Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 99 of 311
Found at i:32621868 original size:20 final size:20
Alignment explanation
Indices: 32621822--32621868 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
32621812 AGCTTGTTTC
*
32621822 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
32621842 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
32621862 CAGCTCA
1 CAGCTCA
32621869 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:32754089 original size:24 final size:25
Alignment explanation
Indices: 32754062--32754109 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
32754052 AAAAGTTTTG
32754062 AAAAAAAAA-TCGAAAAAAAAAAAA
1 AAAAAAAAATTCGAAAAAAAAAAAA
* *
32754086 AAAAAAAAATTTGCAAAAAAAAAA
1 AAAAAAAAATTCGAAAAAAAAAAA
32754110 TTGCATACGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.83, C:0.04, G:0.04, T:0.08
Consensus pattern (25 bp):
AAAAAAAAATTCGAAAAAAAAAAAA
Found at i:32754110 original size:39 final size:38
Alignment explanation
Indices: 32754032--32754108 Score: 102
Period size: 37 Copynumber: 2.0 Consensus size: 38
32754022 AATCGTAGCT
* **
32754032 TCGAAAAAAAAAGTTAAAAAAAAAGTTTTGAAAAAAAAA
1 TCGAAAAAAAAAG-AAAAAAAAAAAATTTGAAAAAAAAA
32754071 TCGAAAAAAAAA-AAAAAAAAAAAATTTGCAAAAAAAAA
1 TCGAAAAAAAAAGAAAAAAAAAAAATTTG-AAAAAAAAA
32754109 ATTGCATACG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
37 13 0.38
38 9 0.26
39 12 0.35
ACGTcount: A:0.74, C:0.04, G:0.08, T:0.14
Consensus pattern (38 bp):
TCGAAAAAAAAAGAAAAAAAAAAAATTTGAAAAAAAAA
Found at i:32756392 original size:24 final size:25
Alignment explanation
Indices: 32756365--32756418 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 25
32756355 ATGAGTGATA
*
32756365 AAAAAAGAGA-GAGTGATTCAAAA-G
1 AAAAAAGAAACGAGTGA-TCAAAATG
*
32756389 -AAAAAGAAACGAGTGATGAAAATG
1 AAAAAAGAAACGAGTGATCAAAATG
32756413 AAAAAA
1 AAAAAA
32756419 AGAATTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 13 0.52
24 7 0.28
25 5 0.20
ACGTcount: A:0.63, C:0.04, G:0.22, T:0.11
Consensus pattern (25 bp):
AAAAAAGAAACGAGTGATCAAAATG
Found at i:32772131 original size:12 final size:12
Alignment explanation
Indices: 32772115--32772186 Score: 74
Period size: 12 Copynumber: 5.8 Consensus size: 12
32772105 TTTTTGCTCG
32772115 ATTTTTTTTTCA
1 ATTTTTTTTTCA
* *
32772127 CTTTTTTTTTGA
1 ATTTTTTTTTCA
32772139 ATTTTTTTTTCA
1 ATTTTTTTTTCA
32772151 ATCAATTTTTTTTCGA
1 AT---TTTTTTTTC-A
*
32772167 ATTTTTTTTT-G
1 ATTTTTTTTTCA
32772178 ATTTTTTTT
1 ATTTTTTTT
32772187 GTTACTCCAA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
11 9 0.18
12 22 0.43
13 8 0.16
15 9 0.18
16 3 0.06
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (12 bp):
ATTTTTTTTTCA
Found at i:32775983 original size:20 final size:19
Alignment explanation
Indices: 32775943--32776003 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
32775933 ACCAATAAAA
32775943 TAAATGAGCT-GAATTGTAGC
1 TAAATGAGCTCG-ATTG-AGC
32775963 TAAATTGAGCTCGATTGAGC
1 TAAA-TGAGCTCGATTGAGC
* *
32775983 TGAAATAAGCTCAATTGAGC
1 T-AAATGAGCTCGATTGAGC
32776003 T
1 T
32776004 GGTCGGAGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
20 22 0.61
21 13 0.36
22 1 0.03
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (19 bp):
TAAATGAGCTCGATTGAGC
Found at i:32776003 original size:10 final size:10
Alignment explanation
Indices: 32775947--32776003 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
32775937 ATAAAATAAA
*
32775947 TGAGCTGAAT
1 TGAGCTCAAT
*
32775957 TGTAGCTAAAT
1 TG-AGCTCAAT
*
32775968 TGAGCTCGAT
1 TGAGCTCAAT
* *
32775978 TGAGCTGAAA
1 TGAGCTCAAT
*
32775988 TAAGCTCAAT
1 TGAGCTCAAT
32775998 TGAGCT
1 TGAGCT
32776004 GGTCGGAGTT
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
10 27 0.75
11 9 0.25
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.30
Consensus pattern (10 bp):
TGAGCTCAAT
Found at i:32778093 original size:33 final size:33
Alignment explanation
Indices: 32778031--32778093 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 33
32778021 GATTACTCAC
*
32778031 TTCACTCGTTTCTTTTATAGACTCTCTTTCTTT
1 TTCACTCGTTTCTTTTATAGACTCCCTTTCTTT
*
32778064 TTCACTTGATTTCTTTTCA-AG-CTCCCTTTC
1 TTCACTCG-TTTCTTTT-ATAGACTCCCTTTC
32778094 AATTTCTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
33 15 0.58
34 10 0.38
35 1 0.04
ACGTcount: A:0.13, C:0.27, G:0.06, T:0.54
Consensus pattern (33 bp):
TTCACTCGTTTCTTTTATAGACTCCCTTTCTTT
Found at i:32778117 original size:6 final size:6
Alignment explanation
Indices: 32778108--32778215 Score: 58
Period size: 6 Copynumber: 17.7 Consensus size: 6
32778098 TCTTTTTTCG
* * * **
32778108 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
* * ** * *
32778159 -TGATTT CTTTTT CTTTTG CAATTT CTTTTT CTTCTT CATTTT CTTTTT
1 CT-TTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
32778207 -ATTTT CTTT
1 CTTTTT CTTT
32778216 CAATTTCTTT
Statistics
Matches: 72, Mismatches: 25, Indels: 10
0.67 0.23 0.09
Matches are distributed among these distances:
5 5 0.07
6 54 0.75
7 10 0.14
8 3 0.04
ACGTcount: A:0.08, C:0.19, G:0.02, T:0.71
Consensus pattern (6 bp):
CTTTTT
Found at i:32778120 original size:21 final size:21
Alignment explanation
Indices: 32778091--32778228 Score: 53
Period size: 21 Copynumber: 6.7 Consensus size: 21
32778081 CAAGCTCCCT
*
32778091 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-CTTTC
* ** *
32778112 TTCTTTTTCAATTTTCTTTTC
1 TTCATTTTCTTTTTTCCTTTC
*
32778133 TTCATTTTCTTTTTCTCTCACTTTT
1 TTCATTTTC-TTTT-T-TC-CTTTC
*
32778158 TTGA-TTTC-TTTTT-CTTT-
1 TTCATTTTCTTTTTTCCTTTC
* *
32778175 TGCAATTTC-TTTTT-C-TTC
1 TTCATTTTCTTTTTTCCTTTC
32778193 TTCATTTTCTTTTTAT--TTTC
1 TTCATTTTCTTTTT-TCCTTTC
*
32778213 TTTCAATTTCTTTTTT
1 -TTCATTTTCTTTTTT
32778229 AATCTCTTTC
Statistics
Matches: 90, Mismatches: 16, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
17 4 0.04
18 21 0.23
19 4 0.04
20 9 0.10
21 34 0.38
22 5 0.06
23 1 0.01
24 6 0.07
25 6 0.07
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.70
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCCTTTC
Found at i:32778139 original size:14 final size:14
Alignment explanation
Indices: 32778090--32778146 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
32778080 TCAAGCTCCC
32778090 TTTCAA-TTTCTTT
1 TTTCAATTTTCTTT
**
32778103 TTTCGCTTTT-TCTT
1 TTTCAATTTTCT-TT
32778117 TTTCAATTTTCTTT
1 TTTCAATTTTCTTT
32778131 TCTTC-ATTTTCTTT
1 T-TTCAATTTTCTTT
32778145 TT
1 TT
32778147 CTCTCACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
14 26 0.72
15 4 0.11
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTCAATTTTCTTT
Found at i:32778174 original size:18 final size:18
Alignment explanation
Indices: 32778161--32778211 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
32778151 CACTTTTTTG
32778161 ATTTCTTTTTCTTTTGCA
1 ATTTCTTTTTCTTTTGCA
32778179 ATTTCTTTTTCTTCTT-CA
1 ATTTCTTTTTCTT-TTGCA
* *
32778197 TTTTCTTTTTATTTT
1 ATTTCTTTTTCTTTT
32778212 CTTTCAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 2 0.07
18 26 0.87
19 2 0.07
ACGTcount: A:0.10, C:0.16, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTCTTTTTCTTTTGCA
Found at i:32778212 original size:11 final size:11
Alignment explanation
Indices: 32778180--32778226 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
32778170 TCTTTTGCAA
*
32778180 TTTCTTTTTCT
1 TTTCATTTTCT
32778191 TCTTCATTTTCT
1 T-TTCATTTTCT
*
32778203 TTTTATTTTC-
1 TTTCATTTTCT
*
32778213 TTTCAATTTCT
1 TTTCATTTTCT
32778224 TTT
1 TTT
32778227 TTAATCTCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
10 8 0.27
11 12 0.40
12 10 0.33
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTCATTTTCT
Found at i:32778227 original size:22 final size:21
Alignment explanation
Indices: 32778177--32778238 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
32778167 TTTTCTTTTG
*
32778177 CAATTTCTTTTT-CT-TC-TT
1 CAATTTCTTTTTAATCTCTTT
* * *
32778195 CATTTTCTTTTTATTTTCTTT
1 CAATTTCTTTTTAATCTCTTT
32778216 CAATTTCTTTTTTAATCTCTTT
1 CAATTTC-TTTTTAATCTCTTT
32778238 C
1 C
32778239 TCCTTTTCTC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 11 0.31
19 1 0.03
20 2 0.06
21 8 0.23
22 13 0.37
ACGTcount: A:0.13, C:0.19, G:0.00, T:0.68
Consensus pattern (21 bp):
CAATTTCTTTTTAATCTCTTT
Found at i:32779302 original size:12 final size:11
Alignment explanation
Indices: 32779287--32779352 Score: 53
Period size: 12 Copynumber: 5.6 Consensus size: 11
32779277 TTTGCTCGAT
32779287 TTTTTTTTCAA
1 TTTTTTTTCAA
* *
32779298 CTTTTTTTGAA
1 TTTTTTTTCAA
32779309 TTTTTTTTCAATCAA
1 -TTTTTTT---TCAA
32779324 TTTTTTTTCGAA
1 TTTTTTTTC-AA
*
32779336 TTTTTTTT-GA
1 TTTTTTTTCAA
32779346 TTTTTTT
1 TTTTTTT
32779353 GTTACTCTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
10 8 0.18
11 11 0.24
12 16 0.36
14 7 0.16
15 3 0.07
ACGTcount: A:0.17, C:0.08, G:0.05, T:0.71
Consensus pattern (11 bp):
TTTTTTTTCAA
Found at i:32780699 original size:11 final size:10
Alignment explanation
Indices: 32780674--32780734 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
32780664 ACCAATAAAA
32780674 TAAA-TGAGC
1 TAAATTGAGC
*
32780683 TGAATTGTAGC
1 TAAATTG-AGC
32780694 TAAATTGAGC
1 TAAATTGAGC
**
32780704 TCGATTGAGC
1 TAAATTGAGC
32780714 TGAAA-TGAGC
1 T-AAATTGAGC
*
32780724 TCAATTGAGC
1 TAAATTGAGC
32780734 T
1 T
32780735 GGTCGGAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:32780735 original size:20 final size:20
Alignment explanation
Indices: 32780675--32780735 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
32780665 CCAATAAAAT
*
32780675 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
32780695 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
32780716 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
32780736 GTCGGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:32781815 original size:53 final size:54
Alignment explanation
Indices: 32781689--32781816 Score: 170
Period size: 53 Copynumber: 2.4 Consensus size: 54
32781679 CTTAGTTTAA
* *
32781689 TTAATTAAATTGCTGGAATAAATTACTTATCTTACTTAATTGAGTTCATCTTAG
1 TTAATTAAGTTGCTGGAATAAATTACTTATCTTACTTAATTAAGTTCATCTTAG
* * * *
32781743 TTAATTAAGATGCTAGAATAAATTA-TTCATGTTAGTTAA-TAAGTTCATCTTAG
1 TTAATTAAGTTGCTGGAATAAATTACTT-ATCTTACTTAATTAAGTTCATCTTAG
*
32781796 TTAATTTAGTTGCTGGAATAA
1 TTAATTAAGTTGCTGGAATAA
32781817 TTTAATGATG
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
53 33 0.52
54 31 0.48
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.43
Consensus pattern (54 bp):
TTAATTAAGTTGCTGGAATAAATTACTTATCTTACTTAATTAAGTTCATCTTAG
Found at i:32784936 original size:21 final size:22
Alignment explanation
Indices: 32784897--32784940 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
32784887 ATGCATACTC
32784897 CTTCAAGCTCAAATCAGCTCAA
1 CTTCAAGCTCAAATCAGCTCAA
* *
32784919 CTTCAA-CTCAACTTAGCTCAA
1 CTTCAAGCTCAAATCAGCTCAA
32784940 C
1 C
32784941 GAGCTCGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.34, C:0.34, G:0.07, T:0.25
Consensus pattern (22 bp):
CTTCAAGCTCAAATCAGCTCAA
Found at i:32787665 original size:29 final size:29
Alignment explanation
Indices: 32787632--32787688 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
32787622 ATAACCAAAC
*
32787632 CTACAAAAACTTTATATCCATAAACCCAA
1 CTACAAAAACTTCATATCCATAAACCCAA
*
32787661 CTACATAAACTTCATATCCATAAACCCA
1 CTACAAAAACTTCATATCCATAAACCCA
32787689 TCTTTGAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.25
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAA
Found at i:32787963 original size:30 final size:30
Alignment explanation
Indices: 32787929--32788008 Score: 81
Period size: 30 Copynumber: 2.6 Consensus size: 30
32787919 TCTAGCTCTC
32787929 TGAGCTCCA-TTCAGCTCAAATCAGCTCACT
1 TGAGCT-CATTTCAGCTCAAATCAGCTCACT
* * * * *
32787959 TGAGCTTATTTCAGCTCGATTGAGCTCATT
1 TGAGCTCATTTCAGCTCAAATCAGCTCACT
*
32787989 TTAGCTTCATTTCAGCTCAA
1 TGAGC-TCATTTCAGCTCAA
32788009 TTACTTAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
29 1 0.03
30 27 0.68
31 12 0.30
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (30 bp):
TGAGCTCATTTCAGCTCAAATCAGCTCACT
Found at i:32787964 original size:20 final size:20
Alignment explanation
Indices: 32787931--32787986 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
32787921 TAGCTCTCTG
* *
32787931 AGCTCCATTCAGCTCAAATC
1 AGCTCGATTGAGCTCAAATC
* **
32787951 AGCTC-ACTTGAGCTTATTTC
1 AGCTCGA-TTGAGCTCAAATC
32787971 AGCTCGATTGAGCTCA
1 AGCTCGATTGAGCTCA
32787987 TTTTAGCTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 1 0.03
20 27 0.93
21 1 0.03
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (20 bp):
AGCTCGATTGAGCTCAAATC
Found at i:32787989 original size:20 final size:20
Alignment explanation
Indices: 32787949--32787994 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
32787939 TCAGCTCAAA
*
32787949 TCAGCTCACTTGAGCTTATT
1 TCAGCTCACTTGAGCTCATT
32787969 TCAGCTCGA-TTGAGCTCATT
1 TCAGCTC-ACTTGAGCTCATT
*
32787989 TTAGCT
1 TCAGCT
32787995 TCATTTCAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (20 bp):
TCAGCTCACTTGAGCTCATT
Found at i:32787994 original size:10 final size:10
Alignment explanation
Indices: 32787938--32788007 Score: 52
Period size: 10 Copynumber: 6.9 Consensus size: 10
32787928 CTGAGCTCCA
*
32787938 TTCAGCTCAA
1 TTCAGCTCAT
* *
32787948 ATCAGCTCAC
1 TTCAGCTCAT
* *
32787958 TTGAGCTTAT
1 TTCAGCTCAT
32787968 TTCAGCTCGA-
1 TTCAGCTC-AT
*
32787978 TTGAGCTCAT
1 TTCAGCTCAT
*
32787988 TTTAGCTTCAT
1 TTCAGC-TCAT
32787999 TTCAGCTCA
1 TTCAGCTCA
32788008 ATTACTTAAT
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
9 1 0.02
10 35 0.76
11 10 0.22
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (10 bp):
TTCAGCTCAT
Found at i:32788194 original size:20 final size:21
Alignment explanation
Indices: 32788153--32788190 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
32788143 ATTAGCTAAG
32788153 TTTATATTAAATGTGTTATAA
1 TTTATATTAAATGTGTTATAA
*
32788174 TTTA-ATTATATGT-TTAT
1 TTTATATTAAATGTGTTAT
32788191 TAATGTGTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 8 0.50
21 4 0.25
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (21 bp):
TTTATATTAAATGTGTTATAA
Found at i:32790924 original size:22 final size:23
Alignment explanation
Indices: 32790899--32790958 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
32790889 TGGACTGAAT
32790899 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
32790921 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
32790943 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
32790959 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:32790926 original size:4 final size:4
Alignment explanation
Indices: 32790908--32790941 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
32790898 TATAAAAATT
32790908 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
32790942 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:32797395 original size:22 final size:23
Alignment explanation
Indices: 32797370--32797429 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
32797360 TGGACTGAAT
32797370 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
32797392 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
32797414 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
32797430 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:32797397 original size:4 final size:4
Alignment explanation
Indices: 32797379--32797412 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
32797369 TATAAAAATT
32797379 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
32797413 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:32800072 original size:30 final size:29
Alignment explanation
Indices: 32800038--32800109 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 29
32800028 AGCTCACTCC
*
32800038 TAGCTCACTTTCAACTCACGAGCTAAACCT
1 TAGCTCACTTT-AACTCACAAGCTAAACCT
* *
32800068 TAGCTCAACTTTAGCTCACAAGCTAAAGCT
1 TAGCTC-ACTTTAACTCACAAGCTAAACCT
*
32800098 TAGCTCATTTTA
1 TAGCTCACTTTA
32800110 GTTTAAATTC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 5 0.14
30 27 0.73
31 5 0.14
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.31
Consensus pattern (29 bp):
TAGCTCACTTTAACTCACAAGCTAAACCT
Found at i:32801885 original size:20 final size:19
Alignment explanation
Indices: 32801862--32801926 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
32801852 AAGCTCAAAC
32801862 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
32801882 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
32801902 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
32801922 GAGCT
1 GAGCT
32801927 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:32805516 original size:11 final size:11
Alignment explanation
Indices: 32805483--32805532 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 11
32805473 ATTGTAGATT
*
32805483 AAAAAAA-TCA
1 AAAAAAATTGA
*
32805493 AAAAAAAAT-A
1 AAAAAAATTGA
32805503 AAAAAAATTGA
1 AAAAAAATTGA
*
32805514 AAACAAATTTGA
1 AAA-AAAATTGA
32805526 AAAAAAA
1 AAAAAAA
32805533 AATTTCCATA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 16 0.47
11 8 0.24
12 10 0.29
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.14
Consensus pattern (11 bp):
AAAAAAATTGA
Found at i:32807766 original size:17 final size:18
Alignment explanation
Indices: 32807728--32807766 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
32807718 AGAGAGCAAA
* *
32807728 AAAATGAAAAGAATAAAG
1 AAAATGAAAAGAAGAAAC
32807746 AAAA-GAAAAGAAGAAAC
1 AAAATGAAAAGAAGAAAC
32807763 AAAA
1 AAAA
32807767 AGATGAGTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.77, C:0.03, G:0.15, T:0.05
Consensus pattern (18 bp):
AAAATGAAAAGAAGAAAC
Found at i:32807800 original size:17 final size:18
Alignment explanation
Indices: 32807761--32807802 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
32807751 AAAAGAAGAA
32807761 ACAAAA-AGATGAGTGAT
1 ACAAAAGAGATGAGTGAT
*
32807778 AAAAAAGAGA-GAGTGAT
1 ACAAAAGAGATGAGTGAT
*
32807795 TCAAAAGA
1 ACAAAAGA
32807803 AAAAGAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.57, C:0.05, G:0.24, T:0.14
Consensus pattern (18 bp):
ACAAAAGAGATGAGTGAT
Found at i:32812376 original size:21 final size:21
Alignment explanation
Indices: 32812347--32812402 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
32812337 CAAGCTCTCT
*
32812347 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-CTTTC
* ** *
32812368 TTCTTTTTCAATTTTCTTTTC
1 TTCATTTTCTTTTTTCCTTTC
32812389 TTCATTTTCTTTTT
1 TTCATTTTCTTTTT
32812403 CTCTCACTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCCTTTC
Found at i:32812395 original size:14 final size:13
Alignment explanation
Indices: 32812346--32812402 Score: 53
Period size: 14 Copynumber: 4.2 Consensus size: 13
32812336 TCAAGCTCTC
*
32812346 TTTCAATTTCTTT
1 TTTCATTTTCTTT
*
32812359 TTTCGCTTTT-TCTT
1 TTTC-ATTTTCT-TT
32812373 TTTCAATTTTCTTT
1 TTTC-ATTTTCTTT
32812387 TCTTCATTTTCTTT
1 T-TTCATTTTCTTT
32812401 TT
1 TT
32812403 CTCTCACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
14 26 0.72
15 4 0.11
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (13 bp):
TTTCATTTTCTTT
Found at i:32812430 original size:18 final size:18
Alignment explanation
Indices: 32812409--32812484 Score: 64
Period size: 18 Copynumber: 4.1 Consensus size: 18
32812399 TTTTCTCTCA
32812409 CTTTTTTTATTTCTTTTT
1 CTTTTTTTATTTCTTTTT
***
32812427 CTTTTGCAATTTCTTTTT
1 CTTTTTTTATTTCTTTTT
*
32812445 CTTTTTCGT-TTTCTTTTT
1 CTTTTT-TTATTTCTTTTT
*
32812463 GTTTTCTTTCAATTTCTTTTT
1 CTTTT-TTT--ATTTCTTTTT
32812484 C
1 C
32812485 AATCTCTTTC
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
18 34 0.77
19 1 0.02
21 9 0.20
ACGTcount: A:0.07, C:0.16, G:0.04, T:0.74
Consensus pattern (18 bp):
CTTTTTTTATTTCTTTTT
Found at i:32812484 original size:6 final size:6
Alignment explanation
Indices: 32812364--32812471 Score: 76
Period size: 6 Copynumber: 17.7 Consensus size: 6
32812354 TCTTTTTTCG
* * * **
32812364 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
* ** *
32812415 -TTATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT CGTTTT CTTTTT
1 CTT-TTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
32812463 -GTTTT CTTT
1 CTTTTT CTTT
32812472 CAATTTCTTT
Statistics
Matches: 76, Mismatches: 21, Indels: 10
0.71 0.20 0.09
Matches are distributed among these distances:
5 6 0.08
6 56 0.74
7 11 0.14
8 3 0.04
ACGTcount: A:0.06, C:0.18, G:0.03, T:0.73
Consensus pattern (6 bp):
CTTTTT
Found at i:32813565 original size:31 final size:29
Alignment explanation
Indices: 32813485--32813569 Score: 82
Period size: 31 Copynumber: 2.8 Consensus size: 29
32813475 GCAAGACTTT
**
32813485 TCACTTTTTTTTTAACTTGATTTTTTTTTGC
1 TCAC-TTTTTTTT-ACTTTTTTTTTTTTTGC
*
32813516 TCACCTTTTTTTTTCTTTTCTTTTTTTTTGC
1 TCA-CTTTTTTTTACTTTT-TTTTTTTTTGC
32813547 TCGA-TTTTTTTTCACTTTTTTTT
1 TC-ACTTTTTTTT-ACTTTTTTTT
32813570 AAATTTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
30 15 0.33
31 29 0.63
32 2 0.04
ACGTcount: A:0.08, C:0.15, G:0.05, T:0.72
Consensus pattern (29 bp):
TCACTTTTTTTTACTTTTTTTTTTTTTGC
Found at i:32815234 original size:20 final size:19
Alignment explanation
Indices: 32815211--32815275 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
32815201 AAGCTCAAAC
32815211 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
32815231 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
32815251 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
32815271 GAGCT
1 GAGCT
32815276 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:32817198 original size:22 final size:22
Alignment explanation
Indices: 32817170--32817213 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
32817160 TTTGGTATTT
32817170 GGGATTTGGTACGAAATGGTAA
1 GGGATTTGGTACGAAATGGTAA
32817192 GGGATTTGGTACGAAATGGTAA
1 GGGATTTGGTACGAAATGGTAA
32817214 TGGTTCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.05, G:0.36, T:0.27
Consensus pattern (22 bp):
GGGATTTGGTACGAAATGGTAA
Found at i:32820913 original size:9 final size:10
Alignment explanation
Indices: 32820906--32820968 Score: 58
Period size: 11 Copynumber: 6.0 Consensus size: 10
32820896 AAGAGAAAAT
32820906 AAAGAAAAGA
1 AAAGAAAAGA
32820916 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
32820928 AAAGAAGA-A
1 AAAGAAAAGA
32820937 AAAGAAAATGA
1 AAAGAAAA-GA
32820948 AAATGAAATA-A
1 AAA-GAAA-AGA
32820959 AAAGAAAAGA
1 AAAGAAAAGA
32820969 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
9 9 0.20
10 9 0.20
11 16 0.36
12 9 0.20
13 1 0.02
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.05
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:32820930 original size:6 final size:5
Alignment explanation
Indices: 32820906--32820968 Score: 58
Period size: 5 Copynumber: 12.0 Consensus size: 5
32820896 AAGAGAAAAT
*
32820906 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AAATGA
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AAA-GA
32820954 AATA-A AAAGA AAAGA
1 AA-AGA AAAGA AAAGA
32820969 GAGGCAAGAG
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
4 4 0.08
5 25 0.50
6 20 0.40
7 1 0.02
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.05
Consensus pattern (5 bp):
AAAGA
Found at i:32820962 original size:31 final size:30
Alignment explanation
Indices: 32820906--32820964 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
32820896 AAGAGAAAAT
32820906 AAAGAAAAGAAAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAGAAAAGAAAAA-CAAAAGAAGAA
*
32820937 AAAGAAAATGAAAATGAAATA-AAAAGAA
1 AAAGAAAA-GAAAA-GAAAAACAAAAGAA
32820965 AAGAGAGGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
31 15 0.60
32 5 0.20
33 5 0.20
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.05
Consensus pattern (30 bp):
AAAGAAAAGAAAAGAAAAACAAAAGAAGAA
Found at i:32821045 original size:12 final size:12
Alignment explanation
Indices: 32821037--32821061 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32821027 TTTGAAAAGC
32821037 AAAAAGAAAATG
1 AAAAAGAAAATG
32821049 AAAAAGAAAATG
1 AAAAAGAAAATG
32821061 A
1 A
32821062 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:32821058 original size:18 final size:18
Alignment explanation
Indices: 32821031--32821129 Score: 56
Period size: 18 Copynumber: 5.4 Consensus size: 18
32821021 AAAGCCTTTG
32821031 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
32821050 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
* ** *
32821068 AAAAGAGATTGAAAAAGA
1 AAAAGAAAAAGAAAATGA
* * *
32821086 GAACG-AAAAGAAATTTGA
1 AAAAGAAAAAGAAA-ATGA
* * *
32821104 GAATGAAAAAGAAGATGA
1 AAAAGAAAAAGAAAATGA
32821122 AAAAGAAA
1 AAAAGAAA
32821130 TTGAAACAAA
Statistics
Matches: 58, Mismatches: 20, Indels: 5
0.70 0.24 0.06
Matches are distributed among these distances:
17 5 0.09
18 41 0.71
19 12 0.21
ACGTcount: A:0.66, C:0.02, G:0.21, T:0.11
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:32821069 original size:12 final size:12
Alignment explanation
Indices: 32821054--32821087 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
32821044 AAATGAAAAA
*
32821054 GAAAATGAGATT
1 GAAAAAGAGATT
32821066 GAAAAAGAGATT
1 GAAAAAGAGATT
32821078 GAAAAAGAGA
1 GAAAAAGAGA
32821088 ACGAAAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.26, T:0.15
Consensus pattern (12 bp):
GAAAAAGAGATT
Found at i:32821124 original size:30 final size:31
Alignment explanation
Indices: 32821072--32821131 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
32821062 GATTGAAAAA
*
32821072 GAGATTGAAAAAGAGAACG-AAAAGAAATTT
1 GAGAATGAAAAAGAGAACGAAAAAGAAATTT
*
32821102 GAGAATGAAAAAGA-AGATGAAAAAGAAATT
1 GAGAATGAAAAAGAGA-ACGAAAAAGAAATT
32821132 GAAACAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 1 0.04
30 15 0.58
31 10 0.38
ACGTcount: A:0.60, C:0.02, G:0.23, T:0.15
Consensus pattern (31 bp):
GAGAATGAAAAAGAGAACGAAAAAGAAATTT
Found at i:32825625 original size:20 final size:19
Alignment explanation
Indices: 32825602--32825666 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
32825592 AAGCTCAAAC
32825602 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
32825622 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
32825642 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
32825662 GAGCT
1 GAGCT
32825667 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:32839901 original size:17 final size:18
Alignment explanation
Indices: 32839864--32839901 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
32839854 GATTGAGAGT
* *
32839864 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
32839882 GAAAAGAAAT-TGAAAAA
1 GAAAAGAAATGTGAAAAA
32839899 GAA
1 GAA
32839902 TTGAAGAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.63, C:0.03, G:0.24, T:0.11
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:32839913 original size:29 final size:29
Alignment explanation
Indices: 32839863--32839919 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
32839853 AGATTGAGAG
* *
32839863 TGAAAAGGAATGTGAAACAGAAAAGAAAT
1 TGAAAAAGAATGTGAAAAAGAAAAGAAAT
*
32839892 TGAAAAAGAAT-TGAAGAAAGAAGAGAAA
1 TGAAAAAGAATGTGAA-AAAGAAAAGAAA
32839920 ATGAGTTAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.61, C:0.02, G:0.25, T:0.12
Consensus pattern (29 bp):
TGAAAAAGAATGTGAAAAAGAAAAGAAAT
Found at i:32842379 original size:13 final size:13
Alignment explanation
Indices: 32842361--32842385 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32842351 AATAGTTGTG
32842361 TGTTATTTAATTA
1 TGTTATTTAATTA
32842374 TGTTATTTAATT
1 TGTTATTTAATT
32842386 TTGTAGGTTA
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:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:32845338 original size:29 final size:29
Alignment explanation
Indices: 32845305--32845361 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
32845295 ATAACCAAAC
*
32845305 CTACAAAAACTTTATATCCATAAACCCAA
1 CTACAAAAACTTCATATCCATAAACCCAA
*
32845334 CTACATAAACTTCATATCCATAAACCCA
1 CTACAAAAACTTCATATCCATAAACCCA
32845362 TCTTTGAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.25
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAA
Found at i:32846684 original size:11 final size:10
Alignment explanation
Indices: 32846659--32846719 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
32846649 ACCAATAAAA
32846659 TAAA-TGAGC
1 TAAATTGAGC
*
32846668 TGAATTGTAGC
1 TAAATTG-AGC
32846679 TAAATTGAGC
1 TAAATTGAGC
**
32846689 TCGATTGAGC
1 TAAATTGAGC
32846699 TGAAA-TGAGC
1 T-AAATTGAGC
*
32846709 TCAATTGAGC
1 TAAATTGAGC
32846719 T
1 T
32846720 GGTCGGAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:32846720 original size:20 final size:20
Alignment explanation
Indices: 32846660--32846720 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
32846650 CCAATAAAAT
*
32846660 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
32846680 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
32846701 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
32846721 GTCGGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:32847094 original size:13 final size:13
Alignment explanation
Indices: 32847076--32847109 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
32847066 AGTAAGTTTC
32847076 AAAAAAAATTCAA
1 AAAAAAAATTCAA
*
32847089 AAAAAAAATTGAA
1 AAAAAAAATTCAA
32847102 AAAAAAAA
1 AAAAAAAA
32847110 CAAAATCTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (13 bp):
AAAAAAAATTCAA
Found at i:32847114 original size:18 final size:18
Alignment explanation
Indices: 32847087--32847122 Score: 56
Period size: 17 Copynumber: 2.0 Consensus size: 18
32847077 AAAAAAATTC
32847087 AAAAAAAAAAT-TGAAAA
1 AAAAAAAAAATCTGAAAA
32847104 AAAAAACAAAATCTGAAAA
1 AAAAAA-AAAATCTGAAAA
32847123 TTTGAACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 5 0.29
19 6 0.35
ACGTcount: A:0.78, C:0.06, G:0.06, T:0.11
Consensus pattern (18 bp):
AAAAAAAAAATCTGAAAA
Found at i:32848183 original size:30 final size:28
Alignment explanation
Indices: 32848147--32848202 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
32848137 AAGCGAAAAA
* *
32848147 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT
1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTT
32848177 GAAAAAGAGAGTGAGCAAAAAGAAAG
1 GAAAAAGAGAGTGAGCAAAAAGAAAG
32848203 CGTGGAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.54, C:0.04, G:0.30, T:0.12
Consensus pattern (28 bp):
GAAAAAGAGAGTGAGCAAAAAGAAAGTT
Found at i:32851456 original size:29 final size:29
Alignment explanation
Indices: 32851423--32851479 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
32851413 ATAACCAAAC
*
32851423 CTACAAAAACTTTATATCCATAAACCCAA
1 CTACAAAAACTTCATATCCATAAACCCAA
*
32851452 CTACATAAACTTCATATCCATAAACCCA
1 CTACAAAAACTTCATATCCATAAACCCA
32851480 TCTTTGAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.25
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAA
Found at i:32855870 original size:11 final size:10
Alignment explanation
Indices: 32855845--32855905 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
32855835 ACCAATAAAA
32855845 TAAA-TGAGC
1 TAAATTGAGC
*
32855854 TGAATTGTAGC
1 TAAATTG-AGC
32855865 TAAATTGAGC
1 TAAATTGAGC
**
32855875 TCGATTGAGC
1 TAAATTGAGC
32855885 TGAAA-TGAGC
1 T-AAATTGAGC
*
32855895 TCAATTGAGC
1 TAAATTGAGC
32855905 T
1 T
32855906 GGTCGGAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:32855906 original size:20 final size:20
Alignment explanation
Indices: 32855846--32855906 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
32855836 CCAATAAAAT
*
32855846 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
32855866 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
32855887 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
32855907 GTCGGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:32857964 original size:32 final size:32
Alignment explanation
Indices: 32857927--32857988 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
32857917 GATTACTCAC
32857927 TTCACTCG-TTTCTTTT-ATAGACTCTCTTTCTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTT
*
32857959 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
32857989 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 16 0.59
33 10 0.37
34 1 0.04
ACGTcount: A:0.13, C:0.26, G:0.06, T:0.55
Consensus pattern (32 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTT
Found at i:32858000 original size:12 final size:12
Alignment explanation
Indices: 32857967--32858064 Score: 54
Period size: 12 Copynumber: 7.9 Consensus size: 12
32857957 TTTTCACTTG
32857967 ATTTC-TTTTCA
1 ATTTCTTTTTCA
** *
32857978 AGCTCTCTTTCA
1 ATTTCTTTTTCA
*
32857990 ATTTCTTTTTCGC
1 ATTTCTTTTTC-A
*
32858003 TTTTCTTTTTCA
1 ATTTCTTTTTCA
32858015 ATTTTCTTTTCTTCA
1 A-TTTC-TTT-TTCA
* *
32858030 TTTTCTTTTTCT
1 ATTTCTTTTTCA
* ** *
32858042 CTCACTTTTTCG
1 ATTTCTTTTTCA
32858054 ATTTCTTTTTC
1 ATTTCTTTTTC
32858065 TTTTGCAATT
Statistics
Matches: 63, Mismatches: 19, Indels: 9
0.69 0.21 0.10
Matches are distributed among these distances:
11 3 0.05
12 32 0.51
13 17 0.27
14 7 0.11
15 4 0.06
ACGTcount: A:0.10, C:0.22, G:0.03, T:0.64
Consensus pattern (12 bp):
ATTTCTTTTTCA
Found at i:32858009 original size:13 final size:13
Alignment explanation
Indices: 32857985--32858040 Score: 62
Period size: 13 Copynumber: 4.3 Consensus size: 13
32857975 TCAAGCTCTC
32857985 TTTCAA-TTTCTT
1 TTTCAATTTTCTT
**
32857997 TTTCGCTTTTCTT
1 TTTCAATTTTCTT
32858010 TTTCAATTTTCTTT
1 TTTCAATTTTC-TT
32858024 TCTTC-ATTTTCTT
1 T-TTCAATTTTCTT
32858037 TTTC
1 TTTC
32858041 TCTCACTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
12 7 0.19
13 18 0.49
14 9 0.24
15 3 0.08
ACGTcount: A:0.09, C:0.20, G:0.02, T:0.70
Consensus pattern (13 bp):
TTTCAATTTTCTT
Found at i:32858121 original size:6 final size:6
Alignment explanation
Indices: 32857991--32858108 Score: 67
Period size: 6 Copynumber: 19.2 Consensus size: 6
32857981 TCTCTTTCAA
* * * *
32857991 TTTCTT TTTCGCT TTTCTT TTTCAAT TTTCTTT TCTTCAT TTTCTT TTTCTC
1 TTTCTT TTTC-TT TTTCTT TTTC-TT TTTC-TT T-TTCTT TTTCTT TTTCTT
** ** * ** * *
32858043 TCACTT TTTCGA TTTCTT TTTCTT TTGCAA TTTCTT TTTCTT CTTCGT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
*
32858091 TTTCTT TTT-GT TTTCTT T
1 TTTCTT TTTCTT TTTCTT T
32858109 CAATTTCTTT
Statistics
Matches: 79, Mismatches: 29, Indels: 8
0.68 0.25 0.07
Matches are distributed among these distances:
5 4 0.05
6 58 0.73
7 14 0.18
8 3 0.04
ACGTcount: A:0.06, C:0.19, G:0.04, T:0.70
Consensus pattern (6 bp):
TTTCTT
Found at i:32859071 original size:12 final size:12
Alignment explanation
Indices: 32859055--32859127 Score: 58
Period size: 13 Copynumber: 5.7 Consensus size: 12
32859045 TTTTAACTCG
32859055 ATTTTTTTTTCA
1 ATTTTTTTTTCA
* *
32859067 CTTTTTTTTTGA
1 ATTTTTTTTTCA
32859079 ATTTTTTTTTTCAA
1 A-TTTTTTTTTC-A
32859093 TCAGTTTTTTTTTCAA
1 --A-TTTTTTTTTC-A
*
32859109 ATTTTTTTTT-G
1 ATTTTTTTTTCA
32859120 ATTTTTTT
1 ATTTTTTT
32859128 GTTACTCCAA
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
11 8 0.16
12 10 0.20
13 18 0.35
14 2 0.04
16 13 0.25
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (12 bp):
ATTTTTTTTTCA
Found at i:32859084 original size:40 final size:39
Alignment explanation
Indices: 32859021--32859127 Score: 119
Period size: 40 Copynumber: 2.6 Consensus size: 39
32859011 CTCGCAAGAC
**
32859021 TTTTCACTTTTTTTTCTTCTTTTTTTTT-AACTC-GATTTTT
1 TTTTCACTTTTTTTT-TGATTTTTTTTTCAA-TCAG-TTTTT
32859061 TTTTCACTTTTTTTTTGAATTTTTTTTTTCAATCAGTTTTT
1 TTTTCACTTTTTTTTTG-A-TTTTTTTTTCAATCAGTTTTT
*
32859102 TTTTCAAATTTTTTTTTGATTTTTTT
1 TTTTC-ACTTTTTTTTTGATTTTTTT
32859128 GTTACTCCAA
Statistics
Matches: 59, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
39 1 0.02
40 22 0.37
41 22 0.37
42 14 0.24
ACGTcount: A:0.13, C:0.10, G:0.04, T:0.73
Consensus pattern (39 bp):
TTTTCACTTTTTTTTTGATTTTTTTTTCAATCAGTTTTT
Found at i:32859087 original size:42 final size:41
Alignment explanation
Indices: 32859040--32859127 Score: 119
Period size: 41 Copynumber: 2.1 Consensus size: 41
32859030 TTTTTTCTTC
*
32859040 TTTTTTTTT-AACTC-GATTTTTTTTTC-ACTTTTTTTTTGAAT
1 TTTTTTTTTCAA-TCAG-TTTTTTTTTCAAATTTTTTTTTG-AT
32859081 TTTTTTTTTCAATCAGTTTTTTTTTCAAATTTTTTTTTGAT
1 TTTTTTTTTCAATCAGTTTTTTTTTCAAATTTTTTTTTGAT
32859122 TTTTTT
1 TTTTTT
32859128 GTTACTCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
41 29 0.67
42 14 0.33
ACGTcount: A:0.15, C:0.08, G:0.05, T:0.73
Consensus pattern (41 bp):
TTTTTTTTTCAATCAGTTTTTTTTTCAAATTTTTTTTTGAT
Found at i:32860495 original size:11 final size:10
Alignment explanation
Indices: 32860470--32860530 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
32860460 ACCAATAAAA
32860470 TAAA-TGAGC
1 TAAATTGAGC
*
32860479 TGAATTGTAGC
1 TAAATTG-AGC
32860490 TAAATTGAGC
1 TAAATTGAGC
**
32860500 TCGATTGAGC
1 TAAATTGAGC
32860510 TGAAA-TGAGC
1 T-AAATTGAGC
*
32860520 TCAATTGAGC
1 TAAATTGAGC
32860530 T
1 T
32860531 GGTCGGAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:32860531 original size:20 final size:20
Alignment explanation
Indices: 32860471--32860531 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
32860461 CCAATAAAAT
*
32860471 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
32860491 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
32860512 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
32860532 GTCGGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:32884752 original size:21 final size:21
Alignment explanation
Indices: 32884726--32884765 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
32884716 TTGAGCTCGT
*
32884726 TTTAGCTCGTTTGAGCTCAAA
1 TTTAGCTCGTTTCAGCTCAAA
32884747 TTTAGCTCGTTTCAGCTCA
1 TTTAGCTCGTTTCAGCTCA
32884766 TTCCTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (21 bp):
TTTAGCTCGTTTCAGCTCAAA
Found at i:32885007 original size:13 final size:13
Alignment explanation
Indices: 32884989--32885013 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32884979 AATAGTTGTG
32884989 TGTTATTTAATTA
1 TGTTATTTAATTA
32885002 TGTTATTTAATT
1 TGTTATTTAATT
32885014 TTGTAGGTTA
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:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:32887478 original size:10 final size:10
Alignment explanation
Indices: 32887462--32887519 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
32887452 CAACTCCGAC
32887462 CAGCTCAATT
1 CAGCTCAATT
* *
32887472 GAGCTCATTT
1 CAGCTCAATT
32887482 CAGCTCAA-T
1 CAGCTCAATT
32887491 CGAGCTCAATT
1 C-AGCTCAATT
*
32887502 TAGCTACAATT
1 CAGCT-CAATT
32887513 CAGCTCA
1 CAGCTCA
32887520 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:32887485 original size:20 final size:20
Alignment explanation
Indices: 32887462--32887522 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
32887452 CAACTCCGAC
32887462 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
32887482 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
32887503 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
32887523 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:32889659 original size:30 final size:30
Alignment explanation
Indices: 32889625--32889721 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
32889615 TAAACTAAAA
32889625 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
32889655 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
*
32889685 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
32889714 ATGAGCTA
1 -TGAGCTA
32889722 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
29 3 0.06
30 45 0.88
31 3 0.06
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:32891879 original size:12 final size:12
Alignment explanation
Indices: 32891864--32891894 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
32891854 TTCTTTTTGC
32891864 TTTTCAAAGGCT
1 TTTTCAAAGGCT
32891876 TTTTCAAAGGCT
1 TTTTCAAAGGCT
32891888 TTTTCAA
1 TTTTCAA
32891895 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:32891952 original size:5 final size:5
Alignment explanation
Indices: 32891942--32892003 Score: 56
Period size: 5 Copynumber: 12.0 Consensus size: 5
32891932 CTCTTGCCTC
* *
32891942 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTCTT GCTTT TCTTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCT-TT TCTTT TC-TTT
32891989 TCTTT TCTTT TCTTT
1 TCTTT TCTTT TCTTT
32892004 GTTTTCTCTT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
4 4 0.09
5 30 0.64
6 12 0.26
7 1 0.02
ACGTcount: A:0.03, C:0.19, G:0.02, T:0.76
Consensus pattern (5 bp):
TCTTT
Found at i:32891977 original size:11 final size:11
Alignment explanation
Indices: 32891944--32892003 Score: 56
Period size: 11 Copynumber: 5.7 Consensus size: 11
32891934 CTTGCCTCTC
32891944 TTTTCTTTT-T
1 TTTTCTTTTCT
*
32891954 ATTTCATTTTCT
1 TTTTC-TTTTCT
32891966 TTTTC--TTCT
1 TTTTCTTTTCT
* *
32891975 CTTGCTTTTCT
1 TTTTCTTTTCT
32891986 TTTTCTTTTC-
1 TTTTCTTTTCT
32891996 TTTTCTTT
1 TTTTCTTT
32892004 GTTTTCTCTT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
9 7 0.17
10 12 0.30
11 16 0.40
12 5 0.12
ACGTcount: A:0.03, C:0.18, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:32891984 original size:36 final size:36
Alignment explanation
Indices: 32891943--32892013 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
32891933 TCTTGCCTCT
32891943 CTTTTCTTTTT-ATTTCATTTTCTTT-TTCTTCTCTTG
1 CTTTTCTTTTTCATTTC-TTTTCTTTGTT-TTCTCTTG
*
32891979 CTTTTCTTTTTCTTTTCTTTTCTTTGTTTTCTCTT
1 CTTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTT
32892014 TACAAGAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 26 0.81
37 6 0.19
ACGTcount: A:0.03, C:0.20, G:0.03, T:0.75
Consensus pattern (36 bp):
CTTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTTG
Found at i:32891985 original size:20 final size:20
Alignment explanation
Indices: 32891960--32891997 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
32891950 TTTTATTTCA
32891960 TTTTCTTTTTCTTCTCTTGC
1 TTTTCTTTTTCTTCTCTTGC
*
32891980 TTTTCTTTTTCTTTTCTT
1 TTTTCTTTTTCTTCTCTT
32891998 TTCTTTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (20 bp):
TTTTCTTTTTCTTCTCTTGC
Found at i:32891988 original size:25 final size:25
Alignment explanation
Indices: 32891955--32892010 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
32891945 TTTCTTTTTA
*
32891955 TTTCATTTTCTTTTTCTTCTC-TTGCT
1 TTTCTTTTTC-TTTTCTTCTCTTTG-T
*
32891981 TTTCTTTTTCTTTTCTTTTCTTTGT
1 TTTCTTTTTCTTTTCTTCTCTTTGT
32892006 TTTCT
1 TTTCT
32892011 CTTTACAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 15 0.56
26 12 0.44
ACGTcount: A:0.02, C:0.20, G:0.04, T:0.75
Consensus pattern (25 bp):
TTTCTTTTTCTTTTCTTCTCTTTGT
Found at i:32892935 original size:11 final size:11
Alignment explanation
Indices: 32892917--32892960 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
32892907 TTTTTTTAAC
*
32892917 TCGATTTTTTG
1 TCGATTTTTTT
32892928 TC-ATTTTTTT
1 TCGATTTTTTT
32892938 TCGATTTTTTT
1 TCGATTTTTTT
32892949 T-GAATTTTTTT
1 TCG-ATTTTTTT
32892960 T
1 T
32892961 TGAATTTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 10 0.33
11 20 0.67
ACGTcount: A:0.11, C:0.07, G:0.09, T:0.73
Consensus pattern (11 bp):
TCGATTTTTTT
Found at i:32892956 original size:21 final size:21
Alignment explanation
Indices: 32892917--32892959 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
32892907 TTTTTTTAAC
*
32892917 TCGATTTTTTGTCATTTTTTT
1 TCGATTTTTTGTCAATTTTTT
* *
32892938 TCGATTTTTTTTGAATTTTTT
1 TCGATTTTTTGTCAATTTTTT
32892959 T
1 T
32892960 TTGAATTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.12, C:0.07, G:0.09, T:0.72
Consensus pattern (21 bp):
TCGATTTTTTGTCAATTTTTT
Found at i:32892961 original size:12 final size:12
Alignment explanation
Indices: 32892930--32892967 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
32892920 ATTTTTTGTC
*
32892930 ATTTTTTTTCG-
1 ATTTTTTTTTGA
32892941 A-TTTTTTTTGA
1 ATTTTTTTTTGA
32892952 ATTTTTTTTTGA
1 ATTTTTTTTTGA
32892964 ATTT
1 ATTT
32892968 CTTCTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 8 0.33
11 2 0.08
12 14 0.58
ACGTcount: A:0.16, C:0.03, G:0.08, T:0.74
Consensus pattern (12 bp):
ATTTTTTTTTGA
Found at i:32894692 original size:30 final size:30
Alignment explanation
Indices: 32894658--32894754 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
32894648 TAAACTAAAA
32894658 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
32894688 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
*
32894718 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
32894747 ATGAGCTA
1 -TGAGCTA
32894755 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
29 3 0.06
30 45 0.88
31 3 0.06
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:32895169 original size:20 final size:20
Alignment explanation
Indices: 32895144--32895190 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
32895134 AGCTCGTTTC
32895144 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCGAGCTCAAGT
* *
32895164 CAGCTCATTCGAGCTCAATT
1 CAGCTCACTCGAGCTCAAGT
32895184 CAGCTCA
1 CAGCTCA
32895191 ATCTTAACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.26, C:0.34, G:0.17, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCGAGCTCAAGT
Found at i:32895188 original size:10 final size:10
Alignment explanation
Indices: 32895155--32895192 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
32895145 AGCTCACTCG
*
32895155 AGCTCAAGTC
1 AGCTCAATTC
32895165 AGCTC-ATTC
1 AGCTCAATTC
32895174 GAGCTCAATTC
1 -AGCTCAATTC
32895185 AGCTCAAT
1 AGCTCAAT
32895193 CTTAACCCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 3 0.12
10 18 0.72
11 4 0.16
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (10 bp):
AGCTCAATTC
Found at i:32905144 original size:12 final size:12
Alignment explanation
Indices: 32905129--32905159 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
32905119 TTCTTTTTGC
32905129 TTTTCAAAGGCT
1 TTTTCAAAGGCT
32905141 TTTTCAAAGGCT
1 TTTTCAAAGGCT
32905153 TTTTCAA
1 TTTTCAA
32905160 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:32905252 original size:26 final size:26
Alignment explanation
Indices: 32905218--32905271 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
32905208 TTTCTTTTTA
32905218 TTTCA-TTTTCTTTTTCTTCTCTTGCTT
1 TTTCATTTTTC-TTTTCTTCTCTTG-TT
*
32905245 TTTC-TTTTTCTTTTCTTTTCTTGTT
1 TTTCATTTTTCTTTTCTTCTCTTGTT
32905270 TT
1 TT
32905272 CCTTCTTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 4 0.16
26 12 0.48
27 9 0.36
ACGTcount: A:0.02, C:0.19, G:0.04, T:0.76
Consensus pattern (26 bp):
TTTCATTTTTCTTTTCTTCTCTTGTT
Found at i:32908465 original size:19 final size:20
Alignment explanation
Indices: 32908441--32908486 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
32908431 AGCTCGTTTC
32908441 CAGCTCACTCGAGCTC-AGT
1 CAGCTCACTCGAGCTCAAGT
* *
32908460 CAGCTCATTCGAGCTCAATT
1 CAGCTCACTCGAGCTCAAGT
32908480 CAGCTCA
1 CAGCTCA
32908487 ATCTTAACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.24, C:0.35, G:0.17, T:0.24
Consensus pattern (20 bp):
CAGCTCACTCGAGCTCAAGT
Found at i:32912204 original size:10 final size:10
Alignment explanation
Indices: 32912188--32912245 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
32912178 CAACTCCGAC
32912188 CAGCTCAATT
1 CAGCTCAATT
* *
32912198 GAGCTCATTT
1 CAGCTCAATT
32912208 CAGCTCAA-T
1 CAGCTCAATT
32912217 CGAGCTCAATT
1 C-AGCTCAATT
*
32912228 TAGCTACAATT
1 CAGCT-CAATT
32912239 CAGCTCA
1 CAGCTCA
32912246 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:32912211 original size:20 final size:20
Alignment explanation
Indices: 32912188--32912248 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
32912178 CAACTCCGAC
32912188 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
32912208 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
32912229 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
32912249 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:32918272 original size:22 final size:22
Alignment explanation
Indices: 32918244--32918287 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
32918234 TTTGGTATTT
32918244 GGGATTTGGTACGAAATGGTAA
1 GGGATTTGGTACGAAATGGTAA
32918266 GGGATTTGGTACGAAATGGTAA
1 GGGATTTGGTACGAAATGGTAA
32918288 TGGTTCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.05, G:0.36, T:0.27
Consensus pattern (22 bp):
GGGATTTGGTACGAAATGGTAA
Found at i:32926477 original size:20 final size:20
Alignment explanation
Indices: 32926430--32926477 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
32926420 AGTAAGCTCG
32926430 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
**** *
32926450 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
32926470 GTTGAGCT
1 GTTGAGCT
32926478 GGACGGTGCT
Statistics
Matches: 19, Mismatches: 9, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:32928149 original size:11 final size:12
Alignment explanation
Indices: 32928119--32928150 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
32928109 TTTCACTCTT
32928119 CTCTTTTTCAAA
1 CTCTTTTTCAAA
32928131 CTCTTTTTCAAA
1 CTCTTTTTCAAA
*
32928143 TTCTTTTT
1 CTCTTTTT
32928151 TCGCTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.22, G:0.00, T:0.59
Consensus pattern (12 bp):
CTCTTTTTCAAA
Found at i:32928162 original size:27 final size:27
Alignment explanation
Indices: 32928132--32928193 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
32928122 TTTTTCAAAC
*
32928132 TCTTTTTCAAATTCTT-TTTTC-GCTTTT
1 TCTTTTTC-AATT-TTCTTTTCTGCATTT
*
32928159 TCTTTTTCAATTTTCTTTTCTTCATTT
1 TCTTTTTCAATTTTCTTTTCTGCATTT
32928186 TCTTTTTC
1 TCTTTTTC
32928194 TCTCACTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 2 0.06
26 9 0.29
27 20 0.65
ACGTcount: A:0.10, C:0.19, G:0.02, T:0.69
Consensus pattern (27 bp):
TCTTTTTCAATTTTCTTTTCTGCATTT
Found at i:32928165 original size:6 final size:6
Alignment explanation
Indices: 32928154--32928261 Score: 67
Period size: 6 Copynumber: 17.7 Consensus size: 6
32928144 TCTTTTTTCG
* * * **
32928154 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
* * ** *
32928205 -TGATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT CGTTTT CTTTTT
1 CT-TTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
32928253 -GTTTT CTTT
1 CTTTTT CTTT
32928262 CAATTTCTCT
Statistics
Matches: 74, Mismatches: 23, Indels: 10
0.69 0.21 0.09
Matches are distributed among these distances:
5 5 0.07
6 56 0.76
7 10 0.14
8 3 0.04
ACGTcount: A:0.06, C:0.18, G:0.04, T:0.72
Consensus pattern (6 bp):
CTTTTT
Found at i:32928185 original size:14 final size:14
Alignment explanation
Indices: 32928134--32928192 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
32928124 TTTCAAACTC
*
32928134 TTTTTCAA-ATTCT
1 TTTTTCAATTTTCT
**
32928147 TTTTTCGCTTTT-T
1 TTTTTCAATTTTCT
32928160 CTTTTTCAATTTTCT
1 -TTTTTCAATTTTCT
32928175 TTTCTTC-ATTTTCT
1 TTT-TTCAATTTTCT
32928189 TTTT
1 TTTT
32928193 CTCTCACTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
13 8 0.22
14 25 0.68
15 4 0.11
ACGTcount: A:0.10, C:0.17, G:0.02, T:0.71
Consensus pattern (14 bp):
TTTTTCAATTTTCT
Found at i:32929368 original size:13 final size:12
Alignment explanation
Indices: 32929333--32929367 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
32929323 TTATACTTCA
32929333 AATTTTTTTTTG
1 AATTTTTTTTTG
32929345 AATTTTTTTTTG
1 AATTTTTTTTTG
32929357 AATTTTTTTTT
1 AATTTTTTTTT
32929368 TCAAATTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (12 bp):
AATTTTTTTTTG
Found at i:32929958 original size:20 final size:20
Alignment explanation
Indices: 32929911--32929958 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
32929901 AGTAAGCTCG
32929911 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
**** *
32929931 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
32929951 GTTGAGCT
1 GTTGAGCT
32929959 GGACGGTGCT
Statistics
Matches: 19, Mismatches: 9, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:32936467 original size:30 final size:30
Alignment explanation
Indices: 32936382--32936478 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
32936372 TAAACTAAAA
* *
32936382 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * * * *
32936412 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
*
32936442 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
32936471 ATGAGCTA
1 -TGAGCTA
32936479 GGAGTGAGCT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:32939317 original size:22 final size:22
Alignment explanation
Indices: 32939287--32939333 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
32939277 TTTGGTATTT
32939287 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
32939309 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
32939331 GGG
1 GGG
32939334 TTCAAAAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.32, C:0.04, G:0.40, T:0.23
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:32940577 original size:31 final size:32
Alignment explanation
Indices: 32940510--32940577 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 32
32940500 TAATTTCCAA
* *
32940510 TTGATATTGAGCTGAATCGTAAGTATTTGAGC
1 TTGAAATTGAGCTGAATCGTAACTATTTGAGC
*
32940542 -TGAAATTGAGCTGATTCG-AACTCA-TTGAGC
1 TTGAAATTGAGCTGAATCGTAACT-ATTTGAGC
32940572 TTGAAA
1 TTGAAA
32940578 GGAGCTGGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
30 9 0.29
31 22 0.71
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.34
Consensus pattern (32 bp):
TTGAAATTGAGCTGAATCGTAACTATTTGAGC
Found at i:32941755 original size:30 final size:30
Alignment explanation
Indices: 32941712--32941796 Score: 118
Period size: 30 Copynumber: 2.8 Consensus size: 30
32941702 TTTTTTTGTT
*
32941712 TCAATTTCTTTTTCATTTTCTTTTTCACTC
1 TCAATTTCTTTTTCATTTTCTTTTTCAATC
* *
32941742 TCAAATTTC-TTTTCGTTCTCTTTTTCAATC
1 TC-AATTTCTTTTTCATTTTCTTTTTCAATC
*
32941772 TCATTTTCTTTTTCATTTTCTTTTT
1 TCAATTTCTTTTTCATTTTCTTTTT
32941797 GCTTTTCAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 5 0.11
30 36 0.77
31 6 0.13
ACGTcount: A:0.13, C:0.21, G:0.01, T:0.65
Consensus pattern (30 bp):
TCAATTTCTTTTTCATTTTCTTTTTCAATC
Found at i:32941803 original size:12 final size:12
Alignment explanation
Indices: 32941710--32941796 Score: 59
Period size: 12 Copynumber: 7.2 Consensus size: 12
32941700 GTTTTTTTTG
*
32941710 TTTCAATTTCTT
1 TTTCATTTTCTT
32941722 TTTCATTTTCTT
1 TTTCATTTTCTT
* * **
32941734 TTTCACTCTCAAA
1 TTTCATTTTC-TT
*
32941747 TTTC-TTTTCGT
1 TTTCATTTTCTT
* * **
32941758 TCTCTTTTTCAA
1 TTTCATTTTCTT
*
32941770 TCTCATTTTCTT
1 TTTCATTTTCTT
32941782 TTTCATTTTCTT
1 TTTCATTTTCTT
32941794 TTT
1 TTT
32941797 GCTTTTCAAA
Statistics
Matches: 57, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
11 3 0.05
12 50 0.88
13 4 0.07
ACGTcount: A:0.13, C:0.21, G:0.01, T:0.66
Consensus pattern (12 bp):
TTTCATTTTCTT
Found at i:32941875 original size:5 final size:5
Alignment explanation
Indices: 32941865--32941921 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
32941855 CTCTTGCCTC
*
32941865 TCTTT TCTTT T-TATT TCGTTT TCTTT T-TCT TCTTT TACTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
32941912 TCTTT TCTTT
1 TCTTT TCTTT
32941922 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:32941905 original size:15 final size:14
Alignment explanation
Indices: 32941865--32941921 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
32941855 CTCTTGCCTC
*
32941865 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
32941880 TCGTTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
32941895 TCTTTTACTTTTTCTTT
1 TCTTTT-CTTTTTC--T
32941912 TCTTTTCTTT
1 TCTTTTCTTT
32941922 GTTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:32941931 original size:21 final size:20
Alignment explanation
Indices: 32941863--32941932 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
32941853 GCCTCTTGCC
32941863 TCTCTTTTCTTTTTATTTCGTTT
1 TCTCTTTTC-TTTT-TTT-GTTT
**
32941886 TCT-TTTTCTTCTTTTACTTT
1 TCTCTTTTCTT-TTTTTGTTT
32941906 T-TCTTTTCTTTTCTTTGTTT
1 TCTCTTTTCTTTT-TTTGTTT
32941926 TCTCTTT
1 TCTCTTT
32941933 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
19 3 0.08
20 17 0.44
21 9 0.23
22 7 0.18
23 3 0.08
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.76
Consensus pattern (20 bp):
TCTCTTTTCTTTTTTTGTTT
Found at i:32946297 original size:30 final size:30
Alignment explanation
Indices: 32946211--32946306 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
32946201 TAAACTAAAA
* *
32946211 TGAGCTAA-GTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAACTCGTGAGCTGAAGT
* * * * *
32946240 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAACTCGTGAGCTGAAGT
* *
32946270 TGAGCTAAGGTTTACCTCGTGACCTGAA-T
1 TGAGCTAAGGTTTAACTCGTGAGCTGAAGT
32946299 ATGAGCTA
1 -TGAGCTA
32946307 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 14, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
29 8 0.16
30 43 0.84
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAACTCGTGAGCTGAAGT
Found at i:32947052 original size:11 final size:11
Alignment explanation
Indices: 32947036--32947061 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
32947026 TAATGTATTA
32947036 AAATAGTTCAT
1 AAATAGTTCAT
32947047 AAATAGTTCAT
1 AAATAGTTCAT
32947058 AAAT
1 AAAT
32947062 GAGATTGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (11 bp):
AAATAGTTCAT
Found at i:32947589 original size:18 final size:18
Alignment explanation
Indices: 32947568--32947630 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
32947558 AGTCTCTCTC
*
32947568 TCTTTTTCAATCTTCTTT
1 TCTTTTTCAATATTCTTT
**
32947586 TCTTGATCAA-ATTCTTTT
1 TCTTTTTCAATATTC-TTT
* *
32947604 TCTTTTTCAATTTTATTTT
1 TCTTTTTCAATATT-CTTT
32947623 TCTTTTTC
1 TCTTTTTC
32947631 TCATCCTCTT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
17 3 0.09
18 19 0.54
19 13 0.37
ACGTcount: A:0.14, C:0.17, G:0.02, T:0.67
Consensus pattern (18 bp):
TCTTTTTCAATATTCTTT
Found at i:32947696 original size:17 final size:17
Alignment explanation
Indices: 32947642--32947697 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
32947632 CATCCTCTTT
* *
32947642 TTTCTCTCTTTCACACTC
1 TTTCT-TCTTTCAAATTC
*
32947660 TTT-TTCTTTC-ATTTC
1 TTTCTTCTTTCAAATTC
32947675 TTTTCTTCTTTCAAATTC
1 -TTTCTTCTTTCAAATTC
32947693 TTTCT
1 TTTCT
32947698 CACATGCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
15 2 0.06
16 9 0.29
17 13 0.42
18 7 0.23
ACGTcount: A:0.11, C:0.27, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTCTTCTTTCAAATTC
Found at i:32951117 original size:20 final size:20
Alignment explanation
Indices: 32951071--32951117 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
32951061 AGCTCGTTTC
*
32951071 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
32951091 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
32951111 CAGCTCA
1 CAGCTCA
32951118 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:32955153 original size:12 final size:12
Alignment explanation
Indices: 32955136--32955195 Score: 84
Period size: 12 Copynumber: 4.8 Consensus size: 12
32955126 TTGTAGATTC
32955136 AAAAAAAAATTG
1 AAAAAAAAATTG
*
32955148 AAAAAAAAATCG
1 AAAAAAAAATTG
32955160 AAAAAAAAAATTG
1 -AAAAAAAAATTG
32955173 AAAAAAAAATTTTG
1 AAAAAAAAA--TTG
32955187 AAAAAAAAA
1 AAAAAAAAA
32955196 ATTGCATACG
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
12 20 0.47
13 11 0.26
14 12 0.28
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.15
Consensus pattern (12 bp):
AAAAAAAAATTG
Found at i:32955154 original size:13 final size:13
Alignment explanation
Indices: 32955136--32955199 Score: 94
Period size: 13 Copynumber: 4.9 Consensus size: 13
32955126 TTGTAGATTC
32955136 AAAAAAAAATTG-
1 AAAAAAAAATTGA
*
32955148 AAAAAAAAATCGA
1 AAAAAAAAATTGA
32955161 AAAAAAAAATTGA
1 AAAAAAAAATTGA
*
32955174 AAAAAAAATTTTGA
1 AAAAAAAA-ATTGA
32955188 AAAAAAAAATTG
1 AAAAAAAAATTG
32955200 CATACGGTCT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
12 11 0.24
13 23 0.50
14 12 0.26
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.17
Consensus pattern (13 bp):
AAAAAAAAATTGA
Found at i:32962333 original size:20 final size:20
Alignment explanation
Indices: 32962310--32962356 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
32962300 GGGTTAAGAT
*
32962310 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
32962330 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
32962350 TGAGCTG
1 TGAGCTG
32962357 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:32965749 original size:18 final size:18
Alignment explanation
Indices: 32965728--32965778 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
32965718 TTTTCTCTCA
32965728 CTTTTTCGATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
* *
32965746 CTTTTGCAATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
*
32965764 CTTTTT-GTTTTCTTT
1 CTTTTTCGATTTCTTT
32965779 CAATTTCTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 7 0.25
18 21 0.75
ACGTcount: A:0.06, C:0.16, G:0.06, T:0.73
Consensus pattern (18 bp):
CTTTTTCGATTTCTTTTT
Found at i:32966842 original size:21 final size:21
Alignment explanation
Indices: 32966794--32966849 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
32966784 GCAAGACTTT
*
32966794 TCACTTTTTTTTTCTTCTTTTT
1 TCAC-TTTTTTTTCTTCTTTTC
*
32966816 TTACTTTTTTTTCTT-TTTTAC
1 TCACTTTTTTTTCTTCTTTT-C
32966837 TCACTTCTTTTTT
1 TCACTT-TTTTTT
32966850 TTCGATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 4 0.14
21 16 0.55
22 9 0.31
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (21 bp):
TCACTTTTTTTTCTTCTTTTC
Found at i:32968589 original size:30 final size:30
Alignment explanation
Indices: 32968555--32968651 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
32968545 TAAACTAAAA
32968555 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
32968585 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
*
32968615 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
32968644 ATGAGCTA
1 -TGAGCTA
32968652 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
29 3 0.06
30 45 0.88
31 3 0.06
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:32970809 original size:12 final size:12
Alignment explanation
Indices: 32970794--32970824 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
32970784 TTCTTTTTGC
32970794 TTTTCAAAGGCT
1 TTTTCAAAGGCT
32970806 TTTTCAAAGGCT
1 TTTTCAAAGGCT
32970818 TTTTCAA
1 TTTTCAA
32970825 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Done.