Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 86 of 141
Found at i:24572622 original size:14 final size:15
Alignment explanation
Indices: 24572605--24572637 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
24572595 AAATTTTAAG
24572605 AAAAAAATAAAA-AT
1 AAAAAAATAAAACAT
*
24572619 AAAAATATAAAACAT
1 AAAAAAATAAAACAT
24572634 AAAA
1 AAAA
24572638 CTTTTATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (15 bp):
AAAAAAATAAAACAT
Found at i:24576021 original size:21 final size:22
Alignment explanation
Indices: 24575975--24576021 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
24575965 GAAAAATAAA
* *
24575975 AAAAATCGAATACAAACAGTCG
1 AAAAATCGAAAACAAACAGTAG
*
24575997 -AAAATCGAAAACAAAGAG-AG
1 AAAAATCGAAAACAAACAGTAG
24576017 AAAAA
1 AAAAA
24576022 AAATAATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.64, C:0.13, G:0.15, T:0.09
Consensus pattern (22 bp):
AAAAATCGAAAACAAACAGTAG
Found at i:24579187 original size:13 final size:13
Alignment explanation
Indices: 24579164--24579197 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
24579154 AATTCTGATA
*
24579164 TCAACTTTCTTCT
1 TCAATTTTCTTCT
*
24579177 TCACTTTTCTTCT
1 TCAATTTTCTTCT
24579190 TCAATTTT
1 TCAATTTT
24579198 TTGCGTCTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.15, C:0.26, G:0.00, T:0.59
Consensus pattern (13 bp):
TCAATTTTCTTCT
Found at i:24583872 original size:23 final size:23
Alignment explanation
Indices: 24583676--24584006 Score: 202
Period size: 23 Copynumber: 14.7 Consensus size: 23
24583666 TAGTAGTTGG
* *
24583676 AAATTG-AGATGTTTTATTGCTGT
1 AAATTGAAG-TGTTTAAATGCTGT
* * *
24583699 -AATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
* * *
24583721 TAATAG-AGATG-TTAAAGTGCTGC
1 AAATTGAAG-TGTTTAAA-TGCTGT
*
24583744 AAATTGAAGTGTTTAAATGATGT
1 AAATTGAAGTGTTTAAATGCTGT
* * * *
24583767 AAATTAAAGTGTTAAAATGTTGC
1 AAATTGAAGTGTTTAAATGCTGT
*
24583790 AAATTGAAGTATTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
* *
24583813 GAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGCTGT
24583836 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
24583859 AAATTGAAGTGTTTTAA----GT
1 AAATTGAAGTGTTTAAATGCTGT
* * * *
24583878 --ACTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
* * *
24583899 TAATTG-GGATG-TTAAAGTGTTGT
1 AAATTGAAG-TGTTTAAA-TGCTGT
* * *
24583922 GAGTTGAGGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
* * *
24583945 AAATTGAAGTATTTAATTGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
* * * *
24583968 AAATTGAGGTGCTGAAATGATGT
1 AAATTGAAGTGTTTAAATGCTGT
*
24583991 AAATCGAAGTGTTTAA
1 AAATTGAAGTGTTTAA
24584007 GTGTTGCAAA
Statistics
Matches: 236, Mismatches: 54, Indels: 36
0.72 0.17 0.11
Matches are distributed among these distances:
17 11 0.05
19 2 0.01
21 2 0.01
22 31 0.13
23 171 0.72
24 19 0.08
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.38
Consensus pattern (23 bp):
AAATTGAAGTGTTTAAATGCTGT
Found at i:24585561 original size:28 final size:28
Alignment explanation
Indices: 24585502--24585586 Score: 107
Period size: 28 Copynumber: 3.0 Consensus size: 28
24585492 AGTAGCAGTT
* * ** *
24585502 TGGGCCTAAGCCCTATACAGCAACAGTA
1 TGGGCCTTAGCCCAATACAATAATAGTA
*
24585530 TGGGCCTTAGCCCAATACAATAATAGTG
1 TGGGCCTTAGCCCAATACAATAATAGTA
*
24585558 TGGGCCATAGCCCAATACAATAATAGTA
1 TGGGCCTTAGCCCAATACAATAATAGTA
24585586 T
1 T
24585587 AATGCAGTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (28 bp):
TGGGCCTTAGCCCAATACAATAATAGTA
Found at i:24585720 original size:26 final size:26
Alignment explanation
Indices: 24585691--24585787 Score: 149
Period size: 26 Copynumber: 3.7 Consensus size: 26
24585681 CACCAATATC
24585691 GCAGCAAAGCTGCCAGTAATAGTGAT
1 GCAGCAAAGCTGCCAGTAATAGTGAT
*
24585717 GCAGTAAAGCTGCCAGTAATAGTGAT
1 GCAGCAAAGCTGCCAGTAATAGTGAT
*
24585743 GCAGCAAAGCTGCCAGTAATAGTGAC
1 GCAGCAAAGCTGCCAGTAATAGTGAT
* * *
24585769 GCAGTAAAGTTACCAGTAA
1 GCAGCAAAGCTGCCAGTAA
24585788 AAGTATATGT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 65 1.00
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.20
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAATAGTGAT
Found at i:24586014 original size:27 final size:26
Alignment explanation
Indices: 24585967--24586245 Score: 245
Period size: 27 Copynumber: 10.3 Consensus size: 26
24585957 GGGTATAGCA
* *
24585967 GTCATTTTACCCTTTGGGGGTATTTCG
1 GTCATTTTA-CCTTCGAGGGTATTTCG
* *
24585994 GTCATTTTACCTTGCCAGGGTATTTCA
1 GTCATTTTACCTT-CGAGGGTATTTCG
* * * **
24586021 GTAATTCTACCCTGCGAGGGTATTTTA
1 GTCATTTTA-CCTTCGAGGGTATTTCG
* *
24586048 GTTATTTTACCAGTT-GAGGGTATTTTG
1 GTCATTTTACC--TTCGAGGGTATTTCG
** *
24586075 GTCATTTTACCCTTTAAGGGTATTTCA
1 GTCATTTTA-CCTTCGAGGGTATTTCG
* * *
24586102 GTCATTTTACCTTTTGAGGATATTTCA
1 GTCATTTTACC-TTCGAGGGTATTTCG
24586129 GTCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTA-CCTTCGAGGGTATTTCG
*
24586156 GTTATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTA-CCTTCGAGGGTATTTCG
* * *
24586183 ATCATTTTACCTTTTGAGGATATTTCG
1 GTCATTTTACC-TTCGAGGGTATTTCG
24586210 GTCATTTTATCCTTCGAGGGTATTTCG
1 GTCATTTTA-CCTTCGAGGGTATTTCG
* *
24586237 ATTATTTTA
1 GTCATTTTA
24586246 GGCCCATTAC
Statistics
Matches: 210, Mismatches: 32, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
26 12 0.06
27 188 0.90
28 10 0.05
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.45
Consensus pattern (26 bp):
GTCATTTTACCTTCGAGGGTATTTCG
Found at i:24586042 original size:54 final size:53
Alignment explanation
Indices: 24585956--24586235 Score: 285
Period size: 54 Copynumber: 5.2 Consensus size: 53
24585946 TCAACTCCTA
** * * *
24585956 AGGGTATAGCAGTCATTTTACCCTTTGGGGGTATTTCGGTCATTTTACCTTGCC
1 AGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCTT-CG
* * * ** *
24586010 AGGGTATTTCAGTAATTCTACCCTGCGAGGGTATTTTAGTTATTTTACCAGTT-G
1 AGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACC--TTCG
** ** * *
24586064 AGGGTATTTTGGTCATTTTACCCTTTAAGGGTATTTCAGTCATTTTACCTTTTG
1 AGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACC-TTCG
* *
24586118 AGGATATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTTATTTTACCCTTCG
1 AGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTA-CCTTCG
* * *
24586172 AGGGTATTTC-GATCATTTTACCTTTTGAGGATATTTCGGTCATTTTATCCTTCG
1 AGGGTATTTCAG-TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTA-CCTTCG
24586226 AGGGTATTTC
1 AGGGTATTTC
24586236 GATTATTTTA
Statistics
Matches: 186, Mismatches: 35, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
53 3 0.02
54 179 0.96
55 2 0.01
56 2 0.01
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (53 bp):
AGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCTTCG
Found at i:24586095 original size:81 final size:80
Alignment explanation
Indices: 24585965--24586245 Score: 278
Period size: 81 Copynumber: 3.5 Consensus size: 80
24585955 AAGGGTATAG
* *
24585965 CAGTCATTTTACCCTTTGGGGGTATTTCGGTCATTTTA-CCTTGCCAGGGTATTTCAGTAATTCT
1 CAGTCATTTTACCC-TTGAGGGTATTTCGGTCATTTTACCCTT-CAAGGGTATTTCAGTAATTCT
*
24586029 ACCCTGCGAGGGTATTT
64 ACCCTGCGAGGATATTT
* * * * * * *
24586046 TAGTTATTTTACCAGTTGAGGGTATTTTGGTCATTTTACCCTTTAAGGGTATTTCAGTCATTTTA
1 CAGTCATTTTACC-CTTGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCAGTAATTCTA
* **
24586111 CCTTTTGAGGATATTT
65 CCCTGCGAGGATATTT
* * * *
24586127 CAGTCATTTTACCCTTCGAGGGTATTTCGGTTATTTTACCCTTCGAGGGTATTTC-GATCATTTT
1 CAGTCATTTTACCCTT-GAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCAG-TAATTCT
* **
24586191 ACCTTTTGAGGATATTT
64 ACCCTGCGAGGATATTT
* * * *
24586208 CGGTCATTTTATCCTTCGAGGGTATTTCGATTATTTTA
1 CAGTCATTTTACCCTT-GAGGGTATTTCGGTCATTTTA
24586246 GGCCCATTAC
Statistics
Matches: 173, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
80 3 0.02
81 166 0.96
82 4 0.02
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.44
Consensus pattern (80 bp):
CAGTCATTTTACCCTTGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCAGTAATTCTAC
CCTGCGAGGATATTT
Found at i:24589639 original size:12 final size:12
Alignment explanation
Indices: 24589622--24589646 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24589612 CAGAAAAATA
24589622 CCCCAAATAAAG
1 CCCCAAATAAAG
24589634 CCCCAAATAAAG
1 CCCCAAATAAAG
24589646 C
1 C
24589647 TTTAAAAAAT
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:0.48, C:0.36, G:0.08, T:0.08
Consensus pattern (12 bp):
CCCCAAATAAAG
Found at i:24592231 original size:16 final size:15
Alignment explanation
Indices: 24592196--24592231 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
24592186 CAAAATCAAG
24592196 ATTTTTACAACATCC
1 ATTTTTACAACATCC
* *
24592211 ATTTTTACAATATTC
1 ATTTTTACAACATCC
24592226 ATTTTT
1 ATTTTT
24592232 CTTTAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTTTACAACATCC
Found at i:24593369 original size:188 final size:188
Alignment explanation
Indices: 24593022--24593397 Score: 700
Period size: 189 Copynumber: 2.0 Consensus size: 188
24593012 TCATTTATAG
24593022 TTCATCTTCAAACAAAAAAATTCATCTATAAAATCATAAGAAGCTTTCAAAATATAACTTTGTTA
1 TTCATCTTCAAACAAAAAAATTCATCTATAAAATCATAAGAAGCTTTCAAAATATAACTTTGTTA
24593087 AATAGTAAATGACATCTTTTAAACAATAAATGTTAATTATGTTCCAATTTGGCCTTATTCATTTT
66 AATAGTAAATGACATCTTTTAAACAATAAATGTTAATTATGTTCCAATTTGGCCTTATTCATTTT
*
24593152 TTTTAATAGTACAAAGACTAAATTGATCCATTTAATAGTAGGGGGACTAATTCGATAC
131 TTTTAATAGTACAAAGACTAAATTGATCCATTTAATAGTAGAGGGACTAATTCGATAC
24593210 TTCATCTTCAAACAAAAAAAATTCATCTATAAAATCATAAGAAGCTTTCAAAATATAACTTTGTT
1 TTCATCTTCAAAC-AAAAAAATTCATCTATAAAATCATAAGAAGCTTTCAAAATATAACTTTGTT
* *
24593275 AAATAGTAAATGACATCTTTTAAACAATAAATGTTAATTATGTTCCAATTTTGCCTTATTTA-TT
65 AAATAGTAAATGACATCTTTTAAACAATAAATGTTAATTATGTTCCAATTTGGCCTTATTCATTT
*
24593339 TTTTTAATAGTACAAAGACTAAATTGATCCATTTAATAGTAGAGGGATTAATTCGATAC
130 TTTTTAATAGTACAAAGACTAAATTGATCCATTTAATAGTAGAGGGACTAATTCGATAC
24593398 GACCCCTATG
Statistics
Matches: 183, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
188 72 0.39
189 111 0.61
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (188 bp):
TTCATCTTCAAACAAAAAAATTCATCTATAAAATCATAAGAAGCTTTCAAAATATAACTTTGTTA
AATAGTAAATGACATCTTTTAAACAATAAATGTTAATTATGTTCCAATTTGGCCTTATTCATTTT
TTTTAATAGTACAAAGACTAAATTGATCCATTTAATAGTAGAGGGACTAATTCGATAC
Found at i:24594567 original size:19 final size:19
Alignment explanation
Indices: 24594545--24594582 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
24594535 AAAAAGAAAG
24594545 AAAAAAAATATAATATCTT
1 AAAAAAAATATAATATCTT
24594564 AAAAAAAATATAATATCTT
1 AAAAAAAATATAATATCTT
24594583 CTTTTGTAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAAAAATATAATATCTT
Found at i:24599001 original size:15 final size:15
Alignment explanation
Indices: 24598976--24599010 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
24598966 GACTCTATTT
*
24598976 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
24598990 TAATTAATATTAAGA
1 TAATTAATATTAAGA
24599005 TAATTA
1 TAATTA
24599011 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:24604035 original size:18 final size:19
Alignment explanation
Indices: 24603995--24604036 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
24603985 CATACTTATA
24603995 CATAT-ATTCTTTATATTC
1 CATATAATTCTTTATATTC
* *
24604013 TATATAATTTTTTAT-TTC
1 CATATAATTCTTTATATTC
24604031 CATATA
1 CATATA
24604037 TATATACATA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.57
Consensus pattern (19 bp):
CATATAATTCTTTATATTC
Found at i:24604125 original size:56 final size:55
Alignment explanation
Indices: 24603976--24604126 Score: 139
Period size: 56 Copynumber: 2.7 Consensus size: 55
24603966 TTCCCAATTT
* * *
24603976 ATATGTATACATACTTATACATATATTCTTTATATTCTATATAATTTTTTATTTCCAT
1 ATATATATACATACTTAT-CATAT-TT-TTTATATTCTATATAATTTTCTATTTCCAG
** * * *
24604034 ATATATATACATACGCACTCATATATTTT-T-GTCTATATACATCTTTCTATTTTCACG
1 ATATATATACATACTTA-TCATATTTTTTATATTCTATATA-AT-TTTCTATTTCCA-G
24604091 A-ATATATACATACTTAT-ATATTTTTTATATTCTATA
1 ATATATATACATACTTATCATATTTTTTATATTCTATA
24604127 ATTTTTATGT
Statistics
Matches: 75, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
54 16 0.21
55 5 0.07
56 32 0.43
57 2 0.03
58 19 0.25
59 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.03, T:0.50
Consensus pattern (55 bp):
ATATATATACATACTTATCATATTTTTTATATTCTATATAATTTTCTATTTCCAG
Found at i:24606296 original size:17 final size:17
Alignment explanation
Indices: 24606274--24606308 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
24606264 ATTAGGGTAA
*
24606274 TATGTAAATATCTGTTT
1 TATGTAAAGATCTGTTT
*
24606291 TATGTAAAGATTTGTTT
1 TATGTAAAGATCTGTTT
24606308 T
1 T
24606309 CTAGAAAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.14, T:0.54
Consensus pattern (17 bp):
TATGTAAAGATCTGTTT
Found at i:24607776 original size:8 final size:7
Alignment explanation
Indices: 24607745--24607783 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
24607735 TGGAGGCAAA
24607745 AAAAACC
1 AAAAACC
24607752 AAAAACC
1 AAAAACC
24607759 AAAAACC
1 AAAAACC
24607766 AAAAACAC
1 AAAAAC-C
24607774 AAAAA-C
1 AAAAACC
24607780 AAAA
1 AAAA
24607784 TAAAAGAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 5 0.16
7 20 0.65
8 6 0.19
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAACC
Found at i:24607796 original size:8 final size:8
Alignment explanation
Indices: 24607743--24607816 Score: 51
Period size: 8 Copynumber: 8.9 Consensus size: 8
24607733 AGTGGAGGCA
24607743 AAAAAAAC
1 AAAAAAAC
*
24607751 -CAAAAAC
1 AAAAAAAC
* *
24607758 CAAAAACC
1 AAAAAAAC
*
24607766 AAAAACAC
1 AAAAAAAC
*
24607774 AAAAACAAA
1 AAAAA-AAC
24607783 ATAAAAGAAC
1 A-AAAA-AAC
*
24607793 AAAATAGAC
1 AAAA-AAAC
24607802 AAAAAAAC
1 AAAAAAAC
24607810 AAAAAAA
1 AAAAAAA
24607817 AACCTCTATT
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
7 6 0.12
8 25 0.50
9 11 0.22
10 8 0.16
ACGTcount: A:0.78, C:0.16, G:0.03, T:0.03
Consensus pattern (8 bp):
AAAAAAAC
Found at i:24607815 original size:7 final size:7
Alignment explanation
Indices: 24607744--24607815 Score: 56
Period size: 7 Copynumber: 9.9 Consensus size: 7
24607734 GTGGAGGCAA
24607744 AAAAAAC
1 AAAAAAC
*
24607751 CAAAAAC
1 AAAAAAC
*
24607758 CAAAAAC
1 AAAAAAC
*
24607765 CAAAAAC
1 AAAAAAC
24607772 ACAAAAAC
1 A-AAAAAC
*
24607780 AAAATA-
1 AAAAAAC
*
24607786 AAAGAAC
1 AAAAAAC
24607793 AAAATAGAC
1 AAAA-A-AC
24607802 AAAAAAAC
1 -AAAAAAC
24607810 AAAAAA
1 AAAAAA
24607816 AAACCTCTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
6 4 0.07
7 33 0.61
8 10 0.19
9 3 0.06
10 4 0.07
ACGTcount: A:0.78, C:0.17, G:0.03, T:0.03
Consensus pattern (7 bp):
AAAAAAC
Found at i:24608286 original size:7 final size:7
Alignment explanation
Indices: 24608274--24608313 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
24608264 CACAAAAAGG
24608274 AAAGAAA
1 AAAGAAA
24608281 AAAGAAA
1 AAAGAAA
24608288 AGAAGAAA
1 A-AAGAAA
*
24608296 AATG-AA
1 AAAGAAA
24608302 AAAGAAA
1 AAAGAAA
24608309 AAAGA
1 AAAGA
24608314 GAGGCCAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 5 0.17
7 17 0.59
8 7 0.24
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (7 bp):
AAAGAAA
Found at i:24608295 original size:15 final size:14
Alignment explanation
Indices: 24608274--24608313 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
24608264 CACAAAAAGG
24608274 AAAGAAAAAAGAAA
1 AAAGAAAAAAGAAA
*
24608288 AGAAGAAAAATG-AA
1 A-AAGAAAAAAGAAA
24608302 AAAGAAAAAAGA
1 AAAGAAAAAAGA
24608314 GAGGCCAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.41
14 4 0.18
15 9 0.41
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (14 bp):
AAAGAAAAAAGAAA
Found at i:24609410 original size:44 final size:43
Alignment explanation
Indices: 24609362--24610078 Score: 443
Period size: 44 Copynumber: 16.4 Consensus size: 43
24609352 GTATTGGCGT
24609362 GAAGTAGATCGAAGATTACAAGTCCTGTCTTCCTATATTGGTAG
1 GAAGTAGATCGAAGA-TACAAGTCCTGTCTTCCTATATTGGTAG
* * *
24609406 GAAGTGGATCGAAGATGCAGGTCCTGTCTTCCTATATTGGTAG
1 GAAGTAGATCGAAGATACAAGTCCTGTCTTCCTATATTGGTAG
* * * * * *
24609449 GAAGTAGATCGAGGAAAGC-AGATCTTGTCTTCATGTATTGG-CG
1 GAAGTAGATCGAAGATA-CAAG-TCCTGTCTTCCTATATTGGTAG
***
24609492 TGAAGTAGATCGAAGATGGTAGATCCTGTCTTCCTATATTGGTAG
1 -GAAGTAGATCGAAGATACAAG-TCCTGTCTTCCTATATTGGTAG
* * * * * *
24609537 GAAGTGGATCGACGATGCAGGCCCTGTCCTCCTATATTGGTAG
1 GAAGTAGATCGAAGATACAAGTCCTGTCTTCCTATATTGGTAG
* * * * * *
24609580 GAAGTAGATCGAGGAAAGC-AGATCTTGTCTTCATGTATTGG-CG
1 GAAGTAGATCGAAGATA-CAAG-TCCTGTCTTCCTATATTGGTAG
***
24609623 TGAAGTAGATCGAAGATGGTAGATCCTGTCTTCCTATATTGGTAG
1 -GAAGTAGATCGAAGATACAAG-TCCTGTCTTCCTATATTGGTAG
* * * *
24609668 GAAGTGGATCGAAGATGCAGGTCATGTCTTCCTATATTGGTAG
1 GAAGTAGATCGAAGATACAAGTCCTGTCTTCCTATATTGGTAG
* * * * * * * *
24609711 GAAGTAGATCAAAGAAAGAAAATCTTGTCTTCATGTATTGG-CG
1 GAAGTAGATCGAAGATA-CAAGTCCTGTCTTCCTATATTGGTAG
** * *
24609754 TGAAGTAGATCGTTGATAGCAGGTCCTGTCTTCTTATATTGGTAG
1 -GAAGTAGATCGAAGATA-CAAGTCCTGTCTTCCTATATTGGTAG
* * * * * *
24609799 GAAGTGGATCGAAAATAC-AGATCTTGTCTTCCCATACTGGTGG
1 GAAGTAGATCGAAGATACAAG-TCCTGTCTTCCTATATTGGTAG
* * * * * *
24609842 TGAAGTAGATCAAAGAAAGC-AGATCTTGTCTTCATGTATTGG-CG
1 -GAAGTAGATCGAAGATA-CAAG-TCCTGTCTTCCTATATTGGTAG
** * * *
24609886 TGAAGTAGATCGAAGATGGTAGGTCCTTTCTTCTTATATTGGTAG
1 -GAAGTAGATCGAAGAT-ACAAGTCCTGTCTTCCTATATTGGTAG
* * * * * *
24609931 GAAGT-GTATCGAATATGC-AGATCTTGTCTTCCCATACTGGTGG
1 GAAGTAG-ATCGAAGATACAAG-TCCTGTCTTCCTATATTGGTAG
* * * * *
24609974 CGAAGTAGATCAAAGAAAGC-AGATCTTGTCTTCATGTATTGGCGTA-
1 -GAAGTAGATCGAAGATA-CAAG-TCCTGTCTTCCTATATT-G-GTAG
* *
24610020 -AAGTAGATCGAAGATAGCAGGCCCTGTCTTCCTATATTGGTAG
1 GAAGTAGATCGAAGATA-CAAGTCCTGTCTTCCTATATTGGTAG
*
24610063 GAAGTGGATCGAAGAT
1 GAAGTAGATCGAAGAT
24610079 GCATATATTG
Statistics
Matches: 516, Mismatches: 128, Indels: 58
0.74 0.18 0.08
Matches are distributed among these distances:
42 5 0.01
43 148 0.29
44 317 0.61
45 43 0.08
46 1 0.00
47 2 0.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (43 bp):
GAAGTAGATCGAAGATACAAGTCCTGTCTTCCTATATTGGTAG
Found at i:24609896 original size:132 final size:131
Alignment explanation
Indices: 24609332--24610132 Score: 1118
Period size: 131 Copynumber: 6.1 Consensus size: 131
24609322 TGAAGACATT
*
24609332 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATTA-CAAGTCCTGTCTTCCT
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA-TAGCAGGTCCTGTCTTCCT
* * * * *
24609396 ATATTGGTAGGAAGTGGATCGAAGATGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTAGATCGA
65 ATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTAGGAAGTAGATCAA
*
24609461 GG
130 AG
* * *
24609463 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGTAGATCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTA
* ** * * * * * *
24609528 TATTGGTAGGAAGTGGATCGACGATGCAGGCCCTGTCCTCCTATATTGGTAGGAAGTAGATCGAG
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTAGGAAGTAGATCAAA
24609593 G
131 G
* * *
24609594 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGTAGATCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTA
* * * *
24609659 TATTGGTAGGAAGTGGATCGAAGATGCAGGTCATGTCTTCCTATATTGGTAGGAAGTAGATCAAA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTAGGAAGTAGATCAAA
24609724 G
131 G
* * ** *
24609725 AAAGAAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGTTGATAGCAGGTCCTGTCTTCTTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTA
* * *
24609790 TATTGGTAGGAAGTGGATCGAAAATACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCAA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTAG-GAAGTAGATCAA
24609855 AG
130 AG
* * * *
24609857 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGGTAGGTCCTTTCTTCTTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTA
* * *
24609922 TATTGGTAGGAAGTGTATCGAATATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTAG-GAAGTAGATCAA
24609987 AG
130 AG
* *
24609989 AAAGCAGATCTTGTCTTCATGTATTGGCGTAAAGTAGATCGAAGATAGCAGGCCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTA
* * * * *
24610054 TATTGGTAGGAAGTGGATCGAAGATGCATATATTGTCTTCCCATACTGGTGGCGAAGTGGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTAG-GAAGTAGATCAA
24610119 AG
130 AG
*
24610121 AAAACAGATCTT
1 AAAGCAGATCTT
24610133 ATCTCTCTGA
Statistics
Matches: 616, Mismatches: 52, Indels: 3
0.92 0.08 0.00
Matches are distributed among these distances:
130 1 0.00
131 349 0.57
132 266 0.43
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (131 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTA
TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTAGGAAGTAGATCAAA
G
Found at i:24610279 original size:50 final size:50
Alignment explanation
Indices: 24610218--24610477 Score: 155
Period size: 50 Copynumber: 5.2 Consensus size: 50
24610208 TATGATGGCA
* * *
24610218 AATCTTGCTTCCCCGACATTGCAATTTAAAAGATTGAAGCCAAAACGGTG
1 AATCTTACTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGTG
* * * ***** * * ** * *
24610268 AATCTTACTTCCCAGGCGA-TGCAGTGGGGCAGATTAAAGCTATGATGGCG
1 AATCTTACTTCCCCGAC-ATTGCAATTAAAAAGATTGAAGCCACAACGGTG
* * * *
24610318 AATCTTGCTTCCTCAACATTGCAATTAAAAAGATTGAAGCCGCAACGGTG
1 AATCTTACTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGTG
* ** **** * ** * * *
24610368 AATTTTACTTCCTTGGTGGTGC-AGTAGATCAGATTGAAGCTACGACGGCG
1 AATCTTACTTCCCCGACATTGCAATTA-AAAAGATTGAAGCCACAACGGTG
* * *
24610418 AATCCTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCCGCAACGGTG
1 AATCTTACTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGTG
24610468 AATCTTACTT
1 AATCTTACTT
24610478 TCCTGGTGGT
Statistics
Matches: 143, Mismatches: 63, Indels: 8
0.67 0.29 0.04
Matches are distributed among these distances:
49 4 0.03
50 135 0.94
51 4 0.03
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (50 bp):
AATCTTACTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGTG
Found at i:24610355 original size:100 final size:99
Alignment explanation
Indices: 24610182--24610551 Score: 416
Period size: 100 Copynumber: 3.7 Consensus size: 99
24610172 TTATCTCTCT
* *
24610182 GGCGATGCAGTGGGGCAGATTAAAGCTATGATGGCAAATCTTGCTTCCCCGACATTGCAATTTAA
1 GGCGATGCAGTGGGGCAGATTAAAGCTATGATGGCGAATCTTGCTT-CCCGACATTGCAATTAAA
**
24610247 AAGATTGAAGCCAAAACGGTGAATCTTACTTCCCA
65 AAGATTGAAGCCGCAACGGTGAATCTTACTTCCCA
*
24610282 GGCGATGCAGTGGGGCAGATTAAAGCTATGATGGCGAATCTTGCTTCCTCAACATTGCAATTAAA
1 GGCGATGCAGTGGGGCAGATTAAAGCTATGATGGCGAATCTTGCTTCC-CGACATTGCAATTAAA
* **
24610347 AAGATTGAAGCCGCAACGGTGAATTTTACTTCCTT
65 AAGATTGAAGCCGCAACGGTGAATCTTACTTCCCA
* * * ** * * * * *
24610382 GGTGGTGCAGTAGATCAGATTGAAGCTACGACGGCGAATCCTACTTCCCTGACATTGCAATTAAA
1 GGCGATGCAGTGGGGCAGATTAAAGCTATGATGGCGAATCTTGCTTCCC-GACATTGCAATTAAA
* *
24610447 AAGATTGAAGCCGCAACGGTGAATCTTACTTTCCT
65 AAGATTGAAGCCGCAACGGTGAATCTTACTTCCCA
* * * ** * * ** * * *
24610482 GGTGGTACAGTGGAACTGATTGAAGCTACAATGGCGAATCGTGCTCCCCGACATTACAATTAAAA
1 GGCGATGCAGTGGGGCAGATTAAAGCTATGATGGCGAATCTTGCTTCCCGACATTGCAATTAAAA
*
24610547 GGATT
66 AGATT
24610552 AAAACTACCG
Statistics
Matches: 235, Mismatches: 33, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
99 22 0.09
100 213 0.91
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (99 bp):
GGCGATGCAGTGGGGCAGATTAAAGCTATGATGGCGAATCTTGCTTCCCGACATTGCAATTAAAA
AGATTGAAGCCGCAACGGTGAATCTTACTTCCCA
Found at i:24610871 original size:40 final size:40
Alignment explanation
Indices: 24610780--24611065 Score: 263
Period size: 40 Copynumber: 6.8 Consensus size: 40
24610770 TAAAGCCAGC
* *
24610780 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAAAAGAAACT
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-AATCA
* *
24610823 AGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCACATCA
1 AG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCA
* * *
24610864 AGTCTTATCTCCCTAAGAAGTAGTGGAGCAGA-CGAAAGAAACC
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-AATCA
*
24610907 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCA
1 AG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCA
* ** *
24610948 AGTTTTATCTCCCTAAGCAGTAGTGGAATAG-ACGAAAGAAACCA
1 AGTCTTATCTCCCTAAGCAGTAGTGG---AGCA-G-ATCAAATCA
***
24610992 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCTTCA
1 -AG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCA
24611034 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGA
24611066 CGAAAGAAAA
Statistics
Matches: 203, Mismatches: 24, Indels: 35
0.77 0.09 0.13
Matches are distributed among these distances:
39 1 0.00
40 82 0.40
41 10 0.05
42 7 0.03
43 12 0.06
44 64 0.32
45 4 0.02
46 23 0.11
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.23
Consensus pattern (40 bp):
AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCA
Found at i:24610889 original size:84 final size:84
Alignment explanation
Indices: 24610780--24611091 Score: 500
Period size: 84 Copynumber: 3.7 Consensus size: 84
24610770 TAAAGCCAGC
* * *
24610780 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACTAGATCTTATCTCCCTAAGTAGT
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGT
24610845 AGTGGAGCAGATCACATCA
66 AGTGGAGCAGATCACATCA
*
24610864 AGTCTTATCTCCCTAAGAAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGT
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGT
24610929 AGTGGAGCAGATCACATCA
66 AGTGGAGCAGATCACATCA
* **
24610948 AGTTTTATCTCCCTAAGCAGTAGTGGAATAGACGAAAGAAACCACAGATCTTATCTCCCTAAGCA
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAA-C-CAGATCTTATCTCCCTAAGCA
* *
24611013 GTAGTGGAGCAGATCGCTTCA
64 GTAGTGGAGCAGATCACATCA
*
24611034 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAACCA-ATCCTATCTCCCT
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAG-AAACCAGATCTTATCTCCCT
24611092 GAACTTGCAG
Statistics
Matches: 211, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
84 129 0.61
85 3 0.01
86 76 0.36
87 3 0.01
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (84 bp):
AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCACATCA
Found at i:24611024 original size:170 final size:168
Alignment explanation
Indices: 24610784--24611091 Score: 501
Period size: 170 Copynumber: 1.8 Consensus size: 168
24610774 GCCAGCAGTC
* * *
24610784 TTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACTAGATCTTATCTCCCTAAGTAGTAGTG
1 TTATCTCCCTAAGCAGTAGTGGAACAGACAAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTG
*
24610849 GAGCAGATCACATCAAGTCTTATCTCCCTAAGAAGTAGTGGAGCAGACGAAAG-AAACCAGATCT
66 GAGCAGATCACATCAAGTCTTATCTCCCTAAGAAGTAGTGGAGCAGACGAAAGAAAACCA-ATCC
24610913 TATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTT
130 TATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTT
* *
24610952 TTATCTCCCTAAGCAGTAGTGGAATAGACGAAAGAAACCACAGATCTTATCTCCCTAAGCAGTAG
1 TTATCTCCCTAAGCAGTAGTGGAACAGACAAAAGAAA-C-CAGATCTTATCTCCCTAAGCAGTAG
* * *
24611017 TGGAGCAGATCGCTTCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAAACCAATC
64 TGGAGCAGATCACATCAAGTCTTATCTCCCTAAGAAGTAGTGGAGCAGACGAAAGAAAACCAATC
24611082 CTATCTCCCT
129 CTATCTCCCT
24611092 GAACTTGCAG
Statistics
Matches: 128, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
168 34 0.27
169 1 0.01
170 87 0.68
171 6 0.05
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (168 bp):
TTATCTCCCTAAGCAGTAGTGGAACAGACAAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTG
GAGCAGATCACATCAAGTCTTATCTCCCTAAGAAGTAGTGGAGCAGACGAAAGAAAACCAATCCT
ATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTT
Found at i:24614370 original size:17 final size:17
Alignment explanation
Indices: 24614348--24614415 Score: 70
Period size: 17 Copynumber: 4.2 Consensus size: 17
24614338 GGCAACCCAA
* *
24614348 TTTTTATTTTTATTTAT
1 TTTTTACTTTAATTTAT
*
24614365 TTTTTA-TTTTA-TT-T
1 TTTTTACTTTAATTTAT
*
24614379 TCTTTACTTTAATTTAT
1 TTTTTACTTTAATTTAT
*
24614396 TTATTACTTTAATTTAT
1 TTTTTACTTTAATTTAT
24614413 TTT
1 TTT
24614416 ATTTTATTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
14 6 0.14
15 6 0.14
16 7 0.16
17 24 0.56
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTACTTTAATTTAT
Found at i:24614374 original size:5 final size:5
Alignment explanation
Indices: 24614349--24614423 Score: 53
Period size: 5 Copynumber: 14.4 Consensus size: 5
24614339 GCAACCCAAT
* * * *
24614349 TTTTA TTTTTA TTTATT TTTTA TTTTA TTTT- CTTTA CTTTA ATTTA TTTATTA
1 TTTTA -TTTTA TTT-TA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TT-TTA
* *
24614402 CTTTA ATTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TT
24614424 AATTATTACT
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
4 3 0.05
5 40 0.70
6 11 0.19
7 3 0.05
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:24614411 original size:22 final size:23
Alignment explanation
Indices: 24614367--24614424 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
24614357 TTATTTATTT
* *
24614367 TTTATTTTATTTTCTTTACTTTAA
1 TTTATTTTA-TTACTTTAATTTAA
*
24614391 TTTA-TTTATTACTTTAATTTAT
1 TTTATTTTATTACTTTAATTTAA
24614413 TTTATTTTATTA
1 TTTATTTTATTA
24614425 ATTATTACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 15 0.50
23 11 0.37
24 4 0.13
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTATTTTATTACTTTAATTTAA
Found at i:24614614 original size:22 final size:22
Alignment explanation
Indices: 24614586--24614635 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
24614576 GCCCAGAATG
* *
24614586 CCTGCAGCCAAACTACCC-TATT
1 CCTGCAGCC-AACCACCCTTATC
24614608 CCTGCAGCCAACCACCCTTATC
1 CCTGCAGCCAACCACCCTTATC
24614630 CCTGCA
1 CCTGCA
24614636 CCTAAGCACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.24, C:0.46, G:0.10, T:0.20
Consensus pattern (22 bp):
CCTGCAGCCAACCACCCTTATC
Found at i:24615767 original size:101 final size:101
Alignment explanation
Indices: 24615578--24615768 Score: 251
Period size: 101 Copynumber: 1.9 Consensus size: 101
24615568 AAGAACATGT
* * *
24615578 TGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCTCGTCAAAAGGTTCGATGTG
1 TGGGCTGAGTAACCGGAGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCGATATG
* * *
24615643 TTCTTAAGAAAAAATTATAATAAATTAGGAGTCTGC
66 TCCTAAAGAAAAAATAATAATAAATTAGGAGTCTGC
* * *
24615679 TGGGTTGAGTAACCGGAGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTTAAAAGGTTCAGTATA
1 TGGGCTGAGTAACCGGAGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTC-G-ATA
* *
24615744 T-TCCTAAAGCATAAATAAT-ATAAAT
64 TGTCCTAAAGAAAAAATAATAATAAAT
24615769 AATAAATAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
101 60 0.78
102 14 0.18
103 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.32
Consensus pattern (101 bp):
TGGGCTGAGTAACCGGAGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCGATATG
TCCTAAAGAAAAAATAATAATAAATTAGGAGTCTGC
Found at i:24616404 original size:15 final size:15
Alignment explanation
Indices: 24616384--24616413 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24616374 TATTTTAACT
*
24616384 ATATTAGGATAATTA
1 ATATTAAGATAATTA
24616399 ATATTAAGATAATTA
1 ATATTAAGATAATTA
24616414 TTAAGGATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:24617762 original size:30 final size:31
Alignment explanation
Indices: 24617726--24617786 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
24617716 CTTATTATGA
24617726 AAAGTCAAAGATAT-GAGTATC-AAATATTGG
1 AAAGTCAAAGATATAG-GTATCGAAATATTGG
24617756 AAAGTCAAAGATATAGGTATCGAAATATTGG
1 AAAGTCAAAGATATAGGTATCGAAATATTGG
24617787 CATAAGAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
30 19 0.66
31 10 0.34
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.26
Consensus pattern (31 bp):
AAAGTCAAAGATATAGGTATCGAAATATTGG
Found at i:24622374 original size:30 final size:31
Alignment explanation
Indices: 24622340--24622401 Score: 108
Period size: 30 Copynumber: 2.0 Consensus size: 31
24622330 CCATATTATA
*
24622340 GAAAGTCAAAGATATGGGTATC-AAATATTG
1 GAAAGTCAAAGATATGAGTATCGAAATATTG
24622370 GAAAGTCAAAGATATGAGTATCGAAATATTG
1 GAAAGTCAAAGATATGAGTATCGAAATATTG
24622401 G
1 G
24622402 CATAAGAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 21 0.70
31 9 0.30
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (31 bp):
GAAAGTCAAAGATATGAGTATCGAAATATTG
Found at i:24623837 original size:13 final size:13
Alignment explanation
Indices: 24623821--24623886 Score: 78
Period size: 13 Copynumber: 5.1 Consensus size: 13
24623811 TTTAAACCAA
24623821 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
24623834 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* * * *
24623847 ACATTTCTAGATC
1 ACTTTTCAAAAGC
*
24623860 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
24623873 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
24623886 A
1 A
24623887 TTGCCAAACT
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:24627733 original size:18 final size:18
Alignment explanation
Indices: 24627707--24627742 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
24627697 TTCTTTAAAA
* *
24627707 ATTATAATGATATAATTT
1 ATTAAAATGATAAAATTT
24627725 ATTAAAATGATAAAATTT
1 ATTAAAATGATAAAATTT
24627743 TATTTTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (18 bp):
ATTAAAATGATAAAATTT
Found at i:24628072 original size:20 final size:20
Alignment explanation
Indices: 24628045--24628095 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
24628035 AAAATAAAAT
**
24628045 ATTTTTATTTATTTTGAAG-
1 ATTTTTATTTATTTACAAGA
24628064 ATGTTTTATTT-TTTACAAGA
1 AT-TTTTATTTATTTACAAGA
24628084 ATTTTTATTTAT
1 ATTTTTATTTAT
24628096 ATTTCTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (20 bp):
ATTTTTATTTATTTACAAGA
Found at i:24635580 original size:16 final size:18
Alignment explanation
Indices: 24635549--24635581 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
24635539 GTTAATAGAA
24635549 TAAATTTAGTTTTAATTG
1 TAAATTTAGTTTTAATTG
24635567 TAAATTT-G-TTTAATT
1 TAAATTTAGTTTTAATT
24635582 TTTCATTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (18 bp):
TAAATTTAGTTTTAATTG
Found at i:24636593 original size:308 final size:299
Alignment explanation
Indices: 24635902--24636943 Score: 852
Period size: 308 Copynumber: 3.4 Consensus size: 299
24635892 GAAAATTACA
* * * * * *
24635902 GGAACGCACATCCATAATTAAAATAAAGAATATTTTTTGAGTGTATTTTAGTCTTTTCACTTTAA
1 GGAATGCACATCCGTAATTAAAAT-AATAATATTATTCGAGTGTATTTTAGTCTTTTCACTTAAA
* * * * ** ** * *
24635967 AAATCAATAAAAAGCAAGGATATGATAGGATTCAAACCCATGCCAAGTGCATTAGTAAAATATTT
65 AAATCAATAAAAA-TATGCATATGGTA-GATTTGAACCCACACCAATTGCATTA-TAAAACATTT
* *
24636032 AATTTACCACTCAACTAAAGCTTCATTTTAATATTTTTATACATTTTAGTTTTATTATGCACATT
127 AATTTACCACTCAACTAAA-CTTAATTTTAATATTTTTATACATTTTAATTTTATTATGCACATT
* * * * *
24636097 CTATTATCTCCATTAAATGTATATTTATATCTATCTATACTATTGTTTAAACTCTTGACTGAGTT
191 TTATTACCTCCATTAAATATATATTTATATCTATCTATACTATTATTTAAACTCCTGACTGAGTT
* * * *
24636162 GGTGTCGCAAGTCAACCGAGCACGAACTAATTGGTTAGGAAATTATG
256 GATGTCACAACTCAACCGAGCACCAACTAA---GTTAGGAAATTATG
* * * *
24636209 GGAATGCACATCCTTAATTAAAATAAGTAATATTATTC-AGGGTATTTTAGTCTTTTTAATTTAA
1 GGAATGCACATCCGTAATTAAAATAA-TAATATTATTCGAGTGTATTTTAGTC-TTTTCACTTAA
* * * * *
24636273 AAAATGAATAAAAATATGTATATGGTGAGATTTGAATCTACACCAATTGCATTATAAAACCTTTA
64 AAAATCAATAAAAATATGCATATGGT-AGATTTGAACCCACACCAATTGCATTATAAAACATTTA
* *
24636338 ATTTACCACTCAACTAAACATTAATTTTAATATTTTTATAAATTTTAATTTTATTATGCAGATTT
128 ATTTACCACTCAACTAAAC-TTAATTTTAATATTTTTATACATTTTAATTTTATTATGCACATTT
* * *
24636403 TATTACCTCCACTAATTATATATATATACTTGTATAT-TATTTATACTATTATTTCAGCTCCTG-
192 TATTACCT-C-C--ATTA-A-ATATATA-TT-TATATCTATCTATACTATTATTTAAACTCCTGA
* * *
24636466 CTGAGTTGATGTCAC-CCTCAACCGGGTCACCAACTCAA-TTAGGAAGTTATG
249 CTGAGTTGATGTCACAACTCAACCGAG-CACCAACT-AAGTTAGGAAATTATG
* *
24636517 GGAATGCACTTTCGTAATTAAAATGAATAATATTATTCGAGTGTATTTTAGTCTTTTCACTTAAA
1 GGAATGCACATCCGTAATTAAAAT-AATAATATTATTCGAGTGTATTTTAGTCTTTTCACTTAAA
* * *
24636582 AAACCAATAAAAATATACATATGGTAAAATTTGAACCCACACCAATTGCATTAATAAAACATTTA
65 AAATCAATAAAAATATGCATATGGT-AGATTTGAACCCACACCAATTGCATT-ATAAAACATTTA
* * * * * *
24636647 ATTTATC-GTGCAACTAAAGTTTA-TAT-ATATTTTTATACATTTTAATTTTATTATGCACACTT
128 ATTTACCACT-CAACTAAACTTAATTTTAATATTTTTATACATTTTAATTTTATTATGCACATTT
* * * * * * *
24636709 TATTA---CC-TT---CAT-CAGTTGTA--TATCTATACTATTATTTAAATTCCTGA-TAAG-TC
192 TATTACCTCCATTAAATATATATTTATATCTATCTATACTATTATTTAAACTCCTGACTGAGTTG
* * * ** * **
24636762 AGTGCCACCA-TCAACCGGATCACCAACTCGGTTAGGAAGTTACA
257 A-TGTCACAACTCAACC-GAGCACCAACTAAGTTAGGAAATTATG
* * * * * * *
24636806 AGAATAC-CTTTCCATAACTAAACTAAGTAATATTATTTGAG-GATATTTTAGTCTTTTCACTTT
1 GGAATGCAC-ATCCGTAATTAAAATAA-TAATATTATTCGAGTG-TATTTTAGTCTTTTCAC--T
* * * * * * *
24636869 TAAAAAACCAATGAAAATATGCATATGATAGGATTTGAACCCATACTAATTGCATTAATCAAATA
61 TAAAAAATCAATAAAAATATGCATATGGTA-GATTTGAACCCACACCAATTGCATT-ATAAAACA
24636934 TTTAATTTAC
124 TTTAATTTAC
24636944 TATTTACTAT
Statistics
Matches: 607, Mismatches: 99, Indels: 74
0.78 0.13 0.09
Matches are distributed among these distances:
288 6 0.01
289 101 0.17
290 5 0.01
291 66 0.11
292 1 0.00
293 2 0.00
298 2 0.00
301 1 0.00
302 1 0.00
304 1 0.00
305 74 0.12
306 81 0.13
307 55 0.09
308 102 0.17
309 44 0.07
310 9 0.01
311 26 0.04
312 25 0.04
313 5 0.01
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (299 bp):
GGAATGCACATCCGTAATTAAAATAATAATATTATTCGAGTGTATTTTAGTCTTTTCACTTAAAA
AATCAATAAAAATATGCATATGGTAGATTTGAACCCACACCAATTGCATTATAAAACATTTAATT
TACCACTCAACTAAACTTAATTTTAATATTTTTATACATTTTAATTTTATTATGCACATTTTATT
ACCTCCATTAAATATATATTTATATCTATCTATACTATTATTTAAACTCCTGACTGAGTTGATGT
CACAACTCAACCGAGCACCAACTAAGTTAGGAAATTATG
Found at i:24645550 original size:19 final size:19
Alignment explanation
Indices: 24645528--24645564 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24645518 CTTGCATGCT
24645528 AATATACAAATAACATATA
1 AATATACAAATAACATATA
* *
24645547 AATATATACATAACATAT
1 AATATACAAATAACATAT
24645565 TAGTTAGGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (19 bp):
AATATACAAATAACATATA
Found at i:24648815 original size:16 final size:17
Alignment explanation
Indices: 24648794--24648827 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
24648784 TCTTTCATTT
24648794 TTTTAAATAT-ATTTAA
1 TTTTAAATATAATTTAA
*
24648810 TTTTAAATCTAATTTAA
1 TTTTAAATATAATTTAA
24648827 T
1 T
24648828 GATTAAGCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTAAATATAATTTAA
Found at i:24654489 original size:19 final size:19
Alignment explanation
Indices: 24654455--24654491 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24654445 TAAGTCCTTT
* *
24654455 TCAGATATATATAACAGAA
1 TCAGATATACAAAACAGAA
24654474 TCAGATATACAAAACAGA
1 TCAGATATACAAAACAGA
24654492 TGTACAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.14, G:0.11, T:0.22
Consensus pattern (19 bp):
TCAGATATACAAAACAGAA
Found at i:24663532 original size:9 final size:9
Alignment explanation
Indices: 24663476--24663571 Score: 74
Period size: 9 Copynumber: 11.0 Consensus size: 9
24663466 TAAGTATAAT
24663476 TAAGTTATG
1 TAAGTTATG
*
24663485 TAACTTATG
1 TAAGTTATG
* * *
24663494 ATATGATATA
1 -TAAGTTATG
*
24663504 T-ATTTATG
1 TAAGTTATG
24663512 T-A-TTATG
1 TAAGTTATG
*
24663519 CAAGTTATG
1 TAAGTTATG
24663528 TAAGTTATG
1 TAAGTTATG
24663537 TAAGTTATG
1 TAAGTTATG
*
24663546 TGAG-TATG
1 TAAGTTATG
* *
24663554 CAAATTATG
1 TAAGTTATG
24663563 TAAGTTATG
1 TAAGTTATG
24663572 ATATATATTT
Statistics
Matches: 66, Mismatches: 17, Indels: 8
0.73 0.19 0.09
Matches are distributed among these distances:
7 5 0.08
8 11 0.17
9 45 0.68
10 5 0.08
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:24664741 original size:17 final size:17
Alignment explanation
Indices: 24664691--24664745 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 17
24664681 AAAATTGGAG
24664691 CAAAAAAGAACTTGCAA
1 CAAAAAAGAACTTGCAA
24664708 CAACATTAACCAGAACTTGCAA
1 CAA-A--AA--AGAACTTGCAA
24664730 CAAAAAAGAACTTGCA
1 CAAAAAAGAACTTGCA
24664746 GCGACATTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
17 13 0.39
18 1 0.03
19 2 0.06
20 2 0.06
21 1 0.03
22 14 0.42
ACGTcount: A:0.53, C:0.22, G:0.11, T:0.15
Consensus pattern (17 bp):
CAAAAAAGAACTTGCAA
Found at i:24666132 original size:124 final size:125
Alignment explanation
Indices: 24665842--24666138 Score: 352
Period size: 126 Copynumber: 2.4 Consensus size: 125
24665832 ATTGTTCTGA
* * *
24665842 ACAATTTTTAATACATTGTTGCGGCGTTTTTAGACAAAACGCCACTAATGCTTACCTTTTGCGGC
1 ACAATTTTTAATACATTGTTGCGGCGTTTTT-GTCCAAACGCCACTAATGCATACCTTTTGCGGC
* * * *
24665907 GATTCTGAGAAAAATGCTACTAAAAAGTTAAAATCTTGTAAGCAAACGATGCCGTTTTTGT
65 GATTCTGAGAAAAATGCTACTAAAAAGTCAAAATCCTGTAACCAAAAGATGCCGTTTTTGT
* * * * *
24665968 ACACTTTTTAATACATTGTTGCGGCGTTTTTATAACAAACGCCGCTATTGCATACCTTTTGCGGC
1 ACAATTTTTAATACATTGTTGCGGCGTTTTTGT-CCAAACGCCACTAATGCATACCTTTTGCGGC
* *
24666033 -ATTGTGGAGAAAAATGGC-ACTAAAAA-TCAAATTCCTGTAACCAAATAG-TGCCG-TTTTGT
65 GATTCT-GAGAAAAAT-GCTACTAAAAAGTCAAAATCCTGTAACCAAA-AGATGCCGTTTTTGT
* * *
24666092 ACAATTTTTAAGACATTGTTGTGACGTTTTTGGTCCAAACGCCACTA
1 ACAATTTTTAATACATTGTTGCGGCGTTTTT-GTCCAAACGCCACTA
24666139 CTATTAAAAA
Statistics
Matches: 145, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
124 44 0.30
125 25 0.17
126 74 0.51
127 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (125 bp):
ACAATTTTTAATACATTGTTGCGGCGTTTTTGTCCAAACGCCACTAATGCATACCTTTTGCGGCG
ATTCTGAGAAAAATGCTACTAAAAAGTCAAAATCCTGTAACCAAAAGATGCCGTTTTTGT
Found at i:24666439 original size:7 final size:7
Alignment explanation
Indices: 24666429--24666670 Score: 89
Period size: 7 Copynumber: 33.4 Consensus size: 7
24666419 TTAGACAAAA
24666429 AAACCCT
1 AAACCCT
24666436 AAA-CCT
1 AAACCCT
24666442 AAGACCCT
1 AA-ACCCT
24666450 AAACACCT
1 AAAC-CCT
24666458 GAAAACACCT
1 --AAAC-CCT
*
24666468 AAATCCT
1 AAACCCT
24666475 AAAACCCCT
1 -AAA-CCCT
*
24666484 AAACCAT
1 AAACCCT
***
24666491 AAAATTT
1 AAACCCT
24666498 AAACCCT
1 AAACCCT
* *
24666505 AATCTCT
1 AAACCCT
*
24666512 ATACCCT
1 AAACCCT
24666519 AAACCCTT
1 AAACCC-T
24666527 AAACCCT
1 AAACCCT
**
24666534 AGTCCCT
1 AAACCCT
*
24666541 AAATTACCAT
1 -AA--ACCCT
*
24666551 AAACCCA
1 AAACCCT
*
24666558 AAACCTT
1 AAACCCT
*
24666565 AAACCAT
1 AAACCCT
24666572 AAA-CCT
1 AAACCCT
** *
24666578 CCACCAT
1 AAACCCT
24666585 ATTAA--CT
1 A--AACCCT
**
24666592 AAACTTT
1 AAACCCT
**
24666599 AAACGTT
1 AAACCCT
24666606 AAACCCT
1 AAACCCT
24666613 AAACCCT
1 AAACCCT
24666620 AAACCCT
1 AAACCCT
*
24666627 AAACCTT
1 AAACCCT
*
24666634 AAACCCC
1 AAACCCT
*
24666641 AAACCAT
1 AAACCCT
*
24666648 AAA-CAT
1 AAACCCT
*
24666654 ACACCCT
1 AAACCCT
*
24666661 AAACCAT
1 AAACCCT
24666668 AAA
1 AAA
24666671 TATAGATATT
Statistics
Matches: 173, Mismatches: 45, Indels: 34
0.69 0.18 0.13
Matches are distributed among these distances:
5 2 0.01
6 13 0.08
7 116 0.67
8 25 0.14
9 6 0.03
10 11 0.06
ACGTcount: A:0.45, C:0.33, G:0.02, T:0.20
Consensus pattern (7 bp):
AAACCCT
Found at i:24666724 original size:7 final size:7
Alignment explanation
Indices: 24666712--24666772 Score: 68
Period size: 7 Copynumber: 8.7 Consensus size: 7
24666702 AAAGGAATCT
24666712 TAAACCC
1 TAAACCC
24666719 TAAACCC
1 TAAACCC
24666726 TAAACCC
1 TAAACCC
24666733 TAAACCC
1 TAAACCC
*
24666740 CAAACCC
1 TAAACCC
*
24666747 CAAACCC
1 TAAACCC
* * *
24666754 CAGACTC
1 TAAACCC
*
24666761 TAAACCA
1 TAAACCC
24666768 TAAAC
1 TAAAC
24666773 GCAAAACTCA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.44, C:0.43, G:0.02, T:0.11
Consensus pattern (7 bp):
TAAACCC
Found at i:24666829 original size:7 final size:7
Alignment explanation
Indices: 24666817--24666883 Score: 55
Period size: 7 Copynumber: 9.6 Consensus size: 7
24666807 CATTTTATCA
24666817 TAAACCT
1 TAAACCT
*
24666824 TAAACCA
1 TAAACCT
* *
24666831 TAGACAT
1 TAAACCT
24666838 TAAACCT
1 TAAACCT
*
24666845 TAAATAC-
1 TAAA-CCT
**
24666852 TACCCCT
1 TAAACCT
*
24666859 TAAACCC
1 TAAACCT
24666866 TAAACCT
1 TAAACCT
24666873 TAAACCT
1 TAAACCT
24666880 TAAA
1 TAAA
24666884 ACCATAAAGT
Statistics
Matches: 44, Mismatches: 14, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
6 1 0.02
7 42 0.95
8 1 0.02
ACGTcount: A:0.45, C:0.28, G:0.01, T:0.25
Consensus pattern (7 bp):
TAAACCT
Found at i:24667243 original size:40 final size:40
Alignment explanation
Indices: 24667199--24667286 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
24667189 CAGAATGCCT
*
24667199 CACTAATTCTCGAACTTTTGCAGCGTTTGTAAAAAAGTGC
1 CACTAATTCTAGAACTTTTGCAGCGTTTGTAAAAAAGTGC
** * * ** *
24667239 CACTAATTCTAGATTTTTTGCGGCGTTTGTTAATTATTGC
1 CACTAATTCTAGAACTTTTGCAGCGTTTGTAAAAAAGTGC
24667279 CACTAATT
1 CACTAATT
24667287 GAAAAAGCAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (40 bp):
CACTAATTCTAGAACTTTTGCAGCGTTTGTAAAAAAGTGC
Found at i:24668934 original size:315 final size:315
Alignment explanation
Indices: 24668357--24668986 Score: 1206
Period size: 315 Copynumber: 2.0 Consensus size: 315
24668347 AGATGTCAAC
* *
24668357 TATCTTATATGAAGATAACACAAAATGTATAGGAAGAGAAGTCGACTATCTTATTTGAAGATAAT
1 TATCCTATATGAAGATAACACAAAATGTATAGGAAGAGAAGTCAACTATCTTATTTGAAGATAAT
24668422 GCAGCATGTATAGCTCAGTTGAAGGGTGATTACATCAAAGGACATAGAACGAAACATATTTCACC
66 GCAGCATGTATAGCTCAGTTGAAGGGTGATTACATCAAAGGACATAGAACGAAACATATTTCACC
24668487 AAAATTATTCTTCACCCGTGATTTTGAGAAAAGAAGTGATATAAATGTTCAACAAATTCGTTCTA
131 AAAATTATTCTTCACCCGTGATTTTGAGAAAAGAAGTGATATAAATGTTCAACAAATTCGTTCTA
*
24668552 GTGATAATTTATCAAATCTTTTTGTAAGGCATTGCCGACTTCAACATTTGAAAGACTACTACATA
196 GTGATAATTTATCAAATCTTTTTGTAAGGCATTGCCAACTTCAACATTTGAAAGACTACTACATA
24668617 AGATTGGAATGCATCAACTAAAAAATGTAATGTAGTGTTGCCATTAGGGGGAGTT
261 AGATTGGAATGCATCAACTAAAAAATGTAATGTAGTGTTGCCATTAGGGGGAGTT
24668672 TATCCTATATGAAGATAACACAAAATGTATAGGAAGAGAAGTCAACTATCTTATTTGAAGATAAT
1 TATCCTATATGAAGATAACACAAAATGTATAGGAAGAGAAGTCAACTATCTTATTTGAAGATAAT
*
24668737 GCAGCATGTATAGCTCAGTTGAAGGGTGATTACATCAAAGGAGATAGAACGAAACATATTTCACC
66 GCAGCATGTATAGCTCAGTTGAAGGGTGATTACATCAAAGGACATAGAACGAAACATATTTCACC
24668802 AAAATTATTCTTCACCCGTGATTTTGAGAAAAGAAGTGATATAAATGTTCAACAAATTCGTTCTA
131 AAAATTATTCTTCACCCGTGATTTTGAGAAAAGAAGTGATATAAATGTTCAACAAATTCGTTCTA
*
24668867 GTGATAATTTATCAGATCTTTTTGTAAGGCATTGCCAACTTCAACATTTGAAAGACTACTACATA
196 GTGATAATTTATCAAATCTTTTTGTAAGGCATTGCCAACTTCAACATTTGAAAGACTACTACATA
*
24668932 AGATTGGAATGCGTCAACTAAAAAATGTAATGTAGTGTTGCCATTAGGGGGAGTT
261 AGATTGGAATGCATCAACTAAAAAATGTAATGTAGTGTTGCCATTAGGGGGAGTT
24668987 CAAAATAAGT
Statistics
Matches: 309, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
315 309 1.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (315 bp):
TATCCTATATGAAGATAACACAAAATGTATAGGAAGAGAAGTCAACTATCTTATTTGAAGATAAT
GCAGCATGTATAGCTCAGTTGAAGGGTGATTACATCAAAGGACATAGAACGAAACATATTTCACC
AAAATTATTCTTCACCCGTGATTTTGAGAAAAGAAGTGATATAAATGTTCAACAAATTCGTTCTA
GTGATAATTTATCAAATCTTTTTGTAAGGCATTGCCAACTTCAACATTTGAAAGACTACTACATA
AGATTGGAATGCATCAACTAAAAAATGTAATGTAGTGTTGCCATTAGGGGGAGTT
Found at i:24669375 original size:8 final size:8
Alignment explanation
Indices: 24669362--24669389 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
24669352 TATTTATTGC
24669362 TTTCATAT
1 TTTCATAT
24669370 TTTCATAT
1 TTTCATAT
24669378 TTTCATAT
1 TTTCATAT
24669386 TTTC
1 TTTC
24669390 TTTTTTCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTCATAT
Found at i:24680628 original size:13 final size:13
Alignment explanation
Indices: 24680605--24680638 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
24680595 AATTCTGATA
*
24680605 TCAACTTTCTTCT
1 TCAATTTTCTTCT
*
24680618 TCACTTTTCTTCT
1 TCAATTTTCTTCT
24680631 TCAATTTT
1 TCAATTTT
24680639 TTGCGTCTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.15, C:0.26, G:0.00, T:0.59
Consensus pattern (13 bp):
TCAATTTTCTTCT
Found at i:24686266 original size:23 final size:23
Alignment explanation
Indices: 24686223--24686303 Score: 69
Period size: 23 Copynumber: 3.5 Consensus size: 23
24686213 NNNNNNNNTG
24686223 TAATTGAGGTGTATAAATGTTCT
1 TAATTGAGGTGTATAAATGTTCT
*
24686246 TAATTG-GGATGT-TAAAGTGTT-G
1 TAATTGAGG-TGTATAAA-TGTTCT
* *
24686268 TAAGTTGAGGTGTTTAAATGTTGT
1 TAA-TTGAGGTGTATAAATGTTCT
* *
24686292 AAATTGAAGTGT
1 TAATTGAGGTGT
24686304 TTAATTGCTA
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
22 9 0.19
23 31 0.65
24 8 0.17
ACGTcount: A:0.30, C:0.01, G:0.27, T:0.42
Consensus pattern (23 bp):
TAATTGAGGTGTATAAATGTTCT
Found at i:24686304 original size:23 final size:23
Alignment explanation
Indices: 24686257--24686356 Score: 110
Period size: 23 Copynumber: 4.3 Consensus size: 23
24686247 AATTGGGATG
* *
24686257 TTAAAGTGTTGTAAGTTGAGGTGT
1 TTAAA-TGTTGTAAATTGAAGTGT
24686281 TTAAATGTTGTAAATTGAAGTGT
1 TTAAATGTTGTAAATTGAAGTGT
* * * * *
24686304 TTAATTGCTATAAATTGATGTGC
1 TTAAATGTTGTAAATTGAAGTGT
* *
24686327 TGAAATGATGTAAATTGAAGTGT
1 TTAAATGTTGTAAATTGAAGTGT
24686350 TTAAATG
1 TTAAATG
24686357 CTGCAAATAA
Statistics
Matches: 62, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
23 57 0.92
24 5 0.08
ACGTcount: A:0.33, C:0.02, G:0.24, T:0.41
Consensus pattern (23 bp):
TTAAATGTTGTAAATTGAAGTGT
Found at i:24687927 original size:28 final size:27
Alignment explanation
Indices: 24687843--24687929 Score: 111
Period size: 28 Copynumber: 3.1 Consensus size: 27
24687833 CAACATGCAG
* * *
24687843 TAACAGTTTGGGCCTAAGCCCTATACAG
1 TAACAGTGTGGGCCT-AGCCCAATACAA
*
24687871 CAACAGTGTGGGCCTTAGCCCAATACAA
1 TAACAGTGTGGGCC-TAGCCCAATACAA
24687899 TAACAGTGTGGGCCATAGCCCAATACAA
1 TAACAGTGTGGGCC-TAGCCCAATACAA
24687927 TAA
1 TAA
24687930 TAGTATAATG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
28 51 0.98
29 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (27 bp):
TAACAGTGTGGGCCTAGCCCAATACAA
Found at i:24688069 original size:26 final size:25
Alignment explanation
Indices: 24688040--24688140 Score: 112
Period size: 26 Copynumber: 3.9 Consensus size: 25
24688030 CACCAATATC
*
24688040 GCAGCAAAGCTGTCAGTAATAGTGAT
1 GCAGCAAAGCTG-CAGTAACAGTGAT
*
24688066 GCAGTAAAGCTGCCAGTAACAGTGAT
1 GCAGCAAAGCTG-CAGTAACAGTGAT
*
24688092 GCAGCAAAGCTGCTAGTAACAGTGAC
1 GCAGCAAAGCTGC-AGTAACAGTGAT
* * *
24688118 GCAGTAAAGTTACCAGTAACAGT
1 GCAGCAAAGCT-GCAGTAACAGT
24688141 ATATGTGGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
25 1 0.02
26 63 0.97
27 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.20
Consensus pattern (25 bp):
GCAGCAAAGCTGCAGTAACAGTGAT
Found at i:24688122 original size:52 final size:52
Alignment explanation
Indices: 24688040--24688140 Score: 150
Period size: 52 Copynumber: 1.9 Consensus size: 52
24688030 CACCAATATC
* * *
24688040 GCAGCAAAGCTGTCAGTAATAGTGATGCAGTAAAGCTGCCAGTAACAGTGAT
1 GCAGCAAAGCTGTCAGTAACAGTGACGCAGTAAAGCTACCAGTAACAGTGAT
*
24688092 GCAGCAAAGCTG-CTAGTAACAGTGACGCAGTAAAGTTACCAGTAACAGT
1 GCAGCAAAGCTGTC-AGTAACAGTGACGCAGTAAAGCTACCAGTAACAGT
24688141 ATATGTGGCA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 1 0.02
52 43 0.98
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.20
Consensus pattern (52 bp):
GCAGCAAAGCTGTCAGTAACAGTGACGCAGTAAAGCTACCAGTAACAGTGAT
Found at i:24688166 original size:52 final size:52
Alignment explanation
Indices: 24688054--24688166 Score: 129
Period size: 52 Copynumber: 2.2 Consensus size: 52
24688044 CAAAGCTGTC
* * * **
24688054 AGTAATAGTGATGCAGTAAAGCTGCCAGTAACAGTGATGCAGCAAAGCTGCT
1 AGTAACAGTGACGCAGTAAAGCTACCAGTAACAGTGATGCAGCAAAGCCACT
* * **
24688106 AGTAACAGTGACGCAGTAAAGTTACCAGTAACAGTATATGTGGCAAAGCCACT
1 AGTAACAGTGACGCAGTAAAGCTACCAGTAACAGT-GATGCAGCAAAGCCACT
24688159 AGT-ACAGT
1 AGTAACAGT
24688167 ATACTTCCCC
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
52 36 0.71
53 15 0.29
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (52 bp):
AGTAACAGTGACGCAGTAAAGCTACCAGTAACAGTGATGCAGCAAAGCCACT
Found at i:24688363 original size:27 final size:27
Alignment explanation
Indices: 24688305--24688584 Score: 262
Period size: 27 Copynumber: 10.4 Consensus size: 27
24688295 TCAACTACCA
** *
24688305 AGGGTATAGCAGTCATTTTACCCTTTG
1 AGGGTATTTCAGTCATTTTACCCTTCG
* * *
24688332 GGGGTATTTCCGTCATTTT-CCCTTGCC
1 AGGGTATTTCAGTCATTTTACCCTT-CG
* * *
24688359 AGGGTATTTCAGTAATTCTACCCTGCG
1 AGGGTATTTCAGTCATTTTACCCTTCG
* * **
24688386 AGGGTATTTTAGTTATTTTACTAGTT-G
1 AGGGTATTTCAGTCATTTTAC-CCTTCG
* ** **
24688413 GGGGTATTTTGGTCATTTTACCCTTTA
1 AGGGTATTTCAGTCATTTTACCCTTCG
* *
24688440 AGGGTATTTCAGTCATTTTACCTTTTG
1 AGGGTATTTCAGTCATTTTACCCTTCG
*
24688467 AGGATATTTCAGTCATTTTACCCTTCG
1 AGGGTATTTCAGTCATTTTACCCTTCG
*
24688494 AGGGTATTTC-GATTATTTTACCCTTCG
1 AGGGTATTTCAG-TCATTTTACCCTTCG
* *
24688521 AGGGTATTTC-GATCATTTTACCTTTTG
1 AGGGTATTTCAG-TCATTTTACCCTTCG
* *
24688548 AGGGTATTTCGGTCATTTTATCCTTCG
1 AGGGTATTTCAGTCATTTTACCCTTCG
24688575 AGGGTATTTC
1 AGGGTATTTC
24688585 GATTATTTTA
Statistics
Matches: 207, Mismatches: 40, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
26 8 0.04
27 193 0.93
28 6 0.03
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.44
Consensus pattern (27 bp):
AGGGTATTTCAGTCATTTTACCCTTCG
Found at i:24692958 original size:21 final size:21
Alignment explanation
Indices: 24692917--24692959 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
24692907 AATAAAGTAG
*
24692917 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
24692938 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
24692959 A
1 A
24692960 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:24693010 original size:38 final size:36
Alignment explanation
Indices: 24692942--24693015 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 36
24692932 TATAGTATTA
*
24692942 TATATTATGATTTTAGTAAATTCATATAATAATAAT
1 TATATTATAATTTTAGTAAATTCATATAATAATAAT
* *
24692978 TATATTCATAATTTTATTAAATT-ATAT-TTAATAAT
1 TATATT-ATAATTTTAGTAAATTCATATAATAATAAT
24693013 TAT
1 TAT
24693016 TATGTTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
35 10 0.29
36 10 0.29
37 14 0.41
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (36 bp):
TATATTATAATTTTAGTAAATTCATATAATAATAAT
Found at i:24693273 original size:16 final size:16
Alignment explanation
Indices: 24693252--24693306 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
24693242 TGAATTACTA
*
24693252 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCC
*
24693268 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
24693284 ATAACAGCTCTATTCC
1 ATTACAGCTCTATTCC
24693300 ATTACAG
1 ATTACAG
24693307 TAAACCAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:24694598 original size:35 final size:33
Alignment explanation
Indices: 24694532--24694599 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
24694522 ACGCTTGAAC
24694532 TAGAATGTCACATTATTCTCTATATATTTTTTT
1 TAGAATGTCACATTATTCTCTATATATTTTTTT
*
24694565 TAGAATGTCACATTATTCTCTATATATATTTTT
1 TAGAATGTCACATTATTCTCTATATATTTTTTT
24694598 TA
1 TA
24694600 CTTTTAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (33 bp):
TAGAATGTCACATTATTCTCTATATATTTTTTT
Found at i:24695593 original size:26 final size:25
Alignment explanation
Indices: 24695552--24695606 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
24695542 AGCTCGGCCC
24695552 AAATATTTTTTATTTTTTA-TTTTA
1 AAATATTTTTTATTTTTTATTTTTA
24695576 AAATACTTTTTTATTTTTTATTTTTA
1 AAATA-TTTTTTATTTTTTATTTTTA
24695602 AAATA
1 AAATA
24695607 AATTTTTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 5 0.17
25 14 0.48
26 10 0.34
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (25 bp):
AAATATTTTTTATTTTTTATTTTTA
Found at i:24695612 original size:25 final size:25
Alignment explanation
Indices: 24695559--24695612 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
24695549 CCCAAATATT
**
24695559 TTTTATTTTTTATTTTAAAATACTT
1 TTTTATTTTTTATTTTAAAATACAA
24695584 TTTTATTTTTTATTTTTAAAATA-AA
1 TTTTATTTTTTA-TTTTAAAATACAA
24695609 TTTT
1 TTTT
24695613 TAGTGTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 16 0.62
26 10 0.38
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (25 bp):
TTTTATTTTTTATTTTAAAATACAA
Found at i:24695612 original size:26 final size:26
Alignment explanation
Indices: 24695558--24695623 Score: 89
Period size: 26 Copynumber: 2.6 Consensus size: 26
24695548 GCCCAAATAT
**
24695558 TTTTTATTTTTTA-TTTTAAAATACT
1 TTTTTATTTTTTATTTTTAAAATAAA
24695583 TTTTTATTTTTTATTTTTAAAATAAA
1 TTTTTATTTTTTATTTTTAAAATAAA
* *
24695609 TTTTTAGTGTTTATT
1 TTTTTATTTTTTATT
24695624 AAAAAAATGG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 13 0.36
26 23 0.64
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (26 bp):
TTTTTATTTTTTATTTTTAAAATAAA
Found at i:24697904 original size:29 final size:29
Alignment explanation
Indices: 24697862--24697934 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
24697852 CTACACTTGG
*
24697862 AACAAAATGTAAGAAATCTATTTGCATTA
1 AACAAAATGTAAGAAATCTATGTGCATTA
*
24697891 AACAAAATGTAAGAAATCTATGTGTATTA
1 AACAAAATGTAAGAAATCTATGTGCATTA
24697920 AACAAAATGTAAGAA
1 AACAAAATGTAAGAA
24697935 CACATATGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.27
Consensus pattern (29 bp):
AACAAAATGTAAGAAATCTATGTGCATTA
Found at i:24704848 original size:28 final size:29
Alignment explanation
Indices: 24704791--24704848 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
24704781 GGGAAAATGA
* *
24704791 CCCATTTCGATAAATAATAAAATACCGGG
1 CCCATTTCGATAAATAATAAAAAAACGGG
*
24704820 CCCATTTCAGA-AAAT-ATAAAAAAAGGGG
1 CCCATTTC-GATAAATAATAAAAAAACGGG
24704848 C
1 C
24704849 TTTTAGTGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
28 11 0.44
29 12 0.48
30 2 0.08
ACGTcount: A:0.45, C:0.19, G:0.16, T:0.21
Consensus pattern (29 bp):
CCCATTTCGATAAATAATAAAAAAACGGG
Found at i:24712478 original size:12 final size:12
Alignment explanation
Indices: 24712453--24712533 Score: 66
Period size: 12 Copynumber: 6.8 Consensus size: 12
24712443 TTTTTATGCT
24712453 TTATATT-TATTA
1 TTATATTATA-TA
*
24712465 TTTTATTATATA
1 TTATATTATATA
24712477 TTATA-TATTATA
1 TTATATTA-TATA
24712489 TTATATTATAT-
1 TTATATTATATA
24712500 TGTAT-TGTATTATA
1 T-TATAT-TA-TATA
24712514 TTATA-T-TATA
1 TTATATTATATA
24712524 TTATATTATA
1 TTATATTATA
24712534 AAAAGAGTAA
Statistics
Matches: 57, Mismatches: 2, Indels: 20
0.72 0.03 0.25
Matches are distributed among these distances:
10 9 0.16
11 5 0.09
12 32 0.56
13 10 0.18
14 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (12 bp):
TTATATTATATA
Found at i:24712481 original size:5 final size:5
Alignment explanation
Indices: 24712453--24712533 Score: 100
Period size: 5 Copynumber: 17.0 Consensus size: 5
24712443 TTTTTATGCT
24712453 TTATA TT-TA TTAT- TT-TA TTATA -TAT- TATATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA T-TATA TTATA TTATA TTATA
* *
24712499 TTGTA TTGTA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA
24712534 AAAAGAGTAA
Statistics
Matches: 68, Mismatches: 2, Indels: 12
0.83 0.02 0.15
Matches are distributed among these distances:
3 1 0.01
4 11 0.16
5 55 0.81
6 1 0.01
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:24712624 original size:21 final size:20
Alignment explanation
Indices: 24712600--24712643 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
24712590 AAGTAAAACG
24712600 AAAGAAAAAAGAAAGAAGGA-A
1 AAAG-AAAAAGAAA-AAGGAGA
*
24712621 AAAGAGAAAGAAAAAGGAGA
1 AAAGAAAAAGAAAAAGGAGA
24712641 AAA
1 AAA
24712644 AGCTAGAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 12 0.57
21 4 0.19
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (20 bp):
AAAGAAAAAGAAAAAGGAGA
Found at i:24712628 original size:16 final size:15
Alignment explanation
Indices: 24712603--24712632 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
24712593 TAAAACGAAA
24712603 GAAAAAAGAAAGAAG
1 GAAAAAAGAAAGAAG
24712618 GAAAAAGAGAAAGAA
1 GAAAAA-AGAAAGAA
24712633 AAAGGAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (15 bp):
GAAAAAAGAAAGAAG
Found at i:24713217 original size:23 final size:22
Alignment explanation
Indices: 24713187--24713270 Score: 111
Period size: 21 Copynumber: 3.9 Consensus size: 22
24713177 ATAGCTCGAA
24713187 AGGCACTTTATGTGTCGTATCTC
1 AGGCACTTTATGTGTCGTAT-TC
24713210 AGGCACTTTATGTGTCGTA-TC
1 AGGCACTTTATGTGTCGTATTC
* **
24713231 AGGCACCTCGTGTGTCGT-TTC
1 AGGCACTTTATGTGTCGTATTC
24713252 AGGCAC-TTATGTGTCGTAT
1 AGGCACTTTATGTGTCGTAT
24713271 ACTGATCAGG
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
20 9 0.17
21 26 0.48
23 19 0.35
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (22 bp):
AGGCACTTTATGTGTCGTATTC
Found at i:24716977 original size:13 final size:13
Alignment explanation
Indices: 24716961--24716990 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
24716951 AGTGCTGCAA
24716961 AAAAATGCTTATG
1 AAAAATGCTTATG
*
24716974 AAAAATGCTTTTG
1 AAAAATGCTTATG
24716987 AAAA
1 AAAA
24716991 GCTTGGTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (13 bp):
AAAAATGCTTATG
Found at i:24718589 original size:16 final size:18
Alignment explanation
Indices: 24718552--24718586 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
24718542 AATACTAAGA
24718552 ATTT-TATTAAATTATAT
1 ATTTATATTAAATTATAT
24718569 ATTTATATTAAATTATAT
1 ATTTATATTAAATTATAT
24718587 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTATATTAAATTATAT
Found at i:24718598 original size:16 final size:17
Alignment explanation
Indices: 24718559--24718604 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
24718549 AGAATTTTAT
* *
24718559 TAAATTATATATTTATAT
1 TAAATTATAT-TTAATAA
24718577 TAAATTATATTTAATAA
1 TAAATTATATTTAATAA
24718594 T-AATTAT-TTTA
1 TAAATTATATTTA
24718605 GATTATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 4 0.15
16 6 0.23
17 6 0.23
18 10 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TAAATTATATTTAATAA
Found at i:24718600 original size:26 final size:25
Alignment explanation
Indices: 24718571--24718748 Score: 77
Period size: 26 Copynumber: 7.2 Consensus size: 25
24718561 AATTATATAT
24718571 TTATATTAAATTATATTTAATAATAA
1 TTATATTAAATTATATTTAATAAT-A
* * * *
24718597 TTATTTTAGATTATATTTTATAGTA
1 TTATATTAAATTATATTTAATAATA
*
24718622 TTATA-T--ATTATGATTTTAGTAA-A
1 TTATATTAAATTAT-A-TTTAATAATA
* *
24718645 TTCATA-TAAGAATAT-TTTAATATTA
1 TT-ATATTAA-ATTATATTTAATAATA
** ** * * *
24718670 AGA-ATTTTATTA-AATT-ATATTT
1 TTATATTAAATTATATTTAATAATA
*
24718692 TTTTATTAAATTATATTTAATAATTA
1 TTATATTAAATTATATTTAATAA-TA
* * *
24718718 TTATTTTAAATTATATTTTATACTA
1 TTATATTAAATTATATTTAATAATA
24718743 TTATAT
1 TTATAT
24718749 ATTATAATTT
Statistics
Matches: 108, Mismatches: 31, Indels: 27
0.65 0.19 0.16
Matches are distributed among these distances:
22 10 0.09
23 17 0.16
24 21 0.19
25 16 0.15
26 40 0.37
27 4 0.04
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.55
Consensus pattern (25 bp):
TTATATTAAATTATATTTAATAATA
Found at i:24718695 original size:18 final size:18
Alignment explanation
Indices: 24718674--24718709 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
24718664 ATATTAAGAA
24718674 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
24718692 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
24718710 AATAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATTAAATTATATTT
Found at i:24718716 original size:13 final size:13
Alignment explanation
Indices: 24718700--24718757 Score: 64
Period size: 13 Copynumber: 4.3 Consensus size: 13
24718690 TTTTTTATTA
*
24718700 AATTATATTTAAT
1 AATTATATTTTAT
24718713 AATTATTATTTTA-
1 AATTA-TATTTTAT
24718726 AATTATATTTTAT
1 AATTATATTTTAT
*
24718739 ACTATTATATATTAT
1 A--ATTATATTTTAT
24718754 AATT
1 AATT
24718758 TTAGTAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
12 7 0.18
13 14 0.36
14 6 0.15
15 12 0.31
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (13 bp):
AATTATATTTTAT
Found at i:24718717 original size:18 final size:18
Alignment explanation
Indices: 24718678--24718717 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
24718668 TAAGAATTTT
** *
24718678 ATTAAATTATATTTTTTT
1 ATTAAATTATATTTAATA
24718696 ATTAAATTATATTTAATA
1 ATTAAATTATATTTAATA
24718714 ATTA
1 ATTA
24718718 TTATTTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTAAATTATATTTAATA
Found at i:24718733 original size:121 final size:120
Alignment explanation
Indices: 24718475--24718782 Score: 528
Period size: 121 Copynumber: 2.6 Consensus size: 120
24718465 CCACAAAATC
*
24718475 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCGTATAAGAATAT
1 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
24718540 TTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
66 TTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
24718595 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
1 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATA-
* * *
24718660 TTTAATATTAAGAATTTTATTAAATTATATTTTTTTATTAAATTATATTTAATAAT
65 TTTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
* * * *
24718716 TATTATTTTAAATTATATTTTATACTATTATATATTATAATTTTAGTAAATTCATATAAGAAT-T
1 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
24718780 TTA
66 TTA
24718783 TTAAATTATA
Statistics
Matches: 179, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
119 4 0.02
120 63 0.35
121 112 0.63
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.53
Consensus pattern (120 bp):
AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
TTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
Found at i:24719049 original size:45 final size:44
Alignment explanation
Indices: 24718963--24719053 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
24718953 ACCTCTATTC
* *
24718963 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTAATCCATTA
*** *
24719007 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTAATCCATTA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTAATCCATTA
24719052 CA
1 CA
24719054 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.35, C:0.29, G:0.05, T:0.31
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTAATCCATTA
Found at i:24719053 original size:16 final size:16
Alignment explanation
Indices: 24719032--24719101 Score: 113
Period size: 16 Copynumber: 4.4 Consensus size: 16
24719022 TTGATTTGCT
24719032 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
24719048 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
24719064 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
24719080 ATTACGCCTCTAATCC
1 ATTACACCTCTAATCC
*
24719096 AATACA
1 ATTACA
24719102 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.31, C:0.36, G:0.01, T:0.31
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:24722106 original size:19 final size:20
Alignment explanation
Indices: 24722061--24722110 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
24722051 AAATAAAATA
**
24722061 TTTTTATTTATTTTGAAGAT
1 TTTTTATTTATTTACAAGAT
* *
24722081 GTCTTATTT-TTTACAAGAT
1 TTTTTATTTATTTACAAGAT
24722100 TTTTTATTTAT
1 TTTTTATTTAT
24722111 ATTTCTATTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.24, C:0.04, G:0.08, T:0.64
Consensus pattern (20 bp):
TTTTTATTTATTTACAAGAT
Found at i:24723953 original size:126 final size:125
Alignment explanation
Indices: 24723714--24724159 Score: 653
Period size: 126 Copynumber: 3.6 Consensus size: 125
24723704 AGGATAATGA
*
24723714 TTCTAGCAGGATGCTTTATAAGAAGAATTTGTGAAAT--CGCCCTCGTGGACGCGCTTTTGCTAC
1 TTCTAGCAGGATGCTTTATAAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTAC
* * ** * **
24723777 AGTTGGCCCCGAAAAAAAATAATTTCGAGTTGACGTTTCTGAGTGAATAGTATAAAAATGGC
66 AGTAGGTCTTG-GAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAA-GGC
* * * **
24723839 TTCTAGCAAGATGCGTTATGAGAAGAATTTGTGAAATCATGCCCACGTGGACGCGCTTTTGCTAC
1 TTCTAGCAGGATGCTTTATAAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTAC
24723904 AGTAGGTCTTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAGGC
66 AGTAGGTCTTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAAGGC
* *
24723965 TTCTAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGATGCGCTTTTGCTAC
1 TTCTAGCAGGATGCTTTATAAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTAC
* *
24724030 AGTAGGTCTTGGAAAAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAAACGC
66 AGTAGGTCTTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAGGC
* * * * *
24724090 TTTTAGCAGGATGTTTTATAAGAAGAATTTGTGAAATCGCGCCCACGTGGATGCACTTTTGCTAT
1 TTCTAGCAGGATGCTTTATAAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTAC
24724155 AGTAG
66 AGTAG
24724160 CATGTTCGGT
Statistics
Matches: 294, Mismatches: 24, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
125 106 0.36
126 152 0.52
127 36 0.12
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.30
Consensus pattern (125 bp):
TTCTAGCAGGATGCTTTATAAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTAC
AGTAGGTCTTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAGGC
Found at i:24725446 original size:20 final size:20
Alignment explanation
Indices: 24725421--24725458 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24725411 TTTTTTAAAA
24725421 AAAATCT-ATATAATAATTGT
1 AAAATCTAATATAA-AATTGT
24725441 AAAATCTAATATAAAATT
1 AAAATCTAATATAAAATT
24725459 TACCTCATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (20 bp):
AAAATCTAATATAAAATTGT
Found at i:24726454 original size:51 final size:51
Alignment explanation
Indices: 24726393--24726492 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
24726383 AAATTATTTA
* *
24726393 AAATAGGGATTTACGAGAAATTTA-AGAGGAAATTGAGAGTAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCAAATTGAGATT
* * *
24726444 AAATATGGATTTAAGAGAAATTTGGAAGGAATTTGAGAGCAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGA
24726493 GAAAATTTAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.26, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGATT
Found at i:24726490 original size:11 final size:11
Alignment explanation
Indices: 24726470--24726526 Score: 69
Period size: 11 Copynumber: 5.1 Consensus size: 11
24726460 GAAATTTGGA
*
24726470 AGGAATTTGAG
1 AGGAAATTGAG
*
24726481 AGCAAATTGAG
1 AGGAAATTGAG
* *
24726492 AGAAAATTTAG
1 AGGAAATTGAG
24726503 AGGAAATTGAG
1 AGGAAATTGAG
24726514 AGGAAATTTGAG
1 AGGAAA-TTGAG
24726526 A
1 A
24726527 AAGGATTAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
11 33 0.85
12 6 0.15
ACGTcount: A:0.46, C:0.02, G:0.30, T:0.23
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:24726507 original size:33 final size:34
Alignment explanation
Indices: 24726452--24726526 Score: 91
Period size: 33 Copynumber: 2.2 Consensus size: 34
24726442 TTAAATATGG
* * *
24726452 ATTTAAGAGAAATTTGGAAGGAATTTGAGAGCAA
1 ATTTGAGAGAAATTTAGAAGGAAATTGAGAGCAA
*
24726486 A-TTGAGAGAAAATTTAG-AGGAAATTGAGAGGAA
1 ATTTGAGAG-AAATTTAGAAGGAAATTGAGAGCAA
24726519 ATTTGAGA
1 ATTTGAGA
24726527 AAGGATTAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
33 21 0.60
34 14 0.40
ACGTcount: A:0.45, C:0.01, G:0.28, T:0.25
Consensus pattern (34 bp):
ATTTGAGAGAAATTTAGAAGGAAATTGAGAGCAA
Found at i:24726509 original size:22 final size:23
Alignment explanation
Indices: 24726473--24726526 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 23
24726463 ATTTGGAAGG
24726473 AATTTGAGAGCAAATTGAGAGAA
1 AATTTGAGAGCAAATTGAGAGAA
* *
24726496 AATTT-AGAGGAAATTGAGAGGA
1 AATTTGAGAGCAAATTGAGAGAA
24726518 AATTTGAGA
1 AATTTGAGA
24726527 AAGGATTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.46, C:0.02, G:0.28, T:0.24
Consensus pattern (23 bp):
AATTTGAGAGCAAATTGAGAGAA
Found at i:24726770 original size:39 final size:40
Alignment explanation
Indices: 24726693--24726790 Score: 117
Period size: 39 Copynumber: 2.5 Consensus size: 40
24726683 GTCTACATAA
* * *
24726693 ACGCGCTTTGCTGACATGGACGCAAGTCGCGCATACGTGG
1 ACGCGATTTGCTGACACGTACGCAAGTCGCGCATACGTGG
* * * * *
24726733 ATGCGATTTGTTGCCACGTACGCAA-TCGTGCTTACGTGG
1 ACGCGATTTGCTGACACGTACGCAAGTCGCGCATACGTGG
24726772 ACGCGATTTGCTGACACGT
1 ACGCGATTTGCTGACACGT
24726791 CCCCTGACAT
Statistics
Matches: 47, Mismatches: 11, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
39 28 0.60
40 19 0.40
ACGTcount: A:0.19, C:0.26, G:0.30, T:0.26
Consensus pattern (40 bp):
ACGCGATTTGCTGACACGTACGCAAGTCGCGCATACGTGG
Found at i:24728165 original size:13 final size:13
Alignment explanation
Indices: 24728128--24728178 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
24728118 TTTGGCAATG
24728128 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
* *
24728141 -ATGTGAAAAAGTA
1 CTTTTG-AAAAGTA
* *
24728154 CTTTTGAGAAGTG
1 CTTTTGAAAAGTA
24728167 CTTTTGAAAAGT
1 CTTTTGAAAAGT
24728179 TTAGTTTAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
12 3 0.10
13 23 0.79
14 3 0.10
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.35
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:24729986 original size:32 final size:31
Alignment explanation
Indices: 24729950--24730014 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
24729940 AAAATTTCAA
24729950 AATTCAAAAAAGTAGAAG-GACTAAAATTGATC
1 AATTCAAAAAA-TA-AAGAGACTAAAATTGATC
* *
24729982 AATTCAAAAAATACAGATACTAAAATTGATC
1 AATTCAAAAAATAAAGAGACTAAAATTGATC
24730013 AA
1 AA
24730015 ATTAAAGTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 2 0.07
31 17 0.57
32 11 0.37
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.23
Consensus pattern (31 bp):
AATTCAAAAAATAAAGAGACTAAAATTGATC
Found at i:24731887 original size:308 final size:308
Alignment explanation
Indices: 24731281--24732016 Score: 795
Period size: 308 Copynumber: 2.4 Consensus size: 308
24731271 CAAACTCATG
*
24731281 CCAAGTGCATTAGTAAAACATTTAATTTACCACTCAACTAAAGCTTCATTTTAATATTTTTATAC
1 CCAATTGCATTA-TAAAACATTTAATTTACCACTCAACTAAA-CTTCATTTTAATATTTTTATAC
* * *
24731346 ATTTTAGTTTTATTATGCACATTCTATTA--TCTCCA--TA-A-ATGTATA-TTTATATCTATCT
64 ATTTTAATTTTATTATGCACATTCTATTACCTCACCAGTTATATATCTATACTTTATATCTATCT
* * * * * * * * *
24731404 ATACTATTGTTTAAACTCTTGACTGAGTTGGTGTCGCAAGTTAACTGAGCACGAACTAATTGGTT
129 ACACTATTATTTAAACTCCTGACTGAGTTGATGTCACAACTCAACAGAGCACCAACTAATTGG-T
* *
24731469 AGGAAATTACGGGAATGCACATCCTTAATTAAAATAAGTAATATTATTCGGGGTATTTTAGTCTT
193 -GGAAATTACGGGAATGCACATCCATAATTAAAATAAATAATATTATTCGGGGTATTTTAGTCTT
* ** * * * *
24731534 TTCAATTCAAAAAAATAATAAAAATATGTATATGGTGAGATTTGAATCTACA
257 TTCAATTCAAAAAAACAATAAAAATATACATATGGTAAAATTTGAACCCACA
* ** * *
24731586 CCATTTGCATTATAAAACCCTTAATTTACCACTCAAGTAAACATTCATTTTAATATTTTTATAAA
1 CCAATTGCATTATAAAACATTTAATTTACCACTCAACTAAAC-TTCATTTTAATATTTTTATACA
*
24731651 TTTTAATTTTATTATGCACATTCTATTACCTCCACCAGTTATATATCTATACTTGTATAT-TATT
65 TTTTAATTTTATTATGCACATTCTATTACCT-CACCAGTTATATATCTATACTT-TATATCTATC
* * *
24731715 TACACTATTATTTCAGCTCCT-ACTGAGTTGATGTCAC-CCTCAACCAG-GTCACCAACTCAATT
128 TACACTATTATTTAAACTCCTGACTGAGTTGATGTCACAACTCAA-CAGAG-CACCAACT-AATT
* * * * *
24731777 -G-GGAAGTTACGGGAATGCGCTTTCATAATTAAAATAAATAATATTATTCGAGTGTATTTTAGT
190 GGTGGAAATTACGGGAATGCACATCCATAATTAAAATAAATAATATTATTCG-GGGTATTTTAGT
* * *
24731840 CTTTTCACTT-AAAAAACCAATAAAAATATACATATGGTAAAATTTGAACCCACG
254 CTTTTCAATTCAAAAAAACAATAAAAATATACATATGGTAAAATTTGAACCCACA
* * *
24731894 CCAATTGCATTGATAAAACATTTAATTTACCA-TGCAACTAAAGTTTA-TATATATATTTTTATA
1 CCAATTGCATT-ATAAAACATTTAATTTACCACT-CAACTAAACTTCATTTTA-ATATTTTTATA
** *
24731957 CATTTTAATTTTATTATGCACACTT-TATTACCTTCATTAGTTGTATATCTATACTGTTAT
63 CATTTTAATTTTATTATGCACA-TTCTATTACC-TCACCAGTTATATATCTATACT-TTAT
24732017 TTAAATTCTT
Statistics
Matches: 361, Mismatches: 50, Indels: 37
0.81 0.11 0.08
Matches are distributed among these distances:
303 1 0.00
304 74 0.20
305 10 0.03
306 1 0.00
307 7 0.02
308 152 0.42
309 51 0.14
310 5 0.01
311 30 0.08
312 25 0.07
313 5 0.01
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (308 bp):
CCAATTGCATTATAAAACATTTAATTTACCACTCAACTAAACTTCATTTTAATATTTTTATACAT
TTTAATTTTATTATGCACATTCTATTACCTCACCAGTTATATATCTATACTTTATATCTATCTAC
ACTATTATTTAAACTCCTGACTGAGTTGATGTCACAACTCAACAGAGCACCAACTAATTGGTGGA
AATTACGGGAATGCACATCCATAATTAAAATAAATAATATTATTCGGGGTATTTTAGTCTTTTCA
ATTCAAAAAAACAATAAAAATATACATATGGTAAAATTTGAACCCACA
Found at i:24738265 original size:25 final size:25
Alignment explanation
Indices: 24738231--24738282 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
24738221 GGTCACCGTG
24738231 AGGCTCCATCACATCGATCAGCCTA
1 AGGCTCCATCACATCGATCAGCCTA
24738256 AGGCTCCATCACATCGATCAGCCTA
1 AGGCTCCATCACATCGATCAGCCTA
24738281 AG
1 AG
24738283 TCTATGGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.29, C:0.35, G:0.17, T:0.19
Consensus pattern (25 bp):
AGGCTCCATCACATCGATCAGCCTA
Found at i:24738469 original size:13 final size:13
Alignment explanation
Indices: 24738438--24738477 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
24738428 CTTTTCAAAT
24738438 ACAGATA-ACAGA
1 ACAGATATACAGA
*
24738450 ATTAGATATACAGA
1 A-CAGATATACAGA
24738464 ACAGATATACAGA
1 ACAGATATACAGA
24738477 A
1 A
24738478 TCCTACCCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 1 0.04
13 17 0.71
14 6 0.25
ACGTcount: A:0.55, C:0.12, G:0.15, T:0.17
Consensus pattern (13 bp):
ACAGATATACAGA
Found at i:24742022 original size:18 final size:17
Alignment explanation
Indices: 24741987--24742022 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
24741977 CAATTTGGGT
*
24741987 CATGTGGGCCACATGGG
1 CATGTGGGCCACACGGG
24742004 CATGTGGGCCCACACGGG
1 CATGTGGG-CCACACGGG
24742022 C
1 C
24742023 GAATAGTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.17, C:0.31, G:0.39, T:0.14
Consensus pattern (17 bp):
CATGTGGGCCACACGGG
Found at i:24743006 original size:18 final size:18
Alignment explanation
Indices: 24742983--24743022 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
24742973 GTTTTAAAAT
*
24742983 TGAATAACGATTTGTAAA
1 TGAATAACGATTTGGAAA
* *
24743001 TGAATAATGTTTTGGAAA
1 TGAATAACGATTTGGAAA
24743019 TGAA
1 TGAA
24743023 CGACACAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.03, G:0.20, T:0.35
Consensus pattern (18 bp):
TGAATAACGATTTGGAAA
Found at i:24747425 original size:22 final size:21
Alignment explanation
Indices: 24747400--24747471 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 21
24747390 TCAACTATCT
24747400 TATATGAAGATAATACAACATG
1 TATATGAAGATAAT-CAACATG
* * *
24747422 TATAGGAAGAGAAGTCAACTATCT
1 TATATGAAGATAA-TCAAC-AT-G
*
24747446 TATCTGAAGATAATGCAACATG
1 TATATGAAGATAAT-CAACATG
24747468 TATA
1 TATA
24747472 GCTCAATTGC
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
22 18 0.47
23 6 0.16
24 14 0.37
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (21 bp):
TATATGAAGATAATCAACATG
Found at i:24747428 original size:46 final size:46
Alignment explanation
Indices: 24747376--24747472 Score: 167
Period size: 46 Copynumber: 2.1 Consensus size: 46
24747366 AATTTGTCTT
*
24747376 TATAGGAAGAGATGTCAACTATCTTATATGAAGATAATACAACATG
1 TATAGGAAGAGAAGTCAACTATCTTATATGAAGATAATACAACATG
* *
24747422 TATAGGAAGAGAAGTCAACTATCTTATCTGAAGATAATGCAACATG
1 TATAGGAAGAGAAGTCAACTATCTTATATGAAGATAATACAACATG
24747468 TATAG
1 TATAG
24747473 CTCAATTGCA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (46 bp):
TATAGGAAGAGAAGTCAACTATCTTATATGAAGATAATACAACATG
Found at i:24747454 original size:24 final size:24
Alignment explanation
Indices: 24747375--24747455 Score: 78
Period size: 24 Copynumber: 3.5 Consensus size: 24
24747365 TAATTTGTCT
* *
24747375 TTATAGGAAGAGATGTCAACTATC
1 TTATATGAAGAGAAGTCAACTATC
*
24747399 TTATATGAAGATAA-TACAAC-AT-
1 TTATATGAAGAGAAGT-CAACTATC
* *
24747421 GTATAGGAAGAGAAGTCAACTATC
1 TTATATGAAGAGAAGTCAACTATC
*
24747445 TTATCTGAAGA
1 TTATATGAAGA
24747456 TAATGCAACA
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
22 15 0.34
23 6 0.14
24 23 0.52
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (24 bp):
TTATATGAAGAGAAGTCAACTATC
Found at i:24747464 original size:24 final size:24
Alignment explanation
Indices: 24747391--24747464 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 24
24747381 GAAGAGATGT
*
24747391 CAACTATCTTATATGAAGATAATA
1 CAACTATCTTATATGAAGATAATG
* * *
24747415 CAAC-AT-GTATAGGAAGAGAA-G
1 CAACTATCTTATATGAAGATAATG
*
24747436 TCAACTATCTTATCTGAAGATAATG
1 -CAACTATCTTATATGAAGATAATG
24747461 CAAC
1 CAAC
24747465 ATGTATAGCT
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
22 15 0.39
23 4 0.11
24 18 0.47
25 1 0.03
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (24 bp):
CAACTATCTTATATGAAGATAATG
Found at i:24748715 original size:22 final size:22
Alignment explanation
Indices: 24748672--24748717 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
24748662 GTATAATTAT
**
24748672 AATTACAAAAATATATCTAATC
1 AATTACAAAAATATATAGAATC
24748694 AATTA-AAATAATATATAGAATC
1 AATTACAAA-AATATATAGAATC
24748716 AA
1 AA
24748718 CTCAATACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.59, C:0.09, G:0.02, T:0.30
Consensus pattern (22 bp):
AATTACAAAAATATATAGAATC
Found at i:24750783 original size:28 final size:27
Alignment explanation
Indices: 24750743--24750809 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 27
24750733 TTTTTTGCCC
24750743 ATTTATTATTATTGTCGTTATTATTTTATT
1 ATTTATT-TTATT-TC-TTATTATTTTATT
*
24750773 -TTTATTTTA-TTCTTGTTATTTTATT
1 ATTTATTTTATTTCTTATTATTTTATT
*
24750798 ATTTCTTTTATT
1 ATTTATTTTATT
24750810 ATTCTCACGT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
25 12 0.36
26 10 0.30
27 2 0.06
28 3 0.09
29 6 0.18
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.72
Consensus pattern (27 bp):
ATTTATTTTATTTCTTATTATTTTATT
Found at i:24751522 original size:15 final size:15
Alignment explanation
Indices: 24751502--24751533 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
24751492 TACTTAAGTG
24751502 ATTTTAAATATCAGT
1 ATTTTAAATATCAGT
*
24751517 ATTTTATATATCAGT
1 ATTTTAAATATCAGT
24751532 AT
1 AT
24751534 GCAAGGTGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (15 bp):
ATTTTAAATATCAGT
Found at i:24752428 original size:16 final size:17
Alignment explanation
Indices: 24752407--24752441 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
24752397 TGATATTTGG
24752407 ATGATTAAAAT-TTTTT
1 ATGATTAAAATATTTTT
*
24752423 ATGATTAAATTATTTTT
1 ATGATTAAAATATTTTT
24752440 AT
1 AT
24752442 TAAATATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (17 bp):
ATGATTAAAATATTTTT
Found at i:24760787 original size:19 final size:18
Alignment explanation
Indices: 24760743--24760787 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
24760733 GTGTCGTTCG
24760743 TTTCCAAAACATTATTCA
1 TTTCCAAAACATTATTCA
* * *
24760761 TTTACAAATCGTTATTCAA
1 TTTCCAAAACATTATTC-A
24760780 TTTCCAAA
1 TTTCCAAA
24760788 CTTTTTTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.38, C:0.20, G:0.02, T:0.40
Consensus pattern (18 bp):
TTTCCAAAACATTATTCA
Found at i:24763134 original size:12 final size:12
Alignment explanation
Indices: 24763119--24763147 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
24763109 TTATATTAAT
24763119 TATATTATTATA
1 TATATTATTATA
24763131 TATATTATTATA
1 TATATTATTATA
24763143 TATAT
1 TATAT
24763148 AAAACAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TATATTATTATA
Found at i:24764751 original size:45 final size:45
Alignment explanation
Indices: 24764682--24764769 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 45
24764672 GCCGACTACT
* *
24764682 GTTATTGTTACTGATTCGATACTTTGTGTG-TCGAATACTGTTACC
1 GTTATTGTTACAGATTCGATACTTTGTATGCT-GAATACTGTTACC
24764727 GTTATTGTTACAGATTC-ATCACTTTGTATGCTGAATACTGTTA
1 GTTATTGTTACAGATTCGAT-ACTTTGTATGCTGAATACTGTTA
24764770 TTGCTACCGT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
44 2 0.05
45 36 0.92
46 1 0.03
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.44
Consensus pattern (45 bp):
GTTATTGTTACAGATTCGATACTTTGTATGCTGAATACTGTTACC
Found at i:24765497 original size:17 final size:18
Alignment explanation
Indices: 24765466--24765499 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24765456 ATAAATAGAA
24765466 ATGATAATGAATGAGTTG
1 ATGATAATGAATGAGTTG
*
24765484 ATGA-AATGATTGAGTT
1 ATGATAATGAATGAGTT
24765500 TGTATGGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.35
Consensus pattern (18 bp):
ATGATAATGAATGAGTTG
Found at i:24771739 original size:21 final size:21
Alignment explanation
Indices: 24771715--24771792 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
24771705 AAACTATTGC
24771715 TTTCCAAAAGAAAACAGAGGA
1 TTTCCAAAAGAAAACAGAGGA
*
24771736 TTTCCAAAAGAAAACAAAGGA
1 TTTCCAAAAGAAAACAGAGGA
* *
24771757 TTTCCAAAAGAAGACAGAAGA
1 TTTCCAAAAGAAAACAGAGGA
* *
24771778 TTTTCAACAGAAAAC
1 TTTCCAAAAGAAAAC
24771793 TAAGGTGTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.53, C:0.15, G:0.15, T:0.17
Consensus pattern (21 bp):
TTTCCAAAAGAAAACAGAGGA
Found at i:24773864 original size:3 final size:3
Alignment explanation
Indices: 24773856--24773880 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
24773846 TTTAACCTTG
24773856 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
24773881 TACTCATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:24779225 original size:13 final size:13
Alignment explanation
Indices: 24779207--24779239 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
24779197 GGAATGTTTC
24779207 ATAAAAAGAAAAA
1 ATAAAAAGAAAAA
*
24779220 ATAAAAAGAAAGA
1 ATAAAAAGAAAAA
24779233 A-AAAAAG
1 ATAAAAAG
24779240 GAGAGGCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (13 bp):
ATAAAAAGAAAAA
Found at i:24780386 original size:132 final size:132
Alignment explanation
Indices: 24780218--24780521 Score: 441
Period size: 132 Copynumber: 2.3 Consensus size: 132
24780208 CAGATCAAAA
* *
24780218 ACTGGTCATATCTTCCTGAGCAGTAATGGAGTAGGTTGAAGATTACAGATCCTATCTCCCTAAGT
1 ACTGGTCCTATCTCCCTGAGCAGTAATGGAGTAGGTTGAAGATTACAGATCCTATCTCCCTAAGT
* * *
24780283 AGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTGCC-AAGGCAGTAGAGAAGTAGATTTAA
66 AGTAGTGGAGCAAATCGAAGACGGCGAATCATATCTT-CCTAAGGCAGTAGAGAAGTAGATTTAA
24780347 GCC
130 GCC
* *
24780350 ACTGGTCCTATCTCCCT-ACGCAGTAATGGAGTAGGTTGAAGATTGCAGATCCTGTCTCCCTAAG
1 ACTGGTCCTATCTCCCTGA-GCAGTAATGGAGTAGGTTGAAGATTACAGATCCTATCTCCCTAAG
* * * *
24780414 TAGTAGTGGAGCAAATCGAAGACGGCGAATCATATCTTCCTAATGTAGTAGGGAAGTGGATTTAA
65 TAGTAGTGGAGCAAATCGAAGACGGCGAATCATATCTTCCTAAGGCAGTAGAGAAGTAGATTTAA
*
24780479 GTC
130 GCC
* * *
24780482 ACTAGTCCTATCTCCCTGAGTAGTAGTGGAGTAGGTTGAA
1 ACTGGTCCTATCTCCCTGAGCAGTAATGGAGTAGGTTGAA
24780522 AATCGTAGAT
Statistics
Matches: 154, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
131 3 0.02
132 150 0.97
133 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (132 bp):
ACTGGTCCTATCTCCCTGAGCAGTAATGGAGTAGGTTGAAGATTACAGATCCTATCTCCCTAAGT
AGTAGTGGAGCAAATCGAAGACGGCGAATCATATCTTCCTAAGGCAGTAGAGAAGTAGATTTAAG
CC
Found at i:24780668 original size:44 final size:44
Alignment explanation
Indices: 24780593--24780687 Score: 129
Period size: 44 Copynumber: 2.2 Consensus size: 44
24780583 TTGAAATTTT
* *
24780593 AGTGGAGTAGATTGAAGATACAAGTCTTATCTCCCCGAAGTTGC
1 AGTGGAGTAGACTGAAGATACAAGTCCTATCTCCCCGAAGTTGC
* **
24780637 AGTGGAGTAGACTGAAGCTACTAA-TCCTATCTCCTTGAAGTTGC
1 AGTGGAGTAGACTGAAGATAC-AAGTCCTATCTCCCCGAAGTTGC
24780681 AGTGGAG
1 AGTGGAG
24780688 CGGATTAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
44 43 0.96
45 2 0.04
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (44 bp):
AGTGGAGTAGACTGAAGATACAAGTCCTATCTCCCCGAAGTTGC
Found at i:24781706 original size:16 final size:16
Alignment explanation
Indices: 24781685--24781726 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
24781675 TGCTGTTTTG
24781685 CCCGACCCGCGTGCGA
1 CCCGACCCGCGTGCGA
24781701 CCCGACCCGCGTGCGA
1 CCCGACCCGCGTGCGA
24781717 CCCGACCCGC
1 CCCGACCCGC
24781727 TCCAAAGGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.12, C:0.55, G:0.29, T:0.05
Consensus pattern (16 bp):
CCCGACCCGCGTGCGA
Found at i:24782157 original size:3 final size:3
Alignment explanation
Indices: 24782149--24782206 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
24782139 TTTAACCTTG
24782149 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
24782197 TAC TAT TAT T
1 TAT TAT TAT T
24782207 TACTCATTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Done.