Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 53 of 126
Found at i:15429754 original size:26 final size:26
Alignment explanation
Indices: 15429682--15429757 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
15429672 ACATATTTTC
* * *
15429682 TCAAAATTTTACCAGGGGCAAAATCA
1 TCAAAATTTTTCTAGGGGTAAAATCA
** *
15429708 TCAAAATTTTTCTAGATGTAAAATCG
1 TCAAAATTTTTCTAGGGGTAAAATCA
15429734 TCAAAATTTTGT-TAGGGGTAAAAT
1 TCAAAATTTT-TCTAGGGGTAAAAT
15429758 AGGGATGAGA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 40 0.98
27 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (26 bp):
TCAAAATTTTTCTAGGGGTAAAATCA
Found at i:15434562 original size:22 final size:22
Alignment explanation
Indices: 15434532--15434573 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
15434522 ACACCAAAAC
*
15434532 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
*
15434554 AGGCCTTTAGCGGTGCTTTT
1 AGGCCTTTAGCGGCGCTTTT
15434574 ACCACTAACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.10, C:0.19, G:0.29, T:0.43
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:15434626 original size:42 final size:41
Alignment explanation
Indices: 15434558--15434718 Score: 139
Period size: 42 Copynumber: 3.8 Consensus size: 41
15434548 TTTTTTAGGC
* * * *
15434558 CTTTAGCGGTGCTTTTACCACTAACGCCACTAAAGACCTATT
1 CTTTAGCGGCGC-TTTATCACAAACGCCGCTAAAGACCTATT
* *
15434600 CTTTAGCGGCGCTTTCCTCTCAAACGCCGC-AATAGACTCTGA-T
1 CTTTAGCGGCGCTTT-ATCACAAACGCCGCTAA-AGAC-CT-ATT
*
15434643 CTGTAGCGGCGCTTTATCACAAACGCCGCTAAAGACCCT-TAT
1 CTTTAGCGGCGCTTTATCACAAACGCCGCTAAAGA-CCTAT-T
* * *
15434685 CTTTAGCGGCGCTTTGACCAAAAACGCCACTAAA
1 CTTTAGCGGCGCTTT-ATCACAAACGCCGCTAAA
15434719 AAGGCCAACA
Statistics
Matches: 97, Mismatches: 13, Indels: 17
0.76 0.10 0.13
Matches are distributed among these distances:
41 5 0.05
42 56 0.58
43 35 0.36
44 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (41 bp):
CTTTAGCGGCGCTTTATCACAAACGCCGCTAAAGACCTATT
Found at i:15435065 original size:21 final size:21
Alignment explanation
Indices: 15435039--15435130 Score: 114
Period size: 21 Copynumber: 4.4 Consensus size: 21
15435029 TTTGACGCTG
*
15435039 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTTCAGC
15435060 CTCTGCTTCCCTCGCTTCAGC
1 CTCTGCTTCCCTCGCTTCAGC
*
15435081 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTTCAGC
* * * *
15435102 CTGTACTTCTCTCGCTGCTA-C
1 CTCTGCTTCCCTCGCTTC-AGC
15435123 CTCTGCTT
1 CTCTGCTT
15435131 GTCTTGTTGC
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
21 62 0.98
22 1 0.02
ACGTcount: A:0.05, C:0.43, G:0.15, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTTCAGC
Found at i:15435214 original size:66 final size:66
Alignment explanation
Indices: 15435142--15435287 Score: 179
Period size: 66 Copynumber: 2.2 Consensus size: 66
15435132 TCTTGTTGCC
* * *
15435142 GCATCTACTTTAAGCTGCT-GCTGGAGTTGTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGCT
1 GCATCTACTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTTGAACCTCAACTTCTCTCGAT
15435205 GCT
64 GCT
* * * *
15435208 GCATCTACTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTCAACTTCTCTCGATGT
1 GCATCTACTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTCAACTTCTCTCGATGC
15435273 T
66 T
**
15435274 GCATCCGCTTTAAG
1 GCATCTACTTTAAG
15435288 TTGTGTAATT
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
65 1 0.01
66 63 0.93
67 4 0.06
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (66 bp):
GCATCTACTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTCAACTTCTCTCGATGC
T
Found at i:15445975 original size:35 final size:36
Alignment explanation
Indices: 15445927--15445996 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 36
15445917 CAACTTTTAA
*
15445927 TTTGTAATATTATAATATTT-ATTTTTTTGTATAAAG
1 TTTGTAATATTATAATATTTAATTTTATTG-ATAAAG
*
15445963 TTTG-AATTTTATAATATTTAATTTTATTGATAAA
1 TTTGTAATATTATAATATTTAATTTTATTGATAAA
15445997 TAAATAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
35 19 0.61
36 12 0.39
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (36 bp):
TTTGTAATATTATAATATTTAATTTTATTGATAAAG
Found at i:15446181 original size:7 final size:7
Alignment explanation
Indices: 15446159--15446198 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
15446149 CCCAAATCCA
15446159 TAACCCC
1 TAACCCC
15446166 TTAACCCC
1 -TAACCCC
*
15446174 TTACCCC
1 TAACCCC
15446181 TAATCCCC
1 TAA-CCCC
15446189 TAACCCC
1 TAACCCC
15446196 TAA
1 TAA
15446199 AGCATAACCC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 15 0.52
8 14 0.48
ACGTcount: A:0.28, C:0.50, G:0.00, T:0.23
Consensus pattern (7 bp):
TAACCCC
Found at i:15446197 original size:15 final size:15
Alignment explanation
Indices: 15446141--15446198 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
15446131 ACCGTTGAAA
*
15446141 CCCTAAACCCCAAAT-
1 CCCT-AACCCCTAATC
*
15446156 CCATAACCCCTTAA-C
1 CCCTAACCCC-TAATC
*
15446171 CCCTTACCCCTAATC
1 CCCTAACCCCTAATC
15446186 CCCTAACCCCTAA
1 CCCTAACCCCTAA
15446199 AGCATAACCC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 9 0.26
15 26 0.74
ACGTcount: A:0.31, C:0.50, G:0.00, T:0.19
Consensus pattern (15 bp):
CCCTAACCCCTAATC
Found at i:15446376 original size:37 final size:38
Alignment explanation
Indices: 15446335--15446406 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 38
15446325 CATAACCCCC
* * *
15446335 TAACCCTTTACCCCTAAATCCC-TTAACCCCTAAAGCA
1 TAACCCTTAAACCCTAAATCCCACTAACCCCTAAAGCA
15446372 TAACCCTTAAACCCTAAATCCCACTAACCCCTAAA
1 TAACCCTTAAACCCTAAATCCCACTAACCCCTAAA
15446407 CATCAAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 20 0.65
38 11 0.35
ACGTcount: A:0.36, C:0.40, G:0.01, T:0.22
Consensus pattern (38 bp):
TAACCCTTAAACCCTAAATCCCACTAACCCCTAAAGCA
Found at i:15448285 original size:41 final size:42
Alignment explanation
Indices: 15448221--15448541 Score: 151
Period size: 41 Copynumber: 7.8 Consensus size: 42
15448211 TTTTGTTACT
* ** *
15448221 ATTAGCGGCGCTTCGGCAAAAACGCCGCTAAAGGTA-AATA-C
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGG-ACAATAGA
* *
15448262 ATTAGCGGCGCTTAGATACAAACGCCGCTGAA-GACAATAGA
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGACAATAGA
* * * * *** *
15448303 ATTAGTGGCGCTCAGTTAGAAACGCCGCTAAA-GACCCGAGT
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGACAATAGA
* * * * *** *
15448344 ATTAGCGGCTCATAGACAAAAACGTCGCTAAA-GACCCGAGC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGACAATAGA
* * *** *
15448385 ATTAGCGGCGCATAGACAAAAACGCCGCTAAA-GACTCGAGC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGACAATAGA
** * *** *
15448426 ATTAGCGGCGCTTAGACGAAATCGCCGCTAAA-GATC-GGGGC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGA-CAATAGA
* * * * *
15448467 ATTAGCGGCGTTTTTG-TGAAAGCGCCGCTAAA-GATCAA-AGC
1 ATTAGCGGCG-CTTAGATAAAAACGCCGCTAAAGGA-CAATAGA
* *
15448508 ATTAGCGGCGCTTACACAAAAACGCCGCTAAAGG
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGG
15448542 TTTAAAAAAT
Statistics
Matches: 229, Mismatches: 44, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
39 1 0.00
40 7 0.03
41 216 0.94
42 5 0.02
ACGTcount: A:0.33, C:0.24, G:0.26, T:0.17
Consensus pattern (42 bp):
ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGACAATAGA
Found at i:15448367 original size:82 final size:82
Alignment explanation
Indices: 15448261--15448540 Score: 233
Period size: 82 Copynumber: 3.4 Consensus size: 82
15448251 AAGGTAAATA
* * * * * ** *
15448261 CATTAGCGGCGCTTAGATACAAACGCCGCTGAAGACAATAGAATTAGTGGCGC-TCAGTTAGAAA
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGACAAGAGAATTAGCGGCGCAT-AGACAAAAA
15448325 CGCCGCTAAAGACCCGAG
65 CGCCGCTAAAGACCCGAG
* * * * ** *
15448343 TATTAGCGGCTCATAGACAAAAACGTCGCTAAAGACCCGAGCATTAGCGGCGCATAGACAAAAAC
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGACAAGAGAATTAGCGGCGCATAGACAAAAAC
*
15448408 GCCGCTAAAGACTCGAG
66 GCCGCTAAAGACCCGAG
* * * * * ** * **
15448425 CATTAGCGGCGCTTAGACGAAATCGCCGCTAAAGATC-GGGGCATTAGCGGCGTTTTTG-TGAAA
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGA-CAAGAGAATTAGCGGCG-CATAGACAAAA
* * **
15448488 GCGCCGCTAAAGATCAAAG
64 ACGCCGCTAAAGACCCGAG
*
15448507 CATTAGCGGCGCTTACACAAAAACGCCGCTAAAG
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTAAAG
15448541 GTTTAAAAAA
Statistics
Matches: 158, Mismatches: 37, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
82 154 0.97
83 4 0.03
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.17
Consensus pattern (82 bp):
CATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGACAAGAGAATTAGCGGCGCATAGACAAAAAC
GCCGCTAAAGACCCGAG
Found at i:15448452 original size:123 final size:122
Alignment explanation
Indices: 15448236--15448540 Score: 292
Period size: 123 Copynumber: 2.5 Consensus size: 122
15448226 CGGCGCTTCG
** * * * * *
15448236 GCAAAAACGCCGCTAAAG-GTAAATACATTAGCGGCGCTTAGATACAAACGCCGCTGAAGACAAT
1 GCAAAAACGCCGCTAAAGACCAAA-GCATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGACAAG
* *
15448300 AGAATTAGTGGCGCTCAGTTAGAAACGCCGCTAAAGACCCGAGTATTAGCGGC-TCATA
65 AGAATTAGCGGCGCTCAG-TAGAAACGCCGCTAAAGACCCGAGCATTAGCGGCGTCATA
* ** * **
15448358 GACAAAAACGTCGCTAAAGACCCGAGCATTAGCGGCGCATAGACAAAAACGCCGCTAAAGACTCG
1 G-CAAAAACGCCGCTAAAGACCAAAGCATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGACAAG
* * * * * ** *
15448423 AGCATTAGCGGCGCTTAG-ACGAAATCGCCGCTAAAGATCGGGGCATTAGCGGCGTTTTT
65 AGAATTAGCGGCGCTCAGTA-GAAA-CGCCGCTAAAGACCCGAGCATTAGCGGCGTCATA
** * * *
15448482 GTGAAAGCGCCGCTAAAGATCAAAGCATTAGCGGCGCTTACACAAAAACGCCGCTAAAG
1 GCAAAAACGCCGCTAAAGACCAAAGCATTAGCGGCGCTTAGACAAAAACGCCGCTAAAG
15448541 GTTTAAAAAA
Statistics
Matches: 146, Mismatches: 32, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
121 1 0.01
122 5 0.03
123 136 0.93
124 4 0.03
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (122 bp):
GCAAAAACGCCGCTAAAGACCAAAGCATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGACAAGA
GAATTAGCGGCGCTCAGTAGAAACGCCGCTAAAGACCCGAGCATTAGCGGCGTCATA
Found at i:15448671 original size:40 final size:40
Alignment explanation
Indices: 15448620--15448695 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
15448610 AATTCCTAGT
*
15448620 TTTAGCGGCGCTTCCGGAT-AATCGCCGCTGATGCTCTTCC
1 TTTAGCGGCGCTT-CGGATAAATCGCCGCTAATGCTCTTCC
* *
15448660 TTTAGCGGCGCTTTGGCTAAATCGCCGCTAATGCTC
1 TTTAGCGGCGCTTCGGATAAATCGCCGCTAATGCTC
15448696 GATTTTTTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 3 0.09
40 29 0.91
ACGTcount: A:0.14, C:0.30, G:0.25, T:0.30
Consensus pattern (40 bp):
TTTAGCGGCGCTTCGGATAAATCGCCGCTAATGCTCTTCC
Found at i:15460801 original size:22 final size:23
Alignment explanation
Indices: 15460751--15460795 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
15460741 ATAAAGATAT
* *
15460751 AATTTATAATATATAAAATTTTA
1 AATTAATAATATATAAAATTGTA
15460774 AATTAATAATA-ATAAAATTGTA
1 AATTAATAATATATAAAATTGTA
15460796 CTTTAAACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
AATTAATAATATATAAAATTGTA
Found at i:15460868 original size:17 final size:18
Alignment explanation
Indices: 15460843--15460879 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
15460833 TATTTTAAAA
15460843 ATTATAAAT-ATATAAATT
1 ATTATAAATAATA-AAATT
15460861 ATTA-AAATAATAAAATT
1 ATTATAAATAATAAAATT
15460878 AT
1 AT
15460880 ATTTGTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTATAAATAATAAAATT
Found at i:15462118 original size:21 final size:18
Alignment explanation
Indices: 15462059--15462123 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 18
15462049 ATTATTTTTT
*
15462059 AAAATTAAAAAATATAAAA
1 AAAATT-AAAATTATAAAA
*
15462078 AAAATTAAAATTATTTAAA
1 AAAATTAAAATTA-TAAAA
*
15462097 AAAGTATACAAATTAT-AAA
1 AAAAT-TA-AAATTATAAAA
15462116 AAAATTAA
1 AAAATTAA
15462124 TATTTTTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 1 0.03
18 8 0.21
19 21 0.54
20 3 0.08
21 6 0.15
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (18 bp):
AAAATTAAAATTATAAAA
Found at i:15470563 original size:13 final size:14
Alignment explanation
Indices: 15470540--15470581 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
15470530 TTAAATTTTA
15470540 TTTTAATAATAA-AT
1 TTTTAA-AATAATAT
15470554 TTTTAAAATAATAT
1 TTTTAAAATAATAT
*
15470568 ATTT-AAATAATAT
1 TTTTAAAATAATAT
15470581 T
1 T
15470582 CTTCACATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTTAAAATAATAT
Found at i:15470579 original size:16 final size:15
Alignment explanation
Indices: 15470538--15470579 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
15470528 ATTTAAATTT
15470538 TATTTTAATAATAAA
1 TATTTTAATAATAAA
15470553 T-TTTTAA-AATAATA
1 TATTTTAATAATAA-A
*
15470567 TATTTAAATAATA
1 TATTTTAATAATA
15470580 TTCTTCACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 5 0.22
14 8 0.35
15 6 0.26
16 4 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TATTTTAATAATAAA
Found at i:15477545 original size:21 final size:21
Alignment explanation
Indices: 15477521--15477562 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
15477511 AGCCATCGGG
*
15477521 CCTAGCCGGGTAGCCCAACGA
1 CCTAGCCGGGTAACCCAACGA
15477542 CCTAGCCGGGTAACCCAACGA
1 CCTAGCCGGGTAACCCAACGA
15477563 ATAATCACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.38, G:0.26, T:0.10
Consensus pattern (21 bp):
CCTAGCCGGGTAACCCAACGA
Found at i:15478174 original size:26 final size:26
Alignment explanation
Indices: 15478138--15478188 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
15478128 TACTAAGTTG
15478138 ACTTAAACTTATAAGCTTCCTGCTCT
1 ACTTAAACTTATAAGCTTCCTGCTCT
15478164 ACTTAAACTTATAAGCTTCCTGCTC
1 ACTTAAACTTATAAGCTTCCTGCTC
15478189 AAATTGCAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.37
Consensus pattern (26 bp):
ACTTAAACTTATAAGCTTCCTGCTCT
Found at i:15482499 original size:17 final size:17
Alignment explanation
Indices: 15482477--15482510 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
15482467 TAAATTCATA
15482477 TAAGAACATT-TTATTAT
1 TAAGAA-ATTGTTATTAT
15482494 TAAGAAATTGTTATTAT
1 TAAGAAATTGTTATTAT
15482511 GATTGATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (17 bp):
TAAGAAATTGTTATTAT
Found at i:15482537 original size:16 final size:16
Alignment explanation
Indices: 15482513--15482543 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15482503 GTTATTATGA
*
15482513 TTGATTAAAAAACAAC
1 TTGAGTAAAAAACAAC
15482529 TTGAGTAAAAAACAA
1 TTGAGTAAAAAACAA
15482544 GTATTTGGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.10, G:0.10, T:0.23
Consensus pattern (16 bp):
TTGAGTAAAAAACAAC
Found at i:15485880 original size:24 final size:25
Alignment explanation
Indices: 15485845--15485892 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
15485835 TTATGAAATT
15485845 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
15485869 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
15485893 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:15486046 original size:66 final size:63
Alignment explanation
Indices: 15485971--15486181 Score: 192
Period size: 66 Copynumber: 3.4 Consensus size: 63
15485961 AAATATATTT
15485971 AATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-ATTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
15486036 G
63 G
* * * * **
15486037 AATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
*
15486091 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
15486155 AG
62 AG
*
15486157 AATATTAATTATTAAGAATTTTATT
1 AATATTAATTATTTA-AATTTTATT
15486182 AAATTATATA
Statistics
Matches: 113, Mismatches: 15, Indels: 35
0.69 0.09 0.21
Matches are distributed among these distances:
53 5 0.04
54 13 0.12
55 5 0.04
56 4 0.04
57 3 0.03
58 1 0.01
59 10 0.09
60 8 0.07
61 10 0.09
62 1 0.01
63 3 0.03
64 4 0.04
65 9 0.08
66 32 0.28
67 5 0.04
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (63 bp):
AATATTAATTATTTAAATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:15486071 original size:120 final size:120
Alignment explanation
Indices: 15485933--15486225 Score: 502
Period size: 120 Copynumber: 2.4 Consensus size: 120
15485923 AATTATTTTA
* * *
15485933 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-AT
*
15485995 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
15486053 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
15486118 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
15486173 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
15486226 TAAATATGAT
Statistics
Matches: 166, Mismatches: 4, Indels: 6
0.94 0.02 0.03
Matches are distributed among these distances:
119 6 0.04
120 158 0.95
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:15486093 original size:15 final size:15
Alignment explanation
Indices: 15486058--15486109 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
15486048 TTAAGAATTT
*
15486058 TATTAAATTAT-ATA
1 TATTTAATTATAATA
15486072 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
15486086 TATTTAATAATAAT-
1 TATTTAATTATAATA
15486100 TATGTTAATT
1 TAT-TTAATT
15486110 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:15486208 original size:16 final size:16
Alignment explanation
Indices: 15486187--15486228 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
15486177 TTATTAAATT
*
15486187 ATATATTTTAATTATA
1 ATATATTTTAATAATA
15486203 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
15486218 AT-TATGTTTAA
1 ATATAT-TTTAA
15486229 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:15486213 original size:15 final size:15
Alignment explanation
Indices: 15486178--15486219 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
15486168 TTAAGAATTT
*
15486178 TATTAAATTAT-ATA
1 TATTTAATTATAATA
15486192 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
15486206 TATTTAATAATAAT
1 TATTTAATTATAAT
15486220 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:15486340 original size:157 final size:157
Alignment explanation
Indices: 15486162--15486478 Score: 589
Period size: 157 Copynumber: 2.0 Consensus size: 157
15486152 ATAAGAATAT
*
15486162 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
15486227 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
15486292 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
15486319 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
15486384 AAATATGATTAAATTATTTATTATTGATAATAATAATTTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
15486449 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
15486476 TAA
1 TAA
15486479 GGGTATTTTA
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 155 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:15486359 original size:18 final size:17
Alignment explanation
Indices: 15486331--15486365 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15486321 ATTATTAAGA
*
15486331 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
15486348 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
15486366 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:15486399 original size:75 final size:75
Alignment explanation
Indices: 15486163--15486401 Score: 191
Period size: 75 Copynumber: 3.1 Consensus size: 75
15486153 TAAGAATATT
*
15486163 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
15486228 AATATGATTA
66 AATATGATTA
* ** * * * * *
15486238 AATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATT
1 AATTATTAAGAATT-TTATT-A-AA--TTA-TATATTTTAATTAA-AATATATTTAATAATAATT
**** * * *
15486300 -TACCAAAACAAAT-TTCTGCT
59 AT-GTTTAA-ATATGAT-T--A
15486320 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
15486385 AATATGATTA
66 AATATGATTA
15486395 AATTATT
1 AATTATT
15486402 TATTATTGAT
Statistics
Matches: 116, Mismatches: 31, Indels: 34
0.64 0.17 0.19
Matches are distributed among these distances:
75 22 0.19
76 16 0.14
77 8 0.07
78 16 0.14
79 16 0.14
80 8 0.07
81 15 0.13
82 15 0.13
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:15486623 original size:16 final size:16
Alignment explanation
Indices: 15486602--15486637 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
15486592 AATTTACTAT
*
15486602 TACACCTCTAATTTAA
1 TACACCTCTAATCTAA
15486618 TACACCTCTAATCTAA
1 TACACCTCTAATCTAA
15486634 TACA
1 TACA
15486638 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.28, G:0.00, T:0.33
Consensus pattern (16 bp):
TACACCTCTAATCTAA
Found at i:15488318 original size:16 final size:16
Alignment explanation
Indices: 15488319--15488351 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
15488309 TGTATTGGAT
*
15488319 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
15488335 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
15488351 T
1 T
15488352 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:15488324 original size:21 final size:21
Alignment explanation
Indices: 15488298--15488338 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
15488288 TTCGCTGTAC
*
15488298 TGGATTAGAGGTGTATTGGAT
1 TGGATTAGAGGTGTAATGGAT
15488319 TGGATTAGAGGTGTAATGGA
1 TGGATTAGAGGTGTAATGGA
15488339 ATAGAGGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.39, T:0.34
Consensus pattern (21 bp):
TGGATTAGAGGTGTAATGGAT
Found at i:15488396 original size:45 final size:44
Alignment explanation
Indices: 15488330--15488424 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
15488320 GGATTAGAGG
* *
15488330 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
15488375 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
15488419 TGTAAT
1 TGTAAT
15488425 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:15488607 original size:18 final size:17
Alignment explanation
Indices: 15488586--15488620 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15488576 TTATTATTTA
*
15488586 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
15488604 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
15488621 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:15488614 original size:28 final size:27
Alignment explanation
Indices: 15488544--15488616 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
15488534 TTTATTATCA
*
15488544 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
15488572 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
15488599 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
15488617 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:15488733 original size:144 final size:147
Alignment explanation
Indices: 15488505--15488776 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
15488495 ATGATTATTG
15488505 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
15488570 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
15488635 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
15488654 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
15488716 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
15488777 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:15488751 original size:18 final size:17
Alignment explanation
Indices: 15488730--15488764 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15488720 TTATTATTAA
*
15488730 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
15488748 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
15488765 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:15499905 original size:43 final size:43
Alignment explanation
Indices: 15499851--15499935 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
15499841 AAATAAAAAA
* * * *
15499851 AAGTCGTGGTTTTTTT-TTATTCTTTTTCTTTATTTTGTTTTTG
1 AAGTAGTGGTTTTTTTATT-TTATTTTTCTCTATGTTGTTTTTG
15499894 AAGTAGTGGTTTTTTTATTTTATTTTTCTCTATGTTGTTTTT
1 AAGTAGTGGTTTTTTTATTTTATTTTTCTCTATGTTGTTTTT
15499936 ATTATTAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 35 0.95
44 2 0.05
ACGTcount: A:0.12, C:0.06, G:0.14, T:0.68
Consensus pattern (43 bp):
AAGTAGTGGTTTTTTTATTTTATTTTTCTCTATGTTGTTTTTG
Found at i:15501101 original size:5 final size:5
Alignment explanation
Indices: 15501086--15501119 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
15501076 AAAATATGAA
15501086 GCCCGG GCCCG GCCCG GCCCG GCCCG GCCCG GCC
1 GCCC-G GCCCG GCCCG GCCCG GCCCG GCCCG GCC
15501120 TTTTTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 24 0.86
6 4 0.14
ACGTcount: A:0.00, C:0.59, G:0.41, T:0.00
Consensus pattern (5 bp):
GCCCG
Found at i:15504799 original size:21 final size:21
Alignment explanation
Indices: 15504757--15504802 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
15504747 CTTGTACAAA
*
15504757 GTATTGATATCTTTGTAATAG
1 GTATTGATATCTGTGTAATAG
*
15504778 GTATTGATAT-TGTGTTATTAG
1 GTATTGATATCTGTG-TAATAG
15504799 GTAT
1 GTAT
15504803 CGATGCCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.26, C:0.02, G:0.22, T:0.50
Consensus pattern (21 bp):
GTATTGATATCTGTGTAATAG
Found at i:15507108 original size:40 final size:40
Alignment explanation
Indices: 15507053--15507313 Score: 459
Period size: 40 Copynumber: 6.5 Consensus size: 40
15507043 AGGCTTGTGC
15507053 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
*
15507093 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACAT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
15507133 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
* *
15507173 CTACCAGGTTTAATGCCGGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
*
15507213 ATAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
* *
15507253 CTAGCAGACTTAATGCCAGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
*
15507293 CTAGCAGGCTTCATGCCGGTG
1 CTAGCAGGCTTAATGCCGGTG
15507314 TACGGAATCA
Statistics
Matches: 208, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 208 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
Found at i:15509674 original size:40 final size:40
Alignment explanation
Indices: 15509619--15509715 Score: 185
Period size: 40 Copynumber: 2.4 Consensus size: 40
15509609 AGGCTTGTGC
*
15509619 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACAT
15509659 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACAT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACAT
15509699 CTAGCAGGCTTAATGCC
1 CTAGCAGGCTTAATGCC
15509716 AGTGTACGGA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACAT
Found at i:15541093 original size:16 final size:16
Alignment explanation
Indices: 15541072--15541120 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
15541062 AAATAACACG
15541072 TTTAAATTTAAAAATA
1 TTTAAATTTAAAAATA
* *
15541088 TTTAAAATTAAAAAAA
1 TTTAAATTTAAAAATA
*
15541104 ATTAAATCTTATAAAAT
1 TTTAAAT-TTA-AAAAT
15541121 CAAACATGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 19 0.73
17 3 0.12
18 4 0.15
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (16 bp):
TTTAAATTTAAAAATA
Found at i:15543652 original size:14 final size:14
Alignment explanation
Indices: 15543633--15543670 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
15543623 AATAATACTA
*
15543633 TTTAAAATTATTAT
1 TTTAAAATAATTAT
15543647 TTTAAAA-AATTAT
1 TTTAAAATAATTAT
15543660 TATTAAAATAA
1 T-TTAAAATAA
15543671 AATTGAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 6 0.29
14 13 0.62
15 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TTTAAAATAATTAT
Found at i:15543725 original size:16 final size:16
Alignment explanation
Indices: 15543679--15543728 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
15543669 AAAATTGAAA
15543679 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
**
15543696 A-A--AATAATAAATT
1 ATATTAATAATTTATT
15543709 ATATTAATAATTTATT
1 ATATTAATAATTTATT
15543725 ATAT
1 ATAT
15543729 GACTTAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
16 14 0.54
17 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:15544491 original size:14 final size:14
Alignment explanation
Indices: 15544472--15544509 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
15544462 AATAATACTA
*
15544472 TTTAAAATTATTAT
1 TTTAAAATAATTAT
15544486 TTTAAAA-AATTAT
1 TTTAAAATAATTAT
15544499 TATTAAAATAA
1 T-TTAAAATAA
15544510 AATTGAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 6 0.29
14 13 0.62
15 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TTTAAAATAATTAT
Found at i:15544515 original size:73 final size:75
Alignment explanation
Indices: 15544419--15544752 Score: 195
Period size: 76 Copynumber: 4.3 Consensus size: 75
15544409 TAATAAATAT
15544419 TTATTATTAAAATAGTAATATTGAATATTTTTAATAATATGTGAATAATACTAT-TTAA-AATTA
1 TTATTATTAAAATA--AA-ATTGAATATTTTTAATAATATGTGAATAATACTATATTAATAATTA
15544482 TTATTTTAAAAAA
63 TTATTTTAAAAAA
* * * * *
15544495 TTATTATTAAAATAAAATTGAAAATATTAAATAATTTAT-TAAAATAATAAATTATATTAATAA-
1 TTATTATTAAAATAAAATTGAATATTTTTAATAA--TATGT-GAATAAT--ACTATATTAATAAT
* ** *
15544558 T-TTATTAT-ATGAC
61 TATTATTTTAAAAAA
* * * * ** * * * *
15544571 TTAATATAAATAATTAAAAATG--TATGTTTAATCTTTATACT-ACAAAACATTTATTATTAATA
1 TTATTATTAA-AA-TAAAATTGAATATTTTTAAT-AATAT-GTGA-ATAATA-CTA-TATTAATA
* *
15544633 TATTTATAATTGTAATAAATA
59 -A-TTATTATTTTAA-AAA-A
15544654 TTTATTATTAAAATAGTAATATTGAATATTTTTAATAATATGTGAATAATACTAT-TTAA-AATT
1 -TTATTATTAAAATA--AA-ATTGAATATTTTTAATAATATGTGAATAATACTATATTAATAATT
15544717 ATTATTTTAAAAAA
62 ATTATTTTAAAAAA
15544731 TTATTATTAAAATAAAATTGAA
1 TTATTATTAAAATAAAATTGAA
15544753 AATATTAAAT
Statistics
Matches: 193, Mismatches: 36, Indels: 61
0.67 0.12 0.21
Matches are distributed among these distances:
73 21 0.11
74 6 0.03
75 16 0.08
76 56 0.29
77 15 0.08
78 15 0.08
79 13 0.07
80 6 0.03
81 2 0.01
82 7 0.04
83 3 0.02
84 12 0.06
85 8 0.04
86 4 0.02
87 9 0.05
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (75 bp):
TTATTATTAAAATAAAATTGAATATTTTTAATAATATGTGAATAATACTATATTAATAATTATTA
TTTTAAAAAA
Found at i:15544564 original size:16 final size:16
Alignment explanation
Indices: 15544518--15544567 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
15544508 AAAATTGAAA
15544518 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
**
15544535 A-A--AATAATAAATT
1 ATATTAATAATTTATT
15544548 ATATTAATAATTTATT
1 ATATTAATAATTTATT
15544564 ATAT
1 ATAT
15544568 GACTTAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
16 14 0.54
17 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:15544727 original size:14 final size:14
Alignment explanation
Indices: 15544708--15544745 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
15544698 AATAATACTA
*
15544708 TTTAAAATTATTAT
1 TTTAAAATAATTAT
15544722 TTTAAAA-AATTAT
1 TTTAAAATAATTAT
15544735 TATTAAAATAA
1 T-TTAAAATAA
15544746 AATTGAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 6 0.29
14 13 0.62
15 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TTTAAAATAATTAT
Found at i:15544764 original size:73 final size:73
Alignment explanation
Indices: 15544419--15544765 Score: 186
Period size: 73 Copynumber: 4.5 Consensus size: 73
15544409 TAATAAATAT
* *
15544419 TTATTATTAAAATAGTAATATTGAATATTTTTAATAATATGTGAATAATACTATTTAAAATTATT
1 TTATTATTAAAATA--AA-ATTGAATATATTAAATAATATGTGAATAATACTATTTAAAATTATT
15544484 ATTTTAAAAAA
63 ATTTTAAAAAA
* * *
15544495 TTATTATTAAAATAAAATTGAAAATATTAAATAATTTAT-TAAAATAATAAATTATATTAATAAT
1 TTATTATTAAAATAAAATTGAATATATTAAATAA--TATGT-GAATAAT--ACTAT-TTAA-AA-
15544559 TTATTATATGACTTAATATAAA
58 TTATTAT-T---TTAA-A-AAA
* * ** * * * * * * * *
15544581 TAATTA--AAAATGTATGTTTAATCTTTATACTACAAAACATTTATTATTAATA-TATTTATAAT
1 TTATTATTAAAAT-AAAATTGAA----TATATTA-AATA-ATATGTGAATAATACTATTTAAAAT
* * * *
15544643 T-GTA--ATAAATAT
59 TATTATTTTAAAAAA
* *
15544655 TTATTATTAAAATAGTAATATTGAATATTTTTAATAATATGTGAATAATACTATTTAAAATTATT
1 TTATTATTAAAATA--AA-ATTGAATATATTAAATAATATGTGAATAATACTATTTAAAATTATT
15544720 ATTTTAAAAAA
63 ATTTTAAAAAA
*
15544731 TTATTATTAAAATAAAATTGAAAATATTAAATAAT
1 TTATTATTAAAATAAAATTGAATATATTAAATAAT
15544766 TTATTAAAAT
Statistics
Matches: 198, Mismatches: 42, Indels: 65
0.65 0.14 0.21
Matches are distributed among these distances:
72 10 0.05
73 44 0.22
74 17 0.09
75 10 0.05
76 41 0.21
77 5 0.03
78 8 0.04
79 2 0.01
80 7 0.04
81 1 0.01
82 2 0.01
83 2 0.01
84 11 0.06
85 9 0.05
86 11 0.06
87 1 0.01
89 12 0.06
90 4 0.02
91 1 0.01
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (73 bp):
TTATTATTAAAATAAAATTGAATATATTAAATAATATGTGAATAATACTATTTAAAATTATTATT
TTAAAAAA
Found at i:15544780 original size:236 final size:236
Alignment explanation
Indices: 15544361--15544838 Score: 947
Period size: 236 Copynumber: 2.0 Consensus size: 236
15544351 TATGACATAT
*
15544361 TTTAACCTTTATACTACAAAACATTTATTATTAATATATTTATAATTGTAATAAATATTTATTAT
1 TTTAATCTTTATACTACAAAACATTTATTATTAATATATTTATAATTGTAATAAATATTTATTAT
15544426 TAAAATAGTAATATTGAATATTTTTAATAATATGTGAATAATACTATTTAAAATTATTATTTTAA
66 TAAAATAGTAATATTGAATATTTTTAATAATATGTGAATAATACTATTTAAAATTATTATTTTAA
15544491 AAAATTATTATTAAAATAAAATTGAAAATATTAAATAATTTATTAAAATAATAAATTATATTAAT
131 AAAATTATTATTAAAATAAAATTGAAAATATTAAATAATTTATTAAAATAATAAATTATATTAAT
15544556 AATTTATTATATGACTTAATATAAATAATTAAAAATGTATG
196 AATTTATTATATGACTTAATATAAATAATTAAAAATGTATG
15544597 TTTAATCTTTATACTACAAAACATTTATTATTAATATATTTATAATTGTAATAAATATTTATTAT
1 TTTAATCTTTATACTACAAAACATTTATTATTAATATATTTATAATTGTAATAAATATTTATTAT
15544662 TAAAATAGTAATATTGAATATTTTTAATAATATGTGAATAATACTATTTAAAATTATTATTTTAA
66 TAAAATAGTAATATTGAATATTTTTAATAATATGTGAATAATACTATTTAAAATTATTATTTTAA
15544727 AAAATTATTATTAAAATAAAATTGAAAATATTAAATAATTTATTAAAATAATAAATTATATTAAT
131 AAAATTATTATTAAAATAAAATTGAAAATATTAAATAATTTATTAAAATAATAAATTATATTAAT
15544792 AATTTATTATATGACTTAATATAAATAATTAAAAATGTATG
196 AATTTATTATATGACTTAATATAAATAATTAAAAATGTATG
15544833 TTTAAT
1 TTTAAT
15544839 AATATTAAAA
Statistics
Matches: 241, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
236 241 1.00
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.45
Consensus pattern (236 bp):
TTTAATCTTTATACTACAAAACATTTATTATTAATATATTTATAATTGTAATAAATATTTATTAT
TAAAATAGTAATATTGAATATTTTTAATAATATGTGAATAATACTATTTAAAATTATTATTTTAA
AAAATTATTATTAAAATAAAATTGAAAATATTAAATAATTTATTAAAATAATAAATTATATTAAT
AATTTATTATATGACTTAATATAAATAATTAAAAATGTATG
Found at i:15544800 original size:16 final size:16
Alignment explanation
Indices: 15544754--15544803 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
15544744 AAAATTGAAA
15544754 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
**
15544771 A-A--AATAATAAATT
1 ATATTAATAATTTATT
15544784 ATATTAATAATTTATT
1 ATATTAATAATTTATT
15544800 ATAT
1 ATAT
15544804 GACTTAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
16 14 0.54
17 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:15545953 original size:41 final size:41
Alignment explanation
Indices: 15545896--15545989 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
15545886 ACCATCAACA
*
15545896 ATTCAAAATCAAGCATTAATCAAGGATCAAATCAAAACTATC
1 ATTCAAAGT-AAGCATTAATCAAGGATCAAATCAAAACTATC
15545938 ATTCAAAGTAAGCATTAATCAAGGATCAAATCAAAACTATC
1 ATTCAAAGTAAGCATTAATCAAGGATCAAATCAAAACTATC
15545979 ATTCAAAGTAA
1 ATTCAAAGTAA
15545990 ACACATATAT
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 43 0.84
42 8 0.16
ACGTcount: A:0.50, C:0.17, G:0.09, T:0.24
Consensus pattern (41 bp):
ATTCAAAGTAAGCATTAATCAAGGATCAAATCAAAACTATC
Found at i:15549977 original size:34 final size:34
Alignment explanation
Indices: 15549928--15549995 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
15549918 GATTCAAGAT
15549928 TTTCATGACCCGTAAAGAAGGAAAGAGGAGCTAG
1 TTTCATGACCCGTAAAGAAGGAAAGAGGAGCTAG
* *
15549962 TTTCATGATCGGTAAAGAAGGAAAGAGGAGCTAG
1 TTTCATGACCCGTAAAGAAGGAAAGAGGAGCTAG
15549996 AGAGTGAGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.31, T:0.19
Consensus pattern (34 bp):
TTTCATGACCCGTAAAGAAGGAAAGAGGAGCTAG
Found at i:15551041 original size:34 final size:34
Alignment explanation
Indices: 15550992--15551059 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
15550982 GATTCAAGAT
15550992 TTTCATGACCCGTAAAGAAGGAAAGAGGAGCTAG
1 TTTCATGACCCGTAAAGAAGGAAAGAGGAGCTAG
* *
15551026 TTTCATGATCGGTAAAGAAGGAAAGAGGAGCTAG
1 TTTCATGACCCGTAAAGAAGGAAAGAGGAGCTAG
15551060 AGAGTGAGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.31, T:0.19
Consensus pattern (34 bp):
TTTCATGACCCGTAAAGAAGGAAAGAGGAGCTAG
Found at i:15552105 original size:34 final size:34
Alignment explanation
Indices: 15552056--15552123 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
15552046 GATTCAAGAT
15552056 TTTCATGACCCGTAAAGAAGGAAAGAGGAGCTAG
1 TTTCATGACCCGTAAAGAAGGAAAGAGGAGCTAG
* *
15552090 TTTCATGATCGGTAAAGAAGGAAAGAGGAGCTAG
1 TTTCATGACCCGTAAAGAAGGAAAGAGGAGCTAG
15552124 AGAGTGAGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.31, T:0.19
Consensus pattern (34 bp):
TTTCATGACCCGTAAAGAAGGAAAGAGGAGCTAG
Found at i:15554223 original size:34 final size:34
Alignment explanation
Indices: 15554185--15554252 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
15554175 GATTCAAGAT
*
15554185 TTTCATGACCT-GTAAAGAAGGAAAGATGAGCTAG
1 TTTCATGA-CTGGTAAAGAAGGAAAGAGGAGCTAG
*
15554219 TTTCATGATTGGTAAAGAAGGAAAGAGGAGCTAG
1 TTTCATGACTGGTAAAGAAGGAAAGAGGAGCTAG
15554253 AGAGTGAGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 1 0.03
34 30 0.97
ACGTcount: A:0.38, C:0.09, G:0.29, T:0.24
Consensus pattern (34 bp):
TTTCATGACTGGTAAAGAAGGAAAGAGGAGCTAG
Found at i:15555295 original size:34 final size:34
Alignment explanation
Indices: 15555246--15555313 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
15555236 GATTCAAGAT
*
15555246 TTTCATGACCTGTAAAGAAGGAAAGAGAAGCTAG
1 TTTCATGACCGGTAAAGAAGGAAAGAGAAGCTAG
* * *
15555280 TTTCATGATCGGTAAAGAAGGAAAGTGGAGCTAG
1 TTTCATGACCGGTAAAGAAGGAAAGAGAAGCTAG
15555314 AGAGTGAGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.38, C:0.10, G:0.29, T:0.22
Consensus pattern (34 bp):
TTTCATGACCGGTAAAGAAGGAAAGAGAAGCTAG
Found at i:15556817 original size:21 final size:22
Alignment explanation
Indices: 15556786--15556826 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
15556776 AGTGTTTAAG
15556786 AAGGAAATAATCATCACAAAAT
1 AAGGAAATAATCATCACAAAAT
15556808 AAGG-AATAATCATCACAAA
1 AAGGAAATAATCATCACAAA
15556827 TATTAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.59, C:0.15, G:0.10, T:0.17
Consensus pattern (22 bp):
AAGGAAATAATCATCACAAAAT
Found at i:15556973 original size:17 final size:17
Alignment explanation
Indices: 15556951--15556985 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
15556941 AAATATAATG
15556951 AATGCTCAAAAGTGTTT
1 AATGCTCAAAAGTGTTT
15556968 AATGCTCAAAAGTGTTT
1 AATGCTCAAAAGTGTTT
15556985 A
1 A
15556986 CAAGAAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.34
Consensus pattern (17 bp):
AATGCTCAAAAGTGTTT
Found at i:15561048 original size:21 final size:22
Alignment explanation
Indices: 15561006--15561048 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
15560996 ACAAACTTTA
15561006 TCTAAGTTAAAATCATTTTTTT
1 TCTAAGTTAAAATCATTTTTTT
15561028 TCTAAGTTAAAATCATTTTTT
1 TCTAAGTTAAAATCATTTTTT
15561049 GGCAATCCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (22 bp):
TCTAAGTTAAAATCATTTTTTT
Found at i:15563553 original size:20 final size:20
Alignment explanation
Indices: 15563528--15563565 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15563518 AGGAGTAGTT
*
15563528 TTTCAATCAATTTAAAAATG
1 TTTCAATCAAGTTAAAAATG
*
15563548 TTTCAATTAAGTTAAAAA
1 TTTCAATCAAGTTAAAAA
15563566 AAGTTTAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.39
Consensus pattern (20 bp):
TTTCAATCAAGTTAAAAATG
Found at i:15563571 original size:21 final size:20
Alignment explanation
Indices: 15563528--15563571 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
15563518 AGGAGTAGTT
* *
15563528 TTTCAATCAATTTAAAAATG
1 TTTCAATCAATTAAAAAAAG
*
15563548 TTTCAATTAAGTTAAAAAAAG
1 TTTCAATCAA-TTAAAAAAAG
15563569 TTT
1 TTT
15563572 AAACCATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (20 bp):
TTTCAATCAATTAAAAAAAG
Found at i:15567002 original size:33 final size:34
Alignment explanation
Indices: 15566944--15567035 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 34
15566934 TTATTAAATG
* *
15566944 CATCTTTAATTAATGTCTTGCATTAT-TGATCTA
1 CATCTTTAATTAATGACATGCATTATGTGATCTA
*
15566977 CATCATTTAATT-ATGACATGCATTATGTGGTCTA
1 CATC-TTTAATTAATGACATGCATTATGTGATCTA
* *
15567011 CA--TTTAA-TAAAGTCATGCATTATGT
1 CATCTTTAATTAATGACATGCATTATGT
15567036 TACTCTCATG
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
30 1 0.02
31 19 0.37
33 16 0.31
34 15 0.29
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.43
Consensus pattern (34 bp):
CATCTTTAATTAATGACATGCATTATGTGATCTA
Found at i:15577645 original size:27 final size:27
Alignment explanation
Indices: 15577568--15577646 Score: 68
Period size: 27 Copynumber: 2.8 Consensus size: 27
15577558 GTTAAATATA
*
15577568 AGATTGGTACCCGAACTTGTCCACTTATCCT
1 AGATTGGTACCCGAACTT-T---TTTATCCT
* *** *
15577599 AGATTGGTACCTGTGGTTTTTTTTCCT
1 AGATTGGTACCCGAACTTTTTTATCCT
15577626 AGATTGGTACCCGAACTTTTT
1 AGATTGGTACCCGAACTTTTT
15577647 CTCCGTCCAC
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
27 23 0.61
30 1 0.03
31 14 0.37
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.41
Consensus pattern (27 bp):
AGATTGGTACCCGAACTTTTTTATCCT
Found at i:15578892 original size:28 final size:29
Alignment explanation
Indices: 15578860--15578930 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
15578850 AAAAGTTTGG
* *
15578860 GTACCAATCTGGGA-TAAAAAAACCGTA-
1 GTACCAATCTGGGACAAAAAAAACCATAC
**
15578887 GCTACCAATCTAAGACAAAAAAAACCATAC
1 G-TACCAATCTGGGACAAAAAAAACCATAC
15578917 GTACCAATCTGGGA
1 GTACCAATCTGGGA
15578931 GAAGTGGACA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
27 1 0.03
28 11 0.31
29 22 0.63
30 1 0.03
ACGTcount: A:0.45, C:0.23, G:0.15, T:0.17
Consensus pattern (29 bp):
GTACCAATCTGGGACAAAAAAAACCATAC
Found at i:15584625 original size:26 final size:26
Alignment explanation
Indices: 15584589--15584772 Score: 149
Period size: 26 Copynumber: 7.1 Consensus size: 26
15584579 ATGAAAAAGT
*
15584589 AGGCCTTGAACCGATGTTTATTTAGC
1 AGGCCTTGAGCCGATGTTTATTTAGC
* * * *
15584615 AGGCCTTGA-ACTAGTGGTTATTTAGT
1 AGGCCTTGAGCCGA-TGTTTATTTAGC
* *
15584641 AGGCCTCGAGCTTG-TGTTTATTTAGC
1 AGGCCTTGAGC-CGATGTTTATTTAGC
* * *
15584667 AGGCATTGAGCCAATG-TAATTTAGC
1 AGGCCTTGAGCCGATGTTTATTTAGC
* *
15584692 AGGCCTTGAGTCTATGTTTATTTAGC
1 AGGCCTTGAGCCGATGTTTATTTAGC
* * * * *
15584718 AGGCCTTGAGCAGGTGATTAGTTACC
1 AGGCCTTGAGCCGATGTTTATTTAGC
* * *
15584744 AGGCTTTGACCCGATGTATATTTAGC
1 AGGCCTTGAGCCGATGTTTATTTAGC
15584770 AGG
1 AGG
15584773 TACTACGTAC
Statistics
Matches: 119, Mismatches: 34, Indels: 10
0.73 0.21 0.06
Matches are distributed among these distances:
25 23 0.19
26 96 0.81
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (26 bp):
AGGCCTTGAGCCGATGTTTATTTAGC
Found at i:15584710 original size:51 final size:52
Alignment explanation
Indices: 15584602--15584728 Score: 159
Period size: 51 Copynumber: 2.5 Consensus size: 52
15584592 CCTTGAACCG
* * * * *
15584602 ATGTTTATTTAGCAGGCCTTGAACTAGTGGTTATTTAGTAGGCCTCGAGCTT
1 ATGTTTATTTAGCAGGCCTTGAGCCAATGGTAATTTAGCAGGCCTCGAGCTT
* * *
15584654 GTGTTTATTTAGCAGGCATTGAGCCAAT-GTAATTTAGCAGGCCTTGAG-TCT
1 ATGTTTATTTAGCAGGCCTTGAGCCAATGGTAATTTAGCAGGCCTCGAGCT-T
15584705 ATGTTTATTTAGCAGGCCTTGAGC
1 ATGTTTATTTAGCAGGCCTTGAGC
15584729 AGGTGATTAG
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
50 1 0.02
51 40 0.62
52 23 0.36
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.37
Consensus pattern (52 bp):
ATGTTTATTTAGCAGGCCTTGAGCCAATGGTAATTTAGCAGGCCTCGAGCTT
Found at i:15584747 original size:77 final size:78
Alignment explanation
Indices: 15584602--15584772 Score: 202
Period size: 77 Copynumber: 2.2 Consensus size: 78
15584592 CCTTGAACCG
* * ** * * *
15584602 ATGTTTATTTAGCAGGCCTTGAACTAGTGGTTATTTAGTAGGCCTCGAGCTTGTGTTTATTTAGC
1 ATGTATATTTAGCAGGCCTTGAACTAGTGGTTATTTAGCAGGCCTCGAGCAGGTGATTAGTTACC
*
15584667 AGGCATTGAGCCA
66 AGGCATTGACCCA
* * *
15584680 ATGTA-ATTTAGCAGGCCTTGAGTCTA-TGTTTATTTAGCAGGCCTTGAGCAGGTGATTAGTTAC
1 ATGTATATTTAGCAGGCCTTGA-ACTAGTGGTTATTTAGCAGGCCTCGAGCAGGTGATTAGTTAC
* *
15584743 CAGGCTTTGACCCG
65 CAGGCATTGACCCA
15584757 ATGTATATTTAGCAGG
1 ATGTATATTTAGCAGG
15584773 TACTACGTAC
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
77 61 0.78
78 17 0.22
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.36
Consensus pattern (78 bp):
ATGTATATTTAGCAGGCCTTGAACTAGTGGTTATTTAGCAGGCCTCGAGCAGGTGATTAGTTACC
AGGCATTGACCCA
Found at i:15605583 original size:62 final size:62
Alignment explanation
Indices: 15605512--15605636 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
15605502 ATGTCCGGAC
15605512 ATAGATTCTTTCTTTCTATGATATGACATATAATAATGTAGCTTGGAAAGTATCTATGTTAA
1 ATAGATTCTTTCTTTCTATGATATGACATATAATAATGTAGCTTGGAAAGTATCTATGTTAA
15605574 ATAGATTCTTTCTTTCTATGATATGACATATAATAATGTAGCTTGGAAAGTATCTATGTTAA
1 ATAGATTCTTTCTTTCTATGATATGACATATAATAATGTAGCTTGGAAAGTATCTATGTTAA
15605636 A
1 A
15605637 CATGTCCAAG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (62 bp):
ATAGATTCTTTCTTTCTATGATATGACATATAATAATGTAGCTTGGAAAGTATCTATGTTAA
Found at i:15608279 original size:14 final size:14
Alignment explanation
Indices: 15608260--15608286 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15608250 TTGGTAACTT
15608260 GTAAAAGCTTTTCC
1 GTAAAAGCTTTTCC
15608274 GTAAAAGCTTTTC
1 GTAAAAGCTTTTC
15608287 AGGCTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.37
Consensus pattern (14 bp):
GTAAAAGCTTTTCC
Found at i:15608444 original size:6 final size:6
Alignment explanation
Indices: 15608426--15608471 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
15608416 CGCGTTCTTC
* * *
15608426 TCCCCT CTCCCCT TCCCCT TCCCCT TTCCCT TTCCCT TTCCCT TCC
1 TCCCCT -TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCC
15608472 TCTTGGGTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
6 31 0.84
7 6 0.16
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (6 bp):
TCCCCT
Found at i:15608450 original size:19 final size:19
Alignment explanation
Indices: 15608426--15608467 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
15608416 CGCGTTCTTC
15608426 TCCCCTCTCCCCTTCCCCT
1 TCCCCTCTCCCCTTCCCCT
* * *
15608445 TCCCCTTTCCCTTTCCCTT
1 TCCCCTCTCCCCTTCCCCT
15608464 TCCC
1 TCCC
15608468 TTCCTCTTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (19 bp):
TCCCCTCTCCCCTTCCCCT
Found at i:15610403 original size:29 final size:28
Alignment explanation
Indices: 15610371--15610431 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
15610361 AAAAACCTGT
*
15610371 TTTTTTCAAAATTTCCCGAAATGGGCCGA
1 TTTTTTCAAAATTTACCGAAATGGGCC-A
* ** *
15610400 TTTTTTGATTATTTACCGGAATGGGCCA
1 TTTTTTCAAAATTTACCGAAATGGGCCA
15610428 TTTT
1 TTTT
15610432 CTACGAAATC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (28 bp):
TTTTTTCAAAATTTACCGAAATGGGCCA
Found at i:15612314 original size:20 final size:20
Alignment explanation
Indices: 15612289--15612328 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
15612279 AAATATTTTC
*
15612289 AGTAAATCATTTTCTAGAAA
1 AGTAAATCATTTTCCAGAAA
15612309 AGTAAATCATTTTCCAGAAA
1 AGTAAATCATTTTCCAGAAA
15612329 TAATTTTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (20 bp):
AGTAAATCATTTTCCAGAAA
Found at i:15612335 original size:34 final size:33
Alignment explanation
Indices: 15612279--15612343 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 33
15612269 AAATACCAGA
*
15612279 AAATATTTTCAGTAAATCATTTTCTA-GAAAAGT
1 AAATATTTTCAGTAAATAATTTT-TAGGAAAAGT
15612312 AAATCATTTTCCAG-AAATAATTTTTAGGAAAA
1 AAAT-ATTTT-CAGTAAATAATTTTTAGGAAAA
15612344 CATTTTACTG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
33 6 0.21
34 19 0.68
35 3 0.11
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.37
Consensus pattern (33 bp):
AAATATTTTCAGTAAATAATTTTTAGGAAAAGT
Found at i:15621270 original size:69 final size:69
Alignment explanation
Indices: 15621185--15621349 Score: 217
Period size: 69 Copynumber: 2.4 Consensus size: 69
15621175 AAGAGGTTTA
* *
15621185 ACCATAGCTCGACTATGGAAACCAATAGAGTCTGATGGGACAGTAAACACGGTGATTTTAAGGTG
1 ACCATAGCTCGACTATGGAAACCAATAGAGTCTGATGGGACAGTAAACACGGGGATTTCAAGGTG
15621250 TAAG
66 TAAG
* * * * * *
15621254 ACCATAGCTC-AGCTATGGCAACCGATAGAGTCTGCTGGGATAGTTAACATGGGGATTTCAAGGT
1 ACCATAGCTCGA-CTATGGAAACCAATAGAGTCTGATGGGACAGTAAACACGGGGATTTCAAGGT
15621318 GTAAG
65 GTAAG
*
15621323 ACAATAGCTCGACTAT-GACAACCAATA
1 ACCATAGCTCGACTATGGA-AACCAATA
15621350 AAGCTCGCAG
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
68 2 0.02
69 79 0.96
70 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (69 bp):
ACCATAGCTCGACTATGGAAACCAATAGAGTCTGATGGGACAGTAAACACGGGGATTTCAAGGTG
TAAG
Found at i:15626672 original size:28 final size:28
Alignment explanation
Indices: 15626630--15626685 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
15626620 TACTTGATGT
15626630 CAATGCCCTCAAGATAATTAGATTTTCA
1 CAATGCCCTCAAGATAATTAGATTTTCA
* *
15626658 CAATGCCCTCTAGATAATTGGATTTTCA
1 CAATGCCCTCAAGATAATTAGATTTTCA
15626686 TTCTTAGGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.34
Consensus pattern (28 bp):
CAATGCCCTCAAGATAATTAGATTTTCA
Found at i:15631271 original size:13 final size:13
Alignment explanation
Indices: 15631253--15631278 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15631243 TTGGTTCTCC
15631253 AAAATGAAAATGA
1 AAAATGAAAATGA
15631266 AAAATGAAAATGA
1 AAAATGAAAATGA
15631279 CTTGGAAATG
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:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAATGAAAATGA
Found at i:15640541 original size:25 final size:25
Alignment explanation
Indices: 15640506--15640556 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
15640496 ACGGATTACC
*
15640506 TGTAAGGCCTTCATGGT-AGACTCTT
1 TGTAAGACCTTCATGGTGA-ACTCTT
*
15640531 TGTAAGACCTTTATGGTGAACTCTT
1 TGTAAGACCTTCATGGTGAACTCTT
15640556 T
1 T
15640557 ATAAAGTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 22 0.96
26 1 0.04
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.39
Consensus pattern (25 bp):
TGTAAGACCTTCATGGTGAACTCTT
Found at i:15640567 original size:25 final size:25
Alignment explanation
Indices: 15640512--15640595 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 25
15640502 TACCTGTAAG
* * *
15640512 GCCTTCATGGTAGACTCTTTGT-AA
1 GCCTTTATGGTAAACTCTTTATAAA
*
15640536 GACCTTTATGGTGAACTCTTTATAAA
1 G-CCTTTATGGTAAACTCTTTATAAA
* ** * *
15640562 GTCTTTGGGGTAAACTTTTTGTAAA
1 GCCTTTATGGTAAACTCTTTATAAA
15640587 GCCTTTATG
1 GCCTTTATG
15640596 ACGAACTGTT
Statistics
Matches: 45, Mismatches: 13, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
24 1 0.02
25 41 0.91
26 3 0.07
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.40
Consensus pattern (25 bp):
GCCTTTATGGTAAACTCTTTATAAA
Found at i:15642435 original size:14 final size:15
Alignment explanation
Indices: 15642410--15642440 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
15642400 ATTAACAAGG
15642410 TAAATAAAAAATATT
1 TAAATAAAAAATATT
15642425 TAAAT-AAAAATATT
1 TAAATAAAAAATATT
15642439 TA
1 TA
15642441 CTTAACTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
TAAATAAAAAATATT
Found at i:15644303 original size:17 final size:17
Alignment explanation
Indices: 15644276--15644308 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15644266 TCACTACATT
15644276 TTTATTTCACATATTCAC
1 TTTATTTCACA-ATTCAC
15644294 TTTA-TTCACAATTCA
1 TTTATTTCACAATTCA
15644309 TAAAATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTATTTCACAATTCAC
Found at i:15644527 original size:21 final size:20
Alignment explanation
Indices: 15644490--15644533 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
15644480 TTCAACAATT
* *
15644490 ATTATATCACTTTACACTCC
1 ATTATATCACATAACACTCC
*
15644510 ATTACTATCACATAACACTTC
1 ATTA-TATCACATAACACTCC
15644531 ATT
1 ATT
15644534 TAAGTCTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.34, C:0.27, G:0.00, T:0.39
Consensus pattern (20 bp):
ATTATATCACATAACACTCC
Found at i:15647743 original size:24 final size:24
Alignment explanation
Indices: 15647708--15647753 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
15647698 AATGTTACAT
15647708 AAATTTACTATGT-TCTATTATTCA
1 AAATTTACTATGTATC-ATTATTCA
*
15647732 AAATTTATTATGTATCATTATT
1 AAATTTACTATGTATCATTATT
15647754 TAAATTTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.52
Consensus pattern (24 bp):
AAATTTACTATGTATCATTATTCA
Found at i:15648029 original size:28 final size:29
Alignment explanation
Indices: 15647996--15648074 Score: 99
Period size: 28 Copynumber: 2.8 Consensus size: 29
15647986 TTCTTTCCGC
15647996 TATTTTAACATTTTAATTTATCTC-AACT
1 TATTTTAACATTTTAATTTATCTCAAACT
** *
15648024 TATTTTAGTATTGTTAATTTAT-TCAAATT
1 TATTTTAACATT-TTAATTTATCTCAAACT
*
15648053 TATTTTAACCTTTTAATTTATC
1 TATTTTAACATTTTAATTTATC
15648075 CATGTTATAC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
28 21 0.50
29 21 0.50
ACGTcount: A:0.30, C:0.10, G:0.03, T:0.57
Consensus pattern (29 bp):
TATTTTAACATTTTAATTTATCTCAAACT
Found at i:15655574 original size:8 final size:8
Alignment explanation
Indices: 15655561--15655585 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15655551 TTTCGAGCAA
15655561 TTATTCTT
1 TTATTCTT
15655569 TTATTCTT
1 TTATTCTT
15655577 TTATTCTT
1 TTATTCTT
15655585 T
1 T
15655586 CCAAGCGAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (8 bp):
TTATTCTT
Found at i:15659363 original size:44 final size:44
Alignment explanation
Indices: 15659295--15659388 Score: 152
Period size: 44 Copynumber: 2.1 Consensus size: 44
15659285 TAGATCACAT
*
15659295 CAGATTGAAGCTAGAAATCTTATCTCCCTCAGATTACAGCGGAG
1 CAGATTGAAGCTAGAAATCCTATCTCCCTCAGATTACAGCGGAG
* * *
15659339 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCCTATCTCCCTCAGATTACAGCGGAG
15659383 CAGATT
1 CAGATT
15659389 AAAATAAAGG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (44 bp):
CAGATTGAAGCTAGAAATCCTATCTCCCTCAGATTACAGCGGAG
Found at i:15659455 original size:142 final size:142
Alignment explanation
Indices: 15659220--15659489 Score: 434
Period size: 142 Copynumber: 1.9 Consensus size: 142
15659210 CAGGTCTTAG
*
15659220 CTCCCTGAGATTACAGTGGAGAGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAG
1 CTCCCTGAGATTACAGTGGAGAGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAG
* * *
15659285 TAGATCACATCAGATTGAAGCTAGAAATCTTATCTCCCTCAGATTACAGCGGAGCAGATTGAAGC
66 TAGATCACATCAGATTGAAGCTAAAAATCTTATCTCCCTCAGATTACAACAGAGCAGATTGAAGC
15659350 TAGTAATCCTAT
131 TAGTAATCCTAT
*
15659362 CTCCCTGAGATTACAGTGGAGCA-GATTAAAATAAAGGATCTTATCTCTCTGAAGTTACTGTAGA
1 CTCCCTGAGATTACAGTGGAG-AGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGA
* * * * *
15659426 GTAGATCGCATTAGATTGAAGCTAAAAATCTTATCTCCCTGATATTACAACAGAGTAGATTGAA
65 GTAGATCACATCAGATTGAAGCTAAAAATCTTATCTCCCTCAGATTACAACAGAGCAGATTGAA
15659490 ACAAGTGTGT
Statistics
Matches: 117, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
142 116 0.99
143 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (142 bp):
CTCCCTGAGATTACAGTGGAGAGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAG
TAGATCACATCAGATTGAAGCTAAAAATCTTATCTCCCTCAGATTACAACAGAGCAGATTGAAGC
TAGTAATCCTAT
Found at i:15664211 original size:21 final size:20
Alignment explanation
Indices: 15664178--15664219 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
15664168 TGAAGATAGG
*
15664178 AGCATACATAAGA-GATATTC
1 AGCATACAAAAGATGAT-TTC
15664198 AGCAGTACAAAAGATGATTTC
1 AGCA-TACAAAAGATGATTTC
15664219 A
1 A
15664220 AAGCATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 12 0.63
22 3 0.16
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.24
Consensus pattern (20 bp):
AGCATACAAAAGATGATTTC
Found at i:15674711 original size:272 final size:272
Alignment explanation
Indices: 15674225--15674811 Score: 1156
Period size: 272 Copynumber: 2.2 Consensus size: 272
15674215 GTGCAGGTCG
15674225 GCTTTACATGTTCTACTTTCTAAGCATGACATGGTATGAACTTTTTTTCAGGAAGTGATATTCAT
1 GCTTTACATGTTCTACTTTCTAAGCATGACATGGTATGAACTTTTTTTCAGGAAGTGATATTCAT
15674290 CTGGCTTTTACTGAAATACAGGGAGGATAGTGCAGCCATATAAAGCTTTATACCTTTTAACTTTC
66 CTGGCTTTTACTGAAATACAGGGAGGATAGTGCAGCCATATAAAGCTTTATACCTTTTAACTTTC
15674355 AGCTATTTTCATTCTCTGTTGTACTTACTGCTGGTTATATGTTATGATTTAGTGCAACTAGAGAG
131 AGCTATTTTCATTCTCTGTTGTACTTACTGCTGGTTATATGTTATGATTTAGTGCAACTAGAGAG
15674420 TACTCGACAAAGTATACCCACTTCTCATGGCAGCTTTACTGGGCATCAGTGATGGGGTATTGAAT
196 TACTCGACAAAGTATACCCACTTCTCATGGCAGCTTTACTGGGCATCAGTGATGGGGTATTGAAT
15674485 ATGCAACTTAGT
261 ATGCAACTTAGT
15674497 GCTTTACATGTTCTACTTTCTAAGCATGACATGGTATGAACTTTTTTTCAGGAAGTGATATTCAT
1 GCTTTACATGTTCTACTTTCTAAGCATGACATGGTATGAACTTTTTTTCAGGAAGTGATATTCAT
15674562 CTGGCTTTTACTGAAATACAGGGAGGATAGTGCAGCCATATAAAGCTTTATACCTTTTAACTTTC
66 CTGGCTTTTACTGAAATACAGGGAGGATAGTGCAGCCATATAAAGCTTTATACCTTTTAACTTTC
15674627 AGCTATTTTCATTCTCTGTTGTACTTACTGCTGGTTATATGTTATGATTTAGTGCAACTAGAGAG
131 AGCTATTTTCATTCTCTGTTGTACTTACTGCTGGTTATATGTTATGATTTAGTGCAACTAGAGAG
* *
15674692 TACTCGGCAAAGTATACCCACTTCTCATGGCAGCTTTACTGGGCATCGGTGATGGGGTATTGAAT
196 TACTCGACAAAGTATACCCACTTCTCATGGCAGCTTTACTGGGCATCAGTGATGGGGTATTGAAT
15674757 ATGCAACTTAGT
261 ATGCAACTTAGT
15674769 GCTTTACATGTTCTACTTTCTAAGCATGACATGGTATGAACTT
1 GCTTTACATGTTCTACTTTCTAAGCATGACATGGTATGAACTT
15674812 ATTTCCCTGT
Statistics
Matches: 313, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
272 313 1.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (272 bp):
GCTTTACATGTTCTACTTTCTAAGCATGACATGGTATGAACTTTTTTTCAGGAAGTGATATTCAT
CTGGCTTTTACTGAAATACAGGGAGGATAGTGCAGCCATATAAAGCTTTATACCTTTTAACTTTC
AGCTATTTTCATTCTCTGTTGTACTTACTGCTGGTTATATGTTATGATTTAGTGCAACTAGAGAG
TACTCGACAAAGTATACCCACTTCTCATGGCAGCTTTACTGGGCATCAGTGATGGGGTATTGAAT
ATGCAACTTAGT
Found at i:15686503 original size:123 final size:123
Alignment explanation
Indices: 15686279--15686520 Score: 430
Period size: 123 Copynumber: 2.0 Consensus size: 123
15686269 TTTTTACTAT
* *
15686279 TAACTAGGCAAATGCCAATACTTATACTAATACCAAGGATGCTAATGATCATGATCAAACAGACG
1 TAACCAGGCAAACGCCAATACTTATACTAATACCAAGGATGCTAATGATCATGATCAAACAGACG
* *
15686344 AAGTGGCTTTGATACGCTATTTGCAACAATCTGATTTTCGGCGCGACATAATAATAAA
66 AAGTGGCTTTGATACGCTATTCGCAACAATCGGATTTTCGGCGCGACATAATAATAAA
* *
15686402 TAACCAGGCAAACGCCGATACTTATACTAATACCAAGGATGCTAATGATCCTGATCAAACAGACG
1 TAACCAGGCAAACGCCAATACTTATACTAATACCAAGGATGCTAATGATCATGATCAAACAGACG
15686467 AAGTGGCTTTGATACGCTATTCGCAACAATCGGATTTTCGGCGCGACATAATAA
66 AAGTGGCTTTGATACGCTATTCGCAACAATCGGATTTTCGGCGCGACATAATAA
15686521 AGGGTTCCAT
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
123 113 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (123 bp):
TAACCAGGCAAACGCCAATACTTATACTAATACCAAGGATGCTAATGATCATGATCAAACAGACG
AAGTGGCTTTGATACGCTATTCGCAACAATCGGATTTTCGGCGCGACATAATAATAAA
Found at i:15690017 original size:22 final size:22
Alignment explanation
Indices: 15689992--15690057 Score: 55
Period size: 22 Copynumber: 2.9 Consensus size: 22
15689982 CATACATATT
15689992 TAATTATTTATATTTAATAATA
1 TAATTATTTATATTTAATAATA
* * *
15690014 TAATAAATTATTAGTATAATTAATA
1 TAATTATTTA-TA-TTTAA-TAATA
15690039 TAATT-TATTAT-TTTAATAA
1 TAATTAT-TTATATTTAATAA
15690058 ATTATTCAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 9
0.69 0.12 0.18
Matches are distributed among these distances:
21 3 0.09
22 12 0.35
23 2 0.06
24 5 0.15
25 12 0.35
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TAATTATTTATATTTAATAATA
Found at i:15690062 original size:16 final size:19
Alignment explanation
Indices: 15690014--15690063 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 19
15690004 TTTAATAATA
15690014 TAATAAATTATTAGTATAAT
1 TAATAAATTATTAGTAT-AT
15690034 TAATATAATTTATTA-T-T-T
1 TAATA-AA-TTATTAGTATAT
15690052 TAATAAATTATT
1 TAATAAATTATT
15690064 CAATATTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 5 0.18
17 2 0.07
18 6 0.21
20 6 0.21
21 3 0.11
22 6 0.21
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TAATAAATTATTAGTATAT
Found at i:15690111 original size:15 final size:16
Alignment explanation
Indices: 15690084--15690114 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
15690074 AATTTATTTG
15690084 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
15690100 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
15690115 GTTTAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:15690310 original size:31 final size:30
Alignment explanation
Indices: 15690248--15690311 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
15690238 ATAAATTTGG
* ** *
15690248 AATTTAGTCCTTATACTTTTATTTTTTAAA
1 AATTTAGTCCCTATACTTTTAGATTTCAAA
*
15690278 AATTTAGTCCCTCTACTTTTTAGATTTCAAA
1 AATTTAGTCCCTATAC-TTTTAGATTTCAAA
15690309 AAT
1 AAT
15690312 CCAGGTTCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 14 0.50
31 14 0.50
ACGTcount: A:0.31, C:0.14, G:0.05, T:0.50
Consensus pattern (30 bp):
AATTTAGTCCCTATACTTTTAGATTTCAAA
Found at i:15696365 original size:19 final size:20
Alignment explanation
Indices: 15696341--15696380 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
15696331 CTTATATAAC
15696341 TTAATTAA-TATTTTAAACT
1 TTAATTAATTATTTTAAACT
15696360 TTAATTAATTATTTTAAACT
1 TTAATTAATTATTTTAAACT
15696380 T
1 T
15696381 GATTAACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
TTAATTAATTATTTTAAACT
Found at i:15696385 original size:19 final size:18
Alignment explanation
Indices: 15696338--15696386 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 18
15696328 TTCCTTATAT
15696338 AACTTAATTAATATTTTA
1 AACTTAATTAATATTTTA
15696356 AACTTTAATTAATTATTTTA
1 AAC-TTAATTAA-TATTTTA
*
15696376 AACTTGATTAA
1 AACTTAATTAA
15696387 CATAACACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 3 0.11
19 15 0.54
20 10 0.36
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (18 bp):
AACTTAATTAATATTTTA
Found at i:15703833 original size:32 final size:32
Alignment explanation
Indices: 15703782--15703978 Score: 197
Period size: 32 Copynumber: 6.3 Consensus size: 32
15703772 GAATGGCTAC
* * * *
15703782 AAGCCATAAGT-ACAGTAATATGATTGACACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
*
15703813 AAGCCATCAGTAGTAGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * * *
15703845 CAGTCATCAGTAATAGTAGTATGATCGGCATA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* *
15703877 AGGCCAT---TAGTAGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* *
15703906 CAA-CCATCAATAATGGTAATATGATCGGCACA
1 -AAGCCATCAGTAATAGTAATATGATCGGCACA
* * * *
15703938 TAGCCATCAGTAATGGTAATATAATCGACACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
15703970 AAGCCATCA
1 AAGCCATCA
15703979 AAAGCATCGC
Statistics
Matches: 136, Mismatches: 24, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
29 23 0.17
30 1 0.01
31 11 0.08
32 101 0.74
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (32 bp):
AAGCCATCAGTAATAGTAATATGATCGGCACA
Found at i:15703944 original size:61 final size:60
Alignment explanation
Indices: 15703795--15703949 Score: 175
Period size: 61 Copynumber: 2.5 Consensus size: 60
15703785 CCATAAGTAC
* * ** *
15703795 AGTAATATGATTGACACAAAGCCATCAGTAGTAGTAATATGATCGGCACACAGTCATCAGTAAT
1 AGTAATATGATCGGCAC-AAGCCAT---TAGTAGTAATATGATCGGCACACAACCATCAATAAT
* *
15703859 AGTAGTATGATCGGCATAAGGCCATTAGTAGTAATATGATCGGCACACAACCATCAATAAT
1 AGTAATATGATCGGCACAA-GCCATTAGTAGTAATATGATCGGCACACAACCATCAATAAT
* *
15703920 GGTAATATGATCGGCACATAGCCATCAGTA
1 AGTAATATGATCGGCACA-AGCCATTAGTA
15703950 ATGGTAATAT
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
61 57 0.73
62 1 0.01
63 2 0.03
64 18 0.23
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (60 bp):
AGTAATATGATCGGCACAAGCCATTAGTAGTAATATGATCGGCACACAACCATCAATAAT
Found at i:15703976 original size:93 final size:93
Alignment explanation
Indices: 15703795--15703976 Score: 231
Period size: 93 Copynumber: 2.0 Consensus size: 93
15703785 CCATAAGTAC
* * * *
15703795 AGTAATATGATTGACACAAAGCCATCAGTAGTAGTAATATGATCGGCACACAGTCATCAGTAATA
1 AGTAATATGATCGACACAAAGCCATCAATAATAGTAATATGATCGGCACACAGCCATCAGTAATA
* * * * *
15703860 GTAGTATGATCGGCATAAGGCCATTAGT
66 GTAATATAATCGACACAAAGCCATTAGT
* * *
15703888 AGTAATATGATCGGCACACAA-CCATCAATAATGGTAATATGATCGGCACATAGCCATCAGTAAT
1 AGTAATATGATCGACACA-AAGCCATCAATAATAGTAATATGATCGGCACACAGCCATCAGTAAT
*
15703952 GGTAATATAATCGACACAAAGCCAT
65 AGTAATATAATCGACACAAAGCCAT
15703977 CAAAAGCATC
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
93 73 0.97
94 2 0.03
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.24
Consensus pattern (93 bp):
AGTAATATGATCGACACAAAGCCATCAATAATAGTAATATGATCGGCACACAGCCATCAGTAATA
GTAATATAATCGACACAAAGCCATTAGT
Found at i:15704036 original size:26 final size:26
Alignment explanation
Indices: 15703987--15704038 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
15703977 CAAAAGCATC
*
15703987 GCAGCAAAGCAGCTAGCAACAGTATA
1 GCAGCAAAGCAGCCAGCAACAGTATA
* * *
15704013 GCAGCAAAGCTGCCAGTAATAGTATA
1 GCAGCAAAGCAGCCAGCAACAGTATA
15704039 TGTGGCCAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.40, C:0.21, G:0.23, T:0.15
Consensus pattern (26 bp):
GCAGCAAAGCAGCCAGCAACAGTATA
Found at i:15704184 original size:24 final size:24
Alignment explanation
Indices: 15704152--15704209 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
15704142 CCATGCACGG
15704152 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
**
15704176 AATCAGTCATTTAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
*
15704200 AATTAGTCAT
1 AATCAGTCAT
15704210 TGACATCTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.24
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAGACA
Found at i:15704210 original size:24 final size:24
Alignment explanation
Indices: 15704164--15704261 Score: 106
Period size: 24 Copynumber: 4.1 Consensus size: 24
15704154 TCAGTCATAC
*
15704164 AAATCACAGACAAATCAGTCATTT
1 AAATCACAGACAAATCAATCATTT
* * *
15704188 AAATCACAGACAAATTAGTCATTG
1 AAATCACAGACAAATCAATCATTT
* * *
15704212 ACATCTCTGACAAATCAATCATTT
1 AAATCACAGACAAATCAATCATTT
* * *
15704236 ACATCACAGGCAAATTAATCATTT
1 AAATCACAGACAAATCAATCATTT
15704260 AA
1 AA
15704262 CTCCGAGGGG
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (24 bp):
AAATCACAGACAAATCAATCATTT
Found at i:15704309 original size:27 final size:27
Alignment explanation
Indices: 15704279--15704631 Score: 212
Period size: 27 Copynumber: 13.5 Consensus size: 27
15704269 GGGCAAAATA
*
15704279 GTCATTTTACCATACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* ** *
15704306 GTCATTTTATCCTACAGAAGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
15704333 ATAATTTTACTCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* ** *
15704360 GTTATTTTACATTAC--GGTCA-T---
1 GTCATTTTACCCTACAGGGGCATTACG
* *
15704381 -T--T--TACCTTTCAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* **
15704403 GTTATTTTACCCTTTAGGGGCATTAC-
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
15704429 GACTATATTACCTTACAGGGGCATTACA
1 GTC-ATTTTACCCTACAGGGGCATTACG
* *
15704457 GTTATTTTACCCTACAGGAGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
** *
15704484 GTCATTTTACCCTACAGGGGTGTTACA
1 GTCATTTTACCCTACAGGGGCATTACG
* **
15704511 GTTATTTTACCCTACAGGGGTGTTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
15704538 GTTATTTTACCTTATAGGGGCGTTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
15704565 GTCATTTTACCCGT-C-GAGGGTATTTCA
1 GTCATTTTACCC-TACAG-GGGCATTACG
* * *
15704592 GTCATTTTACCCTTCAGGGGTATTTCG
1 GTCATTTTACCCTACAGGGGCATTACG
*
15704619 ATCATTTTACCCT
1 GTCATTTTACCCT
15704632 TCGAGGGTAT
Statistics
Matches: 254, Mismatches: 55, Indels: 34
0.74 0.16 0.10
Matches are distributed among these distances:
16 6 0.02
18 5 0.02
19 1 0.00
20 1 0.00
23 1 0.00
24 1 0.00
25 5 0.02
26 3 0.01
27 228 0.90
28 3 0.01
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:15704372 original size:16 final size:16
Alignment explanation
Indices: 15704353--15704385 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
15704343 TCTATAGGGG
*
15704353 CATTACGGTTATTTTA
1 CATTACGGTCATTTTA
15704369 CATTACGGTCATTTTA
1 CATTACGGTCATTTTA
15704385 C
1 C
15704386 CTTTCAGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.45
Consensus pattern (16 bp):
CATTACGGTCATTTTA
Found at i:15704412 original size:70 final size:70
Alignment explanation
Indices: 15704299--15704429 Score: 174
Period size: 70 Copynumber: 1.9 Consensus size: 70
15704289 CATACAGGGG
*
15704299 CATTACGGTCATTTTATCCTACAGAAGCATTACAATAATTTTACTCTATAGGGGCATTACGGTTA
1 CATTACGGTCATTTTATCCTACAGAAGCATTACAATAATTTTACCCTATAGGGGCATTACGGTTA
15704364 TTTTA
66 TTTTA
* ** ** * *
15704369 CATTACGGTCATTTTA-CCTTTCAGGGGCATTACGGTTATTTTACCCTTTAGGGGCATTACG
1 CATTACGGTCATTTTATCC-TACAGAAGCATTACAATAATTTTACCCTATAGGGGCATTACG
15704430 ACTATATTAC
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
69 2 0.04
70 50 0.96
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (70 bp):
CATTACGGTCATTTTATCCTACAGAAGCATTACAATAATTTTACCCTATAGGGGCATTACGGTTA
TTTTA
Found at i:15704449 original size:97 final size:97
Alignment explanation
Indices: 15704279--15704466 Score: 236
Period size: 97 Copynumber: 1.9 Consensus size: 97
15704269 GGGCAAAATA
* *
15704279 GTCATTTTACCATACAGGGGCATTACGGTCATTTTATCCTACAGAAGCATTACAATAATTTTACT
1 GTCATTTTACCATACAGGGGCATTACGGTCATTTTACCCTACAGAAGCATTACAATAATATTACT
* *
15704344 CTATAGGGGCATTACGGTTATTTTACATTACG
66 CTACAGGGGCATTACAGTTATTTTACATTACG
* * * ** ** *
15704376 GTCATTTTACCTTTCAGGGGCATTACGGTTATTTTACCCTTTAGGGGCATTACGACT-ATATTAC
1 GTCATTTTACCATACAGGGGCATTACGGTCATTTTACCCTACAGAAGCATTAC-AATAATATTAC
15704440 -CTTACAGGGGCATTACAGTTATTTTAC
65 TC-TACAGGGGCATTACAGTTATTTTAC
15704467 CCTACAGGAG
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
96 1 0.01
97 74 0.96
98 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (97 bp):
GTCATTTTACCATACAGGGGCATTACGGTCATTTTACCCTACAGAAGCATTACAATAATATTACT
CTACAGGGGCATTACAGTTATTTTACATTACG
Found at i:15704599 original size:81 final size:80
Alignment explanation
Indices: 15704370--15704629 Score: 256
Period size: 81 Copynumber: 3.2 Consensus size: 80
15704360 GTTATTTTAC
* * * * *
15704370 ATTACGGTCATTTTACCTT-TCAGGGGCATTACGGTTATTTTACCCTTTAGGGGCATTAC-GACT
1 ATTACGGTTATTTTACCTTAT-AGGGGCATTACGGTCATTTTACCC-TCAGGGGTATTACAGTC-
* * *
15704433 ATATTACCTTACAGGGGC
63 ATTTTACCCTACAGGGGT
* * * * * *
15704451 ATTACAGTTATTTTACCCTACAGGAGCATTACGGTCATTTTACCCTACAGGGGTGTTACAGTTAT
1 ATTACGGTTATTTTACCTTATAGGGGCATTACGGTCATTTTACCCT-CAGGGGTATTACAGTCAT
15704516 TTTACCCTACAGGGGT
65 TTTACCCTACAGGGGT
* * *
15704532 GTTACGGTTATTTTACCTTATAGGGGCGTTACGGTCATTTTACCCGTC-GAGGGTATTTCAGTCA
1 ATTACGGTTATTTTACCTTATAGGGGCATTACGGTCATTTTACCC-TCAG-GGGTATTACAGTCA
*
15704596 TTTTACCCTTCAGGGGT
64 TTTTACCCTACAGGGGT
* * *
15704613 ATTTCGATCATTTTACC
1 ATTACGGTTATTTTACC
15704630 CTTCGAGGGT
Statistics
Matches: 146, Mismatches: 28, Indels: 10
0.79 0.15 0.05
Matches are distributed among these distances:
80 2 0.01
81 142 0.97
82 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (80 bp):
ATTACGGTTATTTTACCTTATAGGGGCATTACGGTCATTTTACCCTCAGGGGTATTACAGTCATT
TTACCCTACAGGGGT
Found at i:15704670 original size:54 final size:54
Alignment explanation
Indices: 15704566--15704671 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
15704556 GGCGTTACGG
* *
15704566 TCATTTTACCCGTCGAGGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCGA
1 TCATTTTACCCGTCGAGGGTATTTCAGGCATTTTACCCTTCAGGGCTATTTCGA
*
15704620 TCATTTTACCCTTCGAGGGTATTT-AGGCAATTTTACCCTTC-GAGGCTATTTC
1 TCATTTTACCCGTCGAGGGTATTTCAGGC-ATTTTACCCTTCAG-GGCTATTTC
15704672 AGTAATTTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
53 4 0.09
54 43 0.91
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.40
Consensus pattern (54 bp):
TCATTTTACCCGTCGAGGGTATTTCAGGCATTTTACCCTTCAGGGCTATTTCGA
Found at i:15704678 original size:27 final size:27
Alignment explanation
Indices: 15704568--15704681 Score: 135
Period size: 27 Copynumber: 4.2 Consensus size: 27
15704558 CGTTACGGTC
* *
15704568 ATTTTACCCGTCGAGGGTATTTCAGTC
1 ATTTTACCCTTCGAGGGTATTTCAGTA
*
15704595 ATTTTACCCTTC-AGGGGTATTTC-GATC
1 ATTTTACCCTTCGA-GGGTATTTCAG-TA
*
15704622 ATTTTACCCTTCGAGGGTATTT-AGGCA
1 ATTTTACCCTTCGAGGGTATTTCA-GTA
*
15704649 ATTTTACCCTTCGAGGCTATTTCAGTA
1 ATTTTACCCTTCGAGGGTATTTCAGTA
15704676 ATTTTA
1 ATTTTA
15704682 TAGCCTTTTC
Statistics
Matches: 76, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
26 2 0.03
27 71 0.93
28 3 0.04
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.40
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCAGTA
Found at i:15710472 original size:29 final size:29
Alignment explanation
Indices: 15710438--15710503 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
15710428 AGTGAACAGG
*
15710438 TTCTTCTTTCTAACCTCAACATTCTCTTT
1 TTCTTCTTTCTAACCTCAACATTCTCTTC
15710467 TTCTTCTTTCTAACCTCAACATTCTCTTC
1 TTCTTCTTTCTAACCTCAACATTCTCTTC
15710496 TTCTTCTT
1 TTCTTCTT
15710504 CTTCTTTAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.15, C:0.32, G:0.00, T:0.53
Consensus pattern (29 bp):
TTCTTCTTTCTAACCTCAACATTCTCTTC
Found at i:15711427 original size:25 final size:25
Alignment explanation
Indices: 15711399--15711449 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
15711389 CCTTCGTGGC
15711399 GAATTCTTTGTAAAGCCTTTATGGT
1 GAATTCTTTGTAAAGCCTTTATGGT
*
15711424 GAATTCTTTGTAAAGTCTTTATGGT
1 GAATTCTTTGTAAAGCCTTTATGGT
15711449 G
1 G
15711450 TATTATCTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.10, G:0.22, T:0.45
Consensus pattern (25 bp):
GAATTCTTTGTAAAGCCTTTATGGT
Found at i:15719399 original size:19 final size:20
Alignment explanation
Indices: 15719375--15719413 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15719365 TTATATTCCG
*
15719375 TAATTAA-TATTTTAAACTT
1 TAATTAATTACTTTAAACTT
15719394 TAATTAATTACTTTAAACTT
1 TAATTAATTACTTTAAACTT
15719414 GATTAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (20 bp):
TAATTAATTACTTTAAACTT
Found at i:15721099 original size:24 final size:25
Alignment explanation
Indices: 15721072--15721118 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
15721062 GTAAATCAAA
15721072 AAAATATCTCTA-AAAATTTTCTGG
1 AAAATATCTCTAGAAAATTTTCTGG
* * *
15721096 AAAATCTCTTTAGAGAATTTTCT
1 AAAATATCTCTAGAAAATTTTCT
15721119 CTCTACAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (25 bp):
AAAATATCTCTAGAAAATTTTCTGG
Found at i:15721298 original size:59 final size:62
Alignment explanation
Indices: 15721226--15721343 Score: 152
Period size: 62 Copynumber: 2.0 Consensus size: 62
15721216 AATCACTTTA
* * * *
15721226 ATATTAAATTAATATAAT-ATT-TAT-CAAGAGAAATATTAGATTAAATTTAATACTAAATC
1 ATATTAAAATAATAGAATGATTATATACAAGAGAAACATTAAATTAAATTTAATACTAAATC
* * *
15721285 ATATTAAAATAATAGAATGCTTATCTACAAGATAAACATTAAATTAAATTTAATACTAA
1 ATATTAAAATAATAGAATGATTATATACAAGAGAAACATTAAATTAAATTTAATACTAA
15721344 GATAATAACT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 16 0.33
60 2 0.04
61 2 0.04
62 29 0.59
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (62 bp):
ATATTAAAATAATAGAATGATTATATACAAGAGAAACATTAAATTAAATTTAATACTAAATC
Found at i:15721369 original size:20 final size:19
Alignment explanation
Indices: 15721322--15721382 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 19
15721312 CAAGATAAAC
15721322 ATTAAATT-A-AATTTAAT
1 ATTAAATTAATAATTTAAT
*
15721339 ACTAAGA-TAATAACTTTAAT
1 ATTAA-ATTAATAA-TTTAAT
**
15721359 ATTAAATTAATAAAATAAT
1 ATTAAATTAATAATTTAAT
15721378 ATTAA
1 ATTAA
15721383 GATAAGTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 5 0.14
18 2 0.06
19 12 0.34
20 16 0.46
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (19 bp):
ATTAAATTAATAATTTAAT
Found at i:15721889 original size:25 final size:25
Alignment explanation
Indices: 15721843--15721890 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
15721833 AAATATTATA
***
15721843 TTAATTTTAATTGATTTGATTTACT
1 TTAATTTTAATTGATCAAATTTACT
*
15721868 TTAATTTTACTTGATCAAATTTA
1 TTAATTTTAATTGATCAAATTTA
15721891 TTTTTTCCAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (25 bp):
TTAATTTTAATTGATCAAATTTACT
Done.