Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2129
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: 75229
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Found at i:526 original size:171 final size:171
Alignment explanation
Indices: 232--1045 Score: 901
Period size: 171 Copynumber: 4.8 Consensus size: 171
222 ATAAAGTGCA
* * ** * *
232 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCATGT-GGC-TTTGAAAAGGAAAGGCGTCC
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAAAGAAAAGGCGTCC
* * ** * * * *
295 TGCTCTTTGAGGATTGGAAGGTGCCGCCAACTTGTGTGGGCTTGAAAGGCGTCTTACTCTTTGAG
66 TGCTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGCTTTAAAGGCGTCCTACTCTTTGAG
*
360 GATTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGGGAG
131 GACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGGGAG
* * *
401 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTTAAAAAGAAAAGGTGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAAAGAAAAGGCGTC
* *
465 ATGCTCTTTGAGGACTAGAAAATGCCACCGACTCGTG-GTGGCTTTAAAGGCGTCCTACTCTTTG
65 CTGCTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTG-GGCTTTAAAGGCGTCCTACTCTTTG
*
529 AGGACTGGAAAATGCACACCAACTTGTGTGGGC-TT-AAGTGGCG
129 AGGACTGGAAAATGC-CACCAACTTGTGTGGGCTTTAAAG-GGAG
*
572 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAAC-TGTGTGGGCTTTTAAAAAG-AAAGGTGTCC
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAAAGAAAAGGCGTCC
* *
635 TGCTCTTTGAGGACTAG-AAATGCCACCGACTCGTGTGGG-TTTGAAAGGCGTCCTGCTCTTTGA
66 TGCTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGCTTT-AAAGGCGTCCTACTCTTTGA
* * * *
698 GGACTGGGAAGTGCCACCAACTTGTGTGAGCTTTAAAAGGCA-
130 GGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAAGGGAG
* *
740 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGC-TTTGAAAGGAAAAGGCGTCC
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAAAGAAAAGGCGTCC
** * * *
804 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTATGTGGGCTTTAAGAGAAAATGTGTCATGCT
66 TGCTCTTTGAGGACTAGAAAA-TGCCACCAACTCGTGTGGGCTTTAA-AG-----GCGTCCTACT
* * * *
869 CTTTGAGGACT-GAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGTG
124 CTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAGGGAG
* * * *
917 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAGCTTATGTGGGC-TTT-AAATGAAAAAGGC-AC
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAAAG-AAAAGGCGTC
** * * * * *
978 CTGCTCTTTGAGGACT-GAAGGTGCCACCAGCTTGTGTGTGCTTTAAAAGGCATCCTGCTC-TTG
65 CTGCTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGCTTT-AAAGGCGTCCTACTCTTTG
1041 AGGAC
129 AGGAC
1046 AAAAAGGCAA
Statistics
Matches: 563, Mismatches: 55, Indels: 56
0.84 0.08 0.08
Matches are distributed among these distances:
167 27 0.05
168 102 0.18
169 94 0.17
170 39 0.07
171 132 0.23
172 22 0.04
173 22 0.04
174 5 0.01
175 21 0.04
176 40 0.07
177 59 0.10
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (171 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAAAGAAAAGGCGTCC
TGCTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGCTTTAAAGGCGTCCTACTCTTTGAG
GACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGGGAG
Found at i:698 original size:113 final size:111
Alignment explanation
Indices: 232--1045 Score: 664
Period size: 109 Copynumber: 7.2 Consensus size: 111
222 ATAAAGTGCA
* *
232 TCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTCATGT-GGCTTTGAAAAGGAAAGGCGTCC
1 TCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTATGTGGGCTTT-AAAA--AAAGGCGTCC
* * * * *
295 TGCTCTTTGAGGATTGGAAGGTGCCGCCAACTTGTGTGGGCTTGAAAGGCG
63 TGCTCTTTGAGGACT-GAA-ATGCCACCAACTTGTGTGGGTTTAAAAGGCG
* * * * * * * *
346 TCTTACTCTTTGAGGATTGGAAA-ATGCCACCAACTTGTGTGGGCTTT---AAAGGGAGTCCTGC
1 TCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAAAAGGCGTCCTGC
*
407 TCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTTAAAAAGAAAAGGTG
66 TCTTTGAGGACT-G-AAATGCCACCAACTTGTGTGGG--TTT------AAAAGGCG
** * * ** *
463 TGATGCTCTTTGAGGACTAGAAA-ATGCCACCGACTCGTG-GTGGCTTT----AAAGGCGTCCTA
1 TCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTATGTG-GGCTTTAAAAAAAGGCGTCCTG
* **
522 CTCTTTGAGGACTGGAAAATGCACACCAACTTGTGTGGGCTTAAGTGGCG
65 CTCTTTGAGGACT-G-AAATGC-CACCAACTTGTGTGGGTTTAAAAGGCG
* *
572 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAAC-TGTGTGGGCTTTTAAAAAGAAAGGTGTCC
1 TCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTATGTGGGC-TTT-AAAA-AAAGGCGTCC
* * *
635 TGCTCTTTGAGGACTAGAAATGCCACCGACTCGTGTGGGTTTGAAAGGCG
63 TGCTCTTTGAGGACT-GAAATGCCACCAACTTGTGTGGGTTTAAAAGGCG
* * * * *
685 TCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGAGCTTT---AAAAGGCATCCTGC
1 TCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAAAAGGCGTCCTGC
746 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCG
66 TCTTTGAGGACTGAAA--TGCCACCAACTTGTGTGGG-TTT------AAAAGGCG
* * * *
801 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTATGTGGGCTTTAAGAGAAAATGTGTCAT
1 TCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTATGTGGGCTTTAA-A-AAAAGGCGTCCT
* *
866 GCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGTG
64 GCTCTTTGAGGACTGAAA--TGCCACCAACTTGTGTGGG-TTTAAAAGGCG
* *
917 TCCTGCTCTTTGAGGACT--AAAGGTGCCACCAGCTTATGTGGGCTTTAAATGAAAAAGGC-ACC
1 TCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTATGTGGGCTTT-AA--AAAAAGGCGTCC
* * * *
979 TGCTCTTTGAGGACTGAAGGTGCCACCAGCTTGTGTGTGCTTTAAAAGGCA
63 TGCTCTTTGAGGACTGAA-ATGCCACCAACTTGTGTG-GGTTTAAAAGGCG
1030 TCCTGCTC-TTGAGGAC
1 TCCTGCTCTTTGAGGAC
1046 AAAAAGGCAA
Statistics
Matches: 585, Mismatches: 72, Indels: 88
0.79 0.10 0.12
Matches are distributed among these distances:
107 4 0.01
108 33 0.06
109 94 0.16
110 5 0.01
111 3 0.01
112 8 0.01
113 85 0.15
114 92 0.16
115 42 0.07
116 87 0.15
117 82 0.14
122 50 0.09
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (111 bp):
TCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAAAAGGCGTCCTGC
TCTTTGAGGACTGAAATGCCACCAACTTGTGTGGGTTTAAAAGGCG
Found at i:963 original size:54 final size:55
Alignment explanation
Indices: 232--1045 Score: 692
Period size: 55 Copynumber: 14.3 Consensus size: 55
222 ATAAAGTGCA
* * **
232 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCATGT-GGCTTTGAAAAGGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----A--AAAGGCG
* * * *
292 TCCTGCTCTTTGAGGATTGGAAGGTGCCGCCAACTTGTGTGGGC-TTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
* * * * * *
346 TCTTACTCTTTGAGGATTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAGGGAG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
* *
401 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTTAAAAAGAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGC-TTT------AAAAGGCG
** * * *
463 TGATGCTCTTTGAGGACTAGAAA-ATGCCACCGACTCGTG-GTGGCTTT-AAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTG-GGCTTTAAAAGGCG
* * **
517 TCCTACTCTTTGAGGACTGGAAA-ATGCACACCAACTTGTGTGGGC-TTAAGTGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGC-CACCAACTTGTGTGGGCTTTAAAAGGCG
*
572 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAAC-TGTGTGGGCTTTTAAAAAGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGC-TTT----A-AAAGGCG
* * *
632 TCCTGCTCTTTGAGGACTAGAAA--TGCCACCGACTCGTGTGGG-TTTGAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
* * *
685 TCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGAGCTTTAAAAGGCA
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
740 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCG
* * * *
801 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTATGTGGGCTTTAAGAGAAAATGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-----AAAAGGCG
* * *
862 TCATGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
* *
917 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAGCTTATGTGGGCTTTAAATGAAAAAGGC-
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGC-TT---T--AAAAGGCG
* * * *
976 ACCTGCTCTTTGAGGACTG-AAGGTGCCACCAGCTTGTGTGTGCTTTAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1030 TCCTGCTC-TTGAGGAC
1 TCCTGCTCTTTGAGGAC
1046 AAAAAGGCAA
Statistics
Matches: 638, Mismatches: 74, Indels: 91
0.79 0.09 0.11
Matches are distributed among these distances:
53 51 0.08
54 132 0.21
55 168 0.26
56 4 0.01
58 6 0.01
59 49 0.08
60 96 0.15
61 62 0.10
62 70 0.11
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
Found at i:2144 original size:1 final size:1
Alignment explanation
Indices: 2133--2203 Score: 70
Period size: 1 Copynumber: 71.0 Consensus size: 1
2123 CTTTTCTCTC
* * * * * * * *
2133 TTTTTTCTTTTTTTGTTTTTTTTTTGTTTTTTGTTTTTGTTTTTTTTGTTTTTATTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2198 TTTTTT
1 TTTTTT
2204 AGAAGAGAAG
Statistics
Matches: 54, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.01, C:0.01, G:0.08, T:0.89
Consensus pattern (1 bp):
T
Found at i:2177 original size:33 final size:33
Alignment explanation
Indices: 2140--2203 Score: 112
Period size: 33 Copynumber: 1.9 Consensus size: 33
2130 CTCTTTTTTC
2140 TTTTTTTGTTTTT-TTTTTGTTTTTTGTTTTTGT
1 TTTTTTTGTTTTTATTTTTGTTTTTT-TTTTTGT
2173 TTTTTTTGTTTTTATTTTTGTTTTTTTTTTT
1 TTTTTTTGTTTTTATTTTTGTTTTTTTTTTT
2204 AGAAGAGAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 18 0.60
34 12 0.40
ACGTcount: A:0.02, C:0.00, G:0.09, T:0.89
Consensus pattern (33 bp):
TTTTTTTGTTTTTATTTTTGTTTTTTTTTTTGT
Found at i:2178 original size:22 final size:21
Alignment explanation
Indices: 2133--2200 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
2123 CTTTTCTCTC
* *
2133 TTTTTTCTTTTT-TTGTT-TT
1 TTTTTTGTTTTTATTTTTGTT
*
2152 TTTTTTGTTTTTTGTTTTTGTT
1 TTTTTTG-TTTTTATTTTTGTT
2174 TTTTTTGTTTTTATTTTTGTT
1 TTTTTTGTTTTTATTTTTGTT
2195 TTTTTT
1 TTTTTT
2201 TTTAGAAGAG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
19 6 0.14
20 5 0.12
21 23 0.53
22 9 0.21
ACGTcount: A:0.01, C:0.01, G:0.09, T:0.88
Consensus pattern (21 bp):
TTTTTTGTTTTTATTTTTGTT
Found at i:5316 original size:285 final size:284
Alignment explanation
Indices: 4755--5320 Score: 1006
Period size: 285 Copynumber: 2.0 Consensus size: 284
4745 GGCAGTATTA
4755 TCTACCAAGGTATCGATGTGAGGTAGAGGGAAATTATCTTTGGGGCTAGCTTGGTTCAGGTTCCT
1 TCTACCAAGGTATCGATGTGAGGTAGAGGGAAATTATCTTTGGGGCTAGCTTGGTTCAGGTTCCT
*
4820 GTAATCCACGCACATTCGTACCTTGCCATCTTTTTTGGGAACTAAGACTATATTGGCCACCCATT
66 GTAATCCACGCACATTCGTACCTTGCCATCTTTTTTGGGAACTAAGACTATATTGACCACCCATT
4885 CCGGATATTGGCCACCGCGAGAAAACCCGCTTCAAATTGTTTCTTGACTTCATCCTTGATCTTCA
131 CCGGATATTGGCCACCGCGAGAAAACCCGCTTCAAATTGTTTCTTGACTTCATCCTTGATCTTCA
* * *
4950 AAAGCATTTCGGGTTTCATCCTTTTGAGCTTCTCTTGTATGGGCTTACACTCAGGTTTAACAGGA
196 AAAGCATTTCGGGTTTCATCCTTCTGAGCTTCTCTTGCACGGGCTTACACTCAGGTTTAACAGGA
5015 AGCTTATGGACCACAATGTTGAAG
261 AGCTTATGGACCACAATGTTGAAG
*
5039 TCTACCAAGGTATTGATGTGAGGTAGAGGGAAATTATCTTTGGGGCTAGCTTGGTTCAGGTTCCT
1 TCTACCAAGGTATCGATGTGAGGTAGAGGGAAATTATCTTTGGGGCTAGCTTGGTTCAGGTTCCT
* * *
5104 GTAATCCACGCACATTCGTTCCTTGCCATCTTTTTTGGGAATTGAGACTATATTGACCACCCATT
66 GTAATCCACGCACATTCGTACCTTGCCATCTTTTTTGGGAACTAAGACTATATTGACCACCCATT
* * * *
5169 TCGGATATTTGGCCATCGCGAGAAAACCTGCTTCAAATTGTTTCTTGACTTCTTCCTTGATCTTC
131 CCGGATA-TTGGCCACCGCGAGAAAACCCGCTTCAAATTGTTTCTTGACTTCATCCTTGATCTTC
*
5234 AAAAGCATTTCGGGTTTCATCCTTCTGAGCTTCTCTTGCACGGGCTTACACTCAGGTTTGACAGG
195 AAAAGCATTTCGGGTTTCATCCTTCTGAGCTTCTCTTGCACGGGCTTACACTCAGGTTTAACAGG
5299 AAGCTTATGGACCACAATGTTG
260 AAGCTTATGGACCACAATGTTG
5321 GTGTCTAACC
Statistics
Matches: 268, Mismatches: 13, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
284 131 0.49
285 137 0.51
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (284 bp):
TCTACCAAGGTATCGATGTGAGGTAGAGGGAAATTATCTTTGGGGCTAGCTTGGTTCAGGTTCCT
GTAATCCACGCACATTCGTACCTTGCCATCTTTTTTGGGAACTAAGACTATATTGACCACCCATT
CCGGATATTGGCCACCGCGAGAAAACCCGCTTCAAATTGTTTCTTGACTTCATCCTTGATCTTCA
AAAGCATTTCGGGTTTCATCCTTCTGAGCTTCTCTTGCACGGGCTTACACTCAGGTTTAACAGGA
AGCTTATGGACCACAATGTTGAAG
Found at i:14672 original size:51 final size:51
Alignment explanation
Indices: 14600--14877 Score: 249
Period size: 51 Copynumber: 5.3 Consensus size: 51
14590 TGAAAATAAT
*
14600 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
* **
14651 GGGGTTGAAGTATCCGAGATTGTGAGAAATCAATATTTT-GAAAATAAAGCC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAG-AAATAAAGCC
* *** *** * * * *
14702 GGGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCTGATGAAAT-AA--C
1 GGGGTTGGAGTAT-CCC-C-G-ATTGTGAGAAAT-CAATAT--TTTA-GAAATAAAGCC
* *
14758 GGGGTTGGAGTATCCTCGATTGTGAGAAATCAATATTTTAGAAATAAGGCC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
* * *
14809 GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAAAAAAAGCC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAG-AAATAAAGCC
*
14861 GAGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
14878 AAAATAATGG
Statistics
Matches: 175, Mismatches: 38, Indels: 27
0.73 0.16 0.11
Matches are distributed among these distances:
48 5 0.03
49 3 0.02
50 1 0.01
51 100 0.57
52 30 0.17
53 1 0.01
54 2 0.01
55 7 0.04
56 18 0.10
58 3 0.02
59 4 0.02
60 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.26
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
Found at i:14736 original size:28 final size:29
Alignment explanation
Indices: 14703--14772 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 29
14693 AATAAAGCCG
14703 GGGTTGGAGTATCCCCTCA-GAAATAACA
1 GGGTTGGAGTATCCCCTCATGAAATAACA
* *
14731 GGGTTGGAGTAT-CCCTGATGAAATAACG
1 GGGTTGGAGTATCCCCTCATGAAATAACA
14759 GGGTTGGAGTATCC
1 GGGTTGGAGTATCC
14773 TCGATTGTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 5 0.13
28 32 0.84
29 1 0.03
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.24
Consensus pattern (29 bp):
GGGTTGGAGTATCCCCTCATGAAATAACA
Found at i:14891 original size:25 final size:28
Alignment explanation
Indices: 14863--14933 Score: 103
Period size: 29 Copynumber: 2.6 Consensus size: 28
14853 AAAAAGCCGA
14863 GGTTGGAGTATCCCC-A-AAATAAT-GG
1 GGTTGGAGTATCCCCGAGAAATAATCGG
14888 GGTTGGAGTATCCCCGATGAAATAATCGG
1 GGTTGGAGTATCCCCGA-GAAATAATCGG
*
14917 AGTTGGAGTATCCCCGA
1 GGTTGGAGTATCCCCGA
14934 TTGTGGAGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
25 15 0.37
26 1 0.02
28 7 0.17
29 18 0.44
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (28 bp):
GGTTGGAGTATCCCCGAGAAATAATCGG
Found at i:14943 original size:158 final size:159
Alignment explanation
Indices: 14576--14943 Score: 586
Period size: 158 Copynumber: 2.3 Consensus size: 159
14566 AAAATCGGGA
14576 TTGGAGTATCCCC-ATGAAAATAAT-GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTT
1 TTGGAGTATCCCCGATG-AAATAATCGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTT
* * *
14639 AGAAATAAGGCCGGGGTTGAAGTATCCGAGATTGTGAGAAATCAATATTTTGAAAATAAAGCCGG
65 AGAAATAAGGCCGGGGTTGAAGTATCCCAGATTGTGAGAAATCAATATTTTGAAAAAAAAGCCGA
14704 GGTTGGAGTATCCCCTCAGAAATAACAGGG
130 GGTTGGAGTATCCCCTCAGAAATAACAGGG
* *
14734 TTGGAGTATCCCTGATGAAATAA-CGGGGTTGGAGTATCCTCGATTGTGAGAAATCAATATTTTA
1 TTGGAGTATCCCCGATGAAATAATCGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTA
*
14798 GAAATAAGGCCGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAAAAAAAGCCGA
66 GAAATAAGGCCGGGGTTGAAGTATCCCAGATTGTGAGAAATCAATATTTT-GAAAAAAAAGCCGA
**
14863 GGTTGGAGTAT-CCC-CA-AAATAATGGGG
130 GGTTGGAGTATCCCCTCAGAAATAACAGGG
*
14890 TTGGAGTATCCCCGATGAAATAATCGGAGTTGGAGTATCCCCGATTGTGGAGAA
1 TTGGAGTATCCCCGATGAAATAATCGGGGTTGGAGTATCCCCGATTGT-GAGAA
14944 TTGGTGTTTT
Statistics
Matches: 194, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
156 31 0.16
157 24 0.12
158 113 0.58
159 26 0.13
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.26
Consensus pattern (159 bp):
TTGGAGTATCCCCGATGAAATAATCGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTA
GAAATAAGGCCGGGGTTGAAGTATCCCAGATTGTGAGAAATCAATATTTTGAAAAAAAAGCCGAG
GTTGGAGTATCCCCTCAGAAATAACAGGG
Found at i:15031 original size:79 final size:78
Alignment explanation
Indices: 14886--15297 Score: 393
Period size: 79 Copynumber: 5.2 Consensus size: 78
14876 CCAAAATAAT
* * * * **
14886 GGGGTTGGAGTATCCCCGATGAAATAATC-GGAGTTGGAGTATCCCCGATTGTGGAGAATTGGTG
1 GGGGTTGGAGTATCCCCTA-GAAATAA-CGGGA-TTGGAGTATCCCCGATTATGAAAAATTAATG
* *
14950 TTTTAGATATCAAATC
63 TTTTAGAAATAAAATC
* * *
14966 GGGGTTGGAGTATCCCCTTAGAAATAACGGGATTGGAGTATTCTCGATTATGAAAAATTGATGTT
1 GGGGTTGGAGTATCCCC-TAGAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTAATGTT
15031 TTAGAAATAAAATC
65 TTAGAAATAAAATC
* * * * * *
15045 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTCGAAGTATCCCCGATTATGAGAAATTAATATT
1 GGGGTTGGAGTATCCCCTAG-AAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTAATGTT
* *
15110 TTGGAAATAAAGTC
65 TTAGAAATAAAATC
* * **
15124 GGGGTTGGAATATCCCCTCGAAAATAACGGGGCTGGAGTATCCCCG---ATGAAAAATTAATGTT
1 GGGGTTGGAGTATCCCCTAG-AAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTAATGTT
*
15186 TTAGAAATAAAACC
65 TTAGAAATAAAATC
* * * * * ** * *
15200 AGGGTTGGAGTGTCCCTTCGGAAATAACAGGG-TTGGAGTATCCCCGATTGTGAAATGTCAGTGT
1 GGGGTTGGAGTATCCCCT-AGAAATAAC-GGGATTGGAGTATCCCCGATTATGAAAAATTAATGT
* *
15264 TTTGGTAATAAAATC
64 TTTAGAAATAAAATC
*
15279 GGAGTTGGAGTATCCCCTA
1 GGGGTTGGAGTATCCCCTA
15298 TTATGGAAAA
Statistics
Matches: 276, Mismatches: 48, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
76 59 0.21
77 4 0.01
78 2 0.01
79 183 0.66
80 27 0.10
81 1 0.00
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (78 bp):
GGGGTTGGAGTATCCCCTAGAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTAATGTTT
TAGAAATAAAATC
Found at i:15241 original size:155 final size:153
Alignment explanation
Indices: 14887--15296 Score: 427
Period size: 155 Copynumber: 2.6 Consensus size: 153
14877 CAAAATAATG
*
14887 GGGTTGGAGTAT-CCC-CGATGAAATAATC-GGAGTTGGAGTATCCCCGATTGTGGAGAATTGGT
1 GGGTTGGAGTATCCCCTCGA--AAATAA-CAGG-GTTGGAGTATCCCCGATT-TGGA-AATTAGT
* * * * * *
14949 GTTTTAGATATCAAATCGGGGTTGGAGTATCCCCTTAGAAATAACGGGATTGGAGTATTCTCGAT
60 GTTTTGGAAAT-AAATCGGGGTTGGAGTATCCCCTGAGAAATAACGGGACTGGAGTATCCCCG--
* * *
15014 TATGAAAAATTGATGTTTTAGAAATAAAATCG
122 TATGAAAAATTAATGTTTTAGAAATAAAACCA
* * * * *
15046 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTCGAAGTATCCCCGATTATGAGAAATTAATATTT
1 GGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATT-TG-GAAATTAGTGTTT
* *
15111 TGGAAATAAAGTCGGGGTTGGAATATCCCCTCGA-AAATAACGGGGCTGGAGTATCCCCG-ATGA
64 TGGAAATAAA-TCGGGGTTGGAGTATCCCCT-GAGAAATAACGGGACTGGAGTATCCCCGTATGA
15174 AAAATTAATGTTTTAGAAATAAAACCA
127 AAAATTAATGTTTTAGAAATAAAACCA
* * *
15201 GGGTTGGAGTGTCCCTTCGGAAATAACAGGGTTGGAGTATCCCCGA-TTGTGAAATGTCAGTGTT
1 GGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATTTG-GAAAT-T-AGTGTT
* *
15265 TTGGTAATAAAATCGGAGTTGGAGTATCCCCT
63 TTGGAAAT-AAATCGGGGTTGGAGTATCCCCT
15297 ATTATGGAAA
Statistics
Matches: 213, Mismatches: 29, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
153 7 0.03
154 2 0.01
155 97 0.46
156 3 0.01
157 3 0.01
158 72 0.34
159 23 0.11
160 3 0.01
161 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (153 bp):
GGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATTTGGAAATTAGTGTTTTG
GAAATAAATCGGGGTTGGAGTATCCCCTGAGAAATAACGGGACTGGAGTATCCCCGTATGAAAAA
TTAATGTTTTAGAAATAAAACCA
Found at i:15286 original size:51 final size:51
Alignment explanation
Indices: 15231--15399 Score: 139
Period size: 51 Copynumber: 3.3 Consensus size: 51
15221 AAATAACAGG
* * *
15231 GTTGGAGTATCCCCGATTGT-G-AAATGTCAGTGTTTTGGTAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGGAAAATG--AGTGTTTTAGAAATAAAATCGGA
* * *
15282 GTTGGAGTATCCCCTATTATGGAAAATGGGTGTTTTAGAAATAAAATTGGA
1 GTTGGAGTATCCCCGATTATGGAAAATGAGTGTTTTAGAAATAAAATCGGA
* * * * ** * * *
15333 GTTGGAGAATCCTCGATTAAGAAAAATTGA-TGTCCTGGAAATGAAACCGG-
1 GTTGGAGTATCCCCGATTATGGAAAA-TGAGTGTTTTAGAAATAAAATCGGA
15383 GATTGGAGTATCCCCGA
1 G-TTGGAGTATCCCCGA
15400 GATGAAAAAT
Statistics
Matches: 94, Mismatches: 20, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
50 1 0.01
51 85 0.90
52 3 0.03
53 5 0.05
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGGAAAATGAGTGTTTTAGAAATAAAATCGGA
Found at i:17743 original size:13 final size:13
Alignment explanation
Indices: 17725--17750 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17715 ACAAAGATCG
17725 ATGTATCGATACA
1 ATGTATCGATACA
17738 ATGTATCGATACA
1 ATGTATCGATACA
17751 CAAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:18117 original size:55 final size:55
Alignment explanation
Indices: 18051--18331 Score: 307
Period size: 55 Copynumber: 5.0 Consensus size: 55
18041 TTCGTCAGGC
18051 GCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAAT
1 GCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAAT
* * **
18106 GCCACCAACTTGTGTTGGCTTT-AAGAGGCGTCCTACTCCATGAGGACTGGAAAAT
1 GCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCCTGCTCTTTGAGGACTGGAAAAT
* * *
18161 GCCACCAACTTGTGTTGGCTAT-AAGAGGCGTCCTGCTCTTTGAGGACTGGAGAAT
1 GCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCCTGCTCTTTGAGGACTGGAAAAT
* * * **
18216 GCCACCAACTTGTGTGGGCTTTTAAAAAGAAAAGGTGTCCTACTCTTTAAGGACAAGAAAAT
1 GCCACCAACTTGTGTGGGC-TTT-----G-AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAT
* * * * *
18278 GCCACCGACTCGTGTGGGCTTTGAAAGGCATCCTGCTCTTTAAGGA-TGGGAAAT
1 GCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAAT
18332 TCGTCCCCAC
Statistics
Matches: 192, Mismatches: 25, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
54 7 0.04
55 136 0.71
56 3 0.02
61 3 0.02
62 41 0.21
63 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (55 bp):
GCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAAT
Found at i:19038 original size:55 final size:55
Alignment explanation
Indices: 18954--19259 Score: 323
Period size: 55 Copynumber: 5.5 Consensus size: 55
18944 ATAAAGTGCA
* * * *
18954 TCCTGCTTTTTAAGGACT-AAAAAGTGCCACCAAATTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
19009 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTTGGCTTT-AAGAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
** *
19064 TCCTGCTCCGTGAGGACTGGAAAATGCCACCAACTTGTGTTGGCTTT-AAGAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* * *
19119 TCCTGCTCTTTGAGGACTGGAGAATGCCACCAACTTGTCTGGGCTTTTAAAAAGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGC-TTT-----G-AAAGGCG
* * ** * * *
19181 TCCTACTCTTTAAGGACAAGAAAATGCCACCGACTCGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
19236 TCCTGCTCTTTGAGGA-TGGGAAAT
1 TCCTGCTCTTTGAGGACTGGAAAAT
19260 TCGTCCCCAC
Statistics
Matches: 213, Mismatches: 28, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
54 7 0.03
55 153 0.72
56 8 0.04
61 3 0.01
62 40 0.19
63 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:20020 original size:55 final size:54
Alignment explanation
Indices: 19936--20095 Score: 230
Period size: 55 Copynumber: 2.9 Consensus size: 54
19926 CTTTGAAAAG
* * **
19936 GAAAGGCGTCCTGCTCTTTGAGGATTGGAAGGTGCCACCAACTTGTGTGGGCATT
1 GAAAGGCGTCATGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGC-TT
* *
19991 GAAAGGCGTCATGCTCTTCGAGGACTGGAAAAAGCCACCAACTTGTGTGGGCTT
1 GAAAGGCGTCATGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTT
* *
20045 TAAGAGGCGTCATGCTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGG
1 GAA-AGGCGTCATGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGG
20096 CCTTTTAAAA
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 4 0.04
55 90 0.96
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (54 bp):
GAAAGGCGTCATGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTT
Found at i:20092 original size:110 final size:112
Alignment explanation
Indices: 19886--20095 Score: 275
Period size: 110 Copynumber: 1.9 Consensus size: 112
19876 AAGTGCATCC
* *
19886 TGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGCGTCCTGCT
1 TGCTCTTCGAGGACTAAAAAG-GCCACCAACTCGTGTGGGCTTT--AAAGG-AAGGCGTCATGCT
* * **
19951 CTTTGAGGATTGGAAGGTGCCACCAACTTGTGTGGGCATTGAAAGGCGTCA
62 CTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCATTGAAAGGCGTCA
*
20002 TGCTCTTCGAGGACTGGAAAAA-GCCACCAACTTGTGTGGGCTTT-AA-G-AGGCGTCATGCTCT
1 TGCTCTTCGAGGACT--AAAAAGGCCACCAACTCGTGTGGGCTTTAAAGGAAGGCGTCATGCTCT
20063 TTAAGGACTGGAAAATGCCACCAACTTGTGTGG
64 TTAAGGACTGGAAAATGCCACCAACTTGTGTGG
20096 CCTTTTAAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
110 42 0.49
112 1 0.01
113 2 0.02
116 35 0.41
118 5 0.06
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (112 bp):
TGCTCTTCGAGGACTAAAAAGGCCACCAACTCGTGTGGGCTTTAAAGGAAGGCGTCATGCTCTTT
AAGGACTGGAAAATGCCACCAACTTGTGTGGGCATTGAAAGGCGTCA
Found at i:20332 original size:935 final size:934
Alignment explanation
Indices: 18073--22081 Score: 5554
Period size: 935 Copynumber: 4.2 Consensus size: 934
18063 TGTGGGCTTT
* * *
18073 GAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTTGGCTTTAAGAGGCGTC
1 GAAAGGCGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTGAA-AGGCGTC
* * * *
18138 CTACTCCATGAGGACTGGAAAATGCCACCAACTTGTGTTGGCTATAAGAGGCGTCCTGCTCTTTG
65 CTGCT-CTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTG
* *
18203 AGGACTGGAGAATGCCACCAACTTGTGTGGGCTTTTAAAAAGAAAAGGTGTCCTACTCTTTAAGG
129 AGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTTAAAAAGAAAAGGTGTCCTGCTCTTTAAGG
* * *
18268 ACAAGAAAATGCCACCGACTCGTGTGGGCTTTGAAAGGCATCCTGCTCTTTAAGGATGGGAAATT
194 ACAAGAAAATGCCACCGACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGATTGGAAATT
* * *
18333 CGTCCCCACATATGTCCAATCCTCCACCTACTAGCTAGGCTTCAAGCTGTCGAAAATTGGCCCGA
259 CGTCCCCACATATGTCTAATCCTCCACCTACTAGCTAGGCTTCAAGTTGTCGAAAATTGGCCCGG
* *
18398 ACAAAATTAGGTATCTACAGCTGCCCCTCTTTGGCCATTTCTGAGTATCAGGAGTAGGGCAAAGA
324 ACAAAATTAGGTGTCTACAGCTGCCCCTCTTTGGCCATTTCTGAGTATCAGGAATAGGGCAAAGA
* * * *
18463 CAAATAGACACCCTCTTGTCCGCGGCCGCATGCTGTGGCCTTGGAGTGATTAAACAAGAGGTTTG
389 CAAATAGACACCCTTTTGCCCGCGGCCGCATGCTGTGGCCTTGGAGTGATTAAATAAGATGTTTG
* *
18528 ATTAAAGCTTCGCCATCATGAAGAGTATATTGGCGACGGTTCCGATGGAAAAATGAGTTTGTAGG
454 ATTAAAGCTTCGCCATGATGAAGAGTATATTGGCGGCGGTTCCGATGGAAAAATGAGTTTGTAGG
18593 GTTTGTCCTCCCTACTAGGCTTTGAGATTTTCTAAGGCTTGACCTCCTTAGATAGGTGTTGGTTA
519 GTTTGTCCTCCCTACTAGGCTTTGAGATTTTCTAAGGCTTGACCTCCTTAGATAGGTGTTGGTTA
* * *
18658 CTGTAGGCTTTGGAAAGGTTTGCCACCAACTTATGTGGGCTTTTTGGCTGCTGCCAACTTGTGCA
584 CTGTAGGCTTTGGAAAGGTTTGCCACCAACTTGTGTGGGCTTTTTGGCTGCGGCCAACTTTTGCA
* ** * *
18723 GAATTTAAAAGAGGAAAGAAAT-GAAGGGGTGTCCCACTTTTTGAGGACAAAGGAAAAGAGAATG
649 GACTTTAGGAGGGGAAAGAAATGGAGGGGGTGTCCCACTTTTTGAGGACAAAGGAAAAGAGAATG
* * * *
18787 AAATAGGTCTTGCTCCTTGAGGACAAACGAAGAGAAGAAAAGGAAAGTGTCCTGCTTCTCGAGGG
714 AAATAGGTCTTGCTCCTTCAGGACAAAGGAAGAGAAGAAAAGGAAAGTGTCCTGCTTCTTGAGGA
* ** *
18852 CAAAGTGAAAAAGAGTACGTCTCATTTTTTAAGGACAAAGG-AAAAGGGAAACGAAATACGTCCT
779 CAAAGTGAAAAAGAGTACGTCCCATTTTTCGAGGACAAAGGAAAAAGGGAAACAAAATACGTCCT
*
18916 GCTCTTTGAGGACGAAAGAAAGAGGAAAATAAAGTGCATCCTGCTTTTTAAGGACTAAAAAGTGC
844 GCTCTTTGAGGACGAAAGAAAGAGGAAAATAAAGTGCATCCTGCTCTTTAAGGACTAAAAAGTGC
* *
18981 CACCAAATTGTGTGGGCTTT------
909 CACCAACTCGTGTGGGCTTTGAAAAG
* * *
19001 GAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTTGGCTTTAAGAGGCGTC
1 GAAAGGCGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTGAA-AGGCGTC
* *
19066 CTGCTCCGTGAGGACTGGAAAATGCCACCAACTTGTGTTGGCTTTAAGAGGCGTCCTGCTCTTTG
65 CTGCT-CTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTG
* * *
19131 AGGACTGGAGAATGCCACCAACTTGTCTGGGCTTTTAAAAAGAAAAGGTGTCCTACTCTTTAAGG
129 AGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTTAAAAAGAAAAGGTGTCCTGCTCTTTAAGG
* *
19196 ACAAGAAAATGCCACCGACTCGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGATGGGAAATT
194 ACAAGAAAATGCCACCGACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGATTGGAAATT
* *
19261 CGTCCCCACATATGTCCAATCCTCCACCTACTAGCTAGGCTTCAAGTTGTCGAAAATTGGCCCGA
259 CGTCCCCACATATGTCTAATCCTCCACCTACTAGCTAGGCTTCAAGTTGTCGAAAATTGGCCCGG
* * * *
19326 ACAAAATTAGGTGTCCATAGCTTCCCCTCTTTGGCCATTTCTGAGTATCAGGAATAGGGCAAAGG
324 ACAAAATTAGGTGTCTACAGCTGCCCCTCTTTGGCCATTTCTGAGTATCAGGAATAGGGCAAAGA
*
19391 CAAATAGACACCCTTTTGCCCGCGGCCGCATGCTGTGGCCTTGGAGTGATTAAATAACATGTTTG
389 CAAATAGACACCCTTTTGCCCGCGGCCGCATGCTGTGGCCTTGGAGTGATTAAATAAGATGTTTG
19456 ATTAAAGCTTCGCCATGATGAAGAGTATATTGGCGGCGGTTCCGATGGAAAAATGAGTTTGTAGG
454 ATTAAAGCTTCGCCATGATGAAGAGTATATTGGCGGCGGTTCCGATGGAAAAATGAGTTTGTAGG
* *
19521 GTCTGTCCTCCCTACTAGGCTTTGAGATTTTCTAAGGCTTGACCTCCTTAGATAGGTGTTGGTCA
519 GTTTGTCCTCCCTACTAGGCTTTGAGATTTTCTAAGGCTTGACCTCCTTAGATAGGTGTTGGTTA
* * *
19586 CTATAGGCTTTGGAAAGGTTTGCCACCAACTTGTGTGGGCTTTTTGGCTGCTGCCAACTTATGCA
584 CTGTAGGCTTTGGAAAGGTTTGCCACCAACTTGTGTGGGCTTTTTGGCTGCGGCCAACTTTTGCA
19651 GACTTTAGGAGGGGAAAGAAATGGAGGGGGTGTCCCACTTTTTGAGGACAAAGGAAAAGAGAATG
649 GACTTTAGGAGGGGAAAGAAATGGAGGGGGTGTCCCACTTTTTGAGGACAAAGGAAAAGAGAATG
* *
19716 AAATAGGT-TTGCTCCTTGAGGACAAAGGAAGAGAAGAAAAGGAAAGTGTCCTACTTCTTGAGGA
714 AAATAGGTCTTGCTCCTTCAGGACAAAGGAAGAGAAGAAAAGGAAAGTGTCCTGCTTCTTGAGGA
* * *
19780 CAAAGTGAAAAAGAGTACATCCCGTTTTTCGAGGACAAAGGAAAAAGGGAAACAAAATACGTCAT
779 CAAAGTGAAAAAGAGTACGTCCCATTTTTCGAGGACAAAGGAAAAAGGGAAACAAAATACGTCCT
* *
19845 GCTCTTTGTGGACGAAAGAAAGAGGAAAATAAAGTGCATCCTGCTCTTTGAGGACTAAAAAGTGC
844 GCTCTTTGAGGACGAAAGAAAGAGGAAAATAAAGTGCATCCTGCTCTTTAAGGACTAAAAAGTGC
19910 CACCAACTCGTGTGGGCTTTGAAAAG
909 CACCAACTCGTGTGGGCTTTGAAAAG
**
19936 GAAAGGCGTCCTGCTCTTTGAGGATTGGAAGGTGCCACCAACTTGTGTGGGCATTGAAAGGCGTC
1 GAAAGGCGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGC-TTGAAAGGCGTC
* * * *
20001 ATGCTCTTCGAGGACTGGAAAAAGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCATGCTCTTTA
65 CTGCTCTT-GAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTG
* * * * *
20066 AGGACTGGAAAATGCCACCAACTTGTGTGGCCTTTTAAAAAGAAAATGTGTCTTGCTATTTCAGG
129 AGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTTAAAAAGAAAAGGTGTCCTGCTCTTTAAGG
*
20131 ACAAGAAAATGCCACCGACTCATGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGATTGGAAATT
194 ACAAGAAAATGCCACCGACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGATTGGAAATT
20196 CGTCCCCACATATGTCTAATCCTCCACCTACTAGCTAGGCTTCAAGTTGTCGAAAATTGGCCCGG
259 CGTCCCCACATATGTCTAATCCTCCACCTACTAGCTAGGCTTCAAGTTGTCGAAAATTGGCCCGG
*
20261 ACAAAACTAGGTGTCTACAGCTGCCCCTCTTTGGCCATTTCTGAGTATCAGGAATAGGGCAAAGA
324 ACAAAATTAGGTGTCTACAGCTGCCCCTCTTTGGCCATTTCTGAGTATCAGGAATAGGGCAAAGA
* * ** * * *
20326 CAAATAGACACCCTTTTGTCCGCAGTTGCATGCTGTGGCCTTGGAGTGGTTAAACAAGAGGTTTG
389 CAAATAGACACCCTTTTGCCCGCGGCCGCATGCTGTGGCCTTGGAGTGATTAAATAAGATGTTTG
* *
20391 ATTAAAGTTTCGCCATGATGAAGAGTGTATTGGCGGCGGTTCCGATGGAAAAATGAGTTTGTAGG
454 ATTAAAGCTTCGCCATGATGAAGAGTATATTGGCGGCGGTTCCGATGGAAAAATGAGTTTGTAGG
* *
20456 GTTTGTCCTCCCTACTAGGCTTTGAGATTTTCTAAGGATTGACCTCCTCAGATAGGTGTTGGTTA
519 GTTTGTCCTCCCTACTAGGCTTTGAGATTTTCTAAGGCTTGACCTCCTTAGATAGGTGTTGGTTA
* * *
20521 CTGTAGGCTTTGGAAAGGTTTGTCACCAACATGTGTGGGCTTTTTGGTTGCGGCCAACTTTTGCA
584 CTGTAGGCTTTGGAAAGGTTTGCCACCAACTTGTGTGGGCTTTTTGGCTGCGGCCAACTTTTGCA
* *
20586 AACTTTAGGAGGGGAAA-AATTGGAGGGGGTGTCCCACTTTTTGAGGACAAAGGAAAAGAGAATG
649 GACTTTAGGAGGGGAAAGAAATGGAGGGGGTGTCCCACTTTTTGAGGACAAAGGAAAAGAGAATG
* * *
20650 AAATAGGTCTTGCTCCTTCAGGACAAAAGAAGTGAAGAAAAGGAAAGTGTCCTGCCTCTTGAGGA
714 AAATAGGTCTTGCTCCTTCAGGACAAAGGAAGAGAAGAAAAGGAAAGTGTCCTGCTTCTTGAGGA
* * * *
20715 CAAAGTGAAAAAGAGTATGTCTCGTTTTTCGAGGACAAAGGAAAAAGGGAAATAAAATACGTCCT
779 CAAAGTGAAAAAGAGTACGTCCCATTTTTCGAGGACAAAGGAAAAAGGGAAACAAAATACGTCCT
* * * *
20780 GCACTTTAAGGATGAAAGAAAGAGGAAAATAAAGTGCATCCTGCTCTTTGAGGACTAAAAAGTGC
844 GCTCTTTGAGGACGAAAGAAAGAGGAAAATAAAGTGCATCCTGCTCTTTAAGGACTAAAAAGTGC
20845 CACCAACTCGTGTGGGCTTTGAAAAG
909 CACCAACTCGTGTGGGCTTTGAAAAG
* * * * * * *
20871 GAAAAGCATCCTACTCTTTGAGGATTGGAATATGCCACCAACTTGAGTGGGCTTTGTAAGGCATC
1 GAAAGGCGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGC-TTGAAAGGCGTC
* * * *
20936 TTGTTCTTTGACGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCACTTTG
65 CTGCTC-TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTG
* * * *
21001 AGGATTGGAAAATGCCACCAACTTGTTTGGGC-TTT------AAAAGGCGTCCTGCTCTTTGAGG
129 AGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTTAAAAAGAAAAGGTGTCCTGCTCTTTAAGG
** * * * * *
21059 ACTGGAAAATGCCACCAACTTGTGTGAGCTTTTAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACT
194 ACAAGAAAATGCCACCGACTCGTGTGGGC-TTT-----G-AAAGGCGTCCTGCTCTTTGAGGATT
* * * * * * * * * * *
21124 AGAAAAT-G-CCATCGATTCGTGTGTGCTTTGAAAGGCGTCCTGCTCT-TTGAGGATTGGAAATT
252 GGAAATTCGTCC--CCA--CATATGT-C--T--AA-TCCTCC-AC-CTACT-A-GCTAGG-----
* * * * *
21186 CGTCCCCACA-TAAGTCCAATCCTCCACCTACTAGCTAGGCTTCAAGTTGTCGAAAATTGGCCCG
298 C-T--TCA-AGT-TGTCGAA------A---A-T---T-GGC--C-CG--GAC-AAAATT------
* *
21250 GACAAAATTAGGTGTCTACCGCAGCCCCTCTTTGGCCATTTCTGAGTATCAGGAATAGGGCAAAG
332 ---------AGGTGTCTACAGCTGCCCCTCTTTGGCCATTTCTGAGTATCAGGAATAGGGCAAAG
*
21315 ACAAATAGACACCTTTTTGCCCGCGGCCGCATGCTGTGGCCTTGGAGTGATTAAATAAGATGTTT
388 ACAAATAGACACCCTTTTGCCCGCGGCCGCATGCTGTGGCCTTGGAGTGATTAAATAAGATGTTT
21380 GATTAAAGCTTCGCCATGATGAAGAGTATATTGGCGGCGGTTCCGATGGAAAAATGAGTTTGTAG
453 GATTAAAGCTTCGCCATGATGAAGAGTATATTGGCGGCGGTTCCGATGGAAAAATGAGTTTGTAG
* *
21445 GGTTTGTCCTCCCTACTAGGCTTTGAGATTTTCGAAGGCTTAACCTCCTTAGATAGGTGTTGGTT
518 GGTTTGTCCTCCCTACTAGGCTTTGAGATTTTCTAAGGCTTGACCTCCTTAGATAGGTGTTGGTT
* * *
21510 ACTTTAGGCTTTGGAAACGTTTGCCACCAACTTGTGTGGGCTTTTTGGTTGCGGCCAACTTTTGC
583 ACTGTAGGCTTTGGAAAGGTTTGCCACCAACTTGTGTGGGCTTTTTGGCTGCGGCCAACTTTTGC
21575 AGACTTTAGGAGGGGAAAGAAATGGAGGGGGTGTCCCACTTTTTGAGGACAAAGGAAAAGAGAAT
648 AGACTTTAGGAGGGGAAAGAAATGGAGGGGGTGTCCCACTTTTTGAGGACAAAGGAAAAGAGAAT
21640 GAAATAGGTCTTGCTCCTTCAGGACAAAGGAAGAGAAGAAAAGGAAAGTGTCCTGCTTCTTGAGG
713 GAAATAGGTCTTGCTCCTTCAGGACAAAGGAAGAGAAGAAAAGGAAAGTGTCCTGCTTCTTGAGG
* * * *
21705 ACAAAGTGAAAAAGTGTATGTCCCATTTTTCGAGGACAAAGGAAAAAGGGAAACGAAATACATCC
778 ACAAAGTGAAAAAGAGTACGTCCCATTTTTCGAGGACAAAGGAAAAAGGGAAACAAAATACGTCC
* *
21770 TGCTCTTTGAGGACGAAAGGAAGAGGAAAATAAAGTGCATCCTGCTTTTTAAGGACTAAAAAGTG
843 TGCTCTTTGAGGACGAAAGAAAGAGGAAAATAAAGTGCATCCTGCTCTTTAAGGACTAAAAAGTG
21835 CCACCAACTCGTGTGGGCTTTGAAAAG
908 CCACCAACTCGTGTGGGCTTTGAAAAG
* * * *
21862 GAAAGGCGTCCTGCTCTTTGAGGATTAGAATATGCCACCAACTTGAGTGGGCTTTGTAAGGCGTC
1 GAAAGGCGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGC-TTGAAAGGCGTC
* *
21927 TTGCTCTTTGACGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTG
65 CTGCTC-TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTG
* * *
21992 AGGATTGGAAAATGCCACCAACTTGTGTGGGC-TTT---AAG---AGGCGTCCTGCTCTTTGAGG
129 AGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTTAAAAAGAAAAGGTGTCCTGCTCTTTAAGG
* * * *
22050 ACTAGAAAATGCCACCAACTTGTGTGAGCTTT
194 ACAAGAAAATGCCACCGACTCGTGTGGGCTTT
22082 TAAAAAGAAA
Statistics
Matches: 2794, Mismatches: 205, Indels: 102
0.90 0.07 0.03
Matches are distributed among these distances:
928 773 0.28
929 153 0.05
933 2 0.00
934 61 0.02
935 977 0.35
936 6 0.00
937 5 0.00
938 1 0.00
940 1 0.00
942 2 0.00
943 4 0.00
944 2 0.00
945 3 0.00
946 4 0.00
951 1 0.00
952 1 0.00
954 3 0.00
955 6 0.00
961 1 0.00
964 1 0.00
965 1 0.00
968 1 0.00
969 3 0.00
971 1 0.00
972 1 0.00
974 2 0.00
975 5 0.00
990 316 0.11
991 457 0.16
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (934 bp):
GAAAGGCGTCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTGAAAGGCGTCC
TGCTCTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTGAG
GACTGGAAAATGCCACCAACTTGTGTGGGCTTTTAAAAAGAAAAGGTGTCCTGCTCTTTAAGGAC
AAGAAAATGCCACCGACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGATTGGAAATTCG
TCCCCACATATGTCTAATCCTCCACCTACTAGCTAGGCTTCAAGTTGTCGAAAATTGGCCCGGAC
AAAATTAGGTGTCTACAGCTGCCCCTCTTTGGCCATTTCTGAGTATCAGGAATAGGGCAAAGACA
AATAGACACCCTTTTGCCCGCGGCCGCATGCTGTGGCCTTGGAGTGATTAAATAAGATGTTTGAT
TAAAGCTTCGCCATGATGAAGAGTATATTGGCGGCGGTTCCGATGGAAAAATGAGTTTGTAGGGT
TTGTCCTCCCTACTAGGCTTTGAGATTTTCTAAGGCTTGACCTCCTTAGATAGGTGTTGGTTACT
GTAGGCTTTGGAAAGGTTTGCCACCAACTTGTGTGGGCTTTTTGGCTGCGGCCAACTTTTGCAGA
CTTTAGGAGGGGAAAGAAATGGAGGGGGTGTCCCACTTTTTGAGGACAAAGGAAAAGAGAATGAA
ATAGGTCTTGCTCCTTCAGGACAAAGGAAGAGAAGAAAAGGAAAGTGTCCTGCTTCTTGAGGACA
AAGTGAAAAAGAGTACGTCCCATTTTTCGAGGACAAAGGAAAAAGGGAAACAAAATACGTCCTGC
TCTTTGAGGACGAAAGAAAGAGGAAAATAAAGTGCATCCTGCTCTTTAAGGACTAAAAAGTGCCA
CCAACTCGTGTGGGCTTTGAAAAG
Found at i:20961 original size:55 final size:54
Alignment explanation
Indices: 20879--21183 Score: 315
Period size: 55 Copynumber: 5.4 Consensus size: 54
20869 AGGAAAAGCA
* * * * * *
20879 TCCTACTCTTTGAGGATTGGAATATGCCACCAACTTGAGTGGGCTTTGTAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAAGGCG
* * *
20934 TCTTGTTCTTTGACGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAA-AGGCG
* * *
20989 TCCTGCACTTTGAGGATTGGAAAATGCCACCAACTTGTTTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAAGGCG
* *
21044 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGAGCTTTTAAAAGGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGC-TTT-------AAAGGCG
* * * *
21106 TCCTGCTCTTTGAGGACTAGAAAATGCCATCGA-TTCGTGTGTGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTT-GTGTGGGCTTT-AAAGGCG
*
21161 TCCTGCTCTTTGAGGATTGGAAA
1 TCCTGCTCTTTGAGGACTGGAAA
21184 TTCGTCCCCA
Statistics
Matches: 212, Mismatches: 28, Indels: 20
0.82 0.11 0.08
Matches are distributed among these distances:
54 1 0.00
55 157 0.74
56 5 0.02
61 5 0.02
62 44 0.21
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.30
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGGCG
Found at i:21161 original size:117 final size:117
Alignment explanation
Indices: 20818--21183 Score: 437
Period size: 110 Copynumber: 3.2 Consensus size: 117
20808 ATAAAGTGCA
* * * *
20818 TCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAA-GCATC
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTTAAAAGGAAAAGGCGTC
* * * * *
20881 CTACTCTTTGAGGATTGGAATATGCCACCAACTTGAGTGGGCTTTGTAAGGCA
65 CTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
20934 TCTTGTTCTTTGACGACTGGAAAATGCCACCAACTTGTGTGGGC-TTT--AA-G---AGGCGTCC
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTTAAAAGGAAAAGGCGTCC
* * *
20992 TGCACTTTGAGGATTGGAAAATGCCACCAACTTGTTTGGGCTTTAAAAGGCG
66 TGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
21044 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGAGCTTTTAAAAGGAAAAGGTGTCC
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTTAAAAGGAAAAGGCGTCC
* * * * *
21109 TGCTCTTTGAGGACTAGAAAATGCCATCGA-TTCGTGTGTGCTTTGAAAGGCG
66 TGCTCTTTGAGGATTGGAAAATGCCACCAACTT-GTGTGGGCTTTGAAAGGCG
*
21161 TCCTGCTCTTTGAGGATTGGAAA
1 TCCTGCTCTTTGAGGACTGGAAA
21184 TTCGTCCCCA
Statistics
Matches: 211, Mismatches: 29, Indels: 19
0.81 0.11 0.07
Matches are distributed among these distances:
109 1 0.00
110 89 0.42
111 3 0.01
112 1 0.00
113 4 0.02
114 1 0.00
115 2 0.01
116 36 0.17
117 74 0.35
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (117 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTTAAAAGGAAAAGGCGTCC
TGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:21825 original size:119 final size:116
Alignment explanation
Indices: 21606--21825 Score: 266
Period size: 119 Copynumber: 1.9 Consensus size: 116
21596 ATGGAGGGGG
* ** *
21606 TGTCCCACTTTTTGAGGACAAAGGAAAAGAGAATGAAATAGGTCTTGCTCCTTCAGGACAAAGGA
1 TGTCCCACTTTTTGAGGACAAAGGAAAAGAGAACGAAATACATCCTGCTCCTTCAGGACAAAGGA
*
21671 AGAGAAGAAAAGGAAAGTGTCCTGCTTCTTGAGGACAAAGTGAAAAAGTGTA
66 AGAG-AGAAAAGGAAAGTGTCCTGCTTCTTAAGGACAAAGTGAAAAAGTGTA
* * *
21723 TGTCCCA-TTTTTCGAGGACAAAGGAAAAAGGGAAACGAAATACATCCTGCTCTTTGAGGACGAA
1 TGTCCCACTTTTT-GAGGACAAAGG-AAAAGAG-AACGAAATACATCCTGCTCCTTCAGGAC-AA
* *
21787 AGGAAGAG-GAAAA-TAAAGTGCATCCTGCTTTTTAAGGAC
62 AGGAAGAGAGAAAAGGAAAGTG--TCCTGCTTCTTAAGGAC
21826 TAAAAAGTGC
Statistics
Matches: 87, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
116 5 0.06
117 24 0.28
118 11 0.13
119 37 0.43
120 10 0.11
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (116 bp):
TGTCCCACTTTTTGAGGACAAAGGAAAAGAGAACGAAATACATCCTGCTCCTTCAGGACAAAGGA
AGAGAGAAAAGGAAAGTGTCCTGCTTCTTAAGGACAAAGTGAAAAAGTGTA
Found at i:21952 original size:55 final size:55
Alignment explanation
Indices: 21809--22167 Score: 384
Period size: 55 Copynumber: 6.3 Consensus size: 55
21799 ATAAAGTGCA
* * *
21809 TCCTGCTTTTTAAGGACTA-AAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTT---AA-G--AGGCG
* * * *
21870 TCCTGCTCTTTGAGGATTAGAATATGCCACCAACTTGAGTGGGCTTTGTA-AGGCG
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGCG
* * *
21925 TCTTGCTCTTTGACGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCG
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCG
* *
21980 TCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCG
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCG
* *
22035 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGAGCTTTTAAAAAGAAAAGGTG
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGC-TTT---AAG---AGGCG
* * *
22097 TCCTGCTCTTTGAGGACTAGAAAATGCCATCGA-TTCGTGTGTGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTT-GTGTGGGCTTT-AAGAGGCG
22152 TCCTGCTCTTTGAGGA
1 TCCTGCTCTTTGAGGA
22168 TTGGAAATTC
Statistics
Matches: 261, Mismatches: 27, Indels: 26
0.83 0.09 0.08
Matches are distributed among these distances:
54 1 0.00
55 164 0.63
56 3 0.01
59 6 0.02
61 42 0.16
62 45 0.17
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCG
Found at i:22074 original size:991 final size:990
Alignment explanation
Indices: 19938--22473 Score: 4320
Period size: 991 Copynumber: 2.6 Consensus size: 990
19928 TTGAAAAGGA
* * * ** * *
19938 AAGGCGTCCTGCTCTTTGAGGATTGGAAGGTGCCACCAACTTGTGTGGGCATTGAA-AGGCGTCA
1 AAGGCGTCTTGCTCTTTGACGACTGGAAAATGCCACCAACTTGTGTGGGC-TTTAAGAGGCGTCC
* * * * *
20002 TGCTCTTCGAGGACTGGAAAAAGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCATGCTCTTTAA
65 TGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTGA
* * * *
20067 GGACTGGAAAATGCCACCAACTTGTGTG-GCCTTTTAAAAAGAAAATGTGTCTTGCTATTTCAGG
130 GGACTGGAAAATGCCACCAACTTGTGTGAG-CTTTTAAAAAGAAAAGGTGTCCTGCTCTTTGAGG
* * * * *
20131 ACAAGAAAATGCCACCGACTCATGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGATTGGAAATT
194 ACTAGAAAATGCCATCGATTCGTGTGTGCTTTGAAAGGCGTCCTGCTCTTTGAGGATTGGAAATT
*
20196 CGTCCCCACATATGTCTAATCCTCCACCTACTAGCTAGGCTTCAAGTTGTCGAAAATTGGCCCGG
259 CGTCCCCACATATGTCCAATCCTCCACCTACTAGCTAGGCTTCAAGTTGTCGAAAATTGGCCCGG
* *
20261 ACAAAACTAGGTGTCTACAGCTGCCCCTCTTTGGCCATTTCTGAGTATCAGGAATAGGGCAAAGA
324 ACAAAATTAGGTGTCTACAGCAGCCCCTCTTTGGCCATTTCTGAGTATCAGGAATAGGGCAAAGA
* * ** * * *
20326 CAAATAGACACCCTTTTGTCCGCAGTTGCATGCTGTGGCCTTGGAGTGGTTAAACAAGAGGTTTG
389 CAAATAGACACCCTTTTGCCCGCGGCCGCATGCTGTGGCCTTGGAGTGATTAAATAAGATGTTTG
* *
20391 ATTAAAGTTTCGCCATGATGAAGAGTGTATTGGCGGCGGTTCCGATGGAAAAATGAGTTTGTAGG
454 ATTAAAGCTTCGCCATGATGAAGAGTATATTGGCGGCGGTTCCGATGGAAAAATGAGTTTGTAGG
*
20456 GTTTGTCCTCCCTACTAGGCTTTGAGATTTTCTAAGGATTGACCTCCTCAGATAGGTGTTGGTTA
519 GTTTGTCCTCCCTACTAGGCTTTGAGATTTTCTAAGGATTAACCTCCTCAGATAGGTGTTGGTTA
* *
20521 CTGTAGGCTTTGGAAAGGTTTGTCACCAACATGTGTGGGCTTTTTGGTTGCGGCCAACTTTTGCA
584 CTGTAGGCTTTGGAAACGTTTGCCACCAACATGTGTGGGCTTTTTGGTTGCGGCCAACTTTTGCA
*
20586 AACTTTAGGAGGGGAAAAATTGGAGGGGGTGTCCCACTTTTTGAGGACAAAGGAAAAGAGAATGA
649 AACTTTAGGAGGGGAAAAAATGGAGGGGGTGTCCCACTTTTTGAGGACAAAGGAAAAGAGAATGA
*
20651 AATAGGTCTTGCTCCTTCAGGACAAAAGAAGTGAAGAAAAGGAAAGTGTCCTGCCTCTTGAGGAC
714 AATAGGTCTTGCTCCTTCAGGACAAAAGAAGAGAAGAAAAGGAAAGTGTCCTGCCTCTTGAGGAC
* * * *
20716 AAAGTGAAAAAGAGTATGTCTCGTTTTTCGAGGACAAAGGAAAAAGGGAAATAAAATACGTCCTG
779 AAAGTGAAAAAGAGTATGTCCCATTTTTCGAGGACAAAGGAAAAAGGGAAACAAAATACATCCTG
* *
20781 CACTTTAAGGATGAAAGAAAGAGGAAAATAAAGTGCATCCTGCTCTTTGAGGACTAAAAAGTGCC
844 CACTTTAAGGACGAAAGAAAGAGGAAAATAAAGTGCATCCTGCTCTTTAAGGACTAAAAAGTGCC
*
20846 ACCAACTCGTGTGGGCTTTGAAAAGGAAAAGCATCCTACTCTTTGAGGATTGGAATATGCCACCA
909 ACCAACTCGTGTGGGCTTTGAAAAGGAAAAGCATCCTACTCTTTGAGGATTAGAATATGCCACCA
20911 ACTTGAGTGGGCTTTGT
974 ACTTGAGTGGGCTTTGT
* *
20928 AAGGCATCTTGTTCTTTGACGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCT
1 AAGGCGTCTTGCTCTTTGACGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCT
* * *
20993 GCACTTTGAGGATTGGAAAATGCCACCAACTTGTTTGGGCTTTAAAAGGCGTCCTGCTCTTTGAG
66 GCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTGAG
*
21058 GACTGGAAAATGCCACCAACTTGTGTGAGCTTTTAAAAGGAAAAGGTGTCCTGCTCTTTGAGGAC
131 GACTGGAAAATGCCACCAACTTGTGTGAGCTTTTAAAAAGAAAAGGTGTCCTGCTCTTTGAGGAC
21123 TAGAAAATGCCATCGATTCGTGTGTGCTTTGAAAGGCGTCCTGCTCTTTGAGGATTGGAAATTCG
196 TAGAAAATGCCATCGATTCGTGTGTGCTTTGAAAGGCGTCCTGCTCTTTGAGGATTGGAAATTCG
*
21188 TCCCCACATAAGTCCAATCCTCCACCTACTAGCTAGGCTTCAAGTTGTCGAAAATTGGCCCGGAC
261 TCCCCACATATGTCCAATCCTCCACCTACTAGCTAGGCTTCAAGTTGTCGAAAATTGGCCCGGAC
*
21253 AAAATTAGGTGTCTACCGCAGCCCCTCTTTGGCCATTTCTGAGTATCAGGAATAGGGCAAAGACA
326 AAAATTAGGTGTCTACAGCAGCCCCTCTTTGGCCATTTCTGAGTATCAGGAATAGGGCAAAGACA
*
21318 AATAGACACCTTTTTGCCCGCGGCCGCATGCTGTGGCCTTGGAGTGATTAAATAAGATGTTTGAT
391 AATAGACACCCTTTTGCCCGCGGCCGCATGCTGTGGCCTTGGAGTGATTAAATAAGATGTTTGAT
21383 TAAAGCTTCGCCATGATGAAGAGTATATTGGCGGCGGTTCCGATGGAAAAATGAGTTTGTAGGGT
456 TAAAGCTTCGCCATGATGAAGAGTATATTGGCGGCGGTTCCGATGGAAAAATGAGTTTGTAGGGT
* * *
21448 TTGTCCTCCCTACTAGGCTTTGAGATTTTCGAAGGCTTAACCTCCTTAGATAGGTGTTGGTTACT
521 TTGTCCTCCCTACTAGGCTTTGAGATTTTCTAAGGATTAACCTCCTCAGATAGGTGTTGGTTACT
* * *
21513 TTAGGCTTTGGAAACGTTTGCCACCAACTTGTGTGGGCTTTTTGGTTGCGGCCAACTTTTGCAGA
586 GTAGGCTTTGGAAACGTTTGCCACCAACATGTGTGGGCTTTTTGGTTGCGGCCAACTTTTGCAAA
21578 CTTTAGGAGGGGAAAGAAATGGAGGGGGTGTCCCACTTTTTGAGGACAAAGGAAAAGAGAATGAA
651 CTTTAGGAGGGGAAA-AAATGGAGGGGGTGTCCCACTTTTTGAGGACAAAGGAAAAGAGAATGAA
* *
21643 ATAGGTCTTGCTCCTTCAGGACAAAGGAAGAGAAGAAAAGGAAAGTGTCCTGCTTCTTGAGGACA
715 ATAGGTCTTGCTCCTTCAGGACAAAAGAAGAGAAGAAAAGGAAAGTGTCCTGCCTCTTGAGGACA
* *
21708 AAGTGAAAAAGTGTATGTCCCATTTTTCGAGGACAAAGGAAAAAGGGAAACGAAATACATCCTGC
780 AAGTGAAAAAGAGTATGTCCCATTTTTCGAGGACAAAGGAAAAAGGGAAACAAAATACATCCTGC
* * * *
21773 TCTTTGAGGACGAAAGGAAGAGGAAAATAAAGTGCATCCTGCTTTTTAAGGACTAAAAAGTGCCA
845 ACTTTAAGGACGAAAGAAAGAGGAAAATAAAGTGCATCCTGCTCTTTAAGGACTAAAAAGTGCCA
* * *
21838 CCAACTCGTGTGGGCTTTGAAAAGGAAAGGCGTCCTGCTCTTTGAGGATTAGAATATGCCACCAA
910 CCAACTCGTGTGGGCTTTGAAAAGGAAAAGCATCCTACTCTTTGAGGATTAGAATATGCCACCAA
21903 CTTGAGTGGGCTTTGT
975 CTTGAGTGGGCTTTGT
21919 AAGGCGTCTTGCTCTTTGACGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCT
1 AAGGCGTCTTGCTCTTTGACGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCT
21984 GCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTGAG
66 GCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTGAG
*
22049 GACTAGAAAATGCCACCAACTTGTGTGAGCTTTTAAAAAGAAAAGGTGTCCTGCTCTTTGAGGAC
131 GACTGGAAAATGCCACCAACTTGTGTGAGCTTTTAAAAAGAAAAGGTGTCCTGCTCTTTGAGGAC
*
22114 TAGAAAATGCCATCGATTCGTGTGTGCTTTGAAAGGCGTCCTGCTCTTTGAGGATTGGAAATTCA
196 TAGAAAATGCCATCGATTCGTGTGTGCTTTGAAAGGCGTCCTGCTCTTTGAGGATTGGAAATTCG
* * *
22179 TCCCAACATATGTCGAATCCTCCACCTACTAGCTAGGCTTCAAGTTGTCGAAAATTAGCCCGGAC
261 TCCCCACATATGTCCAATCCTCCACCTACTAGCTAGGCTTCAAGTTGTCGAAAATTGGCCCGGAC
22244 AAAATTAGGTGTCTACAGCAGCCCCTCTTTGGCCATTTCTGAGTATCAGGAATAGGGCAAAGACA
326 AAAATTAGGTGTCTACAGCAGCCCCTCTTTGGCCATTTCTGAGTATCAGGAATAGGGCAAAGACA
* *
22309 AATAGACACCCTTTTGCCCGCGGCCGCATGCTGTGGCCATGGAGTGATTAAATAACATGTTTGAT
391 AATAGACACCCTTTTGCCCGCGGCCGCATGCTGTGGCCTTGGAGTGATTAAATAAGATGTTTGAT
*
22374 TAAAGCTTCGCCATGATGAAGAGTATATTGGCGGCGGTTCCGATGGAAAAATAAGTTTGTAGGGT
456 TAAAGCTTCGCCATGATGAAGAGTATATTGGCGGCGGTTCCGATGGAAAAATGAGTTTGTAGGGT
22439 TTGTCCTCCCTACTAGGCTTTGAGATTTTCTAAGG
521 TTGTCCTCCCTACTAGGCTTTGAGATTTTCTAAGG
22474 TGAAAGCTTA
Statistics
Matches: 1454, Mismatches: 89, Indels: 5
0.94 0.06 0.00
Matches are distributed among these distances:
989 4 0.00
990 607 0.42
991 843 0.58
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (990 bp):
AAGGCGTCTTGCTCTTTGACGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCT
GCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTGAG
GACTGGAAAATGCCACCAACTTGTGTGAGCTTTTAAAAAGAAAAGGTGTCCTGCTCTTTGAGGAC
TAGAAAATGCCATCGATTCGTGTGTGCTTTGAAAGGCGTCCTGCTCTTTGAGGATTGGAAATTCG
TCCCCACATATGTCCAATCCTCCACCTACTAGCTAGGCTTCAAGTTGTCGAAAATTGGCCCGGAC
AAAATTAGGTGTCTACAGCAGCCCCTCTTTGGCCATTTCTGAGTATCAGGAATAGGGCAAAGACA
AATAGACACCCTTTTGCCCGCGGCCGCATGCTGTGGCCTTGGAGTGATTAAATAAGATGTTTGAT
TAAAGCTTCGCCATGATGAAGAGTATATTGGCGGCGGTTCCGATGGAAAAATGAGTTTGTAGGGT
TTGTCCTCCCTACTAGGCTTTGAGATTTTCTAAGGATTAACCTCCTCAGATAGGTGTTGGTTACT
GTAGGCTTTGGAAACGTTTGCCACCAACATGTGTGGGCTTTTTGGTTGCGGCCAACTTTTGCAAA
CTTTAGGAGGGGAAAAAATGGAGGGGGTGTCCCACTTTTTGAGGACAAAGGAAAAGAGAATGAAA
TAGGTCTTGCTCCTTCAGGACAAAAGAAGAGAAGAAAAGGAAAGTGTCCTGCCTCTTGAGGACAA
AGTGAAAAAGAGTATGTCCCATTTTTCGAGGACAAAGGAAAAAGGGAAACAAAATACATCCTGCA
CTTTAAGGACGAAAGAAAGAGGAAAATAAAGTGCATCCTGCTCTTTAAGGACTAAAAAGTGCCAC
CAACTCGTGTGGGCTTTGAAAAGGAAAAGCATCCTACTCTTTGAGGATTAGAATATGCCACCAAC
TTGAGTGGGCTTTGT
Found at i:22151 original size:117 final size:114
Alignment explanation
Indices: 21809--22167 Score: 453
Period size: 110 Copynumber: 3.1 Consensus size: 114
21799 ATAAAGTGCA
* * *
21809 TCCTGCTTTTTAAGGACTA-AAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGCGTCC
1 TCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTT-AAAA-GAAAGGCGTCC
* * *
21873 TGCTCTTTGAGGATTAGAATATGCCACCAACTTGAGTGGGCTTTGTAAGGCG
63 TGCTCTTTGAGGATTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
21925 TCTTGCTCTTTGACGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--AAG--AGGCGTCCTGC
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAGGCGTCCTGC
*
21986 TCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGCG
66 TCTTTGAGGATTAGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* *
22035 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGAGCTTTTAAAAAGAAAAGGTGTCC
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGC-TTT-AAAAG-AAAGGCGTCC
* * * *
22100 TGCTCTTTGAGGACTAGAAAATGCCATCGA-TTCGTGTGTGCTTTGAAAGGCG
63 TGCTCTTTGAGGATTAGAAAATGCCACCAACTT-GTGTGGGCTTTGAAAGGCG
22152 TCCTGCTCTTTGAGGA
1 TCCTGCTCTTTGAGGA
22168 TTGGAAATTC
Statistics
Matches: 212, Mismatches: 20, Indels: 21
0.84 0.08 0.08
Matches are distributed among these distances:
109 1 0.00
110 94 0.44
111 3 0.01
112 1 0.00
113 2 0.01
114 3 0.01
116 38 0.18
117 68 0.32
118 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (114 bp):
TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAGGCGTCCTGC
TCTTTGAGGATTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:23244 original size:13 final size:13
Alignment explanation
Indices: 23226--23251 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23216 CAATTTTTTG
23226 TGTATCGATACAT
1 TGTATCGATACAT
23239 TGTATCGATACAT
1 TGTATCGATACAT
23252 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:25595 original size:13 final size:13
Alignment explanation
Indices: 25577--25602 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25567 ATAATCACCC
25577 TGTATCGATACAA
1 TGTATCGATACAA
25590 TGTATCGATACAA
1 TGTATCGATACAA
25603 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:29534 original size:21 final size:21
Alignment explanation
Indices: 29505--29549 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
29495 AAGTTTTCAT
*
29505 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
29525 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
29547 TTT
1 TTT
29550 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:31786 original size:13 final size:13
Alignment explanation
Indices: 31768--31793 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31758 CAATTTTTTG
31768 TGTATCGATACAT
1 TGTATCGATACAT
31781 TGTATCGATACAT
1 TGTATCGATACAT
31794 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:32643 original size:55 final size:55
Alignment explanation
Indices: 32566--32981 Score: 469
Period size: 55 Copynumber: 7.4 Consensus size: 55
32556 AAGGAAAGGT
* * ** **
32566 GTCCTGCTCTTTAAGGATTGGAAGGTGCTGCCAACTTGTGTGGGCATTGAA-AGGC
1 GTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGC-TTGAAGAGGC
* *
32621 GTCCTGCTCTTTGAGGACTGGAAAAAGCCACCAACTTGTGTGGGCTTTAAGAGGC
1 GTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTGAAGAGGC
* * * *
32676 GTCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGCCTTTAAGTGGC
1 GTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTGAAGAGGC
* * * *
32731 GTCCTGCACTTTGAGGACTGGAAAATGCCACCAACTTGGGTTGGCTTTAAGAGGC
1 GTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTGAAGAGGC
* *
32786 GTCCGGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGC
1 GTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTGAAGAGGC
* * *
32841 GT-CTCGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTTAAAAAGAAAAGGT
1 GTCCT-GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGC--TT-----GAAGAGGC
* * * * ** *
32903 GTCCTACTCTTTGAGGACTAGAAAATGCCATCGACTCATGTGGGCTTTGAA-AGGT
1 GTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGC-TTGAAGAGGC
32958 GTCCTGCTCTTTGAGGACTGGAAA
1 GTCCTGCTCTTTGAGGACTGGAAA
32982 TTCATCCCCA
Statistics
Matches: 317, Mismatches: 34, Indels: 20
0.85 0.09 0.05
Matches are distributed among these distances:
54 5 0.02
55 260 0.82
56 3 0.01
57 2 0.01
61 3 0.01
62 42 0.13
63 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (55 bp):
GTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTGAAGAGGC
Found at i:33396 original size:55 final size:55
Alignment explanation
Indices: 33329--33461 Score: 230
Period size: 55 Copynumber: 2.4 Consensus size: 55
33319 GGAAAGATTT
*
33329 TGCCACCAACTTGTGTGGGCTTTAAGAGGCATCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAGAGGCATCCTACTCTTTGAGGACTGGAAAA
* * *
33384 TGCCACCAACTTGTGTGGGCTTCAAGAGGCGTCCTACTCTTTGAGGATTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAGAGGCATCCTACTCTTTGAGGACTGGAAAA
33439 TGCCACCAACTTGTGTGGGCTTT
1 TGCCACCAACTTGTGTGGGCTTT
33462 TAAAAGAAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 73 1.00
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.29
Consensus pattern (55 bp):
TGCCACCAACTTGTGTGGGCTTTAAGAGGCATCCTACTCTTTGAGGACTGGAAAA
Found at i:33840 original size:572 final size:573
Alignment explanation
Indices: 32756--33923 Score: 1849
Period size: 572 Copynumber: 2.0 Consensus size: 573
32746 GACTGGAAAA
* * *
32756 TGCCACCAACTTGGGTTGGCTTTAAGAGGCGTCCGGCTCTTTGAGGACTGGAAAATGCCACCAAC
1 TGCCACCAACTTGTGTGGGCTTTAAGAGGCATCCGGCTCTTTGAGGACTGGAAAATGCCACCAAC
* *
32821 TTGTGTGGGCTTTAAGAGGCGTCTCGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGC
66 TTGTGTGGGCTTCAAGAGGCGTCTCACTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGC
*
32886 TTTTAAAAAGAAAAGGTGTCCTACTCTTTGAGGACTAGAAAATGCCATCGACTCATGTGGGCTTT
131 TTTTAAAAAGAAAAGGTGTCCTACTCTTTGAGGACTAAAAAATGCCATCGACTCATGTGGGCTTT
*
32951 GAAAGGTGTCCTGCTCTTTGAGGACTGGAAATTCATCCCCACATATGTCCAATCCTCCACCCACT
196 CAAAGGTGTCCTGCTCTTTGAGGACTGGAAATTCATCCCCACATATGTCCAATCCTCCACCCACT
* * *
33016 AGCTAGGCTTCAAGTTGTCGAAAATTTGCTCGGACAAAATGAGGTATCTACAGCTGCCCCACTTT
261 AGCTAGGCTTCAAGTTGTCGAAAATTAGCCCGAACAAAATGAGGTATCTACAGCTGCCCCACTTT
* * ** * *
33081 GGCCATTTTTTAGTATCAAGAGTAGGGCAAAGATAAATAGACACCCTTTCGTCCGTGGCCGCATG
326 GGCCATTTCTGAGTATCAAGAACAGGGCAAAGACAAATAGACACCCTTTCGTCCGTGGCCACATG
* *
33146 TTGTGGCCGTGGAGTGATCAAACAAGAGGTTTAACTAAAGCTTCGCCATGATGAAGAGTTTATTG
391 CTGTGGCCGTGGAGTGATCAAACAAGAGGTTTAACTAAAGCTTCGCCATGATGAAGAGTGTATTG
*
33211 GCGGCAGTTTCGATGGAAAAATGAGTTTGTAGGATTTGTCCTCCCTACTAGGCTTTGAGATTTTC
456 GCGGCAGTTCCGATGGAAAAATGAGTTTGTAGGATTTGTCCTCCCTACTAGGCTTTGAGATTTTC
* *
33276 TAAGGCTTGACCTCCTTAG-TAGGTGTTGGTTACTATAGGCTTTGGAAAGATTT
521 TAAGGCTTGACCTCCTTAGATAGGTGTTCGTTACTATAGGCTTTGGAAAG-GTT
*
33329 TGCCACCAACTTGTGTGGGCTTTAAGAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAAC
1 TGCCACCAACTTGTGTGGGCTTTAAGAGGCATCCGGCTCTTTGAGGACTGGAAAATGCCACCAAC
* *
33394 TTGTGTGGGCTTCAAGAGGCGTC-CTACTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGG
66 TTGTGTGGGCTTCAAGAGGCGTCTC-ACTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGG
* * * *
33458 CTTTT-AAAAGAAAAGGTGTCTTGCTCTTTGAGGACTAAAAAATGCCATCGA-TTAGTGTGTGCT
130 CTTTTAAAAAGAAAAGGTGTCCTACTCTTTGAGGACTAAAAAATGCCATCGACTCA-TGTGGGCT
* * * *
33521 TTCAAAGGTGTCCTGCTCTTTGAGGATTGGAAATTCGTCCCCACATATGTCCAATCCTTCACCTA
194 TTCAAAGGTGTCCTGCTCTTTGAGGACTGGAAATTCATCCCCACATATGTCCAATCCTCCACCCA
** * *
33586 CTAGCTAGGCTTCAAGTTGTCGGCAATTAGCCCGAACAAAATGAGGTGTCTACAGCTGCCCCTCT
259 CTAGCTAGGCTTCAAGTTGTCGAAAATTAGCCCGAACAAAATGAGGTATCTACAGCTGCCCCACT
* * * *
33651 TTGGCCGTTTCTGAGTATCCAGAACAGGGCAAAGACAAATAGACACCCTTTTGTCTGTGGCCACA
324 TTGGCCATTTCTGAGTATCAAGAACAGGGCAAAGACAAATAGACACCCTTTCGTCCGTGGCCACA
* * * *
33716 TGCTGTGGCCTTGGAGTGATTAAACAAGAGGTTTGATTAAAGCTTCGCCATGATGAAGAGTGTAT
389 TGCTGTGGCCGTGGAGTGATCAAACAAGAGGTTTAACTAAAGCTTCGCCATGATGAAGAGTGTAT
* *
33781 TGGCGGCGGTTCCGATGGAAAAATGAGTTTGTAGGGTTTGTCCTCCCTACTAGGCTTTGAGATTT
454 TGGCGGCAGTTCCGATGGAAAAATGAGTTTGTAGGATTTGTCCTCCCTACTAGGCTTTGAGATTT
* *
33846 TCTAAGGCTTGACCTCTTTAGATAGGTGTTCGTTACTGTAGGCTTTGGAAAGGTT
519 TCTAAGGCTTGACCTCCTTAGATAGGTGTTCGTTACTATAGGCTTTGGAAAGGTT
33901 TGCCACCAACTTGTGTGGGCTTT
1 TGCCACCAACTTGTGTGGGCTTT
33924 TTGGGTGCTA
Statistics
Matches: 544, Mismatches: 48, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
571 2 0.00
572 390 0.72
573 152 0.28
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (573 bp):
TGCCACCAACTTGTGTGGGCTTTAAGAGGCATCCGGCTCTTTGAGGACTGGAAAATGCCACCAAC
TTGTGTGGGCTTCAAGAGGCGTCTCACTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGC
TTTTAAAAAGAAAAGGTGTCCTACTCTTTGAGGACTAAAAAATGCCATCGACTCATGTGGGCTTT
CAAAGGTGTCCTGCTCTTTGAGGACTGGAAATTCATCCCCACATATGTCCAATCCTCCACCCACT
AGCTAGGCTTCAAGTTGTCGAAAATTAGCCCGAACAAAATGAGGTATCTACAGCTGCCCCACTTT
GGCCATTTCTGAGTATCAAGAACAGGGCAAAGACAAATAGACACCCTTTCGTCCGTGGCCACATG
CTGTGGCCGTGGAGTGATCAAACAAGAGGTTTAACTAAAGCTTCGCCATGATGAAGAGTGTATTG
GCGGCAGTTCCGATGGAAAAATGAGTTTGTAGGATTTGTCCTCCCTACTAGGCTTTGAGATTTTC
TAAGGCTTGACCTCCTTAGATAGGTGTTCGTTACTATAGGCTTTGGAAAGGTT
Found at i:34323 original size:55 final size:55
Alignment explanation
Indices: 34182--34544 Score: 345
Period size: 55 Copynumber: 6.4 Consensus size: 55
34172 AAGTGCATCT
* * *
34182 TGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAACGAAAGGTGTCC
1 TGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT------GAAAGGCGTCC
* * *** * * *
34243 TGCTTTTTGAGGATTGGACGGTGCCACGAACTTGTATGGGCTTTGAAAGGCATCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
* * * *
34298 TACTCTTTGAGGACTGGAAAATGCCACCAGCTTGTGTGGGCTTT-AAGTGGCGTCT
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCC
*
34353 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGACGTCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCC
* * *
34408 TGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGCGGGCTTTTAAAAAGAAAAGGTGTCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGC-TTT-----G-AAAGGCGTCC
* * * * *
34470 TGCTCTTTGAGGACTAGAAAATGCCACCGACTCGTGTAGGCTTTGAAGGGCGTCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
34525 TGCTCTTTGAGGACTGGAAA
1 TGCTCTTTGAGGACTGGAAA
34545 TTCGTCCCCA
Statistics
Matches: 253, Mismatches: 39, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
54 2 0.01
55 165 0.65
56 4 0.02
61 36 0.14
62 44 0.17
63 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (55 bp):
TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
Found at i:34927 original size:22 final size:21
Alignment explanation
Indices: 34878--34934 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
34868 TGCCAAGGAT
34878 ATGTATCGATACA-TTACTAA
1 ATGTATCGATACATTTACTAA
34898 ATGTATCGATACATGCTTAC-AA
1 ATGTATCGATACAT--TTACTAA
*
34920 TTGTATCGATACATT
1 ATGTATCGATACATT
34935 CTGGGTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 14 0.42
22 15 0.45
23 4 0.12
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (21 bp):
ATGTATCGATACATTTACTAA
Found at i:37258 original size:40 final size:40
Alignment explanation
Indices: 37214--37322 Score: 130
Period size: 40 Copynumber: 2.7 Consensus size: 40
37204 AAACCAACAC
* * *
37214 GTTAATAAGTTAAAAAGGTTGACCGAGA-TGAAACTGGCAA
1 GTTAACAAGTTAAAAAGGTTGATCGAGACT-AAACTGACAA
* * *
37254 GTTAACAAGTTAAAGATGTTGGTCGAGACTAAACTGACAA
1 GTTAACAAGTTAAAAAGGTTGATCGAGACTAAACTGACAA
**
37294 GTCCACAAGTTAAAAAGGTTGATCGAGAC
1 GTTAACAAGTTAAAAAGGTTGATCGAGAC
37323 AAAATCGACA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
40 56 0.98
41 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.23
Consensus pattern (40 bp):
GTTAACAAGTTAAAAAGGTTGATCGAGACTAAACTGACAA
Found at i:37723 original size:145 final size:145
Alignment explanation
Indices: 37289--37744 Score: 444
Period size: 145 Copynumber: 3.2 Consensus size: 145
37279 AGACTAAACT
** * ** * * *
37289 GACAAGTCCACAAGTTAAAAAGGTTGATCGAGACAAAATCGACAGGTCAATAAAGAGTGATTAAA
1 GACAAGTTAACAAGTTAAAAAGGTTGATCGAGACAAAATAGACAAATCAACAAAGAGTGATGAAG
** * * *
37354 GTAAAACCCAACATAGAATAAGGTTGACCAGGGCGAAATTGATAAGT------TTTAAAAAGGTT
66 GTAAAACCCAAGTTAGAATAAGGTTGACCAGGGCAAAATTGATAAGTCAACAAGTTAAAAAGGCT
*
37413 GACTAGGATAAAATC
131 GACTAGGATGAAATC
* * * * * * * *
37428 GATAAGTCAGCAAGTTAAAAAGGTTGATCAAGACGAAATAGATATATCAACAACGAGTGA-GTAA
1 GACAAGTTAACAAGTTAAAAAGGTTGATCGAGACAAAATAGACAAATCAACAAAGAGTGATG-AA
* * *
37492 GGTAAAACCCAAGTCAGAATAGGGTTGACCAGGGCAAAATTAATAAGTCAACAAGTTAAAAAGGC
65 GGTAAAACCCAAGTTAGAATAAGGTTGACCAGGGCAAAATTGATAAGTCAACAAGTTAAAAAGGC
* *
37557 TGACCAGAATGAAAGT-
130 TGACTAGGATGAAA-TC
* * * * *
37573 GACAAGTTAACATGTTAAAAAGGTTGATCGGGACAAAACT-GACAAATCAAGAAATAGTGATGAG
1 GACAAGTTAACAAGTTAAAAAGGTTGATCGAGACAAAA-TAGACAAATCAACAAAGAGTGATGAA
* * * * *
37637 GGTAAAACCCAAGTTAGAATAAGGTTAACTAGGGCAAAACTGATAAGTCAACAAGTTATAAAGGG
65 GGTAAAACCCAAGTTAGAATAAGGTTGACCAGGGCAAAATTGATAAGTCAACAAGTTAAAAAGGC
37702 TGACTAGGATGAAATC
130 TGACTAGGATGAAATC
* *** *
37718 AACAAGTTGTTAGGTTAAAAAGGTTGA
1 GACAAGTTAACAAGTTAAAAAGGTTGA
37745 CTAGATGAAA
Statistics
Matches: 254, Mismatches: 52, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
139 92 0.36
144 1 0.00
145 158 0.62
146 3 0.01
ACGTcount: A:0.45, C:0.12, G:0.23, T:0.21
Consensus pattern (145 bp):
GACAAGTTAACAAGTTAAAAAGGTTGATCGAGACAAAATAGACAAATCAACAAAGAGTGATGAAG
GTAAAACCCAAGTTAGAATAAGGTTGACCAGGGCAAAATTGATAAGTCAACAAGTTAAAAAGGCT
GACTAGGATGAAATC
Found at i:37804 original size:40 final size:40
Alignment explanation
Indices: 37733--37846 Score: 122
Period size: 40 Copynumber: 2.9 Consensus size: 40
37723 GTTGTTAGGT
* ** *
37733 TAAAAAGGTTGA-CTAGATGAAACTAATAAGTCAACAGGC
1 TAAAAAGGTTGATCGAGACAAAACTAATAAGTCAACAAGC
* * * **
37772 TAAAGAGGTTGATCGAGACAATACTGATAAGTCAACAATT
1 TAAAAAGGTTGATCGAGACAAAACTAATAAGTCAACAAGC
* *
37812 TAAAAAGGTTGATCGGGACAAAATTAATAAGTCAA
1 TAAAAAGGTTGATCGAGACAAAACTAATAAGTCAA
37847 TAAAAAGTGA
Statistics
Matches: 60, Mismatches: 14, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
39 11 0.18
40 49 0.82
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.23
Consensus pattern (40 bp):
TAAAAAGGTTGATCGAGACAAAACTAATAAGTCAACAAGC
Found at i:38098 original size:40 final size:40
Alignment explanation
Indices: 38040--38146 Score: 106
Period size: 40 Copynumber: 2.7 Consensus size: 40
38030 TGACCAGGGT
* * * *
38040 GAAAGTGATAAGTCAACAAGTTAAAAAGGCTGATCAAGAC
1 GAAACTGACAAGTTAACAAGTTAAAAAGACTGATCAAGAC
* * * ** *
38080 GAAACTGACAAGTTAACAAGTTAAAGATATTGATCGGGAT
1 GAAACTGACAAGTTAACAAGTTAAAAAGACTGATCAAGAC
* *
38120 AAAACTAACAAGTTAACAAGTTAAAAA
1 GAAACTGACAAGTTAACAAGTTAAAAA
38147 AGTCAACTGT
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.50, C:0.11, G:0.19, T:0.21
Consensus pattern (40 bp):
GAAACTGACAAGTTAACAAGTTAAAAAGACTGATCAAGAC
Found at i:38567 original size:40 final size:40
Alignment explanation
Indices: 38510--38607 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 40
38500 AAGCTAACCT
* * *
38510 AAGTTAGAATAAGGTTGATCAAGATGAAA-CTAATAAGTCAAC
1 AAGTTA-AA-AAGGTTGATCAAGATAAAACCGAA-AAATCAAC
* * *
38552 AAGTTACAGAGGTTGATCGAGATAAAACCGAAAAATCAAC
1 AAGTTAAAAAGGTTGATCAAGATAAAACCGAAAAATCAAC
38592 AAGTTAAAAAGGTTGA
1 AAGTTAAAAAGGTTGA
38608 CTATGATGGG
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
40 37 0.79
41 4 0.09
42 6 0.13
ACGTcount: A:0.48, C:0.10, G:0.20, T:0.21
Consensus pattern (40 bp):
AAGTTAAAAAGGTTGATCAAGATAAAACCGAAAAATCAAC
Found at i:39014 original size:145 final size:145
Alignment explanation
Indices: 38847--39123 Score: 340
Period size: 145 Copynumber: 1.9 Consensus size: 145
38837 AATGAAATCA
* * * * * * **
38847 ATAAGTCAACAAAGAGTTACTAGGGTAAAATCTAAG-CTAGAATAGCGTTGACGAGGGCCAAATT
1 ATAAGTCAACAAAGAATGACTAGGGTAAAACCCAAGTC-AGAATAGAGTTGACGAGGGCAAAACC
* * *
38911 GATAAGTCAACATCTTAAAAAGGTTGATCGAGATGAAACCAACAAGTCAACAAGTTAAAGAGGTT
65 GATAAGTCAACAACTTAAAAAGGTTGACCGAGATGAAACCAACAAGTCAACAAGTTAAAGAGATT
38976 GATCAGGACAAAACTG
130 GATCAGGACAAAACTG
* * *
38992 ATAAGTTAATAAAGAATGACTAGGGTCAAACCCAAGTCAGAATAGAGTTGACGAGGGCAAAACCG
1 ATAAGTCAACAAAGAATGACTAGGGTAAAACCCAAGTCAGAATAGAGTTGACGAGGGCAAAACCG
* * * * * * * *
39057 ATATGTTAACAAGTTAAAAAGGTTTACCGAGATGAAACTAAGAAGTTAATAAGTTAAAGAGATTG
66 ATAAGTCAACAACTTAAAAAGGTTGACCGAGATGAAACCAACAAGTCAACAAGTTAAAGAGATTG
39122 AT
131 AT
39124 TTAGATGAAA
Statistics
Matches: 109, Mismatches: 22, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
145 108 0.99
146 1 0.01
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.22
Consensus pattern (145 bp):
ATAAGTCAACAAAGAATGACTAGGGTAAAACCCAAGTCAGAATAGAGTTGACGAGGGCAAAACCG
ATAAGTCAACAACTTAAAAAGGTTGACCGAGATGAAACCAACAAGTCAACAAGTTAAAGAGATTG
ATCAGGACAAAACTG
Found at i:39326 original size:40 final size:40
Alignment explanation
Indices: 39246--39373 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 40
39236 AAACCAATAT
* ** * *
39246 GTCAACAAGTTAAAAAGGTTGACTGGGATGAAGCTAACAA
1 GTCAACAAGTTAAAAAGGTTGACTAGGACAAAACTGACAA
39286 GTCAACAAGTTAAAAAGGTTGA-TCAGGACAAAACTGACAA
1 GTCAACAAGTTAAAAAGGTTGACT-AGGACAAAACTGACAA
* * * * *
39326 GTCTACATGTTAAAGAGGTTGACTAGGACAAAATTGATAA
1 GTCAACAAGTTAAAAAGGTTGACTAGGACAAAACTGACAA
*
39366 GTTAACAA
1 GTCAACAA
39374 AGAGTTACGA
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 71 0.97
41 1 0.01
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (40 bp):
GTCAACAAGTTAAAAAGGTTGACTAGGACAAAACTGACAA
Found at i:39357 original size:185 final size:185
Alignment explanation
Indices: 38914--39605 Score: 515
Period size: 185 Copynumber: 3.8 Consensus size: 185
38904 CCAAATTGAT
** * *
38914 AAGTCAACATCTTAAAAAGGTTGATC-GAGATGAAACCAACAAGTCAACAAGTTAAAGAGGTTGA
1 AAGTCAACAAGTTAAAAAGGTTGATCAG-GATGAAACTAACAAGTCTACAAGTTAAAGAGGTTGA
* * *
38978 TCAGGACAAAACTGATAAGTTAATAAAGAATGACTAGGGTCAAACCCAAGTCAGAATAGAGTTGA
65 TCAGGACAAAATTGATAAGTTAACAAAGAATGACTAGGGTAAAACCCAAGTCAGAATAGAGTTGA
* * * * *
39043 CGAGGGCAAAACCGATATGTTAACAAGTTAAAAAGGTTTACCGAGATGAAACTAAG
130 CGAAGGCAAAACCAATATGTCAACAAGTTAAAAAGGTTGACCGAGATGAAACTAAC
* * * * * * * ** * *
39099 AAGTTAATAAGTTAAAGAGATTGATTTA-GATGAAATTAACAAGACTGTAAGTTAAAAAAGTTGA
1 AAGTCAACAAGTTAAAAAGGTTGA-TCAGGATGAAACTAACAAGTCTACAAGTTAAAGAGGTTGA
* * * * * * * * *
39163 TCGGGACAAAATTGACAAGTCAACAAATAGA-GAGTAGGGTAAAAGCTAAGTTAGAATAGGGTTG
65 TCAGGACAAAATTGATAAGTTAACAAAGA-ATGACTAGGGTAAAACCCAAGTCAGAATAGAGTTG
* * * *
39227 ATGAAGGCAAAACCAATATGTCAACAAGTTAAAAAGGTTGACTGGGATGAAGCTAAC
129 ACGAAGGCAAAACCAATATGTCAACAAGTTAAAAAGGTTGACCGAGATGAAACTAAC
** * *
39284 AAGTCAACAAGTTAAAAAGGTTGATCAGGACAAAACTGACAAGTCTACATGTTAAAGAGGTTGA-
1 AAGTCAACAAGTTAAAAAGGTTGATCAGGATGAAACTAACAAGTCTACAAGTTAAAGAGGTTGAT
* * * * *
39348 CTAGGACAAAATTGATAAGTTAACAAAGAGTTACGAGGGTAAAA--CTAGTTCAAAATAG-GTTG
66 C-AGGACAAAATTGATAAGTTAACAAAGAATGACTAGGGTAAAACCCAAG-TCAGAATAGAGTTG
* * ** ** * ** ** *
39410 ACCATGATAAAACTGATAAGTCAACAAGTTAATGAGGTTGACTAAGAT-AAATTGAA-
129 ACGAAGGCAAAACCAATATGTCAACAAGTTAAAAAGGTTGACCGAGATGAAACT-AAC
* * ** * ** * * *
39466 AAG-CAAACAAGGTAAAGAGGTTGAAAAAGACAAAAGTAACAAGTCAACATGTTAAAGAGGTTGA
1 AAGTC-AACAAGTTAAAAAGGTTGATCAGGATGAAACTAACAAGTCTACAAGTTAAAGAGGTTGA
** *** * * * ** * *
39530 T-AGGGATGAAACAAACAAGTTAACAAAGAGTGAATAGGGTAAAGTCCAAGTCAGAATAGGGTTA
65 TCA-GGACAAAATTGATAAGTTAACAAAGAATGACTAGGGTAAAACCCAAGTCAGAATAGAGTTG
*
39594 ACCAAGGCAAAA
129 ACGAAGGCAAAA
39606 TTGATAAAAC
Statistics
Matches: 392, Mismatches: 101, Indels: 29
0.75 0.19 0.06
Matches are distributed among these distances:
181 2 0.01
182 88 0.22
183 52 0.13
184 25 0.06
185 223 0.57
186 2 0.01
ACGTcount: A:0.46, C:0.11, G:0.22, T:0.21
Consensus pattern (185 bp):
AAGTCAACAAGTTAAAAAGGTTGATCAGGATGAAACTAACAAGTCTACAAGTTAAAGAGGTTGAT
CAGGACAAAATTGATAAGTTAACAAAGAATGACTAGGGTAAAACCCAAGTCAGAATAGAGTTGAC
GAAGGCAAAACCAATATGTCAACAAGTTAAAAAGGTTGACCGAGATGAAACTAAC
Found at i:39459 original size:40 final size:40
Alignment explanation
Indices: 39404--39529 Score: 114
Period size: 40 Copynumber: 3.2 Consensus size: 40
39394 AGTTCAAAAT
* * * *
39404 AGGTTGACCATGATAAAACTGATAAGTCAACAAGTTAATG
1 AGGTTGACAAAGATAAAACTGAAAAGTCAACAAGTTAAAG
* * *
39444 AGGTTGACTAAGAT-AAATTGAAAAG-CAAACAAGGTAAAG
1 AGGTTGACAAAGATAAAACTGAAAAGTC-AACAAGTTAAAG
* * * *
39483 AGGTTGAAAAAGACAAAAGT-AACAAGTCAACATGTTAAAG
1 AGGTTGACAAAGATAAAACTGAA-AAGTCAACAAGTTAAAG
39523 AGGTTGA
1 AGGTTGA
39530 TAGGGATGAA
Statistics
Matches: 70, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
38 1 0.01
39 32 0.46
40 36 0.51
41 1 0.01
ACGTcount: A:0.48, C:0.10, G:0.22, T:0.21
Consensus pattern (40 bp):
AGGTTGACAAAGATAAAACTGAAAAGTCAACAAGTTAAAG
Found at i:39731 original size:145 final size:145
Alignment explanation
Indices: 39464--39962 Score: 344
Period size: 145 Copynumber: 3.4 Consensus size: 145
39454 AGATAAATTG
* ** * ** * *
39464 AAAAGCAAACAAGGTAAAGAGGTTGAAAAAGACAAAAGTAACAAGTCAACATGTTAAAGAGGTTG
1 AAAA-CAAA-AAGTTAAAGAGGTTGACCAGGACAAAACAAACAAGTCAACAAGTTAAAAAGGTTG
* * ** * * * * * * **
39529 A-TAGGGATGAAACAAACAAGTTAACAAAGAGTGAATAGGGTAAAGTCCAAGTCAGAATAGGGTT
64 ACCA-AGACAAAACTAACAAATCAATAAAGAGTGACTAAGGTAAAACCCAAGTCAGAATAGGGTT
*
39593 AACCAAGGCAAAATTGA-T
128 AACCAAGGCAAAACT-ACT
* * * * * *
39611 AAAACAACAAGTTAAAGTA-GTTGATCAGGACGAAACAAATAAGTTAACAAGTTAAAGAGGTTGA
1 AAAACAAAAAGTTAAAG-AGGTTGACCAGGACAAAACAAACAAGTCAACAAGTTAAAAAGGTTGA
* * * * **
39675 CCAGGACAAAATTAACAAATCAATAAAGAGTGA-TTAGGATAAAACCTAAG-CTAGAATATAGTT
65 CCAAGACAAAACTAACAAATCAATAAAGAGTGACTAAGG-TAAAACCCAAGTC-AGAATAGGGTT
* * *
39738 AACCACGACGAAACTACT
128 AACCAAGGCAAAACTACT
** * *
39756 AAGTCAAAAAGTTAAAGAGGTTGACCAGGACAAAACTAACAAGTCAACAAGTTAAAAAGGTTGAT
1 AAAACAAAAAGTTAAAGAGGTTGACCAGGACAAAACAAACAAGTCAACAAGTTAAAAAGGTTGAC
* * * * * * *
39821 CAAGACGAAACTGATAAGTCAATAAAGAGTTACTAAGGTAAAACCCAAGTCAAAATAGGGTTGAC
66 CAAGACAAAACTAACAAATCAATAAAGAGTGACTAAGGTAAAACCCAAGTCAGAATAGGGTTAAC
* * *
39886 CAGGGCAAAACCAAT
131 CAAGGCAAAACTACT
*** ** ** * * *
39901 AGGTCAATGAGTTAAAGAGGTTGATTAAGACTAAATC-AACAAGTCAGCAAGTTAAAAAGGTT
1 AAAACAAAAAGTTAAAGAGGTTGACCAGGAC-AAAACAAACAAGTCAACAAGTTAAAAAGGTT
39963 AATCGGGATG
Statistics
Matches: 277, Mismatches: 66, Indels: 20
0.76 0.18 0.06
Matches are distributed among these distances:
144 6 0.02
145 253 0.91
146 14 0.05
147 4 0.01
ACGTcount: A:0.48, C:0.13, G:0.21, T:0.19
Consensus pattern (145 bp):
AAAACAAAAAGTTAAAGAGGTTGACCAGGACAAAACAAACAAGTCAACAAGTTAAAAAGGTTGAC
CAAGACAAAACTAACAAATCAATAAAGAGTGACTAAGGTAAAACCCAAGTCAGAATAGGGTTAAC
CAAGGCAAAACTACT
Found at i:39808 original size:40 final size:39
Alignment explanation
Indices: 39739--39847 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 39
39729 AATATAGTTA
* *
39739 ACCACGACGAAACTACTAAGTCAAAAAGTTAAAGAGGTTG
1 ACCAAGACGAAACTAC-AAGTCAAAAAGTTAAAAAGGTTG
* * *
39779 ACCAGGACAAAACTAACAAGTCAACAAGTTAAAAAGGTTG
1 ACCAAGACGAAACT-ACAAGTCAAAAAGTTAAAAAGGTTG
* *
39819 ATCAAGACGAAACTGATAAGTCAATAAAG
1 ACCAAGACGAAACT-ACAAGTCAA-AAAG
39848 AGTTACTAAG
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
40 52 0.91
41 5 0.09
ACGTcount: A:0.49, C:0.17, G:0.18, T:0.17
Consensus pattern (39 bp):
ACCAAGACGAAACTACAAGTCAAAAAGTTAAAAAGGTTG
Found at i:40267 original size:184 final size:182
Alignment explanation
Indices: 39788--40286 Score: 481
Period size: 184 Copynumber: 2.7 Consensus size: 182
39778 GACCAGGACA
* * *
39788 AAACTAACAAGTCAACAAGTTAAAAAGGTTGATCAAGACGAAACTGATAAGTCAATAAAGAGTT-
1 AAACTAACAAGTCAACAAGTTAAAAA-GTTGACCAAGACGAAACT-ACAAGTCAACAAAGA-TTG
* ** * **
39852 ACTAAGGTAAAACCCAAGTCAAAATAGGGTTGACCAGGGCAAAACCAATAGGTCAATGAGTTAAA
63 ACT-AGGTAAAACTCAAGTCAAAATAGGGTTGACCAGGGCAAAACTGATAAGTCAACAAGTTAAA
* * * * * *
39917 GAGGTTGATTAAGACTAAATCAACAAGTCAGCAAGTTAAAAAGGTTAATCGGGATG
127 GAAGTTAAATAAGACAAAATCAACAAGTCAACAAGTTAAAAAAGTTAATCGGGATG
* * * * * * * *
39973 AAACTAATAAGTCTACATGTTAAAGAGGTT-AGCCGAGACAAAATCGACAAGTCAACAAAGAGTG
1 AAACTAACAAGTCAACAAGTTAAA-AAGTTGA-CCAAGACGAAA-CTACAAGTCAACAAAGATTG
* *
40037 ACTAGGTAAAA-TCCAAGTTAAAATAGGGTTGAACTA-GGCAAAACTGATAAGTCAACAAGTTGA
63 ACTAGGTAAAACT-CAAGTCAAAATAGGGTTG-ACCAGGGCAAAACTGATAAGTCAACAAGTT-A
* * *
40100 AA-AAGTTAAATGAGACAAAATCAACTAGTCAACAAGTTAAAAAAGTTAA-CTGGGGTG
125 AAGAAGTTAAATAAGACAAAATCAACAAGTCAACAAGTTAAAAAAGTTAATC-GGGATG
* * * *
40157 AAACTAGCAAGTCGACAAGTTAAATAAGTTGACCAAAATGAAACTACCAAGTCAACAAAGATTGA
1 AAACTAACAAGTCAACAAGTTAAA-AAGTTGACCAAGACGAAACTA-CAAGTCAACAAAGATTGA
* * ** * *
40222 CTAGGGTAAAACTTAACTCAAAAT-GGGTTGACCAGGGTGAAACTGATAAATTAACAAGTTAAAG
64 CTA-GGTAAAACTCAAGTCAAAATAGGGTTGACCAGGGCAAAACTGATAAGTCAACAAGTTAAAG
40286 A
128 A
40287 GGTTGACCAG
Statistics
Matches: 252, Mismatches: 48, Indels: 29
0.77 0.15 0.09
Matches are distributed among these distances:
183 9 0.04
184 170 0.67
185 70 0.28
186 3 0.01
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (182 bp):
AAACTAACAAGTCAACAAGTTAAAAAGTTGACCAAGACGAAACTACAAGTCAACAAAGATTGACT
AGGTAAAACTCAAGTCAAAATAGGGTTGACCAGGGCAAAACTGATAAGTCAACAAGTTAAAGAAG
TTAAATAAGACAAAATCAACAAGTCAACAAGTTAAAAAAGTTAATCGGGATG
Found at i:40317 original size:39 final size:40
Alignment explanation
Indices: 40247--40331 Score: 102
Period size: 39 Copynumber: 2.1 Consensus size: 40
40237 ACTCAAAATG
* * * *
40247 GGTTGACCAGGGTGAAACTGATAAATTAACAAGTTA-AAGA
1 GGTTGACCAGGATGAAACTAACAAATCAACAAGTTAGAA-A
*
40287 GGTTGACCA-GATGAAACTAACAAGTCAACAAGTTAGAAA
1 GGTTGACCAGGATGAAACTAACAAATCAACAAGTTAGAAA
40326 GGTTGA
1 GGTTGA
40332 TCGAGACGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
39 28 0.72
40 11 0.28
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.21
Consensus pattern (40 bp):
GGTTGACCAGGATGAAACTAACAAATCAACAAGTTAGAAA
Found at i:40534 original size:144 final size:144
Alignment explanation
Indices: 40208--40686 Score: 407
Period size: 144 Copynumber: 3.3 Consensus size: 144
40198 AACTACCAAG
* * * * * * * *
40208 TCAACAAAGATTGACTAGGGTAAAACTTAACTCAAAAT-GGGTTGACCAGGGTGAAACTGATAAA
1 TCAACAAAGAGTGACTA-GGTAAAACCTAAGTCAGAATAGGGTTGACTAGGGCGAAACTAATATA
* * ** * * * * *
40272 TTAACAAGTTAAAGAGGTTGACC-AGATGAAACTAACAAGTCAACAAGTTAGAAAGGTTGATCGA
65 TCAACAAGTTAAAGAGGTTGTCCAAGAAAAAATTGACAAGTCAACAAGTTAAAAAGGTTAATCAA
*** * *
40336 GA-CGAAATTGATAAG
130 GATC-AAACCAAGAAA
* * * *
40351 TCAACAAAGAGTGACTAGGGTAAAATCTAAGCCATAATAGGGTTGACTAGGGC-AAACCTGATA-
1 TCAACAAAGAGTGACTA-GGTAAAACCTAAGTCAGAATAGGGTTGACTAGGGCGAAA-CTAATAT
* ** ** * * *
40414 AGTCAACATGTTAAA-ATGGTTGAT-CGGGATGAAATTGATAAGTCAATAAGTTAAAGAGGTTAA
64 A-TCAACAAGTTAAAGA-GGTTG-TCCAAGAAAAAATTGACAAGTCAACAAGTTAAAAAGGTTAA
* * *
40477 TTAGGATCAAACTGAA-AAA
126 TCAAGATCAAAC-CAAGAAA
* * *
40496 TCAATAAAGAGTGACTAGGTAAAACCCAAGTCAGAATAGGGCTGACTAGGGCGAAACTAATATAT
1 TCAACAAAGAGTGACTAGGTAAAACCTAAGTCAGAATAGGGTTGACTAGGGCGAAACTAATATAT
* *
40561 TAACAAGTTAAAGAGGTTGTCCAAGAAAAAATTGACAAGTCAACAAGTTAAAAAGGTTGATCAAG
66 CAACAAGTTAAAGAGGTTGTCCAAGAAAAAATTGACAAGTCAACAAGTTAAAAAGGTTAATCAAG
* *
40626 ATGAAACCAAGAAG
131 ATCAAACCAAGAAA
* * *
40640 TCAACAAGGAGTGATTAGGTAAAACCTAAGTGAGAATAGGGTTGACT
1 TCAACAAAGAGTGACTAGGTAAAACCTAAGTCAGAATAGGGTTGACT
40687 GAGATGAAAT
Statistics
Matches: 269, Mismatches: 54, Indels: 25
0.77 0.16 0.07
Matches are distributed among these distances:
143 40 0.15
144 169 0.63
145 58 0.22
146 2 0.01
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.22
Consensus pattern (144 bp):
TCAACAAAGAGTGACTAGGTAAAACCTAAGTCAGAATAGGGTTGACTAGGGCGAAACTAATATAT
CAACAAGTTAAAGAGGTTGTCCAAGAAAAAATTGACAAGTCAACAAGTTAAAAAGGTTAATCAAG
ATCAAACCAAGAAA
Found at i:40755 original size:288 final size:288
Alignment explanation
Indices: 40208--40762 Score: 602
Period size: 288 Copynumber: 1.9 Consensus size: 288
40198 AACTACCAAG
* ** * * *
40208 TCAACAAAGATTGACTAGGGTAAAACTTAACTCAAAATGGGTTGACCAGGGTGAAACTGATAAAT
1 TCAACAAAGAGTGACTAGGGTAAAACCCAACTCAAAATGGGCTGACCAGGGCGAAACTAATAAAT
** * *
40273 TAACAAGTTAAAGAGGTTGACCAGATGAAACTAACAAGTCAACAAGTTAGAAAGGTTGATCGAGA
66 TAACAAGTTAAAGAGGTTGACCAGAAAAAACTAACAAGTCAACAAGTTAAAAAGGTTGATCAAGA
*** * * *
40338 CGAAATTGATAAGTCAACAAAGAGTGACTAGGGTAAAATCTAAGCCATAATAGGGTTGACTAGGG
131 CGAAACCAAGAAGTCAACAAAGAGTGACTAGGGTAAAACCTAAGCCAGAATAGGGTTGACTAGGG
* *** ** * *
40403 CAAACCTGATAAGTCAACATGTTAAAATGGTTGATCGGGATGAAATTGATAAGTCAATAAGTTAA
196 CAAACCTGACAAGTCAACATGTTAAAATGGTTGATCAAAACAAAATCGATAAGTCAACAAGTTAA
*
40468 AGAGGTTAATTAGGATCAAACTGAAAAA
261 AAAGGTTAATTAGGATCAAACTGAAAAA
* * * * *
40496 TCAATAAAGAGTGACTA-GGTAAAACCCAAGTCAGAATAGGGCTGACTAGGGCGAAACTAATATA
1 TCAACAAAGAGTGACTAGGGTAAAACCCAACTCAAAAT-GGGCTGACCAGGGCGAAACTAATAAA
* * *
40560 TTAACAAGTTAAAGAGGTTGTCCAAGAAAAAATTGACAAGTCAACAAGTTAAAAAGGTTGATCAA
65 TTAACAAGTTAAAGAGGTTGACC-AGAAAAAACTAACAAGTCAACAAGTTAAAAAGGTTGATCAA
* * * **
40625 GATGAAACCAAGAAGTCAACAAGGAGTGATTA-GGTAAAACCTAAGTGAGAATAGGGTTGACTGA
129 GACGAAACCAAGAAGTCAACAAAGAGTGACTAGGGTAAAACCTAAGCCAGAATAGGGTTGACT-A
* * * * * *
40689 GATG-AAA-TTGACAAGTGAATATGTTGAAGA-GGTTG-CCTAAAACAAAATCGATCAA-TCAAC
193 G-GGCAAACCTGACAAGTCAACATGTT-AAAATGGTTGATC-AAAACAAAATCGAT-AAGTCAAC
40749 AAGTTAAAAAGGTT
254 AAGTTAAAAAGGTT
40763 GGTCCGTATG
Statistics
Matches: 216, Mismatches: 44, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
287 17 0.08
288 128 0.59
289 70 0.32
290 1 0.00
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.22
Consensus pattern (288 bp):
TCAACAAAGAGTGACTAGGGTAAAACCCAACTCAAAATGGGCTGACCAGGGCGAAACTAATAAAT
TAACAAGTTAAAGAGGTTGACCAGAAAAAACTAACAAGTCAACAAGTTAAAAAGGTTGATCAAGA
CGAAACCAAGAAGTCAACAAAGAGTGACTAGGGTAAAACCTAAGCCAGAATAGGGTTGACTAGGG
CAAACCTGACAAGTCAACATGTTAAAATGGTTGATCAAAACAAAATCGATAAGTCAACAAGTTAA
AAAGGTTAATTAGGATCAAACTGAAAAA
Found at i:40994 original size:40 final size:40
Alignment explanation
Indices: 40950--41033 Score: 125
Period size: 40 Copynumber: 2.1 Consensus size: 40
40940 CAAAACTGAT
* *
40950 AAGTTAATAAGTTAAAG-AGGTTGACTGGGATGAAATCAAC
1 AAGTTAATAAATTAAAGTA-GTTGACTAGGATGAAATCAAC
*
40990 AAGTTAATAAATTAAAGTAGTTGACTAGGATGAAATCGAC
1 AAGTTAATAAATTAAAGTAGTTGACTAGGATGAAATCAAC
41030 AAGT
1 AAGT
41034 CAACAAAAGG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 39 0.98
41 1 0.03
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (40 bp):
AAGTTAATAAATTAAAGTAGTTGACTAGGATGAAATCAAC
Found at i:41284 original size:145 final size:145
Alignment explanation
Indices: 40978--41307 Score: 346
Period size: 145 Copynumber: 2.3 Consensus size: 145
40968 GGTTGACTGG
* * * * *
40978 GATGAAATCAACAAGTTAATAAATTAAAGTA-GTTGACTAGGATGAAATCGACAAGTCAACAAAA
1 GATGAAATCAACAAGTCAACAAGTTAAA-AAGGTTGATTAGGATGAAATCGACAAGTCAACAAAA
* * *
41042 GGTGATTAGGGTAAAACCAAAGCCAAAATAGGGTTGACCAAGGTGAAACTGATAAGTCAACAACT
65 GGTGACTAGGGTAAAACCAAAGCCAAAATAAGGTTGAACAAGGTGAAACTGATAAGTCAACAACT
*
41107 TAAAAGGGTTAAATAA
130 TAAAAGGGTTAAACAA
* * * *
41123 GA-CAAGATCAAGAAGTCAACAAGTTAAAAAGGTTGATTAGGATGAAATCGATAAGTCAA-TAAA
1 GATGAA-ATCAACAAGTCAACAAGTTAAAAAGGTTGATTAGGATGAAATCGACAAGTCAACAAAA
* * * * * * *
41186 GAGTGACTATGGTAAAACCCAAGTCAGAATAAGGTT-AACTAGG-GCATAACTGATATGTCAACT
65 G-GTGACTAGGGTAAAACCAAAGCCAAAATAAGGTTGAACAAGGTG-A-AACTGATAAGTCAACA
* * * *
41249 AGTTAAAAGGGTTTACCGA
127 ACTTAAAAGGGTTAAACAA
* *
41268 GATGAAATCGACAAGTCAACAAGTTAAAAAGATTGATTAG
1 GATGAAATCAACAAGTCAACAAGTTAAAAAGGTTGATTAG
41308 AACAAAACTG
Statistics
Matches: 151, Mismatches: 28, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
143 1 0.01
144 13 0.09
145 135 0.89
146 2 0.01
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.22
Consensus pattern (145 bp):
GATGAAATCAACAAGTCAACAAGTTAAAAAGGTTGATTAGGATGAAATCGACAAGTCAACAAAAG
GTGACTAGGGTAAAACCAAAGCCAAAATAAGGTTGAACAAGGTGAAACTGATAAGTCAACAACTT
AAAAGGGTTAAACAA
Found at i:41286 original size:185 final size:183
Alignment explanation
Indices: 41078--41768 Score: 504
Period size: 185 Copynumber: 3.8 Consensus size: 183
41068 AATAGGGTTG
* * * * * *
41078 ACCAAGGTGAAA-CTGATAAGTCAACAACTTAAAAGGGTTAAATAAGACAAGATCAAGAAGTCAA
1 ACCAAGATGAAATC-GACAAGTCAACAAGTTAAAAGGGTT-GAT-AGACAAGAACAAGAAGTCTA
* * **
41142 CAAGTTAAAAAGGTTGATTAGGATGAAATCGATAAGTCAATAAAGAGTGACTATGGTAAAACCCA
63 CAAGTTAAAGAGGTTGATCAGGAAAAAATCGATAAGTCAATAAAGAGTGACTATGGTAAAACCCA
* * * **
41207 AGTCAGAATAAGGTTAACTAGGGCATAACTGATATGTCAACTAGTTAAAAGGGTTT
128 AGTCAGAATAGGGTTAACTAGGGCATAACTAATATGTCAACAAGTTAAAAAAGTTT
* * * * * *
41263 ACCGAGATGAAATCGACAAGTCAACAAGTTAAAAAGATTGATTAGAACAA-AACTGACAAGTTTA
1 ACCAAGATGAAATCGACAAGTCAACAAGTTAAAAGGGTTGA-TAG-ACAAGAAC-AAGAAGTCTA
* * * * *
41327 CAAGTTAAAGAGGTTGATCGGGAAAAAATCAACAAATCAACAAAGAGTGACT-TGGGTAAAACCC
63 CAAGTTAAAGAGGTTGATCAGGAAAAAATCGATAAGTCAATAAAGAGTGACTAT-GGTAAAACCC
* *
41391 AAGTCAGAATAGGGATAACTAGGGCA-ACACTAACATG-CTAACAAGTTAAAAAAGTTT
127 AAGTCAGAATAGGGTTAACTAGGGCATA-ACTAATATGTC-AACAAGTTAAAAAAGTTT
* * ** * * **
41448 ACCAAGATGATATTGACAACACAACAAGTT-AAAGAGGTTGATCGAGAAGAAACTGGCAAGTCTA
1 ACCAAGATGAAATCGACAAGTCAACAAGTTAAAAG-GGTTGATAGACAAG-AACAAG-AAGTCTA
** * * *
41512 CAAGTTAAAGAGGTTGATCAGGGCAAAATCGATAAGTCAACTAAA-AGTTACTAGGGTAAAACCT
63 CAAGTTAAAGAGGTTGATCAGGAAAAAATCGATAAGTCAA-TAAAGAGTGACTATGGTAAAACCC
* * * * *
41576 AACTGAGAATAGGGTTGA-TCAGGGCATAACCAATAAGTCAACAAGTT---AAA---T
127 AAGTCAGAATAGGGTTAACT-AGGGCATAACTAATATGTCAACAAGTTAAAAAAGTTT
* * * * * * * *
41627 A--GAGATGAAA-CTAACAAGTCAACATGTTAAAAAGTTTGACAAGGACAA-AACTAACAAGTCA
1 ACCAAGATGAAATC-GACAAGTCAACAAGTTAAAAGGGTTGA-TA-GACAAGAAC-AAGAAGTCT
* * * * * * * *
41688 ACAAGTTAAATAGGTTGATGA-GACAAAATTGACAAGTCAACAAAGAAG-GAATAGGGTAAAACC
62 ACAAGTTAAAGAGGTTGATCAGGAAAAAATCGATAAGTCAATAAAG-AGTGACTATGGTAAAACC
*
41751 CAAGTTAGAATAGGGTTA
126 CAAGTCAGAATAGGGTTA
41769 GCCAAGGCAA
Statistics
Matches: 397, Mismatches: 86, Indels: 55
0.74 0.16 0.10
Matches are distributed among these distances:
175 3 0.01
176 43 0.11
177 53 0.13
178 3 0.01
179 6 0.02
182 3 0.01
183 3 0.01
184 14 0.04
185 263 0.66
186 6 0.02
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (183 bp):
ACCAAGATGAAATCGACAAGTCAACAAGTTAAAAGGGTTGATAGACAAGAACAAGAAGTCTACAA
GTTAAAGAGGTTGATCAGGAAAAAATCGATAAGTCAATAAAGAGTGACTATGGTAAAACCCAAGT
CAGAATAGGGTTAACTAGGGCATAACTAATATGTCAACAAGTTAAAAAAGTTT
Found at i:41724 original size:39 final size:40
Alignment explanation
Indices: 41634--41730 Score: 124
Period size: 40 Copynumber: 2.5 Consensus size: 40
41624 AATAGAGATG
* *
41634 AAACTAACAAGTCAACATGTTAAAAAGTTTGACAAGGACA
1 AAACTAACAAGTCAACAAGTTAAAAAGGTTGACAAGGACA
* **
41674 AAACTAACAAGTCAACAAGTTAAATAGGTTGATGA-GACA
1 AAACTAACAAGTCAACAAGTTAAAAAGGTTGACAAGGACA
* *
41713 AAATTGACAAGTCAACAA
1 AAACTAACAAGTCAACAA
41731 AGAAGGAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 20 0.40
40 30 0.60
ACGTcount: A:0.51, C:0.14, G:0.15, T:0.20
Consensus pattern (40 bp):
AAACTAACAAGTCAACAAGTTAAAAAGGTTGACAAGGACA
Found at i:41953 original size:143 final size:145
Alignment explanation
Indices: 41673--41987 Score: 323
Period size: 143 Copynumber: 2.2 Consensus size: 145
41663 TGACAAGGAC
* ** * * *
41673 AAAACTAACAAGTCAACAAGTTAAATAGGTTGAT-GAGACAAAATTGACAAGTCAACAAAGAAGG
1 AAAAC-AACAAGTCAACAAGTTAAAGAAATTGATAGGGATAAAACTGACAAGTCAACAAAGAAGG
* ** ** * * *
41737 AATAGGGTAAAACCCAAGTTAGAATAGGGTTAGCCAAGGCAAAATTGATAAGTCGATAGGTTAAA
65 AACAGGGTAAAACCCAAGCCAGAATAGGGTTAGCCAAGGCAAAACCGATAAGTCAACAAGTTAAA
* ** *
41802 GAGGTTGA-CTAGATG
130 AAAATTGACCGAGATG
* * * * * *
41817 AAACCAAGAGGTTAACAAGTTAAAGAAATTGATAGGGATAAAACTGATAAGTCAACAAAG-AGTA
1 AAAACAACAAGTCAACAAGTTAAAGAAATTGATAGGGATAAAACTGACAAGTCAACAAAGAAGGA
* * **
41881 ACGGGGTAAAACCTAAGCCAGAATAGGGTT-GACCAAGGTGAAACCGATAAGTCAACAAGTTAAA
66 ACAGGGTAAAACCCAAGCCAGAATAGGGTTAG-CCAAGGCAAAACCGATAAGTCAACAAGTTAAA
41945 AAAATTGACCGAGATG
130 AAAATTGACCGAGATG
*
41961 AAAACAACAAGTCAACAAGTTGAAGAA
1 AAAACAACAAGTCAACAAGTTAAAGAA
41988 GATAATCAAG
Statistics
Matches: 135, Mismatches: 33, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
142 1 0.01
143 80 0.59
144 54 0.40
ACGTcount: A:0.47, C:0.12, G:0.23, T:0.18
Consensus pattern (145 bp):
AAAACAACAAGTCAACAAGTTAAAGAAATTGATAGGGATAAAACTGACAAGTCAACAAAGAAGGA
ACAGGGTAAAACCCAAGCCAGAATAGGGTTAGCCAAGGCAAAACCGATAAGTCAACAAGTTAAAA
AAATTGACCGAGATG
Found at i:42607 original size:40 final size:40
Alignment explanation
Indices: 42551--42693 Score: 144
Period size: 40 Copynumber: 3.5 Consensus size: 40
42541 AGTAAAACCT
* *
42551 AAGTTAGAAAAGGTTGA-CTAAGGCAAAATCGATAAGTCAAG
1 AAGTTA-AAAAGGTTGATC-AAGACAAAATCGATAAGTCAAC
*
42592 AAGTTAAAAAGGTTGATCAAGACAAAATTGATAAGTCAAC
1 AAGTTAAAAAGGTTGATCAAGACAAAATCGATAAGTCAAC
* * ** ** * **
42632 AAGTTAAAGAGGTTGATCGAGATGAAATTAACAAGTTTAC
1 AAGTTAAAAAGGTTGATCAAGACAAAATCGATAAGTCAAC
*
42672 AAGTTGAAAAGGTTGATCAAGA
1 AAGTTAAAAAGGTTGATCAAGA
42694 TAGAATAAAC
Statistics
Matches: 87, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
40 80 0.92
41 7 0.08
ACGTcount: A:0.46, C:0.08, G:0.22, T:0.23
Consensus pattern (40 bp):
AAGTTAAAAAGGTTGATCAAGACAAAATCGATAAGTCAAC
Found at i:42705 original size:40 final size:39
Alignment explanation
Indices: 42584--42713 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
42574 CAAAATCGAT
* * * * *
42584 AAGTCAAGAAGTTAAAAAGGTTGATCAAGACAAAATTGAT
1 AAGTCAACAAGTT-AAAAGGTTGATCAAGATAGAATTAAC
*
42624 AAGTCAACAAGTTAAAGAGGTTGATCGAGAT-GAAATTAAC
1 AAGTCAACAAGTTAAA-AGGTTGATCAAGATAG-AATTAAC
** *
42664 AAGTTTACAAGTTGAAAAGGTTGATCAAGATAGAATAAAC
1 AAGTCAACAAGTT-AAAAGGTTGATCAAGATAGAATTAAC
42704 AAGTCAACAA
1 AAGTCAACAA
42714 AAAGTTACTA
Statistics
Matches: 74, Mismatches: 12, Indels: 8
0.79 0.13 0.09
Matches are distributed among these distances:
39 3 0.04
40 67 0.91
41 4 0.05
ACGTcount: A:0.48, C:0.09, G:0.20, T:0.22
Consensus pattern (39 bp):
AAGTCAACAAGTTAAAAGGTTGATCAAGATAGAATTAAC
Found at i:42971 original size:40 final size:41
Alignment explanation
Indices: 42925--43053 Score: 131
Period size: 40 Copynumber: 3.2 Consensus size: 41
42915 AAGTAAGAAT
42925 AAGGTTGACTAGAG-C-AATACCGATAAGTCAACAAGTTAAA
1 AAGGTTGACTAGAGACGAA-ACCGATAAGTCAACAAGTTAAA
* *
42965 AAGGTTGAC-CGAGACGAAATCGATAAGTCAACAAGTTAAA
1 AAGGTTGACTAGAGACGAAACCGATAAGTCAACAAGTTAAA
* * * * ** * *
43005 GAGGTTGACTA-AAATGAAATCGACCAGGCAACAAATTAAA
1 AAGGTTGACTAGAGACGAAACCGATAAGTCAACAAGTTAAA
43045 AAGGTTGAC
1 AAGGTTGAC
43054 CAGGATGAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
39 3 0.04
40 70 0.93
41 2 0.03
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.19
Consensus pattern (41 bp):
AAGGTTGACTAGAGACGAAACCGATAAGTCAACAAGTTAAA
Found at i:43070 original size:32 final size:33
Alignment explanation
Indices: 43034--43098 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
43024 TCGACCAGGC
** *
43034 AACAAATTAA-AAAGGTTGACCAGGATGAAACT
1 AACAAATTAACAAAGAATGACCAGGATAAAACT
*
43066 AACAAATTAACAAAGAATGACTAGGATAAAACT
1 AACAAATTAACAAAGAATGACCAGGATAAAACT
43099 TATGTTAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 10 0.36
33 18 0.64
ACGTcount: A:0.54, C:0.12, G:0.15, T:0.18
Consensus pattern (33 bp):
AACAAATTAACAAAGAATGACCAGGATAAAACT
Found at i:43323 original size:39 final size:40
Alignment explanation
Indices: 43231--43329 Score: 137
Period size: 40 Copynumber: 2.5 Consensus size: 40
43221 CTGACCATGG
* * *
43231 TGAAATTGATAAGTTAACAAGTTAAAGAGGTTGATCGAGA
1 TGAAACTGATAAGTCAACAAGTTAAAAAGGTTGATCGAGA
* * *
43271 TGAAACTAATAAGTCAATAAGTTAAAAAGGTTGATTG-GA
1 TGAAACTGATAAGTCAACAAGTTAAAAAGGTTGATCGAGA
43310 TGAAACTGATAAGTCAACAA
1 TGAAACTGATAAGTCAACAA
43330 AGAGTGAGTG
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 20 0.39
40 31 0.61
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.26
Consensus pattern (40 bp):
TGAAACTGATAAGTCAACAAGTTAAAAAGGTTGATCGAGA
Found at i:43439 original size:40 final size:40
Alignment explanation
Indices: 43384--43473 Score: 144
Period size: 40 Copynumber: 2.2 Consensus size: 40
43374 TATAACTAAT
* *
43384 AAGTCAACAAGTTAAAGAGGTTGGCCGAGATGAAATCAAC
1 AAGTCAACAAGTTAAAGAGGTTGACCGAGATGAAACCAAC
* *
43424 AAGTCAACAAGTTAAAGAGGTTGATCGGGATGAAACCAAC
1 AAGTCAACAAGTTAAAGAGGTTGACCGAGATGAAACCAAC
43464 AAGTCAACAA
1 AAGTCAACAA
43474 AGAGTGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.44, C:0.16, G:0.23, T:0.17
Consensus pattern (40 bp):
AAGTCAACAAGTTAAAGAGGTTGACCGAGATGAAACCAAC
Found at i:43654 original size:40 final size:40
Alignment explanation
Indices: 43528--43657 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 40
43518 CGAAATTGTT
* * * *
43528 AAGTCAACAAGTTAAAAAGGTTAACTAGCATGAAATCGAC
1 AAGTCAACAAGTTAAAGAGGTTGACTAGGATAAAATCGAC
* * * *
43568 AAGTCAACAAGTTAAAGATGTTGACTAAGACTAAACT-AAC
1 AAGTCAACAAGTTAAAGAGGTTGACTAGGA-TAAAATCGAC
* *
43608 AAGTCAACAAGTTAAAGAGGTTGATTGGGATAAAATCGAC
1 AAGTCAACAAGTTAAAGAGGTTGACTAGGATAAAATCGAC
*
43648 AGGTCAACAA
1 AAGTCAACAA
43658 AAGTGAATGG
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
39 5 0.07
40 64 0.88
41 4 0.05
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (40 bp):
AAGTCAACAAGTTAAAGAGGTTGACTAGGATAAAATCGAC
Found at i:43704 original size:184 final size:184
Alignment explanation
Indices: 43384--43715 Score: 413
Period size: 184 Copynumber: 1.8 Consensus size: 184
43374 TATAACTAAT
* *
43384 AAGTCAACAAGTTAAAGAGGTTGGCCGAGATGAAATCAACAAGTCAACAAGTTAAAGAGGTTGAT
1 AAGTCAACAAGTTAAAGAGGTTGACCAAGATGAAATCAACAAGTCAACAAGTTAAAGAGGTTGAT
* * * * * *
43449 CGGGATGAAACCAACAAGTCAACAAAGAGTGACTAAGGTAAAACCCTAGTTATAATAGGATGATC
66 CGGGATAAAACCAACAAGTCAACAAAGAGTGAATAAGGTAAAACCCAAGTAAAAATAAGATGATC
* *
43514 AAGGCGAAATTGTTAAGTCAACAAGTTAAAAAGGTTAACTAGCATGAAATCGAC
131 AAGGCGAAACTGATAAGTCAACAAGTTAAAAAGGTTAACTAGCATGAAATCGAC
* *
43568 AAGTCAACAAGTTAAAGATGTTGACTAAGACT-AAA-CTAACAAGTCAACAAGTTAAAGAGGTTG
1 AAGTCAACAAGTTAAAGAGGTTGACCAAGA-TGAAATC-AACAAGTCAACAAGTTAAAGAGGTTG
* * * * * * *
43631 ATTGGGATAAAATCGACAGGTCAACAAA-AGTGAAT-GGGCTAAAAGCCAAGTAAAAATAAAGTT
64 ATCGGGATAAAACCAACAAGTCAACAAAGAGTGAATAAGG-TAAAACCCAAGTAAAAAT-AAGAT
43694 GA-CAAAGGCGAAACTGATAAGT
127 GATC-AAGGCGAAACTGATAAGT
43716 GAGCAACTTA
Statistics
Matches: 124, Mismatches: 19, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
182 2 0.02
183 22 0.18
184 99 0.80
185 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.22, T:0.20
Consensus pattern (184 bp):
AAGTCAACAAGTTAAAGAGGTTGACCAAGATGAAATCAACAAGTCAACAAGTTAAAGAGGTTGAT
CGGGATAAAACCAACAAGTCAACAAAGAGTGAATAAGGTAAAACCCAAGTAAAAATAAGATGATC
AAGGCGAAACTGATAAGTCAACAAGTTAAAAAGGTTAACTAGCATGAAATCGAC
Found at i:43877 original size:40 final size:40
Alignment explanation
Indices: 43833--43927 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 40
43823 TAATCGATAT
* * *
43833 GTCAACAAGTTAAAAAGGTTTATCGAGATAAAACTGACAA
1 GTCAACAAGTTAAAAAGGTTGATCAAGATAAAACTAACAA
* * *
43873 GTCAAGATA-TTAAAGAGGTTGATCAAGATAAAACTAATAA
1 GTCAACA-AGTTAAAAAGGTTGATCAAGATAAAACTAACAA
* *
43913 ATCTACAAGTTAAAA
1 GTCAACAAGTTAAAA
43928 GGGTCGACCG
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
39 1 0.02
40 41 0.95
41 1 0.02
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24
Consensus pattern (40 bp):
GTCAACAAGTTAAAAAGGTTGATCAAGATAAAACTAACAA
Found at i:44094 original size:185 final size:185
Alignment explanation
Indices: 43762--44112 Score: 397
Period size: 185 Copynumber: 1.9 Consensus size: 185
43752 CAGATGAAAC
* * * * **
43762 CGATAAGTCAACAAAGAGTGACTAAGGTAACACTCAAGTCAGAATAGGGTTGACTAGAGCGTAAT
1 CGATAAATCAACAAAGAGTGACTAAGGGAACAATCAAGTCAGAATAAGGTTGACTAGAGCAAAAT
* * * *
43827 CGATATGTCAACAAGTTAAAAAGGTTTATCGAGATAAAACTGACAAGTCAAGATATTAAAGAGGT
66 CGATATGTCAACAAGTTAAAAAGGTTGATCAAGATAAAACTGACAAATCAAGATATTAAAAAGGT
*
43892 TGATCAAGATAAAACTAATAAATCTACAAGTTAAAAGGGTCGACCGAGACAAAAT
131 TGATCAAGATAAAACTAACAAATCTACAAGTTAAAAGGGTCGACCGAGACAAAAT
* * *
43947 CGATAAATCAACAAAGAGTGATTAAGGGAA-AATAGAAGTCA-AAGTAAGGTTGACTCGAGCAAA
1 CGATAAATCAACAAAGAGTGACTAAGGGAACAAT-CAAGTCAGAA-TAAGGTTGACTAGAGCAAA
* * * * * *
44010 ATCGATATGTGAACAAGTTAACAAGGTTGA-CTAAGATGATATTGACAAATCAATA-AGTTAAAA
64 ATCGATATGTCAACAAGTTAAAAAGGTTGATC-AAGATAAAACTGACAAATCAAGATA-TTAAAA
* * * * *
44073 AGGTTGAT-TAGAATGAAACTAACAAGTTTGCAAGTTAAAA
127 AGGTTGATCAAG-ATAAAACTAACAAATCTACAAGTTAAAA
44113 AGGTTAAGCA
Statistics
Matches: 136, Mismatches: 25, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
184 8 0.06
185 128 0.94
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.23
Consensus pattern (185 bp):
CGATAAATCAACAAAGAGTGACTAAGGGAACAATCAAGTCAGAATAAGGTTGACTAGAGCAAAAT
CGATATGTCAACAAGTTAAAAAGGTTGATCAAGATAAAACTGACAAATCAAGATATTAAAAAGGT
TGATCAAGATAAAACTAACAAATCTACAAGTTAAAAGGGTCGACCGAGACAAAAT
Found at i:47314 original size:20 final size:19
Alignment explanation
Indices: 47274--47325 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
47264 TTGGGACAAC
47274 GTATCGATACAATTCTTCAT
1 GTATCGATACAATTC-TCAT
47294 GTATCGATACAATATGC-CAT
1 GTATCGATACAAT-T-CTCAT
*
47314 GTATCAATACAA
1 GTATCGATACAA
47326 ATAGTAGTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 27 0.93
21 1 0.03
22 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.33
Consensus pattern (19 bp):
GTATCGATACAATTCTCAT
Found at i:54114 original size:16 final size:16
Alignment explanation
Indices: 54093--54126 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
54083 TCTTTTTATG
54093 TCTTAGGTTCATGGTT
1 TCTTAGGTTCATGGTT
54109 TCTTAGGTTCATGGTT
1 TCTTAGGTTCATGGTT
54125 TC
1 TC
54127 GAATTCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.15, G:0.24, T:0.50
Consensus pattern (16 bp):
TCTTAGGTTCATGGTT
Found at i:55618 original size:19 final size:19
Alignment explanation
Indices: 55596--55634 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
55586 TTTACCTTTT
55596 AGGAAAGGTATAACCTTAC
1 AGGAAAGGTATAACCTTAC
*
55615 AGGAGAGGTATAACCTTAC
1 AGGAAAGGTATAACCTTAC
55634 A
1 A
55635 ACACTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (19 bp):
AGGAAAGGTATAACCTTAC
Found at i:57469 original size:51 final size:51
Alignment explanation
Indices: 57353--57517 Score: 253
Period size: 51 Copynumber: 3.3 Consensus size: 51
57343 ATTTAACTAG
* * *
57353 ATGTATCAATACATTGAAGAATGTATCGATACATTGGGTC-AAAACCCAGA
1 ATGTATCAATACAATGAAGAATGTATCGATACATTTGGACAAAAACCCAGA
*
57403 ATGTAT-AATTACAATGAAGAATGTATCGATACATTTGGACAAAAACCTAGA
1 ATGTATCAA-TACAATGAAGAATGTATCGATACATTTGGACAAAAACCCAGA
* *
57454 ATGTATCATTACAATGAAGAATGTATCGATATATTTGGACAAAAACCCAGA
1 ATGTATCAATACAATGAAGAATGTATCGATACATTTGGACAAAAACCCAGA
57505 ATGTATCAATACA
1 ATGTATCAATACA
57518 TTTTCTTTCC
Statistics
Matches: 104, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
49 2 0.02
50 34 0.33
51 67 0.64
52 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (51 bp):
ATGTATCAATACAATGAAGAATGTATCGATACATTTGGACAAAAACCCAGA
Found at i:57923 original size:40 final size:39
Alignment explanation
Indices: 57860--57962 Score: 134
Period size: 39 Copynumber: 2.6 Consensus size: 39
57850 CAAAACTAAT
* * * *
57860 AAGTCAACAAGTTAAAAAGGTTGACCAAGATGAAATTTAC
1 AAGTAAACAAGTTAAAGAGGTTGACAAAGA-GAAATTGAC
* *
57900 AAGTAAATAAGTTAAAGAGGTTGATAAAGAGAAATTGAC
1 AAGTAAACAAGTTAAAGAGGTTGACAAAGAGAAATTGAC
*
57939 AAGTCAACAAGTTAAAGAGGTTGA
1 AAGTAAACAAGTTAAAGAGGTTGA
57963 TTGAGATGAA
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 30 0.55
40 25 0.45
ACGTcount: A:0.49, C:0.08, G:0.21, T:0.22
Consensus pattern (39 bp):
AAGTAAACAAGTTAAAGAGGTTGACAAAGAGAAATTGAC
Found at i:57985 original size:40 final size:40
Alignment explanation
Indices: 57860--57988 Score: 161
Period size: 40 Copynumber: 3.2 Consensus size: 40
57850 CAAAACTAAT
* ** *
57860 AAGTCAACAAGTTAAAAAGGTTGACCAAGATGAAATTTAC
1 AAGTCAACAAGTTAAAGAGGTTGATAAAGATGAAATTGAC
* *
57900 AAGTAAATAAGTTAAAGAGGTTGATAAAGA-GAAATTGAC
1 AAGTCAACAAGTTAAAGAGGTTGATAAAGATGAAATTGAC
** *
57939 AAGTCAACAAGTTAAAGAGGTTGATTGAGATGAAATCGAC
1 AAGTCAACAAGTTAAAGAGGTTGATAAAGATGAAATTGAC
*
57979 ATGTCAACAA
1 AAGTCAACAA
57989 AGAGTTAAGA
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
39 34 0.45
40 42 0.55
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.22
Consensus pattern (40 bp):
AAGTCAACAAGTTAAAGAGGTTGATAAAGATGAAATTGAC
Found at i:58131 original size:105 final size:104
Alignment explanation
Indices: 57939--58195 Score: 284
Period size: 105 Copynumber: 2.4 Consensus size: 104
57929 AGAAATTGAC
* * * * *
57939 AAGTCAACAAGTTAAAGAGGTTGATTGAGATGAAATCGACATGTCAACAAAGAGTTAAGAGGGTA
1 AAGTCAACAAGTTAAAAAGGTTGACTGGGATGAAAT-GACAAGTCAACAAAGAGTGAAGAGGGTA
* * * **
58004 AAATCCAAGTCAGAATAGGGTTGACTAAGGTGAAACCAAT
65 AAACCCAAGTCAGAAAAAGGTTGACTAAGGCAAAACCAAT
* * * * *
58044 AAGTCAACAACTTAAAAAGGTTAAGTGGGATGAAACTGACAAGTCAACAAAGAGTGACTG-GTGT
1 AAGTCAACAAGTTAAAAAGGTTGACTGGGATGAAA-TGACAAGTCAACAAAGAGTGA-AGAGGGT
* **
58108 AAAACCCATG-CTAGAAAAAGGTTGACTAAGGCAAAACTGAT
64 AAAACCCAAGTC-AGAAAAAGGTTGACTAAGGCAAAACCAAT
*
58149 AAGTTAACAAGTTAAAAAGGTTGACTGGGATGAAATTGACAAGTCAA
1 AAGTCAACAAGTTAAAAAGGTTGACTGGGATGAAA-TGACAAGTCAA
58196 TAAGTTAAAA
Statistics
Matches: 127, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
104 1 0.01
105 124 0.98
106 2 0.02
ACGTcount: A:0.44, C:0.12, G:0.24, T:0.21
Consensus pattern (104 bp):
AAGTCAACAAGTTAAAAAGGTTGACTGGGATGAAATGACAAGTCAACAAAGAGTGAAGAGGGTAA
AACCCAAGTCAGAAAAAGGTTGACTAAGGCAAAACCAAT
Found at i:58892 original size:40 final size:40
Alignment explanation
Indices: 58806--58895 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
58796 TAAAACCGAT
** * *
58806 AAGTCAACAAGTTAAAGAGGTTAACCAGGATGAAATCGAT
1 AAGTCAACAAGTTAAAGAGGTTAACCAAAACGAAATCGAC
* * *
58846 AGGTCAACAAGTTAAAGAGGTTGACTAAAACGAAA-CTGAC
1 AAGTCAACAAGTTAAAGAGGTTAACCAAAACGAAATC-GAC
58886 AAGTCAACAA
1 AAGTCAACAA
58896 AGAGTGACTA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
39 1 0.02
40 40 0.98
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.18
Consensus pattern (40 bp):
AAGTCAACAAGTTAAAGAGGTTAACCAAAACGAAATCGAC
Found at i:58895 original size:144 final size:143
Alignment explanation
Indices: 58557--58914 Score: 398
Period size: 143 Copynumber: 2.5 Consensus size: 143
58547 GATGAAACTG
* * * * * * *
58557 ACAAGTCAATAAGTTAAAGAGGTTGACTGAAACGAAGTTGACAAGTGAACAAAGATTGGCTAAGG
1 ACAAGTCAACAAGTTAAAGAGGTTGACTAAAACGAAGCTGACAAGTCAACAAAGAGTGACTAGGG
* * * * * *
58622 TAAAACCTAAGTCAGAATGGGTTTACTAGGGCGAAACTGATAAGTCAACAAGGTAAGGAGGTGAC
66 TAAAACCTAAGCCAGAATAGGTTTACTAGGGCAAAACCGATAAGTCAACAAGGTAAAGAGGTAAC
58687 CAGGACGAAACCA
131 CAGGACGAAACCA
* * * * *
58700 ACAAGTCAACAAGTTAAAGAGATTGA-TAAGGATGAAGCTGACAAGTCAACAAAGAGCGATTAGG
1 ACAAGTCAACAAGTTAAAGAGGTTGACTAA-AACGAAGCTGACAAGTCAACAAAGAGTGACTAGG
* * * *
58764 GTAAAATCC-AAGCCTGAATAAGG-TTATTAGGGTAAAACCGATAAGTCAACAAGTTAAAGAGGT
65 GTAAAA-CCTAAGCCAGAAT-AGGTTTACTAGGGCAAAACCGATAAGTCAACAAGGTAAAGAGG-
* * *
58827 TAACCAGGATGAAATCG
127 TAACCAGGACGAAACCA
* * * *
58844 ATAGGTCAACAAGTTAAAGAGGTTGACTAAAACGAAACTGACAAGTCAACAAAGAGTGACTAGAG
1 ACAAGTCAACAAGTTAAAGAGGTTGACTAAAACGAAGCTGACAAGTCAACAAAGAGTGACTAGGG
58909 TAAAAC
66 TAAAAC
58915 TAAATTCATA
Statistics
Matches: 176, Mismatches: 34, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
142 2 0.01
143 97 0.55
144 74 0.42
145 3 0.02
ACGTcount: A:0.44, C:0.14, G:0.24, T:0.18
Consensus pattern (143 bp):
ACAAGTCAACAAGTTAAAGAGGTTGACTAAAACGAAGCTGACAAGTCAACAAAGAGTGACTAGGG
TAAAACCTAAGCCAGAATAGGTTTACTAGGGCAAAACCGATAAGTCAACAAGGTAAAGAGGTAAC
CAGGACGAAACCA
Found at i:62460 original size:171 final size:166
Alignment explanation
Indices: 62087--62532 Score: 533
Period size: 171 Copynumber: 2.7 Consensus size: 166
62077 AAATCGAATT
* * ** * *
62087 TTATG-AAATAAATTGAA-TTTTCAAAATTGATTTAATGGAAGTCT-AATGA-GAATATTAGATG
1 TTATGAAAATAAA-TGAATTTTTCAAAAATGATTTACTATAAAT-TAAATGATG-ATATTTGATG
* ** * * * *
62148 AATTTTAAAAATTTTAAACTGAGAAAAATCCCCCCAAAAATATTTATAGAGTAGAAAACTTAGTT
63 AATTTTAAAAATTATAAACCAAGAAAAATCCCCCCGAAAATATTTACAGAGTAGAAAACTAACTT
* *
62213 TTTCAAAACAAGAAAATTTCTAACAAAAAAATGAAAAAC
128 TTTCAAAACAAGAAAATTTCAAACAAAAAAATAAAAAAC
* * *
62252 TTATCAAAATAAATGAATTTTTTAAAAATGATTTACTATAAATTAAATGATGATATTTGATAAAT
1 TTATGAAAATAAATGAATTTTTCAAAAATGATTTACTATAAATTAAATGATGATATTTGATGAAT
* * *
62317 TTTAAAAATTATAAACCAAGAAAAATCCCCCCGAAAATATTTACGGAGTTGCAAACTAACTCCAT
66 TTTAAAAATTATAAACCAAGAAAAATCCCCCCGAAAATATTTACAGAGTAGAAAACTAACT---T
* *
62382 ATTTCAAAA-ACAGAAGAATTTCAAAGAAAAAATTAAAAAAC
128 -TTTCAAAACA-AGAA-AATTTCAAACAAAAAAATAAAAAAC
* *
62423 TTATGAAAATAAATGAATTTTTCAAAACTGATTTACTATCAATTAAATGATGATATTTGATGAAT
1 TTATGAAAATAAATGAATTTTTCAAAAATGATTTACTATAAATTAAATGATGATATTTGATGAAT
* *
62488 TTTAAAAATTATATACCAAGAAAAATCCCCCCGAAAACATTTACA
66 TTTAAAAATTATAAACCAAGAAAAATCCCCCCGAAAATATTTACA
62533 TTGTAGCAAA
Statistics
Matches: 240, Mismatches: 31, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
165 9 0.04
166 93 0.39
167 1 0.00
169 2 0.01
170 12 0.05
171 123 0.51
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.31
Consensus pattern (166 bp):
TTATGAAAATAAATGAATTTTTCAAAAATGATTTACTATAAATTAAATGATGATATTTGATGAAT
TTTAAAAATTATAAACCAAGAAAAATCCCCCCGAAAATATTTACAGAGTAGAAAACTAACTTTTT
CAAAACAAGAAAATTTCAAACAAAAAAATAAAAAAC
Found at i:62995 original size:83 final size:83
Alignment explanation
Indices: 62845--62997 Score: 186
Period size: 83 Copynumber: 1.8 Consensus size: 83
62835 AGTTTGACCT
* * *
62845 GGTCCTAATGCCAATATAATCAAACGAAGGTGGAAAGAGTTTGATCAGTATTAATGCTAATACAG
1 GGTCCTAATGCCAATATAATCAAACGAAGGTGGAAAGAGTTTGACCAGTACTAACGCTAATACAG
62910 CCAAACAAAGGAAAACCA
66 CCAAACAAAGGAAAACCA
* * * *
62928 GGTCTTAATGCCAATATAGTCAAACGAGGGTGAGAAA-CGTTTGACCAAG-ACTAACG-TCAATA
1 GGTCCTAATGCCAATATAATCAAACGAAGGTG-GAAAGAGTTTGACC-AGTACTAACGCT-AATA
*
62990 TAGCCAAA
63 CAGCCAAA
62998 TGAAGAAAGA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
82 1 0.02
83 52 0.88
84 6 0.10
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.21
Consensus pattern (83 bp):
GGTCCTAATGCCAATATAATCAAACGAAGGTGGAAAGAGTTTGACCAGTACTAACGCTAATACAG
CCAAACAAAGGAAAACCA
Found at i:65129 original size:17 final size:19
Alignment explanation
Indices: 65102--65138 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
65092 TTTTAATTCC
65102 TTTCATTC-TTTTCTTTTT
1 TTTCATTCTTTTTCTTTTT
65120 TTTC-TTCTTTTTCTTTTT
1 TTTCATTCTTTTTCTTTTT
65138 T
1 T
65139 CCATTTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTCATTCTTTTTCTTTTT
Found at i:67077 original size:13 final size:13
Alignment explanation
Indices: 67059--67084 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
67049 ATATTTGGTC
67059 ATGTATCGATACA
1 ATGTATCGATACA
67072 ATGTATCGATACA
1 ATGTATCGATACA
67085 TCTTGTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:67100 original size:32 final size:36
Alignment explanation
Indices: 67034--67104 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 36
67024 CGTTACAAGC
*
67034 CAATGTATCGATACGATATTTGGTCATGTATCGATA
1 CAATGTATCGATACGATACTTGGTCATGTATCGATA
67070 CAATGTATCGATAC-AT-CTT-GT-ATGTATCGATA
1 CAATGTATCGATACGATACTTGGTCATGTATCGATA
67102 CAA
1 CAA
67105 ACAGTTAAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
32 14 0.41
33 2 0.06
34 2 0.06
35 2 0.06
36 14 0.41
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.35
Consensus pattern (36 bp):
CAATGTATCGATACGATACTTGGTCATGTATCGATA
Found at i:67202 original size:13 final size:13
Alignment explanation
Indices: 67184--67208 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67174 TACAGTGGTC
67184 ATGTATCGATACA
1 ATGTATCGATACA
67197 ATGTATCGATAC
1 ATGTATCGATAC
67209 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:67226 original size:33 final size:32
Alignment explanation
Indices: 67167--67229 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
67157 ATTTTTGCAA
*
67167 GTATCGATACAGTGGTCATGTATCGATACAAT
1 GTATCGATACAGTGATCATGTATCGATACAAT
* *
67199 GTATCGATACTGTGCATTATGTATCGATACA
1 GTATCGATACAGTG-ATCATGTATCGATACA
67230 TCTGAAAGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (32 bp):
GTATCGATACAGTGATCATGTATCGATACAAT
Found at i:67914 original size:95 final size:92
Alignment explanation
Indices: 67750--67938 Score: 326
Period size: 95 Copynumber: 2.0 Consensus size: 92
67740 AAGATTTTTC
*
67750 ATTTTCCTTTTCTCTCCCCCTTAATCAAATAAAAAATTTCTCCTTCTTAATAAAACAATTTCCTT
1 ATTTTCCTTTTCTCTCCCCCTTAATCAAATAAAAAATTTCTCCTCCTTAATAAAACAATTTCCTT
67815 TAATCACATGTTTCTTTTTCCCCCTTA
66 TAATCACATGTTTCTTTTTCCCCCTTA
67842 ATTTTCCTTTTCTCTCCCCCTTAATCAAATAAAAAAAAAATTTCTCC-CCTTAATAAAACAATTT
1 ATTTTCCTTTTCTCTCCCCCTTAATCAAAT----AAAAAATTTCTCCTCCTTAATAAAACAATTT
67906 CCTTTAATCACATGTTTCTTTTTCCCCCTTA
62 CCTTTAATCACATGTTTCTTTTTCCCCCTTA
67937 AT
1 AT
67939 CATAAATTTA
Statistics
Matches: 92, Mismatches: 1, Indels: 5
0.94 0.01 0.05
Matches are distributed among these distances:
92 30 0.33
95 49 0.53
96 13 0.14
ACGTcount: A:0.29, C:0.27, G:0.01, T:0.43
Consensus pattern (92 bp):
ATTTTCCTTTTCTCTCCCCCTTAATCAAATAAAAAATTTCTCCTCCTTAATAAAACAATTTCCTT
TAATCACATGTTTCTTTTTCCCCCTTA
Found at i:69322 original size:20 final size:20
Alignment explanation
Indices: 69273--69345 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
69263 TCCCCGGTTA
69273 GCGACCTGGGAGTACCGATC
1 GCGACCTGGGAGTACCGATC
69293 GCGA-CTGGGAGTACCGATC
1 GCGACCTGGGAGTACCGATC
* *
69312 GCGACCTGGGAGTGCCGGTC
1 GCGACCTGGGAGTACCGATC
*
69332 GTGACCTGGTGAGT
1 GCGACCTGG-GAGT
69346 GCTGCCTAGA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
19 19 0.40
20 25 0.52
21 4 0.08
ACGTcount: A:0.16, C:0.26, G:0.40, T:0.18
Consensus pattern (20 bp):
GCGACCTGGGAGTACCGATC
Done.