Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 56 of 190
Found at i:15886827 original size:17 final size:17
Alignment explanation
Indices: 15886795--15886828 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
15886785 CGAAGTCACG
15886795 ATCACAAAAACGTAAAA
1 ATCACAAAAACGTAAAA
15886812 ATCATCAAAAAC-TAAAA
1 ATCA-CAAAAACGTAAAA
15886829 CCAAAACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.65, C:0.18, G:0.03, T:0.15
Consensus pattern (17 bp):
ATCACAAAAACGTAAAA
Found at i:15893505 original size:41 final size:41
Alignment explanation
Indices: 15893453--15893595 Score: 189
Period size: 41 Copynumber: 3.5 Consensus size: 41
15893443 TGATTCAGAA
* *
15893453 CACTGGCATTAAGCGTGCTAGATGTAAAGTCTGAAATATTT
1 CACTGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTT
* * * *
15893494 CACCGGTATTAAGCCTGTTAGACGTAAAGTCTGAATTATTT
1 CACTGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTT
* *
15893535 CACTGGCATTTAGCCTGCTAGACGGAAAGTCT-AAATTATTT
1 CACTGGCATTAAGCCTGCTAGACGTAAAGTCTGAAA-TATTT
*
15893576 CAGTGGCATTAAGCCTGCTA
1 CACTGGCATTAAGCCTGCTA
15893596 AGCACAGAGC
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 2 0.02
41 85 0.98
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.31
Consensus pattern (41 bp):
CACTGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTT
Found at i:15893833 original size:61 final size:61
Alignment explanation
Indices: 15893708--15893838 Score: 138
Period size: 61 Copynumber: 2.1 Consensus size: 61
15893698 ACATGAATAA
** * * * * *
15893708 ATATATATAATTCATAACATTAAGTTTAGCTCAAAGAACTTGTATATTACATTCAAACCTC
1 ATATATATAGCTCAAAACATTAAATTCAGCTCAAAGAACTTGTATACTACATTCAAACCAC
* * * * *
15893769 ATATGTATAGCTCAAAACATTAAATTCAGCTCAATGAATTTGTA-AGCTATATTCGAACCAC
1 ATATATATAGCTCAAAACATTAAATTCAGCTCAAAGAACTTGTATA-CTACATTCAAACCAC
15893830 ATATATATA
1 ATATATATA
15893839 TAAATGTATA
Statistics
Matches: 56, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
60 1 0.02
61 55 0.98
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.34
Consensus pattern (61 bp):
ATATATATAGCTCAAAACATTAAATTCAGCTCAAAGAACTTGTATACTACATTCAAACCAC
Found at i:15903453 original size:33 final size:33
Alignment explanation
Indices: 15903378--15903453 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
15903368 CTGTTAGGAC
* * * *
15903378 AGTAAATACCAAACAAAGTAAGTCCGCTAAGGT
1 AGTAAACACGAAACAAAGTAAATCCGCTAAGAT
* *
15903411 AGTAAACACGAAATAAAGTAAATCCTCTAAGAT
1 AGTAAACACGAAACAAAGTAAATCCGCTAAGAT
15903444 AGTAAACACG
1 AGTAAACACG
15903454 TGTAATGCCC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.49, C:0.17, G:0.16, T:0.18
Consensus pattern (33 bp):
AGTAAACACGAAACAAAGTAAATCCGCTAAGAT
Found at i:15906057 original size:11 final size:12
Alignment explanation
Indices: 15906041--15906073 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
15906031 AATTTCACAA
15906041 AAAATTTCG-TG
1 AAAATTTCGTTG
15906052 AAAATTTCGTTTG
1 AAAATTTCG-TTG
15906065 AAAATTTCG
1 AAAATTTCG
15906074 ACGTTTGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
13 11 0.55
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.39
Consensus pattern (12 bp):
AAAATTTCGTTG
Found at i:15910722 original size:19 final size:20
Alignment explanation
Indices: 15910680--15910722 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
15910670 TCATGCTTTC
*
15910680 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
15910700 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
15910718 TATTC
1 TATTC
15910723 CACTTAGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:15910865 original size:45 final size:45
Alignment explanation
Indices: 15910801--15910889 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
15910791 AACGGATACT
* * *
15910801 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCATACTAATCAATGATGTC
15910846 CGGTGGAATCAGCACATAGCAACCACCATACTAATCAATGATGT
1 CGGTGGAATCAGCACATAGCAACCACCATACTAATCAATGATGT
15910890 TCAGTTCACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.24
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCATACTAATCAATGATGTC
Found at i:15910956 original size:51 final size:50
Alignment explanation
Indices: 15910896--15911034 Score: 181
Period size: 50 Copynumber: 2.8 Consensus size: 50
15910886 ATGTTCAGTT
*
15910896 CACATAGTAGCCTGCACATAGTACTACACACGTGATCGAAAC-TATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCAAACAT-TCCGGTA
** * * * *
15910947 TGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAAACATTCCGGTA
*
15910997 CACGTAGTAGCCTGCACATAGTACTACACACGTGACCA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCA
15911035 TCACTTTCAC
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
50 42 0.57
51 32 0.43
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCAAACATTCCGGTA
Found at i:15914574 original size:51 final size:50
Alignment explanation
Indices: 15914471--15914659 Score: 202
Period size: 51 Copynumber: 3.7 Consensus size: 50
15914461 TATCGATGAA
* * ***
15914471 CACGTGTGTAGTACTAAT-TGATAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACT-ATGTGA-AGGCTACTACGTGTACCG-TAAAACTTGGT
* * * *
15914523 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACTG-AAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAA-C-TTGGT
* *
15914574 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAACTTGGT
* *
15914624 CATGGGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
15914660 TCGAATGATA
Statistics
Matches: 115, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
49 3 0.03
50 37 0.32
51 54 0.47
52 21 0.18
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAACTTGGT
Found at i:15914648 original size:101 final size:103
Alignment explanation
Indices: 15914471--15914659 Score: 258
Period size: 101 Copynumber: 1.9 Consensus size: 103
15914461 TATCGATGAA
* ** * *
15914471 CACGTGTGTAGTACTAATTGATAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTA
1 CACGTGTGTAGTACTAATTGATAGGCTACTACGTGAACCGATAAAACATGATCACAGGTGTAGTA
*
15914536 CTAAGTGAAGGCTACTATGTGTACTGAAAAGCTTTGGT
66 CTAAGTGAAGGCTACTACGTGTACTGAAAAGCTTTGGT
* **
15914574 CACGTGTGTAGTACT-ATGTGA-AGGCTACTACGTGAACCG-TAAAACTTGATCATGGGTGTAGT
1 CACGTGTGTAGTACTAAT-TGATAGGCTACTACGTGAACCGATAAAACATGATCACAGGTGTAGT
*
15914636 ACTATGTGAAGGCTACTACGTGTA
65 ACTAAGTGAAGGCTACTACGTGTA
15914660 TCGAATGATA
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
101 38 0.51
102 19 0.25
103 18 0.24
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (103 bp):
CACGTGTGTAGTACTAATTGATAGGCTACTACGTGAACCGATAAAACATGATCACAGGTGTAGTA
CTAAGTGAAGGCTACTACGTGTACTGAAAAGCTTTGGT
Found at i:15916491 original size:26 final size:27
Alignment explanation
Indices: 15916462--15916514 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 27
15916452 ATGACCGTAA
15916462 TGCCCCTAGAGGGTAAATGACT-ATTT
1 TGCCCCTAGAGGGTAAATGACTGATTT
*
15916488 TGCCCCTCGAGGGTAAATGACTGATTT
1 TGCCCCTAGAGGGTAAATGACTGATTT
15916515 GTGTTATGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (27 bp):
TGCCCCTAGAGGGTAAATGACTGATTT
Found at i:15919574 original size:78 final size:78
Alignment explanation
Indices: 15919349--15919629 Score: 282
Period size: 77 Copynumber: 3.6 Consensus size: 78
15919339 ATAAATTTTA
* * * * *
15919349 TTTTGTTTCAAACATAAATTCAATTGAACAATCCTATTTCAGAATTTTATTCCTGCCATTTAATA
1 TTTTGTTTCAAACAGAAAATCAATTGAACAATCATGTTTCAGGATTTTATTCCTGCCATTTAATA
*
15919414 GGATTTGTTTTA-
66 GGATTTGTTTGAT
* * * * *
15919426 TTTTGTTTCAAATAGAAAAACAATTGAATAATCATGTTTTAGGATTTTATTCCTGCCATTTAACA
1 TTTTGTTTCAAACAGAAAATCAATTGAACAATCATGTTTCAGGATTTTATTCCTGCCATTTAATA
*
15919491 AGATTTGTTTGAT
66 GGATTTGTTTGAT
* * ** * ** *
15919504 TTTTGTTTTAAACAGAAAATCAATTTAACAATTTTGTTTCAGGATTTTATTCCTGTCGCTTCATA
1 TTTTGTTTCAAACAGAAAATCAATTGAACAATCATGTTTCAGGATTTTATTCCTGCCATTTAATA
15919569 GGATTT-TTTCGATCTT
66 GGATTTGTTT-GA---T
* * *
15919585 TTTTTTTTCAAACAG-AAATCAATTGAATAATTCA-GTTTCACGATT
1 TTTTGTTTCAAACAGAAAATCAATTGAACAA-TCATGTTTCAGGATT
15919630 CTTTTCTTGT
Statistics
Matches: 165, Mismatches: 33, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
77 68 0.41
78 59 0.36
80 23 0.14
81 15 0.09
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (78 bp):
TTTTGTTTCAAACAGAAAATCAATTGAACAATCATGTTTCAGGATTTTATTCCTGCCATTTAATA
GGATTTGTTTGAT
Found at i:15927454 original size:20 final size:20
Alignment explanation
Indices: 15927425--15927475 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
15927415 GTATCGATTT
*
15927425 GGTATCGATACT-TTTCTTAA
1 GGTATCGATA-TATTTCCTAA
*
15927445 GGTATTGATATATTTCCTAA
1 GGTATCGATATATTTCCTAA
*
15927465 GGTATCAATAT
1 GGTATCGATAT
15927476 TCATACTCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (20 bp):
GGTATCGATATATTTCCTAA
Found at i:15930054 original size:58 final size:58
Alignment explanation
Indices: 15929964--15930079 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
15929954 GTGAAGAAGA
15929964 AAGAATTATGAAAAAGAATGTTGGTAAAGCTCTAAAATCCACCACTAATAATGATAGT
1 AAGAATTATGAAAAAGAATGTTGGTAAAGCTCTAAAATCCACCACTAATAATGATAGT
* *
15930022 AAGAATTATGAAAAGGAATGTTGGTAAAGCTCTAAAATGCACCACTAATAATGATAGT
1 AAGAATTATGAAAAAGAATGTTGGTAAAGCTCTAAAATCCACCACTAATAATGATAGT
15930080 GAATCAAGTG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.26
Consensus pattern (58 bp):
AAGAATTATGAAAAAGAATGTTGGTAAAGCTCTAAAATCCACCACTAATAATGATAGT
Found at i:15931306 original size:32 final size:33
Alignment explanation
Indices: 15931244--15931306 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 33
15931234 TATTTATGCA
*
15931244 TTAAATTGGAAATAATTTTTATATAGGGGGAGC
1 TTAAATTGGAAATAATTTTTATATAAGGGGAGC
15931277 TTAAATT-GAAATTGAA-TTTTAT-TAAGGGGA
1 TTAAATTGGAAA-T-AATTTTTATATAAGGGGA
15931307 CAATCTATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
32 11 0.41
33 14 0.52
34 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.22, T:0.38
Consensus pattern (33 bp):
TTAAATTGGAAATAATTTTTATATAAGGGGAGC
Found at i:15931679 original size:20 final size:20
Alignment explanation
Indices: 15931654--15931703 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
15931644 TATCGATTTA
*
15931654 GTATCGATACT-TGTCTTAAG
1 GTATCGATA-TATGTCCTAAG
*
15931674 GTATCGATATATTTCCTAAG
1 GTATCGATATATGTCCTAAG
15931694 GTATCGATAT
1 GTATCGATAT
15931704 TCCTACTCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (20 bp):
GTATCGATATATGTCCTAAG
Found at i:15931708 original size:17 final size:19
Alignment explanation
Indices: 15931670--15931708 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
15931660 ATACTTGTCT
15931670 TAAGGTATCGATATATTTCC
1 TAAGGTATCGA-ATATTTCC
15931690 TAAGGTATCG-ATA-TTCC
1 TAAGGTATCGAATATTTCC
15931707 TA
1 TA
15931709 CTCCAACAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 3 0.16
20 10 0.53
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (19 bp):
TAAGGTATCGAATATTTCC
Found at i:15934834 original size:26 final size:26
Alignment explanation
Indices: 15934804--15934856 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
15934794 TTATTGTTAG
*
15934804 TTAAATGTTAGTATATTGAGATATTT
1 TTAAATATTAGTATATTGAGATATTT
* **
15934830 TTAAATATTATTATATTGTTATATTT
1 TTAAATATTAGTATATTGAGATATTT
15934856 T
1 T
15934857 AGTTTATTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (26 bp):
TTAAATATTAGTATATTGAGATATTT
Found at i:15944179 original size:35 final size:35
Alignment explanation
Indices: 15944134--15944254 Score: 104
Period size: 35 Copynumber: 3.5 Consensus size: 35
15944124 GGGTGTTATA
* * *
15944134 GCCCTGAAGGACCTATATATTGTTTATATGGTGTT
1 GCCCCGAAGGACCTATATATAGTTTACATGGTGTT
* * *
15944169 GCCCCGAAGGACCTGTATATAGTTTACACGG-ATT
1 GCCCCGAAGGACCTATATATAGTTTACATGGTGTT
* * *
15944203 -CACCTTGAAGGA-CTAGTATATCGTTTACATGGTGTC
1 GC-CC-CGAAGGACCTA-TATATAGTTTACATGGTGTT
*
15944239 GCCACGAAGGACCTAT
1 GCCCCGAAGGACCTAT
15944255 TGATAACCAT
Statistics
Matches: 66, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
33 1 0.02
34 6 0.09
35 53 0.80
36 5 0.08
37 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.31
Consensus pattern (35 bp):
GCCCCGAAGGACCTATATATAGTTTACATGGTGTT
Found at i:15953648 original size:26 final size:26
Alignment explanation
Indices: 15953610--15953665 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
15953600 AACACACTAA
* *
15953610 TATCCCAGTAAAGCTGCCACTAATAG
1 TATCCCAGCAAAGCTGCCACTAACAG
* *
15953636 TATCGCAGCAAAGCTGCCAGTAACAG
1 TATCCCAGCAAAGCTGCCACTAACAG
15953662 TATC
1 TATC
15953666 TTCCTCCATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (26 bp):
TATCCCAGCAAAGCTGCCACTAACAG
Found at i:15953850 original size:27 final size:27
Alignment explanation
Indices: 15953827--15954156 Score: 330
Period size: 27 Copynumber: 12.3 Consensus size: 27
15953817 AGAGGTATAA
15953827 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
** * * *
15953854 TGGTCAGTTTACCCTATAGGGTTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
*
15953881 CAGTCATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * * *
15953908 TAATCA-TTTAACCTAT-GGGGCATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* *
15953933 TAGTC-TTTATACCCTATGAGGGTATTT
1 CAGTCATTT-TACCCTATGGGGGTATTT
*
15953960 CAGTCATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* *
15953987 CAATCATTTTACCCTATGGAGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* *
15954014 -TGTTCATTTTACCCTATAGGGGTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
* * *
15954041 CGGTCATTTTATCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* *
15954068 CTGTCATTTTACCTTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
** * * *
15954095 TGGTCATTTTACCTTATAGGGGTATTA
1 CAGTCATTTTACCCTATGGGGGTATTT
* *
15954122 CGGTCATTTTATCCTAT-GGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
15954148 C-GATCATTT
1 CAG-TCATTT
15954157 ATTGACCTCT
Statistics
Matches: 252, Mismatches: 44, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
25 14 0.06
26 31 0.12
27 203 0.81
28 4 0.02
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.44
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGGGGGTATTT
Found at i:15954061 original size:81 final size:81
Alignment explanation
Indices: 15953830--15954156 Score: 439
Period size: 81 Copynumber: 4.1 Consensus size: 81
15953820 GGTATAACAG
* *
15953830 TCATTTTACCCTATGGGGGTATTTTGGTCAGTTTACCCTATAGGGTTATTTCAGTCATTTTACCC
1 TCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCC
*
15953895 TATGAGGGTATTTTAA
66 TATGAGGGTATTTCAA
* * *
15953911 TCA-TTTAACCTAT-GGGGCATTTTAGTC-TTTATACCCTAT-GAGGGTATTTCAGTCATTTTAC
1 TCATTTTACCCTATGGGGGTATTTTGGTCATTT-TACCCTATAG-GGGTATTTCAGTCATTTTAC
15953972 CCTATGAGGGTATTTCAA
64 CCTATGAGGGTATTTCAA
* * * *
15953990 TCATTTTACCCTATGGAGGTATTTTGTTCATTTTACCCTATAGGGGTATTTCGGTCATTTTATCC
1 TCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCC
**
15954055 TATGAGGGTATTTCTG
66 TATGAGGGTATTTCAA
* * * * *
15954071 TCATTTTACCTTATGGGGGTATTTTGGTCATTTTACCTTATAGGGGTATTACGGTCATTTTATCC
1 TCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCC
*
15954136 TATG-GGGTATTTCGA
66 TATGAGGGTATTTCAA
15954151 TCATTT
1 TCATTT
15954157 ATTGACCTCT
Statistics
Matches: 218, Mismatches: 22, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
78 3 0.01
79 59 0.27
80 33 0.15
81 119 0.55
82 4 0.02
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (81 bp):
TCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCC
TATGAGGGTATTTCAA
Found at i:15954998 original size:51 final size:51
Alignment explanation
Indices: 15954935--15955037 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
15954925 TGAGAGAAAG
15954935 GTTTCGACGATTTTAATATCACTTGCTACACCTTTACTCCTCGAGGAAATC
1 GTTTCGACGATTTTAATATCACTTGCTACACCTTTACTCCTCGAGGAAATC
* * *
15954986 GTTTCGATGATTTTAATATCACTTGCTACAGCTTTACTCCTTGAGGAAATC
1 GTTTCGACGATTTTAATATCACTTGCTACACCTTTACTCCTCGAGGAAATC
15955037 G
1 G
15955038 AACCGTCAGA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (51 bp):
GTTTCGACGATTTTAATATCACTTGCTACACCTTTACTCCTCGAGGAAATC
Found at i:15959672 original size:6 final size:6
Alignment explanation
Indices: 15959661--15959723 Score: 65
Period size: 6 Copynumber: 10.2 Consensus size: 6
15959651 ACTTAAAAAC
* * *
15959661 AAGAAA AAGAAA AAGAAA AGAAAAA AGAGAAA AAAAAA GAAGAAG AAGAAA
1 AAGAAA AAGAAA AAGAAA A-AGAAA A-AGAAA AAGAAA -AAGAAA AAGAAA
15959712 AAGAAA AA-AAA A
1 AAGAAA AAGAAA A
15959724 GGAGAGGCCA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
5 4 0.08
6 30 0.61
7 15 0.31
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:15959678 original size:12 final size:12
Alignment explanation
Indices: 15959655--15959723 Score: 75
Period size: 12 Copynumber: 5.5 Consensus size: 12
15959645 TACTTCACTT
*
15959655 AAAAACAAGAAA
1 AAAAAAAAGAAA
*
15959667 AAGAAAAAGAAA
1 AAAAAAAAGAAA
15959679 AGAAAAAAGAGAAA
1 A-AAAAAA-AGAAA
*
15959693 AAAAAAGAAGAAG
1 AAAAAA-AAGAAA
*
15959706 AAGAAAAAGAAA
1 AAAAAAAAGAAA
15959718 AAAAAA
1 AAAAAA
15959724 GGAGAGGCCA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
12 21 0.45
13 19 0.40
14 7 0.15
ACGTcount: A:0.83, C:0.01, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:15959693 original size:19 final size:18
Alignment explanation
Indices: 15959664--15959723 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 18
15959654 TAAAAACAAG
15959664 AAAAAGAAAAAGAAAAGA
1 AAAAAGAAAAAGAAAAGA
*
15959682 AAAAAGAGAAAAAAAAAGA
1 AAAAAGA-AAAAGAAAAGA
15959701 AGAAGAAGAAAAAGAAAA-A
1 A-AA-AAGAAAAAGAAAAGA
15959720 AAAA
1 AAAA
15959724 GGAGAGGCCA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
17 1 0.03
18 9 0.24
19 13 0.35
20 10 0.27
21 4 0.11
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAAGAAAAGA
Found at i:15959693 original size:25 final size:25
Alignment explanation
Indices: 15959656--15959724 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 25
15959646 ACTTCACTTA
15959656 AAAACAAGA-AAAAGAAAAAGAA-AAG
1 AAAA-AAGAGAAAA-AAAAAGAAGAAG
15959681 AAAAAAGAGAAAAAAAAAGAAGAAG
1 AAAAAAGAGAAAAAAAAAGAAGAAG
15959706 AAGAAAA-AGAAAAAAAAAG
1 AA-AAAAGAGAAAAAAAAAG
15959725 GAGAGGCCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
24 12 0.29
25 25 0.61
26 4 0.10
ACGTcount: A:0.81, C:0.01, G:0.17, T:0.00
Consensus pattern (25 bp):
AAAAAAGAGAAAAAAAAAGAAGAAG
Found at i:15959698 original size:39 final size:38
Alignment explanation
Indices: 15959655--15959728 Score: 112
Period size: 39 Copynumber: 1.9 Consensus size: 38
15959645 TACTTCACTT
15959655 AAAAACAAGAAAAAGAAAAAGAAAAGAAAAAAGAGAAAA
1 AAAAACAAGAAAAAGAAAAAGAAAA-AAAAAAGAGAAAA
* * *
15959694 AAAAAGAAGAAGAAGAAAAAGAAAAAAAAAGGAGA
1 AAAAACAAGAAAAAGAAAAAGAAAAAAAAAAGAGA
15959729 GGCCAAGGCG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 9 0.28
39 23 0.72
ACGTcount: A:0.80, C:0.01, G:0.19, T:0.00
Consensus pattern (38 bp):
AAAAACAAGAAAAAGAAAAAGAAAAAAAAAAGAGAAAA
Found at i:15960873 original size:143 final size:143
Alignment explanation
Indices: 15960598--15961109 Score: 636
Period size: 143 Copynumber: 3.6 Consensus size: 143
15960588 GATTGAACTC
* * * *
15960598 ATTATGGCGAATCTCATCACCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACAAGCCTTATCTCT
1 ATTATGGCGAATCTTATCATCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAGCCTTATCTCC
* * * * * * * * * *
15960663 GTGAAGTTGCAGCGGAGTACACTGAAGACAGCGAATCGTATTTCCCTAGCATTGCAGCGAAACAG
66 CTGAAGTTGCAGTGGAGCAAACTGAAGACAGCGAATCTTATTTCCCTGGCGTTACAGTGGAACAG
*
15960728 ATTAAAGCTAAAA
131 ATTAAAGCTACAA
* *
15960741 ATTATGGCGAATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCATC-AGCCTTATCTC
1 ATTATGGCGAATCTTATCATCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CAAGCCTTATCTC
* * * * *
15960805 CCTAAAGTTGCAGTGGAGCAGACTGGAGACAGCGAATCTTATTTCCCTGGCGTTATAGTGGAAGA
65 CCTGAAGTTGCAGTGGAGCAAACTGAAGACAGCGAATCTTATTTCCCTGGCGTTACAGTGGAACA
15960870 GATTAAAGCTACAA
130 GATTAAAGCTACAA
* * * *
15960884 ATTATGG-AAGATATTATCATCTTGAAGTTGCAGTGGAGCAGATTGAAGTCAGC-AGCCTTATCT
1 ATTATGGCGA-ATCTTATCATCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CAAGCCTTATCT
* * *
15960947 CCCTGAAGTTGCAGTGGAGCAAACTAAAGACAGCGAATCTTATTTCCCTGGAGTTACAGTGGAAT
64 CCCTGAAGTTGCAGTGGAGCAAACTGAAGACAGCGAATCTTATTTCCCTGGCGTTACAGTGGAAC
15961012 AGATTAAAGCTACAA
129 AGATTAAAGCTACAA
** * * * *
15961027 ATTATGATGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGTCACCAATCC-TATCTC
1 ATTATGGCGAATCTTATCATCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CAAGCCTTATCTC
*
15961091 CCTGAAGTTGAAGTGGAGC
65 CCTGAAGTTGCAGTGGAGC
15961110 GGATTAAAAC
Statistics
Matches: 321, Mismatches: 44, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
142 1 0.00
143 316 0.98
144 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (143 bp):
ATTATGGCGAATCTTATCATCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAGCCTTATCTCC
CTGAAGTTGCAGTGGAGCAAACTGAAGACAGCGAATCTTATTTCCCTGGCGTTACAGTGGAACAG
ATTAAAGCTACAA
Found at i:15960960 original size:44 final size:45
Alignment explanation
Indices: 15960906--15961117 Score: 142
Period size: 44 Copynumber: 4.6 Consensus size: 45
15960896 ATTATCATCT
*
15960906 TGAAGTTGCAGTGGAGCAGATTGAAGTCAGC-AGCCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAGTCAGCAAGCCTTATCTCCC
* * * * *
15960950 TGAAGTTGCAGTGGAGCAAACTAAAGACAGCGAA-TCTTATTTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAGTCAGC-AAGCCTTATCTCCC
* * ** ** * *
15960995 TGGAGTTACAGTGGAATAGATTAAAGCTACAAATTATGATGGATCTTATCTTCC
1 TGAAGTTGCAGTGGAGCAGATTAAAG-T-C--AGCA--A--G-CCTTATCTCCC
* * *
15961049 TGAAGTTGCAGTGGAGCAGATTGAAGTCACCAATCC-TATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAGTCAGCAAGCCTTATCTCCC
* *
15961093 TGAAGTTGAAGTGGAGCGGATTAAA
1 TGAAGTTGCAGTGGAGCAGATTAAA
15961118 ACGACAATTC
Statistics
Matches: 126, Mismatches: 30, Indels: 24
0.70 0.17 0.13
Matches are distributed among these distances:
44 56 0.44
45 30 0.24
46 1 0.01
47 1 0.01
48 2 0.02
49 1 0.01
50 3 0.02
52 1 0.01
53 1 0.01
54 30 0.24
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (45 bp):
TGAAGTTGCAGTGGAGCAGATTAAAGTCAGCAAGCCTTATCTCCC
Found at i:15961130 original size:44 final size:44
Alignment explanation
Indices: 15961041--15961141 Score: 109
Period size: 44 Copynumber: 2.3 Consensus size: 44
15961031 TGATGGATCT
* * **
15961041 TATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGTCACCAATCC
1 TATCTCCCTGAAGTTGAAGTGGAGCAGATTGAAAACACCAATCC
*
15961085 TATCTCCCTGAAGTTGAAGTGGAGCGGATT-AAAACGA-CAATTCC
1 TATCTCCCTGAAGTTGAAGTGGAGCAGATTGAAAAC-ACCAA-TCC
15961129 TATAC-CCCTGAAG
1 TAT-CTCCCTGAAG
15961142 ATGCAATGGG
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
43 6 0.12
44 42 0.86
45 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.26
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGAAGTGGAGCAGATTGAAAACACCAATCC
Found at i:15962480 original size:12 final size:12
Alignment explanation
Indices: 15962457--15962488 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
15962447 ATTAAAATTA
15962457 ATTATT-TTACT
1 ATTATTATTACT
15962468 ATTATTATTACT
1 ATTATTATTACT
15962480 ATTATTATT
1 ATTATTATT
15962489 TTCCTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (12 bp):
ATTATTATTACT
Found at i:15962499 original size:27 final size:27
Alignment explanation
Indices: 15962440--15962500 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
15962430 ATTTTTGCTA
15962440 TTTTATTATTAAAATTAATTATTTTAC
1 TTTTATTATTAAAATTAATTATTTTAC
* ** *
15962467 TATTATTATTACTATT-ATTATTTTCC
1 TTTTATTATTAAAATTAATTATTTTAC
15962493 TGTTTATT
1 T-TTTATT
15962501 TATTTATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 10 0.36
27 18 0.64
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTTATTATTAAAATTAATTATTTTAC
Found at i:15965748 original size:45 final size:45
Alignment explanation
Indices: 15965646--15965899 Score: 152
Period size: 44 Copynumber: 5.5 Consensus size: 45
15965636 CTTATCTTCT
* * * ** * * *
15965646 TGAAGTTGCAGTGGAGCAGATTGAAGCCA-CCAGCCTAATCTACC
1 TGAAGTTGCAGTGGAACAGATTGAAGACAGCGAATCTTATTTCCC
* *
15965690 TAAAGTTGCAGTGGAACAGACTGAAGACAGCGAATCTTATTTCCC
1 TGAAGTTGCAGTGGAACAGATTGAAGACAGCGAATCTTATTTCCC
** * * * *
15965735 TGGCGTTGCAGTGGAACAGATTAAAGCTACAAATTATTACGGATCTTATTTTCC
1 TGAAGTTGCAGTGGAACAGATTGAAG--AC-----A--GCGAATCTTATTTCCC
* * * ** *
15965789 TGAAGTTGCAGTGGAGCAGATTGAAGCCA-CCAGCCTTATCTCCC
1 TGAAGTTGCAGTGGAACAGATTGAAGACAGCGAATCTTATTTCCC
* * * * *
15965833 TGAAGTTGCTGCGGAGCAGGTTGAAGATAGCGAATCTTATTTCCC
1 TGAAGTTGCAGTGGAACAGATTGAAGACAGCGAATCTTATTTCCC
**
15965878 TGGCGTTGCAGTGGAACAGATT
1 TGAAGTTGCAGTGGAACAGATT
15965900 AAAGCTACAA
Statistics
Matches: 155, Mismatches: 44, Indels: 21
0.70 0.20 0.10
Matches are distributed among these distances:
44 58 0.37
45 57 0.37
47 3 0.02
52 2 0.01
54 35 0.23
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (45 bp):
TGAAGTTGCAGTGGAACAGATTGAAGACAGCGAATCTTATTTCCC
Found at i:15965992 original size:143 final size:143
Alignment explanation
Indices: 15965483--15965992 Score: 745
Period size: 143 Copynumber: 3.6 Consensus size: 143
15965473 TTGAAGTCAA
* * *
15965483 TATGGC-GAATCTTATCTTCCTGAAGTTGCAGTGCAGCAGATTAAAGCCACCAACCTTATCTCCC
1 TATGGCAG-ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCC
* * * *
15965547 TAAAGTTGCAGCGAAGTAGACTGAAGACAACGAATCTTATTTCCCTGACGTTGCAGTGGAACAGA
65 TAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGA
15965612 TTAAAGCTACAAAT
130 TTAAAGCTACAAAT
* * *
15965626 TATGGCAGATCTTATCTTCTTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTAATCTACCT
1 TATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCT
* *
15965691 AAAGTTGCAGTGGAACAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGAT
66 AAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGAT
15965756 TAAAGCTACAAAT
131 TAAAGCTACAAAT
** * *
15965769 TATTACGGATCTTATTTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCT
1 TATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCT
* * ** *
15965834 GAAGTTGCTGCGGAGCAGGTTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGAT
66 AAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGAT
15965899 TAAAGCTACAAAT
131 TAAAGCTACAAAT
* * * *
15965912 TATGGCAGATCTTATCTTCTTGAAGTTGTAGTGGAGCAAATTGAAGCCACCAATCC-TATCTCCC
1 TATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACC-AGCCTTATCTCCC
* *
15965976 TGAAGTTGCAGTGGAGC
65 TAAAGTTGCAGCGGAGC
15965993 GGATTAAAAC
Statistics
Matches: 329, Mismatches: 36, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
143 325 0.99
144 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (143 bp):
TATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCT
AAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGAT
TAAAGCTACAAAT
Found at i:15967243 original size:12 final size:12
Alignment explanation
Indices: 15967220--15967251 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
15967210 ATTAAAATTA
15967220 ATTATT-TTACT
1 ATTATTATTACT
15967231 ATTATTATTACT
1 ATTATTATTACT
15967243 ATTATTATT
1 ATTATTATT
15967252 TTCCTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (12 bp):
ATTATTATTACT
Found at i:15967262 original size:27 final size:27
Alignment explanation
Indices: 15967203--15967263 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
15967193 ATTTTTGCTA
15967203 TTTTATTATTAAAATTAATTATTTTAC
1 TTTTATTATTAAAATTAATTATTTTAC
* ** *
15967230 TATTATTATTACTATT-ATTATTTTCC
1 TTTTATTATTAAAATTAATTATTTTAC
15967256 TGTTTATT
1 T-TTTATT
15967264 TATTTATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 10 0.36
27 18 0.64
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTTATTATTAAAATTAATTATTTTAC
Found at i:15967404 original size:18 final size:18
Alignment explanation
Indices: 15967368--15967406 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
15967358 ATTTATTTTA
* *
15967368 TTATATCATGTCATTTAT
1 TTATATCATCTCATATAT
*
15967386 TTATATCATCTTATATAT
1 TTATATCATCTCATATAT
15967404 TTA
1 TTA
15967407 AAACTTTAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.03, T:0.56
Consensus pattern (18 bp):
TTATATCATCTCATATAT
Found at i:15968422 original size:18 final size:18
Alignment explanation
Indices: 15968401--15968444 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
15968391 TGGTTCTTAC
15968401 TATTTTTAAAATTAAAT-A
1 TATTTTTAAAA-TAAATCA
*
15968419 TA-TTTTAAAATAATTCA
1 TATTTTTAAAATAAATCA
15968436 TATTTTTAA
1 TATTTTTAA
15968445 TCAAACTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 4 0.17
17 11 0.48
18 8 0.35
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
TATTTTTAAAATAAATCA
Found at i:15969264 original size:2 final size:2
Alignment explanation
Indices: 15969257--15969298 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
15969247 ATCATTCTCA
*
15969257 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15969299 GAAATACTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15973418 original size:12 final size:12
Alignment explanation
Indices: 15973393--15973431 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
15973383 ACTCGCTTCT
* *
15973393 TTACTTACTCAC
1 TTACTTGCTTAC
*
15973405 TTACTTGTTTAC
1 TTACTTGCTTAC
15973417 TTACTTGCTTAC
1 TTACTTGCTTAC
15973429 TTA
1 TTA
15973432 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:15973748 original size:50 final size:50
Alignment explanation
Indices: 15973680--15973872 Score: 185
Period size: 50 Copynumber: 3.7 Consensus size: 50
15973670 TTTTCTGTAC
* * *
15973680 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATCGG
* *
15973730 TGCTC-ATGCCATGTCCCAGACATGGTATTAC--GGGAGACCTCTCATCTCGG
1 TGC-CAATGCCATGTCCCAGACATGGTCTTACATGGGAG--CTCTCATATCGG
* * * *
15973780 TGCCAACGCCATGTCCCAGACATGGTCTCACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCAT-A--TC---GG
* *
15973836 TGCCATTGTCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
15973873 TCTCATTCCC
Statistics
Matches: 116, Mismatches: 15, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
48 5 0.04
49 1 0.01
50 69 0.59
51 1 0.01
52 4 0.03
53 2 0.02
56 34 0.29
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATCGG
Found at i:15981337 original size:50 final size:50
Alignment explanation
Indices: 15981246--15981436 Score: 168
Period size: 50 Copynumber: 3.7 Consensus size: 50
15981236 TTCTATACTA
* * * * * **
15981246 CCAATGTCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGGTG
* *
15981296 CCCATGCCATGTCCCAGACATGGTCTTA-AGGGGAACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACAGGGG-ACCTCTCATATCGGTG
** * * * *
15981346 CCAACACCATATCCCAGATATGGTCTTACATGGGACCTCTCATAATCTCATTGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAT-A--TC---GGTG
*
15981402 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 CCAATGCCATGTCCCAGACATGGTCTTACAGGGGA
15981437 TCTCATTCCC
Statistics
Matches: 112, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
49 4 0.04
50 68 0.61
51 4 0.04
53 2 0.02
56 34 0.30
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGGTG
Found at i:15993754 original size:13 final size:13
Alignment explanation
Indices: 15993736--15993760 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15993726 TTAATTGATT
15993736 TTTAAGGTTAATG
1 TTTAAGGTTAATG
15993749 TTTAAGGTTAAT
1 TTTAAGGTTAAT
15993761 TTGGTAAACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
TTTAAGGTTAATG
Found at i:15997790 original size:18 final size:18
Alignment explanation
Indices: 15997769--15997809 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
15997759 TTTTTGTATG
15997769 TAATAATATTTTAATAAA
1 TAATAATATTTTAATAAA
* *
15997787 TAATAATATTTTATTAAT
1 TAATAATATTTTAATAAA
15997805 TAATA
1 TAATA
15997810 TTATAATACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAATAATATTTTAATAAA
Found at i:16007807 original size:13 final size:13
Alignment explanation
Indices: 16007789--16007818 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
16007779 TGAGTGGGGG
16007789 ACACTTCAAAGGT
1 ACACTTCAAAGGT
16007802 ACACTTCAAAGGT
1 ACACTTCAAAGGT
16007815 ACAC
1 ACAC
16007819 GTACTGCGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.20
Consensus pattern (13 bp):
ACACTTCAAAGGT
Found at i:16009174 original size:48 final size:48
Alignment explanation
Indices: 16009103--16009195 Score: 186
Period size: 48 Copynumber: 1.9 Consensus size: 48
16009093 ATTCAAGACT
16009103 TGGTTGTTGTTTTTGTAAATATTTAAAATTAGATGTCTCTTTTTGTAA
1 TGGTTGTTGTTTTTGTAAATATTTAAAATTAGATGTCTCTTTTTGTAA
16009151 TGGTTGTTGTTTTTGTAAATATTTAAAATTAGATGTCTCTTTTTG
1 TGGTTGTTGTTTTTGTAAATATTTAAAATTAGATGTCTCTTTTTG
16009196 AAAATATTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.24, C:0.04, G:0.17, T:0.55
Consensus pattern (48 bp):
TGGTTGTTGTTTTTGTAAATATTTAAAATTAGATGTCTCTTTTTGTAA
Found at i:16009786 original size:16 final size:16
Alignment explanation
Indices: 16009765--16009795 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16009755 ATATTTAGTC
16009765 ATATAATAAATTATTA
1 ATATAATAAATTATTA
*
16009781 ATATAATTAATTATT
1 ATATAATAAATTATT
16009796 TTTAACAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:16009865 original size:16 final size:17
Alignment explanation
Indices: 16009829--16009865 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
16009819 AAATTTATTT
*
16009829 TAATAGTAAGTTTTAAA
1 TAATACTAAGTTTTAAA
16009846 -AATACTAA-TTTTAAA
1 TAATACTAAGTTTTAAA
16009861 TAATA
1 TAATA
16009866 TTATTCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (17 bp):
TAATACTAAGTTTTAAA
Found at i:16012016 original size:3 final size:3
Alignment explanation
Indices: 16012008--16012032 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
16011998 GAGGATCCTA
16012008 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
16012033 TCCCACAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:16013331 original size:11 final size:11
Alignment explanation
Indices: 16013317--16013342 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
16013307 AAGAAAAAAG
16013317 AAAAAAAGAAA
1 AAAAAAAGAAA
16013328 AAAAAAAGAAA
1 AAAAAAAGAAA
16013339 AAAA
1 AAAA
16013343 GAGCATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:16013332 original size:19 final size:19
Alignment explanation
Indices: 16013305--16013344 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
16013295 AAATGTTCTT
*
16013305 GAAAGAAAAAAGAAAAAAA
1 GAAAAAAAAAAGAAAAAAA
16013324 GAAAAAAAAAAGAAAAAAA
1 GAAAAAAAAAAGAAAAAAA
16013343 GA
1 GA
16013345 GCATATGTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (19 bp):
GAAAAAAAAAAGAAAAAAA
Found at i:16013699 original size:38 final size:38
Alignment explanation
Indices: 16013657--16013735 Score: 131
Period size: 38 Copynumber: 2.1 Consensus size: 38
16013647 TTGGTAGGGA
*
16013657 TTTAATATGTCTTTATTATGAAGTATTTAGCCTATTTT
1 TTTAACATGTCTTTATTATGAAGTATTTAGCCTATTTT
**
16013695 TTTAACATGTCTTTATTATGAAGTATTTAGTTTATTTT
1 TTTAACATGTCTTTATTATGAAGTATTTAGCCTATTTT
16013733 TTT
1 TTT
16013736 TCTATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.25, C:0.06, G:0.10, T:0.58
Consensus pattern (38 bp):
TTTAACATGTCTTTATTATGAAGTATTTAGCCTATTTT
Found at i:16017995 original size:18 final size:18
Alignment explanation
Indices: 16017953--16017995 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
16017943 TAATTTAGCC
*
16017953 ATTTTTATTTTTATTATA
1 ATTTTTGTTTTTATTATA
16017971 ATTTTTGTTTTTAGTT-TA
1 ATTTTTGTTTTTA-TTATA
16017989 ATTTTTG
1 ATTTTTG
16017996 CATTCTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (18 bp):
ATTTTTGTTTTTATTATA
Found at i:16030214 original size:24 final size:24
Alignment explanation
Indices: 16030145--16030217 Score: 94
Period size: 24 Copynumber: 3.0 Consensus size: 24
16030135 GGTAAGACAT
* *
16030145 TTTCCACAGCTCCTCTCTTCAACC
1 TTTCCATAGCTCCTCTCTTCACCC
*
16030169 TTTCCACT-GTTCCTCTCTTCACCC
1 TTTCCA-TAGCTCCTCTCTTCACCC
*
16030193 TTTCCATAGCTCCTCTATTCACCC
1 TTTCCATAGCTCCTCTCTTCACCC
16030217 T
1 T
16030218 ATCGATTGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 1 0.02
24 41 0.98
ACGTcount: A:0.14, C:0.44, G:0.04, T:0.38
Consensus pattern (24 bp):
TTTCCATAGCTCCTCTCTTCACCC
Found at i:16031118 original size:8 final size:8
Alignment explanation
Indices: 16031105--16031129 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
16031095 AATGTCGTTC
16031105 CTGTTGTT
1 CTGTTGTT
16031113 CTGTTGTT
1 CTGTTGTT
16031121 CTGTTGTT
1 CTGTTGTT
16031129 C
1 C
16031130 CTGGTAATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.16, G:0.24, T:0.60
Consensus pattern (8 bp):
CTGTTGTT
Found at i:16032121 original size:138 final size:138
Alignment explanation
Indices: 16031856--16032111 Score: 512
Period size: 138 Copynumber: 1.9 Consensus size: 138
16031846 AAGTTTCAAA
16031856 TTATTATAACAAGTGAACTAAAATATTTTAAGATTTTAGGTTAAGTATTTGGGAGGTTTTCTATT
1 TTATTATAACAAGTGAACTAAAATATTTTAAGATTTTAGGTTAAGTATTTGGGAGGTTTTCTATT
16031921 ATAAGAATCGAATCAAATTAATTTTTTATTATTAAATGAATTAATTTAATAATAAAGATATTAAC
66 ATAAGAATCGAATCAAATTAATTTTTTATTATTAAATGAATTAATTTAATAATAAAGATATTAAC
16031986 TTTTTTAC
131 TTTTTTAC
16031994 TTATTATAACAAGTGAACTAAAATATTTTAAGATTTTAGGTTAAGTATTTGGGAGGTTTTCTATT
1 TTATTATAACAAGTGAACTAAAATATTTTAAGATTTTAGGTTAAGTATTTGGGAGGTTTTCTATT
16032059 ATAAGAATCGAATCAAATTAATTTTTTATTATTAAATGAATTAATTTAATAAT
66 ATAAGAATCGAATCAAATTAATTTTTTATTATTAAATGAATTAATTTAATAAT
16032112 CTCTATATTA
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
138 118 1.00
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.44
Consensus pattern (138 bp):
TTATTATAACAAGTGAACTAAAATATTTTAAGATTTTAGGTTAAGTATTTGGGAGGTTTTCTATT
ATAAGAATCGAATCAAATTAATTTTTTATTATTAAATGAATTAATTTAATAATAAAGATATTAAC
TTTTTTAC
Found at i:16034240 original size:27 final size:29
Alignment explanation
Indices: 16034175--16034244 Score: 83
Period size: 27 Copynumber: 2.5 Consensus size: 29
16034165 GAAATTTTAG
*
16034175 ATTGTTGGATTTTGATATACGTCTTGAAC
1 ATTGTTGGATATTGATATACGTCTTGAAC
* * *
16034204 -TTGTTAGATATTGAT-TATGT-TTTAAC
1 ATTGTTGGATATTGATATACGTCTTGAAC
16034230 ATTGTTGGATATTGA
1 ATTGTTGGATATTGA
16034245 ATTGATTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 5 0.14
27 17 0.49
28 13 0.37
ACGTcount: A:0.26, C:0.06, G:0.20, T:0.49
Consensus pattern (29 bp):
ATTGTTGGATATTGATATACGTCTTGAAC
Found at i:16054800 original size:17 final size:17
Alignment explanation
Indices: 16054778--16054810 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16054768 TTTTTAAACT
*
16054778 GTGTGAGTCACACGACC
1 GTGTGACTCACACGACC
16054795 GTGTGACTCACACGAC
1 GTGTGACTCACACGAC
16054811 TGAGACATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.30, G:0.27, T:0.18
Consensus pattern (17 bp):
GTGTGACTCACACGACC
Found at i:16059003 original size:15 final size:16
Alignment explanation
Indices: 16058959--16059020 Score: 81
Period size: 15 Copynumber: 3.8 Consensus size: 16
16058949 ATCTCATTAT
16058959 GTAAAATTGATTACGG
1 GTAAAATTGATTACGG
*
16058975 GTAAACCTATGATTACGG
1 GTAAA-AT-TGATTACGG
*
16058993 GTAAAA-TGATTACAG
1 GTAAAATTGATTACGG
16059008 GTAAAATTGATTA
1 GTAAAATTGATTA
16059021 AAAAATAGCA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
15 14 0.35
16 11 0.28
17 1 0.03
18 14 0.35
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (16 bp):
GTAAAATTGATTACGG
Found at i:16060884 original size:30 final size:30
Alignment explanation
Indices: 16060850--16060911 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
16060840 ATAATTCAAC
*
16060850 ATATTAATTACTTAAAAATATATAAATTTT
1 ATATTAATTACTTAAAAATATATAAAATTT
*
16060880 ATATTAATTACTTAAAAATATTTAAAATTT
1 ATATTAATTACTTAAAAATATATAAAATTT
16060910 AT
1 AT
16060912 TTCATATATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (30 bp):
ATATTAATTACTTAAAAATATATAAAATTT
Found at i:16061501 original size:21 final size:21
Alignment explanation
Indices: 16061477--16061520 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
16061467 GTGACTTTTT
*
16061477 AAATAATTTA-AAAGTTATAAA
1 AAATAATTTAGAAA-ATATAAA
*
16061498 AAATTATTTAGAAAATATAAA
1 AAATAATTTAGAAAATATAAA
16061519 AA
1 AA
16061521 TATTATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (21 bp):
AAATAATTTAGAAAATATAAA
Found at i:16066626 original size:26 final size:26
Alignment explanation
Indices: 16066590--16066643 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
16066580 AAATGATGCG
16066590 AAAGAAAGGATTTGAACTTGGATTTC
1 AAAGAAAGGATTTGAACTTGGATTTC
16066616 AAAGAAAGGATTTGAACTTGGATTTC
1 AAAGAAAGGATTTGAACTTGGATTTC
16066642 AA
1 AA
16066644 GGAATGTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (26 bp):
AAAGAAAGGATTTGAACTTGGATTTC
Found at i:16067188 original size:157 final size:156
Alignment explanation
Indices: 16066952--16067423 Score: 714
Period size: 157 Copynumber: 3.0 Consensus size: 156
16066942 GTTGTGTGTT
* * * ** * *
16066952 CATGTTTGAGGAGAGAGAAAATTAGGTTAAGGTTTGAAATTGAGGGAAAAAAGTATGAATATCAA
1 CATGTTTGAGGAGAGAGAAAATAATGTTAAGGTTTTAAATCAAGAG-AACAAGTATGAATATCAA
* *
16067017 GGTTTCATTATGTTTTCAAGTTTAATCTTGTTGGAAAATTATAGAATTGATGTTCG-AGTGAAGA
65 GGTTTCATTATGTTTTCAAGTTTAATCTTGTTGGAAAATTATAGAAATGATGTT-GAAGTAAAGA
16067081 TTTCTC-TAGGAAATTTTTATGTTTTTGA
129 TTTCTCAT-GGAAATTTTTATGTTTTTGA
*
16067109 CATGTTTGAGGAGAGAGAAAATAATGCTAAGGTTTTAAATCAAGAGAACAATGTATGAATATCAA
1 CATGTTTGAGGAGAGAGAAAATAATGTTAAGGTTTTAAATCAAGAGAACAA-GTATGAATATCAA
* *
16067174 GGTTACATTATGTTTTTAAGTTTAATCTTGTTGGAAAATTATAGAAATGATGTTGAAGTAAAGAT
65 GGTTTCATTATGTTTTCAAGTTTAATCTTGTTGGAAAATTATAGAAATGATGTTGAAGTAAAGAT
*
16067239 TTCTCATGGAAAGTTTTATGTTTTTGA
130 TTCTCATGGAAATTTTTATGTTTTTGA
* * *
16067266 CATGTTTAAGGAGAGAGAAAATCATATTAAGGTTTTAAATCAAGAGAACAAGATATGAATATCAA
1 CATGTTTGAGGAGAGAGAAAATAATGTTAAGGTTTTAAATCAAGAGAACAAG-TATGAATATCAA
*
16067331 GGTTTCATTATGTTTTCAAGTTTAATCTTGTTGGAAAAGTATAGAAATGATGTTGAAGTAAAGAT
65 GGTTTCATTATGTTTTCAAGTTTAATCTTGTTGGAAAATTATAGAAATGATGTTGAAGTAAAGAT
*
16067396 TTCTCATGGAAAGTTTTTTTGTTTTTGA
130 TTCTCATGGAAA-TTTTTATGTTTTTGA
16067424 ATAAAGAAAT
Statistics
Matches: 288, Mismatches: 22, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
156 6 0.02
157 268 0.93
158 14 0.05
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.38
Consensus pattern (156 bp):
CATGTTTGAGGAGAGAGAAAATAATGTTAAGGTTTTAAATCAAGAGAACAAGTATGAATATCAAG
GTTTCATTATGTTTTCAAGTTTAATCTTGTTGGAAAATTATAGAAATGATGTTGAAGTAAAGATT
TCTCATGGAAATTTTTATGTTTTTGA
Found at i:16067439 original size:8 final size:8
Alignment explanation
Indices: 16067428--16067452 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
16067418 TTTTGAATAA
16067428 AGAAATTG
1 AGAAATTG
16067436 AGAAATTG
1 AGAAATTG
16067444 AGAAATTG
1 AGAAATTG
16067452 A
1 A
16067453 ATCAAGTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (8 bp):
AGAAATTG
Found at i:16071230 original size:95 final size:95
Alignment explanation
Indices: 16071067--16071255 Score: 315
Period size: 95 Copynumber: 2.0 Consensus size: 95
16071057 TCATGTCTTG
* * *
16071067 AGACATATTGGACTTTGTCTCGGGACATAAATCCTTTTGTTGAGACATTCAAGCTTTTGTCTCGA
1 AGACATATTGGACTTTGTCTCGAGACATAAATCCCTTTGTTGAGACATTCAAGATTTTGTCTCGA
* *
16071132 GACAAATAGACTTAGAACTAAAATTTTTTT
66 GACAAATAGACCTAGAACTAAAAGTTTTTT
16071162 AGACATATTGGACTTTGTCTCGAGACATAAATCCCTTTGTTGAGACATTCAAGATTTTGTCTCGA
1 AGACATATTGGACTTTGTCTCGAGACATAAATCCCTTTGTTGAGACATTCAAGATTTTGTCTCGA
* *
16071227 GACAGATAGACCTAGAACTGAAAGTTTTT
66 GACAAATAGACCTAGAACTAAAAGTTTTT
16071256 AATTTAGCCA
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
95 87 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (95 bp):
AGACATATTGGACTTTGTCTCGAGACATAAATCCCTTTGTTGAGACATTCAAGATTTTGTCTCGA
GACAAATAGACCTAGAACTAAAAGTTTTTT
Found at i:16081476 original size:16 final size:16
Alignment explanation
Indices: 16081455--16081486 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16081445 ATTTTGTTGC
*
16081455 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
16081471 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
16081487 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:16081772 original size:51 final size:51
Alignment explanation
Indices: 16081704--16081904 Score: 228
Period size: 51 Copynumber: 4.0 Consensus size: 51
16081694 ATTAATTATA
* * * * *
16081704 CTGGTTCACATAGTAGCCTGCACATAGTACTAAACATGTGAACATCACTAT
1 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
* * * *
16081755 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCA-AAGCTAT
1 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCA-CTAT
* * * * * *
16081806 CTGGTACGCATAGTAGCTTGCACATACTACTACACATGCGACCTATCA-T-T
1 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTAT
16081856 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
16081905 TTCACTTTCA
Statistics
Matches: 122, Mismatches: 24, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
49 4 0.03
50 40 0.33
51 76 0.62
52 1 0.01
53 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (51 bp):
CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
Found at i:16081891 original size:101 final size:102
Alignment explanation
Indices: 16081712--16081896 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
16081702 TACTGGTTCA
* *
16081712 CATAGTAGCCTGCACATAGTACTAAACATGTGAACATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATACTACTAAACATGCGAACATCACTATCCGATACACGTAGTAGCCTGCA
16081777 CATAGTACTACACACGTGATCAAAGCTATCTGGTACG
66 CATAGTACTACACACGTGATCAAAGCTATCTGGTACG
* * * * *
16081814 CATAGTAGCTTGCACATACTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATACTACTAAACATGCGAAC-ATCACTATCCGATACACGTAGTAGCCTGC
16081877 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
16081897 CCATCACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
101 40 0.53
102 31 0.41
103 4 0.05
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTGCACATACTACTAAACATGCGAACATCACTATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCAAAGCTATCTGGTACG
Found at i:16081919 original size:101 final size:102
Alignment explanation
Indices: 16081707--16081930 Score: 256
Period size: 101 Copynumber: 2.2 Consensus size: 102
16081697 AATTATACTG
* *
16081707 GTTCACATAGTAGCCTGCACATAGTACTAAACATGTGAACATCACTATCCGATACACGTAGTAGC
1 GTTCACATAGTAGCCTGCACATACTACTAAACATGCGAACATCACTATCCGATACACGTAGTAGC
* **
16081772 CTGCACATAGTACTACACACGTGATCAAAGCTATCTG
66 CTGCACATAGTACTACACACGTGACCAAAGCTATCAC
* * * * * * *
16081809 GTACGCATAGTAGCTTGCACATACTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAG
1 GTTCACATAGTAGCCTGCACATACTACTAAACATGCGAAC-ATCACTATCCGATACACGTAGTAG
* *
16081872 CCTGCACATAGTACTACACACGTGACCATCA-CTTTCAC
65 CCTGCACATAGTACTACACACGTGACCA-AAGCTATCAC
* * *
16081910 TTTCACATAGTGGCCTACACA
1 GTTCACATAGTAGCCTGCACA
16081931 CAGTCCATGC
Statistics
Matches: 100, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
101 61 0.61
102 35 0.35
103 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (102 bp):
GTTCACATAGTAGCCTGCACATACTACTAAACATGCGAACATCACTATCCGATACACGTAGTAGC
CTGCACATAGTACTACACACGTGACCAAAGCTATCAC
Found at i:16086380 original size:18 final size:18
Alignment explanation
Indices: 16086357--16086392 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
16086347 AGTTTATGCA
16086357 CACTTATCA-TGTTCATAT
1 CACTTATCACT-TTCATAT
16086375 CACTTATCACTTTCATAT
1 CACTTATCACTTTCATAT
16086393 AATGCACTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 16 0.94
19 1 0.06
ACGTcount: A:0.28, C:0.25, G:0.03, T:0.44
Consensus pattern (18 bp):
CACTTATCACTTTCATAT
Found at i:16087735 original size:15 final size:15
Alignment explanation
Indices: 16087715--16087751 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
16087705 ATTTCTTAAC
16087715 TTAATTTTTTATTAT
1 TTAATTTTTTATTAT
16087730 TTAATTTTTTATTAT
1 TTAATTTTTTATTAT
*
16087745 TTTATTT
1 TTAATTT
16087752 AATTGATTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTAATTTTTTATTAT
Found at i:16098236 original size:23 final size:23
Alignment explanation
Indices: 16098210--16098253 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
16098200 TAAGGAAAGC
16098210 ATGCAGCTGGACATTCATGCATA
1 ATGCAGCTGGACATTCATGCATA
* *
16098233 ATGCGGTTGGACATTCATGCA
1 ATGCAGCTGGACATTCATGCA
16098254 CATTGCCAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (23 bp):
ATGCAGCTGGACATTCATGCATA
Found at i:16100538 original size:24 final size:24
Alignment explanation
Indices: 16100523--16100579 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
16100513 AAAGTTGAGA
*
16100523 GAAAATGAACAAGAAAAAAAGAAT
1 GAAAATGAACAAGAAAAGAAGAAT
*
16100547 GAAAATGAACAAGAAAAGAAAAAT
1 GAAAATGAACAAGAAAAGAAGAAT
16100571 GAAAATGAA
1 GAAAATGAA
16100580 AAAAATTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.70, C:0.04, G:0.18, T:0.09
Consensus pattern (24 bp):
GAAAATGAACAAGAAAAGAAGAAT
Found at i:16113338 original size:27 final size:27
Alignment explanation
Indices: 16113307--16113363 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
16113297 TTGAATTAGT
16113307 TTAGTTAATTT-GATTTCAATTTATTTG
1 TTAGTTAATTTGGATTT-AATTTATTTG
* * *
16113334 TTAGTTAGTTTGGCTTTAGTTTATTTG
1 TTAGTTAATTTGGATTTAATTTATTTG
16113361 TTA
1 TTA
16113364 CAAATTATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.21, C:0.04, G:0.16, T:0.60
Consensus pattern (27 bp):
TTAGTTAATTTGGATTTAATTTATTTG
Found at i:16119620 original size:30 final size:30
Alignment explanation
Indices: 16119567--16119634 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
16119557 TTCCGATAAC
* *
16119567 ATAATTAATGTTAAAATGTTTTCTCA-TACT
1 ATAATTAATGATAAAATGCTTTCTCATTA-T
*
16119597 ATAATTAAT-ATAAACATGCTTTCTTATTAT
1 ATAATTAATGATAAA-ATGCTTTCTCATTAT
16119627 ATAATTAA
1 ATAATTAA
16119635 AAAAAGTTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 4 0.12
30 27 0.82
31 2 0.06
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (30 bp):
ATAATTAATGATAAAATGCTTTCTCATTAT
Found at i:16120486 original size:14 final size:15
Alignment explanation
Indices: 16120462--16120492 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
16120452 TAAACGTTAA
16120462 AATTATTTTAAAATT
1 AATTATTTTAAAATT
16120477 AATT-TTTTAAAATT
1 AATTATTTTAAAATT
16120491 AA
1 AA
16120493 AAATAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
AATTATTTTAAAATT
Found at i:16125901 original size:42 final size:42
Alignment explanation
Indices: 16125853--16125949 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
16125843 AATGGGTTTG
*
16125853 CTCACACAAGCTGCCGGTAAGAATGTAAGCTATATGATGCTA
1 CTCACACAAGCTGCCGGTAAGAATGTAAGCTACATGATGCTA
*** ** * * *
16125895 CTCACACAAGCTATTGGTCGGAATGTAAGCTGCATGATGTTG
1 CTCACACAAGCTGCCGGTAAGAATGTAAGCTACATGATGCTA
16125937 CTCACACAAGCTG
1 CTCACACAAGCTG
16125950 TCAAGTATCC
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (42 bp):
CTCACACAAGCTGCCGGTAAGAATGTAAGCTACATGATGCTA
Found at i:16126278 original size:2 final size:2
Alignment explanation
Indices: 16126266--16126318 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
16126256 GATAAATTGC
*
16126266 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16126308 TA TA TA TA TA T
1 TA TA TA TA TA T
16126319 GGTTCAATCA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:16131932 original size:15 final size:16
Alignment explanation
Indices: 16131896--16131933 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
16131886 TACATGTCAG
16131896 TATTTTTCAAATTTAA
1 TATTTTTCAAATTTAA
16131912 TATTTTTCAAATTTAA
1 TATTTTTCAAATTTAA
16131928 T-TTTTT
1 TATTTTT
16131934 ATATTACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTTTCAAATTTAA
Found at i:16137857 original size:16 final size:16
Alignment explanation
Indices: 16137836--16137867 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16137826 TTTAGTTATT
16137836 ATTTAAAAGAATTTTA
1 ATTTAAAAGAATTTTA
*
16137852 ATTTAAAAGATTTTTA
1 ATTTAAAAGAATTTTA
16137868 GATAAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
ATTTAAAAGAATTTTA
Found at i:16137924 original size:51 final size:49
Alignment explanation
Indices: 16137852--16137970 Score: 132
Period size: 51 Copynumber: 2.4 Consensus size: 49
16137842 AAGAATTTTA
* * * *
16137852 ATTTAAAAGATTTTTAGATAAATA-ATAATTAAACATAATTTAATTATTATT
1 ATTTAAAAAAGTTTTAAATAAA-AGATAATTAAACAGAATTTAA--ATTATT
* *
16137903 ATTTAAAAAAGTTTTAAATAAAAGATAATTAAATAGAATTTCAATTATT
1 ATTTAAAAAAGTTTTAAATAAAAGATAATTAAACAGAATTTAAATTATT
*
16137952 ATTTAAAAGAGGTTTTAAA
1 ATTTAAAA-AAGTTTTAAA
16137971 ATTCAGGATA
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
49 14 0.24
50 10 0.17
51 35 0.59
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (49 bp):
ATTTAAAAAAGTTTTAAATAAAAGATAATTAAACAGAATTTAAATTATT
Found at i:16138032 original size:21 final size:21
Alignment explanation
Indices: 16138008--16138052 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
16137998 TCAAATAAGG
*
16138008 AAAGAGATTTTAAAT-TATTTA
1 AAAGA-ATTTTAAATATATATA
*
16138029 AAAGATTTTTAAATATATATA
1 AAAGAATTTTAAATATATATA
16138050 AAA
1 AAA
16138053 CCTCAAATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (21 bp):
AAAGAATTTTAAATATATATA
Found at i:16139203 original size:18 final size:19
Alignment explanation
Indices: 16139180--16139225 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
16139170 CGGTGTGTTT
16139180 ATTAAATATGTTT-CATGA
1 ATTAAATATGTTTGCATGA
16139198 ATTAAAT-T-TTTGCATGA
1 ATTAAATATGTTTGCATGA
*
16139215 CTTGAAATATG
1 ATT-AAATATG
16139226 GTGATTGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 11 0.48
19 1 0.04
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (19 bp):
ATTAAATATGTTTGCATGA
Found at i:16139322 original size:17 final size:17
Alignment explanation
Indices: 16139300--16139336 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
16139290 AGGATAAAAG
16139300 TATGTCCTTGTTATTGA
1 TATGTCCTTGTTATTGA
16139317 TATGTCCTTGTTATTGA
1 TATGTCCTTGTTATTGA
16139334 TAT
1 TAT
16139337 ATGGAAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.19, C:0.11, G:0.16, T:0.54
Consensus pattern (17 bp):
TATGTCCTTGTTATTGA
Found at i:16139946 original size:6 final size:6
Alignment explanation
Indices: 16139935--16139960 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
16139925 TATTTAAAGT
16139935 TTTAAA TTTAAA TTTAAA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TT
16139961 AATATTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:16139967 original size:18 final size:20
Alignment explanation
Indices: 16139925--16139967 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 20
16139915 ACACTGAACT
16139925 TATTTAAAGTTTTAAATTTAA
1 TATTTAAAG-TTTAAATTTAA
16139946 -ATTTAAA-TTTAAA-TTAA
1 TATTTAAAGTTTAAATTTAA
16139963 TATTT
1 TATTT
16139968 GTTCAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.19
18 10 0.48
20 7 0.33
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
TATTTAAAGTTTAAATTTAA
Found at i:16144792 original size:49 final size:53
Alignment explanation
Indices: 16144683--16144793 Score: 131
Period size: 49 Copynumber: 2.2 Consensus size: 53
16144673 ACAATGATTT
* *
16144683 AGGTGTGTTTCTGGAGGCGGATGTAAAGCCTTCGGGCTTGGCACTTAGTGACA
1 AGGTGTGTTTCTGGAGGCGGATGTAAAGCCTACGGGCTTGGAACTTAGTGACA
* * * * *
16144736 AGTTGTGTTTC-GGA-G-GGATGT-TAGCCTACGGGCTTGGAACTTGGTGCCC
1 AGGTGTGTTTCTGGAGGCGGATGTAAAGCCTACGGGCTTGGAACTTAGTGACA
16144785 AGGTGTGTT
1 AGGTGTGTT
16144794 CTTGGATGGT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
49 30 0.60
50 6 0.12
51 1 0.02
52 3 0.06
53 10 0.20
ACGTcount: A:0.16, C:0.16, G:0.37, T:0.31
Consensus pattern (53 bp):
AGGTGTGTTTCTGGAGGCGGATGTAAAGCCTACGGGCTTGGAACTTAGTGACA
Found at i:16148376 original size:29 final size:29
Alignment explanation
Indices: 16148356--16148417 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
16148346 TGAATGTTAG
16148356 TATATGATTCTATTGTGATTGAATCATTA
1 TATATGATTCTATTGTGATTGAATCATTA
16148385 TATATGATTCTATTGTGATTGAATCATTA
1 TATATGATTCTATTGTGATTGAATCATTA
16148414 TATA
1 TATA
16148418 CTTTTTATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.48
Consensus pattern (29 bp):
TATATGATTCTATTGTGATTGAATCATTA
Found at i:16158035 original size:17 final size:17
Alignment explanation
Indices: 16158013--16158045 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16158003 CACTAACATG
*
16158013 AAAATGTAATGACAATA
1 AAAATGCAATGACAATA
16158030 AAAATGCAATGACAAT
1 AAAATGCAATGACAAT
16158046 GTGTACTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:16171521 original size:12 final size:13
Alignment explanation
Indices: 16171497--16171525 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
16171487 CGACTATAAC
16171497 TATTGCATTTATT
1 TATTGCATTTATT
16171510 TATTGC-TTTATT
1 TATTGCATTTATT
16171522 TATT
1 TATT
16171526 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:16174123 original size:15 final size:16
Alignment explanation
Indices: 16174094--16174123 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16174084 TGCTTTCACA
16174094 CTAAATCGTGTTCAAT
1 CTAAATCGTGTTCAAT
16174110 CTAAATCG-GTTCAA
1 CTAAATCGTGTTCAA
16174124 AAGACGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (16 bp):
CTAAATCGTGTTCAAT
Found at i:16174391 original size:64 final size:64
Alignment explanation
Indices: 16174284--16174412 Score: 206
Period size: 64 Copynumber: 2.0 Consensus size: 64
16174274 AAAGGATATT
* * * *
16174284 ATTTTTTTAATCCCACTAAGAACAAAATATTTGTTGCTTAGACTGGTGTGTTTGTAGAGAGAGA
1 ATTTTTTTAATCCCACTAAGAACAAAATATTTGCTGCTTAGACTGGTGTCTTTCTAGAAAGAGA
16174348 ATTTTTTTAATCCCACTAAGAACAAAATATTTGCTG-TTCAGACTGGTGTCTTTCTAGAAAGAGA
1 ATTTTTTTAATCCCACTAAGAACAAAATATTTGCTGCTT-AGACTGGTGTCTTTCTAGAAAGAGA
16174412 A
1 A
16174413 GTGGGAGAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
63 2 0.03
64 58 0.97
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (64 bp):
ATTTTTTTAATCCCACTAAGAACAAAATATTTGCTGCTTAGACTGGTGTCTTTCTAGAAAGAGA
Found at i:16182473 original size:42 final size:42
Alignment explanation
Indices: 16182416--16182520 Score: 138
Period size: 42 Copynumber: 2.5 Consensus size: 42
16182406 ATCAGGTAGT
* *
16182416 TACACGGCCTAGCACACGGGCATGTAAGGCCATTTTGAGAGG
1 TACACGGCCTGGCACACGGGCATGTAAGGCCATTTCGAGAGG
* * * * *
16182458 TACATGGCCTGGCACATGAGCGTGTGAGGCCATTTCGAGAGG
1 TACACGGCCTGGCACACGGGCATGTAAGGCCATTTCGAGAGG
*
16182500 TACACGGCTTGGCACACGGGC
1 TACACGGCCTGGCACACGGGC
16182521 GTATGGCTTG
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.23, C:0.25, G:0.33, T:0.19
Consensus pattern (42 bp):
TACACGGCCTGGCACACGGGCATGTAAGGCCATTTCGAGAGG
Found at i:16190042 original size:40 final size:40
Alignment explanation
Indices: 16189922--16190146 Score: 244
Period size: 40 Copynumber: 5.7 Consensus size: 40
16189912 TTATTGTATA
* **
16189922 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCGTTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCTG
* ** * *
16189962 AATGCCCATA--TGTTCC--TTTGTACTTCCGTACCCCTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCTG
* * * * *
16189998 AATGCACATATGTGGCCCTGTTTGTACATCAGTGCCCTTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCTG
* *
16190038 AATGCACATATGTGCCCCTGTTCGTACTTC-GATACCCCTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCAG-TACCCCTG
* * *
16190078 AATGCACATACATGTCCCTATTTGTACTTCAGTACCCCTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCTG
16190118 AATGCACATACGTGCCCCTGTTTGTACTT
1 AATGCACATACGTGCCCCTGTTTGTACTT
16190147 TAATACTCCT
Statistics
Matches: 151, Mismatches: 28, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
36 25 0.17
38 8 0.05
39 1 0.01
40 116 0.77
41 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.33
Consensus pattern (40 bp):
AATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCTG
Found at i:16190052 original size:20 final size:19
Alignment explanation
Indices: 16189993--16190054 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
16189983 ACTTCCGTAC
*
16189993 CCCTAAATGCACATATGTGG
1 CCCTGAATGCACATATGT-G
** *
16190013 CCCTGTTTGTACATCA-GTG
1 CCCTGAATGCACAT-ATGTG
16190032 CCCTTGAATGCACATATGTG
1 CCC-TGAATGCACATATGTG
16190052 CCC
1 CCC
16190055 CTGTTCGTAC
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
19 5 0.16
20 26 0.81
21 1 0.03
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (19 bp):
CCCTGAATGCACATATGTG
Found at i:16190102 original size:80 final size:79
Alignment explanation
Indices: 16189920--16190146 Score: 273
Period size: 80 Copynumber: 2.9 Consensus size: 79
16189910 AATTATTGTA
* * * *
16189920 TAAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCGTTGAATGCCCATATGT--TCCT-TTG
1 TAAATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCTTGAATGCACATATGTGCCCCTGTTG
16189982 TACTTCCGTACCCC
66 TACTTCCGTACCCC
* * * *
16189996 TAAATGCACATATGTGGCCCTGTTTGTACATCAGTGCCCTTGAATGCACATATGTGCCCCTGTTC
1 TAAATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCTTGAATGCACATATGTGCCCCTGTT-
16190061 GTACTT-CGATACCCC
65 GTACTTCCG-TACCCC
* * * * * *
16190076 TGAATGCACATACATGTCCCTATTTGTACTTCAGTACCCCTGAATGCACATACGTGCCCCTGTTT
1 TAAATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCTTGAATGCACATATGTGCCCCTG-TT
16190141 GTACTT
65 GTACTT
16190147 TAATACTCCT
Statistics
Matches: 128, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
76 48 0.38
78 3 0.02
79 4 0.03
80 71 0.55
81 2 0.02
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (79 bp):
TAAATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCTTGAATGCACATATGTGCCCCTGTTG
TACTTCCGTACCCC
Found at i:16191207 original size:15 final size:15
Alignment explanation
Indices: 16191187--16191216 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
16191177 GCCTCAAAGG
16191187 TCTGATTTAAAACCC
1 TCTGATTTAAAACCC
16191202 TCTGATTTAAAACCC
1 TCTGATTTAAAACCC
16191217 AGTTGTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.33
Consensus pattern (15 bp):
TCTGATTTAAAACCC
Found at i:16194856 original size:35 final size:35
Alignment explanation
Indices: 16194810--16194880 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
16194800 TAACTAAAAA
16194810 ATTGATTAAAAAGGGATGTGAAGCTTATTTATCAT
1 ATTGATTAAAAAGGGATGTGAAGCTTATTTATCAT
16194845 ATTGATTAAAAAGGGATGTGAAGCTTATTTATCAT
1 ATTGATTAAAAAGGGATGTGAAGCTTATTTATCAT
16194880 A
1 A
16194881 CATTCTTGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.38, C:0.06, G:0.20, T:0.37
Consensus pattern (35 bp):
ATTGATTAAAAAGGGATGTGAAGCTTATTTATCAT
Found at i:16198526 original size:40 final size:39
Alignment explanation
Indices: 16198460--16198616 Score: 197
Period size: 40 Copynumber: 3.9 Consensus size: 39
16198450 AATTATTGTA
* *
16198460 TGAATGCACATATGTGCCCCTATTTGTACTTCGATACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTT-GATACCCC
* ** *
16198500 TGAATGCACACACGTGCTTCTGTTTGTACTATGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACT-TGATACCCC
*
16198540 TGAATGCACATACGTGCCCCTGTTTGTACCTTGATACCCT
1 TGAATGCACATACGTGCCCCTGTTTGTA-CTTGATACCCC
* *
16198580 TGAATGCGCATATGTGCCCCTGTTTGTACTTCGATAC
1 TGAATGCACATACGTGCCCCTGTTTGTACTT-GATAC
16198617 TCCTAAAGGC
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.03
40 95 0.94
41 3 0.03
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.33
Consensus pattern (39 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTGATACCCC
Found at i:16200802 original size:56 final size:50
Alignment explanation
Indices: 16200735--16200925 Score: 147
Period size: 50 Copynumber: 3.7 Consensus size: 50
16200725 GGGGATGAGA
* **
16200735 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATTATTAACGTTATGAGAGG
1 TCCCACGTAAGACCATGTTTGGGACATGGCATTGGC------AACGAAATGAGAGG
* * * *
16200791 TCCCACGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAAATGAGAGG
1 TCCCACGTAAGACCATGTTTGGGACATGGCATTGGCAACGAAATGAGAGG
* * * *
16200841 TCCCCCGTAAGACCATGTTTGGGACATGGCCTTTGCAGTACAGAAA--ACA--
1 TCCCACGTAAGACCATGTTTGGGACATGGCATTGGCA--AC-GAAATGAGAGG
* * *
16200890 TCCCATGGAAGACCATGTTTGGGACATGGCTTTGGC
1 TCCCACGTAAGACCATGTTTGGGACATGGCATTGGC
16200926 TAGTTATTAT
Statistics
Matches: 113, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
49 31 0.27
50 43 0.38
51 2 0.02
52 1 0.01
53 4 0.04
56 32 0.28
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTTTGGGACATGGCATTGGCAACGAAATGAGAGG
Found at i:16201154 original size:20 final size:20
Alignment explanation
Indices: 16201129--16201167 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
16201119 TGAGTTATTT
16201129 AAGTAATCA-AGTAAGTAAAC
1 AAGTAA-CAGAGTAAGTAAAC
*
16201149 AAGTAAGAGAGTAAGTAAA
1 AAGTAACAGAGTAAGTAAA
16201168 GAAGAAGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.56, C:0.05, G:0.21, T:0.18
Consensus pattern (20 bp):
AAGTAACAGAGTAAGTAAAC
Found at i:16209163 original size:40 final size:38
Alignment explanation
Indices: 16209101--16209206 Score: 113
Period size: 40 Copynumber: 2.7 Consensus size: 38
16209091 GTTTGGACAA
* * * *
16209101 AAAACACCACTAAAAATTGAGCATTAGCGGCGCTAAACAT
1 AAAACGCCGCTAAAAA-TGAGCATTAGCAGCGCT-AACAG
* **
16209141 AAAACGCCGCTAAAGATCGAGCATTAGCAGCGCTTTCAG
1 AAAACGCCGCTAAAAAT-GAGCATTAGCAGCGCTAACAG
16209180 AAAAGCGCCGCTAAAAATGAGCATTAG
1 AAAA-CGCCGCTAAAAATGAGCATTAG
16209207 TGGTGTTTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
39 16 0.29
40 40 0.71
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.17
Consensus pattern (38 bp):
AAAACGCCGCTAAAAATGAGCATTAGCAGCGCTAACAG
Found at i:16209330 original size:41 final size:40
Alignment explanation
Indices: 16209273--16209507 Score: 192
Period size: 41 Copynumber: 5.8 Consensus size: 40
16209263 ACCTTTCGGG
* * *
16209273 GCTTTAGCGGCATTTTTTCAAAAGCGACGCTAATGCTCTA
1 GCTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCTA
* *
16209313 GCTTTTAGCAGCG-TTTTTAATAAAGCGCCGCTAATGCTCAGA
1 GC-TTTAGCGGCGTTTTTTAA-AAAGCGCCGCTAATGCTC-TA
* *
16209355 GCTTTAGCGGC-ATTTTTAGAAATGCGCCGCTAATGCTCTA
1 GCTTTAGCGGCGTTTTTTA-AAAAGCGCCGCTAATGCTCTA
* * * ****
16209395 GCTTTTAGCAGC-ATTCTTAAGAAAGCATTACTAATGCT-TA
1 GC-TTTAGCGGCGTTTTTTAA-AAAGCGCCGCTAATGCTCTA
*
16209435 GACCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC-A
1 G--CTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCTA
* *
16209476 GGGCTTTAGCGGCGTTTTTCAAAAAACGCCGC
1 --GCTTTAGCGGCGTTTTTTAAAAAGCGCCGC
16209508 AAAAACACTT
Statistics
Matches: 157, Mismatches: 25, Indels: 25
0.76 0.12 0.12
Matches are distributed among these distances:
40 15 0.10
41 131 0.83
42 10 0.06
43 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (40 bp):
GCTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCTA
Found at i:16209420 original size:82 final size:81
Alignment explanation
Indices: 16209273--16209474 Score: 260
Period size: 82 Copynumber: 2.5 Consensus size: 81
16209263 ACCTTTCGGG
* * * * *
16209273 GCTTTAGCGGCATTTTTTCAAAAGCGACGCTAATGCTCTAGCTTTTAGCAGCGTTTTTAATAAAG
1 GCTTTAGCGGCA-TTTTTGAAAAGCGCCGCTAATGCTCTAGCTTTTAGCAGCATTCTTAAGAAAG
* *
16209338 CGCCGCTAATGCTCAGA
65 CACCACTAATGCTCAGA
*
16209355 GCTTTAGCGGCATTTTTAGAAATGCGCCGCTAATGCTCTAGCTTTTAGCAGCATTCTTAAGAAAG
1 GCTTTAGCGGCATTTTT-GAAAAGCGCCGCTAATGCTCTAGCTTTTAGCAGCATTCTTAAGAAAG
** *
16209420 CATTACTAATGCTTAGA
65 CACCACTAATGCTCAGA
* *
16209437 CCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
1 GCTTTAGCGGCATTTTTG-AAAAGCGCCGCTAATGCTC
16209475 AGGGCTTTAG
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
81 6 0.06
82 98 0.94
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (81 bp):
GCTTTAGCGGCATTTTTGAAAAGCGCCGCTAATGCTCTAGCTTTTAGCAGCATTCTTAAGAAAGC
ACCACTAATGCTCAGA
Found at i:16210041 original size:33 final size:34
Alignment explanation
Indices: 16209994--16210064 Score: 135
Period size: 33 Copynumber: 2.1 Consensus size: 34
16209984 GAGATTAAGA
16209994 GTTAGGGATTTAAGGTTTATGGATTCGGTGTCAG
1 GTTAGGGATTTAAGGTTTATGGATTCGGTGTCAG
16210028 GTTAGGG-TTTAAGGTTTATGGATTCGGTGTCAG
1 GTTAGGGATTTAAGGTTTATGGATTCGGTGTCAG
16210061 GTTA
1 GTTA
16210065 TTAATTAGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 30 0.81
34 7 0.19
ACGTcount: A:0.20, C:0.06, G:0.35, T:0.39
Consensus pattern (34 bp):
GTTAGGGATTTAAGGTTTATGGATTCGGTGTCAG
Found at i:16214506 original size:491 final size:491
Alignment explanation
Indices: 16213584--16214566 Score: 1849
Period size: 491 Copynumber: 2.0 Consensus size: 491
16213574 TAATTGGTGG
*
16213584 TAAATTCATGTTTTAGGCACTAATCAATTTTAACCAAATTATCTAACTGTAGTTTGTACTGCTTG
1 TAAATTCATGTTTTAGGCACTAATCAATTTTAACCAAATTATCTAACTGTAATTTGTACTGCTTG
16213649 TAGACTTTCAGCAGCATGATCCCAAAGTTGTCAAGCAAATTAGCCAAATGCTGGTGAATCACCTT
66 TAGACTTTCAGCAGCATGATCCCAAAGTTGTCAAGCAAATTAGCCAAATGCTGGTGAATCACCTT
*
16213714 GGACTAAATTTGACCAAAGATGATCTGCAAAACGTGGTTGATTTAATGGAGCCATATGGTCAGAT
131 GGACTAAATTTGACCAAAGATGATCTGCAAAACATGGTTGATTTAATGGAGCCATATGGTCAGAT
* *
16213779 AAGCAATGGAATAGAATATCTATATCCTCCCCTTGATGTCAGTAACTAACTTGCTTGTGATTTTA
196 AAGCAATGGAATAGAATATCTAAATCCTCCCCTTGATGTCAGTAACTAACTTGCTTGTCATTTTA
*
16213844 AATATGCAAGTCAATTGCTATTAATAATTTTCTGTTGGATTCTTTTTGGACTGAAAAATAATTTC
261 AATATGCAAGTCAATTGCTATTAATAATTTTATGTTGGATTCTTTTTGGACTGAAAAATAATTTC
* * *
16213909 TGGGGAAAGTCTAAGAATCTTAATTTTTTTAGAAAGCCAATAAAGTGCTTGCTGGACGAAATGTG
326 TAGGGAAAGTCTAAGAATCTTAAATTTTATAGAAAGCCAATAAAGTGCTTGCTGGACGAAATGTG
* *
16213974 GGGATTAATTGAACTGCTAGGTCATACATGCTGTTAATTTTTTAAGAGCTGATAAATGAGTATGA
391 GGGATTAATTAAACTCCTAGGTCATACATGCTGTTAATTTTTTAAGAGCTGATAAATGAGTATGA
16214039 CATAGTGCTCATAAATGTTCTAAGGATGTCTTTAGA
456 CATAGTGCTCATAAATGTTCTAAGGATGTCTTTAGA
16214075 TAAATTCATGTTTTAGGCACTAATCAATTTTAACCAAATTATCTAACTGTAATTTGTACTGCTTG
1 TAAATTCATGTTTTAGGCACTAATCAATTTTAACCAAATTATCTAACTGTAATTTGTACTGCTTG
16214140 TAGACTTTCAGCAGCATGATCCCAAAGTTGTCAAGCAAATTAGCCAAATGCTGGTGAATCACCTT
66 TAGACTTTCAGCAGCATGATCCCAAAGTTGTCAAGCAAATTAGCCAAATGCTGGTGAATCACCTT
16214205 GGACTAAATTTGACCAAAGATGATCTGCAAAACATGGTTGATTTAATGGAGCCATATGGTCAGAT
131 GGACTAAATTTGACCAAAGATGATCTGCAAAACATGGTTGATTTAATGGAGCCATATGGTCAGAT
*
16214270 AAGCAATGGAATAGAATATCTAAATCCTCCCCTTGATGTCGGTAACTAACTTGCTTGTCATTTTA
196 AAGCAATGGAATAGAATATCTAAATCCTCCCCTTGATGTCAGTAACTAACTTGCTTGTCATTTTA
*
16214335 AATATGCAAGTCAATTGCTATTAATAATTTTATGTTGGATTCTTTTTGGACTGAAAAATATTTTC
261 AATATGCAAGTCAATTGCTATTAATAATTTTATGTTGGATTCTTTTTGGACTGAAAAATAATTTC
16214400 TAGGGAAAGTCTAAGAATCTTAAATTTTATAGAAAGCCAATAAAGTGCTTGCTGGACGAAATGTG
326 TAGGGAAAGTCTAAGAATCTTAAATTTTATAGAAAGCCAATAAAGTGCTTGCTGGACGAAATGTG
*
16214465 GTGATTAATTAAACTCCTAGGTCATACATGCTGTTAATTTTTTAAGAGCTGATAAATGAGTATGA
391 GGGATTAATTAAACTCCTAGGTCATACATGCTGTTAATTTTTTAAGAGCTGATAAATGAGTATGA
16214530 CATAGTGCTCATAAATGTTCTAAGGATGTCTTTAGA
456 CATAGTGCTCATAAATGTTCTAAGGATGTCTTTAGA
16214566 T
1 T
16214567 GAATGGAATT
Statistics
Matches: 479, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
491 479 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (491 bp):
TAAATTCATGTTTTAGGCACTAATCAATTTTAACCAAATTATCTAACTGTAATTTGTACTGCTTG
TAGACTTTCAGCAGCATGATCCCAAAGTTGTCAAGCAAATTAGCCAAATGCTGGTGAATCACCTT
GGACTAAATTTGACCAAAGATGATCTGCAAAACATGGTTGATTTAATGGAGCCATATGGTCAGAT
AAGCAATGGAATAGAATATCTAAATCCTCCCCTTGATGTCAGTAACTAACTTGCTTGTCATTTTA
AATATGCAAGTCAATTGCTATTAATAATTTTATGTTGGATTCTTTTTGGACTGAAAAATAATTTC
TAGGGAAAGTCTAAGAATCTTAAATTTTATAGAAAGCCAATAAAGTGCTTGCTGGACGAAATGTG
GGGATTAATTAAACTCCTAGGTCATACATGCTGTTAATTTTTTAAGAGCTGATAAATGAGTATGA
CATAGTGCTCATAAATGTTCTAAGGATGTCTTTAGA
Found at i:16215068 original size:43 final size:43
Alignment explanation
Indices: 16214957--16215239 Score: 232
Period size: 43 Copynumber: 6.6 Consensus size: 43
16214947 TAATTTTTTT
* * * ***
16214957 TAAAAGTCATGAT-TTTAGTGGTGTTTGTCAAAAAAGCGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGGTAAAAGCGCCGC
* * * * * * *
16214999 TAAAAGTCAT-CT-TTATAGTGGCGTTTGTTGTAGAAGTGTCGC
1 TAAAGGTCATGATCTT-TAGCGGCGTTTGTGGTAAAAGCGCCGC
* * *
16215041 TCAAGGTCATGATCTTTAGCGGCGTTTGTGGTAGAAGCGCCAC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGGTAAAAGCGCCGC
* **
16215084 TAAAGGTCATGAACTTTAGTTGCGTTTGTGGTAAAAGCGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGGTAAAAGCGCCGC
* * * *
16215127 TAAAGATCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGTCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGGTAAAAGCGCCGC
* * ** * *
16215170 TAAAGGTCTTGGTCTTTAATGGTGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGGTAAAAGCGCCGC
* **
16215213 TAAAAGTTTTTG-TCTTTAGCGGCGTTT
1 T-AAAGGTCATGATCTTTAGCGGCGTTT
16215240 TTTCCGGCGC
Statistics
Matches: 196, Mismatches: 41, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
41 3 0.02
42 38 0.19
43 145 0.74
44 10 0.05
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.33
Consensus pattern (43 bp):
TAAAGGTCATGATCTTTAGCGGCGTTTGTGGTAAAAGCGCCGC
Found at i:16215311 original size:22 final size:22
Alignment explanation
Indices: 16215285--16215327 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
16215275 AGTGGCGCTC
* *
16215285 AAAAGCGCCGCTAAAGGCCTAA
1 AAAAGCACCGCTAAAAGCCTAA
16215307 AAAAGCACCGCTAAAAGCCTA
1 AAAAGCACCGCTAAAAGCCTA
16215328 TTTTGGTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.28, G:0.19, T:0.09
Consensus pattern (22 bp):
AAAAGCACCGCTAAAAGCCTAA
Found at i:16215616 original size:43 final size:43
Alignment explanation
Indices: 16215529--16215710 Score: 158
Period size: 43 Copynumber: 4.3 Consensus size: 43
16215519 ATACTCGAAA
* * * * *
16215529 ACACGTATATCACATA-CAATGC-CATATCCTAGATATGGTCTT
1 ACACGTA-ATCACATATCGATGCTAATGTCCCAGACATGGTCTT
* * * *
16215571 ACATGTTATCACATATCGATGCCT-TTGTCCCAGACAGGGTCTT
1 ACACGTAATCACATATCGATG-CTAATGTCCCAGACATGGTCTT
* * *
16215614 ACACG-AATCATATA-CGGTGCTAATGTCCCAGACATGGTCTG
1 ACACGTAATCACATATCGATGCTAATGTCCCAGACATGGTCTT
** *
16215655 ACACGTAATCTTATATCGATGCTAATGTCTCAGACATGGTCTT
1 ACACGTAATCACATATCGATGCTAATGTCCCAGACATGGTCTT
* *
16215698 ACATGTGATCACA
1 ACACGTAATCACA
16215711 CCTCGAAAGT
Statistics
Matches: 111, Mismatches: 23, Indels: 11
0.77 0.16 0.08
Matches are distributed among these distances:
40 2 0.02
41 33 0.30
42 24 0.22
43 52 0.47
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (43 bp):
ACACGTAATCACATATCGATGCTAATGTCCCAGACATGGTCTT
Found at i:16215645 original size:41 final size:43
Alignment explanation
Indices: 16215563--16215700 Score: 165
Period size: 43 Copynumber: 3.3 Consensus size: 43
16215553 TATCCTAGAT
* * * *
16215563 ATGGTCTTACATGTTATCACATATCGATGCCT-TTGTCCCAGAC
1 ATGGTCTTACACGTAATCATATATCGATG-CTAATGTCCCAGAC
* *
16215606 AGGGTCTTACACG-AATCATATA-CGGTGCTAATGTCCCAGAC
1 ATGGTCTTACACGTAATCATATATCGATGCTAATGTCCCAGAC
* * *
16215647 ATGGTCTGACACGTAATCTTATATCGATGCTAATGTCTCAGAC
1 ATGGTCTTACACGTAATCATATATCGATGCTAATGTCCCAGAC
16215690 ATGGTCTTACA
1 ATGGTCTTACA
16215701 TGTGATCACA
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
40 2 0.03
41 25 0.31
42 15 0.19
43 38 0.47
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCATATATCGATGCTAATGTCCCAGAC
Found at i:16223112 original size:41 final size:41
Alignment explanation
Indices: 16223049--16223164 Score: 108
Period size: 41 Copynumber: 2.8 Consensus size: 41
16223039 CATGTTATCA
** * *
16223049 CATATCGATGCCTCTGTTCTAGACGGGGTCTTACACG-AAT
1 CATATCGATGCCAATGTCCTAGACAGGGTCTTACACGTAAT
* *
16223089 CATATACGATGCCAATGTCCTAGACATGGTTTTACACGTAATCT
1 CATAT-CGATGCCAATGTCCTAGACAGGGTCTTACACGTAA--T
* * * *
16223133 CATATCAAAGCCAATGTCCCAGACATGGTCTT
1 CATATCGATGCCAATGTCCTAGACAGGGTCTT
16223165 CCATGAAATC
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
40 5 0.08
41 26 0.42
42 2 0.03
43 23 0.37
44 6 0.10
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (41 bp):
CATATCGATGCCAATGTCCTAGACAGGGTCTTACACGTAAT
Found at i:16227850 original size:14 final size:14
Alignment explanation
Indices: 16227831--16227857 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16227821 AAATTCACAA
16227831 AATTTTAAAAATTG
1 AATTTTAAAAATTG
16227845 AATTTTAAAAATT
1 AATTTTAAAAATT
16227858 ATAAAAATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (14 bp):
AATTTTAAAAATTG
Found at i:16227958 original size:23 final size:23
Alignment explanation
Indices: 16227914--16227970 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
16227904 GTTATTTTTG
*
16227914 TTTTCCTTTTTTTACTTCTTTCC
1 TTTTCCTTTTTTTACTTCTTTCA
* *
16227937 TTTTTCTTTTTTT-TTTCTTTTCA
1 TTTTCCTTTTTTTACTTC-TTTCA
*
16227960 TTTTCCATTTT
1 TTTTCCTTTTT
16227971 CTCATTTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
22 3 0.11
23 25 0.89
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTCCTTTTTTTACTTCTTTCA
Found at i:16228560 original size:30 final size:30
Alignment explanation
Indices: 16228526--16228585 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
16228516 AAGGAAAATT
** *
16228526 GAAAG-AAAAAAATTAAAGGAAAGAGAGAAA
1 GAAAGTAAAAAAAAAAAAGCAAA-AGAGAAA
16228556 GAAAGTAAAAAAAAAAAAGCAAAAGAGAAA
1 GAAAGTAAAAAAAAAAAAGCAAAAGAGAAA
16228586 AAAATATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.05
Consensus pattern (30 bp):
GAAAGTAAAAAAAAAAAAGCAAAAGAGAAA
Found at i:16228633 original size:19 final size:20
Alignment explanation
Indices: 16228591--16228633 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
16228581 AGAAAAAAAT
*
16228591 ATTTTAAATGATTTTCTATT
1 ATTTTAAATGATTTTCTATA
*
16228611 ATTTTAAAT-ATTTTTTATA
1 ATTTTAAATGATTTTCTATA
16228630 ATTT
1 ATTT
16228634 CTATTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
ATTTTAAATGATTTTCTATA
Found at i:16228643 original size:17 final size:16
Alignment explanation
Indices: 16228621--16228652 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
16228611 ATTTTAAATA
16228621 TTTTTTATAATTTCTAT
1 TTTTTTA-AATTTCTAT
16228638 TTTTTTAAATTTCTA
1 TTTTTTAAATTTCTA
16228653 AAAATTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTTAAATTTCTAT
Found at i:16231076 original size:38 final size:38
Alignment explanation
Indices: 16231025--16231103 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
16231015 CGTTCTATTC
* *
16231025 ATAATCAGAGTTTTAATCAAGATGGCATAACTAACAAT
1 ATAATCAAAGTTTTAATCAAGATGACATAACTAACAAT
16231063 ATAATCAAAGTTTTAATCAAGATGACATAACTAACAAT
1 ATAATCAAAGTTTTAATCAAGATGACATAACTAACAAT
16231101 ATA
1 ATA
16231104 CTATGGTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (38 bp):
ATAATCAAAGTTTTAATCAAGATGACATAACTAACAAT
Found at i:16232855 original size:50 final size:50
Alignment explanation
Indices: 16232756--16232994 Score: 189
Period size: 50 Copynumber: 4.7 Consensus size: 50
16232746 AATGAGATCT
* * *
16232756 CATGTAAGACCATGTCTGAGAAATGGCATTGGCATTATTGAGGTTATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-CA--GA-G--ATGAGAGGTCC
*
16232812 CACGTAAGACCATGTCTGGGACATGGCATTGGCACAGAGATGAGAGGTTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACAGAGATGAGAGG-TCC
* * * ** *
16232863 C-GGTAAGACCATGTCTGGGACATGGCA-TGAGCACCGATATGAGAACTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTG-GCACAGAGATGAGAGGTCC
* * * * * * * **
16232912 CATGTAAGACCATATCTGAGACATGACATTTG--CAGTACAGGAAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACAG-AGATGAGAGGTCC
*
16232961 CATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
16232995 TGTTATTATC
Statistics
Matches: 149, Mismatches: 27, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
48 2 0.01
49 39 0.26
50 68 0.46
51 5 0.03
52 1 0.01
53 2 0.01
55 1 0.01
56 31 0.21
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.23
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACAGAGATGAGAGGTCC
Found at i:16239230 original size:21 final size:21
Alignment explanation
Indices: 16239206--16239252 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
16239196 GACACACAGT
*
16239206 CGTGTCCCATGGGCACACGGG
1 CGTGTCCCATAGGCACACGGG
** *
16239227 CGTGTGTCATAGTCACACGGG
1 CGTGTCCCATAGGCACACGGG
16239248 CGTGT
1 CGTGT
16239253 GCTCCTTAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.15, C:0.28, G:0.36, T:0.21
Consensus pattern (21 bp):
CGTGTCCCATAGGCACACGGG
Done.