Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold71
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: 5741892
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.33
Warning! 121862 characters in sequence are not A, C, G, or T
File 14 of 33
Found at i:2115623 original size:23 final size:21
Alignment explanation
Indices: 2115597--2115642 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 21
2115587 TATAATCGCA
2115597 TAATTATTTTAAAATATTTAATT
1 TAATTA-TTTAAAAT-TTTAATT
2115620 T-A--ATTTAAAATTTTAATT
1 TAATTATTTAAAATTTTAATT
2115638 TAATT
1 TAATT
2115643 TATAATTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 8
0.71 0.00 0.29
Matches are distributed among these distances:
18 8 0.40
19 9 0.45
20 1 0.05
22 1 0.05
23 1 0.05
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATTATTTAAAATTTTAATT
Found at i:2115655 original size:38 final size:38
Alignment explanation
Indices: 2115604--2115718 Score: 119
Period size: 38 Copynumber: 3.1 Consensus size: 38
2115594 GCATAATTAT
* * *
2115604 TTTAAAAT-ATTTAATTTAATTTAAAATTTTAATTTAA
1 TTTATAATCATTTAATTTATTTTAAAATTTAAATTTAA
** *
2115641 TTTATAATTGTTTAATTT-TTTTAAAATTTAAATTAAGA
1 TTTATAATCATTTAATTTATTTTAAAATTTAAATTTA-A
* *
2115679 CTTGTAATCATTTAA-TTATTTTAAAATTTAAATTATAA
1 TTTATAATCATTTAATTTATTTTAAAATTTAAATT-TAA
2115717 TT
1 TT
2115719 GTCTAATTAA
Statistics
Matches: 63, Mismatches: 11, Indels: 7
0.78 0.14 0.09
Matches are distributed among these distances:
37 24 0.38
38 38 0.60
39 1 0.02
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.54
Consensus pattern (38 bp):
TTTATAATCATTTAATTTATTTTAAAATTTAAATTTAA
Found at i:2115668 original size:19 final size:18
Alignment explanation
Indices: 2115604--2115674 Score: 81
Period size: 18 Copynumber: 3.8 Consensus size: 18
2115594 GCATAATTAT
2115604 TTTAAAATATTTAATTTAA
1 TTTAAAAT-TTTAATTTAA
2115623 TTTAAAATTTTAATTTAA
1 TTTAAAATTTTAATTTAA
* *
2115641 TTTATAATTGTTTAATTT-T
1 TTTA-AAAT-TTTAATTTAA
*
2115660 TTTAAAATTTAAATT
1 TTTAAAATTTTAATT
2115675 AAGACTTGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
17 6 0.13
18 17 0.37
19 15 0.33
20 8 0.17
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (18 bp):
TTTAAAATTTTAATTTAA
Found at i:2115702 original size:31 final size:30
Alignment explanation
Indices: 2115667--2115789 Score: 73
Period size: 31 Copynumber: 4.2 Consensus size: 30
2115657 TTTTTTAAAA
2115667 TTTAAATTAAGACTTGTAATCATTTAATTAT
1 TTTAAATTAAGA-TTGTAATCATTTAATTAT
* * *
2115698 TTTAAAATTTAA-ATTATAAT--TGT--CTA-
1 TTT-AAA-TTAAGATTGTAATCATTTAATTAT
* **
2115724 ATT-AA-TAAGAGTTGTAATTGTTTAATTAT
1 TTTAAATTAAGA-TTGTAATCATTTAATTAT
* *
2115753 TTTAAATTAAAATTTGTAATCATCTAATTAT
1 TTTAAATTAAGA-TTGTAATCATTTAATTAT
2115784 TTTAAA
1 TTTAAA
2115790 ATTTTAATTT
Statistics
Matches: 68, Mismatches: 13, Indels: 22
0.66 0.13 0.21
Matches are distributed among these distances:
22 3 0.04
23 1 0.01
24 8 0.12
26 4 0.06
27 2 0.03
28 2 0.03
29 4 0.06
30 2 0.03
31 34 0.50
32 4 0.06
33 4 0.06
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.49
Consensus pattern (30 bp):
TTTAAATTAAGATTGTAATCATTTAATTAT
Found at i:2115779 original size:55 final size:55
Alignment explanation
Indices: 2115674--2115782 Score: 139
Period size: 55 Copynumber: 2.0 Consensus size: 55
2115664 AAATTTAAAT
* **
2115674 TAAGACTTGTAATCATTTAATTATTTTAAAATTTAAATTATAATTGTCTAATTAA
1 TAAGACTTGTAATCATTTAATTATTTTAAAATTAAAATTATAATCATCTAATTAA
* ** *
2115729 TAAGAGTTGTAATTGTTTAATTATTTT-AAATTAAAATTTGTAATCATCTAATTA
1 TAAGACTTGTAATCATTTAATTATTTTAAAATTAAAA-TTATAATCATCTAATTA
2115783 TTTTAAAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
54 8 0.17
55 38 0.83
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (55 bp):
TAAGACTTGTAATCATTTAATTATTTTAAAATTAAAATTATAATCATCTAATTAA
Found at i:2116141 original size:20 final size:21
Alignment explanation
Indices: 2116116--2116180 Score: 82
Period size: 20 Copynumber: 3.2 Consensus size: 21
2116106 TAATTTAAAA
*
2116116 AATAATAATATAATAATAACT
1 AATAATAATATTATAATAACT
* *
2116137 -TTAATAATATTATTA-AACT
1 AATAATAATATTATAATAACT
2116156 AATAATAATATTATAATAA-T
1 AATAATAATATTATAATAACT
2116176 AATAA
1 AATAA
2116181 GTGAGCAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
19 4 0.11
20 31 0.84
21 2 0.05
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
AATAATAATATTATAATAACT
Found at i:2120558 original size:2 final size:2
Alignment explanation
Indices: 2120551--2120587 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2120541 TAAACTGAAC
2120551 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 A
2120588 ATGAAGCCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2121412 original size:41 final size:41
Alignment explanation
Indices: 2121359--2121445 Score: 165
Period size: 41 Copynumber: 2.1 Consensus size: 41
2121349 ATTAATATTA
2121359 TATATACCCTCAACACGTCATATACCCCAATGTACCCATAT
1 TATATACCCTCAACACGTCATATACCCCAATGTACCCATAT
*
2121400 TATATACCCTCAACACGTCATATACCCCAATGTTCCCATAT
1 TATATACCCTCAACACGTCATATACCCCAATGTACCCATAT
2121441 TATAT
1 TATAT
2121446 CAGTGGTGTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.33, C:0.32, G:0.05, T:0.30
Consensus pattern (41 bp):
TATATACCCTCAACACGTCATATACCCCAATGTACCCATAT
Found at i:2122227 original size:11 final size:11
Alignment explanation
Indices: 2122192--2122235 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
2122182 TAATACTTTG
*
2122192 AATATAATTAT
1 AATATAAATAT
* *
2122203 AACATAAAAAAT
1 AATAT-AAATAT
2122215 AATATAAATAT
1 AATATAAATAT
2122226 AATATAAATA
1 AATATAAATA
2122236 CACGAATTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 19 0.70
12 8 0.30
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (11 bp):
AATATAAATAT
Found at i:2122697 original size:13 final size:13
Alignment explanation
Indices: 2122658--2122700 Score: 52
Period size: 12 Copynumber: 3.2 Consensus size: 13
2122648 TTAGTAGTAC
2122658 TTTTTTTTTCTT-
1 TTTTTTTTTCTTA
2122670 TTTTTTTTTAACTTA
1 TTTTTTTTT--CTTA
*
2122685 TTTTTGTTTCTTA
1 TTTTTTTTTCTTA
2122698 TTT
1 TTT
2122701 GAACATTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 9 0.33
13 7 0.26
14 3 0.11
15 8 0.30
ACGTcount: A:0.09, C:0.07, G:0.02, T:0.81
Consensus pattern (13 bp):
TTTTTTTTTCTTA
Found at i:2125897 original size:12 final size:12
Alignment explanation
Indices: 2125880--2125945 Score: 59
Period size: 12 Copynumber: 5.7 Consensus size: 12
2125870 AGTATATCAC
2125880 TATTTAAAATAA
1 TATTTAAAATAA
2125892 TATTT-AAATAA
1 TATTTAAAATAA
2125903 T-TTTAAAAATAA
1 TATTT-AAAATAA
* *
2125915 T-TTTATATTAA
1 TATTTAAAATAA
*
2125926 TATTTATAATTAA
1 TATTTA-AAATAA
2125939 -ATTTAAA
1 TATTTAAA
2125946 TTAAAATATT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
10 3 0.06
11 15 0.32
12 24 0.51
13 5 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
TATTTAAAATAA
Found at i:2127146 original size:32 final size:31
Alignment explanation
Indices: 2127072--2127147 Score: 125
Period size: 31 Copynumber: 2.4 Consensus size: 31
2127062 ATGTTTTTTT
2127072 AATTTAATTTTTATAAAAACTATTTTGAGTA
1 AATTTAATTTTTATAAAAACTATTTTGAGTA
* *
2127103 TATTTAATTTTTATAAAAAGTATTTTGAGTA
1 AATTTAATTTTTATAAAAACTATTTTGAGTA
2127134 AAGTTTAATTTTTA
1 AA-TTTAATTTTTA
2127148 GTAATTTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 30 0.73
32 11 0.27
ACGTcount: A:0.39, C:0.01, G:0.08, T:0.51
Consensus pattern (31 bp):
AATTTAATTTTTATAAAAACTATTTTGAGTA
Found at i:2127237 original size:8 final size:9
Alignment explanation
Indices: 2127213--2127248 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
2127203 TTTTAGTATT
2127213 TATACTATA
1 TATACTATA
2127222 -ATACTATA
1 TATACTATA
2127230 TATA-TATA
1 TATACTATA
2127238 TATA-TATA
1 TATACTATA
2127246 TAT
1 TAT
2127249 TTTTATATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 23 0.88
9 3 0.12
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (9 bp):
TATACTATA
Found at i:2129034 original size:57 final size:58
Alignment explanation
Indices: 2128989--2129108 Score: 188
Period size: 58 Copynumber: 2.1 Consensus size: 58
2128979 ATTTTTTTAT
*
2128989 TTTTTC-TACCAAACACATTAAAATCTTTTCTATCTTTTTATCTTTTTTCTTCTCTAA
1 TTTTTCATACCAAACACATTAAAATATTTTCTATCTTTTTATCTTTTTTCTTCTCTAA
* * * *
2129046 TTTTTCATCCCAAACACATTAAAATATTTTCTATCTTTTTACCTTTTTCCTTGTCTAA
1 TTTTTCATACCAAACACATTAAAATATTTTCTATCTTTTTATCTTTTTTCTTCTCTAA
2129104 TTTTT
1 TTTTT
2129109 TATCTTTTCA
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 6 0.11
58 51 0.89
ACGTcount: A:0.24, C:0.21, G:0.01, T:0.54
Consensus pattern (58 bp):
TTTTTCATACCAAACACATTAAAATATTTTCTATCTTTTTATCTTTTTTCTTCTCTAA
Found at i:2129220 original size:2 final size:2
Alignment explanation
Indices: 2129213--2129245 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2129203 TATATTTTTA
2129213 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 A
2129246 ATTTAATCAT
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2130170 original size:15 final size:15
Alignment explanation
Indices: 2130150--2130179 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2130140 TTTAATTATA
*
2130150 AAATATATAAATATT
1 AAATATAAAAATATT
2130165 AAATATAAAAATATT
1 AAATATAAAAATATT
2130180 TTTTATTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AAATATAAAAATATT
Found at i:2130659 original size:32 final size:35
Alignment explanation
Indices: 2130618--2130704 Score: 101
Period size: 31 Copynumber: 2.5 Consensus size: 35
2130608 GATAAATACG
2130618 ATATAAATATATAAATATTTCAAAAAT-TTAT-AT
1 ATATAAATATATAAATATTTCAAAAATATTATAAT
* *
2130651 AT-TAAATATAT-TATATTTTAAAAATAATTATAAT
1 ATATAAATATATAAATATTTCAAAAAT-ATTATAAT
2130685 ATATAAAATTATATAAATAT
1 ATAT-AAA-TATATAAATAT
2130705 AATATAAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
31 12 0.27
32 9 0.20
33 6 0.14
34 4 0.09
35 1 0.02
36 3 0.07
37 5 0.11
38 4 0.09
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (35 bp):
ATATAAATATATAAATATTTCAAAAATATTATAAT
Found at i:2130666 original size:16 final size:17
Alignment explanation
Indices: 2130645--2130692 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
2130635 TTTCAAAAAT
*
2130645 TTATATATTAAATAT-A
1 TTATATATTAAAAATAA
*
2130661 TTATATTTTAAAAATAA
1 TTATATATTAAAAATAA
2130678 TTATAATATATAAAA
1 TTAT-ATAT-TAAAA
2130693 TTATATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 13 0.50
17 5 0.19
18 3 0.12
19 5 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TTATATATTAAAAATAA
Found at i:2130682 original size:17 final size:16
Alignment explanation
Indices: 2130632--2130682 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
2130622 AAATATATAA
*
2130632 ATATTTCAAAAAT-TT
1 ATATTTTAAAAATATT
* *
2130647 ATATATTAAATATATT
1 ATATTTTAAAAATATT
2130663 ATATTTTAAAAATAATT
1 ATATTTTAAAAAT-ATT
2130680 ATA
1 ATA
2130683 ATATATAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
15 10 0.34
16 13 0.45
17 6 0.21
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATTTTAAAAATATT
Found at i:2130715 original size:17 final size:16
Alignment explanation
Indices: 2130672--2130729 Score: 54
Period size: 17 Copynumber: 3.8 Consensus size: 16
2130662 TATATTTTAA
2130672 AAATAATTATAATATAT
1 AAATAATTA-AATATAT
2130689 -AA-AATT--ATATA-
1 AAATAATTAAATATAT
2130700 AATATAATATAAATATAT
1 AA-ATAAT-TAAATATAT
2130718 AAATAATTAAAT
1 AAATAATTAAAT
2130730 TTGACAGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 15
0.69 0.00 0.31
Matches are distributed among these distances:
12 6 0.18
13 1 0.03
14 3 0.09
15 5 0.15
16 7 0.21
17 10 0.29
18 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATAATTAAATATAT
Found at i:2130718 original size:19 final size:18
Alignment explanation
Indices: 2130682--2130722 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
2130672 AAATAATTAT
2130682 AATATATAAAATTATATA
1 AATATATAAAATTATATA
2130700 AATATAATATAAA-TATATA
1 AATAT-ATA-AAATTATATA
2130719 AATA
1 AATA
2130723 ATTAAATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.24
19 13 0.62
20 3 0.14
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AATATATAAAATTATATA
Found at i:2130726 original size:31 final size:31
Alignment explanation
Indices: 2130595--2130726 Score: 93
Period size: 29 Copynumber: 4.4 Consensus size: 31
2130585 TTAAAATATA
* * **
2130595 ATATAAAAAATTAGATAAATACGATATAAAT
1 ATATAAATAATTATATAAATATAATATAAAT
* *
2130626 ATATAAAT-ATT-TCAAAAATTTATATATTAAAT
1 ATATAAATAATTAT-ATAAATATA-ATA-TAAAT
* *
2130658 ATAT-TAT-ATT-T-TAAAAATAAT-TATAAT
1 ATATAAATAATTATATAAATATAATATA-AAT
2130685 ATAT-AA-AATTATATAAATATAATATAAAT
1 ATATAAATAATTATATAAATATAATATAAAT
2130714 ATATAAATAATTA
1 ATATAAATAATTA
2130727 AATTTGACAG
Statistics
Matches: 79, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
26 2 0.03
27 11 0.14
28 3 0.04
29 21 0.27
30 12 0.15
31 21 0.27
32 9 0.11
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (31 bp):
ATATAAATAATTATATAAATATAATATAAAT
Found at i:2131159 original size:13 final size:14
Alignment explanation
Indices: 2131143--2131172 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2131133 TTTTTAAAAT
2131143 AAAA-TATAAATAA
1 AAAATTATAAATAA
2131156 AAAATTATAAATAA
1 AAAATTATAAATAA
2131170 AAA
1 AAA
2131173 TCAATACATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAATTATAAATAA
Found at i:2131442 original size:2 final size:2
Alignment explanation
Indices: 2131435--2131476 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
2131425 GTATGTATGC
* *
2131435 AT AT AT AT AT AT GT AT AT AT AT AT GT 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 AT AT
2131477 CGTAAAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2131453 original size:12 final size:12
Alignment explanation
Indices: 2131411--2131476 Score: 78
Period size: 12 Copynumber: 5.3 Consensus size: 12
2131401 TTACTCACAA
*
2131411 ATATATACATGT
1 ATATATATATGT
* *
2131423 ATGTATGTATGCAT
1 ATATATATATG--T
2131437 ATATATATATGT
1 ATATATATATGT
2131449 ATATATATATGT
1 ATATATATATGT
*
2131461 ATATATATATAT
1 ATATATATATGT
2131473 ATAT
1 ATAT
2131477 CGTAAAAACA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
12 36 0.78
14 10 0.22
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (12 bp):
ATATATATATGT
Found at i:2135733 original size:21 final size:21
Alignment explanation
Indices: 2135709--2135748 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2135699 AAAGATTAAT
* *
2135709 TATTATAGTGATAAAATTAGA
1 TATTATAATAATAAAATTAGA
2135730 TATTATAATAATAAAATTA
1 TATTATAATAATAAAATTA
2135749 AAATTAATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (21 bp):
TATTATAATAATAAAATTAGA
Found at i:2136652 original size:21 final size:22
Alignment explanation
Indices: 2136617--2136658 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
2136607 TTGATGATAT
* *
2136617 TTTTTATGTTTTGTTTTAATTA
1 TTTTTATGTTATGTTGTAATTA
2136639 TTTTTAT-TTATGTTGTAATT
1 TTTTTATGTTATGTTGTAATT
2136659 GTATCGTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.19, C:0.00, G:0.10, T:0.71
Consensus pattern (22 bp):
TTTTTATGTTATGTTGTAATTA
Found at i:2137522 original size:15 final size:15
Alignment explanation
Indices: 2137502--2137531 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2137492 TATGATAAAT
*
2137502 TATTTTAATTTTTTA
1 TATTTTAATATTTTA
2137517 TATTTTAATATTTTA
1 TATTTTAATATTTTA
2137532 AGTAATTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:2137773 original size:18 final size:17
Alignment explanation
Indices: 2137719--2137790 Score: 55
Period size: 16 Copynumber: 4.4 Consensus size: 17
2137709 ATACATGAAT
2137719 ATATCAAAATTTATATAA
1 ATAT-AAAATTTATATAA
2137737 A-AT-AAA-TTAT-TAA
1 ATATAAAATTTATATAA
*
2137750 TTTATAAAAATTTATATAA
1 -ATAT-AAAATTTATATAA
* *
2137769 ATATATAATAT-TATAA
1 ATATAAAATTTATATAA
2137785 ATATAA
1 ATATAA
2137791 TTACAATATA
Statistics
Matches: 43, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
13 3 0.07
14 4 0.09
15 5 0.12
16 10 0.23
17 10 0.23
18 8 0.19
19 3 0.07
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (17 bp):
ATATAAAATTTATATAA
Found at i:2138017 original size:19 final size:18
Alignment explanation
Indices: 2137989--2138096 Score: 59
Period size: 18 Copynumber: 6.1 Consensus size: 18
2137979 GATATCAATA
*
2137989 ATTATGTTTATATATTTAT
1 ATTATATTT-TATATTTAT
*
2138008 ATTATA-TTTATTATTTTT
1 ATTATATTTTA-TATTTAT
*
2138026 ATGTAATATTTTAAATTT-T
1 AT-T-ATATTTTATATTTAT
2138045 -TTATA--TTAT-TTTCAT
1 ATTATATTTTATATTT-AT
* *
2138060 ATCATATCTTA-ATTTAT
1 ATTATATTTTATATTTAT
*
2138077 TTTATATTTTATAGTTTAT
1 ATTATATTTTATA-TTTAT
2138096 A
1 A
2138097 ACCGTAATTC
Statistics
Matches: 68, Mismatches: 9, Indels: 24
0.67 0.09 0.24
Matches are distributed among these distances:
13 3 0.04
14 3 0.04
15 1 0.01
16 7 0.10
17 13 0.19
18 18 0.26
19 12 0.18
20 7 0.10
21 4 0.06
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (18 bp):
ATTATATTTTATATTTAT
Found at i:2138054 original size:32 final size:33
Alignment explanation
Indices: 2138000--2138084 Score: 86
Period size: 32 Copynumber: 2.7 Consensus size: 33
2137990 TTATGTTTAT
* * * *
2138000 ATAT-TTATATTATATT-TATTATTTTTATGTA
1 ATATCTTAAATTATTTTATATTATTTTCATATA
* *
2138031 ATATTTTAAATT-TTTTATATTATTTTCATATC
1 ATATCTTAAATTATTTTATATTATTTTCATATA
*
2138063 ATATCTTAATTTATTTTATATT
1 ATATCTTAAATTATTTTATATT
2138085 TTATAGTTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
31 7 0.16
32 28 0.64
33 9 0.20
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.64
Consensus pattern (33 bp):
ATATCTTAAATTATTTTATATTATTTTCATATA
Found at i:2138467 original size:17 final size:18
Alignment explanation
Indices: 2138442--2138475 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2138432 CAAATTTATT
*
2138442 TATATAAAAT-TTTAAAA
1 TATAAAAAATATTTAAAA
2138459 TATAAAAAATATTTAAA
1 TATAAAAAATATTTAAA
2138476 TAAATAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TATAAAAAATATTTAAAA
Found at i:2138482 original size:19 final size:19
Alignment explanation
Indices: 2138447--2138498 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
2138437 TTATTTATAT
*
2138447 AAAAT-TTTAAA-ATATAA
1 AAAATATTTAAATAAATAA
2138464 AAAATATTTAAATAAATAA
1 AAAATATTTAAATAAATAA
* *
2138483 TAATTATTTAATATAA
1 AAAATATTTAA-ATAA
2138499 TTTAATTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 5 0.17
18 6 0.21
19 14 0.48
20 4 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATATTTAAATAAATAA
Found at i:2139100 original size:10 final size:11
Alignment explanation
Indices: 2139075--2139105 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2139065 GGTGCCTCAG
*
2139075 AAAAGGAAAAA
1 AAAAAGAAAAA
2139086 AAAAAGAAAAA
1 AAAAAGAAAAA
2139097 AAAAAGAAA
1 AAAAAGAAA
2139106 TGGAGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:2144038 original size:17 final size:17
Alignment explanation
Indices: 2144016--2144049 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2144006 GAAAAAATTG
*
2144016 TAAGTTTTAAGTTTTTA
1 TAAGTTATAAGTTTTTA
*
2144033 TAAGTTATAATTTTTTA
1 TAAGTTATAAGTTTTTA
2144050 GAAAAATCAA
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:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (17 bp):
TAAGTTATAAGTTTTTA
Found at i:2146034 original size:21 final size:21
Alignment explanation
Indices: 2145995--2146057 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 21
2145985 CGCTATACAA
*
2145995 ATATATTAATATCTTAAAATCT
1 ATATA-TAATATCTCAAAATCT
* *
2146017 ATATATAATATGTCAAAATTT
1 ATATATAATATCTCAAAATCT
*
2146038 ATGTATATAATA-CTCTAAAT
1 A--TATATAATATCTCAAAAT
2146058 ATAATTACAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
21 14 0.41
22 11 0.32
23 9 0.26
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (21 bp):
ATATATAATATCTCAAAATCT
Found at i:2147612 original size:34 final size:34
Alignment explanation
Indices: 2147566--2147748 Score: 244
Period size: 34 Copynumber: 5.4 Consensus size: 34
2147556 GTAAAAACCA
*
2147566 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
2147600 TCATTTAGTCAACAATGGTAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGGT-AACCTACCAAATCTC
* *
2147634 CCATTTAATCAATAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
2147668 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
2147702 CCATTTAGTCAACAATGGTAAACTACCAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
2147735 CCATTTAATCAACA
1 CCATTTAATCAACA
2147749 GCCTGCATGG
Statistics
Matches: 131, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
33 16 0.12
34 111 0.85
35 4 0.03
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.26
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:2148769 original size:23 final size:21
Alignment explanation
Indices: 2148743--2148787 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
2148733 AAAAAATTAC
2148743 TATTA-TATT-TAAGATAATAT
1 TATTATTATTATAA-ATAATAT
2148763 TATTATTATTATAAATAATA-
1 TATTATTATTATAAATAATAT
2148783 TATTA
1 TATTA
2148788 ACGTATCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 10 0.43
21 10 0.43
22 3 0.13
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TATTATTATTATAAATAATAT
Found at i:2149038 original size:15 final size:17
Alignment explanation
Indices: 2149020--2149056 Score: 51
Period size: 15 Copynumber: 2.2 Consensus size: 17
2149010 TTTATAAATT
2149020 TAAATTA-ATTTAAT-A
1 TAAATTATATTTAATAA
2149035 TAAATTATTATTTAATAA
1 TAAATTA-TATTTAATAA
2149053 TAAA
1 TAAA
2149057 AATTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
17 7 0.37
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TAAATTATATTTAATAA
Found at i:2149066 original size:19 final size:20
Alignment explanation
Indices: 2149030--2149068 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2149020 TAAATTAATT
*
2149030 TAATATAAATTATTATTTAA
1 TAATAAAAATTATTATTTAA
2149050 TAATAAAAATT-TTATTTAA
1 TAATAAAAATTATTATTTAA
2149069 ATTTAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATAAAAATTATTATTTAA
Found at i:2150735 original size:15 final size:15
Alignment explanation
Indices: 2150717--2150750 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2150707 AGTATTAAAA
2150717 TTTTAATACTTAATT
1 TTTTAATACTTAATT
* *
2150732 TTTTAGTGCTTAATT
1 TTTTAATACTTAATT
2150747 TTTT
1 TTTT
2150751 TTATTAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.65
Consensus pattern (15 bp):
TTTTAATACTTAATT
Found at i:2151422 original size:21 final size:20
Alignment explanation
Indices: 2151393--2151449 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
2151383 AACAATCGCA
* *
2151393 ATGAGATTAATTATTATAAT
1 ATGAAATTAAATATTATAAT
2151413 GATGAAATTAAATATTATAAT
1 -ATGAAATTAAATATTATAAT
2151434 AGTGAAATTAAA-ATTA
1 A-TGAAATTAAATATTA
2151450 ATGTTAAGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 5 0.15
21 28 0.85
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.39
Consensus pattern (20 bp):
ATGAAATTAAATATTATAAT
Found at i:2152009 original size:23 final size:23
Alignment explanation
Indices: 2151960--2152014 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
2151950 AGAAAAGAGA
**
2151960 AAAAGAAAAAAAATTAAAAAAAG
1 AAAAGAAAAAAAAGGAAAAAAAG
* *
2151983 -AAAGAAAAAAAAGGAGAGAAAG
1 AAAAGAAAAAAAAGGAAAAAAAG
2152005 AAAAGAAAAA
1 AAAAGAAAAA
2152015 TTTATATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 18 0.67
23 9 0.33
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (23 bp):
AAAAGAAAAAAAAGGAAAAAAAG
Found at i:2152129 original size:17 final size:18
Alignment explanation
Indices: 2152107--2152146 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
2152097 TATTCATGTC
2152107 ATATTTTA-TT-TTTTATT
1 ATATTTTAGTTATTTT-TT
2152124 ATATTTTAGTTATTTTTT
1 ATATTTTAGTTATTTTTT
2152142 ATATT
1 ATATT
2152147 GTGTACGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.38
18 9 0.43
19 4 0.19
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (18 bp):
ATATTTTAGTTATTTTTT
Found at i:2153200 original size:15 final size:15
Alignment explanation
Indices: 2153180--2153209 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2153170 TATGATAAAT
*
2153180 TATTTTAATTTTTTA
1 TATTTTAATATTTTA
2153195 TATTTTAATATTTTA
1 TATTTTAATATTTTA
2153210 AGTAATTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:2153256 original size:21 final size:21
Alignment explanation
Indices: 2153232--2153274 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
2153222 TAGAGTAAAA
*
2153232 ATAAAATAAT-TATAATAAATT
1 ATAAAA-AATATAAAATAAATT
2153253 ATAAAAAATATAAAATAAATT
1 ATAAAAAATATAAAATAAATT
2153274 A
1 A
2153275 AGATACGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAAAAAATATAAAATAAATT
Found at i:2153364 original size:24 final size:24
Alignment explanation
Indices: 2153337--2153430 Score: 75
Period size: 24 Copynumber: 3.8 Consensus size: 24
2153327 TGAAAATAAA
*
2153337 AAATAAATAAATTATTAATATTTT
1 AAATAAATAAATTATTAATAATTT
* * * *
2153361 AAATACATAAA-AAATAATACGATAT
1 AAATAAATAAATTATTAATA--ATTT
*
2153386 AAATACATAAATATATTAA-AATTT
1 AAATAAATAAAT-TATTAATAATTT
*
2153410 ATATAAAATAAATTATTAATA
1 AAAT-AAATAAATTATTAATA
2153431 TATAAAAAAT
Statistics
Matches: 54, Mismatches: 10, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
23 6 0.11
24 22 0.41
25 21 0.39
26 1 0.02
27 4 0.07
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (24 bp):
AAATAAATAAATTATTAATAATTT
Found at i:2153432 original size:20 final size:21
Alignment explanation
Indices: 2153409--2153457 Score: 70
Period size: 18 Copynumber: 2.5 Consensus size: 21
2153399 TATTAAAATT
2153409 TATATAAAATAAATTAT-TAA
1 TATATAAAATAAATTATATAA
2153429 TATAT-AAA-AAATTATATAA
1 TATATAAAATAAATTATATAA
2153448 -ATATAAAATA
1 TATATAAAATA
2153458 CTTAAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 11 0.42
19 9 0.35
20 6 0.23
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TATATAAAATAAATTATATAA
Found at i:2153434 original size:34 final size:34
Alignment explanation
Indices: 2153382--2153469 Score: 101
Period size: 32 Copynumber: 2.6 Consensus size: 34
2153372 AAATAATACG
* * *
2153382 ATAT-AAATACATAAATATATTAAAATTTATATAA
1 ATATAAAATACTTAAA-ATATAAAAAATTATATAA
* *
2153416 A-ATAAATTA-TTAATATATAAAAAATTATATAA
1 ATATAAAATACTTAAAATATAAAAAATTATATAA
2153448 ATATAAAATACTTAAAATATAA
1 ATATAAAATACTTAAAATATAA
2153470 TTATAATATA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
32 17 0.39
33 12 0.27
34 15 0.34
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (34 bp):
ATATAAAATACTTAAAATATAAAAAATTATATAA
Found at i:2154164 original size:19 final size:19
Alignment explanation
Indices: 2154124--2154185 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
2154114 CAAATTCATT
*
2154124 AATATAAAAT-TTTAAA-A
1 AATAAAAAATATTTAAATA
*
2154141 TATAAAAAATATTTAAATA
1 AATAAAAAATATTTAAATA
* *
2154160 AATAATAATTATTTAATATA
1 AATAAAAAATATTTAA-ATA
*
2154180 ATTAAA
1 AATAAA
2154186 TTTAAATGTA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
17 8 0.23
18 6 0.17
19 14 0.40
20 7 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AATAAAAAATATTTAAATA
Found at i:2155656 original size:28 final size:28
Alignment explanation
Indices: 2155625--2155690 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
2155615 TTTTTTACAT
*
2155625 TAATTTAAAAATAAAATATTTATTTTTA
1 TAATATAAAAATAAAATATTTATTTTTA
2155653 TAATATAAAAATAAAATATTTATTTTTA
1 TAATATAAAAATAAAATATTTATTTTTA
2155681 TAATATAAAA
1 TAATATAAAA
2155691 CTTAAAAACT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
TAATATAAAAATAAAATATTTATTTTTA
Found at i:2159795 original size:17 final size:17
Alignment explanation
Indices: 2159761--2159794 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2159751 TTGAAAATTC
*
2159761 TGTAAGTTTTAAGTTTT
1 TGTAAGTTATAAGTTTT
2159778 TGTAAGTTATAA-TTTT
1 TGTAAGTTATAAGTTTT
2159794 T
1 T
2159795 TAGAAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (17 bp):
TGTAAGTTATAAGTTTT
Found at i:2162960 original size:2 final size:2
Alignment explanation
Indices: 2162953--2162990 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
2162943 AATCGATGCA
*
2162953 AT AT AT AT AT AT AT AT AT A- AT AT AA AT A- 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 AT
2162991 GTATGCTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:2163442 original size:18 final size:18
Alignment explanation
Indices: 2163419--2163463 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
2163409 ATATAATTGA
*
2163419 TATTATATTTTTA-TATTT
1 TATTATATTTTAATTA-TT
2163437 TATTATATTTTAATTATT
1 TATTATATTTTAATTATT
2163455 TATTATATT
1 TATTATATT
2163464 ATATTTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 23 0.92
19 2 0.08
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TATTATATTTTAATTATT
Found at i:2269263 original size:20 final size:19
Alignment explanation
Indices: 2269238--2269283 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
2269228 AAAAAATTTC
2269238 CTCTTTCTTTCTTCTTCTCT
1 CTCTTTCTTTCTTCTTC-CT
* *
2269258 CTCTTTGTTTTTTCTTCCT
1 CTCTTTCTTTCTTCTTCCT
*
2269277 CTTTTTC
1 CTCTTTC
2269284 CTTTTGTTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.00, C:0.30, G:0.02, T:0.67
Consensus pattern (19 bp):
CTCTTTCTTTCTTCTTCCT
Found at i:2269615 original size:3 final size:3
Alignment explanation
Indices: 2269609--2269648 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
2269599 ATACATCATC
2269609 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
2269649 TTCTCGCTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:2280917 original size:21 final size:21
Alignment explanation
Indices: 2280887--2280928 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
2280877 AAAATACATA
2280887 TATTATTTT-AAATTATTTTT
1 TATTATTTTAAAATTATTTTT
2280907 TATTGATTTTAAAATTATTTTT
1 TATT-ATTTTAAAATTATTTTT
2280929 AACCTTATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.20
21 5 0.25
22 11 0.55
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TATTATTTTAAAATTATTTTT
Found at i:2281588 original size:21 final size:22
Alignment explanation
Indices: 2281550--2281595 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
2281540 GAAAATTCTA
*
2281550 TTTGAAAAATAATGTTTTTAGT
1 TTTGAAAAATAATATTTTTAGT
*
2281572 TTTGAAAAATAA-ATTTTTATT
1 TTTGAAAAATAATATTTTTAGT
2281593 TTT
1 TTT
2281596 ATTTGTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (22 bp):
TTTGAAAAATAATATTTTTAGT
Found at i:2282180 original size:24 final size:25
Alignment explanation
Indices: 2282145--2282209 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
2282135 TTGTATGAAT
*
2282145 ATATGTAA-TTTTTTAA-ATATTTAA
1 ATATG-AATTTTTTTAATATATATAA
*
2282169 ATATGAATTTTTTTTAATTTATATAA
1 ATATGAA-TTTTTTTAATATATATAA
* *
2282195 ATTTTAATTTTTTTA
1 ATATGAATTTTTTTA
2282210 TTATTTACTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
23 2 0.06
24 5 0.15
25 16 0.47
26 11 0.32
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (25 bp):
ATATGAATTTTTTTAATATATATAA
Found at i:2282195 original size:26 final size:25
Alignment explanation
Indices: 2282153--2282208 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
2282143 ATATATGTAA
*
2282153 TTTTTTAAATATTTAAATATGAATT
1 TTTTTTAAATATATAAATATGAATT
* * *
2282178 TTTTTTAATTTATATAAATTTTAATT
1 TTTTTTAA-ATATATAAATATGAATT
2282204 TTTTT
1 TTTTT
2282209 ATTATTTACT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (25 bp):
TTTTTTAAATATATAAATATGAATT
Found at i:2282355 original size:21 final size:22
Alignment explanation
Indices: 2282292--2282356 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 22
2282282 TATTCAAATT
*
2282292 TAAATAATATTCAAATTTGTTATC
1 TAAATAATA-TCAAATAT-TTATC
* *
2282316 TATATAA-ATAAAATGATTTATC
1 TAAATAATATCAAAT-ATTTATC
2282338 -AAATAATATCAAATATTTA
1 TAAATAATATCAAATATTTA
2282357 ATTTTTTACC
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
21 10 0.29
22 16 0.47
23 2 0.06
24 6 0.18
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (22 bp):
TAAATAATATCAAATATTTATC
Found at i:2283611 original size:8 final size:8
Alignment explanation
Indices: 2283600--2283625 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
2283590 CTGAAAGCCT
2283600 GAAACAAA
1 GAAACAAA
2283608 GAAACAAA
1 GAAACAAA
2283616 GAAACAAA
1 GAAACAAA
2283624 GA
1 GA
2283626 TATGGGTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.73, C:0.12, G:0.15, T:0.00
Consensus pattern (8 bp):
GAAACAAA
Found at i:2289276 original size:30 final size:29
Alignment explanation
Indices: 2289228--2289290 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 29
2289218 ATAAAAAACA
2289228 TATGGGGTAGACCAAATCCCAGATTCAAT
1 TATGGGGTAGACCAAATCCCAGATTCAAT
* *
2289257 TATGGGGTAAGATCAAATCCCAGATTCAGT
1 TATGGGGT-AGACCAAATCCCAGATTCAAT
2289287 TATG
1 TATG
2289291 TTTTTGCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 8 0.26
30 23 0.74
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.27
Consensus pattern (29 bp):
TATGGGGTAGACCAAATCCCAGATTCAAT
Found at i:2289892 original size:11 final size:11
Alignment explanation
Indices: 2289876--2289925 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
2289866 TGATATTAAT
2289876 ATTATTACAAA
1 ATTATTACAAA
2289887 ATTATTAC-AA
1 ATTATTACAAA
*
2289897 A-TGTTATCAAA
1 ATTATTA-CAAA
*
2289908 ATTATTTAAAAA
1 ATTA-TTACAAA
2289920 ATTATT
1 ATTATT
2289926 TAAAGTATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
9 4 0.12
10 4 0.12
11 13 0.41
12 8 0.25
13 3 0.09
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (11 bp):
ATTATTACAAA
Found at i:2289898 original size:32 final size:33
Alignment explanation
Indices: 2289862--2289925 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
2289852 AAATTTATAT
* * *
2289862 CAAATGATATTAATATTA-TTACAAAATTATTA
1 CAAATGATATCAAAATTATTTAAAAAATTATTA
*
2289894 CAAATGTTATCAAAATTATTTAAAAAATTATT
1 CAAATGATATCAAAATTATTTAAAAAATTATT
2289926 TAAAGTATAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (33 bp):
CAAATGATATCAAAATTATTTAAAAAATTATTA
Found at i:2289920 original size:12 final size:12
Alignment explanation
Indices: 2289905--2289929 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2289895 AAATGTTATC
2289905 AAAATTATTTAA
1 AAAATTATTTAA
2289917 AAAATTATTTAA
1 AAAATTATTTAA
2289929 A
1 A
2289930 GTATACCAAA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAATTATTTAA
Found at i:2289965 original size:21 final size:21
Alignment explanation
Indices: 2289883--2289966 Score: 71
Period size: 21 Copynumber: 4.0 Consensus size: 21
2289873 AATATTATTA
*
2289883 CAAAATTA-TTACAAATGTTAT
1 CAAAATTATTTA-AAAAGTTAT
*
2289904 CAAAATTATTTAAAAAATTAT
1 CAAAATTATTTAAAAAGTTAT
** * *** *
2289925 TTAAAGTATACCAAATGTTAT
1 CAAAATTATTTAAAAAGTTAT
2289946 CAAAATTATTTAAAAAGTTAT
1 CAAAATTATTTAAAAAGTTAT
2289967 TTAAAGTATA
Statistics
Matches: 45, Mismatches: 17, Indels: 2
0.70 0.27 0.03
Matches are distributed among these distances:
21 42 0.93
22 3 0.07
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (21 bp):
CAAAATTATTTAAAAAGTTAT
Found at i:2289988 original size:42 final size:42
Alignment explanation
Indices: 2289893--2289993 Score: 157
Period size: 42 Copynumber: 2.4 Consensus size: 42
2289883 CAAAATTATT
2289893 ACAAATGTTATCAAAATTATTTAAAAAATTATTTAAAGTATA
1 ACAAATGTTATCAAAATTATTTAAAAAATTATTTAAAGTATA
* *
2289935 CCAAATGTTATCAAAATTATTTAAAAAGTTATTTAAAGTATA
1 ACAAATGTTATCAAAATTATTTAAAAAATTATTTAAAGTATA
* * *
2289977 ATAAATATTATCGAAAT
1 ACAAATGTTATCAAAAT
2289994 AACCAAAGAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (42 bp):
ACAAATGTTATCAAAATTATTTAAAAAATTATTTAAAGTATA
Found at i:2290039 original size:23 final size:24
Alignment explanation
Indices: 2290008--2290056 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
2289998 AAAGATTACT
* *
2290008 AAAAGTATA-TTAATGGTTATCAA
1 AAAACTATATTTAATGATTATCAA
*
2290031 AAAACTATATTTTATGATTATCAA
1 AAAACTATATTTAATGATTATCAA
2290055 AA
1 AA
2290057 TTACATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (24 bp):
AAAACTATATTTAATGATTATCAA
Found at i:2290104 original size:19 final size:19
Alignment explanation
Indices: 2290082--2290140 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
2290072 GGTTATAAAA
2290082 AAAAGTTATCAAAATATAT
1 AAAAGTTATCAAAATATAT
*
2290101 AAAAGTCA-CTAAAATTATAT
1 AAAAGTTATC-AAAA-TATAT
*
2290121 ATAATGTTATCAAAAT-TAT
1 A-AAAGTTATCAAAATATAT
2290140 A
1 A
2290141 TCCAAAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
18 1 0.03
19 15 0.45
20 7 0.21
21 9 0.27
22 1 0.03
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.34
Consensus pattern (19 bp):
AAAAGTTATCAAAATATAT
Found at i:2291145 original size:21 final size:21
Alignment explanation
Indices: 2290970--2291145 Score: 96
Period size: 21 Copynumber: 8.5 Consensus size: 21
2290960 GTTACCAAAC
*
2290970 TTATATC-AAAGTTATCAAAA
1 TTATATCAAAAGTTATAAAAA
** *
2290990 CCATATCAAATA-CTATAAAAA
1 TTATATCAAA-AGTTATAAAAA
* * * *
2291011 TCATAACAAAAGTTATCAAAG
1 TTATATCAAAAGTTATAAAAA
*
2291032 TCACT-TCAAAAGTTA-AAAAA
1 TTA-TATCAAAAGTTATAAAAA
** * *
2291052 TTATATTTAAAGTTATTAACA
1 TTATATCAAAAGTTATAAAAA
* *
2291073 TTATAT-TAAAGTTTATCAAAA
1 TTATATCAAAAG-TTATAAAAA
*
2291094 TTATATTACGAAA-TT-TAAAAA
1 TTATA-T-CAAAAGTTATAAAAA
* *
2291115 TTATACCAAAAGTTATGAAAA
1 TTATATCAAAAGTTATAAAAA
2291136 TTATATCAAA
1 TTATATCAAA
2291146 TATTGTCAAA
Statistics
Matches: 119, Mismatches: 25, Indels: 23
0.71 0.15 0.14
Matches are distributed among these distances:
19 5 0.04
20 26 0.22
21 80 0.67
22 5 0.04
24 3 0.03
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (21 bp):
TTATATCAAAAGTTATAAAAA
Found at i:2291248 original size:20 final size:21
Alignment explanation
Indices: 2291213--2291294 Score: 62
Period size: 20 Copynumber: 4.0 Consensus size: 21
2291203 AGAAGTTTGC
2291213 AAAATTATATCAAAGC-TATAA
1 AAAATTATATCAAAGCTTAT-A
* *
2291234 AAAATTATAT-TAAGCTTATC
1 AAAATTATATCAAAGCTTATA
* *
2291254 AAAATTATATAAAAAGGTTAT-
1 AAAATTATAT-CAAAGCTTATA
* * *
2291275 CATATTATATCAAAGGTTAT
1 AAAATTATATCAAAGCTTAT
2291295 TAAATATATA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
20 23 0.45
21 21 0.41
22 7 0.14
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.35
Consensus pattern (21 bp):
AAAATTATATCAAAGCTTATA
Found at i:2291283 original size:21 final size:20
Alignment explanation
Indices: 2291256--2291307 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
2291246 AGCTTATCAA
2291256 AATTATATAAAAAGGTTATC
1 AATTATATAAAAAGGTTATC
* *
2291276 ATATTATAT-CAAAGGTTATT
1 A-ATTATATAAAAAGGTTATC
*
2291296 AAATATATAAAA
1 AATTATATAAAA
2291308 TTTTGATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 6 0.23
20 13 0.50
21 7 0.27
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.37
Consensus pattern (20 bp):
AATTATATAAAAAGGTTATC
Found at i:2292141 original size:2 final size:2
Alignment explanation
Indices: 2292134--2292159 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2292124 CATAAATTGG
2292134 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
2292160 GATCTCATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2293730 original size:11 final size:11
Alignment explanation
Indices: 2293714--2293744 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
2293704 ATTTTATTTT
2293714 TTAATATTAAA
1 TTAATATTAAA
2293725 TTAATATTAAA
1 TTAATATTAAA
2293736 TTATATATT
1 TTA-ATATT
2293745 TAACATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.74
12 5 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:2294068 original size:21 final size:21
Alignment explanation
Indices: 2294005--2294075 Score: 78
Period size: 21 Copynumber: 3.4 Consensus size: 21
2293995 AAATTTTTAA
2294005 AATAATTTATTTAATATAATA-
1 AATAATTTATTTAAT-TAATAT
*
2294026 AATAAATTTATATAATT-ATAT
1 AAT-AATTTATTTAATTAATAT
2294047 AATAA-TTATTTAATTAATTAT
1 AATAATTTATTTAATTAA-TAT
2294068 AAT-ATTTA
1 AATAATTTA
2294076 AATAAATATA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
19 9 0.21
20 7 0.16
21 16 0.37
22 11 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATAATTTATTTAATTAATAT
Found at i:2294085 original size:17 final size:18
Alignment explanation
Indices: 2294048--2294085 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
2294038 TAATTATATA
* *
2294048 ATAATTATTTAATTAATT
1 ATAATTATTTAAATAAAT
2294066 ATAA-TATTTAAATAAAT
1 ATAATTATTTAAATAAAT
2294083 ATA
1 ATA
2294086 TAAAATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATAATTATTTAAATAAAT
Found at i:2294258 original size:21 final size:23
Alignment explanation
Indices: 2294232--2294281 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
2294222 ACACATATAC
*
2294232 TATTATTAAT-TTTAATTTTA-T
1 TATTATTAATAATTAATTTTACT
2294253 TATTA-TAATAATTAATTTTACT
1 TATTATTAATAATTAATTTTACT
2294275 T-TTATTA
1 TATTATTA
2294282 TTATTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 4 0.16
21 17 0.68
22 4 0.16
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (23 bp):
TATTATTAATAATTAATTTTACT
Found at i:2294287 original size:21 final size:21
Alignment explanation
Indices: 2294229--2294287 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
2294219 CATACACATA
*
2294229 TACTATTATTAATT-TTAATTT
1 TACTTTTATT-ATTATTAATTT
* *
2294250 TA-TTATTATAATAATTAATTT
1 TACTT-TTATTATTATTAATTT
2294271 TACTTTTATTATTATTA
1 TACTTTTATTATTATTA
2294288 TTATTTCCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
20 3 0.10
21 25 0.83
22 2 0.07
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (21 bp):
TACTTTTATTATTATTAATTT
Found at i:2295209 original size:2 final size:2
Alignment explanation
Indices: 2295202--2295231 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2295192 TTGTGAAATC
2295202 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2295232 AGGAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2295955 original size:2 final size:2
Alignment explanation
Indices: 2295948--2295983 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2295938 TAAGTATACA
2295948 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
2295984 TAGAAGGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2299569 original size:14 final size:14
Alignment explanation
Indices: 2299552--2299578 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2299542 TAAAAATAAA
2299552 AAATTTATTTTATT
1 AAATTTATTTTATT
2299566 AAATTTATTTTAT
1 AAATTTATTTTAT
2299579 AAAAAATAAA
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
AAATTTATTTTATT
Found at i:2300286 original size:24 final size:22
Alignment explanation
Indices: 2300244--2300313 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 22
2300234 ATTAAAAACC
2300244 AATTTTATTTTTTTAAATTTTA
1 AATTTTATTTTTTTAAATTTTA
*
2300266 AATTTTGTTTTTTTCATAATTTTA
1 AATTTTATTTTTTT-A-AATTTTA
** * *
2300290 AAAATT-TTTATTTAAATTTCA
1 AATTTTATTTTTTTAAATTTTA
2300311 AAT
1 AAT
2300314 ATTTTAAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
21 8 0.20
22 14 0.35
23 7 0.17
24 11 0.28
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (22 bp):
AATTTTATTTTTTTAAATTTTA
Found at i:2300317 original size:21 final size:20
Alignment explanation
Indices: 2300251--2300318 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 20
2300241 ACCAATTTTA
*
2300251 TTTTTTTAAATTTTAAATTTT
1 TTTTTTTAAATTTTAAA-TAT
*
2300272 GTTTTTTTCATAATTTTAAAAAT
1 -TTTTTTT-A-AATTTTAAATAT
*
2300295 TTTTATTTAAATTTCAAATAT
1 TTTT-TTTAAATTTTAAATAT
2300316 TTT
1 TTT
2300319 AAATTATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
21 13 0.33
22 12 0.31
23 5 0.13
24 9 0.23
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.63
Consensus pattern (20 bp):
TTTTTTTAAATTTTAAATAT
Found at i:2300698 original size:24 final size:24
Alignment explanation
Indices: 2300670--2300718 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
2300660 GGAGAGAAAG
2300670 AAAGAAAGAAAAAAAAAAGAAAAA
1 AAAGAAAGAAAAAAAAAAGAAAAA
* **
2300694 AAAGAAAGGAGGAAAAAAGAAAAA
1 AAAGAAAGAAAAAAAAAAGAAAAA
2300718 A
1 A
2300719 TAAATATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (24 bp):
AAAGAAAGAAAAAAAAAAGAAAAA
Found at i:2301559 original size:59 final size:59
Alignment explanation
Indices: 2301466--2301579 Score: 140
Period size: 59 Copynumber: 1.9 Consensus size: 59
2301456 TGTCATATTC
* * *
2301466 GTATCGTATCTCCATTCATGACATATTTTACATAATTT-TTCTTAATAATTTAATTTAAT
1 GTATCATATCTCAATTCATGACATATTTTACATAATTTGTT-ATAATAATTTAATTTAAT
* * * * *
2301525 GTATCATATCTCAATTCGTGATATTTTTTTCATAATTTGTTATAATGATTTAATT
1 GTATCATATCTCAATTCATGACATATTTTACATAATTTGTTATAATAATTTAATT
2301580 AAAAAAATTG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
59 44 0.96
60 2 0.04
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (59 bp):
GTATCATATCTCAATTCATGACATATTTTACATAATTTGTTATAATAATTTAATTTAAT
Found at i:2302048 original size:23 final size:25
Alignment explanation
Indices: 2302021--2302081 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
2302011 ATATTCTTAC
2302021 TGTGTTTATATTATTTT-T-TATGT
1 TGTGTTTATATTATTTTATATATGT
2302044 TGTGTTT-TAATT-TTTTATATATGT
1 TGTGTTTAT-ATTATTTTATATATGT
* *
2302068 TGAGTTTATGTTAT
1 TGTGTTTATATTAT
2302082 ATCTCAATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
22 5 0.16
23 11 0.35
24 13 0.42
25 2 0.06
ACGTcount: A:0.20, C:0.00, G:0.15, T:0.66
Consensus pattern (25 bp):
TGTGTTTATATTATTTTATATATGT
Found at i:2303392 original size:21 final size:21
Alignment explanation
Indices: 2303362--2303441 Score: 55
Period size: 21 Copynumber: 4.0 Consensus size: 21
2303352 TATTTTTATT
2303362 TAAAT-TTAATTATAAAAATA
1 TAAATATTAATTATAAAAATA
*
2303382 TAAATATTAA-TAT-TAAAT-
1 TAAATATTAATTATAAAAATA
**
2303400 T-TTTATTAATTATAAATAATA
1 TAAATATTAATTATAAA-AATA
* *
2303421 AAAATA-TAATTAATATAAATA
1 TAAATATTAATT-ATAAAAATA
2303442 AATTAAATAA
Statistics
Matches: 45, Mismatches: 8, Indels: 13
0.68 0.12 0.20
Matches are distributed among these distances:
17 6 0.13
18 4 0.09
19 5 0.11
20 11 0.24
21 13 0.29
22 6 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAATATTAATTATAAAAATA
Found at i:2303450 original size:15 final size:15
Alignment explanation
Indices: 2303410--2303452 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
2303400 TTTTATTAAT
*
2303410 TATAAATAATAAAAA
1 TATAATTAATAAAAA
*
2303425 TATAATTAATATAAA
1 TATAATTAATAAAAA
2303440 TA-AATTAAATAAA
1 TATAATT-AATAAA
2303453 TTAAAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 4 0.17
15 20 0.83
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TATAATTAATAAAAA
Found at i:2305804 original size:21 final size:20
Alignment explanation
Indices: 2305775--2305813 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2305765 TTTTGCATTC
*
2305775 TAAAAAAATTGTATTGATACA
1 TAAAAAAA-TGTATCGATACA
*
2305796 TAAATAAATGTATCGATA
1 TAAAAAAATGTATCGATA
2305814 TATGCTCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.33
Consensus pattern (20 bp):
TAAAAAAATGTATCGATACA
Found at i:2307447 original size:14 final size:13
Alignment explanation
Indices: 2307410--2307454 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
2307400 CAACAAGTGG
2307410 TAATTTCAATATA
1 TAATTTCAATATA
2307423 TATATTT--ATATA
1 TA-ATTTCAATATA
2307435 TAATTATCAATATA
1 TAATT-TCAATATA
2307449 TAATTT
1 TAATTT
2307455 AAACTAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
11 3 0.11
12 8 0.29
13 3 0.11
14 14 0.50
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (13 bp):
TAATTTCAATATA
Found at i:2308318 original size:21 final size:21
Alignment explanation
Indices: 2308292--2308359 Score: 95
Period size: 20 Copynumber: 3.3 Consensus size: 21
2308282 AATTTATAAT
*
2308292 GATATAAATAGTGAATGTATC
1 GATATATATAGTGAATGTATC
2308313 GATATATA-AGTGAATGTATC
1 GATATATATAGTGAATGTATC
*
2308333 GATATATAT-CTGAAATGTATC
1 GATATATATAGTG-AATGTATC
2308354 GATATA
1 GATATA
2308360 GGACCATTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 22 0.51
21 21 0.49
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (21 bp):
GATATATATAGTGAATGTATC
Found at i:2308451 original size:51 final size:51
Alignment explanation
Indices: 2308396--2308534 Score: 136
Period size: 51 Copynumber: 2.7 Consensus size: 51
2308386 TATGGAAAGA
** * *
2308396 AAATGTATTGATATATTTTTCATTATATTGATACATTCTGGGTTTTAACTC
1 AAATGTATCAATATATTTTTCATTATATCGATACATTCTGAGTTTTAACTC
* * * *
2308447 AAATGTGTCAATATATTTTTTATTGTATCGATACATTCTGAGTTTTTGA-TCC
1 AAATGTATCAATATATTTTTCATTATATCGATACATTCTGAG-TTTTAACT-C
* * * * *
2308499 TAATGTATTAATACATTCTTCAATATATCGATACAT
1 AAATGTATCAATATATTTTTCATTATATCGATACAT
2308535 GCAGGCTATT
Statistics
Matches: 70, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
51 36 0.51
52 34 0.49
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.47
Consensus pattern (51 bp):
AAATGTATCAATATATTTTTCATTATATCGATACATTCTGAGTTTTAACTC
Found at i:2317165 original size:2 final size:2
Alignment explanation
Indices: 2317160--2317191 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2317150 TTTACATAAA
*
2317160 AT AT AT AC 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
2317192 TCAATACTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2319180 original size:19 final size:20
Alignment explanation
Indices: 2319158--2319195 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
2319148 GAATTGTTTT
*
2319158 TTTTATTAA-GAATGATCAA
1 TTTTATTAATGAAAGATCAA
*
2319177 TTTTTTTAATGAAAGATCA
1 TTTTATTAATGAAAGATCA
2319196 TACGTTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (20 bp):
TTTTATTAATGAAAGATCAA
Found at i:2319180 original size:20 final size:20
Alignment explanation
Indices: 2319157--2319195 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2319147 GGAATTGTTT
*
2319157 TTTTTATTAA-GAATGATCAA
1 TTTTT-TTAATGAAAGATCAA
2319177 TTTTTTTAATGAAAGATCA
1 TTTTTTTAATGAAAGATCA
2319196 TACGTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.46
Consensus pattern (20 bp):
TTTTTTTAATGAAAGATCAA
Found at i:2323391 original size:8 final size:8
Alignment explanation
Indices: 2323378--2323504 Score: 64
Period size: 8 Copynumber: 14.9 Consensus size: 8
2323368 AATAAGTTTA
2323378 ATATAAAT
1 ATATAAAT
2323386 ATATAAAT
1 ATATAAAT
*
2323394 ATTTTAAA-
1 A-TATAAAT
* *
2323402 ATTTATAT
1 ATATAAAT
2323410 AATATAAAT
1 -ATATAAAT
*
2323419 -TATTAAT
1 ATATAAAT
2323426 ATATTAAAATT
1 ATA-T-AAA-T
*
2323437 TTATAAA-
1 ATATAAAT
2323444 ATATAAAAT
1 ATAT-AAAT
*
2323453 ATTTTAAAT
1 A-TATAAAT
2323462 ATAATTATAAT
1 AT-A-TA-AAT
2323473 ATAATAAAAT
1 AT-AT-AAAT
2323483 ATATAAAT
1 ATATAAAT
2323491 ATATAAAT
1 ATATAAAT
2323499 -TATAAA
1 ATATAAA
2323505 ATAAAAAAAT
Statistics
Matches: 95, Mismatches: 10, Indels: 29
0.71 0.07 0.22
Matches are distributed among these distances:
7 20 0.21
8 28 0.29
9 23 0.24
10 13 0.14
11 11 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
ATATAAAT
Found at i:2323401 original size:17 final size:17
Alignment explanation
Indices: 2323381--2323504 Score: 58
Period size: 18 Copynumber: 6.7 Consensus size: 17
2323371 AAGTTTAATA
2323381 TAAATATATAAATATTT
1 TAAATATATAAATATTT
2323398 TAAAATTTATATAATATAAATTAT
1 T-AAA--TATATAA-AT--ATT-T
2323422 T-AATATATTAAA-ATTT
1 TAAATATA-TAAATATTT
*
2323438 TATAAAATATAAAATATTT
1 TA-AATATAT-AAATATTT
*
2323457 TAAATATAATTATAATATAAT
1 TAAATAT-A-TA-AATAT-TT
* *
2323478 AAAATATATAAATA-TA
1 TAAATATATAAATATTT
2323494 TAAAT-TATAAA
1 TAAATATATAAA
2323505 ATAAAAAAAT
Statistics
Matches: 84, Mismatches: 7, Indels: 34
0.67 0.06 0.27
Matches are distributed among these distances:
15 6 0.07
16 6 0.07
17 5 0.06
18 19 0.23
19 10 0.12
20 19 0.23
21 12 0.14
22 2 0.02
23 3 0.04
24 2 0.02
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAATATATAAATATTT
Found at i:2323413 original size:33 final size:34
Alignment explanation
Indices: 2323376--2323506 Score: 117
Period size: 33 Copynumber: 3.8 Consensus size: 34
2323366 AAAATAAGTT
*
2323376 TAATATAAATATATAAATATTTTAAAA-TTTATA
1 TAATATAAATATATAAATATATTAAAATTTTATA
*
2323409 TAATATAAAT-TATTAATATATTAAAATTTTATA
1 TAATATAAATATATAAATATATTAAAATTTTATA
* * * * *
2323442 AAATATAAAATATTTTAAATATAATTATAATATAATAA
1 TAATAT-AAATA-TATAAATAT-ATTAAAATTTTAT-A
*
2323480 AATATATAAATATATAAAT-TA-TAAAAT
1 TA-ATATAAATATATAAATATATTAAAAT
2323507 AAAAAAATAA
Statistics
Matches: 81, Mismatches: 10, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
32 14 0.17
33 21 0.26
34 9 0.11
35 1 0.01
36 8 0.10
37 16 0.20
38 8 0.10
39 4 0.05
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (34 bp):
TAATATAAATATATAAATATATTAAAATTTTATA
Found at i:2323516 original size:37 final size:37
Alignment explanation
Indices: 2323439--2323516 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 37
2323429 TTAAAATTTT
* * * *
2323439 ATAAAATATAAAATATTTTAAATATAATTATAATATA
1 ATAAAATATAAAATATTATAAATATAATAATAAAAAA
2323476 ATAAAATATATAAATA-TATAAATTATAA-AATAAAAAA
1 ATAAAATATA-AAATATTATAAA-TATAATAATAAAAAA
2323513 ATAA
1 ATAA
2323517 TTAAAGTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
37 25 0.71
38 10 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (37 bp):
ATAAAATATAAAATATTATAAATATAATAATAAAAAA
Found at i:2323521 original size:24 final size:26
Alignment explanation
Indices: 2323462--2323521 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 26
2323452 TATTTTAAAT
* *
2323462 ATAATTATAATATAATAAAATATATAA
1 ATAATTA-AATATAATAAAATAAAAAA
2323489 AT-ATATAAAT-T-ATAAAATAAAAAA
1 ATAAT-TAAATATAATAAAATAAAAAA
2323513 ATAATTAAA
1 ATAATTAAA
2323522 GTAATTGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
24 17 0.59
25 3 0.10
26 5 0.17
27 4 0.14
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (26 bp):
ATAATTAAATATAATAAAATAAAAAA
Found at i:2324651 original size:30 final size:30
Alignment explanation
Indices: 2324617--2324673 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
2324607 TGAAAGGTGG
2324617 TTTGTAGCTTTTTTCATGCAAAAACTATGA
1 TTTGTAGCTTTTTTCATGCAAAAACTATGA
2324647 TTTGTAGCTTTTTTCATGCAAAAACTA
1 TTTGTAGCTTTTTTCATGCAAAAACTA
2324674 CTACTTATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (30 bp):
TTTGTAGCTTTTTTCATGCAAAAACTATGA
Found at i:2329056 original size:13 final size:15
Alignment explanation
Indices: 2329040--2329072 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2329030 AATTGTATAT
2329040 ATAAATA-TT-AAAA
1 ATAAATATTTAAAAA
2329053 ATAAATATTTAAAAA
1 ATAAATATTTAAAAA
2329068 ATAAA
1 ATAAA
2329073 AATATTTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 2 0.11
15 9 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATAAATATTTAAAAA
Found at i:2329060 original size:21 final size:21
Alignment explanation
Indices: 2329036--2329076 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2329026 TATAAATTGT
* *
2329036 ATATATAAATATTAAAAATAA
1 ATATATAAAAAATAAAAATAA
*
2329057 ATATTTAAAAAATAAAAATA
1 ATATATAAAAAATAAAAATA
2329077 TTTAGATAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
ATATATAAAAAATAAAAATAA
Found at i:2329332 original size:28 final size:30
Alignment explanation
Indices: 2329266--2329339 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 30
2329256 AAGTAAAAGG
2329266 TATTTATTTTTTAAATATTTATGAATATATA
1 TATTTATTTTTTAAATATTTA-GAATATATA
*
2329297 TATTTATTTTTTTAATATTTA-AA-ATATA
1 TATTTATTTTTTAAATATTTAGAATATATA
2329325 TATTTATTTTTTAAA
1 TATTTATTTTTTAAA
2329340 GTTTGATAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
28 19 0.46
29 2 0.05
31 20 0.49
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (30 bp):
TATTTATTTTTTAAATATTTAGAATATATA
Found at i:2329350 original size:30 final size:29
Alignment explanation
Indices: 2329266--2329356 Score: 105
Period size: 28 Copynumber: 3.1 Consensus size: 29
2329256 AAGTAAAAGG
*
2329266 TATTTATTTTTTAAATATTTATGAATATATA
1 TATTTATTTTTTAAATA-TTAT-AAAATATA
*
2329297 TATTTATTTTTTTAATATT-TAAAATATA
1 TATTTATTTTTTAAATATTATAAAATATA
*
2329325 TATTTATTTTTTAAAGT-TTGATAAAAAATA
1 TATTTATTTTTTAAA-TATT-ATAAAATATA
2329355 TA
1 TA
2329357 ATTACTCTCT
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
28 23 0.43
29 2 0.04
30 12 0.23
31 16 0.30
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (29 bp):
TATTTATTTTTTAAATATTATAAAATATA
Found at i:2329447 original size:14 final size:15
Alignment explanation
Indices: 2329435--2329468 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 15
2329425 AATTATTAAT
2329435 TATTTTTATTTAAAA
1 TATTTTTATTTAAAA
2329450 TATTTTTAATTATAAAA
1 TATTTTT-ATT-TAAAA
2329467 TA
1 TA
2329469 ATAAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 3 0.18
17 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTTTTATTTAAAA
Found at i:2329467 original size:17 final size:17
Alignment explanation
Indices: 2329418--2329468 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
2329408 AATATTTTAT
* * *
2329418 TATTATTAATTATTAAT
1 TATTTTTAATTATAAAA
2329435 TATTTTT-ATT-TAAAA
1 TATTTTTAATTATAAAA
2329450 TATTTTTAATTATAAAA
1 TATTTTTAATTATAAAA
2329467 TA
1 TA
2329469 ATAAAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 10 0.34
16 6 0.21
17 13 0.45
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATTTTTAATTATAAAA
Found at i:2329895 original size:25 final size:27
Alignment explanation
Indices: 2329853--2329906 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
2329843 ATCTTTAAAC
** *
2329853 TTTTTAAAATAATGATAAT-TAATTTA
1 TTTTTAAAATAAAAATAATATAATATA
2329879 TTTTT-AAATAAAAATAATATAATATA
1 TTTTTAAAATAAAAATAATATAATATA
2329905 TT
1 TT
2329907 AATATCAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 11 0.46
26 13 0.54
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (27 bp):
TTTTTAAAATAAAAATAATATAATATA
Found at i:2329940 original size:24 final size:24
Alignment explanation
Indices: 2329882--2329944 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 24
2329872 TAATTTATTT
2329882 TTAA-ATAAAAATAATATAATATA
1 TTAATATAAAAATAATATAATATA
*
2329905 TTAATATCAAAATTAATAT-ATATAA
1 TTAATAT-AAAAATAATATAATAT-A
2329930 TTGAAT-TAAAAATAA
1 TT-AATATAAAAATAA
2329945 ATTTAATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
23 4 0.12
24 13 0.38
25 14 0.41
26 3 0.09
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (24 bp):
TTAATATAAAAATAATATAATATA
Found at i:2330170 original size:16 final size:19
Alignment explanation
Indices: 2330127--2330176 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
2330117 AATTTGATAG
2330127 TAATT-AAAAATAATTTTA
1 TAATTAAAAAATAATTTTA
2330145 TAATTAAAAAAT-ATTTTA
1 TAATTAAAAAATAATTTTA
2330163 -AA-TAAAAAAGTAAT
1 TAATTAAAAAA-TAAT
2330177 AATTAATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 7 0.24
17 3 0.10
18 13 0.45
19 6 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
TAATTAAAAAATAATTTTA
Found at i:2331757 original size:17 final size:17
Alignment explanation
Indices: 2331737--2331786 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
2331727 TTAAAATTAA
2331737 ATTTTATTTTATTATTT
1 ATTTTATTTTATTATTT
* *
2331754 ATTTTATATTAATATTT
1 ATTTTATTTTATTATTT
*
2331771 -TTATATTTTTATTATT
1 ATTTTA-TTTTATTATT
2331787 AAATTAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 4 0.15
17 23 0.85
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTATTTTATTATTT
Found at i:2333059 original size:29 final size:28
Alignment explanation
Indices: 2332997--2333058 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 28
2332987 AATTATTAAG
2332997 TTTTTAAAATTTTTAATTAGATATTTTA
1 TTTTTAAAATTTTTAATTAGATATTTTA
*
2333025 TTTTTAATAGTTTTTAAATTAG-TATATTTA
1 TTTTTAA-AATTTTT-AATTAGATAT-TTTA
2333055 TTTT
1 TTTT
2333059 ATTTATGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 7 0.23
29 9 0.30
30 14 0.47
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (28 bp):
TTTTTAAAATTTTTAATTAGATATTTTA
Found at i:2340166 original size:21 final size:21
Alignment explanation
Indices: 2340127--2340167 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2340117 GGATCTTGAA
*
2340127 TTGTTAGTTTAATTAATTTAT
1 TTGTTAGCTTAATTAATTTAT
* *
2340148 TTGTTAGCTTGATTTATTTA
1 TTGTTAGCTTAATTAATTTA
2340168 ATTAAAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.02, G:0.12, T:0.61
Consensus pattern (21 bp):
TTGTTAGCTTAATTAATTTAT
Found at i:2340201 original size:18 final size:19
Alignment explanation
Indices: 2340168--2340208 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
2340158 GATTTATTTA
2340168 ATTAAAAAATATTTTA-AT
1 ATTAAAAAATATTTTATAT
2340186 ATTAAATAAATA-TTTATAT
1 ATTAAA-AAATATTTTATAT
2340205 ATTA
1 ATTA
2340209 TATATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTAAAAAATATTTTATAT
Found at i:2340235 original size:24 final size:24
Alignment explanation
Indices: 2340190--2340235 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
2340180 TTTAATATTA
**
2340190 AATAAATATTTATATATTATATAT
1 AATAAATATTTATATAAAATATAT
2340214 AATAAATATTTA-ATAAAA-ATAT
1 AATAAATATTTATATAAAATATAT
2340236 TTATTTGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 4 0.20
24 12 0.60
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
AATAAATATTTATATAAAATATAT
Found at i:2340833 original size:3 final size:3
Alignment explanation
Indices: 2340825--2340851 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
2340815 GAAAAAGTTA
2340825 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
2340852 TGAAAAATAC
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2341279 original size:63 final size:63
Alignment explanation
Indices: 2341152--2341283 Score: 158
Period size: 63 Copynumber: 2.1 Consensus size: 63
2341142 TAGTATAAAC
* * * * *
2341152 TAATTTAATATATTAAAGTAATACGATTGTTTAATTTATTATTATAATTATTTTATTATAAAT
1 TAATTTAATATATTAAAGTAATACAATTATTTAATTTATTATAATAATTATTTTATAAAAAAT
* * * **
2341215 TAATTTAATATATTATAGTAATATAATTATTTAATTTGTTA-AATTTTTATTTTATAAAATAAT
1 TAATTTAATATATTAAAGTAATACAATTATTTAATTTATTATAATAATTATTTTATAAAA-AAT
2341278 TAATTT
1 TAATTT
2341284 TAACTTTTAA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
62 13 0.22
63 45 0.78
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.54
Consensus pattern (63 bp):
TAATTTAATATATTAAAGTAATACAATTATTTAATTTATTATAATAATTATTTTATAAAAAAT
Found at i:2341462 original size:16 final size:16
Alignment explanation
Indices: 2341441--2341471 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2341431 CAAAAAATAA
2341441 TTATTTTATTATAATT
1 TTATTTTATTATAATT
2341457 TTATTTTATTATAAT
1 TTATTTTATTATAAT
2341472 AAATCAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATTTTATTATAATT
Found at i:2343470 original size:2 final size:2
Alignment explanation
Indices: 2343463--2343497 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2343453 TGTAAAGAAT
2343463 TA TA TA TA TA 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 TA TA T
2343498 CTAACAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.