Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold283
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: 2945114
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 15
Found at i:1726148 original size:2 final size:2
Alignment explanation
Indices: 1726143--1726171 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1726133 AAAAGAGCAC
1726143 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 A
1726172 AAAGAAGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1726690 original size:2 final size:2
Alignment explanation
Indices: 1726683--1726720 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1726673 GGTTTTAGTC
1726683 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1726721 GATGCATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1726819 original size:3 final size:3
Alignment explanation
Indices: 1726811--1726840 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
1726801 AAACAGGATA
1726811 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1726841 GATGTAGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1727062 original size:14 final size:14
Alignment explanation
Indices: 1727043--1727100 Score: 51
Period size: 13 Copynumber: 4.6 Consensus size: 14
1727033 AGTTAAAATT
1727043 TATATTTTATTAAA
1 TATATTTTATTAAA
1727057 TATA--TT-TT-AA
1 TATATTTTATTAAA
1727067 -ATA-TTTATTAACA
1 TATATTTTATTAA-A
1727080 -A-ATTTTATTAAA
1 TATATTTTATTAAA
1727092 TATATTTTA
1 TATATTTTA
1727101 AATCTTTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
9 3 0.08
10 4 0.11
11 4 0.11
12 5 0.14
13 11 0.30
14 10 0.27
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (14 bp):
TATATTTTATTAAA
Found at i:1727068 original size:11 final size:12
Alignment explanation
Indices: 1727044--1727103 Score: 63
Period size: 11 Copynumber: 5.2 Consensus size: 12
1727034 GTTAAAATTT
*
1727044 ATATTTTATTAA
1 ATATATTATTAA
1727056 ATATATT-TTAA
1 ATATATTATTAA
1727067 ATAT-TTATTAA
1 ATATATTATTAA
* *
1727078 CAAATTTTATTAA
1 -ATATATTATTAA
1727091 ATATATT-TTAA
1 ATATATTATTAA
1727102 AT
1 AT
1727104 CTTTTAAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
10 2 0.05
11 18 0.44
12 14 0.34
13 7 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (12 bp):
ATATATTATTAA
Found at i:1731758 original size:21 final size:19
Alignment explanation
Indices: 1731709--1731765 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 19
1731699 AAAATAAATT
1731709 AATTTAAATAGAAATTTAAG
1 AATTTAAAT-GAAATTTAAG
*
1731729 AATTAAAATGTAAATATTAA-
1 AATTTAAATG-AAAT-TTAAG
*
1731749 ACATTTAAATGGAATTT
1 A-ATTTAAATGAAATTT
1731766 GATTTAGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 3 0.10
20 16 0.52
21 12 0.39
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.37
Consensus pattern (19 bp):
AATTTAAATGAAATTTAAG
Found at i:1741321 original size:18 final size:19
Alignment explanation
Indices: 1741297--1741357 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
1741287 AAATACAAAT
*
1741297 TTTATATTTTATAATATAG
1 TTTATATTTTATAATATAA
1741316 TTATATATTTTATAATA-AA
1 TT-TATATTTTATAATATAA
* *
1741335 ATTATAATTTTATTATATTAA
1 TTTAT-ATTTTATAATA-TAA
1741356 TT
1 TT
1741358 ATTAATTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 3 0.09
19 14 0.41
20 14 0.41
21 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTATATTTTATAATATAA
Found at i:1741322 original size:20 final size:20
Alignment explanation
Indices: 1741294--1741359 Score: 80
Period size: 20 Copynumber: 3.3 Consensus size: 20
1741284 TTTAAATACA
*
1741294 AATTTTATATTTTATAATAT
1 AATTATATATTTTATAATAT
* *
1741314 AGTTATATATTTTATAATAA
1 AATTATATATTTTATAATAT
*
1741334 AATTATA-ATTTTATTATATT
1 AATTATATATTTTATAATA-T
1741354 AATTAT
1 AATTAT
1741360 TAATTTATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
19 10 0.26
20 29 0.74
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
AATTATATATTTTATAATAT
Found at i:1741367 original size:39 final size:41
Alignment explanation
Indices: 1741284--1741367 Score: 95
Period size: 39 Copynumber: 2.1 Consensus size: 41
1741274 AATAGAATTT
* * *
1741284 TTTA-AATACAAATTTTATATTTTATAATATAGTTATATAT
1 TTTATAATACAAATTATATATTTTATAATATAATTATATAA
*
1741324 TTTATAATA-AAATTATA-ATTTTATTATATTAATTAT-TAA
1 TTTATAATACAAATTATATATTTTATAATA-TAATTATATAA
1741363 TTTAT
1 TTTAT
1741368 TACAATATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
39 17 0.45
40 17 0.45
41 4 0.11
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (41 bp):
TTTATAATACAAATTATATATTTTATAATATAATTATATAA
Found at i:1741772 original size:16 final size:14
Alignment explanation
Indices: 1741741--1741767 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1741731 AATTTATATA
1741741 ATTATTTTTAAAAT
1 ATTATTTTTAAAAT
1741755 ATTATTTTTAAAA
1 ATTATTTTTAAAA
1741768 AATATCATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTATTTTTAAAAT
Found at i:1742054 original size:45 final size:44
Alignment explanation
Indices: 1742005--1742100 Score: 99
Period size: 45 Copynumber: 2.1 Consensus size: 44
1741995 TATTGCTGAT
* *
1742005 TAAAAAATATGATAATATT-TTTTAA-AAAAATTAATTTTAA-AATAA
1 TAAAAAATAAGA-AATATTAATTTAATAAAAA--AATTTTAATAAT-A
*
1742050 TAAAAGATAAGAAATATTAAATTTAATAAAAAAATTTTAATAATA
1 TAAAAAATAAGAAATATT-AATTTAATAAAAAAATTTTAATAATA
1742095 TAAAAA
1 TAAAAA
1742101 TAAATATAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
44 6 0.14
45 24 0.56
46 8 0.19
47 5 0.12
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (44 bp):
TAAAAAATAAGAAATATTAATTTAATAAAAAAATTTTAATAATA
Found at i:1744453 original size:3 final size:3
Alignment explanation
Indices: 1744445--1744478 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1744435 CTCATTTCTT
1744445 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1744479 CTGTTCATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1744832 original size:18 final size:18
Alignment explanation
Indices: 1744789--1744833 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
1744779 ATTTTATATA
**
1744789 ATTATATTTATTTTTAAT
1 ATTATATTTATTTAAAAT
* *
1744807 TTTTTATTTATTTAAAAT
1 ATTATATTTATTTAAAAT
1744825 ATTATATTT
1 ATTATATTT
1744834 TTATATTTAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTATATTTATTTAAAAT
Found at i:1746079 original size:27 final size:27
Alignment explanation
Indices: 1746028--1746096 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
1746018 ATCTCTTACC
**
1746028 ATATTTT-TTAATTTATT-AAAAATTAA
1 ATATTTTATTAATAAATTAAAAAATT-A
* *
1746054 AT-TTTAATTATTAAATTAAAAAATTA
1 ATATTTTATTAATAAATTAAAAAATTA
1746080 ATATTTTATTAATAAAT
1 ATATTTTATTAATAAAT
1746097 CACGATTTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
25 3 0.09
26 12 0.35
27 19 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
ATATTTTATTAATAAATTAAAAAATTA
Found at i:1746596 original size:19 final size:19
Alignment explanation
Indices: 1746574--1746611 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1746564 AATTTAATAA
1746574 TTTA-ATAATTTATATTATT
1 TTTATATAATTTAT-TTATT
*
1746593 TTTATATATTTTATTTATT
1 TTTATATAATTTATTTATT
1746612 ATAATTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTATATAATTTATTTATT
Found at i:1746596 original size:27 final size:29
Alignment explanation
Indices: 1746566--1746655 Score: 80
Period size: 28 Copynumber: 3.0 Consensus size: 29
1746556 TTAATATAAA
1746566 TTTAATA-ATTTAATAATTTATATTAT-T
1 TTTAATATATTTAATAATTTATATTATAT
1746593 TTTATATATTTTATTTATTATAA-TTATATTATAAT
1 TTTA-ATA---TATTTA--ATAATTTATATTAT-AT
*
1746628 TTTAATACA-TTAATAATTTATATTATAT
1 TTTAATATATTTAATAATTTATATTATAT
1746656 ATATTTTAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 19
0.72 0.01 0.26
Matches are distributed among these distances:
27 4 0.08
28 9 0.17
29 9 0.17
30 3 0.06
31 1 0.02
32 5 0.10
33 9 0.17
34 7 0.13
35 5 0.10
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (29 bp):
TTTAATATATTTAATAATTTATATTATAT
Found at i:1746624 original size:18 final size:17
Alignment explanation
Indices: 1746578--1746624 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 17
1746568 TAATAATTTA
1746578 ATAATTTATATTATTTTT
1 ATAA-TTATATTATTTTT
*
1746596 AT-A-TATTTTATTTATT
1 ATAATTATATTATTT-TT
1746612 ATAATTATATTAT
1 ATAATTATATTAT
1746625 AATTTTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
15 9 0.38
16 4 0.17
17 2 0.08
18 9 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
ATAATTATATTATTTTT
Found at i:1749344 original size:17 final size:16
Alignment explanation
Indices: 1749319--1749365 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 16
1749309 TTAAAAATTA
1749319 AATAAATTAATTAAAT
1 AATAAATTAATTAAAT
** *
1749335 TTTAAAATTAATAAAAT
1 AAT-AAATTAATTAAAT
1749352 AATAAATTAATTAA
1 AATAAATTAATTAA
1749366 TTCGATTTGA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATAAATTAATTAAAT
Found at i:1749361 original size:33 final size:34
Alignment explanation
Indices: 1749297--1749365 Score: 97
Period size: 33 Copynumber: 2.0 Consensus size: 34
1749287 GAACTCATTT
*
1749297 AATTTTAAAATTTTAAAAATTAAATAAATTAATTA
1 AATTTTAAAA-TTTAAAAAATAAATAAATTAATTA
1749332 AATTTTAAAA-TTAATAAAAT-AATAAATTAATTA
1 AATTTTAAAATTTAA-AAAATAAATAAATTAATTA
1749365 A
1 A
1749366 TTCGATTTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 18 0.56
34 4 0.12
35 10 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (34 bp):
AATTTTAAAATTTAAAAAATAAATAAATTAATTA
Found at i:1749367 original size:8 final size:8
Alignment explanation
Indices: 1749309--1749367 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
1749299 TTTTAAAATT
1749309 TTAA-AAA
1 TTAATAAA
1749316 TTAAATAAA
1 TT-AATAAA
1749325 TTAATTAAA
1 TTAA-TAAA
*
1749334 TT-TTAAAA
1 TTAAT-AAA
1749342 TTAATAAA
1 TTAATAAA
*
1749350 ATAATAAA
1 TTAATAAA
*
1749358 TTAATTAA
1 TTAATAAA
1749366 TT
1 TT
1749368 CGATTTGATT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
7 3 0.07
8 27 0.64
9 12 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TTAATAAA
Found at i:1749439 original size:20 final size:20
Alignment explanation
Indices: 1749414--1749451 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1749404 GAATTTATAA
*
1749414 AATTAAATAATATAATTATT
1 AATTAAATAAAATAATTATT
*
1749434 AATTAATTAAAATAATTA
1 AATTAAATAAAATAATTA
1749452 AGTTAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AATTAAATAAAATAATTATT
Found at i:1749441 original size:24 final size:23
Alignment explanation
Indices: 1749414--1749478 Score: 67
Period size: 28 Copynumber: 2.5 Consensus size: 23
1749404 GAATTTATAA
1749414 AATTAAATAATATAATTATTAATT
1 AATTAAATAAT-TAATTATTAATT
1749438 AATTAAAATAATTAAGTTAAATATAATT
1 AATT-AAATAATTAA-TT--AT-TAATT
1749466 AATATAAATAATT
1 AAT-TAAATAATT
1749479 TATTTATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
24 7 0.20
25 9 0.26
27 2 0.06
28 16 0.46
29 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
AATTAAATAATTAATTATTAATT
Found at i:1749449 original size:13 final size:13
Alignment explanation
Indices: 1749433--1749478 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 13
1749423 ATATAATTAT
1749433 TAATTAATTAAAA
1 TAATTAATTAAAA
1749446 TAATTAAGTTAAATA
1 TAATTAA-TTAAA-A
1749461 TAATTAA-TATAAA
1 TAATTAATTA-AAA
1749474 TAATT
1 TAATT
1749479 TATTTATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 15 0.50
14 7 0.23
15 8 0.27
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (13 bp):
TAATTAATTAAAA
Found at i:1749473 original size:15 final size:14
Alignment explanation
Indices: 1749433--1749475 Score: 61
Period size: 15 Copynumber: 3.0 Consensus size: 14
1749423 ATATAATTAT
1749433 TAATTAATTAAA-A
1 TAATTAATTAAATA
1749446 TAATTAAGTTAAATA
1 TAATTAA-TTAAATA
1749461 TAATTAATATAAATA
1 TAATTAAT-TAAATA
1749476 ATTTATTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 7 0.26
14 6 0.22
15 14 0.52
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (14 bp):
TAATTAATTAAATA
Found at i:1749977 original size:2 final size:2
Alignment explanation
Indices: 1749972--1750001 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1749962 ATATATTCAT
1749972 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1750002 AACACAAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1751651 original size:21 final size:22
Alignment explanation
Indices: 1751619--1751661 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
1751609 AATGAACCTG
1751619 AAATTTATTT-A-AAAATTTTT
1 AAATTTATTTAATAAAATTTTT
1751639 AAATTTAATTTAATAAAATTTTT
1 AAATTT-ATTTAATAAAATTTTT
1751662 TTGAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 6 0.30
21 4 0.20
22 1 0.05
23 9 0.45
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
AAATTTATTTAATAAAATTTTT
Found at i:1752650 original size:15 final size:15
Alignment explanation
Indices: 1752632--1752814 Score: 71
Period size: 15 Copynumber: 11.2 Consensus size: 15
1752622 GCTTTTTCTC
1752632 CTCTTCTTTCTTTGG
1 CTCTTCTTTCTTTGG
*
1752647 CTCTTCCTCTTTCTTGGG
1 CTC-T--TCTTTCTTTGG
1752665 TTCCTCATTCTCTTTCTTTGG
1 ---CTC-TTCT--TTCTTTGG
* *
1752686 CTCTTCCTTCTTAGG
1 CTCTTCTTTCTTTGG
*
1752701 TTCTTCTTTCTTCTGCTCTG
1 CTCTTCTTTCTT-TG----G
* *
1752721 CTTCTTCCTTCTTGGG
1 C-TCTTCTTTCTTTGG
*
1752737 CTCTTCTTTCTTT-T
1 CTCTTCTTTCTTTGG
* *
1752751 CTTCCTCTTTCTTGGG
1 C-TCTTCTTTCTTTGG
* * *
1752767 TTCTTCCTTGTTTGG
1 CTCTTCTTTCTTTGG
* *
1752782 CTCCTCTTTCTTCGG
1 CTCTTCTTTCTTTGG
* *
1752797 TTCCTCTTTCTTTGG
1 CTCTTCTTTCTTTGG
1752812 CTC
1 CTC
1752815 CTCCTTCTTC
Statistics
Matches: 122, Mismatches: 30, Indels: 32
0.66 0.16 0.17
Matches are distributed among these distances:
14 1 0.01
15 75 0.61
16 4 0.03
17 3 0.02
18 13 0.11
19 3 0.02
20 2 0.02
21 21 0.17
ACGTcount: A:0.01, C:0.31, G:0.13, T:0.55
Consensus pattern (15 bp):
CTCTTCTTTCTTTGG
Found at i:1752657 original size:18 final size:18
Alignment explanation
Indices: 1752636--1752693 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
1752626 TTTCTCCTCT
1752636 TCTTTCTTTGGCTCTTCC
1 TCTTTCTTTGGCTCTTCC
*
1752654 TCTTTCTTGGGTTCCTCATT-C
1 TCTTTCTTTGG---CTC-TTCC
1752675 TCTTTCTTTGGCTCTTCC
1 TCTTTCTTTGGCTCTTCC
1752693 T
1 T
1752694 TCTTAGGTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
17 2 0.06
18 15 0.45
21 14 0.42
22 2 0.06
ACGTcount: A:0.02, C:0.31, G:0.12, T:0.55
Consensus pattern (18 bp):
TCTTTCTTTGGCTCTTCC
Found at i:1752696 original size:21 final size:21
Alignment explanation
Indices: 1752636--1752696 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
1752626 TTTCTCCTCT
1752636 TCTTTCTTTGGCTCTT-C--C
1 TCTTTCTTTGGCTCTTCCTTC
* * * *
1752654 TCTTTCTTGGGTTCCTCATTC
1 TCTTTCTTTGGCTCTTCCTTC
1752675 TCTTTCTTTGGCTCTTCCTTC
1 TCTTTCTTTGGCTCTTCCTTC
1752696 T
1 T
1752697 TAGGTTCTTC
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
18 13 0.41
21 19 0.59
ACGTcount: A:0.02, C:0.31, G:0.11, T:0.56
Consensus pattern (21 bp):
TCTTTCTTTGGCTCTTCCTTC
Found at i:1752697 original size:36 final size:35
Alignment explanation
Indices: 1752636--1752749 Score: 108
Period size: 36 Copynumber: 3.1 Consensus size: 35
1752626 TTTCTCCTCT
*
1752636 TCTTTCTTTGGCTCTTCCTCTTTCTTGGGTTCCTCATTC
1 TCTTTCTTTGGCTCTT-C-C-TTCTTGGGTTCTTC-TTC
*
1752675 TCTTTCTTTGGCTCTTCCTTCTTAGGTTCTTCTT-
1 TCTTTCTTTGGCTCTTCCTTCTTGGGTTCTTCTTC
* *
1752709 TCTTCTGCTCT-GCTTCTTCCTTCTTGGGCTCTTCTT-
1 TCTT-T-CTTTGGC-TCTTCCTTCTTGGGTTCTTCTTC
1752745 TCTTT
1 TCTTT
1752750 TCTTCCTCTT
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
34 4 0.06
35 6 0.09
36 39 0.58
37 1 0.01
38 1 0.01
39 16 0.24
ACGTcount: A:0.02, C:0.30, G:0.12, T:0.56
Consensus pattern (35 bp):
TCTTTCTTTGGCTCTTCCTTCTTGGGTTCTTCTTC
Found at i:1752711 original size:30 final size:30
Alignment explanation
Indices: 1752675--1752823 Score: 129
Period size: 30 Copynumber: 4.8 Consensus size: 30
1752665 TTCCTCATTC
* *
1752675 TCTTTCTTTGGCTCTTCCTTCTTAGGTTCT
1 TCTTTCTTTGGCTCCTCCTTCTTGGGTTCT
* *
1752705 TCTTTCTTCTGCTCTGCTTCTTCCTTCTTGGGCTCT
1 TCTTTCTT-TG----GC-TCCTCCTTCTTGGGTTCT
* *
1752741 TCTTTCTTT-TCTTCCTCTTTCTTGGGTTCT
1 TCTTTCTTTGGC-TCCTCCTTCTTGGGTTCT
* * * * *
1752771 TCCTTGTTTGGCTCCTCTTTCTTCGGTTCC
1 TCTTTCTTTGGCTCCTCCTTCTTGGGTTCT
1752801 TCTTTCTTTGGCTCCTCCTTCTT
1 TCTTTCTTTGGCTCCTCCTTCTT
1752824 CTTCTCTGGC
Statistics
Matches: 98, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
30 68 0.69
31 3 0.03
35 3 0.03
36 24 0.24
ACGTcount: A:0.01, C:0.31, G:0.13, T:0.56
Consensus pattern (30 bp):
TCTTTCTTTGGCTCCTCCTTCTTGGGTTCT
Found at i:1752739 original size:21 final size:21
Alignment explanation
Indices: 1752701--1752740 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1752691 CCTTCTTAGG
* *
1752701 TTCTTCTTTCTTCTGCTCTGC
1 TTCTTCCTTCTTCGGCTCTGC
*
1752722 TTCTTCCTTCTTGGGCTCT
1 TTCTTCCTTCTTCGGCTCT
1752741 TCTTTCTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.00, C:0.33, G:0.12, T:0.55
Consensus pattern (21 bp):
TTCTTCCTTCTTCGGCTCTGC
Found at i:1752742 original size:18 final size:18
Alignment explanation
Indices: 1752687--1752744 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
1752677 TTTCTTTGGC
* *
1752687 TCTTCCTTCTTAGGTTCT
1 TCTTCCTTCTTGGGCTCT
* **
1752705 TCTTTCTTC-TGCTCTGCT
1 TCTTCCTTCTTGGGCT-CT
1752723 TCTTCCTTCTTGGGCTCT
1 TCTTCCTTCTTGGGCTCT
1752741 TCTT
1 TCTT
1752745 TCTTTTCTTC
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
17 2 0.07
18 24 0.80
19 4 0.13
ACGTcount: A:0.02, C:0.31, G:0.12, T:0.55
Consensus pattern (18 bp):
TCTTCCTTCTTGGGCTCT
Found at i:1752771 original size:45 final size:45
Alignment explanation
Indices: 1752722--1752823 Score: 123
Period size: 45 Copynumber: 2.3 Consensus size: 45
1752712 TCTGCTCTGC
* **
1752722 TTCTTCCTTCTTGGGCTCTTCTTTCTTTTCTTCCTCTTTCTTGGG
1 TTCTTCCTTCTTGGGCTCCTCTTTCTTCGCTTCCTCTTTCTTGGG
* * * *
1752767 TTCTTCCTTGTTTGGCTCCTCTTTCTTCGGTTCCTCTTTCTTTGG
1 TTCTTCCTTCTTGGGCTCCTCTTTCTTCGCTTCCTCTTTCTTGGG
* *
1752812 CTCCTCCTTCTT
1 TTCTTCCTTCTT
1752824 CTTCTCTGGC
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.00, C:0.31, G:0.13, T:0.56
Consensus pattern (45 bp):
TTCTTCCTTCTTGGGCTCCTCTTTCTTCGCTTCCTCTTTCTTGGG
Found at i:1752816 original size:15 final size:15
Alignment explanation
Indices: 1752729--1752823 Score: 75
Period size: 15 Copynumber: 6.3 Consensus size: 15
1752719 TGCTTCTTCC
* *
1752729 TTCTTGGGCTCTTCT
1 TTCTTTGGCTCCTCT
*
1752744 TTCTTT-TCTTCCTCT
1 TTCTTTGGC-TCCTCT
* * * *
1752759 TTCTTGGGTTCTTCC
1 TTCTTTGGCTCCTCT
*
1752774 TTGTTTGGCTCCTCT
1 TTCTTTGGCTCCTCT
* *
1752789 TTCTTCGGTTCCTCT
1 TTCTTTGGCTCCTCT
*
1752804 TTCTTTGGCTCCTCC
1 TTCTTTGGCTCCTCT
1752819 TTCTT
1 TTCTT
1752824 CTTCTCTGGC
Statistics
Matches: 59, Mismatches: 19, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
14 1 0.02
15 58 0.98
ACGTcount: A:0.00, C:0.31, G:0.14, T:0.56
Consensus pattern (15 bp):
TTCTTTGGCTCCTCT
Found at i:1756162 original size:12 final size:12
Alignment explanation
Indices: 1756123--1756162 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
1756113 CAGTGAATAA
1756123 TTATATTATTTT
1 TTATATTATTTT
**
1756135 TTAATATTATAAT
1 TT-ATATTATTTT
1756148 TTATATTATTTT
1 TTATATTATTTT
1756160 TTA
1 TTA
1756163 GTTTATTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATATTATTTT
Found at i:1756437 original size:16 final size:16
Alignment explanation
Indices: 1756398--1756440 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
1756388 AAATTTAAAA
1756398 TTATTTTAAATATATT
1 TTATTTTAAATATATT
**
1756414 TT-TATTTATTTATATT
1 TTAT-TTTAAATATATT
1756430 TTATTTTAAAT
1 TTATTTTAAAT
1756441 TAGTTGATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 4
0.72 0.14 0.14
Matches are distributed among these distances:
15 1 0.05
16 19 0.90
17 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTTTAAATATATT
Found at i:1756951 original size:14 final size:14
Alignment explanation
Indices: 1756928--1756974 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
1756918 TGTTTATATA
1756928 TAAA-TATAAATTT
1 TAAATTATAAATTT
1756941 TAAATTATAAATATT
1 TAAATTATAAAT-TT
1756956 TAATATT-TAAAATTT
1 TAA-ATTAT-AAATTT
1756971 TAAA
1 TAAA
1756975 ATATCAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 4 0.13
14 8 0.27
15 11 0.37
16 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TAAATTATAAATTT
Found at i:1756966 original size:15 final size:15
Alignment explanation
Indices: 1756923--1756984 Score: 51
Period size: 15 Copynumber: 4.2 Consensus size: 15
1756913 AAATATGTTT
*
1756923 ATATATAAA-TATAA
1 ATATTTAAATTATAA
1756937 AT-TTTAAATTATAA
1 ATATTTAAATTATAA
1756951 ATATTTAATATT-TAA
1 ATATTTAA-ATTATAA
*
1756966 A-ATTTTAAAATATCAA
1 ATA-TTTAAATTAT-AA
1756982 ATA
1 ATA
1756985 AATAAGTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
13 5 0.13
14 12 0.31
15 15 0.38
16 6 0.15
17 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
ATATTTAAATTATAA
Found at i:1757117 original size:18 final size:18
Alignment explanation
Indices: 1757096--1757142 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
1757086 ATCAACTATA
*
1757096 AAAAAATAAAAATTAATT
1 AAAAAATAAAAATAAATT
**
1757114 AAAAAATTTAAATAAATT
1 AAAAAATAAAAATAAATT
1757132 -AAAAATAAAAA
1 AAAAAATAAAAA
1757143 ATTTAAAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAAATAAAAATAAATT
Found at i:1757388 original size:24 final size:24
Alignment explanation
Indices: 1757363--1757426 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 24
1757353 TTGAAATCAT
1757363 TTTATCAATAT-TAATAAATAAAA
1 TTTATCAATATATAATAAATAAAA
* *
1757386 TTTATCATTATATAATTAAT--AA
1 TTTATCAATATATAATAAATAAAA
1757408 TTTAT-AATATA-ATATAAAT
1 TTTATCAATATATA-ATAAAT
1757427 TTATAATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 1 0.03
21 10 0.29
22 7 0.20
23 10 0.29
24 7 0.20
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTATCAATATATAATAAATAAAA
Found at i:1766691 original size:12 final size:12
Alignment explanation
Indices: 1766676--1766718 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
1766666 AAATAAATAA
1766676 ATTTTAAAATTT
1 ATTTTAAAATTT
**
1766688 ATTTTATTATTT
1 ATTTTAAAATTT
*
1766700 ATTATAAAATATT
1 ATTTTAAAAT-TT
1766713 ATTTTA
1 ATTTTA
1766719 TATTATATAT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
12 17 0.71
13 7 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
ATTTTAAAATTT
Found at i:1766714 original size:17 final size:17
Alignment explanation
Indices: 1766692--1766741 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
1766682 AAATTTATTT
1766692 TATTATTTATTATAAAA
1 TATTATTTATTATAAAA
**
1766709 TATTA-TT-TTATATTA
1 TATTATTTATTATAAAA
1766724 TATATATTTATT-TAAAA
1 TAT-TATTTATTATAAAA
1766741 T
1 T
1766742 TTAATCCGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
15 9 0.35
16 4 0.15
17 11 0.42
18 2 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TATTATTTATTATAAAA
Found at i:1774644 original size:88 final size:88
Alignment explanation
Indices: 1774490--1774666 Score: 300
Period size: 88 Copynumber: 2.0 Consensus size: 88
1774480 GTGAAAAATG
* * * *
1774490 TGACCTCAAGAAAGTAAGCATGATCTCTTTTTGGTCTTGCGGCATCTGTGTTGCTAAGTATTTTT
1 TGACCTCAAGAAAGTAACCATGATCTCTTTTTGGTCTTGCAGCACCTGTGTTGCTAAGTATCTTT
*
1774555 GTCTGACACTCGTATCTAAAGCA
66 GTCTGACACTCATATCTAAAGCA
*
1774578 TGACCTCAAGAAAGTAACCATTATCTCTTTTTGGTCTTGCAGCACCTGTGTTGCTAAGTATCTTT
1 TGACCTCAAGAAAGTAACCATGATCTCTTTTTGGTCTTGCAGCACCTGTGTTGCTAAGTATCTTT
1774643 GTCTGACACTCATATCTAAAGCA
66 GTCTGACACTCATATCTAAAGCA
1774666 T
1 T
1774667 ATTTGGACAT
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 83 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (88 bp):
TGACCTCAAGAAAGTAACCATGATCTCTTTTTGGTCTTGCAGCACCTGTGTTGCTAAGTATCTTT
GTCTGACACTCATATCTAAAGCA
Found at i:1783106 original size:2 final size:2
Alignment explanation
Indices: 1783099--1783127 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1783089 TTCAAATTTA
1783099 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1783128 CACCCCCCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:1784073 original size:2 final size:2
Alignment explanation
Indices: 1784066--1784112 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1784056 TTTTGGGGAT
1784066 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1784108 TA TA T
1 TA TA T
1784113 TCCGATGAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1784196 original size:2 final size:2
Alignment explanation
Indices: 1784153--1784183 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1784143 TAATTTAATT
*
1784153 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1784184 GGTTGGATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1793264 original size:17 final size:17
Alignment explanation
Indices: 1793242--1793284 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
1793232 CTACAATAGT
1793242 TGTCTTAATAAATATCC
1 TGTCTTAATAAATATCC
*
1793259 TGTCTTAATAAATATCT
1 TGTCTTAATAAATATCC
*
1793276 TATCTTAAT
1 TGTCTTAAT
1793285 GGTCTCGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.35, C:0.14, G:0.05, T:0.47
Consensus pattern (17 bp):
TGTCTTAATAAATATCC
Found at i:1793425 original size:13 final size:14
Alignment explanation
Indices: 1793388--1793427 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
1793378 ATAAAAGTAT
1793388 TAAAATTTATATTA
1 TAAAATTTATATTA
*
1793402 TAAAATATTAT-TTG
1 TAAAAT-TTATATTA
1793416 TAAAATTTATAT
1 TAAAATTTATAT
1793428 AAATATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 4 0.17
14 15 0.65
15 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (14 bp):
TAAAATTTATATTA
Found at i:1793441 original size:28 final size:27
Alignment explanation
Indices: 1793387--1793467 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 27
1793377 TATAAAAGTA
*
1793387 TTAAAATTTATATTATAAAATATTATT
1 TTAAAATTTATATTATAAAATAATATT
1793414 TGTAAAATTTATA-TA-AATATATAATATT
1 T-TAAAATTTATATTATAA-A-ATAATATT
*
1793442 TT-AAATATTATTATTATAAAAAAATA
1 TTAAAAT-TTA-TATTATAAAATAATA
1793468 ATATAAATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
26 6 0.13
27 8 0.18
28 26 0.58
29 3 0.07
30 2 0.04
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (27 bp):
TTAAAATTTATATTATAAAATAATATT
Found at i:1793461 original size:15 final size:16
Alignment explanation
Indices: 1793425--1793484 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 16
1793415 GTAAAATTTA
1793425 TATAAATATATAATAT
1 TATAAATATATAATAT
* *
1793441 TTTAAATAT-TATTAT
1 TATAAATATATAATAT
*
1793456 TATAAA-A-A-AATAA
1 TATAAATATATAATAT
1793469 TATAAATATGATAATA
1 TATAAATAT-ATAATA
1793485 ATAAAATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
13 9 0.26
14 2 0.06
15 10 0.29
16 9 0.26
17 4 0.12
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (16 bp):
TATAAATATATAATAT
Found at i:1793977 original size:17 final size:17
Alignment explanation
Indices: 1793927--1793977 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
1793917 TAAAACAATA
* *
1793927 ATATAAATATATAA-AT
1 ATATAAAAATATAATTT
*
1793943 ATATTAAAAATTAAAATTT
1 ATA-TAAAAA-TATAATTT
1793962 ATATAAAAATATAATT
1 ATATAAAAATATAATT
1793978 ATAATTATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 3 0.11
17 11 0.39
18 10 0.36
19 4 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
ATATAAAAATATAATTT
Found at i:1794557 original size:37 final size:36
Alignment explanation
Indices: 1794516--1794612 Score: 85
Period size: 37 Copynumber: 2.7 Consensus size: 36
1794506 TAAATTGACA
*
1794516 TAAATTATTATATAAATAATAAAAAAT-TATTTTTATT
1 TAAATTATTATATAAATAATAAAAAATATA-ATTT-TT
* * *
1794553 TAAATT-TAATTATAAATATTAATATAATATAATTTTT
1 TAAATTATTA-TATAAATAATAA-AAAATATAATTTTT
1794590 TAATATTATT-T-TAAATAATAAAA
1 TAA-ATTATTATATAAATAATAAAA
1794613 TAAGCTTTTG
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
35 1 0.02
36 11 0.23
37 23 0.48
38 10 0.21
39 3 0.06
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (36 bp):
TAAATTATTATATAAATAATAAAAAATATAATTTTT
Found at i:1795548 original size:27 final size:27
Alignment explanation
Indices: 1795515--1795577 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
1795505 TTTTTTATTT
* * *
1795515 TAAAAAATGGT-ATGATATAAATAGATA
1 TAAAAAATAGTAATAATAT-AATAAATA
*
1795542 TAAAAAATATTAATAATATAATAAATA
1 TAAAAAATAGTAATAATATAATAAATA
1795569 TAAAAAATA
1 TAAAAAATA
1795578 ATATAAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 25 0.81
28 6 0.19
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.30
Consensus pattern (27 bp):
TAAAAAATAGTAATAATATAATAAATA
Found at i:1795562 original size:18 final size:19
Alignment explanation
Indices: 1795529--1795572 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
1795519 AAATGGTATG
1795529 ATATAAATAGATATAAAAA
1 ATATAAATAGATATAAAAA
* *
1795548 ATATTAATA-ATATAATAA
1 ATATAAATAGATATAAAAA
1795566 ATATAAA
1 ATATAAA
1795573 AAATAATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (19 bp):
ATATAAATAGATATAAAAA
Found at i:1795568 original size:9 final size:9
Alignment explanation
Indices: 1795529--1795587 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
1795519 AAATGGTATG
*
1795529 ATATAAATAG
1 ATAT-AATAA
*
1795539 ATATAAAAA
1 ATATAATAA
1795548 ATATTAAT-A
1 ATA-TAATAA
1795557 ATATAATAA
1 ATATAATAA
*
1795566 ATATAAAAA
1 ATATAATAA
1795575 ATA-ATATAA
1 ATATA-ATAA
1795584 ATAT
1 ATAT
1795588 TATATATACA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
8 5 0.12
9 28 0.70
10 7 0.17
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (9 bp):
ATATAATAA
Found at i:1795577 original size:18 final size:18
Alignment explanation
Indices: 1795529--1795587 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
1795519 AAATGGTATG
* *
1795529 ATATAAATAGATATAAAAA
1 ATATAAA-AAATATAATAA
* *
1795548 ATATTAATAATATAATAA
1 ATATAAAAAATATAATAA
1795566 ATATAAAAAATA-ATATAA
1 ATATAAAAAATATA-ATAA
1795584 ATAT
1 ATAT
1795588 TATATATACA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
17 1 0.03
18 26 0.79
19 6 0.18
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
ATATAAAAAATATAATAA
Found at i:1795846 original size:12 final size:13
Alignment explanation
Indices: 1795829--1795858 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1795819 ACCAATCAAA
1795829 TTAAATTT-AAAT
1 TTAAATTTAAAAT
1795841 TTAAATTTAAAAT
1 TTAAATTTAAAAT
1795854 TTAAA
1 TTAAA
1795859 ATTTTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TTAAATTTAAAAT
Found at i:1795862 original size:7 final size:6
Alignment explanation
Indices: 1795829--1795858 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
1795819 ACCAATCAAA
1795829 TTAAAT TTAAAT TTAAAT TTAAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TT-AAAT TTAAA
1795859 ATTTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
TTAAAT
Found at i:1795959 original size:20 final size:20
Alignment explanation
Indices: 1795921--1795959 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1795911 ATATATTAAA
* * *
1795921 AAATATATTTTTAATATATT
1 AAATATAATTATAAAATATT
1795941 AAATATAATTATAAAATAT
1 AAATATAATTATAAAATAT
1795960 AAAAATATAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AAATATAATTATAAAATATT
Found at i:1796840 original size:62 final size:62
Alignment explanation
Indices: 1796764--1796891 Score: 229
Period size: 62 Copynumber: 2.1 Consensus size: 62
1796754 CAAATAACTA
*
1796764 TTAATGTTCGTATTTAATGTAAAACATTACTTTAGATAATATTTTAATTAAGTTTAATATAT
1 TTAATGTTCGTATTTAATGTAAAACATTACTATAGATAATATTTTAATTAAGTTTAATATAT
* *
1796826 TTAATGTTCGTATTTAATGTAGAACATTACTATAGATAATGTTTTAATTAAGTTTAATATAT
1 TTAATGTTCGTATTTAATGTAAAACATTACTATAGATAATATTTTAATTAAGTTTAATATAT
1796888 TTAA
1 TTAA
1796892 GAGGTGGGGC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (62 bp):
TTAATGTTCGTATTTAATGTAAAACATTACTATAGATAATATTTTAATTAAGTTTAATATAT
Found at i:1797243 original size:28 final size:29
Alignment explanation
Indices: 1797211--1797267 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
1797201 CCAATAAGTT
*
1797211 TAGTTAAATT-ATTATTTCTAAT-TATTAA
1 TAGTTAAATTAATAATTT-TAATATATTAA
*
1797239 TAGTTAATTTAATAATTTTAATATATTAA
1 TAGTTAAATTAATAATTTTAATATATTAA
1797268 AAATAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (29 bp):
TAGTTAAATTAATAATTTTAATATATTAA
Found at i:1797466 original size:12 final size:12
Alignment explanation
Indices: 1797449--1797481 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
1797439 AATAACATAC
1797449 TTATATTATTTT
1 TTATATTATTTT
1797461 TTATATTATTTT
1 TTATATTATTTT
1797473 TTATCATTA
1 TTAT-ATTA
1797482 AATTATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (12 bp):
TTATATTATTTT
Found at i:1797561 original size:15 final size:16
Alignment explanation
Indices: 1797541--1797579 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
1797531 AAAACAATTT
1797541 ATTATTTAT-TAAAAA
1 ATTATTTATATAAAAA
*
1797556 ATTATTTATATAATAA
1 ATTATTTATATAAAAA
*
1797572 ATTTTTTA
1 ATTATTTA
1797580 AAAAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTATTTATATAAAAA
Found at i:1797722 original size:8 final size:8
Alignment explanation
Indices: 1797683--1797736 Score: 51
Period size: 8 Copynumber: 7.1 Consensus size: 8
1797673 ATAATAATTA
1797683 TTATATAT
1 TTATATAT
*
1797691 ATATATAT
1 TTATATAT
*
1797699 ATATATA-
1 TTATATAT
*
1797706 TGATA-AT
1 TTATATAT
1797713 TTATATAT
1 TTATATAT
*
1797721 TTTTATAT
1 TTATATAT
1797729 TT-TATAT
1 TTATATAT
1797736 T
1 T
1797737 ACTATAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
6 1 0.03
7 13 0.33
8 25 0.64
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (8 bp):
TTATATAT
Found at i:1803618 original size:14 final size:15
Alignment explanation
Indices: 1803574--1803619 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 15
1803564 TAAATTCTTA
1803574 TATAATTTATATTTAT
1 TATAATTTA-ATTTAT
*
1803590 T-TAATTCAA-TTAT
1 TATAATTTAATTTAT
1803603 TAT-ATTTAATTTAT
1 TATAATTTAATTTAT
1803617 TAT
1 TAT
1803620 TTATGTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 10 0.38
14 9 0.35
15 6 0.23
16 1 0.04
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (15 bp):
TATAATTTAATTTAT
Found at i:1803704 original size:22 final size:23
Alignment explanation
Indices: 1803662--1803705 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1803652 AATTAAAAAT
*
1803662 ATTTTATTATTTATTTAATATAA
1 ATTTTATTAATTATTTAATATAA
*
1803685 ATTTTTTTAATTA-TTAATATA
1 ATTTTATTAATTATTTAATATA
1803706 TATTAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
ATTTTATTAATTATTTAATATAA
Found at i:1803779 original size:19 final size:19
Alignment explanation
Indices: 1803732--1803784 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
1803722 TTTTAATTGA
1803732 TATAATACAAATATTAAATT
1 TATAATA-AAATATTAAATT
* ** *
1803752 AATTTTAAAATTTTAAATT
1 TATAATAAAATATTAAATT
1803771 TATAAT-AAATATTA
1 TATAATAAAATATTA
1803785 TTATATTATA
Statistics
Matches: 25, Mismatches: 8, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
18 7 0.28
19 14 0.56
20 4 0.16
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
TATAATAAAATATTAAATT
Found at i:1804335 original size:21 final size:21
Alignment explanation
Indices: 1804309--1804348 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1804299 ATTAAATAAA
*
1804309 TTTAAATTTATAAAT-AATTTT
1 TTTAAAATT-TAAATCAATTTT
1804330 TTTAAAATTTAAATCAATT
1 TTTAAAATTTAAATCAATT
1804349 GAATGATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTAAAATTTAAATCAATTTT
Found at i:1805566 original size:2 final size:2
Alignment explanation
Indices: 1805554--1805589 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
1805544 GTTTCGATCG
*
1805554 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1805590 GCGTGTGTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1807611 original size:23 final size:22
Alignment explanation
Indices: 1807568--1807616 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
1807558 ATCAAGAGGT
*
1807568 TAATTTTATTAAAAATTAAATAA
1 TAATTTTATTAAAAATAAAAT-A
* *
1807591 TAATTTTATTTATAATAAAATA
1 TAATTTTATTAAAAATAAAATA
1807613 TAAT
1 TAAT
1807617 CAAGTGATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TAATTTTATTAAAAATAAAATA
Found at i:1816195 original size:14 final size:13
Alignment explanation
Indices: 1816176--1816217 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
1816166 TAATTCATAT
1816176 TTTAATATTTATA
1 TTTAATATTTATA
1816189 TTATAATATTATATA
1 TT-TAATATT-TATA
*
1816204 TTTATTATTTATA
1 TTTAATATTTATA
1816217 T
1 T
1816218 GATATAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 7 0.27
14 13 0.50
15 6 0.23
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTAATATTTATA
Found at i:1820394 original size:11 final size:11
Alignment explanation
Indices: 1820378--1820402 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1820368 TATAGTTCAG
1820378 TTTTATGTTAC
1 TTTTATGTTAC
1820389 TTTTATGTTAC
1 TTTTATGTTAC
1820400 TTT
1 TTT
1820403 GATTTGAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (11 bp):
TTTTATGTTAC
Found at i:1820452 original size:15 final size:17
Alignment explanation
Indices: 1820416--1820451 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1820406 TTGAATACGA
*
1820416 ATATTTGATATGAATAT
1 ATATTCGATATGAATAT
*
1820433 ATATTCGATATAAATAT
1 ATATTCGATATGAATAT
1820450 AT
1 AT
1820452 TTAAGTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.44
Consensus pattern (17 bp):
ATATTCGATATGAATAT
Found at i:1820534 original size:25 final size:25
Alignment explanation
Indices: 1820505--1820565 Score: 115
Period size: 25 Copynumber: 2.5 Consensus size: 25
1820495 TTTTATACTC
1820505 GTGTCTTGATATGCCTTAGATAAGA
1 GTGTCTTGATATGCCTTAGATAAGA
1820530 GTGTCTTGATATGCCTTAGATAAGA
1 GTGTCTTGATATGCCTTAGATAAGA
1820555 GTGTC-TGATAT
1 GTGTCTTGATAT
1820566 TCAGCCAGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 6 0.17
25 30 0.83
ACGTcount: A:0.26, C:0.11, G:0.25, T:0.38
Consensus pattern (25 bp):
GTGTCTTGATATGCCTTAGATAAGA
Found at i:1821406 original size:23 final size:24
Alignment explanation
Indices: 1821380--1821429 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1821370 TCTAAATAAA
1821380 AAATATTAT-AAATATTAAATTTT
1 AAATATTATAAAATATTAAATTTT
* **
1821403 AAATATTTTAAAATATTATTTTTT
1 AAATATTATAAAATATTAAATTTT
1821427 AAA
1 AAA
1821430 AATAATTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
AAATATTATAAAATATTAAATTTT
Found at i:1821970 original size:16 final size:16
Alignment explanation
Indices: 1821949--1822000 Score: 54
Period size: 18 Copynumber: 3.2 Consensus size: 16
1821939 ATAAATATTT
1821949 TAAATTTTATATAATA
1 TAAATTTTATATAATA
1821965 TAAATTATTAATATAAT-
1 TAAATT-TT-ATATAATA
* *
1821982 TAAA-ATTATGTAATA
1 TAAATTTTATATAATA
1821997 TAAA
1 TAAA
1822001 GTATTTTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
14 6 0.19
15 6 0.19
16 6 0.19
17 6 0.19
18 7 0.23
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
TAAATTTTATATAATA
Found at i:1821985 original size:33 final size:31
Alignment explanation
Indices: 1821924--1822005 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 31
1821914 AATAGTTAAA
* * *
1821924 ATATAATATAAAAATATAAATATTTTAAATTTT
1 ATATAATAT-AAAATATTAATATATTAAA-ATT
*
1821957 ATATAATATAAATTATTAATATAATTAAAATT
1 ATATAATATAAAATATTAATAT-ATTAAAATT
* *
1821989 ATGTAATATAAAGTATT
1 ATATAATATAAAATATT
1822006 TTATATATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
32 28 0.67
33 14 0.33
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (31 bp):
ATATAATATAAAATATTAATATATTAAAATT
Found at i:1821996 original size:32 final size:34
Alignment explanation
Indices: 1821955--1822036 Score: 89
Period size: 35 Copynumber: 2.4 Consensus size: 34
1821945 ATTTTAAATT
*
1821955 TTATATAATATAAAT-TATTA-ATATAATTAAAA
1 TTATGTAATATAAATATATTATATATAATTAAAA
* *
1821987 TTATGTAATATAAAGTATTTTATATATAATTATAA
1 TTATGTAATATAAA-TATATTATATATAATTAAAA
*
1822022 -TATAGTAAAATAAAT
1 TTAT-GTAATATAAAT
1822037 GAATATGGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
32 13 0.31
33 1 0.02
34 8 0.19
35 20 0.48
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (34 bp):
TTATGTAATATAAATATATTATATATAATTAAAA
Found at i:1823223 original size:2 final size:2
Alignment explanation
Indices: 1823216--1823240 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1823206 ATTCTATGTT
1823216 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1823241 GTCTGAACCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1826081 original size:32 final size:32
Alignment explanation
Indices: 1826034--1826108 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 32
1826024 TAAGTTATTA
1826034 TATATTTATATAAATTTT-A-ATATTTTAATAATT
1 TATA-TTATATAAATTTTAACATATTTT--TAATT
* *
1826067 TATATTATTTAAATTTTAACATATTTTTATTT
1 TATATTATATAAATTTTAACATATTTTTAATT
1826099 TATATTATAT
1 TATATTATAT
1826109 TGATATCATT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
32 25 0.68
33 5 0.14
34 7 0.19
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (32 bp):
TATATTATATAAATTTTAACATATTTTTAATT
Found at i:1826097 original size:25 final size:25
Alignment explanation
Indices: 1826049--1826097 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1826039 TTATATAAAT
*
1826049 TTTAATATTTTAATAATTTATATTA
1 TTTAATATTTTAACAATTTATATTA
*
1826074 TTTAA-ATTTTAACATATTTTTATT
1 TTTAATATTTTAACA-ATTTATATT
1826098 TTATATTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (25 bp):
TTTAATATTTTAACAATTTATATTA
Found at i:1827527 original size:27 final size:25
Alignment explanation
Indices: 1827496--1827560 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 25
1827486 AAGTTTTTAG
1827496 TTTAAATTTATATTTTATTAAATATAT
1 TTTAAATTTATATTTTATT-AAT-TAT
*
1827523 TTTAAA--TAT-TATT-TTAATTAT
1 TTTAAATTTATATTTTATTAATTAT
*
1827544 TTTAATTTTATATTTTA
1 TTTAAATTTATATTTTA
1827561 ATAACAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
21 8 0.26
22 3 0.10
23 5 0.16
24 6 0.19
25 3 0.10
27 6 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTAAATTTATATTTTATTAATTAT
Found at i:1834262 original size:2 final size:2
Alignment explanation
Indices: 1834257--1834290 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1834247 ATATATATAT
1834257 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1834291 TAGAATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1836814 original size:25 final size:23
Alignment explanation
Indices: 1836760--1836814 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
1836750 GAAATGCTGC
* * *
1836760 TTGTTTATTCATATCTTTTTTTC
1 TTGTTTAATCATATCTTTTTATA
1836783 TTGGTTTAATCATATTCTGTTTTATA
1 TT-GTTTAATCATA-TCT-TTTTATA
1836809 TTGTTT
1 TTGTTT
1836815 TCAAACTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 2 0.08
24 10 0.38
25 7 0.27
26 7 0.27
ACGTcount: A:0.16, C:0.09, G:0.09, T:0.65
Consensus pattern (23 bp):
TTGTTTAATCATATCTTTTTATA
Found at i:1845205 original size:192 final size:192
Alignment explanation
Indices: 1844878--1845261 Score: 750
Period size: 192 Copynumber: 2.0 Consensus size: 192
1844868 CTCAAGTTGA
*
1844878 TATTGAAGGTTACAATATCAGCCAGCAGCATCTAACAGAGAAGGCTTTCATTGAATTGGTTCTTC
1 TATTGAAGGTTACAATATCAGCCAGCAGCATCTAACAGAGAAGGCTTTCATTAAATTGGTTCTTC
1844943 CTTGCATAGACCAAAGCTCTGTTGACTCGTGCAATACCTTTGCAAGTGATTTGATAAAGCAGTTT
66 CTTGCATAGACCAAAGCTCTGTTGACTCGTGCAATACCTTTGCAAGTGATTTGATAAAGCAGTTT
1845008 AACACTATTTAGCAAAAAATAAACTCAATTACTTGTGGTGTAAGCAAGCAGACTGGAGCAGC
131 AACACTATTTAGCAAAAAATAAACTCAATTACTTGTGGTGTAAGCAAGCAGACTGGAGCAGC
1845070 TATTGAAGGTTACAATATCAGCCAGCAGCATCTAACAGAGAAGGCTTTCATTAAATTGGTTCTTC
1 TATTGAAGGTTACAATATCAGCCAGCAGCATCTAACAGAGAAGGCTTTCATTAAATTGGTTCTTC
1845135 CTTGCATAGACCAAAGCTCTGTTGACTCGTGCAATACCTTTGCAAGTGATTTGATAAAGCAGTTT
66 CTTGCATAGACCAAAGCTCTGTTGACTCGTGCAATACCTTTGCAAGTGATTTGATAAAGCAGTTT
*
1845200 AACACTATTTAGCAAAAAATAAACTCAATTACTTGTGGTGTAAGCAAGCAGACTGTAGCAGC
131 AACACTATTTAGCAAAAAATAAACTCAATTACTTGTGGTGTAAGCAAGCAGACTGGAGCAGC
1845262 CTCTTCTGAA
Statistics
Matches: 190, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
192 190 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (192 bp):
TATTGAAGGTTACAATATCAGCCAGCAGCATCTAACAGAGAAGGCTTTCATTAAATTGGTTCTTC
CTTGCATAGACCAAAGCTCTGTTGACTCGTGCAATACCTTTGCAAGTGATTTGATAAAGCAGTTT
AACACTATTTAGCAAAAAATAAACTCAATTACTTGTGGTGTAAGCAAGCAGACTGGAGCAGC
Found at i:1852801 original size:55 final size:55
Alignment explanation
Indices: 1852717--1852825 Score: 218
Period size: 55 Copynumber: 2.0 Consensus size: 55
1852707 GTCATTTCTT
1852717 GTTGAAAGTTAGTTGAAAGCCATGTTACTTACCTTGGTATCTCTTGCACGAGTTA
1 GTTGAAAGTTAGTTGAAAGCCATGTTACTTACCTTGGTATCTCTTGCACGAGTTA
1852772 GTTGAAAGTTAGTTGAAAGCCATGTTACTTACCTTGGTATCTCTTGCACGAGTT
1 GTTGAAAGTTAGTTGAAAGCCATGTTACTTACCTTGGTATCTCTTGCACGAGTT
1852826 TGTCTCTAGA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (55 bp):
GTTGAAAGTTAGTTGAAAGCCATGTTACTTACCTTGGTATCTCTTGCACGAGTTA
Found at i:1862849 original size:40 final size:40
Alignment explanation
Indices: 1862766--1862849 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
1862756 ATGACTTTCT
* *
1862766 TATTATGCAATCTCGTAATATGTAATAACTTTTTATCTGA
1 TATTATGCAATCTCGTAATATGTAATAACTATTTATCTAA
* * * *
1862806 TATTATTCAATCTCGTGATATGTAATTA-TAATTTATTTAA
1 TATTATGCAATCTCGTAATATGTAATAACT-ATTTATCTAA
1862846 TATT
1 TATT
1862850 GTCTTTTAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 1 0.03
40 36 0.97
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (40 bp):
TATTATGCAATCTCGTAATATGTAATAACTATTTATCTAA
Found at i:1864870 original size:15 final size:15
Alignment explanation
Indices: 1864850--1864895 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 15
1864840 TTCATATTAC
*
1864850 CCTTACCCGCCATAT
1 CCTTACCCACCATAT
1864865 CCTTACCCACTACCATAT
1 CCTTA-CC-C-ACCATAT
1864883 CCTTACCCACCAT
1 CCTTACCCACCAT
1864896 CATATCCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 10 0.37
16 3 0.11
17 3 0.11
18 11 0.41
ACGTcount: A:0.24, C:0.48, G:0.02, T:0.26
Consensus pattern (15 bp):
CCTTACCCACCATAT
Found at i:1864880 original size:18 final size:18
Alignment explanation
Indices: 1864859--1864925 Score: 98
Period size: 18 Copynumber: 3.7 Consensus size: 18
1864849 CCCTTACCCG
*
1864859 CCATATCCTTACCCACTA
1 CCATATCCTTACCCACCA
1864877 CCATATCCTTACCCACCA
1 CCATATCCTTACCCACCA
* *
1864895 TCATATCCTTATCCACCA
1 CCATATCCTTACCCACCA
*
1864913 CCATTTCCTTACC
1 CCATATCCTTACC
1864926 TATCACAACC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.25, C:0.45, G:0.00, T:0.30
Consensus pattern (18 bp):
CCATATCCTTACCCACCA
Found at i:1865751 original size:2 final size:2
Alignment explanation
Indices: 1865744--1865768 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1865734 AAGTACTAAT
1865744 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1865769 TATCGTCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1867941 original size:17 final size:18
Alignment explanation
Indices: 1867914--1867949 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
1867904 TAATTTTTTA
1867914 AAAATATTAAAAATATTT
1 AAAATATTAAAAATATTT
*
1867932 AAAA-ATTAAATATATTT
1 AAAATATTAAAAATATTT
1867949 A
1 A
1867950 TATAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAATATTAAAAATATTT
Found at i:1868018 original size:14 final size:14
Alignment explanation
Indices: 1867999--1868047 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
1867989 AGATAAGATA
1867999 GTCTGGGGATATTC
1 GTCTGGGGATATTC
* *
1868013 GTCT-GGGAAATCC
1 GTCTGGGGATATTC
*
1868026 AGCCTGGGGATATTC
1 -GTCTGGGGATATTC
1868041 GTCTGGG
1 GTCTGGG
1868048 AAATCCAGTT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
13 7 0.26
14 13 0.48
15 7 0.26
ACGTcount: A:0.16, C:0.18, G:0.37, T:0.29
Consensus pattern (14 bp):
GTCTGGGGATATTC
Found at i:1868041 original size:28 final size:28
Alignment explanation
Indices: 1868001--1868055 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
1867991 ATAAGATAGT
1868001 CTGGGGATATTCGTCTGGGAAATCCAGC
1 CTGGGGATATTCGTCTGGGAAATCCAGC
1868029 CTGGGGATATTCGTCTGGGAAATCCAG
1 CTGGGGATATTCGTCTGGGAAATCCAG
1868056 TTCACTCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (28 bp):
CTGGGGATATTCGTCTGGGAAATCCAGC
Found at i:1870113 original size:16 final size:17
Alignment explanation
Indices: 1870094--1870127 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1870084 ATTTTATTTC
1870094 ATTTATAT-TTAAATAA
1 ATTTATATATTAAATAA
*
1870110 ATTTTTATATTAAATAA
1 ATTTATATATTAAATAA
1870127 A
1 A
1870128 ATATTAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTATATATTAAATAA
Found at i:1870257 original size:7 final size:8
Alignment explanation
Indices: 1870239--1870270 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
1870229 TTTATTTAAA
1870239 TAAAATTT
1 TAAAATTT
1870247 TAAAA-TT
1 TAAAATTT
1870254 TAAAATTT
1 TAAAATTT
1870262 TAAAATTT
1 TAAAATTT
1870270 T
1 T
1870271 TTATTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TAAAATTT
Found at i:1870257 original size:15 final size:15
Alignment explanation
Indices: 1870239--1870269 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1870229 TTTATTTAAA
1870239 TAAAATTTTAAAATT
1 TAAAATTTTAAAATT
1870254 TAAAATTTTAAAATT
1 TAAAATTTTAAAATT
1870269 T
1 T
1870270 TTTATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TAAAATTTTAAAATT
Found at i:1870375 original size:16 final size:16
Alignment explanation
Indices: 1870354--1870393 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
1870344 CTAAAAAAAT
*
1870354 ATAAATATTAAATATA
1 ATAAATATTAAATAAA
*
1870370 ATAAATATTTAATAAA
1 ATAAATATTAAATAAA
*
1870386 ATATATAT
1 ATAAATAT
1870394 ATTAGAATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAAATATTAAATAAA
Found at i:1882216 original size:2 final size:2
Alignment explanation
Indices: 1882209--1882240 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1882199 TTGTATCTTT
1882209 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1882241 AGTAAAAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1883472 original size:20 final size:19
Alignment explanation
Indices: 1883426--1883474 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
1883416 ATTTTATTTT
* *
1883426 TAAATAAAATTATAAAAACA
1 TAAA-AAAATTACAAAAAAA
1883446 T-AAAAAATTACAACAAAAA
1 TAAAAAAATTACAA-AAAAA
1883465 TAAAAAAATT
1 TAAAAAAATT
1883475 TAAAAAGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 9 0.36
19 7 0.28
20 9 0.36
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.22
Consensus pattern (19 bp):
TAAAAAAATTACAAAAAAA
Found at i:1884071 original size:19 final size:19
Alignment explanation
Indices: 1884018--1884072 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
1884008 TTAAAATAAA
* *
1884018 TTAATAATATATTATTTTT
1 TTAATAATATATTATATAT
* *
1884037 TTAAATATTTTA-TATATAT
1 TT-AATAATATATTATATAT
1884056 TTAATAATATATTATAT
1 TTAATAATATATTATAT
1884073 TAATATAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
18 7 0.25
19 14 0.50
20 7 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTAATAATATATTATATAT
Found at i:1884075 original size:16 final size:15
Alignment explanation
Indices: 1884047--1884087 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
1884037 TTAAATATTT
1884047 TATATA-TAT-TTAA
1 TATATATTATATTAA
1884060 TAATATATTATATTAA
1 T-ATATATTATATTAA
1884076 TATA-ATTATATT
1 TATATATTATATT
1884088 TAAAATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 1 0.04
14 13 0.52
15 6 0.24
16 5 0.20
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATATATTATATTAA
Found at i:1884081 original size:21 final size:21
Alignment explanation
Indices: 1884040--1884086 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
1884030 TATTTTTTTA
* *
1884040 AATATTTTATATATATTTAAT
1 AATATATTATATATATATAAT
1884061 AATATATTATAT-TAATATAAT
1 AATATATTATATAT-ATATAAT
*
1884082 TATAT
1 AATAT
1884087 TTAAAATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AATATATTATATATATATAAT
Found at i:1885311 original size:12 final size:12
Alignment explanation
Indices: 1885294--1885318 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1885284 TTTGGATAGC
1885294 GAGAAAGTGAAA
1 GAGAAAGTGAAA
1885306 GAGAAAGTGAAA
1 GAGAAAGTGAAA
1885318 G
1 G
1885319 TTCCTAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.36, T:0.08
Consensus pattern (12 bp):
GAGAAAGTGAAA
Found at i:1888120 original size:25 final size:25
Alignment explanation
Indices: 1888086--1888136 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
1888076 TAGCTGTTCT
1888086 ATTCTTCATGCCTTTTCATCTAATA
1 ATTCTTCATGCCTTTTCATCTAATA
1888111 ATTCTTCATGCCTTTTCATCTAATA
1 ATTCTTCATGCCTTTTCATCTAATA
1888136 A
1 A
1888137 AAACATTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.24, G:0.04, T:0.47
Consensus pattern (25 bp):
ATTCTTCATGCCTTTTCATCTAATA
Found at i:1897186 original size:4 final size:4
Alignment explanation
Indices: 1897177--1897201 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1897167 GTTTTAATCC
1897177 TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT T
1897202 TCGAAATAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:1897572 original size:21 final size:21
Alignment explanation
Indices: 1897534--1897575 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1897524 AAAAAATTTT
*
1897534 ATATTTAAATTAATTATAAAA
1 ATATATAAATTAATTATAAAA
1897555 ATATATAATATTAA-TATAAAA
1 ATATATAA-ATTAATTATAAAA
1897576 TAATTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
ATATATAAATTAATTATAAAA
Found at i:1898176 original size:15 final size:15
Alignment explanation
Indices: 1898154--1898208 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
1898144 AATAATACAA
1898154 ATTT-AAATATTTAT
1 ATTTAAAATATTTAT
*
1898168 ATTTAAAATATTCTTT
1 ATTTAAAATATT-TAT
*
1898184 AATTATAAAA-GTTTAT
1 -ATT-TAAAATATTTAT
1898200 ATTTAAAAT
1 ATTTAAAAT
1898209 TTTTTTCATT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
14 9 0.27
15 10 0.30
16 4 0.12
17 5 0.15
18 5 0.15
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (15 bp):
ATTTAAAATATTTAT
Found at i:1898386 original size:29 final size:28
Alignment explanation
Indices: 1898323--1898389 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
1898313 TACTTTTAAA
* ** * *
1898323 TATATAAAGATTAATTTATTTAAATTTT
1 TATATAAAAATTAATTTACGTAAAATAT
1898351 TATATAAAAATTAATTTACGTAAAATAT
1 TATATAAAAATTAATTTACGTAAAATAT
1898379 TATTATAAAAA
1 TA-TATAAAAA
1898390 AACTCCATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
28 25 0.76
29 8 0.24
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (28 bp):
TATATAAAAATTAATTTACGTAAAATAT
Found at i:1901084 original size:11 final size:12
Alignment explanation
Indices: 1901043--1901088 Score: 53
Period size: 11 Copynumber: 4.1 Consensus size: 12
1901033 AAATTACACC
*
1901043 ATAT-AAATATT
1 ATATAAAATATA
*
1901054 ATATAAAAAATA
1 ATATAAAATATA
1901066 AT-TAAAATATA
1 ATATAAAATATA
1901077 ATAT-AAATATA
1 ATATAAAATATA
1901088 A
1 A
1901089 AAATTATCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 22 0.73
12 8 0.27
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
ATATAAAATATA
Found at i:1902481 original size:20 final size:20
Alignment explanation
Indices: 1902458--1902496 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1902448 AATTCAACTC
*
1902458 ATATTTAAATATATATATAT
1 ATATTTAAATATAAATATAT
1902478 ATATTTAAATATAAATATA
1 ATATTTAAATATAAATATA
1902497 AAAATATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATATTTAAATATAAATATAT
Found at i:1902529 original size:26 final size:28
Alignment explanation
Indices: 1902458--1902531 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 28
1902448 AATTCAACTC
1902458 ATATTTAAATATATATATATATATTTAAAT
1 ATATTTAAA-ATATATA-ATATATTTAAAT
* *
1902488 ATAAATATAAAA-ATATAAT-TTTTTAAA-
1 AT--ATTTAAAATATATAATATATTTAAAT
1902515 ATATTTAAAATATATAA
1 ATATTTAAAATATATAA
1902532 AAAATTTACA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
25 7 0.18
26 6 0.16
27 2 0.05
28 7 0.18
29 2 0.05
30 7 0.18
31 1 0.03
32 6 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
ATATTTAAAATATATAATATATTTAAAT
Found at i:1902538 original size:18 final size:19
Alignment explanation
Indices: 1902511--1902559 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
1902501 TATAATTTTT
* *
1902511 TAAAATATTTA-AAATATA
1 TAAAAAATTTACAAATAAA
1902529 TAAAAAATTTACAAATAAA
1 TAAAAAATTTACAAATAAA
1902548 TAAAAATATTTA
1 TAAAAA-ATTTA
1902560 TATTATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 10 0.37
19 12 0.44
20 5 0.19
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAAAAATTTACAAATAAA
Found at i:1904396 original size:15 final size:16
Alignment explanation
Indices: 1904376--1904406 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1904366 ATTAAAACAT
1904376 TTATATT-ATTTTTTA
1 TTATATTAATTTTTTA
1904391 TTATATTAATTTTTTA
1 TTATATTAATTTTTTA
1904407 AATTTCATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATATTAATTTTTTA
Found at i:1905337 original size:26 final size:23
Alignment explanation
Indices: 1905308--1905370 Score: 56
Period size: 26 Copynumber: 2.5 Consensus size: 23
1905298 GATTTCTTCT
1905308 TAAATATTTATT-AAAATTAATTATGA
1 TAAATATTTATTCAAAATT-A-TA--A
1905334 TAAATTTATTTTATTCAAAATTATAA
1 TAAA--TAT-TTATTCAAAATTATAA
1905360 TAAATATTTAT
1 TAAATATTTAT
1905371 GATTATAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
23 4 0.12
24 3 0.09
26 9 0.27
28 5 0.15
29 6 0.18
30 6 0.18
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
TAAATATTTATTCAAAATTATAA
Found at i:1907876 original size:14 final size:15
Alignment explanation
Indices: 1907839--1907877 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
1907829 CACTTAGATA
1907839 TTTATCTTTTCAAAAT
1 TTTAT-TTTTCAAAAT
*
1907855 TTTATTTTTTAAAAT
1 TTTATTTTTCAAAAT
1907870 TTT-TTTTT
1 TTTATTTTT
1907878 ATATATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.23
15 12 0.55
16 5 0.23
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTATTTTTCAAAAT
Found at i:1909082 original size:2 final size:2
Alignment explanation
Indices: 1909075--1909107 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1909065 AGGTACAACA
1909075 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1909108 TGCTTTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1909424 original size:2 final size:2
Alignment explanation
Indices: 1909419--1909445 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1909409 GTTTAAAAAA
1909419 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1909446 ATGAGTGCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1910119 original size:21 final size:20
Alignment explanation
Indices: 1910093--1910137 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
1910083 AAATATTTTT
1910093 TATATAAATTTAATTATAAAA
1 TATATAAATTTAA-TATAAAA
1910114 TATATAAATTTAATATAAAA
1 TATATAAATTTAATATAAAA
1910134 -ATAT
1 TATAT
1910138 TTTTTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 4 0.17
20 7 0.29
21 13 0.54
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TATATAAATTTAATATAAAA
Found at i:1910131 original size:11 final size:11
Alignment explanation
Indices: 1910063--1910132 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
1910053 TTAAGTTTAT
*
1910063 TAAATTTAATT
1 TAAATTTAATA
*
1910074 TAAATTTTAAAA
1 TAAA-TTTAATA
** *
1910086 TATTTTTTATA
1 TAAATTTAATA
1910097 TAAATTTAATTA
1 TAAATTTAA-TA
*
1910109 TAAA-AT-ATA
1 TAAATTTAATA
1910118 TAAATTTAATA
1 TAAATTTAATA
1910129 TAAA
1 TAAA
1910133 AATATTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
9 6 0.14
10 2 0.05
11 23 0.52
12 13 0.30
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TAAATTTAATA
Done.