0.06
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (27 bp):
GTACTATGTACCAGTGTTTCAGTTCTA
Found at i:58268171 original size:30 final size:31
Alignment explanation
Indices: 58268137--58268198 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
58268127 AAACCTTTTT
* * *
58268137 ACTTTTCCCTCAAAACTTTTAC-TCCTTCCC
1 ACTTTCCCCCCAAAACTTTTACTTCCCTCCC
58268167 ACTTTCCCCCCAAAACTTTTACTTCCCTCCC
1 ACTTTCCCCCCAAAACTTTTACTTCCCTCCC
58268198 A
1 A
58268199 TCCCAACCCC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 20 0.71
31 8 0.29
ACGTcount: A:0.21, C:0.44, G:0.00, T:0.35
Consensus pattern (31 bp):
ACTTTCCCCCCAAAACTTTTACTTCCCTCCC
Found at i:58268350 original size:30 final size:30
Alignment explanation
Indices: 58268301--58268359 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
58268291 AACTTTTTAT
*
58268301 TTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTCCCCCAAAACTTTTACTCCCTTCCCAC
58268330 TTTCCCCCTAAAACTTTTACTCCCTTCCCA
1 TTTCCCCC-AAAACTTTTACTCCCTTCCCA
58268360 TCCCTCCCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 8 0.30
30 14 0.52
31 5 0.19
ACGTcount: A:0.20, C:0.44, G:0.00, T:0.36
Consensus pattern (30 bp):
TTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:58269396 original size:19 final size:20
Alignment explanation
Indices: 58269359--58269399 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
58269349 TACAACACAA
*
58269359 TTCAATTTCATATTGAATAT
1 TTCAATTTCATATTCAATAT
*
58269379 TTCAATTT-TTATTCAATAT
1 TTCAATTTCATATTCAATAT
58269398 TT
1 TT
58269400 GCCTAAATTC
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:58270777 original size:12 final size:12
Alignment explanation
Indices: 58270752--58270790 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
58270742 ACTCGCTTCT
* *
58270752 TTACTTACTCAC
1 TTACTTGCTTAC
*
58270764 TTACTTGTTTAC
1 TTACTTGCTTAC
58270776 TTACTTGCTTAC
1 TTACTTGCTTAC
58270788 TTA
1 TTA
58270791 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:58271106 original size:50 final size:50
Alignment explanation
Indices: 58271043--58271231 Score: 189
Period size: 50 Copynumber: 3.7 Consensus size: 50
58271033 CTGTACTGCT
* * **
58271043 AATGCCATATCCCAGATATGGTCTGACATGGGAGTTCTCATATCAGTGCC
1 AATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCC
* * ** * *
58271093 CATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCC
1 AATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCC
* * * *
58271143 AACGCCATATCCCAGACATGGTCTTACATGTGACCTCTCGTAATCTCAATGATGCT
1 AATGCCATATCCCAGACATGGTCTTACATGGGACCTCTC---ATATC-A-G-TGCC
*
58271199 AATGCCATGTCCCAGACATGGTCTTACATGGGA
1 AATGCCATATCCCAGACATGGTCTTACATGGGA
58271232 TCTCATTCCC
Statistics
Matches: 112, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
50 73 0.65
53 5 0.04
55 1 0.01
56 33 0.29
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (50 bp):
AATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCC
Found at i:58274418 original size:15 final size:15
Alignment explanation
Indices: 58274398--58274433 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
58274388 TTATACTGTT
* *
58274398 ACATTCTTGGTAATC
1 ACATTCTTAGCAATC
58274413 ACATTCTTAGCAATC
1 ACATTCTTAGCAATC
58274428 ACATTC
1 ACATTC
58274434 CCTTGGAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (15 bp):
ACATTCTTAGCAATC
Found at i:58275021 original size:6 final size:7
Alignment explanation
Indices: 58275004--58275041 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
58274994 CCTCCTTAAC
58275004 AAAAAAG
1 AAAAAAG
58275011 AAAAAAG
1 AAAAAAG
58275018 AAAAAAG
1 AAAAAAG
58275025 AAAAAAG
1 AAAAAAG
58275032 -AAAAAG
1 AAAAAAG
58275038 AAAA
1 AAAA
58275042 TTATTATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:58293263 original size:26 final size:26
Alignment explanation
Indices: 58293234--58293283 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
58293224 AAAATATATA
*
58293234 TTTATATT-TAATTATTTTATATATTT
1 TTTAT-TTATAATGATTTTATATATTT
*
58293260 TTTATTTATTATGATTTTATATAT
1 TTTATTTATAATGATTTTATATAT
58293284 AGTCATTTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (26 bp):
TTTATTTATAATGATTTTATATATTT
Found at i:58298072 original size:31 final size:30
Alignment explanation
Indices: 58298037--58298103 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
58298027 AAAGAACAGC
* * * *
58298037 AATTTTACTCTTTTTAAGAGGTTGACGATCA
1 AATTTAACTCTTTGTAAAAGGTTGA-GACCA
*
58298068 AATTTAATTCTTTGTAAAAGGTTGAGACCA
1 AATTTAACTCTTTGTAAAAGGTTGAGACCA
58298098 AATTTA
1 AATTTA
58298104 GCTCAATCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 10 0.32
31 21 0.68
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.40
Consensus pattern (30 bp):
AATTTAACTCTTTGTAAAAGGTTGAGACCA
Found at i:58298102 original size:30 final size:31
Alignment explanation
Indices: 58298045--58298103 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
58298035 GCAATTTTAC
* * *
58298045 TCTTTTTAAGAGGTTGACGATCAAATTTAAT
1 TCTTTGTAAAAGGTTGACGACCAAATTTAAT
58298076 TCTTTGTAAAAGGTTGA-GACCAAATTTA
1 TCTTTGTAAAAGGTTGACGACCAAATTTA
58298104 GCTCAATCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (31 bp):
TCTTTGTAAAAGGTTGACGACCAAATTTAAT
Found at i:58307341 original size:43 final size:43
Alignment explanation
Indices: 58307294--58307376 Score: 98
Period size: 43 Copynumber: 1.9 Consensus size: 43
58307284 AGAAGACCAC
* * *
58307294 GTCTGAGAC-GTTGGCATTGACT-TGTGTTTACGTGTAAGACCTT
1 GTCTGAGACAG-TGGCATCGA-TATGTGATTACATGTAAGACCTT
*
58307337 GTCTGGGACAGTGGCATCGATATGTGATTACATGTAAGAC
1 GTCTGAGACAGTGGCATCGATATGTGATTACATGTAAGAC
58307377 AACGTTTGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
42 1 0.03
43 32 0.94
44 1 0.03
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.33
Consensus pattern (43 bp):
GTCTGAGACAGTGGCATCGATATGTGATTACATGTAAGACCTT
Found at i:58313187 original size:22 final size:20
Alignment explanation
Indices: 58313162--58313201 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
58313152 GGGACTAAAT
58313162 CAAAAACTCAGACAATTTTTCA
1 CAAAAACTCA-A-AATTTTTCA
*
58313184 CAAAATCTCAAAATTTTT
1 CAAAAACTCAAAATTTTT
58313202 TCTAAGGTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 1 0.06
22 9 0.53
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.33
Consensus pattern (20 bp):
CAAAAACTCAAAATTTTTCA
Found at i:58314517 original size:24 final size:24
Alignment explanation
Indices: 58314473--58314544 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
58314463 TATAACAGAA
*
58314473 AGCTCACAAAGAGC-CTATAACGGGT
1 AGCTC-CAAAGAGCAAT-TAACGGGT
* *
58314498 AGCTCTAAAGAGTAATTAACGGGT
1 AGCTCCAAAGAGCAATTAACGGGT
*
58314522 AGCTCCGAAGAGCAATTAACGGG
1 AGCTCCAAAGAGCAATTAACGGG
58314545 AAGCACCTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
24 34 0.85
25 6 0.15
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.18
Consensus pattern (24 bp):
AGCTCCAAAGAGCAATTAACGGGT
Found at i:58324032 original size:17 final size:17
Alignment explanation
Indices: 58324010--58324044 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
58324000 AACAATTAAA
58324010 TAAATTGGAAATAAAAT
1 TAAATTGGAAATAAAAT
* *
58324027 TAAATTGGGAATTAAAT
1 TAAATTGGAAATAAAAT
58324044 T
1 T
58324045 CAGATTTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.34
Consensus pattern (17 bp):
TAAATTGGAAATAAAAT
Found at i:58327752 original size:17 final size:16
Alignment explanation
Indices: 58327712--58327752 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
58327702 ATAAATAAAC
58327712 AATTAAATAAATTGGA
1 AATTAAATAAATTGGA
* *
58327728 AATAAAATAAAATTGGG
1 AATTAAAT-AAATTGGA
58327745 AATTAAAT
1 AATTAAAT
58327753 TTGGATTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (16 bp):
AATTAAATAAATTGGA
Found at i:58328792 original size:26 final size:26
Alignment explanation
Indices: 58328756--58328809 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
58328746 TTGCATTCCT
58328756 ATCAAGATTAAAACATAAAATCACTA
1 ATCAAGATTAAAACATAAAATCACTA
58328782 ATCAAGATTAAAACATAAAATCACTA
1 ATCAAGATTAAAACATAAAATCACTA
58328808 AT
1 AT
58328810 TTAGCAACGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.57, C:0.15, G:0.04, T:0.24
Consensus pattern (26 bp):
ATCAAGATTAAAACATAAAATCACTA
Found at i:58329439 original size:29 final size:29
Alignment explanation
Indices: 58329365--58329435 Score: 119
Period size: 28 Copynumber: 2.5 Consensus size: 29
58329355 ATAAAAAAAA
*
58329365 TTACCAAAATGT-TATAACTTTTTTTTAT
1 TTACCAAAATATATATAACTTTTTTTTAT
58329393 TTACCAAAATATATATAA-TTTTTTTTAT
1 TTACCAAAATATATATAACTTTTTTTTAT
58329421 TTACCAAAATATATA
1 TTACCAAAATATATA
58329436 ATAAAAACTA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
28 36 0.88
29 5 0.12
ACGTcount: A:0.39, C:0.10, G:0.01, T:0.49
Consensus pattern (29 bp):
TTACCAAAATATATATAACTTTTTTTTAT
Found at i:58329581 original size:27 final size:27
Alignment explanation
Indices: 58329503--58329583 Score: 126
Period size: 27 Copynumber: 3.0 Consensus size: 27
58329493 TCCCTGGGTA
**
58329503 GAGGGAAGCAGGTTGGCGGCACCAAAC
1 GAGGGAAGCAGGTTGGCGGCACCAGTC
*
58329530 AAGGGAAGCAGGTTGGCGGCACCAGTC
1 GAGGGAAGCAGGTTGGCGGCACCAGTC
*
58329557 GAGGGAACCAGGTTGGCGGCACCAGTC
1 GAGGGAAGCAGGTTGGCGGCACCAGTC
58329584 CTGCCAACCA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.26, C:0.23, G:0.41, T:0.10
Consensus pattern (27 bp):
GAGGGAAGCAGGTTGGCGGCACCAGTC
Found at i:58329592 original size:27 final size:27
Alignment explanation
Indices: 58329511--58329605 Score: 82
Period size: 27 Copynumber: 3.5 Consensus size: 27
58329501 TAGAGGGAAG
** * ** *
58329511 CAGGTTGGCGGCACCAAACAAGGGAAG
1 CAGGTTGGCGGCACCAGTCCAGCCAAC
* **
58329538 CAGGTTGGCGGCACCAGTCGAGGGAAC
1 CAGGTTGGCGGCACCAGTCCAGCCAAC
*
58329565 CAGGTTGGCGGCACCAGTCCTGCCAAC
1 CAGGTTGGCGGCACCAGTCCAGCCAAC
* *
58329592 CAGATTGGCTGCAC
1 CAGGTTGGCGGCAC
58329606 TACTCGTGTT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.24, C:0.28, G:0.35, T:0.13
Consensus pattern (27 bp):
CAGGTTGGCGGCACCAGTCCAGCCAAC
Found at i:58329939 original size:21 final size:21
Alignment explanation
Indices: 58329891--58329942 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
58329881 AAAAATTTTA
**
58329891 TAGTATTATTATTATTGTTAT
1 TAGTATTATTAAGATTGTTAT
*
58329912 TATTATTATTAAGA-TGTTACT
1 TAGTATTATTAAGATTGTTA-T
58329933 TAGTATTATT
1 TAGTATTATT
58329943 GTTAGTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.58
Consensus pattern (21 bp):
TAGTATTATTAAGATTGTTAT
Found at i:58330692 original size:18 final size:18
Alignment explanation
Indices: 58330664--58330708 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
58330654 TTGATATGGT
* *
58330664 TGGTGGTGAAGAAGAATG
1 TGGTGGCGAAGAAGAAGG
*
58330682 TGGTTGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
58330700 TGGTGGCGA
1 TGGTGGCGA
58330709 TCATTGGGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.04, G:0.47, T:0.20
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:58333100 original size:15 final size:15
Alignment explanation
Indices: 58333076--58333114 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
58333066 CAATAAGCAC
*
58333076 AATAACTAAAACTAG
1 AATAATTAAAACTAG
*
58333091 AATAATT-AAATTAG
1 AATAATTAAAACTAG
58333105 AATAATTAAA
1 AATAATTAAA
58333115 TTGATACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (15 bp):
AATAATTAAAACTAG
Found at i:58333107 original size:14 final size:14
Alignment explanation
Indices: 58333088--58333116 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
58333078 TAACTAAAAC
58333088 TAGAATAATTAAAT
1 TAGAATAATTAAAT
58333102 TAGAATAATTAAAT
1 TAGAATAATTAAAT
58333116 T
1 T
58333117 GATACAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (14 bp):
TAGAATAATTAAAT
Found at i:58334097 original size:17 final size:17
Alignment explanation
Indices: 58334075--58334111 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
58334065 AGTAAGATGT
58334075 CATGAATATTAGAATAG
1 CATGAATATTAGAATAG
58334092 CATGAATATTAGAATAG
1 CATGAATATTAGAATAG
58334109 CAT
1 CAT
58334112 CTTACCCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (17 bp):
CATGAATATTAGAATAG
Found at i:58335474 original size:27 final size:29
Alignment explanation
Indices: 58335444--58335513 Score: 110
Period size: 28 Copynumber: 2.5 Consensus size: 29
58335434 TTTGTTTTTT
58335444 TATATATTTTGGTAAAT-AAAAAAA-TTA
1 TATATATTTTGGTAAATAAAAAAAAGTTA
*
58335471 TATATTTTTTGGTAAATAAAAAAAAGTTA
1 TATATATTTTGGTAAATAAAAAAAAGTTA
58335500 TA-ATATTTTGGTAA
1 TATATATTTTGGTAA
58335514 TTTTTTTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
27 16 0.41
28 18 0.46
29 5 0.13
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (29 bp):
TATATATTTTGGTAAATAAAAAAAAGTTA
Found at i:58335575 original size:19 final size:19
Alignment explanation
Indices: 58335551--58335591 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
58335541 TATAAAACCC
58335551 ATAATAAAACA-TTACAAAA
1 ATAATAAAACATTTA-AAAA
*
58335570 ATAATAAAATATTTAAAAA
1 ATAATAAAACATTTAAAAA
58335589 ATA
1 ATA
58335592 CCAAAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (19 bp):
ATAATAAAACATTTAAAAA
Found at i:58336344 original size:5 final size:5
Alignment explanation
Indices: 58336336--58336417 Score: 57
Period size: 5 Copynumber: 17.0 Consensus size: 5
58336326 TTTTCTCTTC
* * * *
58336336 TCCTT TCCTT TTCTT TCCTT AT--TT TTCTT T-CTT TCCTC CCCTT TCCTT
1 TCCTT TCCTT TCCTT TCCTT -TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT
* *
58336384 TTCTT T-CTT T-CTT TCCTC TCCTT TCCTTT TCCTT
1 TCCTT TCCTT TCCTT TCCTT TCCTT TCC-TT TCCTT
58336418 CTTTTTCTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
3 1 0.02
4 14 0.23
5 41 0.66
6 6 0.10
ACGTcount: A:0.01, C:0.35, G:0.00, T:0.63
Consensus pattern (5 bp):
TCCTT
Found at i:58336350 original size:33 final size:32
Alignment explanation
Indices: 58336282--58336434 Score: 120
Period size: 34 Copynumber: 4.6 Consensus size: 32
58336272 ATTACCTTAT
58336282 TTTCTTTTTTTTCCTTCCTTC-CCTCTT-CTTCTTC
1 TTTCTTTTTTTT--TTCCTTCTCCT-TTCCTT-TTC
58336316 TTTCTTTTTTTTTTCTCTTCTCCTTTCCTTTTC
1 TTTCTTTTTTTTTTC-CTTCTCCTTTCCTTTTC
*
58336349 TTTCCTTATTTTTCTTTCTTTCCTCCCCTTTCCTTTTC
1 TTT-CTT-TTTTT-TTTCCTT-CT--CCTTTCCTTTTC
*
58336387 TTTC---TTTCTTTCC-TCTCCTTTCCTTTTC
1 TTTCTTTTTTTTTTCCTTCTCCTTTCCTTTTC
*
58336415 CTTCTTTTTCTTTCTTCCTT
1 TTTCTTTTT-TTT-TTCCTT
58336435 TCTTTCTTCT
Statistics
Matches: 99, Mismatches: 5, Indels: 30
0.74 0.04 0.22
Matches are distributed among these distances:
28 15 0.15
30 2 0.02
31 3 0.03
32 9 0.09
33 19 0.19
34 22 0.22
35 7 0.07
36 6 0.06
37 1 0.01
38 15 0.15
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.67
Consensus pattern (32 bp):
TTTCTTTTTTTTTTCCTTCTCCTTTCCTTTTC
Found at i:58336386 original size:38 final size:35
Alignment explanation
Indices: 58336286--58336390 Score: 110
Period size: 36 Copynumber: 2.9 Consensus size: 35
58336276 CCTTATTTTC
*
58336286 TTTTTTTTCCTTCCTTCCCTCTT-CTTCTTCTTT-CTT
1 TTTTTTTTCTTTCC-TCCCT-TTCCTT-TTCTTTCCTT
58336322 TTTTTTTTCTCTT-CT-CCTTTCCTTTTCTTTCCTT
1 TTTTTTTTCT-TTCCTCCCTTTCCTTTTCTTTCCTT
58336356 ATTTTTCTTTCTTTCCTCCCCTTTCCTTTTCTTTC
1 -TTTTT-TTTCTTTCCT-CCCTTTCCTTTTCTTTC
58336391 TTTCTTTCCT
Statistics
Matches: 60, Mismatches: 1, Indels: 14
0.80 0.01 0.19
Matches are distributed among these distances:
33 8 0.13
34 9 0.15
35 8 0.13
36 17 0.28
37 2 0.03
38 16 0.27
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (35 bp):
TTTTTTTTCTTTCCTCCCTTTCCTTTTCTTTCCTT
Found at i:58336408 original size:38 final size:38
Alignment explanation
Indices: 58336327--58336459 Score: 103
Period size: 38 Copynumber: 3.5 Consensus size: 38
58336317 TTCTTTTTTT
* * *
58336327 TTTCTCTTCTCCTTTCCTTTTCTTTCCTTAT-TTTTCTTTC
1 TTTC-CTTCCCCTTTCCTTTTCTTT-CTT-TCTTTCCTTCC
58336367 TTTCC-TCCCCTTTCCTTTTCTTTCTTTCTTTCCTCTCC
1 TTTCCTTCCCCTTTCCTTTTCTTTCTTTCTTTCCT-TCC
** * * *
58336405 TTTCCTTTTCC-TTCTTTTTCTTTCTTCCTTT-CTTTC
1 TTTCCTTCCCCTTTCCTTTTCTTTCTTTCTTTCCTTCC
* *
58336441 TTCTTCTTCCCCTCTCCTT
1 TT-TCCTTCCCCTTTCCTT
58336460 CTTCCCCCCA
Statistics
Matches: 75, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
36 5 0.07
37 16 0.21
38 46 0.61
39 4 0.05
40 4 0.05
ACGTcount: A:0.01, C:0.36, G:0.00, T:0.63
Consensus pattern (38 bp):
TTTCCTTCCCCTTTCCTTTTCTTTCTTTCTTTCCTTCC
Found at i:58336421 original size:14 final size:14
Alignment explanation
Indices: 58336376--58336421 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
58336366 CTTTCCTCCC
*
58336376 CTTTCCTTTTCTTT
1 CTTTCCTTTTCCTT
58336390 CTTT-C-TTTCCTCT
1 CTTTCCTTTTCCT-T
58336403 CCTTTCCTTTTCCTT
1 -CTTTCCTTTTCCTT
58336418 CTTT
1 CTTT
58336422 TTCTTTCTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
12 5 0.19
13 2 0.07
14 12 0.44
15 2 0.07
16 6 0.22
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (14 bp):
CTTTCCTTTTCCTT
Found at i:58336436 original size:28 final size:28
Alignment explanation
Indices: 58336338--58336421 Score: 116
Period size: 28 Copynumber: 3.0 Consensus size: 28
58336328 TTCTCTTCTC
* *
58336338 CTTTCCTTTTCTTTCCTTATT-TTTCTTT
1 CTTTCCTCTCCTTTCCTT-TTCTTTCTTT
*
58336366 CTTTCCTCCCCTTTCCTTTTCTTTCTTT
1 CTTTCCTCTCCTTTCCTTTTCTTTCTTT
*
58336394 CTTTCCTCTCCTTTCCTTTTCCTTCTTT
1 CTTTCCTCTCCTTTCCTTTTCTTTCTTT
58336422 TTCTTTCTTC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
27 2 0.04
28 48 0.96
ACGTcount: A:0.01, C:0.35, G:0.00, T:0.64
Consensus pattern (28 bp):
CTTTCCTCTCCTTTCCTTTTCTTTCTTT
Found at i:58336441 original size:22 final size:23
Alignment explanation
Indices: 58336406--58336448 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
58336396 TTCCTCTCCT
*
58336406 TTCCTTTTCCTTCTTTTTCTTTC
1 TTCCTTTTCCTTCTTCTTCTTTC
*
58336429 TTCC-TTTCTTTCTTCTTCTT
1 TTCCTTTTCCTTCTTCTTCTT
58336449 CCCCTCTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (23 bp):
TTCCTTTTCCTTCTTCTTCTTTC
Found at i:58336446 original size:28 final size:28
Alignment explanation
Indices: 58336313--58336448 Score: 82
Period size: 32 Copynumber: 4.5 Consensus size: 28
58336303 CCTCTTCTTC
*
58336313 TTCTTTCTT-TTTTTTTTCTCTTC-TCCT
1 TTCTTTCTTCTTCTTTTTCT-TTCTTCCT
*
58336340 TTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCT
1 TT-C-TTTC-TT-CTTCTTTTTCTTTC-TTCCT
**
58336373 CCCCTTTCCTT-TTCTTTCTTTCTTTCCTCTCCT
1 -TTCTTT-CTTCTTC-TT-TTTCTTT-CT-TCCT
*
58336406 TTCCTTT-TCCTTCTTTTTCTTTCTTCCT
1 TT-CTTTCTTCTTCTTTTTCTTTCTTCCT
58336434 TTCTTTCTTCTTCTT
1 TTCTTTCTTCTTCTT
58336449 CCCCTCTCCT
Statistics
Matches: 85, Mismatches: 8, Indels: 31
0.69 0.06 0.25
Matches are distributed among these distances:
27 6 0.07
28 14 0.16
29 6 0.07
30 11 0.13
31 8 0.09
32 25 0.29
33 15 0.18
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.68
Consensus pattern (28 bp):
TTCTTTCTTCTTCTTTTTCTTTCTTCCT
Found at i:58336447 original size:18 final size:17
Alignment explanation
Indices: 58336378--58336450 Score: 55
Period size: 18 Copynumber: 4.2 Consensus size: 17
58336368 TTCCTCCCCT
58336378 TTCCTT-TTCTTTCTTTC
1 TTCCTTCTT-TTTCTTTC
* *
58336395 TTTCC-TCTCCTTTCCTT-
1 -TTCCTTCT-TTTTCTTTC
58336412 TTCCTTCTTTTTCTTTC
1 TTCCTTCTTTTTCTTTC
58336429 TTCCTTTCTTTCTTC-TTC
1 TTCC-TTCTTT-TTCTTTC
58336447 TTCC
1 TTCC
58336451 CCTCTCCTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
16 10 0.22
17 8 0.18
18 24 0.53
19 3 0.07
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (17 bp):
TTCCTTCTTTTTCTTTC
Found at i:58336459 original size:42 final size:42
Alignment explanation
Indices: 58336383--58336462 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
58336373 CCCCTTTCCT
* * * *
58336383 TTTCTTTCTTTCTTTCCTCTCCTTTCCTTTTCCTTCTTTTTC
1 TTTCTTCCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTTTTTC
* *
58336425 TTTCTTCCTTTCTTTCTTCTTCTTCCCCTCTCCTTCTT
1 TTTCTTCCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTT
58336463 CCCCCCACCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (42 bp):
TTTCTTCCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTTTTTC
Found at i:58336618 original size:16 final size:16
Alignment explanation
Indices: 58336579--58336618 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
58336569 GATTCAGGTT
*
58336579 TTTTTTCTGTTTTTTAT
1 TTTTTT-TGTTTTTTAG
58336596 TTTTTTTGTTTTTTAG
1 TTTTTTTGTTTTTTAG
58336612 TTTTTTT
1 TTTTTTT
58336619 ATATATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.05, C:0.03, G:0.07, T:0.85
Consensus pattern (16 bp):
TTTTTTTGTTTTTTAG
Found at i:58338610 original size:39 final size:41
Alignment explanation
Indices: 58338558--58338636 Score: 126
Period size: 39 Copynumber: 2.0 Consensus size: 41
58338548 TAAACATTAA
*
58338558 AAAATTATTTTAAAAAT-AAAAAAATAAAAAAA-ATATTTT
1 AAAAGTATTTTAAAAATAAAAAAAATAAAAAAATATATTTT
*
58338597 AAAAGTATTTTAAAATTAAAAAAAATAAAAAAATATATTT
1 AAAAGTATTTTAAAAATAAAAAAAATAAAAAAATATATTT
58338637 ATTATATTCG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 15 0.42
40 15 0.42
41 6 0.17
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (41 bp):
AAAAGTATTTTAAAAATAAAAAAAATAAAAAAATATATTTT
Found at i:58351875 original size:8 final size:8
Alignment explanation
Indices: 58351862--58351886 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
58351852 AGAATTATTG
58351862 TCAATTTT
1 TCAATTTT
58351870 TCAATTTT
1 TCAATTTT
58351878 TCAATTTT
1 TCAATTTT
58351886 T
1 T
58351887 AAGTTTTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (8 bp):
TCAATTTT
Found at i:58352211 original size:21 final size:22
Alignment explanation
Indices: 58352176--58352216 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
58352166 TATATATTTT
58352176 TTTCTTTTATGTTCT-TTTAAC
1 TTTCTTTTATGTTCTCTTTAAC
* *
58352197 TTTCTTTTTTTTTCTCTTTA
1 TTTCTTTTATGTTCTCTTTA
58352217 TTTTTCATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.10, C:0.15, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTCTTTTATGTTCTCTTTAAC
Found at i:58356784 original size:22 final size:22
Alignment explanation
Indices: 58356741--58356784 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
58356731 TTATTTTTTA
*
58356741 AATATTTATATTATATTAATTT
1 AATATTTATATAATATTAATTT
*
58356763 AATATTTA-ATAATTTTATATTT
1 AATATTTATATAATATTA-ATTT
58356785 TTTTCTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
AATATTTATATAATATTAATTT
Found at i:58361437 original size:20 final size:20
Alignment explanation
Indices: 58361390--58361450 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
58361380 TAACAGTTAT
* *
58361390 TATATTAATA-ATTATAAAA
1 TATATTATTACATTATATAA
*
58361409 TATATTATTTCATTATATAA
1 TATATTATTACATTATATAA
58361429 TACTA-TATTACA-TACTATAA
1 TA-TATTATTACATTA-TATAA
58361449 TA
1 TA
58361451 GTAGAGTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 10 0.29
20 23 0.66
21 2 0.06
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.46
Consensus pattern (20 bp):
TATATTATTACATTATATAA
Done.