Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold125
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: 3608436
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 25 characters in sequence are not A, C, G, or T
File 7 of 18
Found at i:987308 original size:14 final size:14
Alignment explanation
Indices: 987289--987338 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
987279 TTAGTTATTA
987289 AAAATATAAAAATT
1 AAAATATAAAAATT
* *
987303 AAAATATTAAACTT
1 AAAATATAAAAATT
* *
987317 AATAATACAATAATT
1 AA-AATATAAAAATT
987332 AAAATAT
1 AAAATAT
987339 TTTATTGACT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
14 18 0.64
15 10 0.36
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (14 bp):
AAAATATAAAAATT
Found at i:987772 original size:2 final size:2
Alignment explanation
Indices: 987765--987798 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
987755 CTGCTTATCC
987765 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
987799 TAATATTAAA
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:989007 original size:3 final size:3
Alignment explanation
Indices: 988999--989026 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
988989 TAAAAACATC
988999 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
989027 GAGGGCTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:990172 original size:28 final size:28
Alignment explanation
Indices: 990128--990182 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
990118 TAAGTCAGTT
*
990128 TATATTATTTTTTAATTT-ATTATTTAAA
1 TATATTATTTTTAAATTTAATT-TTTAAA
990156 TATATT-TTTTTAAAATTTAATTTTTAA
1 TATATTATTTTT-AAATTTAATTTTTAA
990183 TAATTTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 5 0.21
28 16 0.67
29 3 0.12
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (28 bp):
TATATTATTTTTAAATTTAATTTTTAAA
Found at i:990179 original size:14 final size:15
Alignment explanation
Indices: 990162--990191 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
990152 TAAATATATT
990162 TTTTTAA-AATTTAA
1 TTTTTAATAATTTAA
990176 TTTTTAATAATTTAA
1 TTTTTAATAATTTAA
990191 T
1 T
990192 AAATTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTTTAATAATTTAA
Found at i:990198 original size:19 final size:19
Alignment explanation
Indices: 990174--990227 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
990164 TTTAAAATTT
990174 AATTTTTAATAATTTAATA
1 AATTTTTAATAATTTAATA
*
990193 AATTTTTATTAAATTT--TA
1 AATTTTTAAT-AATTTAATA
* *
990211 AAATTTAAATAATTTAA
1 AATTTTTAATAATTTAA
990228 AATTTTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
17 5 0.18
18 9 0.32
19 9 0.32
20 5 0.18
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
AATTTTTAATAATTTAATA
Found at i:990205 original size:36 final size:36
Alignment explanation
Indices: 990149--990238 Score: 105
Period size: 35 Copynumber: 2.5 Consensus size: 36
990139 TTAATTTATT
* * *
990149 ATTTAAATATATTTTTTTAAAATTT-AATTTTTAATA
1 ATTT-AATAAATTTTTTTAAAATTTAAAATTTAAATA
*
990185 ATTTAATAAATTTTTATTAAATTTTAAAATTTAAATA
1 ATTTAATAAATTTTT-TTAAAATTTAAAATTTAAATA
990222 ATTT-A-AAATTTTTTTAA
1 ATTTAATAAATTTTTTTAA
990239 TGCTTATATT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
34 4 0.08
35 18 0.38
36 13 0.27
37 13 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (36 bp):
ATTTAATAAATTTTTTTAAAATTTAAAATTTAAATA
Found at i:990412 original size:18 final size:17
Alignment explanation
Indices: 990389--990428 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
990379 ATTAAGCTTA
990389 TTTTTAAATAAATTTAAT
1 TTTTTAAATAAATTT-AT
**
990407 TTTTTATGTAAATTTAT
1 TTTTTAAATAAATTTAT
990424 TTTTT
1 TTTTT
990429 GTTTTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
TTTTTAAATAAATTTAT
Found at i:991066 original size:13 final size:13
Alignment explanation
Indices: 991048--991089 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
991038 TTAAATTGAG
991048 TTAATTTTAATTA
1 TTAATTTTAATTA
991061 TTAATTTT--TTAA
1 TTAATTTTAATT-A
991073 TTTAATTTTAATTA
1 -TTAATTTTAATTA
991087 TTA
1 TTA
991090 TTTATTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
11 2 0.08
12 1 0.04
13 19 0.76
14 1 0.04
15 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTAATTTTAATTA
Found at i:991079 original size:26 final size:25
Alignment explanation
Indices: 991048--991098 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 25
991038 TTAAATTGAG
*
991048 TTAATTTTAATTATTAATTTTTTAAT
1 TTAATTTTAATTATT-ATTTATTAAT
991074 TTAATTTTAATTATTATTTATTAAT
1 TTAATTTTAATTATTATTTATTAAT
991099 AAAAATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (25 bp):
TTAATTTTAATTATTATTTATTAAT
Found at i:991526 original size:19 final size:19
Alignment explanation
Indices: 991480--991542 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
991470 TAATTTTGTG
* * *
991480 TTATAAATATATGAAAATA
1 TTATAATTATATTAATATA
* *
991499 TT-TATATTATTTTTATATA
1 TTATA-ATTATATTAATATA
*
991518 TTATAATTATATTAAAATA
1 TTATAATTATATTAATATA
991537 TTATAA
1 TTATAA
991543 ATTTTAATAT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
18 2 0.06
19 30 0.88
20 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
TTATAATTATATTAATATA
Found at i:991851 original size:6 final size:6
Alignment explanation
Indices: 991837--991896 Score: 102
Period size: 6 Copynumber: 10.0 Consensus size: 6
991827 TCAAGCCACC
* *
991837 GAACCA GAGCCA GAGCCA GAACCA GAACCA GAACCA GAACCA GAACCA
1 GAACCA GAACCA GAACCA GAACCA GAACCA GAACCA GAACCA GAACCA
991885 GAACCA GAACCA
1 GAACCA GAACCA
991897 CACCCAGAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.47, C:0.33, G:0.20, T:0.00
Consensus pattern (6 bp):
GAACCA
Found at i:998070 original size:18 final size:17
Alignment explanation
Indices: 998047--998092 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
998037 ATGTATATTT
998047 AAAATATAAAAATTATAA
1 AAAATATAAAAATT-TAA
*
998065 AAAATAAAAAAATTTAA
1 AAAATATAAAAATTTAA
998082 AATAATATAAA
1 AA-AATATAAA
998093 TGATATTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAATATAAAAATTTAA
Found at i:998093 original size:9 final size:9
Alignment explanation
Indices: 998047--998092 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
998037 ATGTATATTT
998047 AAAATATAA
1 AAAATATAA
*
998056 AAATTATAA
1 AAAATATAA
998065 AAAATA-AA
1 AAAATATAA
*
998073 AAAATTTAA
1 AAAATATAA
998082 AATAATATAA
1 AA-AATATAA
998092 A
1 A
998093 TGATATTTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
8 7 0.23
9 17 0.55
10 7 0.23
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (9 bp):
AAAATATAA
Found at i:998093 original size:16 final size:16
Alignment explanation
Indices: 998043--998093 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
998033 ATATATGTAT
998043 ATTTAAAAT-ATAAAA
1 ATTTAAAATAATAAAA
998058 ATTATAAAA-AATAAAAAA
1 ATT-TAAAATAAT--AAAA
*
998076 ATTTAAAATAATATAA
1 ATTTAAAATAATAAAA
998092 AT
1 AT
998094 GATATTTCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
15 3 0.10
16 12 0.40
17 5 0.17
18 10 0.33
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
ATTTAAAATAATAAAA
Found at i:1001892 original size:27 final size:27
Alignment explanation
Indices: 1001852--1001906 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
1001842 TCTTACGCCC
* *
1001852 ACCTAAATAATTCAGTAGCCCAAATTA
1 ACCTAAACAATTCAATAGCCCAAATTA
* *
1001879 ACCTAAACACTTCAATGGCCCAAATTA
1 ACCTAAACAATTCAATAGCCCAAATTA
1001906 A
1 A
1001907 TATTTTACCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.44, C:0.25, G:0.07, T:0.24
Consensus pattern (27 bp):
ACCTAAACAATTCAATAGCCCAAATTA
Found at i:1005053 original size:28 final size:29
Alignment explanation
Indices: 1005022--1005095 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
1005012 ATCCTTTATC
*
1005022 TAAATA-AA-TTTATATTTTTTATTATAAT
1 TAAATATAATTTTA-ATTTTTAATTATAAT
1005050 TAAATATAATTTTAATTTTTAATTAT-AT
1 TAAATATAATTTTAATTTTTAATTATAAT
* *
1005078 TTAATATTTATTTTAATT
1 TAAATA-TAATTTTAATT
1005096 AATAATTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
28 13 0.32
29 23 0.57
30 4 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (29 bp):
TAAATATAATTTTAATTTTTAATTATAAT
Found at i:1005072 original size:23 final size:22
Alignment explanation
Indices: 1005039--1005097 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
1005029 ATTTATATTT
*
1005039 TTTATTATAATTAAATATAAT-
1 TTTATTTTAATTAAATATAATA
* *
1005060 TTTAATTTTTAATTATATTTAATA
1 TTT-A-TTTTAATTAAATATAATA
1005084 TTTATTTTAATTAA
1 TTTATTTTAATTAA
1005098 TAATTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
21 3 0.10
22 10 0.32
23 15 0.48
24 3 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTATTTTAATTAAATATAATA
Found at i:1005170 original size:40 final size:42
Alignment explanation
Indices: 1005124--1005213 Score: 100
Period size: 41 Copynumber: 2.2 Consensus size: 42
1005114 ATAAATACAG
1005124 TTTTAATTAT-TATTGT-T-TAAATA-TTAAAAAAATAAAATA
1 TTTTAATTATATATT-TATATAAATATTTAAAAAAATAAAATA
* **
1005163 TTTTTAATT-TATATTTATATAAATATTTAAAATAATTTAATA
1 -TTTTAATTATATATTTATATAAATATTTAAAAAAATAAAATA
1005205 TTTTAATTA
1 TTTTAATTA
1005214 AAATTAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
39 2 0.05
40 13 0.31
41 14 0.33
42 13 0.31
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (42 bp):
TTTTAATTATATATTTATATAAATATTTAAAAAAATAAAATA
Found at i:1005919 original size:16 final size:17
Alignment explanation
Indices: 1005887--1005920 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1005877 TATTATATTT
*
1005887 TTTAAAAGTACAATAAA
1 TTTAAAAATACAATAAA
1005904 TTTAAAAATA-AATAAA
1 TTTAAAAATACAATAAA
1005920 T
1 T
1005921 AATTTTTTAA
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:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (17 bp):
TTTAAAAATACAATAAA
Found at i:1006102 original size:11 final size:11
Alignment explanation
Indices: 1006086--1006116 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1006076 TATGTTTTAT
1006086 AAAAATTATAA
1 AAAAATTATAA
1006097 AAAAATTATAA
1 AAAAATTATAA
*
1006108 AAAATTTAT
1 AAAAATTAT
1006117 TTTAAATTTA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:1009708 original size:17 final size:17
Alignment explanation
Indices: 1009686--1009720 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1009676 CGCAAGAAGG
1009686 TGAAAAGAAGGGGCCTT
1 TGAAAAGAAGGGGCCTT
* *
1009703 TGAAAAGTAGGGGGCTT
1 TGAAAAGAAGGGGCCTT
1009720 T
1 T
1009721 TTTTTTTGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.37, T:0.23
Consensus pattern (17 bp):
TGAAAAGAAGGGGCCTT
Found at i:1009806 original size:2 final size:2
Alignment explanation
Indices: 1009799--1009835 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1009789 GATGCCGGTA
1009799 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1009836 GCAGATTATC
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:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:1014276 original size:3 final size:3
Alignment explanation
Indices: 1014268--1014299 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
1014258 TGTCAGATTC
1014268 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1014300 TAAGTCATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1014699 original size:6 final size:6
Alignment explanation
Indices: 1014688--1014720 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
1014678 TGCATGTGTA
*
1014688 TAGCAG TAGCAG TAGGAG TAGCAG TAGCAG TAG
1 TAGCAG TAGCAG TAGCAG TAGCAG TAGCAG TAG
1014721 GGGTAATAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.36, T:0.18
Consensus pattern (6 bp):
TAGCAG
Found at i:1017880 original size:16 final size:15
Alignment explanation
Indices: 1017844--1017892 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
1017834 ACGAATAAAA
1017844 TAATAAA-AAAATAT
1 TAATAAATAAAATAT
1017858 TAA-AAATAAAATATT
1 TAATAAATAAAATA-T
* *
1017873 TAATAAATTAAATAA
1 TAATAAATAAAATAT
1017888 TAATA
1 TAATA
1017893 TTATAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
13 3 0.10
14 9 0.30
15 9 0.30
16 9 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TAATAAATAAAATAT
Found at i:1017885 original size:21 final size:22
Alignment explanation
Indices: 1017861--1017902 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1017851 AAAATATTAA
1017861 AAATAA-AATATT-TAATAAATT
1 AAATAATAATATTATAA-AAATT
1017882 AAATAATAATATTATAAAAAT
1 AAATAATAATATTATAAAAAT
1017903 AATTTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 10 0.53
23 3 0.16
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AAATAATAATATTATAAAAATT
Found at i:1022348 original size:14 final size:14
Alignment explanation
Indices: 1022326--1022358 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
1022316 AGGCTTCGAT
*
1022326 TAATTGTGGAAAAA
1 TAATAGTGGAAAAA
1022340 TAATAGTGGAAAAA
1 TAATAGTGGAAAAA
1022354 TAATA
1 TAATA
1022359 AATGAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (14 bp):
TAATAGTGGAAAAA
Found at i:1027713 original size:2 final size:2
Alignment explanation
Indices: 1027706--1027742 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1027696 CTTATTTTGA
*
1027706 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1027743 GGAAAACTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1028344 original size:6 final size:6
Alignment explanation
Indices: 1028333--1028369 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
1028323 TGAAAGGGGT
1028333 CAGGGC CAGGGC CAGGGC CAGGGC CAGGGC CAGGGC C
1 CAGGGC CAGGGC CAGGGC CAGGGC CAGGGC CAGGGC C
1028370 GGGGGCCGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.35, G:0.49, T:0.00
Consensus pattern (6 bp):
CAGGGC
Found at i:1028600 original size:36 final size:36
Alignment explanation
Indices: 1028551--1028623 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
1028541 AACTTAATTT
1028551 TTAAATGCCGATCATTATTTCAGGATAAAAGATATG
1 TTAAATGCCGATCATTATTTCAGGATAAAAGATATG
*
1028587 TTAAATGCTGATCATTATTTCAGGATAAAAGATATG
1 TTAAATGCCGATCATTATTTCAGGATAAAAGATATG
1028623 T
1 T
1028624 CGCATATGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (36 bp):
TTAAATGCCGATCATTATTTCAGGATAAAAGATATG
Found at i:1045397 original size:18 final size:19
Alignment explanation
Indices: 1045371--1045410 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
1045361 TTTAATAATT
*
1045371 ATTTATTTAAATTTTTTTA
1 ATTTATTTAAATATTTTTA
1045390 ATTT-TTTAAATATTTTTA
1 ATTTATTTAAATATTTTTA
1045408 ATT
1 ATT
1045411 ATAAAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTATTTAAATATTTTTA
Found at i:1046008 original size:16 final size:16
Alignment explanation
Indices: 1045987--1046022 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
1045977 CTTGAATTAA
1045987 AATTTAATTTAATAAT
1 AATTTAATTTAATAAT
1046003 AATTTAATTTAATAAT
1 AATTTAATTTAATAAT
1046019 AATT
1 AATT
1046023 AAAATAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTTAATTTAATAAT
Found at i:1046451 original size:17 final size:18
Alignment explanation
Indices: 1046420--1046473 Score: 58
Period size: 17 Copynumber: 3.0 Consensus size: 18
1046410 TTATAATTAC
1046420 ATAAAA-TAAATAAATAA-
1 ATAAAATTAAA-AAATAAT
1046437 ATAAAATTAAAAAATAAT
1 ATAAAATTAAAAAATAAT
**
1046455 ATATTATTAAAAAAATAAT
1 ATAAAATT-AAAAAATAAT
1046474 TTGAATAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 12 0.38
18 10 0.31
19 10 0.31
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAAAATTAAAAAATAAT
Found at i:1046463 original size:18 final size:18
Alignment explanation
Indices: 1046442--1046525 Score: 56
Period size: 16 Copynumber: 4.9 Consensus size: 18
1046432 AATAAATAAA
1046442 ATTAAAAAATAATATATT
1 ATTAAAAAATAATATATT
*
1046460 ATTAAAAAAATAAT-T-TG
1 ATT-AAAAAATAATATATT
* *
1046477 AATAAAATATAA-ATATT
1 ATTAAAAAATAATATATT
*
1046494 A--AAAAAATTAAT-TATA
1 ATTAAAAAA-TAATATATT
1046510 ATATAAAAAAT-ATATA
1 AT-TAAAAAATAATATA
1046526 AATATAATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
15 5 0.10
16 16 0.31
17 7 0.14
18 7 0.14
19 16 0.31
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (18 bp):
ATTAAAAAATAATATATT
Found at i:1046531 original size:22 final size:21
Alignment explanation
Indices: 1046481--1046534 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
1046471 AATTTGAATA
1046481 AAATATAAATATTAAAAAAATT
1 AAATAT-AATATTAAAAAAATT
*
1046503 AATTATAATA-TAAAAAATATAT
1 AAATATAATATTAAAAAA-AT-T
1046525 AAATATAATA
1 AAATATAATA
1046535 AGTGCACGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 7 0.25
21 6 0.21
22 15 0.54
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATATAATATTAAAAAAATT
Found at i:1048434 original size:16 final size:17
Alignment explanation
Indices: 1048410--1048450 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
1048400 TTTAAAATAA
*
1048410 TATAAAAATATT-AATT
1 TATATAAATATTAAATT
1048426 TATATAAATATTAAATT
1 TATATAAATATTAAATT
*
1048443 TAAATAAA
1 TATATAAA
1048451 AATATATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TATATAAATATTAAATT
Found at i:1048902 original size:27 final size:27
Alignment explanation
Indices: 1048863--1048921 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
1048853 TCAGTTTTCC
* *
1048863 TTTTAATTTATTACTT-ATCAATATATAT
1 TTTTAATTCATTA-TTCATAAATATA-AT
1048891 TTTTAA-TCATTATTCATAAATATAAT
1 TTTTAATTCATTATTCATAAATATAAT
1048917 TTTTA
1 TTTTA
1048922 TAATTAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 9 0.32
27 13 0.46
28 6 0.21
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (27 bp):
TTTTAATTCATTATTCATAAATATAAT
Found at i:1049016 original size:30 final size:27
Alignment explanation
Indices: 1048962--1049017 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
1048952 AATTAGTATA
* *
1048962 TTAAAAAATAATTAATCGAATTATAAC
1 TTAAAAAAAAATTAATCCAATTATAAC
1048989 TTAAAAAAAAATTAGATACCAATTTATAA
1 TTAAAAAAAAATTA-AT-CCAA-TTATAA
1049018 TTGATGATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 13 0.54
28 2 0.08
29 3 0.12
30 6 0.25
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.32
Consensus pattern (27 bp):
TTAAAAAAAAATTAATCCAATTATAAC
Found at i:1050637 original size:18 final size:17
Alignment explanation
Indices: 1050612--1050646 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
1050602 TATATAAATT
1050612 AATTAAATTAAATTATA
1 AATTAAATTAAATTATA
1050629 AATTCAAATTAAATTATA
1 AATT-AAATTAAATTATA
1050647 GATTTGCCCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
AATTAAATTAAATTATA
Found at i:1050712 original size:2 final size:2
Alignment explanation
Indices: 1050705--1050738 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1050695 ATAAGGACTT
1050705 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
1050739 ACGTGTGAGA
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:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1051022 original size:14 final size:14
Alignment explanation
Indices: 1050999--1051031 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
1050989 GCAAAACTTA
*
1050999 TTAATTAAATTTTT
1 TTAATAAAATTTTT
1051013 TTAATAAAATTTTT
1 TTAATAAAATTTTT
1051027 TTAAT
1 TTAAT
1051032 GATTTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTAATAAAATTTTT
Found at i:1051057 original size:16 final size:17
Alignment explanation
Indices: 1051036--1051068 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1051026 TTTAATGATT
1051036 TTATTA-AAAAAATTAA
1 TTATTATAAAAAATTAA
*
1051052 TTATTATAAAATATTAA
1 TTATTATAAAAAATTAA
1051069 AATTAGATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TTATTATAAAAAATTAA
Found at i:1051138 original size:15 final size:16
Alignment explanation
Indices: 1051120--1051161 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
1051110 ATATAAAATA
1051120 TATATTATTTATTT-T
1 TATATTATTTATTTAT
1051135 TATATTATTT-TTTAT
1 TATATTATTTATTTAT
*
1051150 TA-ATTTTTTATT
1 TATATTATTTATT
1051162 ATGTAATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TATATTATTTATTTAT
Found at i:1051145 original size:10 final size:10
Alignment explanation
Indices: 1051128--1051163 Score: 54
Period size: 11 Copynumber: 3.4 Consensus size: 10
1051118 TATATATTAT
1051128 TTATTTTTATA
1 TTATTTTT-TA
1051139 TTATTTTTTA
1 TTATTTTTTA
1051149 TTAATTTTTTA
1 TT-ATTTTTTA
1051160 TTAT
1 TTAT
1051164 GTAATTGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 6 0.25
11 18 0.75
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (10 bp):
TTATTTTTTA
Found at i:1051146 original size:12 final size:11
Alignment explanation
Indices: 1051124--1051162 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
1051114 AAAATATATA
*
1051124 TTATTTATTTT
1 TTATTAATTTT
1051135 TATATT-ATTTT
1 T-TATTAATTTT
1051146 TTATTAATTTT
1 TTATTAATTTT
1051157 TTATTA
1 TTATTA
1051163 TGTAATTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 4 0.15
11 18 0.69
12 4 0.15
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTATTAATTTT
Found at i:1052198 original size:24 final size:24
Alignment explanation
Indices: 1052166--1052212 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
1052156 TCTTAAGTAC
1052166 TTTTATT-AATATAAATATATTTAA
1 TTTTATTAAAT-TAAATATATTTAA
* *
1052190 TTTTTTTAAATTATATATATTTA
1 TTTTATTAAATTAAATATATTTA
1052213 GAATATCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTTATTAAATTAAATATATTTAA
Found at i:1052271 original size:13 final size:14
Alignment explanation
Indices: 1052234--1052274 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
1052224 CTCAATGAAC
1052234 ATAAATAAAAATAT
1 ATAAATAAAAATAT
1052248 ATCAAATAAAAATAT
1 AT-AAATAAAAATAT
*
1052263 -TAAACAAAAATA
1 ATAAATAAAAATA
1052275 CTTTGAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 10 0.40
14 3 0.12
15 12 0.48
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (14 bp):
ATAAATAAAAATAT
Found at i:1053754 original size:43 final size:41
Alignment explanation
Indices: 1053673--1053774 Score: 102
Period size: 43 Copynumber: 2.4 Consensus size: 41
1053663 TTTAATCTCA
* *
1053673 TTTATTTTATT-CTCATCATTTAAATTAAATACAATTTAAATT
1 TTTATTTTATTATTTAT-ATTTAAATTAAATACAATTTAAA-T
* *
1053715 TTTAAATTTT-TTATTTATATTTAAATTAAGTTA-ATTTTAAAT
1 TTT--ATTTTATTATTTATATTTAAATTAA-ATACAATTTAAAT
1053757 TTTATTTTATTATTTATA
1 TTTATTTTATTATTTATA
1053775 ATATTATTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
40 5 0.10
41 9 0.18
42 7 0.14
43 20 0.39
44 10 0.20
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (41 bp):
TTTATTTTATTATTTATATTTAAATTAAATACAATTTAAAT
Found at i:1054009 original size:11 final size:11
Alignment explanation
Indices: 1053993--1054052 Score: 70
Period size: 11 Copynumber: 5.5 Consensus size: 11
1053983 TTGATAATTT
1053993 TAAATATAATA
1 TAAATATAATA
1054004 TAAATATAATA
1 TAAATATAATA
*
1054015 TAAAAATAAT-
1 TAAATATAATA
*
1054025 TAAATTATAACA
1 TAAA-TATAATA
1054037 TAAATA-AATA
1 TAAATATAATA
*
1054047 TGAATA
1 TAAATA
1054053 AAAAAATTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
10 12 0.29
11 26 0.62
12 4 0.10
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (11 bp):
TAAATATAATA
Found at i:1054016 original size:16 final size:16
Alignment explanation
Indices: 1053993--1054052 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
1053983 TTGATAATTT
1053993 TAAATAT-AATATAAA
1 TAAATATAAATATAAA
* *
1054008 TATAATATAAAAATAAT
1 TA-AATATAAATATAAA
*
1054025 TAAAT-TATAACATAAA
1 TAAATATA-AATATAAA
*
1054041 TAAATATGAATA
1 TAAATATAAATA
1054053 AAAAAATTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
15 4 0.11
16 22 0.63
17 9 0.26
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (16 bp):
TAAATATAAATATAAA
Found at i:1056701 original size:21 final size:20
Alignment explanation
Indices: 1056676--1056715 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1056666 AAATAAAAAA
1056676 TTAT-TTTTA-TATTAATATT
1 TTATATTTTATTATTAA-ATT
1056695 TTATATTTTATTATTAAATT
1 TTATATTTTATTATTAAATT
1056715 T
1 T
1056716 AAATAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTATATTTTATTATTAAATT
Found at i:1057285 original size:17 final size:17
Alignment explanation
Indices: 1057260--1057298 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
1057250 TCAATAAGCC
*
1057260 AAAATAGAAAAAAAAAT
1 AAAAAAGAAAAAAAAAT
* *
1057277 AAAAAAGAAGAAAAACT
1 AAAAAAGAAAAAAAAAT
1057294 AAAAA
1 AAAAA
1057299 GAGGCGTAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.82, C:0.03, G:0.08, T:0.08
Consensus pattern (17 bp):
AAAAAAGAAAAAAAAAT
Found at i:1062475 original size:2 final size:2
Alignment explanation
Indices: 1062468--1062497 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1062458 TTCCAGTATG
1062468 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1062498 GATGAAAGCT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1065600 original size:16 final size:16
Alignment explanation
Indices: 1065579--1065616 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
1065569 ATTTGAATAT
1065579 TTTAAATTTAAATTAA
1 TTTAAATTTAAATTAA
* *
1065595 TTTAAATTTATATTAT
1 TTTAAATTTAAATTAA
1065611 TTTAAA
1 TTTAAA
1065617 ATCAAGTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTAAATTTAAATTAA
Found at i:1070495 original size:49 final size:49
Alignment explanation
Indices: 1070423--1070522 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
1070413 TCAACTGTCT
*
1070423 TCTGTTTCAAGCCTTTGTCCAATAATCATTTTTATTACTTCTGTAATTC
1 TCTGTTTCAAGCCTTTGTCCAATAATCATTTTTATTACTGCTGTAATTC
1070472 TCTGTTTCAAGCCTTTGTCCAATAATCATTTTTATTACTGCTGTAATTC
1 TCTGTTTCAAGCCTTTGTCCAATAATCATTTTTATTACTGCTGTAATTC
1070521 TC
1 TC
1070523 GTCAATAGCC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.22, C:0.21, G:0.09, T:0.48
Consensus pattern (49 bp):
TCTGTTTCAAGCCTTTGTCCAATAATCATTTTTATTACTGCTGTAATTC
Found at i:1072795 original size:501 final size:501
Alignment explanation
Indices: 1071853--1072859 Score: 2005
Period size: 501 Copynumber: 2.0 Consensus size: 501
1071843 CGGTGGTTTA
1071853 GATAAACAAGAGGAACCTCTAGCGATTTCCAACCATGAACTGAAGAAATGAAAAAACGATGCACC
1 GATAAACAAGAGGAACCTCTAGCGATTTCCAACCATGAACTGAAGAAATGAAAAAACGATGCACC
1071918 ATCGATGACCGAGTGATTGATCGAAACACTAATGAAAGCCCCATCAACGAGTTTAGTTACTTGTA
66 ATCGATGACCGAGTGATTGATCGAAACACTAATGAAAGCCCCATCAACGAGTTTAGTTACTTGTA
1071983 CAGCAAGTAATGGTTTGACGGTACCTTCGAAAGTTTTAACCTCATGCAATGGGAAAAAGGAATCG
131 CAGCAAGTAATGGTTTGACGGTACCTTCGAAAGTTTTAACCTCATGCAATGGGAAAAAGGAATCG
*
1072048 ACAATGGAAGGAACATAAACAGGTTCAATGATATCTCTAGTGGTTACCTCATCGACTGGGGCGTG
196 ACAATGGAAGGAACATAAACAGGTTCAATGATATCTCTAGTGGTTACCTCATCGACCGGGGCGTG
1072113 AACGAACAAAGCTCCGGCATTGTTGCAGTCGATGGAGAAGGAAGTGGTGTCGTCGCTGTCATGCT
261 AACGAACAAAGCTCCGGCATTGTTGCAGTCGATGGAGAAGGAAGTGGTGTCGTCGCTGTCATGCT
1072178 CAACGGCGGCGAGGCGACCCGTTAATGGTGGGAAGTGGTCCAGAGCCTTTGAAAGAGAGGTTTTA
326 CAACGGCGGCGAGGCGACCCGTTAATGGTGGGAAGTGGTCCAGAGCCTTTGAAAGAGAGGTTTTA
1072243 ACGTAGTGAACCAAAACGGTCTCGGATTCTTCGTCTTGATTCAACTGAGGCATGTGAAAAAGAAG
391 ACGTAGTGAACCAAAACGGTCTCGGATTCTTCGTCTTGATTCAACTGAGGCATGTGAAAAAGAAG
1072308 TCCCCTTTGAATGTACTCTGCCAGAAGGAACTGAAGATCCCATGGG
456 TCCCCTTTGAATGTACTCTGCCAGAAGGAACTGAAGATCCCATGGG
1072354 GATAAACAAGAGGAACCTCTAGCGATTTCCAACCATGAACTGAAGAAATGAAAAAACGATGCACC
1 GATAAACAAGAGGAACCTCTAGCGATTTCCAACCATGAACTGAAGAAATGAAAAAACGATGCACC
1072419 ATCGATGACCGAGTGATTGATCGAAACACTAATGAAAGCCCCATCAACGAGTTTAGTTACTTGTA
66 ATCGATGACCGAGTGATTGATCGAAACACTAATGAAAGCCCCATCAACGAGTTTAGTTACTTGTA
1072484 CAGCAAGTAATGGTTTGACGGTACCTTCGAAAGTTTTAACCTCATGCAATGGGAAAAAGGAATCG
131 CAGCAAGTAATGGTTTGACGGTACCTTCGAAAGTTTTAACCTCATGCAATGGGAAAAAGGAATCG
1072549 ACAATGGAAGGAACATAAACAGGTTCAATGATATCTCTAGTGGTTACCTCATCGACCGGGGCGTG
196 ACAATGGAAGGAACATAAACAGGTTCAATGATATCTCTAGTGGTTACCTCATCGACCGGGGCGTG
1072614 AACGAACAAAGCTCCGGCATTGTTGCAGTCGATGGAGAAGGAAGTGGTGTCGTCGCTGTCATGCT
261 AACGAACAAAGCTCCGGCATTGTTGCAGTCGATGGAGAAGGAAGTGGTGTCGTCGCTGTCATGCT
1072679 CAACGGCGGCGAGGCGACCCGTTAATGGTGGGAAGTGGTCCAGAGCCTTTGAAAGAGAGGTTTTA
326 CAACGGCGGCGAGGCGACCCGTTAATGGTGGGAAGTGGTCCAGAGCCTTTGAAAGAGAGGTTTTA
1072744 ACGTAGTGAACCAAAACGGTCTCGGATTCTTCGTCTTGATTCAACTGAGGCATGTGAAAAAGAAG
391 ACGTAGTGAACCAAAACGGTCTCGGATTCTTCGTCTTGATTCAACTGAGGCATGTGAAAAAGAAG
1072809 TCCCCTTTGAATGTACTCTGCCAGAAGGAACTGAAGATCCCATGGG
456 TCCCCTTTGAATGTACTCTGCCAGAAGGAACTGAAGATCCCATGGG
1072855 GATAA
1 GATAA
1072860 GTCAATCTTT
Statistics
Matches: 505, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
501 505 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.23
Consensus pattern (501 bp):
GATAAACAAGAGGAACCTCTAGCGATTTCCAACCATGAACTGAAGAAATGAAAAAACGATGCACC
ATCGATGACCGAGTGATTGATCGAAACACTAATGAAAGCCCCATCAACGAGTTTAGTTACTTGTA
CAGCAAGTAATGGTTTGACGGTACCTTCGAAAGTTTTAACCTCATGCAATGGGAAAAAGGAATCG
ACAATGGAAGGAACATAAACAGGTTCAATGATATCTCTAGTGGTTACCTCATCGACCGGGGCGTG
AACGAACAAAGCTCCGGCATTGTTGCAGTCGATGGAGAAGGAAGTGGTGTCGTCGCTGTCATGCT
CAACGGCGGCGAGGCGACCCGTTAATGGTGGGAAGTGGTCCAGAGCCTTTGAAAGAGAGGTTTTA
ACGTAGTGAACCAAAACGGTCTCGGATTCTTCGTCTTGATTCAACTGAGGCATGTGAAAAAGAAG
TCCCCTTTGAATGTACTCTGCCAGAAGGAACTGAAGATCCCATGGG
Found at i:1077969 original size:9 final size:9
Alignment explanation
Indices: 1077947--1077975 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
1077937 ATTTCTTCTT
1077947 ATTTATTT-
1 ATTTATTTA
1077955 ATTTATTTA
1 ATTTATTTA
1077964 ATTTATTTA
1 ATTTATTTA
1077973 ATT
1 ATT
1077976 ACTGTTATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
ATTTATTTA
Found at i:1080362 original size:2 final size:2
Alignment explanation
Indices: 1080355--1080390 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1080345 TTAGTGTGGG
1080355 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
1080391 AGTAGTACAT
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):
TA
Found at i:1081361 original size:6 final size:6
Alignment explanation
Indices: 1081352--1081426 Score: 59
Period size: 6 Copynumber: 12.7 Consensus size: 6
1081342 ATAAATATTT
* *
1081352 TTTATA TTTAT- TTTATA TTTATA TTTATA TTT-TA ATTA-A TTTTTAA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTAT-A
* *
1081398 TATTATG TTTATA TTT-TG TTGTATA TTTA
1 T-TTATA TTTATA TTTATA TT-TATA TTTA
1081427 AAGTATTAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
5 15 0.28
6 30 0.56
7 6 0.11
8 3 0.06
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (6 bp):
TTTATA
Found at i:1081367 original size:11 final size:11
Alignment explanation
Indices: 1081351--1081383 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
1081341 AATAAATATT
1081351 TTTTATATTTA
1 TTTTATATTTA
1081362 TTTTATATTTA
1 TTTTATATTTA
1081373 TATTTATATTT
1 T-TTTATATTT
1081384 TAATTAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.57
12 9 0.43
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTATATTTA
Found at i:1083139 original size:11 final size:12
Alignment explanation
Indices: 1083123--1083206 Score: 55
Period size: 12 Copynumber: 7.0 Consensus size: 12
1083113 TTGTACCGTG
1083123 TTTATATTAT-T
1 TTTATATTATAT
1083134 TTTATATTATAT
1 TTTATATTATAT
* * *
1083146 TTTAATTTTTTACA
1 TTT-ATATTATA-T
* *
1083160 TATATATTA-AG
1 TTTATATTATAT
1083171 TTTATATTATAT
1 TTTATATTATAT
* * *
1083183 CTCATTTTATAT
1 TTTATATTATAT
*
1083195 TTTATTTTATAT
1 TTTATATTATAT
1083207 AATTAATCAC
Statistics
Matches: 55, Mismatches: 14, Indels: 7
0.72 0.18 0.09
Matches are distributed among these distances:
11 18 0.33
12 25 0.45
13 10 0.18
14 2 0.04
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (12 bp):
TTTATATTATAT
Found at i:1083444 original size:23 final size:25
Alignment explanation
Indices: 1083418--1083476 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 25
1083408 TGCTTATTTG
1083418 TATTATATTCATATAA-T-TTTTTA
1 TATTATATTCATATAATTATTTTTA
*
1083441 TATTGTATT--T-TAATTATTTTTA
1 TATTATATTCATATAATTATTTTTA
*
1083463 TGTTATATTCATAT
1 TATTATATTCATAT
1083477 CGTGTTTCGT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
20 3 0.11
21 2 0.07
22 13 0.46
23 8 0.29
24 1 0.04
25 1 0.04
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (25 bp):
TATTATATTCATATAATTATTTTTA
Found at i:1086367 original size:29 final size:29
Alignment explanation
Indices: 1086296--1086367 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 29
1086286 TTATTTTATT
*
1086296 ATTAAT-ATTTATATATTTTACTAAATAA
1 ATTAATAATTTAAATATTTTACTAAATAA
* *
1086324 ATTAA-AATTAAAAATATTTTTATTAAATAA
1 ATTAATAATT-TAAATA-TTTTACTAAATAA
1086354 A-TAATAATTTAAAT
1 ATTAATAATTTAAAT
1086368 TGAATTAACT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
28 8 0.22
29 11 0.31
30 17 0.47
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (29 bp):
ATTAATAATTTAAATATTTTACTAAATAA
Found at i:1087646 original size:32 final size:32
Alignment explanation
Indices: 1087609--1087669 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
1087599 CGAATATATG
* *
1087609 AATATAT-CAAAATTTATATAACATAAATTATT
1 AATATATAAAAAATATATA-AACATAAATTATT
*
1087641 AATATATAAAAAATATATAAATATAAATT
1 AATATATAAAAAATATATAAACATAAATT
1087670 TTTTTATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 16 0.64
33 9 0.36
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (32 bp):
AATATATAAAAAATATATAAACATAAATTATT
Found at i:1092687 original size:3 final size:3
Alignment explanation
Indices: 1092681--1092727 Score: 85
Period size: 3 Copynumber: 15.3 Consensus size: 3
1092671 CTTTATTATC
1092681 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
1092727 A
1 A
1092728 TTCCATCCCA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:1093211 original size:44 final size:44
Alignment explanation
Indices: 1093161--1093249 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
1093151 TCATAATAAA
1093161 AAAATGTCATTCTGTGATTGAACTCTCTATTCTTCTCAAAATAG
1 AAAATGTCATTCTGTGATTGAACTCTCTATTCTTCTCAAAATAG
* *
1093205 AAAATGTTATTCTGTGATTGAACTCTCTTTTCTTCTCAAAATAG
1 AAAATGTCATTCTGTGATTGAACTCTCTATTCTTCTCAAAATAG
1093249 A
1 A
1093250 GCCTTAGTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.40
Consensus pattern (44 bp):
AAAATGTCATTCTGTGATTGAACTCTCTATTCTTCTCAAAATAG
Found at i:1095121 original size:26 final size:25
Alignment explanation
Indices: 1095092--1095152 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
1095082 TCATTCGAAT
*
1095092 TAAATTAAATTTATAAAAAATTTATC
1 TAAATTAAATTCAT-AAAAATTTATC
* *
1095118 TAAAACTCAATTCATAAAAATTTATC
1 T-AAATTAAATTCATAAAAATTTATC
1095144 -AAATTAAAT
1 TAAATTAAAT
1095153 AAATAACCAC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
24 7 0.24
26 12 0.41
27 10 0.34
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (25 bp):
TAAATTAAATTCATAAAAATTTATC
Found at i:1095909 original size:21 final size:20
Alignment explanation
Indices: 1095885--1095926 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
1095875 AATTAAGAAT
1095885 TATTTAAAATATAATTGTTTA
1 TATTTAAAATATAATT-TTTA
* *
1095906 TATTTAATATATTATTTTTA
1 TATTTAAAATATAATTTTTA
1095926 T
1 T
1095927 TAATTTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TATTTAAAATATAATTTTTA
Found at i:1096575 original size:2 final size:2
Alignment explanation
Indices: 1096566--1096594 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1096556 TTTACAAAAA
1096566 AT AT -T 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
1096595 GAGTTTGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:1097749 original size:2 final size:2
Alignment explanation
Indices: 1097742--1097785 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1097732 CATTGTTTAA
1097742 AT AT 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 AT AT
1097784 AT
1 AT
1097786 CATGATTCCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1106512 original size:45 final size:45
Alignment explanation
Indices: 1106448--1106538 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
1106438 TTAGTCATTT
1106448 AACATTATGTATTCCTCTTCAAGAATGATTCGTTCTACTCTGAAA
1 AACATTATGTATTCCTCTTCAAGAATGATTCGTTCTACTCTGAAA
1106493 AACATTATGTATTCCTCTTCAAGAATGATTCGTTCTACTCTGAAA
1 AACATTATGTATTCCTCTTCAAGAATGATTCGTTCTACTCTGAAA
1106538 A
1 A
1106539 CGAATAACTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (45 bp):
AACATTATGTATTCCTCTTCAAGAATGATTCGTTCTACTCTGAAA
Found at i:1107677 original size:17 final size:17
Alignment explanation
Indices: 1107655--1107688 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1107645 CAAGTTGCCT
1107655 TCACAGTTAAATTTGGA
1 TCACAGTTAAATTTGGA
1107672 TCACAGTTAAATTTGGA
1 TCACAGTTAAATTTGGA
1107689 ACCGAGTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (17 bp):
TCACAGTTAAATTTGGA
Found at i:1113029 original size:2 final size:2
Alignment explanation
Indices: 1113024--1113053 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1113014 AAAAAAAACA
*
1113024 AT AT AT AC 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
1113054 TAGCCAACCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1114516 original size:20 final size:18
Alignment explanation
Indices: 1114491--1114531 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
1114481 CAAATTATCA
1114491 ATATTAATATCATATATTAT
1 ATATTAATATCAT-TA-TAT
*
1114511 ATATTATTATCATTATAT
1 ATATTAATATCATTATAT
1114529 ATA
1 ATA
1114532 ATTACCAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
19 2 0.10
20 12 0.60
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATTAATATCATTATAT
Found at i:1117937 original size:3 final size:3
Alignment explanation
Indices: 1117931--1117966 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
1117921 CCTCACATCA
1117931 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1117967 CTTAAAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1120466 original size:2 final size:2
Alignment explanation
Indices: 1120459--1120489 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1120449 ATCCAGAATA
*
1120459 AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1120490 GAGAGAGAGA
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:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1122677 original size:23 final size:23
Alignment explanation
Indices: 1122651--1122719 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
1122641 TCATTATAAC
1122651 TTTAAATAAAAAATTTATTTAAA
1 TTTAAATAAAAAATTTATTTAAA
* *
1122674 TTTAATTATAAAAA--TATATAAA
1 TTTAAATA-AAAAATTTATTTAAA
* *
1122696 TATTAATATAAAATATTTTTTTAA
1 T-TTAA-ATAAAAAATTTATTTAA
1122720 TTTTTTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
22 8 0.23
23 15 0.43
24 7 0.20
25 5 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TTTAAATAAAAAATTTATTTAAA
Found at i:1123522 original size:32 final size:32
Alignment explanation
Indices: 1123472--1123544 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 32
1123462 AATATAAATT
* *
1123472 TAATATAATTATATAATATCTCAAAATTTATA
1 TAATATAATTATAAAATATATCAAAATTTATA
* *
1123504 TAATATGAATTA-AAAATATATTATAATTTATA
1 TAATAT-AATTATAAAATATATCAAAATTTATA
1123536 TAAATATAA
1 T-AATATAA
1123545 AATATTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
32 25 0.71
33 10 0.29
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.42
Consensus pattern (32 bp):
TAATATAATTATAAAATATATCAAAATTTATA
Found at i:1126329 original size:2 final size:2
Alignment explanation
Indices: 1126318--1126348 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1126308 TATCATAGGC
1126318 TA TA TA -A 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
1126349 ATCAAATGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1127518 original size:17 final size:17
Alignment explanation
Indices: 1127496--1127529 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
1127486 TATTTTTTAT
1127496 TTTTTTATTAA-TAATTA
1 TTTTTTA-TAATTAATTA
1127513 TTTTTTATAATTAATTA
1 TTTTTTATAATTAATTA
1127530 ATTCATTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTTATAATTAATTA
Found at i:1128073 original size:15 final size:16
Alignment explanation
Indices: 1128053--1128086 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1128043 ATTATAAAAA
*
1128053 TATTTATAT-TATTTT
1 TATTTATATAAATTTT
1128068 TATTTATATAAATTTT
1 TATTTATATAAATTTT
1128084 TAT
1 TAT
1128087 ATAATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTATATAAATTTT
Found at i:1128074 original size:27 final size:27
Alignment explanation
Indices: 1128030--1128088 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
1128020 ATTATTTTTA
1128030 TATATTTTATTATATTATAAAAATATT
1 TATATTTTATTATATTATAAAAATATT
* * *
1128057 TATATTATTTTTAT-TTATATAAATTTT
1 TATATT-TTATTATATTATAAAAATATT
1128084 TATAT
1 TATAT
1128089 AATAATAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 22 0.79
28 6 0.21
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (27 bp):
TATATTTTATTATATTATAAAAATATT
Found at i:1128403 original size:19 final size:19
Alignment explanation
Indices: 1128379--1128423 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
1128369 TATATGATAA
*
1128379 AATAAAAAAATATAATTAT
1 AATAAAAAAATATAAATAT
* *
1128398 AATAAATATATATAAATAT
1 AATAAAAAAATATAAATAT
*
1128417 ATTAAAA
1 AATAAAA
1128424 TTTATATTGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AATAAAAAAATATAAATAT
Found at i:1128424 original size:10 final size:10
Alignment explanation
Indices: 1128342--1128422 Score: 61
Period size: 10 Copynumber: 8.7 Consensus size: 10
1128332 TGATTATGTG
1128342 ATAT-AATAT
1 ATATAAATAT
*
1128351 AATATTAATAT
1 -ATATAAATAT
*
1128362 ATATATATAT
1 ATATAAATAT
1128372 ATGATAAA-AT
1 AT-ATAAATAT
1128382 A-A-AAA-A-
1 ATATAAATAT
*
1128388 ATATAATTAT
1 ATATAAATAT
1128398 A-ATAAATAT
1 ATATAAATAT
1128407 ATATAAATAT
1 ATATAAATAT
1128417 AT-TAAA
1 ATATAAA
1128423 ATTTATATTG
Statistics
Matches: 59, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
6 1 0.02
7 5 0.08
8 3 0.05
9 13 0.22
10 28 0.47
11 9 0.15
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (10 bp):
ATATAAATAT
Found at i:1128429 original size:20 final size:20
Alignment explanation
Indices: 1128388--1128441 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
1128378 AAATAAAAAA
* *
1128388 ATATAATTATAAT-AAATAT
1 ATATAAATATATTAAAATAT
*
1128407 ATATAAATATATTAAAATTT
1 ATATAAATATATTAAAATAT
**
1128427 ATATTGATATATTAA
1 ATATAAATATATTAA
1128442 TACGATGTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 11 0.38
20 18 0.62
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
ATATAAATATATTAAAATAT
Found at i:1128768 original size:2 final size:2
Alignment explanation
Indices: 1128761--1128798 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1128751 TCTTTCTTGA
1128761 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
1128799 TTGTCCGAAA
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:1129459 original size:11 final size:11
Alignment explanation
Indices: 1129443--1129486 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
1129433 TTAATTATAT
1129443 CTAATCAAAGA
1 CTAATCAAAGA
1129454 CTAATCAAAGA
1 CTAATCAAAGA
* *
1129465 CTAAT-ATA-C
1 CTAATCAAAGA
1129474 CTAATCAAAGA
1 CTAATCAAAGA
1129485 CT
1 CT
1129487 TTATGAATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
11 18 0.67
ACGTcount: A:0.50, C:0.20, G:0.07, T:0.23
Consensus pattern (11 bp):
CTAATCAAAGA
Found at i:1129599 original size:10 final size:10
Alignment explanation
Indices: 1129539--1129607 Score: 52
Period size: 10 Copynumber: 6.8 Consensus size: 10
1129529 ATATCGTCCA
1129539 TAAA-ATTTT
1 TAAATATTTT
*
1129548 TAAAT-TTTA
1 TAAATATTTT
* **
1129557 AAAATATTAA
1 TAAATATTTT
1129567 TAAATATTTT
1 TAAATATTTT
*
1129577 TATATTAATTTT
1 TA-AAT-ATTTT
1129589 TAAATATTTT
1 TAAATATTTT
1129599 TAATATATT
1 TAA-ATATT
1129608 ATATACGAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
9 11 0.23
10 20 0.43
11 9 0.19
12 7 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
TAAATATTTT
Found at i:1129660 original size:20 final size:21
Alignment explanation
Indices: 1129632--1129670 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
1129622 ATTATCTTAT
*
1129632 TAAATTATAATAA-AATATTA
1 TAAAATATAATAATAATATTA
*
1129652 TAAAATATATTAATAATAT
1 TAAAATATAATAATAATAT
1129671 ATCGAGTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAAATATAATAATAATATTA
Found at i:1146457 original size:18 final size:17
Alignment explanation
Indices: 1146422--1146471 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
1146412 TACTATGATG
* *
1146422 TTATATATATTTATATA
1 TTATATATATATAAATA
1146439 TTATATGATATATAAATA
1 TTATAT-ATATATAAATA
1146457 TTATATATTATATAA
1 TTATATA-TATATAA
1146472 TTAAAAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 7 0.24
18 22 0.76
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
TTATATATATATAAATA
Found at i:1146460 original size:25 final size:25
Alignment explanation
Indices: 1146404--1146469 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
1146394 TATATTTTTT
* *
1146404 AATATT-TATACTATGATGTTATATA
1 AATATTATATATTAT-ATGATATATA
*
1146429 TAT-TTATATATTATATGATATATA
1 AATATTATATATTATATGATATATA
1146453 AATATTATATATTATAT
1 AATATTATATATTATAT
1146470 AATTAAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
24 13 0.37
25 22 0.63
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (25 bp):
AATATTATATATTATATGATATATA
Found at i:1146762 original size:23 final size:24
Alignment explanation
Indices: 1146696--1146762 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 24
1146686 ACTTTTTATA
* *
1146696 ATTATCATTAAAAATAAATAAAATT
1 ATTATTATTATAAAT-AATAAAATT
* **
1146721 ATCGATTATTATATTTAATAAAA-T
1 AT-TATTATTATAAATAATAAAATT
1146745 ATTATTATTATAAATAAT
1 ATTATTATTATAAATAAT
1146763 TTAACGTATT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
23 13 0.39
24 3 0.09
25 9 0.27
26 8 0.24
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (24 bp):
ATTATTATTATAAATAATAAAATT
Found at i:1150218 original size:98 final size:98
Alignment explanation
Indices: 1150049--1150246 Score: 387
Period size: 98 Copynumber: 2.0 Consensus size: 98
1150039 GTAGACAAGG
1150049 AAAGAAGCCCAGGAAGCTGCAAGCATAGAAAGTCATAAATTAGACCTTCAATCAAAAGGAAAAGG
1 AAAGAAGCCCAGGAAGCTGCAAGCATAGAAAGTCATAAATTAGACCTTCAATCAAAAGGAAAAGG
*
1150114 GTGAAACAGATTAATCACAATGAAAATATAAAT
66 GCGAAACAGATTAATCACAATGAAAATATAAAT
1150147 AAAGAAGCCCAGGAAGCTGCAAGCATAGAAAGTCATAAATTAGACCTTCAATCAAAAGGAAAAGG
1 AAAGAAGCCCAGGAAGCTGCAAGCATAGAAAGTCATAAATTAGACCTTCAATCAAAAGGAAAAGG
1150212 GCGAAACAGATTAATCACAATGAAAATATAAAT
66 GCGAAACAGATTAATCACAATGAAAATATAAAT
1150245 AA
1 AA
1150247 TTTGACACAG
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 99 1.00
ACGTcount: A:0.51, C:0.15, G:0.18, T:0.17
Consensus pattern (98 bp):
AAAGAAGCCCAGGAAGCTGCAAGCATAGAAAGTCATAAATTAGACCTTCAATCAAAAGGAAAAGG
GCGAAACAGATTAATCACAATGAAAATATAAAT
Found at i:1150997 original size:6 final size:6
Alignment explanation
Indices: 1150988--1151014 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1150978 AGTTAATGTT
1150988 AATTGC AATTGC AATTGC AATTGC AAT
1 AATTGC AATTGC AATTGC AATTGC AAT
1151015 AGACTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (6 bp):
AATTGC
Found at i:1158462 original size:22 final size:21
Alignment explanation
Indices: 1158430--1158472 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
1158420 TCCTCTTTAA
*
1158430 TTTTTTATATCA-TCATATTT
1 TTTTTTATATCACACATATTT
1158450 TTTTTTAATTATCACACATATTT
1 TTTTTT-A-TATCACACATATTT
1158473 AATTTTTGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 1 0.05
22 5 0.26
23 7 0.37
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTTTATATCACACATATTT
Found at i:1160023 original size:16 final size:17
Alignment explanation
Indices: 1160002--1160033 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1159992 AATGAGTTAA
1160002 AAATTTTAAA-TAAATC
1 AAATTTTAAATTAAATC
1160018 AAATTTTAAATTAAAT
1 AAATTTTAAATTAAAT
1160034 TTTATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATTTTAAATTAAATC
Found at i:1160364 original size:21 final size:21
Alignment explanation
Indices: 1160329--1160381 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
1160319 ACTTAATTTG
* *
1160329 AATTAAATTATATTTAAAATA
1 AATTAATTTAAATTTAAAATA
* * *
1160350 TATTATTTTAAATTTAAATTA
1 AATTAATTTAAATTTAAAATA
1160371 AATTAATTTAA
1 AATTAATTTAA
1160382 TTAGAGTTGT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATTAATTTAAATTTAAAATA
Found at i:1160370 original size:16 final size:16
Alignment explanation
Indices: 1160324--1160370 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
1160314 TATTTACTTA
*
1160324 ATTTGAATTAAATTAT
1 ATTTAAATTAAATTAT
* *
1160340 ATTTAAAATATATTAT
1 ATTTAAATTAAATTAT
1160356 -TTTAAATTTAAATTA
1 ATTTAAA-TTAAATTA
1160371 AATTAATTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
15 6 0.24
16 19 0.76
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTAAATTAAATTAT
Found at i:1161246 original size:29 final size:29
Alignment explanation
Indices: 1161183--1161262 Score: 72
Period size: 29 Copynumber: 2.7 Consensus size: 29
1161173 TATTTGTTAT
* * *
1161183 AATTTAAAAAATAAAAAATTCAAATACTA
1 AATTTATATAATAAAAAATTAAAATACTA
* *
1161212 AATTTA-ATAATATAAAAATTAAAATATTC
1 AATTTATATAATA-AAAAATTAAAATACTA
*
1161241 ACTTTATTATAATACAAAAATT
1 AATTTA-TATAATA-AAAAATT
1161263 GTTAGTAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
28 5 0.12
29 24 0.57
31 13 0.31
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (29 bp):
AATTTATATAATAAAAAATTAAAATACTA
Found at i:1161755 original size:2 final size:2
Alignment explanation
Indices: 1161748--1161779 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1161738 ATTTATTATC
1161748 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
1161780 TTCATCATAT
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):
AT
Found at i:1162165 original size:2 final size:2
Alignment explanation
Indices: 1162158--1162182 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1162148 TCTTTATTGT
1162158 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
1162183 TTTAGGGATT
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:1164798 original size:3 final size:3
Alignment explanation
Indices: 1164754--1164781 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1164744 TGATGATAGG
1164754 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1164782 GCATCGACGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:1166560 original size:2 final size:2
Alignment explanation
Indices: 1166553--1166594 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1166543 TAATGGGATC
1166553 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1166595 AAGTTCAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1169664 original size:2 final size:2
Alignment explanation
Indices: 1169659--1169686 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1169649 AAACACAAGG
1169659 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
1169687 TTCTTAAGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1170227 original size:28 final size:28
Alignment explanation
Indices: 1170169--1170229 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
1170159 TTTCACTATT
* * **
1170169 AATATATTAAATATTAATTCTTAATTTC
1 AATATATCAAATACTAATTCTTAATGCC
1170197 AATATATCAAATACTAA-TCTTTAATGCC
1 AATATATCAAATACTAATTC-TTAATGCC
1170225 AATAT
1 AATAT
1170230 TTCTACTACC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (28 bp):
AATATATCAAATACTAATTCTTAATGCC
Found at i:1172313 original size:55 final size:55
Alignment explanation
Indices: 1172229--1172337 Score: 209
Period size: 55 Copynumber: 2.0 Consensus size: 55
1172219 CGTAAACTTC
1172229 TTCTCACCTAAATTTAACTCTTCCCTTTGTTCTACTCTTGTTCCTTAACATTTTA
1 TTCTCACCTAAATTTAACTCTTCCCTTTGTTCTACTCTTGTTCCTTAACATTTTA
*
1172284 TTCTCACCTAAATTTAACTCTTCCCTTTGTTCTACTCTTTTTCCTTAACATTTT
1 TTCTCACCTAAATTTAACTCTTCCCTTTGTTCTACTCTTGTTCCTTAACATTTT
1172338 CTCTCTTTTT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.19, C:0.28, G:0.03, T:0.50
Consensus pattern (55 bp):
TTCTCACCTAAATTTAACTCTTCCCTTTGTTCTACTCTTGTTCCTTAACATTTTA
Found at i:1172992 original size:21 final size:22
Alignment explanation
Indices: 1172968--1173009 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
1172958 AAAATAAAAA
* *
1172968 TAATTTTTATT-ATTTAAATTG
1 TAATTTTAATTAACTTAAATTG
1172989 TAATTTTAATTAACTTAAATT
1 TAATTTTAATTAACTTAAATT
1173010 TAAAAAATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TAATTTTAATTAACTTAAATTG
Found at i:1173746 original size:5 final size:6
Alignment explanation
Indices: 1173731--1173755 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1173721 ATTATCTTTC
1173731 TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA T
1173756 AAAAGAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:1176440 original size:20 final size:21
Alignment explanation
Indices: 1176415--1176461 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 21
1176405 ACTGAATCAC
1176415 AATCACA-TAATATTAACTAG
1 AATCACATTAATATTAACTAG
1176435 AATCACATTTTTAATATTAACTAG
1 AATCACA---TTAATATTAACTAG
1176459 AAT
1 AAT
1176462 TAAGCCCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.30
24 16 0.70
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (21 bp):
AATCACATTAATATTAACTAG
Found at i:1176618 original size:23 final size:22
Alignment explanation
Indices: 1176583--1176625 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
1176573 AATTGATTCG
*
1176583 TAAATTAATATTTTTAATTTTT
1 TAAATTAATATTTATAATTTTT
1176605 TAAATATAATATTTATAATTT
1 TAAAT-TAATATTTATAATTT
1176626 AAATAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TAAATTAATATTTATAATTTTT
Found at i:1177268 original size:23 final size:21
Alignment explanation
Indices: 1177237--1177279 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
1177227 AGTCAAGTAT
1177237 AAATATTTTTCAAGTAATAAATC
1 AAATA-TTTTCAAGTAA-AAATC
*
1177260 AAATGTTTTCAAGTAAAAAT
1 AAATATTTTCAAGTAAAAAT
1177280 AATTCAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 11 0.58
23 4 0.21
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (21 bp):
AAATATTTTCAAGTAAAAATC
Found at i:1179170 original size:19 final size:19
Alignment explanation
Indices: 1179143--1179181 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1179133 TAAATATTTT
*
1179143 ATTTTTAAATTAATA-AAA
1 ATTTTTAAAATAATATAAA
1179161 ATTTTATAAAATAATATAAA
1 ATTTT-TAAAATAATATAAA
1179181 A
1 A
1179182 ATAGTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 9 0.50
20 4 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTTTTAAAATAATATAAA
Found at i:1180728 original size:18 final size:18
Alignment explanation
Indices: 1180707--1180743 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1180697 AATATAATAT
1180707 ATTT-TTTAATTTAGATTA
1 ATTTATTTAATTT-GATTA
1180725 ATTTATTTAATTTGATTA
1 ATTTATTTAATTTGATTA
1180743 A
1 A
1180744 AATTATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTTATTTAATTTGATTA
Found at i:1180749 original size:19 final size:19
Alignment explanation
Indices: 1180711--1180751 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1180701 TAATATATTT
*
1180711 TTTAATTTAGATTAATTTA
1 TTTAATTTAGATTAAATTA
1180730 TTTAATTT-GATTAAAATTA
1 TTTAATTTAGATT-AAATTA
1180749 TTT
1 TTT
1180752 TTTTATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTAATTTAGATTAAATTA
Found at i:1181503 original size:19 final size:20
Alignment explanation
Indices: 1181470--1181514 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
1181460 TTAATAATTT
*
1181470 ATTTTATTATTTAAAAAATA
1 ATTTTATTATATAAAAAATA
* *
1181490 TTTTTATTA-ATAAATAATA
1 ATTTTATTATATAAAAAATA
1181509 ATTTTA
1 ATTTTA
1181515 AAAATTTGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTTATTATATAAAAAATA
Found at i:1182066 original size:2 final size:2
Alignment explanation
Indices: 1182059--1182097 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1182049 GCTTTCCTTT
1182059 TA TA 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 TA TA T
1182098 TTGGGAATAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1182441 original size:3 final size:3
Alignment explanation
Indices: 1182433--1182457 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1182423 CTACTTTCAT
1182433 TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA T
1182458 TTCGACTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:1187298 original size:18 final size:17
Alignment explanation
Indices: 1187275--1187318 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
1187265 TAGTTTAATT
1187275 TAAATTATTATTTAATAA
1 TAAATTATTATTTAA-AA
* *
1187293 TAAATTTTTTATTTAAAT
1 TAAA-TTATTATTTAAAA
1187311 TAAATTAT
1 TAAATTAT
1187319 ATAATATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 3 0.14
18 9 0.41
19 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TAAATTATTATTTAAAA
Found at i:1187694 original size:17 final size:17
Alignment explanation
Indices: 1187672--1187704 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1187662 TTTAATTTTT
*
1187672 TATTTTTTTATATATAA
1 TATTTTATTATATATAA
1187689 TATTTTATTATATATA
1 TATTTTATTATATATA
1187705 TTTAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTTTATTATATATAA
Done.