Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 274 of 410
Found at i:84719148 original size:46 final size:46
Alignment explanation
Indices: 84718973--84719148 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
84718963 TGTAACCCGC
* * *
84718973 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
84719019 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
84719069 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
84719112 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
84719149 TGCCAACCAT
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:84721561 original size:29 final size:29
Alignment explanation
Indices: 84721522--84721609 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
84721512 CAAAGATAAC
*
84721522 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
84721551 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
84721580 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
84721610 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:84721580 original size:15 final size:15
Alignment explanation
Indices: 84721522--84721600 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
84721512 CAAAGATAAC
*
84721522 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
84721536 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
84721551 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
84721565 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
84721580 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
84721595 AAGAAA
1 AAGAAA
84721601 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:84721609 original size:15 final size:15
Alignment explanation
Indices: 84721533--84721609 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
84721523 AGAAAACCGA
84721533 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
84721548 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
84721562 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
84721576 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
84721592 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
84721607 ATA
1 ATA
84721610 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:84724649 original size:93 final size:93
Alignment explanation
Indices: 84724537--84724707 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
84724527 GCCCATAAGT
* *
84724537 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
84724602 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
84724630 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
84724695 CGAGTTCGGATGC
66 CGAGTTCGGATGC
84724708 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:84724723 original size:46 final size:46
Alignment explanation
Indices: 84724529--84724709 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
84724519 TGTAACCCGC
* * *
84724529 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
84724575 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
84724625 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
84724668 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
84724710 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:84734893 original size:40 final size:40
Alignment explanation
Indices: 84734766--84734895 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
84734756 ATGCTGGAAA
* * *
84734766 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
84734806 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
84734846 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
84734886 TTATATCCGG
1 TTATATCCGG
84734896 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:84742879 original size:39 final size:39
Alignment explanation
Indices: 84742757--84742881 Score: 134
Period size: 39 Copynumber: 3.3 Consensus size: 39
84742747 ATGCTGGAAA
* *
84742757 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAG-GG
1 TTATATCCGGGCT-AGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
84742796 CTACATCCGGGCTA-ACCCG-AGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAGACCCGAAGGCATTCGTGCGAGTGG
*
84742833 TTCTATCCGGGCTAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAGACCCGAAGGCATTCGTGCGA-GTGG
84742872 TTATATCCGG
1 TTATATCCGG
84742882 TTGTATTCCG
Statistics
Matches: 71, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
35 3 0.04
36 10 0.14
37 17 0.24
38 7 0.10
39 34 0.48
ACGTcount: A:0.21, C:0.26, G:0.30, T:0.24
Consensus pattern (39 bp):
TTATATCCGGGCTAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:84745774 original size:70 final size:70
Alignment explanation
Indices: 84745661--84745848 Score: 234
Period size: 70 Copynumber: 2.6 Consensus size: 70
84745651 TAAGCCTTTT
* * * * *
84745661 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT-AGG
1 AATTTTTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGACCCTCAGGACACGATGAGG
84745725 TATTTC
65 TATTTC
** *
84745731 AATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGACCCTCAGGACATGATGAGG
1 AATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGACCCTCAGGACACGATGAGG
84745796 TATTTC
65 TATTTC
* * *
84745802 AATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 AATTTTTGTTT-TTAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
84745849 ACCTTTTAAT
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
70 50 0.50
71 24 0.24
72 27 0.27
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (70 bp):
AATTTTTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGACCCTCAGGACACGATGAGGT
ATTTC
Found at i:84745978 original size:126 final size:127
Alignment explanation
Indices: 84745753--84746065 Score: 558
Period size: 126 Copynumber: 2.5 Consensus size: 127
84745743 TTAATTTCAA
*
84745753 CTCATATTGCGAGAGGTGAGTTGACCCTCAGGACATGATGAGGT-ATTTCAATTTCTGTTTGTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGATGAGGTAATTTCAATTTCTGTTTGTCA
84745817 AGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAG
66 AGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAG
84745879 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGATGAGGTAATTTCAATTTCTGTTTGTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGATGAGGTAATTTCAATTTCTGTTTGTCA
84745944 AGAATCAACTCATATTGCGAGAGGT-GGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAG
66 AGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAG
* * ** *
84746005 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGTTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGATGAGGTAATTTCAATTTCTGTTT
84746066 TCATTATTAT
Statistics
Matches: 180, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
126 135 0.75
127 45 0.25
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (127 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGATGAGGTAATTTCAATTTCTGTTTGTCA
AGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAG
Found at i:84746160 original size:14 final size:14
Alignment explanation
Indices: 84746141--84746175 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
84746131 CGCCGAGGTA
84746141 TTTTCAATTTCCGT
1 TTTTCAATTTCCGT
*
84746155 TTTTCAATTTCTGT
1 TTTTCAATTTCCGT
*
84746169 CTTTCAA
1 TTTTCAA
84746176 AAAAAAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCCGT
Found at i:84746187 original size:91 final size:90
Alignment explanation
Indices: 84746005--84746249 Score: 307
Period size: 91 Copynumber: 2.7 Consensus size: 90
84745995 TCAAAATCAG
*
84746005 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT-CACGCCGAGGTATTTTCAATTTCTGTTTTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTACACGCCGAGGTATTTTCAATTTCCGTTTTCA
* * ** * **
84746069 TTATTATGTTTTTTGAAAGAATCAA
66 ATATTATGTCTTTCAAAAAAAAAAA
* *
84746094 CTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT-ACACGCCGAGGTATTTTCAATTTCCG-TTTT
*
84746159 CAAT-TTCTGTCTTTCAAAAAAAAAAA
64 CAATATTATGTCTTTCAAAAAAAAAAA
* * * * *
84746185 CTCATATTGCGAGAGGTGAGTTGAGCCTTAGG-ACACGCTGAGGTAATTTCAATTTCTGTTGTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTACACGCCGAGGTATTTTCAATTTCCGTTTTCA
84746249 A
66 A
84746250 AAAAATCAAC
Statistics
Matches: 135, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
88 6 0.04
89 54 0.40
91 68 0.50
92 7 0.05
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (90 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTACACGCCGAGGTATTTTCAATTTCCGTTTTCA
ATATTATGTCTTTCAAAAAAAAAAA
Found at i:84746316 original size:76 final size:75
Alignment explanation
Indices: 84746155--84746871 Score: 354
Period size: 74 Copynumber: 9.1 Consensus size: 75
84746145 CAATTTCCGT
* * *
84746155 TTTTCAATTTCTGTCTTTCAAAAAAAAAAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACA
1 TTTTCAATTTCTGTCTGTCAAAAAAAAAAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACA
*
84746220 CGCTGAGGTA
66 CGCCGAGGTA
* ** * *
84746230 ATTTCAATTTCTGT-TGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCA
1 TTTTCAATTTCTGTCTGTCAAAAAAAAAAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG--A
84746294 CACGCCGAGGTA
64 CACGCCGAGGTA
* * * *
84746306 TTTTCAATTTCCGTTTTTCAATTTTTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
1 TTTTCAATTTCTGTCTGTCAA------------AAAAAAA--AACTCATATTGCGAGAGGCGAGT
*
84746371 TGAGCCTCAGGACACGCTGAGGTA
52 TGAGCCTCAGGACACGCCGAGGTA
* *** * * *
84746395 ATTTCAATTTCTGT-TGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTTCAATTTCTGTCTGTCAAAAAAAAAAACTCATATTGCGAGAGGCGAGTTGAGCCTCAG--GA
*
84746459 CACGTCGAGGTA
64 CACGCCGAGGTA
* *** *
84746471 TTTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGA
1 TTTTC-A-----A--TTTC--TGTCTG--TCAAAAAAAAA----AACTCATATTGCGAGAGGCGA
* *
84746536 GTTGAGCCTCGGGACACGCTGAGGTA
50 GTTGAGCCTCAGGACACGCCGAGGTA
* * *** *** *
84746562 ATTTCAATTTCTGT-TTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTCTGTCAAAAAAAAAAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACA
**
84746624 CGTTGAGGTA
66 CGCCGAGGTA
* ** * * * * *
84746634 TTTTCAATTTCTGT-TTTC-AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCT-TGGCTC
1 TTTTCAATTTCTGTCTGTCAAAAAAAAAAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-AC
* *
84746696 ATGCGCTGAGCTA
65 A--CGCCGAGGTA
* * ** * *
84746709 TTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCA-GATC
1 TTTTCAATTTCTGTCTGTCAAAAAAAAAAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGA-C
*
84746773 ACACACTGAGGTA
65 ACGC-C-GAGGTA
* * * * ** * * * *
84746786 TTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGT
1 --TTTTCAATTTCTGTCTGTCAAAAAAAAAAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-
* *
84746851 TACATGTCGAGGTA
63 -ACACGCCGAGGTA
84746865 TTTTCAA
1 TTTTCAA
84746872 AATCTGTTTT
Statistics
Matches: 509, Mismatches: 82, Indels: 100
0.74 0.12 0.14
Matches are distributed among these distances:
72 60 0.12
73 34 0.07
74 72 0.14
75 36 0.07
76 51 0.10
77 56 0.11
78 1 0.00
79 60 0.12
80 3 0.01
81 4 0.01
82 2 0.00
83 4 0.01
84 4 0.01
85 1 0.00
86 2 0.00
87 2 0.00
88 5 0.01
89 34 0.07
90 1 0.00
91 46 0.09
93 31 0.06
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (75 bp):
TTTTCAATTTCTGTCTGTCAAAAAAAAAAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACA
CGCCGAGGTA
Found at i:84746360 original size:165 final size:165
Alignment explanation
Indices: 84746088--84746650 Score: 882
Period size: 165 Copynumber: 3.4 Consensus size: 165
84746078 TTTTTGAAAG
84746088 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
* ** *
84746153 GTTTTTCAATTTCTGTCTTTCAAAAAAAAAAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGA
66 GTTTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
84746218 CACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
131 CACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
*
84746253 AATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
*
84746318 GTTTTTCAATTTTTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
66 GTTTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
84746383 CACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
131 CACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
* * * *
84746418 AGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
* *
84746483 ATTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
66 GTTTTTCAATTTCTGCCTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
*
84746548 GACACGCTGAGGTAATTTCAATTTCTGTTTTC--AAA
129 GACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
* * *** * ** *
84746583 ATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGTATTTTCAATTTCT
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
84746646 GTTTT
66 GTTTT
84746651 CAAAAAATCA
Statistics
Matches: 372, Mismatches: 24, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
163 27 0.07
165 273 0.73
167 72 0.19
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (165 bp):
AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
GTTTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
CACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
Found at i:84746609 original size:72 final size:73
Alignment explanation
Indices: 84746507--84747013 Score: 406
Period size: 72 Copynumber: 6.5 Consensus size: 73
84746497 GCCTTTCAAA
*
84746507 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
84746572 CTGTTTTC
66 CTGTTTTC
* ** ** *
84746580 -AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
84746644 CTGTTTTC
66 CTGTTTTC
* * * ** *
84746652 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA--CGCTGAGGTATTTTCAAT
*
84746717 TTCTATCTTTC
64 TTCTGT-TTTC
* ** *
84746728 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTA--TTTTC
* *
84746793 AATTTATATTTTTC
61 AATTTCT-GTTTTC
* * *
84746807 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGCT-GAGGTATTTTCA
**
84746871 AAATCTGTTTTTC
62 ATTTCTG-TTTTC
* * **
84746884 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 --A----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC--GCTGA
* *
84746949 GCTATTTTCAATTTCTTTTTTTTTTTC
52 GGTATTTTCAATTTC-----TGTTTTC
84746976 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 -AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
84747014 TTTTTAATTT
Statistics
Matches: 348, Mismatches: 52, Indels: 59
0.76 0.11 0.13
Matches are distributed among these distances:
72 65 0.19
73 34 0.10
75 21 0.06
76 4 0.01
77 57 0.16
78 5 0.01
79 64 0.18
80 1 0.00
81 5 0.01
82 29 0.08
86 2 0.01
88 52 0.15
89 1 0.00
91 2 0.01
92 5 0.01
93 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
CTGTTTTC
Found at i:84746830 original size:79 final size:76
Alignment explanation
Indices: 84746485--84747013 Score: 426
Period size: 77 Copynumber: 6.7 Consensus size: 76
84746475 CAATTTCCAT
* *
84746485 TTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-G
1 TTTTCAATTTCTG-TTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAT
*
84746548 GACACGCTGAGGTA
63 CACACGCTGAGGTA
* * ** *
84746562 ATTTCAATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GAC
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
*
84746623 ACGTTGAGGTA
66 ACGCTGAGGTA
* * ** * *
84746634 TTTTCAATTTCTGTTTTC-AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCAT
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
* *
84746698 GCGCTGAGCTA
66 ACGCTGAGGTA
* *
84746709 TTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
1 TTTTCAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
*
84746774 CACACTGAGGTA
65 CACGCTGAGGTA
* * * * * *
84746786 TTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGT
1 --TTTTCAATTTCT-GTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAT
* *
84746851 TACATG-TCGAGGTA
63 CACACGCT-GAGGTA
** *
84746865 TTTTCAAAATCTGTTTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
1 TTTTCAATTTCTG-TTTTC-AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
** * ** *
84746930 GCCTTGGCTCACGTGCTGAGCTA
54 GCCTCAGATCACACGCTGAGGTA
*
84746953 TTTTCAATTTCTTTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTTCAATTTC-----TGTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
84747014 TTTTTAATTT
Statistics
Matches: 366, Mismatches: 56, Indels: 55
0.77 0.12 0.12
Matches are distributed among these distances:
72 65 0.18
73 32 0.09
75 22 0.06
76 8 0.02
77 73 0.20
78 3 0.01
79 63 0.17
80 1 0.00
81 5 0.01
82 29 0.08
88 56 0.15
89 1 0.00
91 2 0.01
92 5 0.01
93 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (76 bp):
TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
ACGCTGAGGTA
Found at i:84746884 original size:14 final size:13
Alignment explanation
Indices: 84746865--84746900 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
84746855 TGTCGAGGTA
84746865 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
84746878 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
84746892 TTTTCAAAA
1 TTTTCAAAA
84746901 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:84747031 original size:30 final size:30
Alignment explanation
Indices: 84746995--84747056 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
84746985 CAACTCATAT
84746995 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
84747025 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
84747055 TG
1 TG
84747057 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:84747157 original size:254 final size:247
Alignment explanation
Indices: 84746646--84747224 Score: 742
Period size: 254 Copynumber: 2.3 Consensus size: 247
84746636 TTCAATTTCT
* * *
84746646 GTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
*
84746711 TTCAATTTC---TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
66 TTCAATTTCTTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
* *
84746773 ACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAG
131 ACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAGAGGTGAG
* ** * * * **
84746838 TTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCT
195 TTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
* *
84746891 GTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
* *
84746955 TTCAATTTCTTTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA
66 TTCAATTTC-TTTTTTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCA
* * * * * * *
84747020 -ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGC
127 GA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGC
*
84747082 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAA
185 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
*
84747145 G-TTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
84747209 TTCAATTTCTGTTTTT
66 TTCAATTTCT-TTTTT
84747225 AATGTCTGTT
Statistics
Matches: 289, Mismatches: 29, Indels: 23
0.85 0.09 0.07
Matches are distributed among these distances:
244 62 0.21
245 6 0.02
248 13 0.04
249 30 0.10
250 1 0.00
251 3 0.01
252 2 0.01
253 6 0.02
254 143 0.49
255 5 0.02
256 13 0.04
257 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (247 bp):
GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
TTCAATTTCTTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
ACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAGT
TGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
Found at i:84747890 original size:17 final size:17
Alignment explanation
Indices: 84747870--84747905 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
84747860 AACCTAACCC
*
84747870 AAAAAAAA-ACAAAGAA
1 AAAAAAAAGAAAAAGAA
84747886 AAAAAAAAGAAAAAGAA
1 AAAAAAAAGAAAAAGAA
84747903 AAA
1 AAA
84747906 CTTACCCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAAAAAGAA
Found at i:84747904 original size:11 final size:11
Alignment explanation
Indices: 84747872--84747905 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
84747862 CCTAACCCAA
84747872 AAAAAAACAAAG
1 AAAAAAA-AAAG
84747884 AAAAAAAAAAG
1 AAAAAAAAAAG
84747895 AAAAAGAAAAA
1 AAAAA-AAAAA
84747906 CTTACCCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:84747952 original size:34 final size:32
Alignment explanation
Indices: 84747877--84747961 Score: 89
Period size: 33 Copynumber: 2.5 Consensus size: 32
84747867 CCCAAAAAAA
* *
84747877 AACAAAGAAAAAAAAAAGAAAAAGAAAAACTT
1 AACAAAAAAAAAAAAAAGAAAAAGAAAAACCT
* * *
84747909 ACCCCAAAAAAAAAAGAAGAAAAAAGAAAAACCT
1 A-ACAAAAAAAAAAAAAAG-AAAAAGAAAAACCT
84747943 AACAAAAAAAGATAAAAAA
1 AACAAAAAAA-A-AAAAAA
84747962 CCTAGCCACC
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
32 1 0.02
33 20 0.49
34 15 0.37
35 5 0.12
ACGTcount: A:0.76, C:0.11, G:0.08, T:0.05
Consensus pattern (32 bp):
AACAAAAAAAAAAAAAAGAAAAAGAAAAACCT
Found at i:84772092 original size:33 final size:32
Alignment explanation
Indices: 84772020--84772092 Score: 76
Period size: 33 Copynumber: 2.2 Consensus size: 32
84772010 CAACTTTTAT
* *
84772020 AAAATATTTTAAAGAAATCTGCCAAATAACAT
1 AAAATATTTTAAACAAATCTGCCAAATAACAA
* * *
84772052 AATATATTTTACACAAATTCAT-CCAAATACCAA
1 AAAATATTTTAAACAAA-TC-TGCCAAATAACAA
84772085 AAAATATT
1 AAAATATT
84772093 AACTTTTCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
32 14 0.42
33 18 0.55
34 1 0.03
ACGTcount: A:0.52, C:0.15, G:0.03, T:0.30
Consensus pattern (32 bp):
AAAATATTTTAAACAAATCTGCCAAATAACAA
Found at i:84772768 original size:2 final size:2
Alignment explanation
Indices: 84772761--84772787 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
84772751 GCATTGGTTA
84772761 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
84772788 ATTTGAACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:84775355 original size:39 final size:39
Alignment explanation
Indices: 84775307--84775384 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
84775297 CCTTCTTTTA
*
84775307 TATCTTTTCCTTTAATTTTCGGCAACCTAAGTTAAAAAC
1 TATCGTTTCCTTTAATTTTCGGCAACCTAAGTTAAAAAC
*
84775346 TATCGTTTCCTTTAATTTTCGGCTACCTAAGTTAAAAAC
1 TATCGTTTCCTTTAATTTTCGGCAACCTAAGTTAAAAAC
84775385 CACTCTAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (39 bp):
TATCGTTTCCTTTAATTTTCGGCAACCTAAGTTAAAAAC
Found at i:84777508 original size:2 final size:2
Alignment explanation
Indices: 84777501--84777532 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
84777491 GGATTAAAAG
84777501 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
84777533 TATATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:84779410 original size:53 final size:53
Alignment explanation
Indices: 84779349--84779454 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
84779339 CCGAGTTTGT
84779349 TGAATCTTGACTATAAATTTAGGGAAATAGGACTGGTGACTTAAATCTTCTCC
1 TGAATCTTGACTATAAATTTAGGGAAATAGGACTGGTGACTTAAATCTTCTCC
*
84779402 TGAATCTTGACTGTAAATTTAGGGAAATAGGACTGGTGACTTAAATCTTCTCC
1 TGAATCTTGACTATAAATTTAGGGAAATAGGACTGGTGACTTAAATCTTCTCC
84779455 ATTTTTGATA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (53 bp):
TGAATCTTGACTATAAATTTAGGGAAATAGGACTGGTGACTTAAATCTTCTCC
Found at i:84779686 original size:14 final size:14
Alignment explanation
Indices: 84779669--84779698 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
84779659 TAACTTTAGT
84779669 CTGCTCCACTGCAA
1 CTGCTCCACTGCAA
*
84779683 CTGCTCCATTGCAA
1 CTGCTCCACTGCAA
84779697 CT
1 CT
84779699 TCAGGAAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.40, G:0.13, T:0.27
Consensus pattern (14 bp):
CTGCTCCACTGCAA
Found at i:84779968 original size:87 final size:87
Alignment explanation
Indices: 84779720--84780062 Score: 456
Period size: 87 Copynumber: 3.9 Consensus size: 87
84779710 AGACTTGTGT
* * ** * *
84779720 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAAGCTCACCGTCTTCGATTTGCTCCACTACTAC
1 TTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCT-TGCTTCTTCGATTTGCTCCACTACTAT
*
84779785 TTAGGGAGACAAGATCTACGATC
65 TTAGGGAGACAAGATCTACAATC
** * *
84779808 TTC-GACCTGTTACCCTACTACTTA-GGGGTTAAGGCTCACTTATTCGATTTGCTCCACTACTGT
1 TTCAG-CCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTTCTTCGATTTGCTCCACTACTAT
*
84779871 TTAGGGAGACAAGATCTGCAATC
65 TTAGGGAGACAAGATCTACAATC
* *
84779894 TTCAGCATGTTACTCTACTACTTAGGGGGTTAAGGCTTGCTTCTTCGATTTGCTCCACTACTATT
1 TTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTTCTTCGATTTGCTCCACTACTATT
84779959 TAGGGAGACAAGATCTACAATC
66 TAGGGAGACAAGATCTACAATC
* * * ***
84779981 TTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTTCTTCAATCTGTTCCACTGGAACT
1 TTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTTCTTCGATTTGCTCCACTACTA-T
*
84780046 TCAGGGAGACAAGATCT
65 TTAGGGAGACAAGATCT
84780063 GTGAATTCAC
Statistics
Matches: 225, Mismatches: 26, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
86 62 0.28
87 125 0.56
88 38 0.17
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.32
Consensus pattern (87 bp):
TTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTTCTTCGATTTGCTCCACTACTATT
TAGGGAGACAAGATCTACAATC
Found at i:84792391 original size:2 final size:2
Alignment explanation
Indices: 84792386--84792417 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
84792376 CACACACACC
84792386 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
84792418 TAAAAGCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:84794372 original size:28 final size:27
Alignment explanation
Indices: 84794351--84794409 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
84794341 ATTTTACAAG
*
84794351 TTTGCCCAAAATTTTATTATTTGCTCAA
1 TTTGCCCAAAATTTTATGATTT-CTCAA
*
84794379 TTTGCCCCAAATTTTATGATTTGCTCAA
1 TTTGCCCAAAATTTTATGATTT-CTCAA
84794407 TTT
1 TTT
84794410 AGTCCCTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.19, G:0.08, T:0.47
Consensus pattern (27 bp):
TTTGCCCAAAATTTTATGATTTCTCAA
Found at i:84796006 original size:29 final size:29
Alignment explanation
Indices: 84795964--84796021 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
84795954 CGCAGGATTG
84795964 AGTACAATCGTCTTATGCAAATGATGAAT
1 AGTACAATCGTCTTATGCAAATGATGAAT
84795993 AGTACAATCGTCTTATGCAAATGATGAAT
1 AGTACAATCGTCTTATGCAAATGATGAAT
84796022 TGACGGATAA
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:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (29 bp):
AGTACAATCGTCTTATGCAAATGATGAAT
Found at i:84798125 original size:43 final size:43
Alignment explanation
Indices: 84798078--84798195 Score: 132
Period size: 42 Copynumber: 2.7 Consensus size: 43
84798068 TCCCAGACGT
*
84798078 GGTCTTACATGTAATCAAATATCGATGCCATTGTCCTAGACAG
1 GGTCTTACATGTAATCAAATATCGATGCCAATGTCCTAGACAG
* * * *
84798121 GGTCTTACACGAAATCAAATA-CGATGTCAATGTCCTAGACAT
1 GGTCTTACATGTAATCAAATATCGATGCCAATGTCCTAGACAG
* * *
84798163 GATCTTACGTGTAAATCATAA-GTCGATGCCAAT
1 GGTCTTACATGT-AATCA-AATATCGATGCCAAT
84798196 ATCCCAGATG
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
42 26 0.43
43 24 0.39
44 11 0.18
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (43 bp):
GGTCTTACATGTAATCAAATATCGATGCCAATGTCCTAGACAG
Found at i:84802556 original size:40 final size:40
Alignment explanation
Indices: 84802511--84802639 Score: 142
Period size: 40 Copynumber: 3.2 Consensus size: 40
84802501 CGGAATACAA
84802511 CCGGATATAACAACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAAC-ACGTAGCACGAATGCCTTCGGGTCTTAGC
* *
84802551 CCGGATAGAACGAC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAAC-ACGTAGCACGAATGCCTTCGGGTCTTAGC
* * *
84802591 CCGGATGTAGC-CGCTAGCAC-AATTGCCTTC-GGTCTTAAC
1 CCGGATATAACACG-TAGCACGAA-TGCCTTCGGGTCTTAGC
84802630 CCGGATATAA
1 CCGGATATAA
84802640 TTTCCAGCAA
Statistics
Matches: 76, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
38 1 0.01
39 19 0.25
40 56 0.74
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACACGTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:84803589 original size:28 final size:29
Alignment explanation
Indices: 84803535--84803595 Score: 115
Period size: 28 Copynumber: 2.1 Consensus size: 29
84803525 TGGCCAAATA
84803535 CCATTTCCATGGCATAACAAAGATTTGAG
1 CCATTTCCATGGCATAACAAAGATTTGAG
84803564 CCATTTCCATGGC-TAACAAAGATTTGAG
1 CCATTTCCATGGCATAACAAAGATTTGAG
84803592 CCAT
1 CCAT
84803596 GGCTAACATG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 19 0.59
29 13 0.41
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (29 bp):
CCATTTCCATGGCATAACAAAGATTTGAG
Found at i:84810426 original size:40 final size:40
Alignment explanation
Indices: 84810381--84810547 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
84810371 CGGAATATAA
*
84810381 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
84810421 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
84810461 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
84810501 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
84810540 CCGGATAT
1 CCGGATAT
84810548 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 13 0.13
40 89 0.86
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:84812716 original size:196 final size:194
Alignment explanation
Indices: 84812328--84812718 Score: 696
Period size: 196 Copynumber: 2.0 Consensus size: 194
84812318 TTAATCAATT
84812328 TTAAGTCCCTCACTTCTCATTCTCCACGGATTTGGTAAATCACTAGGGCTGAATCCCCGTACACC
1 TTAAGTCCCTCACTTCTCATTCTCCACGGATTTGGTAAATCACTAGGGCTGAATCCCCGTACACC
84812393 TCCAAGATCTTGATGTTTCGTTCGATAGCTGCACGAAGCCGATGAGACAGGCCTCATATTCTGAG
66 TCCAAGATCTTGATGTTTCGTTCGATAGCTGCACGAAGCCGATGAGACAGGCCTCATATTCTGAG
84812458 ATATTAGGTACAGAAGAAGTTCAGTCTTTTGCAGTAAACGGATAATGATTCCCGTCCTGGTGATA
131 ATATTAGGTACAGAAGAAGTTCAGTC-TTTGCAGTAAACGGATAATGATTCCCGTCCTGGTGATA
*
84812523 TTAAGTCCCTCACTTCTCATTCTCCCACGGATTTGGTAAATCACTAGGGCTGAGTCCCCGTACAC
1 TTAAGTCCCTCACTTCTCATTCT-CCACGGATTTGGTAAATCACTAGGGCTGAATCCCCGTACAC
*
84812588 CTCCAAGATCTTGATGTTTCGTTCGATAGCTGCACGAAGCCCGATGATACAGGCCTCATATTCTG
65 CTCCAAGATCTTGATGTTTCGTTCGATAGCTGCACGAAG-CCGATGAGACAGGCCTCATATTCTG
*
84812653 AGATATTATTGGTACAGAAGAAGTTCAGTC-TTGCAGTAAACGGATAATGATTCCTGT-CTGGTG
129 AGATATTA--GGTACAGAAGAAGTTCAGTCTTTGCAGTAAACGGATAATGATTCCCGTCCTGGTG
84812716 ATA
192 ATA
84812719 CCAGGATTGC
Statistics
Matches: 189, Mismatches: 3, Indels: 7
0.95 0.02 0.04
Matches are distributed among these distances:
195 23 0.12
196 88 0.47
197 58 0.31
199 20 0.11
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (194 bp):
TTAAGTCCCTCACTTCTCATTCTCCACGGATTTGGTAAATCACTAGGGCTGAATCCCCGTACACC
TCCAAGATCTTGATGTTTCGTTCGATAGCTGCACGAAGCCGATGAGACAGGCCTCATATTCTGAG
ATATTAGGTACAGAAGAAGTTCAGTCTTTGCAGTAAACGGATAATGATTCCCGTCCTGGTGATA
Found at i:84819526 original size:16 final size:16
Alignment explanation
Indices: 84819507--84819541 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
84819497 TTGGGGTAAG
84819507 TTTTTCTTT-TTCTTTT
1 TTTTTCTTTGTT-TTTT
84819523 TTTTTCTTTGTTTTTT
1 TTTTTCTTTGTTTTTT
84819539 TTT
1 TTT
84819542 GGGTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.89
Consensus pattern (16 bp):
TTTTTCTTTGTTTTTT
Found at i:84821093 original size:24 final size:24
Alignment explanation
Indices: 84821066--84821117 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
84821056 TTCATATGTC
84821066 AAATAAATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
* *
84821090 AAATATATTATACTAATAAGTACT
1 AAATAAATTATACTAATAAATACT
84821114 AAAT
1 AAAT
84821118 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:84835974 original size:91 final size:91
Alignment explanation
Indices: 84835813--84835983 Score: 263
Period size: 91 Copynumber: 1.9 Consensus size: 91
84835803 TATGCATGTC
* *
84835813 ACATCCATTAAACTTACATTCAACACATAGGGGTATTTTGGTCATTTTTGCCCTTAAGGGTATTT
1 ACATCCATTAAACTTACATTCAACACATAGGGGTATTTTGGTCATTTTCGCCCTTAAGGGCATTT
84835878 AGGTAATTTTCCCTTATATATATATA
66 AGGTAATTTTCCCTTATATATATATA
* * *
84835904 ACATCC-TTAAATCTTACCTTCAACGCATAGGGGTATTTTGGTCATTTTCGCCCTTAGGGGCATT
1 ACATCCATTAAA-CTTACATTCAACACATAGGGGTATTTTGGTCATTTTCGCCCTTAAGGGCATT
* *
84835968 TCGGTAATTTTTCCTT
65 TAGGTAATTTTCCCTT
84835984 TATTACGATT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
90 5 0.07
91 67 0.93
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.40
Consensus pattern (91 bp):
ACATCCATTAAACTTACATTCAACACATAGGGGTATTTTGGTCATTTTCGCCCTTAAGGGCATTT
AGGTAATTTTCCCTTATATATATATA
Found at i:84836287 original size:28 final size:28
Alignment explanation
Indices: 84836242--84836376 Score: 112
Period size: 28 Copynumber: 4.8 Consensus size: 28
84836232 TACATACATG
*
84836242 CATATGGCCCA-CTAGGCCCAATCTTATT
1 CATATGGCCCATC-AGGCCCAATCTCATT
* *
84836270 TATATGGCCCATCCGGCCCAAT-TCACGTT
1 CATATGGCCCATCAGGCCCAATCTCA--TT
* * *
84836299 CATATTGCCCATCAGACCCAATTCACATT
1 CATATGGCCCATCAGGCCCAA-TCTCATT
* * *
84836328 CATATGGCCCGTTAGGCCTAATCTCATT
1 CATATGGCCCATCAGGCCCAATCTCATT
* * *
84836356 TATATGCCCCATCCGGCCCAA
1 CATATGGCCCATCAGGCCCAA
84836377 ATCACATTAT
Statistics
Matches: 82, Mismatches: 20, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
27 2 0.02
28 39 0.48
29 38 0.46
30 1 0.01
31 2 0.02
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.27
Consensus pattern (28 bp):
CATATGGCCCATCAGGCCCAATCTCATT
Found at i:84836308 original size:29 final size:29
Alignment explanation
Indices: 84836237--84836337 Score: 98
Period size: 29 Copynumber: 3.5 Consensus size: 29
84836227 ACCCCTACAT
* *
84836237 ACATGCATATGGCCCA-CTAGGCCCAA-TC
1 ACATTCATATGGCCCATC-AGACCCAATTC
** * * *
84836265 TTATTTATATGGCCCATCCGGCCCAATTC
1 ACATTCATATGGCCCATCAGACCCAATTC
* *
84836294 ACGTTCATATTGCCCATCAGACCCAATTC
1 ACATTCATATGGCCCATCAGACCCAATTC
84836323 ACATTCATATGGCCC
1 ACATTCATATGGCCC
84836338 GTTAGGCCTA
Statistics
Matches: 57, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
28 19 0.33
29 38 0.67
ACGTcount: A:0.26, C:0.34, G:0.14, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCATCAGACCCAATTC
Found at i:84843516 original size:23 final size:23
Alignment explanation
Indices: 84843489--84843534 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
84843479 TACAATATAA
84843489 AATATTAAATTAAAATTTTTATT
1 AATATTAAATTAAAATTTTTATT
84843512 AATATTAAATTAAAATTTTTATT
1 AATATTAAATTAAAATTTTTATT
84843535 TTTAATGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATATTAAATTAAAATTTTTATT
Found at i:84843600 original size:20 final size:19
Alignment explanation
Indices: 84843575--84843612 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
84843565 AATTATATAC
*
84843575 CAATATAAACTAAGATTTAA
1 CAATATAAA-TAACATTTAA
84843595 CAATATAAATAACATTTA
1 CAATATAAATAACATTTA
84843613 GAATAAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.32
Consensus pattern (19 bp):
CAATATAAATAACATTTAA
Found at i:84843604 original size:83 final size:82
Alignment explanation
Indices: 84843431--84843604 Score: 183
Period size: 83 Copynumber: 2.1 Consensus size: 82
84843421 TCATTTTCTG
* * *
84843431 TATTAAATTAAAATTATTGTTTTAAATTAATTAGCATTTAATTAGTGATACAATATAAAATATTA
1 TATTAAATTAAAATTATTATTTTAAATGAATTAGCATTTAATTAGTCATACAATATAAAATATTA
* **
84843496 AATTAAAATTTTTATTAA
66 AACTAAAA-TTTTAACAA
* * * *
84843514 TATTAAATTAAAATTTTTATTTTTAATGAATTATCATTTAATTAGTCTTACAATTATATACCAAT
1 TATTAAATTAAAATTATTATTTTAAATGAATTAGCATTTAATTAGTCATACAA-TATA-A--AAT
*
84843579 A-TAAACTAAGA-TTTAACAA
62 ATTAAACTAAAATTTTAACAA
84843598 TA-TAAAT
1 TATTAAAT
84843605 AACATTTAGA
Statistics
Matches: 76, Mismatches: 11, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
83 51 0.67
84 12 0.16
85 1 0.01
86 8 0.11
87 4 0.05
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (82 bp):
TATTAAATTAAAATTATTATTTTAAATGAATTAGCATTTAATTAGTCATACAATATAAAATATTA
AACTAAAATTTTAACAA
Found at i:84843813 original size:19 final size:20
Alignment explanation
Indices: 84843789--84843829 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
84843779 TTTATTTATT
84843789 TATTTTAATT-ATAATAAAA
1 TATTTTAATTAATAATAAAA
*
84843808 TATTTTATTTAATAATAAAA
1 TATTTTAATTAATAATAAAA
84843828 TA
1 TA
84843830 ATTAAATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTTTAATTAATAATAAAA
Found at i:84846736 original size:18 final size:18
Alignment explanation
Indices: 84846713--84846766 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 18
84846703 TTAAAAAGTT
*
84846713 TAAAAATAAATAAATAGA
1 TAAAAATAAATAAATAAA
84846731 TAAAAATATGTAATAAACTAAA
1 TAAAAATA---AATAAA-TAAA
84846753 TAAAAATAAA-AAAT
1 TAAAAATAAATAAAT
84846767 CTAACTTCCT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
17 1 0.03
18 11 0.35
19 2 0.06
21 6 0.19
22 11 0.35
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (18 bp):
TAAAAATAAATAAATAAA
Found at i:84850031 original size:49 final size:49
Alignment explanation
Indices: 84849974--84850193 Score: 354
Period size: 49 Copynumber: 4.5 Consensus size: 49
84849964 TATGATATAC
* * * *
84849974 ATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
84850022 -TATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
* *
84850070 ATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGC
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
* *
84850119 ATGTATATGTGATAAGGCCTAATGGTCGATGTGGTGAATGTGAAAGTGT
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
84850168 ATATATATGTGATAAGGCCTAATGGC
1 ATATATATGTGATAAGGCCTAATGGC
84850194 TAATGTAAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
47 43 0.27
49 117 0.73
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (49 bp):
ATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
Found at i:84850352 original size:37 final size:37
Alignment explanation
Indices: 84850295--84850416 Score: 217
Period size: 37 Copynumber: 3.3 Consensus size: 37
84850285 GGAATATGTT
*
84850295 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
84850332 CCAGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
84850369 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
84850406 CCGGGTAAGAC
1 CCGGGTAAGAC
84850417 TTCGTAATAA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 81 1.00
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:84853644 original size:60 final size:61
Alignment explanation
Indices: 84853548--84853665 Score: 202
Period size: 60 Copynumber: 1.9 Consensus size: 61
84853538 GCTTTTGATG
*
84853548 CAGTGAAATGTAAAGTTTTCTTGATGACTTTGAGGGAAA-CCAAAGATTGGTATTTTAATA
1 CAGTGAAATGTAAAGTTTTCTTGACGACTTTGAGGGAAACCCAAAGATTGGTATTTTAATA
*
84853608 CAGTGAAATGTAAAGTTTTCTTGACGACTTTTAGGGAAACGCCAAAGATTGGTATTTT
1 CAGTGAAATGTAAAGTTTTCTTGACGACTTTGAGGGAAAC-CCAAAGATTGGTATTTT
84853666 TCTTTGCCAC
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
60 37 0.69
62 17 0.31
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (61 bp):
CAGTGAAATGTAAAGTTTTCTTGACGACTTTGAGGGAAACCCAAAGATTGGTATTTTAATA
Found at i:84857304 original size:31 final size:31
Alignment explanation
Indices: 84857268--84857335 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
84857258 TTAACCACCT
* **
84857268 AATGACTTGAATAAAAACTTTTGAATAATTC
1 AATGACTTAAATAAAAACTTTCAAATAATTC
* * *
84857299 AATGACTTAAATGATAACTTTCAAATAGTTC
1 AATGACTTAAATAAAAACTTTCAAATAATTC
84857330 AATGAC
1 AATGAC
84857336 CATTTTGTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (31 bp):
AATGACTTAAATAAAAACTTTCAAATAATTC
Found at i:84864752 original size:130 final size:130
Alignment explanation
Indices: 84864513--84865100 Score: 682
Period size: 130 Copynumber: 4.5 Consensus size: 130
84864503 GATTTAATCG
* * * *
84864513 CTGATTTATGATTATAACCTAAGTTCATTGATTTACTATCATAAACAATCTTCTCTAAGTTAGTT
1 CTGATTTACGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATCTTCTCTAAGTTAGTT
* * * **
84864578 GATTTGCTATCGCTACTCCAAATAGCTTGTAGATTTAATATCACAGGAGATATTATTAAGGCTCA
66 GATTTACTATCGCTACTCCAAACAGCTCGTAGATTTAATATCACAGCTGATATTATTAAGGCTCA
* * *
84864643 CTGATTTACGATTACAACCTAAGTTCATTGATTTACTATCATGAATAATATTCTCTAAGTTCA-T
1 CTGATTTACGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATCTTCTCTAAGTT-AGT
* * * ** *
84864707 TGATTTACTATCGTTACTTCAAATAGCTCGCTA-ATTTAAGGTCACAGTTGATATTATTAAGGCT
65 TGATTTACTATCGCTACTCCAAACAGCTCG-TAGATTTAATATCACAGCTGATATTATTAAGGCT
**
84864771 TG
129 CA
* * * * * *
84864773 CTGATTTACGATCACAACCCAAGTTCATTGATTTACTATCATGAAAAATTTTCTTTGAGTTAGCT
1 CTGATTTACGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATCTTCTCTAAGTTAGTT
* * * * *
84864838 GATTTATTATCACTACTCCAAACAGCTCACTAG-TTTAATATCATAGCTGATATTATTAAGGCTT
66 GATTTACTATCGCTACTCCAAACAGCTC-GTAGATTTAATATCACAGCTGATATTATTAAGGCTC
*
84864902 G
130 A
* * ** *
84864903 TTGATTTACAATCAGGACCTAAATTCATTGATTTACTATCATGAACAATCTTCTCTAAGTTAGTT
1 CTGATTTACGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATCTTCTCTAAGTTAGTT
* * *
84864968 GATTTACTATTGCTACTCCAAACAACTCGTAGATTTAATATCATAGCTGATATTATTAAGGCTCA
66 GATTTACTATCGCTACTCCAAACAGCTCGTAGATTTAATATCACAGCTGATATTATTAAGGCTCA
* * * * * * *
84865033 CTAATTTACGATAACAACCAAAGTTCATTTATTTACAATCATGAATAATCCTTC-CTGAGTT-GT
1 CTGATTTACGATCACAACCTAAGTTCATTGATTTACTATCATGAACAAT-CTTCTCTAAGTTAGT
84865096 TGATT
65 TGATT
84865101 CCCGATAATA
Statistics
Matches: 389, Mismatches: 62, Indels: 15
0.83 0.13 0.03
Matches are distributed among these distances:
129 11 0.03
130 371 0.95
131 7 0.02
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.38
Consensus pattern (130 bp):
CTGATTTACGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATCTTCTCTAAGTTAGTT
GATTTACTATCGCTACTCCAAACAGCTCGTAGATTTAATATCACAGCTGATATTATTAAGGCTCA
Found at i:84866214 original size:29 final size:29
Alignment explanation
Indices: 84866172--84866231 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
84866162 TCTTTCCACG
84866172 GAAATAATGTTTGTACCTCACCACCAGTA
1 GAAATAATGTTTGTACCTCACCACCAGTA
*
84866201 GAAATAATGTTTGTGCCTCACCACCAGTA
1 GAAATAATGTTTGTACCTCACCACCAGTA
84866230 GA
1 GA
84866232 CACAAAGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (29 bp):
GAAATAATGTTTGTACCTCACCACCAGTA
Found at i:84866241 original size:29 final size:29
Alignment explanation
Indices: 84866180--84866241 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
84866170 CGGAAATAAT
* *
84866180 GTTTGTACCTCACCACCAGTAGAAATAAT
1 GTTTGTACCTCACCACCAGTAGAAACAAA
* *
84866209 GTTTGTGCCTCACCACCAGTAGACACAAA
1 GTTTGTACCTCACCACCAGTAGAAACAAA
84866238 GTTT
1 GTTT
84866242 ATTGAACCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (29 bp):
GTTTGTACCTCACCACCAGTAGAAACAAA
Found at i:84868685 original size:72 final size:73
Alignment explanation
Indices: 84868567--84868713 Score: 278
Period size: 72 Copynumber: 2.0 Consensus size: 73
84868557 CAATATTTAT
84868567 TTTTAATACAAATGAAAGTCGGGGATACATAAAAAGGATGGATGTGTATATATACATGCATGTAA
1 TTTTAATACAAATGAAAGTCGGGGATACATAAAAAGGATGGATGTGTATATATACATGCATGTAA
84868632 AAATTAGC
66 AAATTAGC
*
84868640 TTTTAATACAAATGAAAGTC-GGGATACTTAAAAAGGATGGATGTGTATATATACATGCATGTAA
1 TTTTAATACAAATGAAAGTCGGGGATACATAAAAAGGATGGATGTGTATATATACATGCATGTAA
84868704 AAATTAGC
66 AAATTAGC
84868712 TT
1 TT
84868714 CATCTTTTTA
Statistics
Matches: 73, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
72 53 0.73
73 20 0.27
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (73 bp):
TTTTAATACAAATGAAAGTCGGGGATACATAAAAAGGATGGATGTGTATATATACATGCATGTAA
AAATTAGC
Found at i:84890921 original size:31 final size:31
Alignment explanation
Indices: 84890857--84890922 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
84890847 CTTAACCACC
* **
84890857 CAATGACTTGAATAAAAACTTTTGAATAATT
1 CAATGACTTAAATAAAAACTTTCAAATAATT
* *
84890888 CAATGACTTAAATGAAAACTTTCAAATAGTT
1 CAATGACTTAAATAAAAACTTTCAAATAATT
84890919 CAAT
1 CAAT
84890923 CACCATTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.33
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTTTCAAATAATT
Found at i:84901836 original size:41 final size:43
Alignment explanation
Indices: 84901789--84901874 Score: 122
Period size: 41 Copynumber: 2.0 Consensus size: 43
84901779 AAGTGCCACA
*
84901789 AAAAGCCATGGCTTTTAGCGGCG-TTTT-CCAAAAAAGCCGCT
1 AAAAGCCATGACTTTTAGCGGCGCTTTTCCCAAAAAAGCCGCT
* * *
84901830 AAAAGCCATGACTTTTAGTGGCGCTTTTCCCACAAACGCCGCT
1 AAAAGCCATGACTTTTAGCGGCGCTTTTCCCAAAAAAGCCGCT
84901873 AA
1 AA
84901875 TTTTGACAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 21 0.54
42 4 0.10
43 14 0.36
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (43 bp):
AAAAGCCATGACTTTTAGCGGCGCTTTTCCCAAAAAAGCCGCT
Found at i:84901963 original size:31 final size:31
Alignment explanation
Indices: 84901928--84902010 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
84901918 CTTCCTGCAT
* *
84901928 TAAAATCCAACCAAATACAACAAATATAGTA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
* * * *
84901959 TAAAATGCAGCCAAAAACAGCAAATTTAGCA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
*
84901990 TAAAAAATACAACCAAAAACA
1 T--AAAATCCAACCAAAAACA
84902011 TTAATTCTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 26 0.62
33 16 0.38
ACGTcount: A:0.59, C:0.19, G:0.06, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAGCA
Found at i:84902259 original size:21 final size:21
Alignment explanation
Indices: 84902246--84902365 Score: 145
Period size: 21 Copynumber: 5.7 Consensus size: 21
84902236 TCTGCTGCCA
*
84902246 TCGCTGCTGCCTCTGCCTCCT
1 TCGCTGCTGCCTCTGCCTCCC
*
84902267 TCGCT-CGTGCCTCTGCCACCC
1 TCGCTGC-TGCCTCTGCCTCCC
* * *
84902288 TTGCTGCTACCGCTGCCTCCC
1 TCGCTGCTGCCTCTGCCTCCC
*
84902309 TCGCTGCTGCCACTGCCTCCC
1 TCGCTGCTGCCTCTGCCTCCC
84902330 TCGCTGCTGCCGT-TGCCTCCC
1 TCGCTGCTGCC-TCTGCCTCCC
*
84902351 TCTCTGCTGCCTCTG
1 TCGCTGCTGCCTCTG
84902366 TTCTAAGTTG
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
20 2 0.02
21 81 0.96
22 1 0.01
ACGTcount: A:0.03, C:0.48, G:0.20, T:0.29
Consensus pattern (21 bp):
TCGCTGCTGCCTCTGCCTCCC
Found at i:84907822 original size:9 final size:9
Alignment explanation
Indices: 84907804--84908120 Score: 85
Period size: 9 Copynumber: 35.7 Consensus size: 9
84907794 TAAGTATAAT
84907804 TAAGTTATG
1 TAAGTTATG
*
84907813 TAAGTCATG
1 TAAGTTATG
84907822 T-A-TTATG
1 TAAGTTATG
84907829 TAAGTTATG
1 TAAGTTATG
*
84907838 TAAATTATG
1 TAAGTTATG
* *
84907847 TAAATCATG
1 TAAGTTATG
* *
84907856 -AATTTTGATCCT
1 TAA-GTT-AT--G
*
84907868 TAAATTATG
1 TAAGTTATG
84907877 TAAGTTATG
1 TAAGTTATG
84907886 T-A-TTATG
1 TAAGTTATG
*
84907893 CAAGTTATG
1 TAAGTTATG
84907902 T-A-TTATG
1 TAAGTTATG
84907909 TAAGTTATG
1 TAAGTTATG
*
84907918 -AAATT-TG
1 TAAGTTATG
* **
84907925 -AACTTTAAA
1 TAA-GTTATG
84907934 TAA-TTATG
1 TAAGTTATG
*
84907942 TAACTTATG
1 TAAGTTATG
* * * *
84907951 AAATTTGGTCTT
1 TAA---GTTATG
*
84907963 TAAATTATG
1 TAAGTTATG
84907972 TAAGTTATG
1 TAAGTTATG
*
84907981 T-A-TCATG
1 TAAGTTATG
84907988 TAAGTTATG
1 TAAGTTATG
* * *
84907997 AAATTTGATCTT
1 TAAGTT-A--TG
*
84908009 TAAATTATG
1 TAAGTTATG
*
84908018 TAAGTCATG
1 TAAGTTATG
84908027 T-AG-TATG
1 TAAGTTATG
*
84908034 TAAGTTAAG
1 TAAGTTATG
*
84908043 TAAATTATG
1 TAAGTTATG
84908052 TAAGTTATG
1 TAAGTTATG
* * *
84908061 AAATTTGAACTT
1 TAAGTT--A-TG
*
84908073 TAAATTATG
1 TAAGTTATG
84908082 TAAGTTATG
1 TAAGTTATG
84908091 T-A--TATG
1 TAAGTTATG
*
84908097 TAAATTATG
1 TAAGTTATG
*
84908106 TAAATTATG
1 TAAGTTATG
*
84908115 TGAGTT
1 TAAGTT
84908121 GCTGGTGAAC
Statistics
Matches: 224, Mismatches: 53, Indels: 62
0.66 0.16 0.18
Matches are distributed among these distances:
6 5 0.02
7 30 0.13
8 27 0.12
9 134 0.60
10 6 0.03
11 4 0.02
12 16 0.07
13 2 0.01
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:84907824 original size:34 final size:33
Alignment explanation
Indices: 84907786--84907860 Score: 80
Period size: 34 Copynumber: 2.2 Consensus size: 33
84907776 AGATAAGTTG
* *
84907786 TGTATTTATAAGTATAAT-TAAGTTATGTAAGTCA
1 TGTATTTATAAGT-T-ATGTAAATTATGTAAATCA
*
84907820 TGTATTATGTAAGTTATGTAAATTATGTAAATCA
1 TGTATT-TATAAGTTATGTAAATTATGTAAATCA
*
84907854 TGAATTT
1 TGTATTT
84907861 TGATCCTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
33 3 0.09
34 26 0.74
35 6 0.17
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.45
Consensus pattern (33 bp):
TGTATTTATAAGTTATGTAAATTATGTAAATCA
Found at i:84907914 original size:16 final size:16
Alignment explanation
Indices: 84907808--84908107 Score: 92
Period size: 16 Copynumber: 19.0 Consensus size: 16
84907798 TATAATTAAG
*
84907808 TTATGTAAGTCATGTA
1 TTATGTAAGTTATGTA
84907824 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATGT--A
* * *
84907842 TTATGTAAATCATGAA
1 TTATGTAAGTTATGTA
* ** *
84907858 TTTTG-ATCCTTA--AA
1 TTATGTA-AGTTATGTA
84907872 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
84907888 TTATGCAAGTTATGTA
1 TTATGTAAGTTATGTA
*
84907904 TTATGTAAGTTATGAAA
1 TTATGTAAGTTATG-TA
* **
84907921 TT-TG-AACTTTAAATAA
1 TTATGTAA-GTTATGT-A
* *
84907937 TTATGTAACTTATGAAA
1 TTATGTAAGTTATG-TA
* **
84907954 TT-TG---GTCTTTAAA
1 TTATGTAAGT-TATGTA
84907967 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
* *
84907983 TCATGTAAGTTATGAAA
1 TTATGTAAGTTATG-TA
** **
84908000 TT-TG-ATCTT-TAAA
1 TTATGTAAGTTATGTA
*
84908013 TTATGTAAGTCATGTA
1 TTATGTAAGTTATGTA
* *
84908029 GTATGTAAGTTAAGTAAA
1 TTATGTAAGTTATGT--A
*
84908047 TTATGTAAGTTATGAAA
1 TTATGTAAGTTATG-TA
* **
84908064 TT-TG-AACTT-TAAA
1 TTATGTAAGTTATGTA
84908077 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
84908093 -TATGTAAATTATGTA
1 TTATGTAAGTTATGTA
84908108 AATTATGTGA
Statistics
Matches: 205, Mismatches: 52, Indels: 55
0.66 0.17 0.18
Matches are distributed among these distances:
13 13 0.06
14 19 0.09
15 31 0.15
16 96 0.47
17 18 0.09
18 28 0.14
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.44
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:84907950 original size:33 final size:33
Alignment explanation
Indices: 84907903--84907967 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
84907893 CAAGTTATGT
*
84907903 ATTATGTAAGTTATGAAATTTGAACTTTAAATA
1 ATTATGTAACTTATGAAATTTGAACTTTAAATA
**
84907936 ATTATGTAACTTATGAAATTTGGTCTTTAAAT
1 ATTATGTAACTTATGAAATTTGAACTTTAAAT
84907968 TATGTAAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (33 bp):
ATTATGTAACTTATGAAATTTGAACTTTAAATA
Found at i:84907970 original size:21 final size:21
Alignment explanation
Indices: 84907946--84908017 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 21
84907936 ATTATGTAAC
*
84907946 TTATGAAATTTGGTCTTTAAA
1 TTATGAAATTTGATCTTTAAA
* * *
84907967 TTATGTAAGTTATGTATCATGTAAG
1 TTATG-AAATT-TG-ATC-TTTAAA
84907992 TTATGAAATTTGATCTTTAAA
1 TTATGAAATTTGATCTTTAAA
84908013 TTATG
1 TTATG
84908018 TAAGTCATGT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
21 14 0.35
22 7 0.17
23 4 0.10
24 6 0.15
25 9 0.22
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.47
Consensus pattern (21 bp):
TTATGAAATTTGATCTTTAAA
Found at i:84908019 original size:30 final size:30
Alignment explanation
Indices: 84907985--84908090 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 30
84907975 GTTATGTATC
*
84907985 ATGTAAGTTATGAAATTTGATCTTTAAATT
1 ATGTAAGTTATGAAATTTGAACTTTAAATT
* * * * *
84908015 ATGTAAGTCATGTAGTATGTAAGTTAAGTAAATT
1 ATGTAAGTTATGAAATTTG-AACTT---TAAATT
84908049 ATGTAAGTTATGAAATTTGAACTTTAAATT
1 ATGTAAGTTATGAAATTTGAACTTTAAATT
84908079 ATGTAAGTTATG
1 ATGTAAGTTATG
84908091 TATATGTAAA
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
30 33 0.54
31 3 0.05
33 4 0.07
34 21 0.34
ACGTcount: A:0.38, C:0.03, G:0.17, T:0.42
Consensus pattern (30 bp):
ATGTAAGTTATGAAATTTGAACTTTAAATT
Found at i:84908037 original size:46 final size:45
Alignment explanation
Indices: 84907938--84908040 Score: 161
Period size: 46 Copynumber: 2.2 Consensus size: 45
84907928 TTTAAATAAT
* * *
84907938 TATGTAACTTATGAAATTTGGTCTTTAAATTATGTAAGTTATGTA
1 TATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTCATGTA
84907983 TCATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTCATGTA
1 T-ATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTCATGTA
84908029 GTATGTAAGTTA
1 -TATGTAAGTTA
84908041 AGTAAATTAT
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
45 1 0.02
46 51 0.96
47 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.45
Consensus pattern (45 bp):
TATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTCATGTA
Found at i:84908050 original size:34 final size:32
Alignment explanation
Indices: 84908009--84908120 Score: 113
Period size: 30 Copynumber: 3.5 Consensus size: 32
84907999 ATTTGATCTT
* *
84908009 TAAATTATGTAAGTCATGTAGTATGTAAGTTAAG
1 TAAATTATGTAAGTTATGTA-TATGTAAATT-AG
* * *
84908043 TAAATTATGTAAGTTATG-AAATTTGAACTT--
1 TAAATTATGTAAGTTATGTATATGT-AAATTAG
84908073 TAAATTATGTAAGTTATGTATATGTAAATTATG
1 TAAATTATGTAAGTTATGTATATGTAAATTA-G
*
84908106 TAAATTATGTGAGTT
1 TAAATTATGTAAGTT
84908121 GCTGGTGAAC
Statistics
Matches: 65, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
30 22 0.34
31 4 0.06
32 3 0.05
33 19 0.29
34 17 0.26
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (32 bp):
TAAATTATGTAAGTTATGTATATGTAAATTAG
Found at i:84908059 original size:64 final size:63
Alignment explanation
Indices: 84907968--84908120 Score: 229
Period size: 64 Copynumber: 2.4 Consensus size: 63
84907958 GTCTTTAAAT
* *
84907968 TATGTAAGTTATGT--ATCATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTCATGTA
1 TATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTCATGTA
* *
84908029 GTATGTAAGTTAAGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTTATGTA
1 -TATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTCATGTA
* *
84908093 TATGTAAATTATGTAAATTATGTGAGTT
1 TATGTAAGTTATGTAAATTATGTAAGTT
84908121 GCTGGTGAAC
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
62 13 0.16
63 25 0.30
64 44 0.54
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.44
Consensus pattern (63 bp):
TATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTCATGTA
Found at i:84908098 original size:15 final size:15
Alignment explanation
Indices: 84908078--84908107 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
84908068 AACTTTAAAT
*
84908078 TATGTAAGTTATGTA
1 TATGTAAATTATGTA
84908093 TATGTAAATTATGTA
1 TATGTAAATTATGTA
84908108 AATTATGTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.47
Consensus pattern (15 bp):
TATGTAAATTATGTA
Found at i:84908162 original size:17 final size:17
Alignment explanation
Indices: 84908140--84908173 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
84908130 CTTGAAAAAA
*
84908140 ATATATTACTTTTGAAT
1 ATATATTAATTTTGAAT
84908157 ATATATTAATTTTGAAT
1 ATATATTAATTTTGAAT
84908174 TAGAAACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (17 bp):
ATATATTAATTTTGAAT
Found at i:84909620 original size:14 final size:13
Alignment explanation
Indices: 84909601--84909630 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
84909591 CAATATAATT
84909601 TTACTTCATATATA
1 TTACTTCATATA-A
84909615 TTACTTCATATAA
1 TTACTTCATATAA
84909628 TTA
1 TTA
84909631 TTATAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (13 bp):
TTACTTCATATAA
Found at i:84912908 original size:29 final size:28
Alignment explanation
Indices: 84912876--84912978 Score: 107
Period size: 29 Copynumber: 3.6 Consensus size: 28
84912866 GTGACGAGAT
* *
84912876 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
** *
84912905 TGGCACTAAGTGTGCGAATTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
84912934 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
84912963 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
84912979 TGATTGAGTA
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 3 0.05
29 56 0.93
30 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:84920870 original size:29 final size:28
Alignment explanation
Indices: 84920838--84920940 Score: 107
Period size: 29 Copynumber: 3.6 Consensus size: 28
84920828 GTGACGAGAT
* *
84920838 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
** *
84920867 TGGCACTAAGTGTGCGAATTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
84920896 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
84920925 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
84920941 TGATTGAGTA
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 3 0.05
29 56 0.93
30 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:84923727 original size:21 final size:21
Alignment explanation
Indices: 84923703--84923755 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
84923693 CTTATAACCT
*
84923703 TAAACCCTAAAGTATATCCCC
1 TAAACCCTAAACTATATCCCC
84923724 TAAACCCTAAACTATATCCCC
1 TAAACCCTAAACTATATCCCC
*
84923745 T-AACCATAAAC
1 TAAACCCTAAAC
84923756 CACAAAACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 9 0.30
21 21 0.70
ACGTcount: A:0.42, C:0.34, G:0.02, T:0.23
Consensus pattern (21 bp):
TAAACCCTAAACTATATCCCC
Found at i:84923729 original size:28 final size:29
Alignment explanation
Indices: 84923668--84923735 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 29
84923658 TCAAAACTCT
* *
84923668 TAACCTTAAACCATTAAACTATATCCTTA
1 TAACCTTAAACCACTAAACTATATCCCTA
*
84923697 TAACCTTAAACC-CTAAAGTATATCCCCTA
1 TAACCTTAAACCACTAAACTATAT-CCCTA
*
84923726 -AACCCTAAAC
1 TAACCTTAAAC
84923736 TATATCCCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 18 0.53
29 16 0.47
ACGTcount: A:0.41, C:0.29, G:0.01, T:0.28
Consensus pattern (29 bp):
TAACCTTAAACCACTAAACTATATCCCTA
Found at i:84923772 original size:28 final size:28
Alignment explanation
Indices: 84923722--84923790 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
84923712 AAGTATATCC
* * *
84923722 CCTAAACC-CTAAACTATATCCCCTAA-
1 CCTAAACCACAAAACAATAACCCCTAAG
84923748 CCATAAACCACAAAACAATAACCCCTAAG
1 CC-TAAACCACAAAACAATAACCCCTAAG
*
84923777 CCTTAACCACAAAA
1 CCTAAACCACAAAA
84923791 TGTATGAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 2 0.06
27 6 0.17
28 26 0.72
29 2 0.06
ACGTcount: A:0.46, C:0.36, G:0.01, T:0.16
Consensus pattern (28 bp):
CCTAAACCACAAAACAATAACCCCTAAG
Found at i:84923928 original size:14 final size:14
Alignment explanation
Indices: 84923885--84923930 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
84923875 CTTAAACCAT
84923885 TAAACTATATCCCC
1 TAAACTATATCCCC
* *
84923899 T--ACTAAAGTACCC
1 TAAACTATA-TCCCC
84923912 TAAACTATATCCCC
1 TAAACTATATCCCC
84923926 TAAAC
1 TAAAC
84923931 CTTATACCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
12 5 0.20
13 5 0.20
14 10 0.40
15 5 0.20
ACGTcount: A:0.39, C:0.33, G:0.02, T:0.26
Consensus pattern (14 bp):
TAAACTATATCCCC
Found at i:84923987 original size:7 final size:7
Alignment explanation
Indices: 84923962--84924072 Score: 77
Period size: 7 Copynumber: 15.4 Consensus size: 7
84923952 CCCTAAGCAT
*
84923962 TAACCCT
1 TAACCCA
*
84923969 TAAACCA
1 TAACCCA
84923976 TTAACCCA
1 -TAACCCA
84923984 TAACCCA
1 TAACCCA
*
84923991 TAAACCCC
1 T-AACCCA
84923999 TAA-CCA
1 TAACCCA
84924005 CTAACCCA
1 -TAACCCA
*
84924013 TAACCCT
1 TAACCCA
84924020 TAAACCC-
1 T-AACCCA
*
84924027 CAA-CCA
1 TAACCCA
84924033 TTAACCCA
1 -TAACCCA
84924041 TAACCCA
1 TAACCCA
*
84924048 TAAACCCC
1 T-AACCCA
84924056 TAA-CCA
1 TAACCCA
84924062 CTAACCCA
1 -TAACCCA
84924070 TAA
1 TAA
84924073 ACCTTAAACC
Statistics
Matches: 83, Mismatches: 10, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
5 2 0.02
6 6 0.07
7 43 0.52
8 32 0.39
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.17
Consensus pattern (7 bp):
TAACCCA
Found at i:84924037 original size:57 final size:57
Alignment explanation
Indices: 84923971--84924109 Score: 242
Period size: 57 Copynumber: 2.4 Consensus size: 57
84923961 TTAACCCTTA
*
84923971 AACCATTAACCCATAACCCATAAACCCCTAACCACTAACCCATAACCCTTAAACCCC
1 AACCATTAACCCATAACCCATAAACCCCTAACCACTAACCCATAAACCTTAAACCCC
84924028 AACCATTAACCCATAACCCATAAACCCCTAACCACTAACCCATAAACCTTAAACCCC
1 AACCATTAACCCATAACCCATAAACCCCTAACCACTAACCCATAAACCTTAAACCCC
* * *
84924085 AACCCTTAAACCATAAGCCATAAAC
1 AACCATTAACCCATAACCCATAAAC
84924110 ATAATCCCTA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 78 1.00
ACGTcount: A:0.42, C:0.41, G:0.01, T:0.16
Consensus pattern (57 bp):
AACCATTAACCCATAACCCATAAACCCCTAACCACTAACCCATAAACCTTAAACCCC
Found at i:84924093 original size:14 final size:14
Alignment explanation
Indices: 84924014--84924096 Score: 64
Period size: 14 Copynumber: 5.9 Consensus size: 14
84924004 ACTAACCCAT
84924014 AACCCTTAAACCCC
1 AACCCTTAAACCCC
* *
84924028 AACCATT-AACCCAT
1 AACCCTTAAACCC-C
*
84924042 AACCCATAAACCCC
1 AACCCTTAAACCCC
*
84924056 TAACCAC-T-AACCCAT
1 -AACC-CTTAAACCC-C
*
84924071 AAACCTTAAACCCC
1 AACCCTTAAACCCC
84924085 AACCCTTAAACC
1 AACCCTTAAACC
84924097 ATAAGCCATA
Statistics
Matches: 53, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
13 6 0.11
14 31 0.58
15 15 0.28
16 1 0.02
ACGTcount: A:0.41, C:0.43, G:0.00, T:0.16
Consensus pattern (14 bp):
AACCCTTAAACCCC
Found at i:84927060 original size:55 final size:54
Alignment explanation
Indices: 84926855--84927110 Score: 240
Period size: 55 Copynumber: 4.8 Consensus size: 54
84926845 ACACGGGTAC
* * * * *
84926855 CTTACCATTGCCATGACTTGTCATGATCTTACATGGTATCCTT---TT-GA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTATAGAA
* * * *
84926904 CTCACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTATAGAA
* * * * *
84926957 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTGA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTACCTTATAG-AA
* * * * *
84927012 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTAGA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTATAGAA
*
84927065 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTA
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTTA
84927111 AACCCTCATG
Statistics
Matches: 171, Mismatches: 25, Indels: 16
0.81 0.12 0.08
Matches are distributed among these distances:
49 39 0.23
52 4 0.02
53 46 0.27
54 8 0.05
55 72 0.42
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTATAGAA
Found at i:84931940 original size:23 final size:24
Alignment explanation
Indices: 84931901--84931945 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
84931891 TTTGCTCTTC
84931901 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTTGTCTTACCTTTT
84931925 TAGCAT-AACTCT-TCTTACCTT
1 TAGCATGAACT-TGTCTTACCTT
84931946 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.22, C:0.24, G:0.09, T:0.44
Consensus pattern (24 bp):
TAGCATGAACTTGTCTTACCTTTT
Found at i:84932197 original size:55 final size:53
Alignment explanation
Indices: 84932022--84932268 Score: 222
Period size: 55 Copynumber: 4.7 Consensus size: 53
84932012 ACCTTACCAT
* * * * *
84932022 TGCCATGACTTGTCATGGTCTTACATGGTATCCTT---TT-GA-AACTCACCAT
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTA-CAA
* * * *
84932071 TGCCATGTCTCGACATGGTTTTACATGGTATCCTTGCCTTAT-GAACTCACTAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTAC-AA
* *
84932124 TGCCATGCCTTGGCATGGTCTTACATAG-ATCCTTTGCCTTATAGTAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG-AACTTA-CAA
* * * *
84932179 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGA-AACCTTACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA-CTTA-CAA
*
84932233 TTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
84932269 AAACCCTAAT
Statistics
Matches: 162, Mismatches: 23, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
49 31 0.19
52 7 0.04
53 41 0.25
54 8 0.05
55 71 0.44
56 4 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTACAA
Found at i:84932205 original size:108 final size:111
Alignment explanation
Indices: 84932071--84932268 Score: 296
Period size: 108 Copynumber: 1.8 Consensus size: 111
84932061 AACTCACCAT
* * *
84932071 TGCCATGTCTCGACATGGTTTTACATGGTATCCTTGCCTTATG-AA-CTCACTAA-TGCCATGCC
1 TGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAATTGCCATGCC
84932133 TTGGCATGGTCTTACATAG-ATCCTTTGCCTTATAGTAACTTATCAA
65 TTGGCATGGTCTTACATAGTATCCTTTGCCTTATAGTAACTTATCAA
* * *
84932179 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAATTGCCATGCCT
1 TGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAATTGCCATGCCT
*
84932244 TGGCATGGTCTTACATGGTATCCTT
66 TGGCATGGTCTTACATAGTATCCTT
84932269 AAACCCTAAT
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
107 1 0.01
108 39 0.49
109 6 0.08
110 27 0.34
111 6 0.08
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (111 bp):
TGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAATTGCCATGCCT
TGGCATGGTCTTACATAGTATCCTTTGCCTTATAGTAACTTATCAA
Found at i:84941151 original size:12 final size:12
Alignment explanation
Indices: 84941134--84941166 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
84941124 CGTCCCACCC
84941134 ATATTAATTTTT
1 ATATTAATTTTT
84941146 ATATT-ATTTTT
1 ATATTAATTTTT
84941157 ATA-TAATTTT
1 ATATTAATTTT
84941167 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:84941326 original size:30 final size:30
Alignment explanation
Indices: 84941292--84941354 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
84941282 ACTTAACAAG
84941292 CAAATATCTCTAAAATAATAACAAAATTAA
1 CAAATATCTCTAAAATAATAACAAAATTAA
*
84941322 CAAATATCTTTAAAATAATAACAAAATTAA
1 CAAATATCTCTAAAATAATAACAAAATTAA
84941352 CAA
1 CAA
84941355 TAAAATAAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (30 bp):
CAAATATCTCTAAAATAATAACAAAATTAA
Found at i:84942302 original size:66 final size:65
Alignment explanation
Indices: 84942212--84942392 Score: 222
Period size: 66 Copynumber: 2.8 Consensus size: 65
84942202 TGAAAGCTCG
* * * * * *
84942212 GACAAGGACCCCAAAAGGGATTATTAAACCAAGAGGAAGATATTAGAAAATAGAGTAGAACAAGG
1 GACAA-GACCCCAAAAGGGGTTATTAAACCAAGAGGAAGACATCAAAAAACAAAGTAGAACAAGG
84942277 A
65 A
* * *
84942278 GACAAGACCCTCGAAAGGGGTTATTAAACCGAGAGGAGGACATCAAAAAACAAAGTAGAACAAGG
1 GACAAGACCC-CAAAAGGGGTTATTAAACCAAGAGGAAGACATCAAAAAACAAAGTAGAACAAGG
84942343 A
65 A
*
84942344 GACAAGACCCCCAAAAGGGGTTATTAAATCAAGAGG-AGTACAT-AAAAAA
1 GACAAGA-CCCCAAAAGGGGTTATTAAACCAAGAGGAAG-ACATCAAAAAA
84942393 TAGAAAAGAG
Statistics
Matches: 99, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
65 12 0.12
66 84 0.85
67 3 0.03
ACGTcount: A:0.49, C:0.15, G:0.24, T:0.13
Consensus pattern (65 bp):
GACAAGACCCCAAAAGGGGTTATTAAACCAAGAGGAAGACATCAAAAAACAAAGTAGAACAAGGA
Found at i:84946389 original size:18 final size:19
Alignment explanation
Indices: 84946368--84946415 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
84946358 ATTACAAAAT
84946368 AATTTAAAATAATTT-T-AA
1 AATTTAAAAT-ATTTATAAA
*
84946386 AATTCAAAATATTTATAAA
1 AATTTAAAATATTTATAAA
84946405 AATTCTAAAAT
1 AATT-TAAAAT
84946416 TTATTCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 4 0.16
18 10 0.40
19 6 0.24
20 5 0.20
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (19 bp):
AATTTAAAATATTTATAAA
Found at i:84946408 original size:27 final size:29
Alignment explanation
Indices: 84946355--84946416 Score: 85
Period size: 27 Copynumber: 2.2 Consensus size: 29
84946345 ACTCTCAACA
*
84946355 AAAATTACAAAATAATTTAAAATAATTTT
1 AAAATTACAAAATAATTTAAAATAATTCT
84946384 AAAATT-CAAAAT-ATTTATAAA-AATTCT
1 AAAATTACAAAATAATTTA-AAATAATTCT
84946411 AAAATT
1 AAAATT
84946417 TATTCTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 16 0.52
28 9 0.29
29 6 0.19
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (29 bp):
AAAATTACAAAATAATTTAAAATAATTCT
Found at i:84946417 original size:18 final size:19
Alignment explanation
Indices: 84946384--84946419 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
84946374 AAATAATTTT
84946384 AAAATTCAAAATATTTATA
1 AAAATTCAAAATATTTATA
*
84946403 AAAATTCTAAA-ATTTAT
1 AAAATTCAAAATATTTAT
84946420 TCTTTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATTCAAAATATTTATA
Found at i:84957119 original size:42 final size:42
Alignment explanation
Indices: 84957072--84957155 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
84957062 ACTCCTAATT
84957072 GGGAAAATAATTCTCTTATT-TGAATAAACTACTAAAACATAA
1 GGGAAAATAATTCTCTTATTCT-AATAAACTACTAAAACATAA
* * *
84957114 GGGAAAATAGTTCTCTTATTCTAATAAACTATTAAAAGATAA
1 GGGAAAATAATTCTCTTATTCTAATAAACTACTAAAACATAA
84957156 AATAAAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 37 0.97
43 1 0.03
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (42 bp):
GGGAAAATAATTCTCTTATTCTAATAAACTACTAAAACATAA
Found at i:84957163 original size:42 final size:42
Alignment explanation
Indices: 84957074--84957169 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
84957064 TCCTAATTGG
**
84957074 GAAAATAATTCTCTTATTTGAATAAACTACTAAAACATAAGG
1 GAAAATAATTCTCTTATTTGAATAAACTACTAAAACATAAAA
* * *
84957116 GAAAATAGTTCTCTTATTCT-AATAAACTATTAAAAGATAAAA
1 GAAAATAATTCTCTTATT-TGAATAAACTACTAAAACATAAAA
* *
84957158 TAAAATATTTCT
1 GAAAATAATTCT
84957170 AGAATATTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
42 45 0.98
43 1 0.02
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.34
Consensus pattern (42 bp):
GAAAATAATTCTCTTATTTGAATAAACTACTAAAACATAAAA
Found at i:84957208 original size:19 final size:18
Alignment explanation
Indices: 84957186--84957226 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 18
84957176 TTAATAAAAC
84957186 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
84957205 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
84957223 TTAT
1 TTAT
84957227 AATATATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.41
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:84960969 original size:42 final size:42
Alignment explanation
Indices: 84960923--84961012 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 42
84960913 CCTAATTGGA
* *
84960923 AAAATAATTCCCTTATTTTAATAAACTACTAAAACATAAGAG
1 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAAAG
* * *
84960965 AAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAAT
1 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAAAG
84961007 AAAATA
1 AAAATA
84961013 TTAATAAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.52, C:0.13, G:0.04, T:0.30
Consensus pattern (42 bp):
AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAAAG
Found at i:84961020 original size:11 final size:11
Alignment explanation
Indices: 84961004--84961032 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
84960994 TAAAAGATAA
84961004 AATAAAATATT
1 AATAAAATATT
84961015 AATAAAATATT
1 AATAAAATATT
84961026 AATAAAA
1 AATAAAA
84961033 CTTATCTACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AATAAAATATT
Found at i:84961056 original size:19 final size:18
Alignment explanation
Indices: 84961034--84961073 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
84961024 TTAATAAAAC
84961034 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
84961053 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
84961071 TTA
1 TTA
84961074 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:84965892 original size:135 final size:135
Alignment explanation
Indices: 84965650--84965927 Score: 396
Period size: 135 Copynumber: 2.1 Consensus size: 135
84965640 TTTAGTCTTT
* * * * * *
84965650 TAAAGTGGTATGTAACATTTTTTACATGATAAATTGTGTCATGTAGCATCCAATGGTTGGTCTAC
1 TAAAGTAGTATGCAACACTTATGACATGATAAATTGTGTCATGTAGCATCCAATGATTGGTCTAC
* * * * *
84965715 GTGTCAAAAAATGTCATGTCAAATTTCCGTTAGAGATTTTAATATGAGTGATCAAAATGAACAAA
66 ATGTCAAAAAATGCCATGTCAAATTTCCATTAGAGATTTTAATAGGAGTGACCAAAATGAACAAA
84965780 CTATG
131 CTATG
*
84965785 TAAAGTAGTATGCAACACTTATGACATGATAAATTGTGTTATGT-GACATCCAATGATTGGTCTA
1 TAAAGTAGTATGCAACACTTATGACATGATAAATTGTGTCATGTAG-CATCCAATGATTGGTCTA
* * *
84965849 CATGTCAAAGAATGCCATGTCAGATTTCCATTAGAGATTTTAATAGGAGTGACCAAAATGAACGA
65 CATGTCAAAAAATGCCATGTCAAATTTCCATTAGAGATTTTAATAGGAGTGACCAAAATGAACAA
84965914 ACTATG
130 ACTATG
*
84965920 TAACGTAG
1 TAAAGTAG
84965928 GTGTCTAAAT
Statistics
Matches: 126, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
134 1 0.01
135 125 0.99
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (135 bp):
TAAAGTAGTATGCAACACTTATGACATGATAAATTGTGTCATGTAGCATCCAATGATTGGTCTAC
ATGTCAAAAAATGCCATGTCAAATTTCCATTAGAGATTTTAATAGGAGTGACCAAAATGAACAAA
CTATG
Found at i:84967133 original size:26 final size:26
Alignment explanation
Indices: 84967097--84967202 Score: 185
Period size: 26 Copynumber: 4.1 Consensus size: 26
84967087 ATACATATTA
*
84967097 ATAATGAGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
*
84967123 ATAATGGGTTAGGTAAATGTTTCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
84967149 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
*
84967175 ATAATGGTTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
84967201 AT
1 AT
84967203 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.37
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATGTTCCATG
Found at i:84968394 original size:8 final size:8
Alignment explanation
Indices: 84968381--84968410 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
84968371 AGATCGGCAC
84968381 AAGCCGAA
1 AAGCCGAA
84968389 AAGCCGAA
1 AAGCCGAA
*
84968397 ATGCCGAA
1 AAGCCGAA
84968405 AAGCCG
1 AAGCCG
84968411 GTATTTTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:84968837 original size:27 final size:27
Alignment explanation
Indices: 84968796--84968933 Score: 167
Period size: 27 Copynumber: 5.1 Consensus size: 27
84968786 TAGAGAAGCG
*
84968796 TCTGGTGGCTATGCCACAATTATCTGA
1 TCTGGTGGCTCTGCCACAATTATCTGA
84968823 TCTGGTGGCTCTGCCAC-ATATATCTG-
1 TCTGGTGGCTCTGCCACAAT-TATCTGA
* *
84968849 TCCTGGTGGCTATGCCACAATTATCTAA
1 T-CTGGTGGCTCTGCCACAATTATCTGA
* *
84968877 TCAGGTGGCTCTGCCAC-ATATATCTGT
1 TCTGGTGGCTCTGCCACAAT-TATCTGA
84968904 TCTGGTGGCTCTGCCACAA-TATCTGTA
1 TCTGGTGGCTCTGCCACAATTATCTG-A
84968931 TCT
1 TCT
84968934 AATGACTTCG
Statistics
Matches: 95, Mismatches: 9, Indels: 14
0.81 0.08 0.12
Matches are distributed among these distances:
26 11 0.12
27 80 0.84
28 4 0.04
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATTATCTGA
Found at i:84968884 original size:54 final size:54
Alignment explanation
Indices: 84968797--84968927 Score: 219
Period size: 54 Copynumber: 2.4 Consensus size: 54
84968787 AGAGAAGCGT
* *
84968797 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTC
1 CTGGTGGCTATGCCACAATTATCTAATCAGGTGGCTCTGCCACATATATCTGTC
*
84968851 CTGGTGGCTATGCCACAATTATCTAATCAGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTAATCAGGTGGCTCTGCCACATATATCTGTC
*
84968905 CTGGTGGCTCTGCCACAA-TATCT
1 CTGGTGGCTATGCCACAATTATCT
84968928 GTATCTAATG
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 5 0.07
54 68 0.93
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTAATCAGGTGGCTCTGCCACATATATCTGTC
Found at i:84968949 original size:81 final size:80
Alignment explanation
Indices: 84968799--84968954 Score: 192
Period size: 81 Copynumber: 1.9 Consensus size: 80
84968789 AGAAGCGTCT
** *
84968799 GGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTATGC
1 GGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTAATGACTATGC
84968864 CACAATTATCTAATCA
66 CACAA-TATCTAATCA
* * *
84968880 GGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTAATGACT-T
1 GGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTAATGACTAT
*
84968942 CGTCACAATATCT
64 -GCCACAATATCT
84968955 GGCAGCCTCG
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
80 16 0.25
81 49 0.75
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (80 bp):
GGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTAATGACTATGC
CACAATATCTAATCA
Found at i:84973881 original size:26 final size:26
Alignment explanation
Indices: 84973847--84973951 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
84973837 TTGATACAAT
84973847 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
84973873 TGATAAT-GGTTAGGTAAATGTT--A
1 TGATAATGGGTTAGGTAAATGTTCCA
84973896 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
84973922 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
84973948 TGAT
1 TGAT
84973952 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
23 8 0.11
24 15 0.20
25 15 0.20
26 37 0.49
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:84973900 original size:49 final size:50
Alignment explanation
Indices: 84973847--84973944 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 50
84973837 TTGATACAAT
84973847 TGATAATGGGTTAGGTAAATGTTCCATGATAATGG-TTAGGTAAATGTTA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTA
84973896 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTT
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTT
84973945 CCATGATGGG
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 35 0.73
50 13 0.27
ACGTcount: A:0.32, C:0.04, G:0.27, T:0.38
Consensus pattern (50 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTA
Found at i:84975641 original size:54 final size:54
Alignment explanation
Indices: 84975559--84975702 Score: 254
Period size: 54 Copynumber: 2.7 Consensus size: 54
84975549 ATGGAGGAAC
84975559 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
84975613 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
84975667 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
84975703 ACTTCGTCAC
Statistics
Matches: 87, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
53 6 0.07
54 81 0.93
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:84975713 original size:27 final size:27
Alignment explanation
Indices: 84975562--84975720 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
84975552 GAGGAACGTC
*
84975562 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
*
84975589 CTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
84975616 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
84975643 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
84975670 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
84975697 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
84975721 GCAGCCTCGC
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 105 0.90
28 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:84975714 original size:81 final size:80
Alignment explanation
Indices: 84975562--84975720 Score: 216
Period size: 81 Copynumber: 2.0 Consensus size: 80
84975552 GAGGAACGTC
*
84975562 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
84975627 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * *
84975643 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
*
84975706 -TCGTCACAATATCTG
64 AT-GCCACAATATCTG
84975721 GCAGCCTCGC
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
80 17 0.24
81 53 0.76
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGAT
Found at i:84980648 original size:26 final size:26
Alignment explanation
Indices: 84980619--84980726 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
84980609 TGATACAAAT
*
84980619 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
84980645 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
84980671 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
84980697 TGATAATGGTTTGGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
84980723 TGAT
1 TGAT
84980727 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:84981918 original size:8 final size:8
Alignment explanation
Indices: 84981905--84981934 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
84981895 AGATCAGCAC
84981905 AAGCCGAA
1 AAGCCGAA
84981913 AAGCCGAA
1 AAGCCGAA
*
84981921 ATGCCGAA
1 AAGCCGAA
84981929 AAGCCG
1 AAGCCG
84981935 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:84982352 original size:54 final size:54
Alignment explanation
Indices: 84982270--84982413 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
84982260 TGGAGGAAGC
84982270 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
84982324 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * *
84982378 GTTCTGGTGGTTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
84982414 ACTTCATCAC
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 6 0.07
54 80 0.93
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:84982409 original size:32 final size:27
Alignment explanation
Indices: 84982273--84982413 Score: 182
Period size: 27 Copynumber: 5.2 Consensus size: 27
84982263 AGGAAGCGTC
*
84982273 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
84982300 CTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCACATATATCTGAT
*
84982326 CCTGGTGGCTATGCCACA-ATTATCTGAT
1 -CTGGTGGCTCTGCCACATA-TATCTGAT
*
84982354 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
*
84982381 CTGGTGGTTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
84982408 CTGGTG
1 CTGGTG
84982414 ACTTCATCAC
Statistics
Matches: 102, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
26 9 0.09
27 90 0.88
28 3 0.03
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:84983642 original size:32 final size:31
Alignment explanation
Indices: 84983601--84983667 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 31
84983591 GAAATAGATA
84983601 CATGTGGCAAA-GAGAGTAATT-TTTTAGCAAAG
1 CATGTGGCAAATG-GAGT-ATTCTTTTAGC-AAG
84983633 CATGTGGCAAATGGAGTATTCTTTTAGCAAG
1 CATGTGGCAAATGGAGTATTCTTTTAGCAAG
84983664 CATG
1 CATG
84983668 GTCAGATATG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
31 10 0.30
32 22 0.67
33 1 0.03
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (31 bp):
CATGTGGCAAATGGAGTATTCTTTTAGCAAG
Found at i:84986557 original size:41 final size:41
Alignment explanation
Indices: 84986500--84986581 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
84986490 ACTGTGTGAG
*
84986500 TAAAATTTTTGAATGGGATTATTATGAAAATTACGAGTTTT
1 TAAAATTTTTGAATGGGATTATTATGAAAATTACAAGTTTT
84986541 TAAAATTTTTGAATGGGATTATTATGAAAATTACAAGTTTT
1 TAAAATTTTTGAATGGGATTATTATGAAAATTACAAGTTTT
84986582 AGGCTTTTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.44
Consensus pattern (41 bp):
TAAAATTTTTGAATGGGATTATTATGAAAATTACAAGTTTT
Found at i:84989706 original size:25 final size:25
Alignment explanation
Indices: 84989678--84989727 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
84989668 GGGTTGTGAA
84989678 AGAAGTGTTAGAGAAAGTCTTCGAG
1 AGAAGTGTTAGAGAAAGTCTTCGAG
*
84989703 AGAAGTGTTAGAGAAAGTTTTCGAG
1 AGAAGTGTTAGAGAAAGTCTTCGAG
84989728 GTTAGTTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.36, C:0.06, G:0.32, T:0.26
Consensus pattern (25 bp):
AGAAGTGTTAGAGAAAGTCTTCGAG
Found at i:84993776 original size:80 final size:79
Alignment explanation
Indices: 84993610--84993805 Score: 198
Period size: 80 Copynumber: 2.4 Consensus size: 79
84993600 AGAAATTGAA
* * * *
84993610 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGG
1 TGATATCCGGGCTAAGACCCGAAGGC-ATTGTGC-GGAAATTATATCCGGGCTAAGACCCGAAGG
* * *
84993675 CAATTGTGCTAGTGGC
64 CAATTGTGCAAATCGC
** *
84993691 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTATCCGGGCTAAGACCCGAAGG
1 TGATATCCGGGCTAAGACCCGAAGGCATT-GTGCG-GAAATTATATCCGGGCTAAGACCCGAAGG
*
84993755 CATTTGTGCAAATCG-
64 CAATTGTGCAAATCGC
* * * *
84993770 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGG
1 TGATATCCGGGCTAAGACCCGAAGGCATT-GTGCGG
84993806 GTTACCGTAA
Statistics
Matches: 96, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
79 6 0.06
80 89 0.93
81 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (79 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTGTGCGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCAAATCGC
Found at i:84993777 original size:40 final size:39
Alignment explanation
Indices: 84993612--84993795 Score: 156
Period size: 40 Copynumber: 4.6 Consensus size: 39
84993602 AAATTGAATG
* * *
84993612 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * *
84993652 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * *
84993692 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
84993732 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
84993771 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
84993796 CTTGGTGCGG
Statistics
Matches: 117, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
37 4 0.03
38 2 0.02
39 3 0.03
40 108 0.92
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:84993820 original size:80 final size:80
Alignment explanation
Indices: 84993656--84993840 Score: 185
Period size: 80 Copynumber: 2.3 Consensus size: 80
84993646 GAAATTATAT
* * * *
84993656 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTATATCCGGGCTAAGACCCGAAGGCATTCG
* *
84993721 TGCGAGTCATTCTAT
66 TGCGAGTCATCCTAA
* * * * * *
84993736 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ATATCCGGGCTAAGACCCGAAGGCATTC
* *
84993800 GTGCGGGTTA-CCGTAA
65 GTGCGAGTCATCC-TAA
* * *
84993816 CCGGGCTATGTCCCGAAGGCGATTG
1 CCGGGCTAAGACCCGAAGGCAATTG
84993841 ATCGAGTAGC
Statistics
Matches: 85, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
79 2 0.02
80 83 0.98
ACGTcount: A:0.22, C:0.24, G:0.31, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTATATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATCCTAA
Found at i:84996088 original size:48 final size:48
Alignment explanation
Indices: 84996019--84996158 Score: 192
Period size: 48 Copynumber: 2.9 Consensus size: 48
84996009 TAGGGTTATG
* *
84996019 TGTGATCCCATGTAAGACCATGT-TAGGGACATGGTATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCT-GGGACATGGCATTGGCATCAATA
*
84996067 TGTGATCTCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATA
* * * * *
84996115 GGTAATCCCATGTAAGACCATATCTGGGATATGGCGTTGGCATC
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
84996159 TTACTATGTG
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
48 81 0.99
49 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATA
Found at i:84997424 original size:13 final size:13
Alignment explanation
Indices: 84997406--84997440 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
84997396 AGCAGACGGA
84997406 CGTGTGACTTGGC
1 CGTGTGACTTGGC
84997419 CGTGTGACTTGGC
1 CGTGTGACTTGGC
84997432 CGTGTGACT
1 CGTGTGACT
84997441 CTATTTAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.09, C:0.23, G:0.37, T:0.31
Consensus pattern (13 bp):
CGTGTGACTTGGC
Found at i:85000617 original size:17 final size:19
Alignment explanation
Indices: 85000575--85000619 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
85000565 CTTTATTTTC
85000575 TTATTTATTGTTCTAATAT
1 TTATTTATTGTTCTAATAT
85000594 TTGATTTATTGTTCT-AT-T
1 TT-ATTTATTGTTCTAATAT
85000612 TTATTTAT
1 TTATTTAT
85000620 CTTAGTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.24
18 3 0.12
19 4 0.16
20 12 0.48
ACGTcount: A:0.22, C:0.04, G:0.07, T:0.67
Consensus pattern (19 bp):
TTATTTATTGTTCTAATAT
Done.