Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 96 of 322
Found at i:31127956 original size:81 final size:81
Alignment explanation
Indices: 31127823--31128021 Score: 222
Period size: 81 Copynumber: 2.5 Consensus size: 81
31127813 TCGAGGGTTC
* * * * ***
31127823 TTTGGTAATTTTAC-AAGTCGAGGGTATTTTAGTAATTTTATAGGTCGAGGGTATTTCAGTAATT
1 TTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTACAAACCGAGGGTATTTCAGTAATT
* *
31127887 TCACAAATCAGAGGTAT
65 TCACAAACCAAAGGTAT
**
31127904 TTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACC-AGGGGTATTTTGGTAATT
1 TTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCGA-GGGTATTTCAGTAATT
* * *
31127968 TTATAGACCAAAGGTAT
65 TCACAAACCAAAGGTAT
* *
31127985 TTTGGTAATTTTATAAACTAAGGGTATTTTGGTAATT
1 TTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATT
31128022 CTACCCTACA
Statistics
Matches: 100, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
80 1 0.01
81 95 0.95
82 4 0.04
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (81 bp):
TTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTCAGTAATTT
CACAAACCAAAGGTAT
Found at i:31128034 original size:81 final size:81
Alignment explanation
Indices: 31127898--31128048 Score: 223
Period size: 81 Copynumber: 1.9 Consensus size: 81
31127888 CACAAATCAG
* * * *
31127898 AGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
1 AGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTCTACAAACCAGGGGCATTTTAG
31127963 TAATTTTATAGACCAA
66 TAATTTTATAGACCAA
* **
31127979 AGGTATTTTGGTAATTTTATAAACTAAGGGTATTTTGGTAATTCTACCCTA-CAGGGGCATTTTA
1 AGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTCTA-CAAACCAGGGGCATTTTA
31128043 GTAATT
65 GTAATT
31128049 CTACCTTACA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
81 60 0.97
82 2 0.03
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (81 bp):
AGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTCTACAAACCAGGGGCATTTTAG
TAATTTTATAGACCAA
Found at i:31128040 original size:27 final size:27
Alignment explanation
Indices: 31128010--31128086 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 27
31128000 AACTAAGGGT
*
31128010 ATTTTGGTAATTCTACCCTACAGGGGC
1 ATTTTAGTAATTCTACCCTACAGGGGC
* * *
31128037 ATTTTAGTAATTCTACCTTACAAGGGT
1 ATTTTAGTAATTCTACCCTACAGGGGC
* *
31128064 ATTTTAGTAATGCTAGCCTACAG
1 ATTTTAGTAATTCTACCCTACAG
31128087 ATATGAGATT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (27 bp):
ATTTTAGTAATTCTACCCTACAGGGGC
Found at i:31128041 original size:54 final size:53
Alignment explanation
Indices: 31127823--31128074 Score: 177
Period size: 54 Copynumber: 4.7 Consensus size: 53
31127813 TCGAGGGTTC
** * * * **
31127823 TTTGGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTATAGGTC-GAGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACA-AACAG-GGGTAT
** * *
31127877 TTCAGTAATTTCACAAATC-AGAGGTATTTTGGTAATTTTACAAACTAGGGGTAT
1 TTTGGTAATTTTACAAACCAAG-GGTATTTTGGTAATTTTACAAAC-AGGGGTAT
* * * **
31127931 TTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAGACCAAAGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACA-AACAGGGGTAT
* * * ** *
31127985 TTTGGTAATTTTATAAACTAAGGGTATTTTGGTAATTCTACCCTACAGGGGCAT
1 TTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTA-CAAACAGGGGTAT
* * ** *
31128039 TTTAGTAATTCTACCTTA-CAAGGGTATTTTAGTAAT
1 TTTGGTAATTTTA-CAAACCAAGGGTATTTTGGTAAT
31128075 GCTAGCCTAC
Statistics
Matches: 156, Mismatches: 35, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
53 3 0.02
54 148 0.95
55 5 0.03
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (53 bp):
TTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACAGGGGTAT
Found at i:31131482 original size:15 final size:15
Alignment explanation
Indices: 31131462--31131492 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
31131452 TTGAAACCAG
31131462 TGATGTTTCAAATGC
1 TGATGTTTCAAATGC
31131477 TGATGTTTCAAATGC
1 TGATGTTTCAAATGC
31131492 T
1 T
31131493 ACAAATGGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (15 bp):
TGATGTTTCAAATGC
Found at i:31133632 original size:24 final size:24
Alignment explanation
Indices: 31133600--31133647 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
31133590 GGATGAAGAA
31133600 AGTGAAGAAGTCATGGTTCTGGTG
1 AGTGAAGAAGTCATGGTTCTGGTG
31133624 AGTGAAGAAGTCATGGTTCTGGTG
1 AGTGAAGAAGTCATGGTTCTGGTG
31133648 GAAGTCGATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.08, G:0.38, T:0.29
Consensus pattern (24 bp):
AGTGAAGAAGTCATGGTTCTGGTG
Found at i:31138464 original size:43 final size:43
Alignment explanation
Indices: 31138416--31138570 Score: 165
Period size: 43 Copynumber: 3.7 Consensus size: 43
31138406 GTTGTTCTCA
* *
31138416 TGTAAGACCATGTCTAGGACGTTGGCATCGATAAATGATTACG
1 TGTAAGACCATGTCTGGGACGTTGGCATCGATATATGATTACG
* * *
31138459 TGTAAGACCATGTCTGGGACATCGGCATCG-TATTTGATT-CG
1 TGTAAGACCATGTCTGGGACGTTGGCATCGATATATGATTACG
* * * *
31138500 TGCAAGACCCTGTCTGGGTTA-G-TGGCATCGATATGTGATTACA
1 TGTAAGACCATGTCTGGG--ACGTTGGCATCGATATATGATTACG
* *
31138543 TGTAAGACCACGTCTGGGATGTTGGCAT
1 TGTAAGACCATGTCTGGGACGTTGGCAT
31138571 TGTACGATAT
Statistics
Matches: 92, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
41 26 0.28
42 16 0.17
43 50 0.54
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGATATATGATTACG
Found at i:31144613 original size:46 final size:47
Alignment explanation
Indices: 31144507--31144628 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 47
31144497 TGTCTTCGAC
** * *
31144507 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATATAAT
* * *
31144557 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATAAT
*
31144603 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
31144629 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 33 0.52
50 30 0.48
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATAAT
Found at i:31145304 original size:12 final size:12
Alignment explanation
Indices: 31145287--31145312 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31145277 TGAACCCTAA
31145287 CTTAAATTATTG
1 CTTAAATTATTG
31145299 CTTAAATTATTG
1 CTTAAATTATTG
31145311 CT
1 CT
31145313 AGCATAAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.50
Consensus pattern (12 bp):
CTTAAATTATTG
Found at i:31149014 original size:47 final size:48
Alignment explanation
Indices: 31148947--31149164 Score: 179
Period size: 47 Copynumber: 4.6 Consensus size: 48
31148937 ATTATGGGCT
* * *
31148947 AGTGTAAGA-CATGTCCGGGACAT-GCATCAGCTAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCTACGA-AATGAGAGTC
* * * *
31148993 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATCGAAACGAGTGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCTA-CGAAATGAGAGTC
* * * *
31149041 AGTGTAAGACAAT-CCTGGGACAT-GCAT-AGGCTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCA-GCTACGAAATGAGAGTC
*
31149087 AGTGTAAGACCATGTCTGGGACATGGCATC-GAC-ATGAAAT-ATGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CTACGAAATGA-GAGTC
* *
31149133 TAGTGTGAGACCGTGTCTGGGACATGGCATCA
1 -AGTGTAAGACCATGTCTGGGACATGGCATCA
31149165 ACATCTTACC
Statistics
Matches: 137, Mismatches: 22, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
46 37 0.27
47 69 0.50
48 30 0.22
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.22
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCTACGAAATGAGAGTC
Found at i:31149096 original size:46 final size:47
Alignment explanation
Indices: 31148947--31149111 Score: 128
Period size: 46 Copynumber: 3.5 Consensus size: 47
31148937 ATTATGGGCT
* * *
31148947 AGTGTAAGAC-ATGTCC-GGGACATGCATCA-GCTAC-ATTATGAGAGCC
1 AGTGTAAGACAATG-CCTGGGACATGCAT-AGGCTACGA-AATGATAGTC
* * * * *
31148993 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATCGAAACGAGT-GTT
1 AGTGTAAGACAATGCCTGGGACAT-GCATAGGCTA-CGAAATGA-TAGTC
*
31149041 AGTGTAAGACAAT-CCTGGGACATGCATAGGCTACGAGATGATAGTC
1 AGTGTAAGACAATGCCTGGGACATGCATAGGCTACGAAATGATAGTC
* *
31149087 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACAATGCCTGGGACATG
31149112 GCATCGACAT
Statistics
Matches: 94, Mismatches: 15, Indels: 19
0.73 0.12 0.15
Matches are distributed among these distances:
45 1 0.01
46 38 0.40
47 31 0.33
48 23 0.24
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACAATGCCTGGGACATGCATAGGCTACGAAATGATAGTC
Found at i:31149153 original size:94 final size:96
Alignment explanation
Indices: 31148939--31149164 Score: 259
Period size: 94 Copynumber: 2.4 Consensus size: 96
31148929 TATGGGTTAT
* * *
31148939 TATGGGCTAGTGTAAGA-CATGTCCGGGACATGCATCAGCTACATTATGAGAGCCAGTGTAAGAC
1 TATGAGCTAGTGTAAGACCATGTCTGGGACATGCATCAGCTACATGATGAGAGCCAGTGTAAGAC
*
31149003 CATGTCTGGGACATGGCATCGGCATCGAAAC
66 CATGTCTGGGACATGGCATCGACATCGAAAC
* * * * * * *
31149034 GA-GTGTTAGTGTAAGACAAT-CCTGGGACATGCAT-AGGCTACGA-GATGATAGTCAGTGTAAG
1 TATGAGCTAGTGTAAGACCATGTCTGGGACATGCATCA-GCTAC-ATGATGAGAGCCAGTGTAAG
31149095 ACCATGTCTGGGACATGGCATCGACAT-GAAA-
64 ACCATGTCTGGGACATGGCATCGACATCGAAAC
* *
31149126 TATGAGCTAGTGTGAGACCGTGTCTGGGACATGGCATCA
1 TATGAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCA
31149165 ACATCTTACC
Statistics
Matches: 107, Mismatches: 17, Indels: 13
0.78 0.12 0.09
Matches are distributed among these distances:
92 1 0.01
93 18 0.17
94 79 0.74
95 8 0.07
96 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.23
Consensus pattern (96 bp):
TATGAGCTAGTGTAAGACCATGTCTGGGACATGCATCAGCTACATGATGAGAGCCAGTGTAAGAC
CATGTCTGGGACATGGCATCGACATCGAAAC
Found at i:31162934 original size:18 final size:17
Alignment explanation
Indices: 31162908--31162941 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
31162898 CCATAATACG
31162908 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
*
31162926 GCCCGTGTGGCCCACA
1 GCCCATGTGGCCCACA
31162942 AAGCCCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.44, G:0.29, T:0.12
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:31177240 original size:40 final size:41
Alignment explanation
Indices: 31177144--31177248 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 41
31177134 CGAATGATGT
*
31177144 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
* * * *
31177184 CCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTATAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACCATAA
*
31177224 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
31177249 AACGAGTAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.02
40 46 0.84
41 8 0.15
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
Found at i:31178659 original size:80 final size:79
Alignment explanation
Indices: 31178526--31178684 Score: 300
Period size: 80 Copynumber: 2.0 Consensus size: 79
31178516 ACGCAGTTAG
31178526 CCAACTGCCTAGAAATTTTTAAAATGGACTGTGAAAATGAGTGGTTTAAGCCGTTAACCCCTCGT
1 CCAACTGCCTAGAAATTTTTAAAATGGACTGTGAAAATGAGTGGTTTAAGCCGTTAACCCCTCGT
31178591 GTCCGACTCCGGCA
66 GTCCGACTCCGGCA
*
31178605 NCCAACTGCCTGGAAATTTTTAAAATGGACTGTGAAAATGAGTGGTTTAAGCCGTTAACCCCTCG
1 -CCAACTGCCTAGAAATTTTTAAAATGGACTGTGAAAATGAGTGGTTTAAGCCGTTAACCCCTCG
31178670 TGTCCGACTCCGGCA
65 TGTCCGACTCCGGCA
31178685 GCGGTCTCGG
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.26
Consensus pattern (79 bp):
CCAACTGCCTAGAAATTTTTAAAATGGACTGTGAAAATGAGTGGTTTAAGCCGTTAACCCCTCGT
GTCCGACTCCGGCA
Found at i:31185012 original size:20 final size:20
Alignment explanation
Indices: 31184966--31185012 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
31184956 AGCTTGTTTC
*
31184966 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
31184986 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
31185006 CAGCTCA
1 CAGCTCA
31185013 ATCTTAACCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:31196040 original size:32 final size:32
Alignment explanation
Indices: 31195999--31196061 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
31195989 TAAACTTTCA
31195999 AAAAAAATTCCTTCCATGTCCTAATTTTGTCT
1 AAAAAAATTCCTTCCATGTCCTAATTTTGTCT
31196031 AAAAAAATTCCTTCCATGTCCTAATTTTGTC
1 AAAAAAATTCCTTCCATGTCCTAATTTTGTC
31196062 CATGAACTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.32, C:0.22, G:0.06, T:0.40
Consensus pattern (32 bp):
AAAAAAATTCCTTCCATGTCCTAATTTTGTCT
Found at i:31212093 original size:15 final size:15
Alignment explanation
Indices: 31212066--31212119 Score: 72
Period size: 15 Copynumber: 3.5 Consensus size: 15
31212056 GGTCGTGAAT
*
31212066 CACACATGGCCTAGA
1 CACACACGGCCTAGA
*
31212081 CATACACGGCCTAGACA
1 CACACACGGCCTAG--A
31212098 CACACACGGCCTAGA
1 CACACACGGCCTAGA
31212113 CACACAC
1 CACACAC
31212120 CTGCGTGTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
15 20 0.59
17 14 0.41
ACGTcount: A:0.35, C:0.39, G:0.17, T:0.09
Consensus pattern (15 bp):
CACACACGGCCTAGA
Found at i:31212104 original size:17 final size:17
Alignment explanation
Indices: 31212066--31212119 Score: 76
Period size: 17 Copynumber: 3.3 Consensus size: 17
31212056 GGTCGTGAAT
*
31212066 CACACATGGCCTAG--A
1 CACACACGGCCTAGACA
*
31212081 CATACACGGCCTAGACA
1 CACACACGGCCTAGACA
31212098 CACACACGGCCTAGACA
1 CACACACGGCCTAGACA
31212115 CACAC
1 CACAC
31212120 CTGCGTGTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
15 12 0.35
17 22 0.65
ACGTcount: A:0.35, C:0.39, G:0.17, T:0.09
Consensus pattern (17 bp):
CACACACGGCCTAGACA
Found at i:31217212 original size:48 final size:48
Alignment explanation
Indices: 31217141--31217352 Score: 179
Period size: 46 Copynumber: 4.5 Consensus size: 48
31217131 AAGCTGACGC
* *
31217141 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCTAATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
* * ** *
31217189 CATGTCCGAGACATGTCTTACACTAGC-TCT-CGTCT-GAAAG-TCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCG-AGGCT-GATG
* * * * *
31217235 CATGTCCCAGACATGTCTTACACTGGCTAGTATATCTCAAGGCCGATT
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
* * *
31217283 CATGTCCCAGATATGTCTTACACTAGCTCTCGTA-A--T-GTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-T-GTATATCTCGAGGCTGATG
* *
31217329 CATGTCCCAGACATATCTTCCACT
1 CATGTCCCAGACATGTCTTACACT
31217353 GGCATACGTA
Statistics
Matches: 130, Mismatches: 26, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
45 2 0.02
46 61 0.47
47 4 0.03
48 59 0.45
49 1 0.01
50 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
Found at i:31217353 original size:94 final size:94
Alignment explanation
Indices: 31217141--31217355 Score: 279
Period size: 94 Copynumber: 2.3 Consensus size: 94
31217131 AAGCTGACGC
* * * * * *
31217141 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCTAATGCATGTCCGAGACATGTC
1 CATGTCCCAGACATGTCTTACACTGGCTAGTATATCTCAAGGCCAATGCATGTCCCAGACATGTC
* *
31217206 TTACACTAGCTCTCGTCTGAAAGTCGATG
66 TTACACTAGCTCTCGTATGAAAGCCGATG
* * *
31217235 CATGTCCCAGACATGTCTTACACTGGCTAGTATATCTCAAGGCCGATTCATGTCCCAGATATGTC
1 CATGTCCCAGACATGTCTTACACTGGCTAGTATATCTCAAGGCCAATGCATGTCCCAGACATGTC
**
31217300 TTACACTAGCTCTCGTAATG-TGGCCGATG
66 TTACACTAGCTCTCGT-ATGAAAGCCGATG
* *
31217329 CATGTCCCAGACATATCTTCCACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
31217356 ATACGTATCA
Statistics
Matches: 105, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
94 103 0.98
95 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTGGCTAGTATATCTCAAGGCCAATGCATGTCCCAGACATGTC
TTACACTAGCTCTCGTATGAAAGCCGATG
Found at i:31222696 original size:15 final size:16
Alignment explanation
Indices: 31222676--31222709 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
31222666 ACTCTAGCTG
*
31222676 CAGAATGGC-AAATGC
1 CAGAATGCCGAAATGC
31222691 CAGAATGCCGAAATGC
1 CAGAATGCCGAAATGC
31222707 CAG
1 CAG
31222710 TCATACGGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.38, C:0.24, G:0.26, T:0.12
Consensus pattern (16 bp):
CAGAATGCCGAAATGC
Found at i:31222853 original size:17 final size:18
Alignment explanation
Indices: 31222821--31222856 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
31222811 TTGGGCCGGG
*
31222821 ATGGGCCATGTGGGCCCA
1 ATGGGCCATATGGGCCCA
31222839 ATGGGCC-TATGGGCCCA
1 ATGGGCCATATGGGCCCA
31222856 A
1 A
31222857 GTGGATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.19, C:0.28, G:0.36, T:0.17
Consensus pattern (18 bp):
ATGGGCCATATGGGCCCA
Found at i:31222947 original size:27 final size:27
Alignment explanation
Indices: 31222917--31222997 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
31222907 TCTCATATCT
* *
31222917 TAGGCTAGTATTACTGAAATACCCTTG
1 TAGGATAGAATTACTGAAATACCCTTG
* * *
31222944 TAGGGTAGAATTACTGAAATGCCCATG
1 TAGGATAGAATTACTGAAATACCCTTG
*
31222971 TAGGATAGAATTACTGAAATATCCTTG
1 TAGGATAGAATTACTGAAATACCCTTG
31222998 GGTTGCAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (27 bp):
TAGGATAGAATTACTGAAATACCCTTG
Found at i:31223040 original size:27 final size:27
Alignment explanation
Indices: 31223004--31223207 Score: 112
Period size: 27 Copynumber: 7.8 Consensus size: 27
31222994 CTTGGGTTGC
*
31223004 AAATTACCAAAATACCCCT-AGGTTGTA
1 AAATTACCAAAATACCCCTGA-CTTGTA
* *
31223031 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGACTTGTA
***
31223058 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GACTTGTA
* *
31223085 AAATTACAAAAATA-CCCTCAACTTGT-
1 AAATTACCAAAATACCCCT-GACTTGTA
* * *
31223111 --ATT---GAAATACCTTC-GATTTGTA
1 AAATTACCAAAATACC-CCTGACTTGTA
31223133 AAATTACCAAAATACCCCTGA-TT-TA
1 AAATTACCAAAATACCCCTGACTTGTA
* *
31223158 GGAAATTA-CAGAAATACCCCTGATTTATA
1 --AAATTACCA-AAATACCCCTGACTTGTA
*
31223187 AAATTA-TAGAAATACCCCTGA
1 AAATTACCA-AAATACCCCTGA
31223208 TTTACAAAAT
Statistics
Matches: 143, Mismatches: 18, Indels: 32
0.74 0.09 0.17
Matches are distributed among these distances:
21 10 0.07
22 1 0.01
23 1 0.01
24 6 0.04
25 2 0.01
26 9 0.06
27 109 0.76
28 3 0.02
29 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGACTTGTA
Found at i:31223071 original size:54 final size:55
Alignment explanation
Indices: 31223013--31223230 Score: 192
Period size: 54 Copynumber: 4.1 Consensus size: 55
31223003 CAAATTACCA
* * *
31223013 AAATACCCCTAG-GTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTATTG
1 AAATACCCCTCGATTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTATAG
* * * *
31223067 AAATA-CCCTCGACTTGTAAAATTACAAAAATA-CCCTCAACTTGT---A-T-T-G
1 AAATACCCCTCGATTTGTAAAATTACCAAAATACCCCT-GATTTGTGAAATTATAG
* *
31223115 AAATA-CCTTCGATTTGTAAAATTACCAAAATACCCCTGATTTAG-GAAATTACAG
1 AAATACCCCTCGATTTGTAAAATTACCAAAATACCCCTGATTT-GTGAAATTATAG
* * ***
31223169 AAATACCCCT-GATTTATAAAATTA-TAGAAATACCCCTGATTTACAAAATTATAG
1 AAATACCCCTCGATTTGTAAAATTACCA-AAATACCCCTGATTTGTGAAATTATAG
31223223 AAATACCC
1 AAATACCC
31223231 TTGACTTTCA
Statistics
Matches: 134, Mismatches: 17, Indels: 26
0.76 0.10 0.15
Matches are distributed among these distances:
48 33 0.25
49 6 0.04
50 1 0.01
51 2 0.01
52 1 0.01
53 10 0.07
54 78 0.58
55 3 0.02
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.30
Consensus pattern (55 bp):
AAATACCCCTCGATTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTATAG
Found at i:31223208 original size:27 final size:27
Alignment explanation
Indices: 31223125--31223257 Score: 162
Period size: 27 Copynumber: 4.9 Consensus size: 27
31223115 AAATACCTTC
*
31223125 GATTTGTAAAATTACCA-AAATACCCCT
1 GATTTATAAAATTA-CAGAAATACCCCT
**
31223152 GATTTAGGAAATTACAGAAATACCCCT
1 GATTTATAAAATTACAGAAATACCCCT
*
31223179 GATTTATAAAATTATAGAAATACCCCT
1 GATTTATAAAATTACAGAAATACCCCT
* * *
31223206 GATTTACAAAATTATAGAAATACCCTT
1 GATTTATAAAATTACAGAAATACCCCT
31223233 GACTTTCA-AAAATTACAGAAATACC
1 GA-TTT-ATAAAATTACAGAAATACC
31223258 ATTGGTTTGC
Statistics
Matches: 94, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
26 2 0.02
27 72 0.77
28 19 0.20
29 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (27 bp):
GATTTATAAAATTACAGAAATACCCCT
Found at i:31223281 original size:28 final size:27
Alignment explanation
Indices: 31223250--31223302 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
31223240 AAAAATTACA
31223250 GAAATA-CCATTGGTTTGCAGAATTTAAC
1 GAAATATCC-TTGGTTTGCAG-ATTTAAC
*
31223278 GAAATATCCTTGGTTTGTAGATTTA
1 GAAATATCCTTGGTTTGCAGATTTA
31223303 TCAAAACACC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 5 0.22
28 16 0.70
29 2 0.09
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (27 bp):
GAAATATCCTTGGTTTGCAGATTTAAC
Found at i:31225169 original size:15 final size:16
Alignment explanation
Indices: 31225149--31225180 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
31225139 ATTATATGAA
31225149 TAATTATG-TTTTATT
1 TAATTATGTTTTTATT
31225164 TAATTATGTTTTTATT
1 TAATTATGTTTTTATT
31225180 T
1 T
31225181 CTTTGTAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (16 bp):
TAATTATGTTTTTATT
Found at i:31225408 original size:22 final size:21
Alignment explanation
Indices: 31225365--31225410 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 21
31225355 GGCACACATG
31225365 CATGTAAGCATGGCATTAATA
1 CATGTAAGCATGGCATTAATA
31225386 CATGTACATGCATGGC-TTAATA
1 CATGTA-A-GCATGGCATTAATA
31225408 CAT
1 CAT
31225411 CGTATGGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.26
22 10 0.43
23 7 0.30
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
CATGTAAGCATGGCATTAATA
Found at i:31227543 original size:6 final size:6
Alignment explanation
Indices: 31227518--31227592 Score: 51
Period size: 6 Copynumber: 11.8 Consensus size: 6
31227508 AGTGTGAAAG
** * **
31227518 AAAGTAA AAAGAGA ATAAGAA AAAGAA AAATGAA ATTGAA AAGGAA AGTGAA
1 AAAG-AA AAAGA-A A-AAGAA AAAGAA AAA-GAA AAAGAA AAAGAA AAAGAA
* *
31227570 AAAGAA AAAGAG AAGGAA AAAGA
1 AAAGAA AAAGAA AAAGAA AAAGA
31227593 GATCGAAATC
Statistics
Matches: 53, Mismatches: 12, Indels: 7
0.74 0.17 0.10
Matches are distributed among these distances:
6 37 0.70
7 12 0.23
8 4 0.08
ACGTcount: A:0.69, C:0.00, G:0.23, T:0.08
Consensus pattern (6 bp):
AAAGAA
Found at i:31229823 original size:29 final size:29
Alignment explanation
Indices: 31229764--31229896 Score: 146
Period size: 29 Copynumber: 4.7 Consensus size: 29
31229754 CTGACTGATT
* * *
31229764 TCGCACACATAGCG-CTCGATTATAGAAC
1 TCGCACACATAGTGCCTCAATTAAAGAAC
31229792 TCGCACACATAGTGCCTCAATTAAAGAAC
1 TCGCACACATAGTGCCTCAATTAAAGAAC
* *
31229821 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTGCCTCAATTA-AAGAAC
* * *
31229850 TCGCACACATAGCG-CTCGATTGAAGAAC
1 TCGCACACATAGTGCCTCAATTAAAGAAC
* *
31229878 TTGCACACACAGTGCCTCA
1 TCGCACACATAGTGCCTCA
31229897 TAATTCCAGC
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
27 1 0.01
28 32 0.37
29 53 0.61
30 1 0.01
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (29 bp):
TCGCACACATAGTGCCTCAATTAAAGAAC
Found at i:31229828 original size:57 final size:57
Alignment explanation
Indices: 31229764--31229896 Score: 144
Period size: 57 Copynumber: 2.3 Consensus size: 57
31229754 CTGACTGATT
* * *
31229764 TCGCACACATAGCG-CTCGATTA-TAGAACTCGCACACATAGTGCCTCAATTAAAGAAC
1 TCGCACACATAGCGCCTCAATTACCA-AACTCGCACACATAGCG-CTCAATTAAAGAAC
* * * *
31229821 TCGCACACATAGTGCCTCAATTACCAATCTCGCACACATAGCGCTCGATTGAAGAAC
1 TCGCACACATAGCGCCTCAATTACCAAACTCGCACACATAGCGCTCAATTAAAGAAC
* * *
31229878 TTGCACACACAGTGCCTCA
1 TCGCACACATAGCGCCTCA
31229897 TAATTCCAGC
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
57 42 0.65
58 22 0.34
59 1 0.02
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (57 bp):
TCGCACACATAGCGCCTCAATTACCAAACTCGCACACATAGCGCTCAATTAAAGAAC
Found at i:31229968 original size:40 final size:40
Alignment explanation
Indices: 31229904--31230063 Score: 180
Period size: 40 Copynumber: 3.9 Consensus size: 40
31229894 TCATAATTCC
*
31229904 AGCACGAATGC-CTTCGAGG-TTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCG-GGACTTAGCCCGGATATATCACT
* *
31229943 AGCACGAACGCTCTTCGGGACTTAGCCCAGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
* * * *
31229983 AGCACGAATGCTCGTCGGGACTTAGCCTAGCCCGGACATAACACC
1 AGCACGAATGCTCTTCGGGAC-T----TAGCCCGGATATATCACT
*
31230028 AGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
31230064 AACTCTCAAT
Statistics
Matches: 101, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
39 12 0.12
40 53 0.52
41 1 0.01
44 1 0.01
45 34 0.34
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
Found at i:31231127 original size:37 final size:37
Alignment explanation
Indices: 31231027--31231129 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
31231017 CGAATAGTCC
* *
31231027 CCACACGTAGTTATCGGGTCTTACCCAGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* * *
31231064 CCGCATGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
31231101 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
31231130 ATATATTTCC
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:31231355 original size:48 final size:48
Alignment explanation
Indices: 31231301--31231465 Score: 312
Period size: 48 Copynumber: 3.4 Consensus size: 48
31231291 GCCGAATCAC
*
31231301 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCGCAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
31231349 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAG
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
31231397 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
31231445 TAGCCATTCGGCTTTACCACA
1 TAGCCATTCGGCTTTACCACA
31231466 CACATATATA
Statistics
Matches: 114, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 114 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
Found at i:31235630 original size:27 final size:27
Alignment explanation
Indices: 31235600--31235919 Score: 269
Period size: 27 Copynumber: 11.9 Consensus size: 27
31235590 AAGACCCCAG
*
31235600 GTTGTAAAATTATCAAAATACCCTCGA
1 GTTGTAAAATTATCGAAATACCCTCGA
* *
31235627 GTTGTAAAATTA-CTGAAAAACCCCCGA
1 GTTGTAAAATTATC-GAAATACCCTCGA
* * * * *
31235654 TTTATGAAATTATCAAAATACCCCCGA
1 GTTGTAAAATTATCGAAATACCCTCGA
* *
31235681 TTTGTAAAATTATCGAAATATCCCTAG-
1 GTTGTAAAATTATCGAAATA-CCCTCGA
* *
31235708 GTTGTAAAATTATCAAAATACCCTCGG
1 GTTGTAAAATTATCGAAATACCCTCGA
*
31235735 GTTGTAAAATTATTGAAATACCC-CTGA
1 GTTGTAAAATTATCGAAATACCCTC-GA
* * * *
31235762 TTTTTAAAATTACCGAAATACCCCCGA
1 GTTGTAAAATTATCGAAATACCCTCGA
* *
31235789 TTTGTAAAATTATCGAAATACCC-CTA
1 GTTGTAAAATTATCGAAATACCCTCGA
*
31235815 GTTTGTAAAATTACCGAAATACCCTCTG-
1 G-TTGTAAAATTATCGAAATACCCTC-GA
* * * * *
31235843 TTTGTAAAATTACCAAAACACCC-CTA
1 GTTGTAAAATTATCGAAATACCCTCGA
*
31235869 GTTTGTAAAATTA-CTGAAATACCCTTGTA
1 G-TTGTAAAATTATC-GAAATACCCTCG-A
*
31235898 G-TGTAAAATTACCGAAATACCC
1 GTTGTAAAATTATCGAAATACCC
31235920 CTGTAGGGTA
Statistics
Matches: 240, Mismatches: 38, Indels: 30
0.78 0.12 0.10
Matches are distributed among these distances:
26 11 0.05
27 219 0.91
28 8 0.03
29 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (27 bp):
GTTGTAAAATTATCGAAATACCCTCGA
Found at i:31235787 original size:108 final size:108
Alignment explanation
Indices: 31235593--31235921 Score: 414
Period size: 108 Copynumber: 3.1 Consensus size: 108
31235583 GGTCGTTAAG
* *
31235593 ACCCC-AGGTTGTAAAATTATCAAAATACCCTCGAGTTGTAAAATTACTGAAAAACCCCCGATTT
1 ACCCCTAGGTTGTAAAATTATCAAAATACCCTCGGGTTGTAAAATTACTGAAAAACCCCTGATTT
* * *
31235657 ATGAAATTATCAAAATACCCCCGATTTGTAAAATTATCGAAAT
66 ATAAAATTACCGAAATACCCCCGATTTGTAAAATTATCGAAAT
* * *
31235700 ATCCCTAGGTTGTAAAATTATCAAAATACCCTCGGGTTGTAAAATTATTGAAATACCCCTGATTT
1 ACCCCTAGGTTGTAAAATTATCAAAATACCCTCGGGTTGTAAAATTACTGAAAAACCCCTGATTT
*
31235765 TTAAAATTACCGAAATACCCCCGATTTGTAAAATTATCGAAAT
66 ATAAAATTACCGAAATACCCCCGATTTGTAAAATTATCGAAAT
* * * * * *
31235808 ACCCCTAGTTTGTAAAATTACCGAAATACCCTCTGTTTGTAAAATTAC-CAAAACACCCCT-AGT
1 ACCCCTAGGTTGTAAAATTATCAAAATACCCTCGGGTTGTAAAATTACTGAAAA-ACCCCTGA-T
* * ** * *
31235871 TTGTAAAATTACTGAAATACCCTTG-TAGTGTAAAATTACCGAAAT
64 TTATAAAATTACCGAAATACCCCCGAT-TTGTAAAATTATCGAAAT
31235916 ACCCCT
1 ACCCCT
31235922 GTAGGGTAAA
Statistics
Matches: 194, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
107 9 0.05
108 185 0.95
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (108 bp):
ACCCCTAGGTTGTAAAATTATCAAAATACCCTCGGGTTGTAAAATTACTGAAAAACCCCTGATTT
ATAAAATTACCGAAATACCCCCGATTTGTAAAATTATCGAAAT
Found at i:31235847 original size:54 final size:55
Alignment explanation
Indices: 31235593--31235921 Score: 311
Period size: 54 Copynumber: 6.1 Consensus size: 55
31235583 GGTCGTTAAG
* * * *
31235593 ACCCC-AGGTTGTAAAATTATCAAAATACCCT-CGAGTTGTAAAATTA-CTGAAAA
1 ACCCCTAGTTTGTAAAATTACCAAAATACCCTCCGATTTGTAAAATTATC-GAAAT
* * * *
31235646 ACCCC-CGATTTATGAAATTATCAAAATACCC-CCGATTTGTAAAATTATCGAAAT
1 ACCCCTAG-TTTGTAAAATTACCAAAATACCCTCCGATTTGTAAAATTATCGAAAT
* * * ** *
31235700 ATCCCTAGGTTGTAAAATTATCAAAATACCCT-CGGGTTGTAAAATTATTGAAAT
1 ACCCCTAGTTTGTAAAATTACCAAAATACCCTCCGATTTGTAAAATTATCGAAAT
* *
31235754 ACCCCT-GATTTTTAAAATTACCGAAATACCC-CCGATTTGTAAAATTATCGAAAT
1 ACCCCTAG-TTTGTAAAATTACCAAAATACCCTCCGATTTGTAAAATTATCGAAAT
* * * * *
31235808 ACCCCTAGTTTGTAAAATTACCGAAATACCCTCTG-TTTGTAAAATTACCAAAAC
1 ACCCCTAGTTTGTAAAATTACCAAAATACCCTCCGATTTGTAAAATTATCGAAAT
** * * *
31235862 ACCCCTAGTTTGTAAAATTACTGAAATACCCT-TG-TAGTGTAAAATTACCGAAAT
1 ACCCCTAGTTTGTAAAATTACCAAAATACCCTCCGAT-TTGTAAAATTATCGAAAT
31235916 ACCCCT
1 ACCCCT
31235922 GTAGGGTAAA
Statistics
Matches: 235, Mismatches: 31, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
53 10 0.04
54 220 0.94
55 5 0.02
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (55 bp):
ACCCCTAGTTTGTAAAATTACCAAAATACCCTCCGATTTGTAAAATTATCGAAAT
Found at i:31238596 original size:70 final size:70
Alignment explanation
Indices: 31238520--31238657 Score: 231
Period size: 70 Copynumber: 2.0 Consensus size: 70
31238510 TGCGTTTTTG
*
31238520 GGTTAAAATCGAGGCGACCATTTGGTATGCACTTTTCATCTTTCTCTCTTCTTTGTCCACTCCTC
1 GGTTAAAATCGAGGCGACCATTCGGTATGCACTTTTCATCTTTCTCTCTTCTTTGTCCACTCCTC
31238585 TCTTA
66 TCTTA
* * * *
31238590 GGTTAAAATTGAGGCGGCCATTCGGTATGCACTTTTCATCTTTCTCTCTTCTTTGTCCCCTCTTC
1 GGTTAAAATCGAGGCGACCATTCGGTATGCACTTTTCATCTTTCTCTCTTCTTTGTCCACTCCTC
31238655 TCT
66 TCT
31238658 GGAGCTAAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 63 1.00
ACGTcount: A:0.15, C:0.28, G:0.15, T:0.42
Consensus pattern (70 bp):
GGTTAAAATCGAGGCGACCATTCGGTATGCACTTTTCATCTTTCTCTCTTCTTTGTCCACTCCTC
TCTTA
Found at i:31239862 original size:27 final size:27
Alignment explanation
Indices: 31239824--31240143 Score: 177
Period size: 27 Copynumber: 11.9 Consensus size: 27
31239814 AAGACCTCGG
*
31239824 GTTGTAAAATTACCGAAATTCCCCTTA
1 GTTGTAAAATTACCGAAATTACCCTTA
* * *
31239851 GTTGTAAAATTACTGAAA-TACCATTGG
1 GTTGTAAAATTACCGAAATTACCCTT-A
* *
31239878 GTTGTAAAATTATCGAAA-TACCCTCGA
1 GTTGTAAAATTACCGAAATTACCCT-TA
* * *
31239905 GTTATAAAATTACTGAAA-TATCCCTAA
1 GTTGTAAAATTACCGAAATTA-CCCTTA
* *
31239932 TTTGTGAAATTACCGAAA-TATCCC-TA
1 GTTGTAAAATTACCGAAATTA-CCCTTA
* *
31239958 GTTTGTAAAATTACC-AAAATACCCCTA
1 G-TTGTAAAATTACCGAAATTACCCTTA
* * **
31239985 GGTTGTAAAATTA-CTAAAATACCCTCGG
1 -GTTGTAAAATTACCGAAATTACCCT-TA
* *
31240013 GTTGTAAAATTACTGAAA-TATCCC-CA
1 GTTGTAAAATTACCGAAATTA-CCCTTA
**
31240039 GTTTGTAAAATTATTGAAA-TACCCTCT-
1 G-TTGTAAAATTACCGAAATTACCCT-TA
31240066 GTTTGTAAAATTACCGAAA-TACCCTCT-
1 G-TTGTAAAATTACCGAAATTACCCT-TA
* *
31240093 GTTTGGAAAATTATCGAAA-TACCCTTA
1 G-TTGTAAAATTACCGAAATTACCCTTA
*
31240120 -TAGTGTAAAATTACC-AAAATACCC
1 GT--TGTAAAATTACCGAAATTACCC
31240144 CTGTAGGGTA
Statistics
Matches: 240, Mismatches: 35, Indels: 36
0.77 0.11 0.12
Matches are distributed among these distances:
25 1 0.00
26 21 0.09
27 207 0.86
28 11 0.05
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (27 bp):
GTTGTAAAATTACCGAAATTACCCTTA
Found at i:31239913 original size:54 final size:53
Alignment explanation
Indices: 31239823--31240143 Score: 267
Period size: 54 Copynumber: 6.0 Consensus size: 53
31239813 TAAGACCTCG
* * * * *
31239823 GGTTGTAAAATTACCGAAATTCCC-CTTAGTTGTAAAATTACTGAAATACCATTG
1 GGTTGTAAAATTATCGAAATACCCTC-GAGTTGTAAAATTACTGAAATACC-CTA
*
31239877 GGTTGTAAAATTATCGAAATACCCTCGAGTTATAAAATTACTGAAATATCCCTA
1 GGTTGTAAAATTATCGAAATACCCTCGAGTTGTAAAATTACTGAAATA-CCCTA
** * * **
31239931 ATTTGTGAAATTACCGAAATATCCCT--AGTTTGTAAAATTACCAAAATACCCCTA
1 GGTTGTAAAATTATCGAAATA-CCCTCGAG-TTGTAAAATTACTGAAATA-CCCTA
* * *
31239985 GGTTGTAAAATTA-CTAAAATACCCTCGGGTTGTAAAATTACTGAAATATCCCCA
1 GGTTGTAAAATTATC-GAAATACCCTCGAGTTGTAAAATTACTGAAATA-CCCTA
* * * * *
31240039 GTTTGTAAAATTATTGAAATACCCTCTG-TTTGTAAAATTACCGAAATACCCTCT
1 GGTTGTAAAATTATCGAAATACCCTC-GAGTTGTAAAATTACTGAAATACCCT-A
* * ** **
31240093 GTTTGGAAAATTATCGAAATACCCTTATAG-TGTAAAATTACCAAAATACCC
1 GGTTGTAAAATTATCGAAATACCC-TCGAGTTGTAAAATTACTGAAATACCC
31240144 CTGTAGGGTA
Statistics
Matches: 219, Mismatches: 36, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
53 10 0.05
54 199 0.91
55 10 0.05
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.32
Consensus pattern (53 bp):
GGTTGTAAAATTATCGAAATACCCTCGAGTTGTAAAATTACTGAAATACCCTA
Found at i:31240091 original size:81 final size:81
Alignment explanation
Indices: 31239818--31240143 Score: 292
Period size: 81 Copynumber: 4.0 Consensus size: 81
31239808 GTCGTTAAGA
* * * * *
31239818 CCTCGGGTTGTAAAATTACCGAAATTCCC-CTTAGTTGTAAAATTACTGAAATA-CCATTGGGTT
1 CCTCTGGTTGTAAAATTACCGAAATACCCTC-TAGTTGTAAAATTACTGAAATATCC-CTAGTTT
31239881 GTAAAATTATCGAAATAC
64 GTAAAATTATCGAAATAC
* * * * * *
31239899 CCTC-GAGTTATAAAATTACTGAAATATCCCT-AATTTGTGAAATTACCGAAATATCCCTAGTTT
1 CCTCTG-GTTGTAAAATTACCGAAATA-CCCTCTAGTTGTAAAATTACTGAAATATCCCTAGTTT
* *
31239962 GTAAAATTACCAAAATAC
64 GTAAAATTATCGAAATAC
** ** *
31239980 CC-CTAGGTTGTAAAATTACTAAAATACCCTCGGGTTGTAAAATTACTGAAATATCCCCAGTTTG
1 CCTCT-GGTTGTAAAATTACCGAAATACCCTCTAGTTGTAAAATTACTGAAATATCCCTAGTTTG
*
31240044 TAAAATTATTGAAATAC
65 TAAAATTATCGAAATAC
* *
31240061 CCTCTGTTTGTAAAATTACCGAAATACCCTCT-GTTTGGAAAATTA-TCGAAATA-CCCTTA-TA
1 CCTCTGGTTGTAAAATTACCGAAATACCCTCTAG-TTGTAAAATTACT-GAAATATCCC-TAGT-
* * *
31240122 GTGTAAAATTACCAAAATAC
62 TTGTAAAATTATCGAAATAC
31240142 CC
1 CC
31240144 CTGTAGGGTA
Statistics
Matches: 200, Mismatches: 33, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
80 12 0.06
81 180 0.90
82 8 0.04
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.32
Consensus pattern (81 bp):
CCTCTGGTTGTAAAATTACCGAAATACCCTCTAGTTGTAAAATTACTGAAATATCCCTAGTTTGT
AAAATTATCGAAATAC
Found at i:31243997 original size:27 final size:27
Alignment explanation
Indices: 31243959--31244227 Score: 200
Period size: 27 Copynumber: 10.0 Consensus size: 27
31243949 GTTAAGACTG
31243959 TAGGTTGTAAAATTATCTAAATACCCC
1 TAGGTTGTAAAATTATCTAAATACCCC
* *
31243986 TAGGTTGTAAAATTATCGAAATA-CCA
1 TAGGTTGTAAAATTATCTAAATACCCC
*
31244012 TCAGGTTGTAAAA-TGTCTGAAATA-CCC
1 T-AGGTTGTAAAATTATCT-AAATACCCC
* * * * *
31244039 TCGATTTGTGAAATTACCGAAATACCCC
1 TAG-GTTGTAAAATTATCTAAATACCCC
* * * * *
31244067 CAGTTTATAAAATTATCGAAATACCCT
1 TAGGTTGTAAAATTATCTAAATACCCC
*
31244094 TAGGTTGTATAATTAT-TGAAATACCCC
1 TAGGTTGTAAAATTATCT-AAATACCCC
*
31244121 TAGGTTGTAAAATTA-CTGAAATA-CAC
1 TAGGTTGTAAAATTATCT-AAATACCCC
*
31244147 TCGGTTTGTAAAATTA-CTAATATA-CCC
1 TAGG-TTGTAAAATTATCTAA-ATACCCC
* *
31244174 TCAGTTTGTAAAATCATC-AAACTACCCC
1 T-AGGTTGTAAAATTATCTAAA-TACCCC
31244202 T-GGTTTGTAAAATTA-CTGAAATACCC
1 TAGG-TTGTAAAATTATCT-AAATACCC
31244228 TTGTAGTGTA
Statistics
Matches: 194, Mismatches: 32, Indels: 32
0.75 0.12 0.12
Matches are distributed among these distances:
26 17 0.09
27 162 0.84
28 15 0.08
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.32
Consensus pattern (27 bp):
TAGGTTGTAAAATTATCTAAATACCCC
Found at i:31244207 original size:54 final size:53
Alignment explanation
Indices: 31243960--31244228 Score: 226
Period size: 54 Copynumber: 5.0 Consensus size: 53
31243950 TTAAGACTGT
* *
31243960 AGGTTGTAAAATTATCTAAATACCCCTAGG-TTGTAAAATTATCGAAATACCATC
1 AGGTTGTAAAATTATC-AAATACCCCTAGGTTTGTAAAATTA-CTAAATACCCTC
* * * * * * *
31244014 AGGTTGTAAAATGTCTGAAATA-CCCTCGATTTGTGAAATTACCGAAATACCCCC
1 AGGTTGTAAAAT-TATCAAATACCCCTAGGTTTGTAAAATTA-CTAAATACCCTC
* * * * *
31244068 AGTTTATAAAATTATCGAAATACCCTTAGG-TTGTATAATTATTGAAATACCC-C
1 AGGTTGTAAAATTATC-AAATACCCCTAGGTTTGTAAAATTACT-AAATACCCTC
* * *
31244121 TAGGTTGTAAAATTACTGAAATA-CACTCGGTTTGTAAAATTACTAATATACCCTC
1 -AGGTTGTAAAATTA-TCAAATACCCCTAGGTTTGTAAAATTACTAA-ATACCCTC
* *
31244176 AGTTTGTAAAATCATCAAACTACCCCT-GGTTTGTAAAATTACTGAAATACCCT
1 AGGTTGTAAAATTATCAAA-TACCCCTAGGTTTGTAAAATTACT-AAATACCCT
31244229 TGTAGTGTAA
Statistics
Matches: 171, Mismatches: 31, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
53 18 0.11
54 140 0.82
55 13 0.08
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.32
Consensus pattern (53 bp):
AGGTTGTAAAATTATCAAATACCCCTAGGTTTGTAAAATTACTAAATACCCTC
Found at i:31244253 original size:81 final size:80
Alignment explanation
Indices: 31243959--31244254 Score: 273
Period size: 81 Copynumber: 3.7 Consensus size: 80
31243949 GTTAAGACTG
* * *
31243959 TAGG-TTGTAAAATTATCT-AAATACCCCTAGGTTGTAAAATTATCGAAATACCATCAGGTTGTA
1 TAGGTTTGTAAAATTA-CTGAAATA-CCCTAGTTTGTAAAATTATAGAAATACCCTCAGGTTGTA
31244022 AAATGTC-TGAAATA-CCC
64 AAA--TCATGAAATACCCC
* * * * * * * * *
31244039 TCGATTTGTGAAATTACCGAAATACCCCCAGTTTATAAAATTATCGAAATACCCTTAGGTTGTAT
1 TAGGTTTGTAAAATTACTGAAATA-CCCTAGTTTGTAAAATTATAGAAATACCCTCAGGTTGTAA
*
31244104 AATTATTGAAATACCCC
65 AATCA-TGAAATACCCC
* * * *
31244121 TAGG-TTGTAAAATTACTGAAATACACTCGGTTTGTAAAATTACTA-ATATACCCTCAGTTTGTA
1 TAGGTTTGTAAAATTACTGAAATACCCT-AGTTTGTAAAATTA-TAGAAATACCCTCAGGTTGTA
*
31244184 AAATCATCAAACTACCCC
64 AAATCATGAAA-TACCCC
* *
31244202 T-GGTTTGTAAAATTACTGAAATACCCTTGTAGTGTAAAATTATAGAAATACCC
1 TAGGTTTGTAAAATTACTGAAATACCCTAGT-TTGTAAAATTATAGAAATACCC
31244255 CTGTAGGGTA
Statistics
Matches: 175, Mismatches: 30, Indels: 21
0.77 0.13 0.09
Matches are distributed among these distances:
79 1 0.01
80 15 0.09
81 153 0.87
82 6 0.03
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (80 bp):
TAGGTTTGTAAAATTACTGAAATACCCTAGTTTGTAAAATTATAGAAATACCCTCAGGTTGTAAA
ATCATGAAATACCCC
Found at i:31244259 original size:27 final size:27
Alignment explanation
Indices: 31244074--31244268 Score: 106
Period size: 27 Copynumber: 7.2 Consensus size: 27
31244064 CCCCAGTTTA
31244074 TAAAATTA-TCGAAATA-CCCT-TAGGTTG
1 TAAAATTACT-GAAATACCCCTGTA-G-TG
* *
31244101 TATAATTATTGAAATACCCC--TAGGTTG
1 TAAAATTACTGAAATACCCCTGTA-G-TG
* * *
31244128 TAAAATTACTGAAATACACTCGGT-TTG
1 TAAAATTACTGAAATAC-CCCTGTAGTG
* *
31244155 TAAAATTACT-AATATACCCTCAGT-TTG
1 TAAAATTACTGAA-ATACCC-CTGTAGTG
* * *
31244182 TAAAATCA-TCAAACTACCCCTGGT-TTG
1 TAAAATTACTGAAA-TACCCCT-GTAGTG
*
31244209 TAAAATTACTGAAATACCCTTGTAGTG
1 TAAAATTACTGAAATACCCCTGTAGTG
*
31244236 TAAAATTA-TAGAAATACCCCTGTAGGG
1 TAAAATTACT-GAAATACCCCTGTAGTG
31244263 TAAAAT
1 TAAAAT
31244269 GACCGTTTTT
Statistics
Matches: 140, Mismatches: 15, Indels: 26
0.77 0.08 0.14
Matches are distributed among these distances:
26 9 0.06
27 120 0.86
28 10 0.07
30 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.33
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCCTGTAGTG
Found at i:31247883 original size:29 final size:29
Alignment explanation
Indices: 31247841--31247898 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
31247831 TTTTACGAAA
31247841 AAAAAGATTAATGTATTATCTGGAAGGAT
1 AAAAAGATTAATGTATTATCTGGAAGGAT
31247870 AAAAAGATTAATGTATTATCTGGAAGGAT
1 AAAAAGATTAATGTATTATCTGGAAGGAT
31247899 TTTAAGTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AAAAAGATTAATGTATTATCTGGAAGGAT
Found at i:31253666 original size:27 final size:27
Alignment explanation
Indices: 31253604--31253681 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
31253594 GGGCATATTC
31253604 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
31253631 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
31253658 GTCTTTTTACC-TATTAGGGGTATT
1 GTCATTTTACCATA-CAGGGGTATT
31253682 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.07
27 39 0.91
28 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:31253752 original size:27 final size:27
Alignment explanation
Indices: 31253722--31253829 Score: 94
Period size: 27 Copynumber: 3.9 Consensus size: 27
31253712 GTAAATCTAC
31253722 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
31253749 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* * *
31253775 AGAAAGTCAATGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
31253805 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
31253830 ACAAATTGAG
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
26 1 0.01
27 40 0.59
28 7 0.10
29 19 0.28
30 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:31253835 original size:27 final size:26
Alignment explanation
Indices: 31253786--31253914 Score: 98
Period size: 27 Copynumber: 4.8 Consensus size: 26
31253776 GAAAGTCAAT
**
31253786 GGTATTTCT-GTAATTTTGTAAATCAGG
1 GGTATTT-TGGTAATTTTACAAAT-AGG
*
31253813 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTTGGTAATTTTACAAATAG-G
* * * *
31253840 GATATTTTGGTAATTTTATAACTTAAG
1 GGTATTTTGGTAATTTTACAA-ATAGG
* **
31253867 GGTATTTTGGTAATTCTATCCTATAGG
1 GGTATTTTGGTAATTTTA-CAAATAGG
* *
31253894 GGTATTTTAGTAATTTCACAA
1 GGTATTTTGGTAATTTTACAA
31253915 TCGAGGGTAA
Statistics
Matches: 78, Mismatches: 20, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
26 3 0.04
27 74 0.95
28 1 0.01
ACGTcount: A:0.29, C:0.07, G:0.19, T:0.45
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAATAGG
Found at i:31254031 original size:27 final size:27
Alignment explanation
Indices: 31253913--31254029 Score: 175
Period size: 27 Copynumber: 4.4 Consensus size: 27
31253903 GTAATTTCAC
*
31253913 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
31253940 AA-CTGAGGGTAAAATGGTAATTCTATA
1 AATC-GAGGGTAAAATGGTAATTCTGTA
*
31253967 AATTGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
31253994 AATCGAGGTTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
31254021 AATCG-GGGT
1 AATCGAGGGT
31254030 TACTTTGATA
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
26 4 0.05
27 77 0.95
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.32
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:31255993 original size:23 final size:23
Alignment explanation
Indices: 31255966--31256018 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
31255956 TATCAACAAT
31255966 TATTTTGGTACCAATGAATTCAA
1 TATTTTGGTACCAATGAATTCAA
31255989 TATTTTGGTACCAATGAATTCAA
1 TATTTTGGTACCAATGAATTCAA
31256012 TATTTTG
1 TATTTTG
31256019 AGTTATTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.43
Consensus pattern (23 bp):
TATTTTGGTACCAATGAATTCAA
Found at i:31267188 original size:40 final size:40
Alignment explanation
Indices: 31267110--31267318 Score: 201
Period size: 40 Copynumber: 5.2 Consensus size: 40
31267100 AGGCTAACTC
* * * *
31267110 CCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGAT
1 CCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAGAT
* * *
31267151 CCGAAGGCATTCGTGCGAGTTG-CTATATCCGGGCTAAGA-
1 CCGAAGGCATTTGTGCTAG-CGACTATATCCGGGCTAAGAT
* * * *
31267190 CTCGAAGGCATTTGTGTTAGCGATTATATCCGGGCTAAAAC
1 C-CGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGAT
*
31267231 CCGAAGGCATTTGTGCTAGCGACTATATCCGGGTTAAG-T
1 CCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGAT
* * * *
31267270 CCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGA-
1 -CCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGAT
31267310 CTCGAAGGC
1 C-CGAAGGC
31267319 CTTGTGCAAG
Statistics
Matches: 140, Mismatches: 21, Indels: 15
0.80 0.12 0.09
Matches are distributed among these distances:
39 3 0.02
40 119 0.85
41 18 0.13
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGAT
Found at i:31267309 original size:120 final size:121
Alignment explanation
Indices: 31267094--31267318 Score: 294
Period size: 120 Copynumber: 1.9 Consensus size: 121
31267084 TATTCGAATG
** * *
31267094 ATATCCAGGCTAACTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCAGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * *
31267159 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACTCGAAGGCATTTGTGTTAGCGATT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACTCGAAGGCATTTGTGTTAGCGATT
* * **
31267215 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGTTAAG-TCCCGAAGG
1 ATATCCAGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* *
31267278 CATTTATGCTAG-TGACCACATCCGGGCTAAGACTCGAAGGC
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACTCGAAGGC
31267319 CTTGTGCAAG
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
119 3 0.03
120 56 0.63
121 30 0.34
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (121 bp):
ATATCCAGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACTCGAAGGCATTTGTGTTAGCGATT
Found at i:31282605 original size:46 final size:46
Alignment explanation
Indices: 31282555--31282727 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
31282545 TGGTTGAGCA
*
31282555 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
31282601 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
31282648 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
31282694 CCCGAGCTGGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
31282728 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 61 0.58
47 29 0.28
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:31282711 original size:93 final size:93
Alignment explanation
Indices: 31282552--31282722 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
31282542 GGATGGTTGA
* *
31282552 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
31282617 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
31282645 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTGGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
31282710 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
31282723 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:31292815 original size:24 final size:24
Alignment explanation
Indices: 31292761--31292808 Score: 78
Period size: 26 Copynumber: 1.9 Consensus size: 24
31292751 TAGACCCAGT
31292761 GTCAATTAATGCATATATAGAACA
1 GTCAATTAATGCATATATAGAACA
31292785 GGGTCAATTAATGCATATATAGAA
1 --GTCAATTAATGCATATATAGAA
31292809 TCATCAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (24 bp):
GTCAATTAATGCATATATAGAACA
Found at i:31295698 original size:20 final size:20
Alignment explanation
Indices: 31295675--31295719 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
31295665 ACCTATTAAG
*
31295675 GTTAACTGAAACTCATATGA
1 GTTAACTGAAACCCATATGA
* *
31295695 GTTAACTGAAGCCCATGTGA
1 GTTAACTGAAACCCATATGA
31295715 GTTAA
1 GTTAA
31295720 ACGAAAAGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (20 bp):
GTTAACTGAAACCCATATGA
Found at i:31308005 original size:29 final size:30
Alignment explanation
Indices: 31307952--31308019 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
31307942 TCTTTGTAAA
31307952 TTTAGAATTTAGTCCCTATACTTTT-AT-T
1 TTTAGAATTTAGTCCCTATACTTTTCATAT
* * *
31307980 TTTAGGAATTTAGTCTCTCTATTTTTCATAT
1 TTTA-GAATTTAGTCCCTATACTTTTCATAT
31308011 TTTA-AATTT
1 TTTAGAATTT
31308020 TAGATCTAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 4 0.12
29 23 0.68
30 2 0.06
31 5 0.15
ACGTcount: A:0.25, C:0.12, G:0.07, T:0.56
Consensus pattern (30 bp):
TTTAGAATTTAGTCCCTATACTTTTCATAT
Found at i:31308290 original size:29 final size:29
Alignment explanation
Indices: 31308233--31308289 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
31308223 TGGTTTAGTA
*
31308233 TGCAATTGTATATATGAATTTTAATTTTG
1 TGCAATTGTATATATAAATTTTAATTTTG
* *
31308262 TGCAATTTTATATATCAAATTTTGATTT
1 TGCAATTGTATATAT-AAATTTTAATTT
31308290 GATCCAACTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.53
Consensus pattern (29 bp):
TGCAATTGTATATATAAATTTTAATTTTG
Found at i:31310799 original size:14 final size:14
Alignment explanation
Indices: 31310780--31310817 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
31310770 GAGAAAAGAG
*
31310780 AGAAAGCAGGAAGT
1 AGAAAGCAGAAAGT
*
31310794 AGAAAGTAGAAAGT
1 AGAAAGCAGAAAGT
31310808 AGAAAG-AGAA
1 AGAAAGCAGAA
31310818 GAGAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.58, C:0.03, G:0.32, T:0.08
Consensus pattern (14 bp):
AGAAAGCAGAAAGT
Found at i:31311804 original size:17 final size:19
Alignment explanation
Indices: 31311762--31311805 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
31311752 ATGAAATTTT
*
31311762 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
31311781 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
31311799 AA-TATTA
1 AATTATTA
31311806 CTATATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:31311915 original size:15 final size:15
Alignment explanation
Indices: 31311897--31311925 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
31311887 ATATTTATAA
31311897 AATTATTATTATTAT
1 AATTATTATTATTAT
31311912 AATTATTATTATTA
1 AATTATTATTATTA
31311926 GATAGGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:31313135 original size:320 final size:320
Alignment explanation
Indices: 31312553--31313198 Score: 1265
Period size: 320 Copynumber: 2.0 Consensus size: 320
31312543 ATTGTAACCA
*
31312553 TATATTAGTAAAGGAGAAAGCATGGTGTAGTGGTCAGTAACTTGAGCGAAGGGGCAAGACAGATG
1 TATATTAGTAAAGGAGAAAGCATGGTGTAGTGGTCAGTAACTCGAGCGAAGGGGCAAGACAGATG
31312618 GAGGTCTGGGGTTTGAGCCTCATCTTGTGCACGCAAGGTTGAGATTTTTGCTGCATGCGTGGGGA
66 GAGGTCTGGGGTTTGAGCCTCATCTTGTGCACGCAAGGTTGAGATTTTTGCTGCATGCGTGGGGA
31312683 AGGAGTTGAGGTCTGATCAGGACTCTTGGCAGCATGCTGAGGCGGTGCCAACGGTGGGCTGATCG
131 AGGAGTTGAGGTCTGATCAGGACTCTTGGCAGCATGCTGAGGCGGTGCCAACGGTGGGCTGATCG
31312748 GTCAAGAGTTTGAATGGAATTCAAACATTGAATGTGACCAAAAATCAAGGAGCAATTCGGGGAAT
196 GTCAAGAGTTTGAATGGAATTCAAACATTGAATGTGACCAAAAATCAAGGAGCAATTCGGGGAAT
31312813 TGGAATTTAAGAAGAATTCCTATGCCGAAATACACTCACGGCCATAGCTAATAAGGGCCG
261 TGGAATTTAAGAAGAATTCCTATGCCGAAATACACTCACGGCCATAGCTAATAAGGGCCG
*
31312873 TATATTAGTAAAGGAGAAAGCATGGTGTAGTGGTCAGTAACTCGAGCGAAGGGGCAAGGCAGATG
1 TATATTAGTAAAGGAGAAAGCATGGTGTAGTGGTCAGTAACTCGAGCGAAGGGGCAAGACAGATG
31312938 GAGGTCTGGGGTTTGAGCCTCATCTTGTGCACGCAAGGTTGAGATTTTTGCTGCATGCGTGGGGA
66 GAGGTCTGGGGTTTGAGCCTCATCTTGTGCACGCAAGGTTGAGATTTTTGCTGCATGCGTGGGGA
31313003 AGGAGTTGAGGTCTGATCAGGACTCTTGGCAGCATGCTGAGGCGGTGCCAACGGTGGGCTGATCG
131 AGGAGTTGAGGTCTGATCAGGACTCTTGGCAGCATGCTGAGGCGGTGCCAACGGTGGGCTGATCG
31313068 GTCAAGAGTTTGAATGGAATTCAAACATTGAATGTGACCAAAAATCAAGGAGCAATTCGGGGAAT
196 GTCAAGAGTTTGAATGGAATTCAAACATTGAATGTGACCAAAAATCAAGGAGCAATTCGGGGAAT
*
31313133 TGGAATTTAGGAAGAATTCCTATGCCGAAATACACTCACGGCCATAGCTAATAAGGGCCG
261 TGGAATTTAAGAAGAATTCCTATGCCGAAATACACTCACGGCCATAGCTAATAAGGGCCG
31313193 TATATT
1 TATATT
31313199 TTGGCCTTTA
Statistics
Matches: 323, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
320 323 1.00
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (320 bp):
TATATTAGTAAAGGAGAAAGCATGGTGTAGTGGTCAGTAACTCGAGCGAAGGGGCAAGACAGATG
GAGGTCTGGGGTTTGAGCCTCATCTTGTGCACGCAAGGTTGAGATTTTTGCTGCATGCGTGGGGA
AGGAGTTGAGGTCTGATCAGGACTCTTGGCAGCATGCTGAGGCGGTGCCAACGGTGGGCTGATCG
GTCAAGAGTTTGAATGGAATTCAAACATTGAATGTGACCAAAAATCAAGGAGCAATTCGGGGAAT
TGGAATTTAAGAAGAATTCCTATGCCGAAATACACTCACGGCCATAGCTAATAAGGGCCG
Found at i:31313240 original size:5 final size:5
Alignment explanation
Indices: 31313220--31313265 Score: 74
Period size: 5 Copynumber: 9.2 Consensus size: 5
31313210 GATTCAGTTT
* *
31313220 TTTTC TTCTA TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
31313266 CCTCTCTTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:31314391 original size:26 final size:27
Alignment explanation
Indices: 31314344--31314406 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 27
31314334 TTTATTAAAC
* *
31314344 TACCCCTAAGTATGAAAATGACCATTT
1 TACCCCTAGGTATGAAAATGACCATTA
* *
31314371 TACCCCTAGGTGT-AAAATGACCGTTA
1 TACCCCTAGGTATGAAAATGACCATTA
31314397 TACCCCTAGG
1 TACCCCTAGG
31314407 GTTAATTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 21 0.66
27 11 0.34
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (27 bp):
TACCCCTAGGTATGAAAATGACCATTA
Found at i:31314802 original size:60 final size:59
Alignment explanation
Indices: 31314720--31314864 Score: 186
Period size: 60 Copynumber: 2.4 Consensus size: 59
31314710 GGGCCCAACT
* * *
31314720 ATATTAATTTGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTA
1 ATATTGATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTA
* *
31314780 ATATTGATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTA
1 ATATTGATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTA
31314840 ATATTGATATGGGCTAAGGCCCAAT
1 ATATTGATATGGGCT-AGGCCCAAT
31314865 TAACACTGAT
Statistics
Matches: 76, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
59 1 0.01
60 58 0.76
61 17 0.22
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (59 bp):
ATATTGATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTA
Found at i:31314862 original size:28 final size:27
Alignment explanation
Indices: 31314762--31314867 Score: 83
Period size: 28 Copynumber: 3.7 Consensus size: 27
31314752 ACTTGTAATA
*
31314762 GGGCTACGGCCCAGATTAATATTGATAT
1 GGGCTAAGGCCCA-ATTAATATTGATAT
31314790 GGGCT-AGGCCCAA-T-ATACTCTGATACTGT
1 GGGCTAAGGCCCAATTAATA-T-TGATA---T
*
31314819 AAGGGGCTATGGCCCAGATTAATATTGATAT
1 ---GGGCTAAGGCCCA-ATTAATATTGATAT
31314850 GGGCTAAGGCCCAATTAA
1 GGGCTAAGGCCCAATTAA
31314868 CACTGATTTC
Statistics
Matches: 63, Mismatches: 3, Indels: 25
0.69 0.03 0.27
Matches are distributed among these distances:
24 3 0.05
25 2 0.03
26 6 0.10
27 11 0.17
28 17 0.27
29 1 0.02
31 1 0.02
32 5 0.08
33 6 0.10
34 6 0.10
35 2 0.03
36 3 0.05
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (27 bp):
GGGCTAAGGCCCAATTAATATTGATAT
Found at i:31316928 original size:17 final size:19
Alignment explanation
Indices: 31316886--31316929 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
31316876 ATGAAATTTT
*
31316886 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
31316905 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
31316923 AA-TATTA
1 AATTATTA
31316930 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:31317036 original size:15 final size:15
Alignment explanation
Indices: 31317018--31317046 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
31317008 ATATTTATAA
31317018 AATTATTATTATTAT
1 AATTATTATTATTAT
31317033 AATTATTATTATTA
1 AATTATTATTATTA
31317047 GATAGGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:31319916 original size:27 final size:27
Alignment explanation
Indices: 31319877--31319989 Score: 86
Period size: 28 Copynumber: 3.9 Consensus size: 27
31319867 ACTTGTAATA
31319877 GGGCTACGGCCCAGATTAATACTGATAT
1 GGGCTACGGCCCA-ATTAATACTGATAT
*
31319905 GGGCTA-GGCCCAATATACTCTGATACTG-TAAG
1 GGGCTACGGCCCAAT-TA-----ATACTGAT-AT
* *
31319937 GGGCTATGGCCCAGATTAATATTGATAT
1 GGGCTACGGCCCA-ATTAATACTGATAT
* *
31319965 GGGCTAAGGCCCAATTAACACTGAT
1 GGGCTACGGCCCAATTAATACTGAT
31319990 TTCTAAATAG
Statistics
Matches: 69, Mismatches: 6, Indels: 21
0.72 0.06 0.22
Matches are distributed among these distances:
26 2 0.03
27 18 0.26
28 24 0.35
29 1 0.01
31 1 0.01
32 13 0.19
33 8 0.12
34 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (27 bp):
GGGCTACGGCCCAATTAATACTGATAT
Found at i:31319917 original size:60 final size:59
Alignment explanation
Indices: 31319844--31319979 Score: 177
Period size: 60 Copynumber: 2.3 Consensus size: 59
31319834 TATATTAATT
*
31319844 TGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTAATACTGATA
1 TGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATACTGATA
* * *
31319904 TGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTGATA
1 TGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTGATA
31319964 TGGGCTAAGGCCCAAT
1 TGGGCT-AGGCCCAAT
31319980 TAACACTGAT
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
59 1 0.01
60 50 0.74
61 17 0.25
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.26
Consensus pattern (59 bp):
TGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTGATA
Found at i:31326078 original size:13 final size:13
Alignment explanation
Indices: 31326060--31326086 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
31326050 ATTTCGGAGT
31326060 TTGTTTCTAAGTG
1 TTGTTTCTAAGTG
31326073 TTGTTTCTAAGTG
1 TTGTTTCTAAGTG
31326086 T
1 T
31326087 CTAGTTTGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.22, T:0.56
Consensus pattern (13 bp):
TTGTTTCTAAGTG
Found at i:31328545 original size:48 final size:46
Alignment explanation
Indices: 31328433--31328553 Score: 143
Period size: 46 Copynumber: 2.6 Consensus size: 46
31328423 TGATATGTGT
* * ** *
31328433 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCATTGAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATCAAGATGAAA
* *
31328479 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATCAAGAT-GA-AA
* *
31328527 GCTAGTGTAAGACCTGTCTGAGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
31328554 GCGTCAGCTT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 37 0.58
47 1 0.02
48 26 0.41
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATCAAGATGAAA
Found at i:31329998 original size:46 final size:46
Alignment explanation
Indices: 31329922--31330131 Score: 228
Period size: 46 Copynumber: 4.5 Consensus size: 46
31329912 GATATTTGGG
* *
31329922 CATCCGAACTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* *
31329968 CATCTGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
** * * * * * *
31330014 TGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-A
* *
31330061 CATCCGAACTCCTTGAGTTGATTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
*
31330107 C-TCCCAAGCTCGTTGAGTTGAGTCC
1 CATCCGAA-CTCGTTGAGTTGAGTCC
31330132 TGTGACACCC
Statistics
Matches: 131, Mismatches: 27, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
45 6 0.05
46 91 0.69
47 33 0.25
48 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.30
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:31332651 original size:47 final size:47
Alignment explanation
Indices: 31332600--31333672 Score: 1923
Period size: 47 Copynumber: 22.7 Consensus size: 47
31332590 TTAGGATTCT
* * * *
31332600 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCTG
*
31332647 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
*
31332694 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCTG
* *
31332743 ATGTGATGAATGTAAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCTG
31332792 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
31332839 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
31332886 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
31332933 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
31332980 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
31333027 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
31333074 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
31333121 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
31333168 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
31333215 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
31333262 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
31333309 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
31333356 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
31333403 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
31333450 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
31333497 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
* *
31333544 GTGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
* * * * **
31333591 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
* * *
31333638 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
31333673 TCCCGAAGGG
Statistics
Matches: 1004, Mismatches: 19, Indels: 6
0.98 0.02 0.01
Matches are distributed among these distances:
46 1 0.00
47 909 0.91
49 94 0.09
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.31
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
Found at i:31333847 original size:37 final size:37
Alignment explanation
Indices: 31333791--31333869 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
31333781 CCGAGCTCTA
* * *
31333791 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
31333828 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
31333865 AAGAC
1 AAGAC
31333870 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:31336722 original size:20 final size:20
Alignment explanation
Indices: 31336671--31336713 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
31336661 GAGATCATAC
31336671 ACACGCCCGTGTGCATTGGG
1 ACACGCCCGTGTGCATTGGG
*
31336691 ACACGCCCGTGTGTATTGGG
1 ACACGCCCGTGTGCATTGGG
31336711 ACA
1 ACA
31336714 TGCCTGTGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.33, T:0.21
Consensus pattern (20 bp):
ACACGCCCGTGTGCATTGGG
Found at i:31341803 original size:48 final size:48
Alignment explanation
Indices: 31341736--31341876 Score: 183
Period size: 48 Copynumber: 2.9 Consensus size: 48
31341726 CACATGGTAG
* * *
31341736 GATGCCAATGCCATATCCCAGATATGGCCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAAACATGGCCTTACATGGGATCACATATC
* * * **
31341784 GATGCCAATGTCATGTCCCAAACATGGCCTTACATGGAATCATAGGTC
1 GATGCCAATGCCATGTCCCAAACATGGCCTTACATGGGATCACATATC
* * *
31341832 AATGCCAATGCCATGTCCCAAACATGGTCTTACATTGGATCACAT
1 GATGCCAATGCCATGTCCCAAACATGGCCTTACATGGGATCACAT
31341877 GCTGGTGCTA
Statistics
Matches: 78, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 78 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAAACATGGCCTTACATGGGATCACATATC
Found at i:31344631 original size:30 final size:30
Alignment explanation
Indices: 31344597--31344657 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
31344587 TCCTTAACTC
31344597 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * * *
31344627 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
31344657 A
1 A
31344658 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:31346146 original size:20 final size:19
Alignment explanation
Indices: 31346121--31346164 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
31346111 CCAGTAAAAT
31346121 ATTTTCCAGAAAATGATTTA
1 ATTTT-CAGAAAATGATTTA
* *
31346141 ATTTTCTGGAAATGATTTA
1 ATTTTCAGAAAATGATTTA
*
31346160 CTTTT
1 ATTTT
31346165 ATGGTGTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (19 bp):
ATTTTCAGAAAATGATTTA
Found at i:31346630 original size:22 final size:22
Alignment explanation
Indices: 31346604--31346692 Score: 99
Period size: 22 Copynumber: 4.0 Consensus size: 22
31346594 GTCCAAGTGC
31346604 ATAACTAATATTACACCACATG
1 ATAACTAATATTACACCACATG
31346626 ATAACTAATATTACACCACATG
1 ATAACTAATATTACACCACATG
* * ** *
31346648 ATAACAACAACATT-GTCCAAATG
1 ATAAC--TAATATTACACCACATG
31346671 CATAACTAATATTACACCACAT
1 -ATAACTAATATTACACCACAT
31346693 TAAAAGCATC
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
22 32 0.60
23 11 0.21
24 10 0.19
ACGTcount: A:0.46, C:0.24, G:0.04, T:0.26
Consensus pattern (22 bp):
ATAACTAATATTACACCACATG
Found at i:31347687 original size:32 final size:32
Alignment explanation
Indices: 31347641--31347701 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
31347631 TGTCAATCAT
31347641 TTCAATATCCAACAAGCTT-AAAGCATAATAAA
1 TTCAATATCCAACAAGCTTGAAA-CATAATAAA
*
31347673 TTCAATATCTAACAAGCTTGAAACATAAT
1 TTCAATATCCAACAAGCTTGAAACATAAT
31347702 CAATATCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
32 24 0.89
33 3 0.11
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTGAAACATAATAAA
Found at i:31357597 original size:39 final size:40
Alignment explanation
Indices: 31357502--31357763 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
31357492 TTGAATGATG
*
31357502 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
31357540 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
31357581 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
31357620 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
31357659 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
31357698 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
31357737 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
31357764 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:31366407 original size:43 final size:43
Alignment explanation
Indices: 31366359--31366446 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
31366349 GATTAACGAG
* *
31366359 ATGTGAATATGTGTCAGACCATGTCTGGAACATTGGCATCATT
1 ATGTGAATATGGGTAAGACCATGTCTGGAACATTGGCATCATT
* * * *
31366402 ATGTGATTATGGGTAAGATCATGTCTGGGACATTGGCATCGTT
1 ATGTGAATATGGGTAAGACCATGTCTGGAACATTGGCATCATT
31366445 AT
1 AT
31366447 TTGATTTCAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (43 bp):
ATGTGAATATGGGTAAGACCATGTCTGGAACATTGGCATCATT
Found at i:31371052 original size:24 final size:23
Alignment explanation
Indices: 31370993--31371094 Score: 107
Period size: 24 Copynumber: 4.1 Consensus size: 23
31370983 CTCACCGCAA
*
31370993 CTCGTATGAGCTTACTGATATATCAG
1 CTCGTA-GAGCTTACTG-T-TCTCAG
*
31371019 CTTGTAAGAGCTTACTGTTCTCAG
1 CTCGT-AGAGCTTACTGTTCTCAG
31371043 CTCGTCAGAGCTTACTGTT-TCCAG
1 CTCGT-AGAGCTTACTGTTCT-CAG
31371067 CTCGATAGAGCTTACTGTTCATCAG
1 CTCG-TAGAGCTTACTGTTC-TCAG
31371092 CTC
1 CTC
31371095 AGAAGGAGCT
Statistics
Matches: 67, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
23 1 0.01
24 42 0.63
25 8 0.12
26 15 0.22
27 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.34
Consensus pattern (23 bp):
CTCGTAGAGCTTACTGTTCTCAG
Found at i:31373152 original size:30 final size:30
Alignment explanation
Indices: 31373116--31373175 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
31373106 TTATCACATA
*
31373116 ACACATTTCTAAACCATTTCATTCATGTAG
1 ACACATTTCTAAACCATTTCATACATGTAG
31373146 ACACATTTCTAAACCATTTCATACATGTAG
1 ACACATTTCTAAACCATTTCATACATGTAG
31373176 TTCATGGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (30 bp):
ACACATTTCTAAACCATTTCATACATGTAG
Found at i:31374178 original size:18 final size:20
Alignment explanation
Indices: 31374141--31374179 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
31374131 TCATTTTCAC
*
31374141 AATTTAGTCCAAAATACTCA
1 AATTTAGTCAAAAATACTCA
31374161 AATTTA-TCAAAAAT-CTCA
1 AATTTAGTCAAAAATACTCA
31374179 A
1 A
31374180 TACAAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 7 0.39
20 6 0.33
ACGTcount: A:0.49, C:0.18, G:0.03, T:0.31
Consensus pattern (20 bp):
AATTTAGTCAAAAATACTCA
Found at i:31379677 original size:44 final size:43
Alignment explanation
Indices: 31379609--31379695 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 43
31379599 AGGAAAAATC
*
31379609 GAGGGCATATTGGTACATATAGACAAATTTATCTTTCCTGCTG
1 GAGGACATATTGGTACATATAGACAAATTTATCTTTCCTGCTG
* *
31379652 NGAGGACATATTGGTACGTGTAGACAAATTTATCTTTCCTGCTG
1 -GAGGACATATTGGTACATATAGACAAATTTATCTTTCCTGCTG
31379696 ACTTTGTGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.34
Consensus pattern (43 bp):
GAGGACATATTGGTACATATAGACAAATTTATCTTTCCTGCTG
Found at i:31394162 original size:22 final size:19
Alignment explanation
Indices: 31394137--31394178 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
31394127 TGATAGTTAT
31394137 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-A-CTATTA
31394159 TAATATATATTAACTATTA
1 TAATATATATTAACTATTA
31394178 T
1 T
31394179 CAACTTTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (19 bp):
TAATATATATTAACTATTA
Found at i:31399803 original size:43 final size:41
Alignment explanation
Indices: 31399747--31399864 Score: 114
Period size: 41 Copynumber: 2.9 Consensus size: 41
31399737 AGATCATAAA
* *
31399747 ATGCC-ATATCCCAGATAAGGTCTTACATGCTATCATATA-TCG
1 ATGCCAATGTCCCAGATAAGGTCTTACATG-AATCATA-AGT-G
** * * *
31399789 ATGCCCCTGTCCCAGACAGGGTCTTACACGAATCATAAGTG
1 ATGCCAATGTCCCAGATAAGGTCTTACATGAATCATAAGTG
* *
31399830 ATGCCAATGTCCCAAATATGGTCTTACATGAATCA
1 ATGCCAATGTCCCAGATAAGGTCTTACATGAATCA
31399865 CACATCGAAA
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
41 31 0.50
42 12 0.19
43 19 0.31
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (41 bp):
ATGCCAATGTCCCAGATAAGGTCTTACATGAATCATAAGTG
Found at i:31404135 original size:49 final size:50
Alignment explanation
Indices: 31404046--31404290 Score: 253
Period size: 49 Copynumber: 4.9 Consensus size: 50
31404036 ACTATTGTGA
* *
31404046 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAAT-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATGT
* * * * * *
31404095 GGTCGCATGTCTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TGT
* * * * ** ** *
31404146 GATCTCGTGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATGT
* * *
31404196 GGACACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG--ACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATG-T
* *
31404245 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
31404291 GCTTCGGCTA
Statistics
Matches: 157, Mismatches: 34, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
48 2 0.01
49 79 0.50
50 40 0.25
51 36 0.23
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATGT
Found at i:31419347 original size:11 final size:11
Alignment explanation
Indices: 31419331--31419374 Score: 72
Period size: 11 Copynumber: 4.1 Consensus size: 11
31419321 GTAAACACGA
31419331 AAAATAATTTT
1 AAAATAATTTT
31419342 AAAATAATTTT
1 AAAATAATTTT
*
31419353 -AAATAATATT
1 AAAATAATTTT
31419363 AAAATAATTTT
1 AAAATAATTTT
31419374 A
1 A
31419375 TGACCTCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 9 0.30
11 21 0.70
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:31419356 original size:21 final size:21
Alignment explanation
Indices: 31419332--31419374 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
31419322 TAAACACGAA
*
31419332 AAATAATTTTAAAATAATTTT
1 AAATAATATTAAAATAATTTT
31419353 AAATAATATTAAAATAATTTT
1 AAATAATATTAAAATAATTTT
31419374 A
1 A
31419375 TGACCTCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATAATATTAAAATAATTTT
Found at i:31423840 original size:21 final size:20
Alignment explanation
Indices: 31423795--31423840 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
31423785 TTGTTGGAAT
*
31423795 GGTT-AATTTAATTTGTTTA
1 GGTTGAATTTAATTCGTTTA
*
31423814 GCTTGAATTTAATTCGTGTTA
1 GGTTGAATTTAATTCGT-TTA
31423835 GGTTGA
1 GGTTGA
31423841 TTGCATTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 3 0.14
20 11 0.50
21 8 0.36
ACGTcount: A:0.24, C:0.04, G:0.22, T:0.50
Consensus pattern (20 bp):
GGTTGAATTTAATTCGTTTA
Found at i:31425192 original size:43 final size:43
Alignment explanation
Indices: 31425144--31425264 Score: 188
Period size: 43 Copynumber: 2.8 Consensus size: 43
31425134 GTTACCGAGA
*
31425144 TGTGATTACATGTAAGACCATATATGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTATGGGACATTGGCATTGTAT
* *
31425187 TGTGATTACATGTAAGACCATGTATGGAACATTGGCATTTTAT
1 TGTGATTACATGTAAGACCATGTATGGGACATTGGCATTGTAT
* * *
31425230 TGTGATTACGTGGAAGACCATGTCTGGGACATTGG
1 TGTGATTACATGTAAGACCATGTATGGGACATTGG
31425265 TTGTAACACC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 71 1.00
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTATGGGACATTGGCATTGTAT
Found at i:31427844 original size:28 final size:27
Alignment explanation
Indices: 31427801--31427907 Score: 74
Period size: 28 Copynumber: 3.7 Consensus size: 27
31427791 GAAATTAGTG
31427801 TTAA-CTGGGCCTTAGCCCATATCAGTA
1 TTAATCTGGGCC-TAGCCCATATCAGTA
*
31427828 TTAATCTGGGCCATAGCCC-TATTACAATA
1 TTAATCTGGGCC-TAGCCCATA-T-CAGTA
*
31427857 TCAGAGCATACTGGGCCTAGCCCATATCAGTA
1 T--TA--AT-CTGGGCCTAGCCCATATCAGTA
* *
31427889 TCAGTCTGGGCCGTAGCCC
1 TTAATCTGGGCC-TAGCCC
31427908 TATTACAAGT
Statistics
Matches: 64, Mismatches: 6, Indels: 19
0.72 0.07 0.21
Matches are distributed among these distances:
27 13 0.20
28 21 0.33
29 5 0.08
30 1 0.02
31 1 0.02
32 5 0.08
33 9 0.14
34 9 0.14
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (27 bp):
TTAATCTGGGCCTAGCCCATATCAGTA
Found at i:31427979 original size:19 final size:20
Alignment explanation
Indices: 31427936--31427991 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
31427926 ATTGGGTCTT
31427936 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
31427956 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
31427975 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
31427992 CTCATACGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:31433484 original size:28 final size:27
Alignment explanation
Indices: 31433433--31433485 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
31433423 CTATTCAGAA
* * *
31433433 ATCAGTGTTAACTGGGCCTTAGCCCAT
1 ATCAGTATTAACTGGGACATAGCCCAT
31433460 ATCAGTATTAATCTGGGACATAGCCC
1 ATCAGTATTAA-CTGGGACATAGCCC
31433486 TATTACAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (27 bp):
ATCAGTATTAACTGGGACATAGCCCAT
Found at i:31433618 original size:19 final size:20
Alignment explanation
Indices: 31433575--31433630 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
31433565 ATTGGGTCTT
31433575 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
31433595 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
31433614 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
31433631 CTGATACGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:31435884 original size:219 final size:220
Alignment explanation
Indices: 31435485--31435922 Score: 666
Period size: 219 Copynumber: 2.0 Consensus size: 220
31435475 CTTTACGTAT
* ** *
31435485 ACGGTTACAGTTTTTTATAAACCTTACATGCTAAAGTCTTGGTCCGCCTAAAAACAAACCAAAAT
1 ACGGTCACAGTTAATTATAAACCTCACATGCTAAAGTCTTGGTCCGCCTAAAAACAAACCAAAAT
31435550 AACGCCAGCACCGGGATTCAAACTCGTGCCCTCCCAGTCCCTTTAACGCACTGCTGCCACTGTGC
66 AACGCCAGCACCGGGATTCAAACTCGTGCCCTCCCAGTCCCTTTAACGCACTGCTGCCACTGTGC
** *
31435615 CATAAGCTCTTTTTGTGTTGAACTATACTCGCAACTCATCTTAACCCTTATCAAGCCGCGATCTG
131 CATAAGCTCTTTTTGACTTGAACTATACTCGCAACCCATCTTAACCCTTATCAAGCCGCGATCTG
*
31435680 CATATTAAAAAAAACACACAAAATA
196 CATATAAAAAAAAACACACAAAATA
* * * **
31435705 ACGGTCACAGTTAATTATAAACCTCGCCTGCTGAAGTCTTGGTCCGCCT-TTAACAAACCAAAAT
1 ACGGTCACAGTTAATTATAAACCTCACATGCTAAAGTCTTGGTCCGCCTAAAAACAAACCAAAAT
* * *
31435769 AACGCCAGCACCTGGATT-AGAACTCGTGCCCTCTCAGTCCCTTTAACGCGCTGCTGCCACTGTG
66 AACGCCAGCACCGGGATTCA-AACTCGTGCCCTCCCAGTCCCTTTAACGCACTGCTGCCACTGTG
* * *
31435833 CCATAAGCTCTTTTTGACTT-AATTTATACTCGCAACCCATCTTACCCCTTATCTAGCCGCGATC
130 CCATAAGCTCTTTTTGACTTGAA-CTATACTCGCAACCCATCTTAACCCTTATCAAGCCGCGATC
31435897 TGCATATAAAAAAAAACACACAAAAT
194 TGCATATAAAAAAAAACACACAAAAT
31435923 TGCGCACGCC
Statistics
Matches: 197, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
218 3 0.02
219 152 0.77
220 42 0.21
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (220 bp):
ACGGTCACAGTTAATTATAAACCTCACATGCTAAAGTCTTGGTCCGCCTAAAAACAAACCAAAAT
AACGCCAGCACCGGGATTCAAACTCGTGCCCTCCCAGTCCCTTTAACGCACTGCTGCCACTGTGC
CATAAGCTCTTTTTGACTTGAACTATACTCGCAACCCATCTTAACCCTTATCAAGCCGCGATCTG
CATATAAAAAAAAACACACAAAATA
Found at i:31437031 original size:27 final size:27
Alignment explanation
Indices: 31437001--31437054 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
31436991 TCATACAACC
* *
31437001 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
31437028 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
31437055 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:31439625 original size:27 final size:27
Alignment explanation
Indices: 31439595--31439772 Score: 223
Period size: 27 Copynumber: 6.6 Consensus size: 27
31439585 TAGTTTACCA
31439595 AATTACTGTTTTACCCTCGATTTATAG
1 AATTACTGTTTTACCCTCGATTTATAG
* *
31439622 AATTA-TCGTTTTACCCTCGATTGACAG
1 AATTACT-GTTTTACCCTCGATTTATAG
*
31439649 AATTACTATTTTACCCTCGATTTATAG
1 AATTACTGTTTTACCCTCGATTTATAG
* * * *
31439676 AATTACTATTTTACCCTTGATTTACAA
1 AATTACTGTTTTACCCTCGATTTATAG
* *
31439703 AATTATTGTTTTACCCTCGATTTAAAG
1 AATTACTGTTTTACCCTCGATTTATAG
* *
31439730 AATTACCGTTTTACCCTCGATTTATAA
1 AATTACTGTTTTACCCTCGATTTATAG
**
31439757 AATTACCATTTTACCC
1 AATTACTGTTTTACCC
31439773 CTAGCGTGTT
Statistics
Matches: 131, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 129 0.98
28 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.42
Consensus pattern (27 bp):
AATTACTGTTTTACCCTCGATTTATAG
Found at i:31439732 original size:81 final size:81
Alignment explanation
Indices: 31439594--31439772 Score: 259
Period size: 81 Copynumber: 2.2 Consensus size: 81
31439584 TTAGTTTACC
* * * * *
31439594 AAATTACTGTTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTGACAGAATTACTATT
1 AAATTACTATTTTACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTGAAAGAATTACCATT
31439659 TTACCCTCGATTTATA
66 TTACCCTCGATTTATA
* * * * *
31439675 GAATTACTATTTTACCCTTGATTTACAAAATTATTGTTTTACCCTCGATTTAAAGAATTACCGTT
1 AAATTACTATTTTACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTGAAAGAATTACCATT
31439740 TTACCCTCGATTTATA
66 TTACCCTCGATTTATA
*
31439756 AAATTACCATTTTACCC
1 AAATTACTATTTTACCC
31439773 CTAGCGTGTT
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 86 1.00
ACGTcount: A:0.30, C:0.20, G:0.08, T:0.42
Consensus pattern (81 bp):
AAATTACTATTTTACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTGAAAGAATTACCATT
TTACCCTCGATTTATA
Found at i:31439792 original size:81 final size:79
Alignment explanation
Indices: 31439594--31439800 Score: 209
Period size: 81 Copynumber: 2.5 Consensus size: 79
31439584 TTAGTTTACC
** * * * * *
31439594 AAATTACTGTTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTGACAGAATTACTATT
1 AAATTACCATTTTACCCTAGATTTA-A-AATGATTGTTTTACCCTCGATTGAAAGAATTACCATT
31439659 TTACCCTCGATTTATA
64 TTACCCTCGATTTATA
* * * * * *
31439675 GAATTACTATTTTACCCTTGATTTACAAAATTATTGTTTTACCCTCGATTTAAAGAATTACCGTT
1 AAATTACCATTTTACCCTAGATTT--AAAATGATTGTTTTACCCTCGATTGAAAGAATTACCATT
31439740 TTACCCTCGATTTATA
64 TTACCCTCGATTTATA
* *
31439756 AAATTACCATTTTACCCCTAGCGTGTT-AAATGATTGTTTTGCCCT
1 AAATTACCATTTTA-CCCTAG-AT-TTAAAATGATTGTTTTACCCT
31439801 TGTGGGCAAG
Statistics
Matches: 107, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
81 97 0.91
82 6 0.06
83 2 0.02
84 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (79 bp):
AAATTACCATTTTACCCTAGATTTAAAATGATTGTTTTACCCTCGATTGAAAGAATTACCATTTT
ACCCTCGATTTATA
Found at i:31440129 original size:71 final size:67
Alignment explanation
Indices: 31439995--31440129 Score: 171
Period size: 71 Copynumber: 2.0 Consensus size: 67
31439985 GTGTTTTGGT
* * * *
31439995 AGCCTCGCTGCAATCTGGTGGCCTCACCATATATATCTGTTCTGGTGACTTTGTCACAATATCTA
1 AGCCTCGCTGCAATCTGGTGGCCCCACCATATATATCTGTTCTGGTGACCTAGCCACAATATCTA
31440060 GC
66 GC
* * *
31440062 AGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATATTTGTTCTGGTGGCCTAGCCACAATA
1 AGCCTCGCTGCAATCTGGTGGC--C-CCAC-CATATATATCTGTTCTGGTGACCTAGCCACAATA
31440127 TCT
62 TCT
31440130 GTATCTGGTG
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
67 22 0.39
69 1 0.02
70 3 0.05
71 31 0.54
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.33
Consensus pattern (67 bp):
AGCCTCGCTGCAATCTGGTGGCCCCACCATATATATCTGTTCTGGTGACCTAGCCACAATATCTA
GC
Found at i:31440136 original size:27 final size:26
Alignment explanation
Indices: 31440098--31440157 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
31440088 CCACATATAT
* *
31440098 ATATTTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
31440124 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
31440151 ATATCTG
1 ATATCTG
31440158 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:31440311 original size:31 final size:31
Alignment explanation
Indices: 31440276--31440348 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
31440266 TTGCATTCAC
* * *
31440276 ATTCTGATTTTGGTTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
*
31440307 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
31440338 ATTCTGATTCT
1 ATTCTGATTCT
31440349 CATTTTGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:31440313 original size:6 final size:6
Alignment explanation
Indices: 31440276--31440369 Score: 68
Period size: 6 Copynumber: 15.3 Consensus size: 6
31440266 TTGCATTCAC
* * *
31440276 ATTCTG ATTTTG GTTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
31440325 -TCACCTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
31440370 AATGTTTCTT
Statistics
Matches: 69, Mismatches: 11, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
5 4 0.06
6 56 0.81
7 7 0.10
8 2 0.03
ACGTcount: A:0.17, C:0.18, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:31441573 original size:30 final size:30
Alignment explanation
Indices: 31441537--31441597 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
31441527 AGCTCAAGTA
31441537 ACCAAAATATCTCAATTGAAGACATTAACT
1 ACCAAAATATCTCAATTGAAGACATTAACT
31441567 ACCAAAATATCTCAATTGAAGACATTAACT
1 ACCAAAATATCTCAATTGAAGACATTAACT
31441597 A
1 A
31441598 TAATTAACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.20, G:0.07, T:0.26
Consensus pattern (30 bp):
ACCAAAATATCTCAATTGAAGACATTAACT
Found at i:31444951 original size:40 final size:40
Alignment explanation
Indices: 31444907--31445095 Score: 272
Period size: 40 Copynumber: 4.7 Consensus size: 40
31444897 GCTACTAGCT
* *
31444907 CAAATGCCTTCGGGACTTAGACTGATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
* *
31444947 CAAATGCCTTCGGGACCTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
* *
31444987 CGAATGCCTTCGGGACTTAGCCCGGA-TATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GATTATAGTAACTCGCA
* *
31445027 CAAAGGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
* *
31445067 CAAATGCCTTCGGAACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGATTAT
31445096 CAATCCGAAT
Statistics
Matches: 133, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 1 0.01
40 131 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
Found at i:31453067 original size:40 final size:40
Alignment explanation
Indices: 31452982--31453169 Score: 324
Period size: 40 Copynumber: 4.7 Consensus size: 40
31452972 GCTACTAGCT
31452982 CAAATGCCTTCGGGACTTAGCCCGGTT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
31453021 CAAATGCCTTCGGGACCTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* ** *
31453061 CGAATGCCTTCGGGACTTAGCCCGAATATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
31453101 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
31453141 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
31453170 CAATCCGAAT
Statistics
Matches: 138, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 26 0.19
40 112 0.81
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:31456002 original size:8 final size:8
Alignment explanation
Indices: 31455989--31456025 Score: 74
Period size: 8 Copynumber: 4.6 Consensus size: 8
31455979 GGACTTATTC
31455989 ATCATATA
1 ATCATATA
31455997 ATCATATA
1 ATCATATA
31456005 ATCATATA
1 ATCATATA
31456013 ATCATATA
1 ATCATATA
31456021 ATCAT
1 ATCAT
31456026 TATTAATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.38
Consensus pattern (8 bp):
ATCATATA
Found at i:31459331 original size:30 final size:29
Alignment explanation
Indices: 31459295--31459355 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
31459285 AATCGGAAGT
*
31459295 TTTGGCACTAAGTGTGCAATTTAAACTAGC
1 TTTGGCACTAAGTGTGCAATCT-AACTAGC
*
31459325 TTTGGCACTAAGTGTGCGATCTAACTAGC
1 TTTGGCACTAAGTGTGCAATCTAACTAGC
31459354 TT
1 TT
31459356 CGGCTATTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 9 0.31
30 20 0.69
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCAATCTAACTAGC
Found at i:31460689 original size:50 final size:50
Alignment explanation
Indices: 31460627--31460755 Score: 147
Period size: 49 Copynumber: 2.6 Consensus size: 50
31460617 TGTGTCTGTA
*
31460627 TAAGACCATGTCTAGGACATGGCATCGGCAC-AAATATGTGAGAG-CTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCACTAAAT-TGTGAGAGTC-AGTG
** * ** * *
31460677 TAAGACCATGTCTGGGACATGGTGTCGAC-CTCGATTTTGATAGTCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCACTAAATTGTGAGAGTCAGTG
31460726 TAAGACCATGTCTGGGACATGGCATCGGCA
1 TAAGACCATGTCTGGGACATGGCATCGGCA
31460756 TTATACCCTA
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
49 37 0.57
50 28 0.43
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATCGGCACTAAATTGTGAGAGTCAGTG
Found at i:31473443 original size:8 final size:8
Alignment explanation
Indices: 31473430--31473462 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
31473420 CTAGATCGGC
31473430 AAAAGCCG
1 AAAAGCCG
31473438 AAAAGCCG
1 AAAAGCCG
*
31473446 AAATGCCG
1 AAAAGCCG
31473454 AAAAGCCG
1 AAAAGCCG
31473462 A
1 A
31473463 TATTTTGGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.48, C:0.24, G:0.24, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:31473748 original size:28 final size:28
Alignment explanation
Indices: 31473708--31473772 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
31473698 ATGTACTAGA
*
31473708 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
31473736 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
31473764 ATACCCCTA
1 ATACCCCTA
31473773 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:31473945 original size:27 final size:27
Alignment explanation
Indices: 31473878--31473967 Score: 92
Period size: 28 Copynumber: 3.2 Consensus size: 27
31473868 AGGAAGCGTC
* *
31473878 CTGGTGGCTA-TGCCACAAATTATATATT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* * *
31473906 CTGGTAGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
31473933 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
31473962 CTGGTG
1 CTGGTG
31473968 ACTCTGTCAC
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 20 0.39
28 24 0.47
29 7 0.14
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:31473978 original size:29 final size:28
Alignment explanation
Indices: 31473888--31473978 Score: 78
Period size: 27 Copynumber: 3.2 Consensus size: 28
31473878 CTGGTGGCTA
* * * *
31473888 TGCCACAAATTATATATTCTGGT-AGCCC
1 TGCCACAAAATATCTGTTCTGGTGA-CAC
* *
31473916 TGCCAC-ATATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
31473943 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
31473972 TGTCACA
1 TGCCACA
31473979 TTTTCTGTAT
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
27 20 0.40
28 15 0.30
29 15 0.30
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Done.