Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 64 of 120
Found at i:18662908 original size:13 final size:14
Alignment explanation
Indices: 18662890--18662918 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
18662880 AAAATTGCTT
18662890 AAAAATCAAG-CAA
1 AAAAATCAAGTCAA
18662903 AAAAATCAAGTCAA
1 AAAAATCAAGTCAA
18662917 AA
1 AA
18662919 GCCACTAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.69, C:0.14, G:0.07, T:0.10
Consensus pattern (14 bp):
AAAAATCAAGTCAA
Found at i:18673573 original size:22 final size:23
Alignment explanation
Indices: 18673548--18673592 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
18673538 AAAGAAAACA
* *
18673548 AAAAAATGAAAATG-AAAAATGG
1 AAAAAAGGAAAAAGTAAAAATGG
18673570 AA-AAAGGAAAAAGTAAAAATGG
1 AAAAAAGGAAAAAGTAAAAATGG
18673592 A
1 A
18673593 GAGGCTAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.11
Consensus pattern (23 bp):
AAAAAAGGAAAAAGTAAAAATGG
Found at i:18675041 original size:88 final size:88
Alignment explanation
Indices: 18674785--18675021 Score: 348
Period size: 88 Copynumber: 2.7 Consensus size: 88
18674775 AAAATCACAA
* ** *
18674785 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTTG
1 AGCCTTATCTCCCTGAGCAGAAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACTGG
*
18674850 CAGTGAAGCAGATCGAATACACC
66 CAGTGAAGCAGATCGAAGACACC
* * *
18674873 AGCCTTATCTCCCTAAGGAGAAGTGGAGTAGGTTCAAGATAGCAGATCTTGCCTTCCTGTACTGG
1 AGCCTTATCTCCCTGAGCAGAAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACTGG
*
18674938 CAGTGAAGCAGATCGAAGACACT
66 CAGTGAAGCAGATCGAAGACACC
* * * **
18674961 AGCCTTATCTCCCTGAGCAGTAGTGGAATAGGTTGAAGATAGCGGATCTTATCTTCCTGTA
1 AGCCTTATCTCCCTGAGCAGAAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGTA
18675022 ATGGAAACGA
Statistics
Matches: 132, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 132 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (88 bp):
AGCCTTATCTCCCTGAGCAGAAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACTGG
CAGTGAAGCAGATCGAAGACACC
Found at i:18675166 original size:50 final size:50
Alignment explanation
Indices: 18675110--18675784 Score: 415
Period size: 50 Copynumber: 13.5 Consensus size: 50
18675100 TTTGGCATTA
* * * * *
18675110 CAGTGGAATAGATTGAAGCTACAGCAGTGAATCTTACTTCCCTGGCGGTG
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGGCAGTG
* * * * * * *
18675160 TAGTGGAACAGATTGAAGCTA-AAAAGGCAAATCTTGCTTCCCCGACATTA
1 CAGTGGAACAGATTGAAGCTACAACA-GCGAATCTTACTTCCCCGGCAGTG
** * * * ** *
18675210 CAGTTAAAAAGATTGAAGCTACAACAACGAATCTTAGTTCCTAGGCGGTG
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGGCAGTG
* * * *
18675260 CAGTGGAACAGATTGAAGCTACAACAGCAAATCTTGCTTCCCCGACATTG
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGGCAGTG
* * * * ** *
18675310 CGGT-TAAAAGATTGAAGCTATAACATTGAATCTTACTTCCCAGGC-GATG
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGGCAG-TG
* * * *
18675359 TAGTGGAACATG-TTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTG
1 CAGTGGAACA-GATTGAAGCTACAACAGCGAATCTTACTTCCCCGGCAGTG
** * * * * *
18675409 CAGTTAAAAAGAATGAAGCTACAACAACGAATCTTACTTCACAGGCAGTG
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGGCAGTG
* * ** * * *
18675459 CAGTGGAACAAATTAAAGCTACAATGGCGAATCTTGCTTCCCCGACATTG
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGGCAGTG
** * * ** *
18675509 CAGTTAAAAAGATTGAAGCTACAACAGTGAATCTTACTTCCTAGGCGGTG
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGGCAGTG
* * * * * * * * * *
18675559 CAGTGGAACAAATTGAATCTATAACGGCGAGTTTTGCTTCCTCGACATTG
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGGCAGTG
** * * * * *** * *
18675609 CAGTTAAAAAGATTGAAGCTATAACAGCGAATCTTTCTTACCTAACATTT
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGGCAGTG
** * * * * * * * *
18675659 CAGTAAAATAAATTGAAGCTGCAACAGCTAATCCTACCTCCCTGGCGGTG
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGGCAGTG
* * * * * *
18675709 TAGTGGAACAGATTGAAGCTACAACAGTGAATCTTATTTTCCCGACATTG
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGGCAGTG
* * *
18675759 CAAAT-AAACTGATTGAAGCTACAACA
1 C-AGTGGAACAGATTGAAGCTACAACA
18675785 ACAAACCTGA
Statistics
Matches: 453, Mismatches: 164, Indels: 16
0.72 0.26 0.03
Matches are distributed among these distances:
49 39 0.09
50 408 0.90
51 6 0.01
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (50 bp):
CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGGCAGTG
Found at i:18675462 original size:199 final size:198
Alignment explanation
Indices: 18675119--18675652 Score: 730
Period size: 199 Copynumber: 2.7 Consensus size: 198
18675109 ACAGTGGAAT
* * *
18675119 AGATTGAAGCTACAGCAGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTAAAA
1 AGATTGAAGCTACAACAGTGAATCTTACTTCCCAGGCGGTGTAGTGGAACAG-TTGAAGCTAAAC
* * *
18675184 AGGCAAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTGAAGCTACAACAACGAATCTTAGTT
65 A-GCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAGCTACAACAACGAATCTTACTT
* * * *
18675249 CCTAGGCGGTGCAGTGGAACAGATTGAAGCTACAACAGCAAATCTTGCTTCCCCGACATTGCGGT
129 CCTAGGCAGTGCAGTGGAACAAATTAAAGCTACAACAGCAAATCTTGCTTCCCCGACATTGCAGT
18675314 T-AAA
194 TAAAA
* * *
18675318 AGATTGAAGCTATAACATTGAATCTTACTTCCCAGGCGATGTAGTGGAACATGTTGAAGCTACAA
1 AGATTGAAGCTACAACAGTGAATCTTACTTCCCAGGCGGTGTAGTGGAACA-GTTGAAGCTA-AA
*
18675383 CAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAATGAAGCTACAACAACGAATCTTACTT
64 CAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAGCTACAACAACGAATCTTACTT
** *
18675448 CAC-AGGCAGTGCAGTGGAACAAATTAAAGCTACAATGGCGAATCTTGCTTCCCCGACATTGCAG
129 C-CTAGGCAGTGCAGTGGAACAAATTAAAGCTACAACAGCAAATCTTGCTTCCCCGACATTGCAG
18675512 TTAAAA
193 TTAAAA
* * * *
18675518 AGATTGAAGCTACAACAGTGAATCTTACTTCCTAGGCGGTGCAGTGGAACAAATTGAATCTATAA
1 AGATTGAAGCTACAACAGTGAATCTTACTTCCCAGGCGGTGTAGTGGAAC-AGTTGAAGCTA-AA
* * * * * * *
18675583 CGGCGAGTTTTGCTTCCTCGACATTGCAGTTAAAAAGATTGAAGCTATAACAGCGAATCTTTCTT
64 CAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAGCTACAACAACGAATCTTACTT
18675648 ACCTA
129 -CCTA
18675653 ACATTTCAGT
Statistics
Matches: 295, Mismatches: 33, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
199 171 0.58
200 121 0.41
201 3 0.01
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (198 bp):
AGATTGAAGCTACAACAGTGAATCTTACTTCCCAGGCGGTGTAGTGGAACAGTTGAAGCTAAACA
GCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAGCTACAACAACGAATCTTACTTCC
TAGGCAGTGCAGTGGAACAAATTAAAGCTACAACAGCAAATCTTGCTTCCCCGACATTGCAGTTA
AAA
Found at i:18675628 original size:150 final size:149
Alignment explanation
Indices: 18675110--18675784 Score: 511
Period size: 150 Copynumber: 4.5 Consensus size: 149
18675100 TTTGGCATTA
* * * * * * ** * ** *
18675110 CAGTGGAATAGATTGAAGCTACAGCAGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTG
1 CAGTGGAACAAATTGAAGCTACAACAGCGAATCTTGCTTCCC-GACATTGCAGTTAAAAAGATTG
* * * *
18675175 AAGCTA-AAAAGGCAAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTGAAGCTACAACAACG
65 AAGCTATAACA-GCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAGCTACAACAGCG
*
18675239 AATCTTAGTTCCTAGGCGGTG
129 AATCTTACTTCCTAGGCGGTG
* * *
18675260 CAGTGGAACAGATTGAAGCTACAACAGCAAATCTTGCTTCCCCGACATTGCGGTT-AAAAGATTG
1 CAGTGGAACAAATTGAAGCTACAACAGCGAATCTTGCTT-CCCGACATTGCAGTTAAAAAGATTG
** * * * * * * *
18675324 AAGCTATAACATTGAATCTTACTTCCCAGGCGA-TGTAGTGGAACATG-TTGAAGCTACAACAGC
65 AAGCTATAACAGCGAATCTTGCTTCCCCGAC-ATTGCAGT-TAAAAAGATTGAAGCTACAACAGC
* ** * **
18675387 GAATCTTGCTTCCCCGACATTG
128 GAATCTTACTTCCTAGGCGGTG
* * * * * * * * * *
18675409 CAGT-TAAAAAGAATGAAGCTACAACAACGAATCTTACTTCACAGGCAGTGCAGTGGAACAA-AT
1 CAGTGGAACAA-ATTGAAGCTACAACAGCGAATCTTGCTTC-CCGACATTGCAGT-TAAAAAGAT
* * ** *
18675472 TAAAGCTACAATGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAGCTACAACAGT
63 TGAAGCTATAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAGCTACAACAGC
18675537 GAATCTTACTTCCTAGGCGGTG
128 GAATCTTACTTCCTAGGCGGTG
* * * * *
18675559 CAGTGGAACAAATTGAATCTATAACGGCGAGTTTTGCTTCCTCGACATTGCAGTTAAAAAGATTG
1 CAGTGGAACAAATTGAAGCTACAACAGCGAATCTTGCTTCC-CGACATTGCAGTTAAAAAGATTG
* * ** * * * *
18675624 AAGCTATAACAGCGAATCTTTCTTACCTAACATTTCAG-TAAAATAAATTGAAGCTGCAACAGCT
65 AAGCTATAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA-AGATTGAAGCTACAACAGCG
* *
18675688 AATCCTACCTCCCT-GGCGGTG
129 AATCTTA-CTTCCTAGGCGGTG
* * * ** ** **
18675709 TAGTGGAACAGATTGAAGCTACAACAGTGAATCTTATTTTCCCGACATTGCAAATAAACTGATTG
1 CAGTGGAACAAATTGAAGCTACAACAGCGAATCTT-GCTTCCCGACATTGCAGTTAAAAAGATTG
*
18675774 AAGCTACAACA
65 AAGCTATAACA
18675785 ACAAACCTGA
Statistics
Matches: 399, Mismatches: 110, Indels: 32
0.74 0.20 0.06
Matches are distributed among these distances:
148 4 0.01
149 114 0.29
150 262 0.66
151 19 0.05
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (149 bp):
CAGTGGAACAAATTGAAGCTACAACAGCGAATCTTGCTTCCCGACATTGCAGTTAAAAAGATTGA
AGCTATAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAGCTACAACAGCGAA
TCTTACTTCCTAGGCGGTG
Found at i:18675675 original size:100 final size:100
Alignment explanation
Indices: 18675119--18675652 Score: 655
Period size: 100 Copynumber: 5.3 Consensus size: 100
18675109 ACAGTGGAAT
* ** * * *
18675119 AGATTGAAGCTACAGCAGTGAATCTTACTTCCCT-GGCGGTGTAGTGGAACAGATTGAAGCTA-A
1 AGATTGAAGCTACAACAACGAATCTTACTT-CCTAGGCAGTGCAGTGGAACAAATTGAAGCTACA
* * *
18675182 AAAGGCAAATCTTGCTTCCCCGACATTACAGTTAAAA
65 ACA-GCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * *
18675219 AGATTGAAGCTACAACAACGAATCTTAGTTCCTAGGCGGTGCAGTGGAACAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAACGAATCTTACTTCCTAGGCAGTGCAGTGGAACAAATTGAAGCTACAA
* *
18675284 CAGCAAATCTTGCTTCCCCGACATTGCGGTT-AAA
66 CAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* ** * * **
18675318 AGATTGAAGCTATAACATTGAATCTTACTTCCCAGGC-GATGTAGTGGAACATGTTGAAGCTACA
1 AGATTGAAGCTACAACAACGAATCTTACTTCCTAGGCAG-TGCAGTGGAACAAATTGAAGCTACA
18675382 ACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
65 ACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* *
18675418 AGAATGAAGCTACAACAACGAATCTTACTTCAC-AGGCAGTGCAGTGGAACAAATTAAAGCTACA
1 AGATTGAAGCTACAACAACGAATCTTACTTC-CTAGGCAGTGCAGTGGAACAAATTGAAGCTACA
**
18675482 ATGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
65 ACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
** * * *
18675518 AGATTGAAGCTACAACAGTGAATCTTACTTCCTAGGCGGTGCAGTGGAACAAATTGAATCTATAA
1 AGATTGAAGCTACAACAACGAATCTTACTTCCTAGGCAGTGCAGTGGAACAAATTGAAGCTACAA
* * * *
18675583 CGGCGAGTTTTGCTTCCTCGACATTGCAGTTAAAA
66 CAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * *
18675618 AGATTGAAGCTATAACAGCGAATCTTTCTTACCTA
1 AGATTGAAGCTACAACAACGAATCTTACTT-CCTA
18675653 ACATTTCAGT
Statistics
Matches: 384, Mismatches: 42, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
98 1 0.00
99 91 0.24
100 283 0.74
101 9 0.02
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (100 bp):
AGATTGAAGCTACAACAACGAATCTTACTTCCTAGGCAGTGCAGTGGAACAAATTGAAGCTACAA
CAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
Found at i:18676701 original size:14 final size:14
Alignment explanation
Indices: 18676682--18676709 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18676672 TGATAGAAAA
18676682 CTGATTTTAGGGTT
1 CTGATTTTAGGGTT
18676696 CTGATTTTAGGGTT
1 CTGATTTTAGGGTT
18676710 ATAAAGGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.29, T:0.50
Consensus pattern (14 bp):
CTGATTTTAGGGTT
Found at i:18681653 original size:43 final size:41
Alignment explanation
Indices: 18681596--18681710 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 41
18681586 TATATTCAGT
*
18681596 GATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAG
1 GATACGGGGAATCAGCACTTAGCAACCCCTTT-ACAATCAAG
* * *
18681638 GATACGGTGGAATCAGCAGTTAGCAACCACCTTTAGAATCAAT
1 GATACGG-GGAATCAGCACTTAGCAACC-CCTTTACAATCAAG
* * * *
18681681 AATTCGGGGAAACAGCACTTAGCAGCCCCT
1 GATACGGGGAATCAGCACTTAGCAACCCCT
18681711 CAGGGAATCT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
41 3 0.05
42 24 0.39
43 30 0.48
44 5 0.08
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (41 bp):
GATACGGGGAATCAGCACTTAGCAACCCCTTTACAATCAAG
Found at i:18681716 original size:26 final size:26
Alignment explanation
Indices: 18681687--18681736 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
18681677 CAATAATTCG
*
18681687 GGGAAAC-AGCACTTAGCAGCCCCTCA
1 GGGAAACTA-CACTTAGCAACCCCTCA
*
18681713 GGGAATCTACACTTAGCAACCCCT
1 GGGAAACTACACTTAGCAACCCCT
18681737 TTTTGATCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 20 0.95
27 1 0.05
ACGTcount: A:0.30, C:0.34, G:0.20, T:0.16
Consensus pattern (26 bp):
GGGAAACTACACTTAGCAACCCCTCA
Found at i:18681758 original size:41 final size:41
Alignment explanation
Indices: 18681713--18681901 Score: 279
Period size: 41 Copynumber: 4.6 Consensus size: 41
18681703 CAGCCCCTCA
* * *
18681713 GGGAATCTACACTTAGCAACCCCTTTTTGATCAGTGATTCG
1 GGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGATTCG
18681754 GGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGATTCG
1 GGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGATTCG
18681795 GGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGATTCG
1 GGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGATTCG
* * * ** *
18681836 GGAAATTTGCACTTAGCAACCCCTTTTTGATCTGTGATTCA
1 GGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGATTCG
* *
18681877 GGAAATCTGCACTTAGCAATCCCTT
1 GGGAATCTGCACTTAGCAACCCCTT
18681902 ACATTCAATG
Statistics
Matches: 137, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 137 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (41 bp):
GGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGATTCG
Found at i:18683402 original size:13 final size:14
Alignment explanation
Indices: 18683384--18683412 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
18683374 AAAATTGCTT
18683384 AAAAATCAAG-CAA
1 AAAAATCAAGTCAA
18683397 AAAAATCAAGTCAA
1 AAAAATCAAGTCAA
18683411 AA
1 AA
18683413 GCCACAAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.69, C:0.14, G:0.07, T:0.10
Consensus pattern (14 bp):
AAAAATCAAGTCAA
Found at i:18692917 original size:20 final size:20
Alignment explanation
Indices: 18692870--18692946 Score: 59
Period size: 20 Copynumber: 3.8 Consensus size: 20
18692860 TACACTAGAC
*
18692870 CAGAGGCATC-ATAGATGCATAT
1 CAGAGGCATCGA-AG-TGCA-AG
18692892 CAGAGGCATCGAAGTGCAAG
1 CAGAGGCATCGAAGTGCAAG
* *
18692912 CAGAGGCA-CAAATATGCAAG
1 CAGAGGCATCGAA-GTGCAAG
* *
18692932 TAGAGGCACCGAAGT
1 CAGAGGCATCGAAGT
18692947 ACAAACAGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 3 0.07
20 23 0.50
21 7 0.15
22 12 0.26
23 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.29, T:0.14
Consensus pattern (20 bp):
CAGAGGCATCGAAGTGCAAG
Found at i:18692945 original size:40 final size:40
Alignment explanation
Indices: 18692884--18692991 Score: 110
Period size: 40 Copynumber: 2.7 Consensus size: 40
18692874 GGCATCATAG
* * * *
18692884 ATGCATATCAGAGGCATCGAAGTGCAAGCAGAGGCACAAAT
1 ATGCA-ATCAGAGGCACCGAAGTGCAAACAGAAGAACAAAT
* *
18692925 ATGCAAGT-AGAGGCACCGAAGTACAAACAGAAGAACGAAT
1 ATGCAA-TCAGAGGCACCGAAGTGCAAACAGAAGAACAAAT
* **
18692965 GTGTGATCAGAGGCACCGAAGTGCAAA
1 ATGCAATCAGAGGCACCGAAGTGCAAA
18692992 TCCCGTACAA
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
39 1 0.02
40 48 0.87
41 6 0.11
ACGTcount: A:0.41, C:0.19, G:0.28, T:0.13
Consensus pattern (40 bp):
ATGCAATCAGAGGCACCGAAGTGCAAACAGAAGAACAAAT
Found at i:18700429 original size:19 final size:20
Alignment explanation
Indices: 18700402--18700439 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18700392 GTTTCTTTTG
*
18700402 GCTTACAC-TATTTAAAGAT
1 GCTTACACTTATGTAAAGAT
*
18700421 GCTTGCACTTATGTAAAGA
1 GCTTACACTTATGTAAAGA
18700440 ACTACGATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (20 bp):
GCTTACACTTATGTAAAGAT
Found at i:18712814 original size:68 final size:68
Alignment explanation
Indices: 18712735--18712916 Score: 238
Period size: 80 Copynumber: 2.5 Consensus size: 68
18712725 AAAGATTTTT
*
18712735 TATGCATATTACTTTATTATACACTATTATTTTTATATTTGGTTACATTTTCGGTTACCTTTTTT
1 TATGTATATTACTTTATTATACACTATTATTTTTATATTTGGTTACATTTTCGGTTACCTTTTTT
18712800 ACA
66 ACA
18712803 TATGTATATTACTTTATTATACACTATTATTTTTTACTATTATTATATATTTGGTTACATTTTCG
1 TATGTATATTACTTTATTATACAC---TA-----T--TATT-TT-TATATTTGGTTACATTTTCG
*
18712868 GTTACTTTTTTTACA
54 GTTACCTTTTTTACA
18712883 TATGTATATTACTTTATTATACACTATTATTTTT
1 TATGTATATTACTTTATTATACACTATTATTTTT
18712917 TACTATTATT
Statistics
Matches: 100, Mismatches: 2, Indels: 24
0.79 0.02 0.19
Matches are distributed among these distances:
68 24 0.24
69 2 0.02
70 4 0.04
71 2 0.02
72 1 0.01
76 1 0.01
77 2 0.02
78 4 0.04
79 2 0.02
80 58 0.58
ACGTcount: A:0.26, C:0.11, G:0.06, T:0.57
Consensus pattern (68 bp):
TATGTATATTACTTTATTATACACTATTATTTTTATATTTGGTTACATTTTCGGTTACCTTTTTT
ACA
Found at i:18712880 original size:80 final size:80
Alignment explanation
Indices: 18712757--18712926 Score: 313
Period size: 80 Copynumber: 2.1 Consensus size: 80
18712747 TTTATTATAC
*
18712757 ACTATTATTTTTATATTTGGTTACATTTTCGGTTACCTTTTTTACATATGTATATTACTTTATTA
1 ACTATTA-TTATATATTTGGTTACATTTTCGGTTACCTTTTTTACATATGTATATTACTTTATTA
18712822 TACACTATTATTTTTT
65 TACACTATTATTTTTT
*
18712838 ACTATTATTATATATTTGGTTACATTTTCGGTTACTTTTTTTACATATGTATATTACTTTATTAT
1 ACTATTATTATATATTTGGTTACATTTTCGGTTACCTTTTTTACATATGTATATTACTTTATTAT
18712903 ACACTATTATTTTTT
66 ACACTATTATTTTTT
18712918 ACTATTATT
1 ACTATTATT
18712927 TTATTATTAT
Statistics
Matches: 87, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
80 80 0.92
81 7 0.08
ACGTcount: A:0.26, C:0.11, G:0.06, T:0.58
Consensus pattern (80 bp):
ACTATTATTATATATTTGGTTACATTTTCGGTTACCTTTTTTACATATGTATATTACTTTATTAT
ACACTATTATTTTTT
Found at i:18713130 original size:13 final size:14
Alignment explanation
Indices: 18713114--18713172 Score: 54
Period size: 13 Copynumber: 4.5 Consensus size: 14
18713104 TTTACATATG
18713114 TATATTACT-TTAT
1 TATATTACTATTAT
*
18713127 TATA-CACTATTAT
1 TATATTACTATTAT
*
18713140 T-TTTTACTATTAT
1 TATATTACTATTAT
* *
18713153 TTTATTATTATTA-
1 TATATTACTATTAT
18713166 TATATTA
1 TATATTA
18713173 TTATCTTATT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
12 4 0.11
13 24 0.65
14 9 0.24
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (14 bp):
TATATTACTATTAT
Found at i:18713158 original size:21 final size:20
Alignment explanation
Indices: 18713134--18713184 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
18713124 TATTATACAC
* *
18713134 TATTATTTTTTACTATTATTT
1 TATTATTTTATA-TATTATTA
18713155 TATTATTATTATATATTATTA
1 TATTATT-TTATATATTATTA
*
18713176 TCTTATTTT
1 TATTATTTT
18713185 GTGGTGAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 2 0.08
21 20 0.77
22 4 0.15
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (20 bp):
TATTATTTTATATATTATTA
Found at i:18713164 original size:24 final size:24
Alignment explanation
Indices: 18713134--18713182 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
18713124 TATTATACAC
* * *
18713134 TATTATTTTTTACTATTATTTTAT
1 TATTATTATATACTATTATCTTAT
*
18713158 TATTATTATATATTATTATCTTAT
1 TATTATTATATACTATTATCTTAT
18713182 T
1 T
18713183 TTGTGGTGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (24 bp):
TATTATTATATACTATTATCTTAT
Found at i:18713269 original size:228 final size:226
Alignment explanation
Indices: 18712848--18713299 Score: 807
Period size: 228 Copynumber: 2.0 Consensus size: 226
18712838 ACTATTATTA
*
18712848 TATATTTGGTTACATTTTCGGTTACTTTTTTTACATATGTATATTACTTTATTATACACTATTAT
1 TATATTTGGTTACATTTTCGGTTACCTTTTTTACATATGTATATTACTTTATTATACACTATTAT
18712913 TTTTTACTATTATTTTATTATTATATATTATTATCTTACTTTGTGATGAATTATTTTTTTTATTA
66 TTTTTACTATTATTTTATTATTATATATTATTATCTTACTTTGTGATGAATTA-TTTTTTTATTA
*
18712978 ATCTAATATAATATATTTTTAATAACTTTTATTTTATAATCTACTTTTAAAAGCTACTTTTATAT
130 ATCTAAGATAATATATTTTTAATAACTTTTATTTTATAATCTACTTTTAAAAGCTACTTTTATAT
*
18713043 ATTTCATCTTTAAAGATTTATATGATAATTTT
195 ATTTCATCTCTAAAGATTTATATGATAATTTT
18713075 TATATTTGGTTACATTTTCGGTTACCTTTTTTACATATGTATATTACTTTATTATACACTATTAT
1 TATATTTGGTTACATTTTCGGTTACCTTTTTTACATATGTATATTACTTTATTATACACTATTAT
* * *
18713140 TTTTTACTATTATTTTATTATTATTATATATTATTATCTTATTTTGTGGTGAATTA-TTTTTTCT
66 TTTTTACTATTA--TT-TTATTATTATATATTATTATCTTACTTTGTGATGAATTATTTTTTTAT
18713204 TAATCTAAGATAATATATTTTTAATAACTTTTATTTTATAATCTACTTTTAAAAGCTACTTTTAT
128 TAATCTAAGATAATATATTTTTAATAACTTTTATTTTATAATCTACTTTTAAAAGCTACTTTTAT
18713269 ATATTTCATCTCTAAAGATTTATATGATAAT
193 ATATTTCATCTCTAAAGATTTATATGATAAT
18713300 ATCCCTATTT
Statistics
Matches: 216, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
227 76 0.35
228 101 0.47
229 2 0.01
230 37 0.17
ACGTcount: A:0.30, C:0.08, G:0.05, T:0.56
Consensus pattern (226 bp):
TATATTTGGTTACATTTTCGGTTACCTTTTTTACATATGTATATTACTTTATTATACACTATTAT
TTTTTACTATTATTTTATTATTATATATTATTATCTTACTTTGTGATGAATTATTTTTTTATTAA
TCTAAGATAATATATTTTTAATAACTTTTATTTTATAATCTACTTTTAAAAGCTACTTTTATATA
TTTCATCTCTAAAGATTTATATGATAATTTT
Found at i:18713524 original size:2 final size:2
Alignment explanation
Indices: 18713476--18713507 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
18713466 TTAAATTCTT
18713476 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18713508 GATTATTGTG
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):
TA
Found at i:18718501 original size:13 final size:12
Alignment explanation
Indices: 18718480--18718513 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
18718470 AAAAAGAAGA
*
18718480 AAAAGAAAAATC
1 AAAATAAAAATC
18718492 AAAATCAAAAATC
1 AAAAT-AAAAATC
18718505 AAAATAAAA
1 AAAATAAAA
18718514 TGAGAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.76, C:0.09, G:0.03, T:0.12
Consensus pattern (12 bp):
AAAATAAAAATC
Found at i:18718522 original size:41 final size:40
Alignment explanation
Indices: 18718452--18718528 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 40
18718442 AAGCAATAGA
*
18718452 AAAATCAAGATCAAAACAAAAAAGAAGAAAAAGAAAAATC
1 AAAATCAAAATCAAAACAAAAAAGAAGAAAAAGAAAAATC
* *
18718492 AAAATCAAAAATCAAAA-TAAAATGAGAGAAAAAGAAA
1 AAAATC-AAAATCAAAACAAAAAAGA-AGAAAAAGAAA
18718529 GAAGAAAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
40 12 0.38
41 20 0.62
ACGTcount: A:0.73, C:0.08, G:0.10, T:0.09
Consensus pattern (40 bp):
AAAATCAAAATCAAAACAAAAAAGAAGAAAAAGAAAAATC
Found at i:18719427 original size:7 final size:7
Alignment explanation
Indices: 18719411--18719464 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 7
18719401 TTTGAGTTAA
*
18719411 AAAAACG
1 AAAAATG
18719418 AAAAATG
1 AAAAATG
18719425 AAAAAATG
1 -AAAAATG
18719433 -AAAATG
1 AAAAATG
*
18719439 GAAAATG
1 AAAAATG
18719446 AAAAA-G
1 AAAAATG
*
18719452 AAAAGT-
1 AAAAATG
18719458 AAAAATG
1 AAAAATG
18719465 GAGAGGCTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
6 16 0.41
7 16 0.41
8 7 0.18
ACGTcount: A:0.70, C:0.02, G:0.17, T:0.11
Consensus pattern (7 bp):
AAAAATG
Found at i:18720766 original size:43 final size:43
Alignment explanation
Indices: 18720713--18720817 Score: 122
Period size: 44 Copynumber: 2.4 Consensus size: 43
18720703 GAAATTACAG
* *
18720713 ATCTTGTCTCCCTAAGCA-ACAGTGGAGCAGATCGAAGCCAGAA
1 ATCTTATCTCCCTAAG-ATACAGCGGAGCAGATCGAAGCCAGAA
* * * *
18720756 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
1 ATCTTATCTCCCTAAGA-TACAGCGGAGCAGATCGAAGCCAGAA
*
18720800 ATCCTATCTCCCTAAGAT
1 ATCTTATCTCCCTAAGAT
18720818 TACAATGGAG
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
42 1 0.02
43 15 0.29
44 36 0.69
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (43 bp):
ATCTTATCTCCCTAAGATACAGCGGAGCAGATCGAAGCCAGAA
Found at i:18720794 original size:44 final size:44
Alignment explanation
Indices: 18720731--18720975 Score: 181
Period size: 44 Copynumber: 5.3 Consensus size: 44
18720721 TCCCTAAGCA
* *
18720731 ACAGTGGAGCAGATCGAAGCCAGAAATCTTATCTCCCTGAGATT
1 ACAGTGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
* * * *
18720775 ACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGATT
1 ACAGTGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
* * ** * *
18720819 ACAATGGAGCGGATT-AAAATA-AAGGATCTTATCTCTCT-AAAGTT
1 ACAGTGGAGCAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TT
* *
18720863 ATAGTAGAGTAGATCGTATTAGATTGAAGCCAGAAATCTTATCTCCCTGAGATT
1 ACAGT-G-G-AG--C-----AGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
* * * *
18720917 ATAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 ACAGTGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
*
18720961 ACAGTGGAGCTGATT
1 ACAGTGGAGCAGATT
18720976 AAAATAGAGG
Statistics
Matches: 155, Mismatches: 30, Indels: 32
0.71 0.14 0.15
Matches are distributed among these distances:
42 1 0.01
43 6 0.04
44 109 0.70
45 1 0.01
46 1 0.01
47 2 0.01
49 2 0.01
51 2 0.01
52 1 0.01
53 1 0.01
54 22 0.14
55 5 0.03
56 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (44 bp):
ACAGTGGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATT
Found at i:18720994 original size:44 final size:44
Alignment explanation
Indices: 18720897--18720995 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 44
18720887 TGAAGCCAGA
* **
18720897 AATCTTATCTCCCTGAGATTATAGCGGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAGT
* * *
18720941 AATCCTATCTCCCTGAGATTACAGTGGAGCTGATT-AAAATAG-
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAGT
18720983 AGGATCTTATCTC
1 A--ATCTTATCTC
18720996 TCTAAAGTTA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
42 1 0.02
43 5 0.11
44 40 0.87
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAGT
Found at i:18721002 original size:142 final size:142
Alignment explanation
Indices: 18720741--18721020 Score: 497
Period size: 142 Copynumber: 2.0 Consensus size: 142
18720731 ACAGTGGAGC
18720741 AGATCGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTA
1 AGATCGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTA
*
18720806 TCTCCCTAAGATTACAATGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTATAGTAGA
66 TCTCCCTAAGATTACAATGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTAGAGTAGA
18720871 GTAGATCGTATT
131 GTAGATCGTATT
* *
18720883 AGATTGAAGCCAGAAATCTTATCTCCCTGAGATTATAGCGGAGCAGATTGAAGCTAGTAATCCTA
1 AGATCGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTA
* * * *
18720948 TCTCCCTGAGATTACAGTGGAGCTGATTAAAATAGAGGATCTTATCTCTCTAAAGTTAGAGTAGA
66 TCTCCCTAAGATTACAATGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTAGAGTAGA
18721013 GTAGATCG
131 GTAGATCG
18721021 CATCAGGTCT
Statistics
Matches: 131, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
142 131 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (142 bp):
AGATCGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTA
TCTCCCTAAGATTACAATGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTAGAGTAGA
GTAGATCGTATT
Found at i:18721257 original size:100 final size:99
Alignment explanation
Indices: 18721094--18722519 Score: 1332
Period size: 100 Copynumber: 14.2 Consensus size: 99
18721084 CAAACGATGT
* * * *
18721094 AGTGGAACAGATTAAATCCACATCGGTGAATCTTGCTTCCCCGACATTGCGGTTGAAAGGATTAA
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTT-CCCGACATTGCAGTTAAAAGGATTAA
* *
18721159 AGCTACAGCAGCGAATCTTACCTCCCAGGCAGTGC
65 AGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
* * * * *
18721194 AGTGGAATAGATTAAAACCACAACGGTGAATCTTGCCTCCCTGACATTGCAGTTAAAAAGATTAG
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCC-GACATTGCAGTTAAAAGGATTAA
* * * *
18721259 AGCTACAGCAGCGAATCTTACCTCTCAGGCGGTGC
65 AGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
** *
18721294 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTG-TGTCATTGACATTGCAGTTGAAAA-GACT
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCT-TC-CCGACATTGCAGTT-AAAAGGATT
* * * * * * * *
18721357 AAAGCCACAGCGGTGAGTATTACTTCCCTGGCAATGC
63 AAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
*
18721394 AGT-GAAGCAGATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTA
1 AGTGGAA-CAGATTAAAGCCACAACGGTGAATCTTGC-TTCCCGACATTGCAGTTAAAAGGATTA
* * * *
18721458 AA-ATCACAAC-GACGAATCTCACTCTCTCAGCCAGTGC
64 AAGCT-ACAACAG-CGAATCTTACT-TCCCAGGCAGTGC
* * * * * *
18721495 AGTAGAGCAGATTAAAGCCACATCAGTGAATCTTGCTTTCCTGACATTGCAGCTAAAAGGATTAA
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC-TTCCCGACATTGCAGTTAAAAGGATTAA
* *
18721560 AGCTACAACAACGAATCTTACTTCCCATGCAGTGC
65 AGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
* * * * *
18721595 AGTGGAATAGATTAAAGTCACAACAGTGAATCTTG-TCTCCTTGACATTGCAGTTGAAAA-GACT
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCT-TCC-CGACATTGCAGTT-AAAAGGATT
* * * * * * * *
18721658 AAAGCCACAGCGGTGAGTGTTACTTCCCTGGCAATGC
63 AAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
* *
18721695 AGT-GAAGAAGATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTA
1 AGTGGAA-CAGATTAAAGCCACAACGGTGAATCTTGC-TTCCCGACATTGCAGTTAAAAGGATTA
* * *
18721759 AAG-TCACAAC-GACGAATCTCACTCTCTCAGCCAGTGC
64 AAGCT-ACAACAG-CGAATCTTACT-TCCCAGGCAGTGC
* * * * **
18721796 AGTAGATA-AGGTTAAAGCCACATCGGTGAATCTTGCTTTCCCGAAATTGCAACTAAAAGGATTA
1 AGTGGA-ACAGATTAAAGCCACAACGGTGAATCTTGC-TTCCCGACATTGCAGTTAAAAGGATTA
*
18721860 AAGCTACAACAGCAAATCTTACTTCCCAGGCAGTGC
64 AAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
* * *
18721896 AGTGGAACAGATTAAACCCACAACGGTGAATCTTG-TCTCCCTGACATTGTAGTTGAAAA-GACT
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCT-TCCC-GACATTGCAGTT-AAAAGGATT
* * * * * * *
18721959 AAAGCCACAGCGGCGAGTGTTACTTCCCTGGCAATGC
63 AAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
* * *
18721996 AGT-GAAGCGGATTAAAGCCACAACGGTAAATCTTACTTTCCCGACATTGCAGTTAAAAGGATTA
1 AGTGGAA-CAGATTAAAGCCACAACGGTGAATCTTGC-TTCCCGACATTGCAGTTAAAAGGATTA
* *
18722060 AAG-TCACAAC-GACGAATC-TAGCTCTCTCAGCCAGTGC
64 AAGCT-ACAACAG-CGAATCTTA-CT-TCCCAGGCAGTGC
* * * *
18722097 AGTAGAGCAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCAACATTGCAGCTAAAAGGATTAA
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC-TTCCCGACATTGCAGTTAAAAGGATTAA
* *
18722162 AGCTACAACAACGAATCTTACTTCCCAAGCAGTGC
65 AGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
* * *
18722197 AGTGGAACAAATTAAAGCCACAAC-GTGAATCTTG-TCTCACTGACATTGCAGTTGAAAA-GACT
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCT-TC-CCGACATTGCAGTT-AAAAGGATT
* *** * * * * *
18722259 AAAGCCACAGTGGCGATTGTTACTTCCCTGGCAATAC
63 AAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
* *
18722296 A-T-GAAGCAGATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAATTAAAAGGATTA
1 AGTGGAA-CAGATTAAAGCCACAACGGTGAATCTTGC-TTCCCGACATTGCAGTTAAAAGGATTA
* * * * *
18722359 AAG-TAACAATAACGAATCTCACTCTCTCAGCCAGTGC
64 AAGCT-ACAACAGCGAATCTTACT-TCCCAGGCAGTGC
* * * * * *
18722396 AATAGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTTCCAGACATTGCAGCTAAAAGGATTAA
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC-TTCCCGACATTGCAGTTAAAAGGATTAA
18722461 AGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
65 AGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
* *
18722496 AGTGGAACAGATTGAAGCTACAAC
1 AGTGGAACAGATTAAAGCCACAAC
18722520 AACAAATCTC
Statistics
Matches: 1079, Mismatches: 190, Indels: 114
0.78 0.14 0.08
Matches are distributed among these distances:
97 4 0.00
98 25 0.02
99 128 0.12
100 570 0.53
101 333 0.31
102 18 0.02
103 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (99 bp):
AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCGACATTGCAGTTAAAAGGATTAAA
GCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
Found at i:18721642 original size:301 final size:301
Alignment explanation
Indices: 18721101--18722519 Score: 2161
Period size: 301 Copynumber: 4.7 Consensus size: 301
18721091 TGTAGTGGAA
* * * * * *
18721101 CAGATTAAATCCACATCGGTGAATCTTGCTTCCCCGACATTGCGGTTGAAAGGATTAAAG-CTAC
1 CAGATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTC-AC
* * * * * ** * *
18721165 AGC-AGCGAATCTTAC-CTCCCAGGCAGTGCAGTGGAATAGATTAAAACCACAACGGTGAATCTT
65 AACGA-CGAATCTCACTCTCTCAGCCAGTGCAGTAGAGCAGATTAAAGCCACATCGGTGAATCTT
* * * * * * * *
18721228 GC-CTCCCTGACATTGCAGTTAAAAAGATTAGAGCTACAGCAGCGAATCTTACCTCTCAGGCGGT
129 GCTTTCCC-GACATTGCAGCTAAAAGGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGT
* *
18721292 GCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGTGTCATTGACATTGCAGTTGAAAAGACT
193 GCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGTCTCCTTGACATTGCAGTTGAAAAGACT
* *
18721357 AAAGCCACAGCGGTGAGTATTACTTCCCTGGCAATGCAGTGAAG
258 AAAGCCACAGCGGCGAGTGTTACTTCCCTGGCAATGCAGTGAAG
*
18721401 CAGATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAATCACA
1 CAGATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACA
*
18721466 ACGACGAATCTCACTCTCTCAGCCAGTGCAGTAGAGCAGATTAAAGCCACATCAGTGAATCTTGC
66 ACGACGAATCTCACTCTCTCAGCCAGTGCAGTAGAGCAGATTAAAGCCACATCGGTGAATCTTGC
* * *
18721531 TTTCCTGACATTGCAGCTAAAAGGATTAAAGCTACAACAACGAATCTTACTTCCCATGCAGTGCA
131 TTTCCCGACATTGCAGCTAAAAGGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCA
* * *
18721596 GTGGAATAGATTAAAGTCACAACAGTGAATCTTGTCTCCTTGACATTGCAGTTGAAAAGACTAAA
196 GTGGAACAGATTAAAGCCACAACGGTGAATCTTGTCTCCTTGACATTGCAGTTGAAAAGACTAAA
*
18721661 GCCACAGCGGTGAGTGTTACTTCCCTGGCAATGCAGTGAAG
261 GCCACAGCGGCGAGTGTTACTTCCCTGGCAATGCAGTGAAG
*
18721702 AAGATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACA
1 CAGATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACA
** *
18721767 ACGACGAATCTCACTCTCTCAGCCAGTGCAGTAGATAAGGTTAAAGCCACATCGGTGAATCTTGC
66 ACGACGAATCTCACTCTCTCAGCCAGTGCAGTAGAGCAGATTAAAGCCACATCGGTGAATCTTGC
* * *
18721832 TTTCCCGAAATTGCAACTAAAAGGATTAAAGCTACAACAGCAAATCTTACTTCCCAGGCAGTGCA
131 TTTCCCGACATTGCAGCTAAAAGGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCA
* * *
18721897 GTGGAACAGATTAAACCCACAACGGTGAATCTTGTCTCCCTGACATTGTAGTTGAAAAGACTAAA
196 GTGGAACAGATTAAAGCCACAACGGTGAATCTTGTCTCCTTGACATTGCAGTTGAAAAGACTAAA
18721962 GCCACAGCGGCGAGTGTTACTTCCCTGGCAATGCAGTGAAG
261 GCCACAGCGGCGAGTGTTACTTCCCTGGCAATGCAGTGAAG
* *
18722003 CGGATTAAAGCCACAACGGTAAATCTTACTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACA
1 CAGATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACA
*
18722068 ACGACGAATCT-AGCTCTCTCAGCCAGTGCAGTAGAGCAGATTAAAGCCACAACGGTGAATCTTG
66 ACGACGAATCTCA-CTCTCTCAGCCAGTGCAGTAGAGCAGATTAAAGCCACATCGGTGAATCTTG
* * *
18722132 CTTTCCCAACATTGCAGCTAAAAGGATTAAAGCTACAACAACGAATCTTACTTCCCAAGCAGTGC
130 CTTTCCCGACATTGCAGCTAAAAGGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
*
18722197 AGTGGAACAAATTAAAGCCACAAC-GTGAATCTTGTCTCAC-TGACATTGCAGTTGAAAAGACTA
195 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGTCTC-CTTGACATTGCAGTTGAAAAGACTA
* * *
18722260 AAGCCACAGTGGCGATTGTTACTTCCCTGGCAATACA-TGAAG
259 AAGCCACAGCGGCGAGTGTTACTTCCCTGGCAATGCAGTGAAG
* *
18722302 CAGATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAATTAAAAGGATTAAAGTAACA
1 CAGATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACA
** *
18722367 ATAACGAATCTCACTCTCTCAGCCAGTGCAATAGAGCAGATTAAAGCCACATCGGTGAATCTTGC
66 ACGACGAATCTCACTCTCTCAGCCAGTGCAGTAGAGCAGATTAAAGCCACATCGGTGAATCTTGC
*
18722432 TTTCCAGACATTGCAGCTAAAAGGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCA
131 TTTCCCGACATTGCAGCTAAAAGGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCA
* *
18722497 GTGGAACAGATTGAAGCTACAAC
196 GTGGAACAGATTAAAGCCACAAC
18722520 AACAAATCTC
Statistics
Matches: 1025, Mismatches: 87, Indels: 15
0.91 0.08 0.01
Matches are distributed among these distances:
299 206 0.20
300 138 0.13
301 678 0.66
302 3 0.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (301 bp):
CAGATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACA
ACGACGAATCTCACTCTCTCAGCCAGTGCAGTAGAGCAGATTAAAGCCACATCGGTGAATCTTGC
TTTCCCGACATTGCAGCTAAAAGGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCA
GTGGAACAGATTAAAGCCACAACGGTGAATCTTGTCTCCTTGACATTGCAGTTGAAAAGACTAAA
GCCACAGCGGCGAGTGTTACTTCCCTGGCAATGCAGTGAAG
Found at i:18722358 original size:50 final size:50
Alignment explanation
Indices: 18721103--18722479 Score: 571
Period size: 50 Copynumber: 27.5 Consensus size: 50
18721093 TAGTGGAACA
* * * * *
18721103 GATTAAATCCACATCGGTGAATCTTGCTTCCCCGACATTGCGGTTGAAAG
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAG
* * * * * * * * * *
18721153 GATTAAAGCTACAGCAGCGAATCTTAC-CTCCCAGGCAGTGCAGTGGAATA-
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCC-GACATTGCAGT-TAAAAG
* * *
18721203 GATTAAAACCACAACGGTGAATCTTGC-CTCCCTGACATTGCAGTTAAAAA
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCC-GACATTGCAGTTAAAAG
* * * * * * * * * ** * *
18721253 GATTAGAGCTACAGCAGCGAATCTTAC-CTCTCAGGCGGTGCAGTGGAACA-
1 GATTAAAGCCACAACGGTGAATCTTGCTTTC-CCGACATTGCAGT-TAAAAG
* **
18721303 GATTAAAGCCACAACGGTGAATCTTG-TGTCATTGACATTGCAGTTGAAAA-
1 GATTAAAGCCACAACGGTGAATCTTGCTTTC-CCGACATTGCAGTT-AAAAG
* * * * * * * * *
18721353 GACTAAAGCCACAGCGGTGAGTATTAC-TTCCCTGGCAATGCAGTGAAGCA-
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCC-GACATTGCAGTTAA-AAG
*
18721403 GATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAG
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAG
** ** ** * * * * *
18721453 GATTAAAATCACAACGACGAATCTCACTCTCTCAGCCAGTGCAG-T-AGAG
1 GATTAAAGCCACAACGGTGAATCTTGCTTTC-CCGACATTGCAGTTAAAAG
* * * *
18721502 CAGATTAAAGCCACATCAGTGAATCTTGCTTTCCTGACATTGCAGCTAAAAG
1 --GATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAG
* *** * * * *
18721554 GATTAAAGCTACAACAACGAATCTTAC-TTCCC-ATGCAGTGCAGTGGAATA-
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCCGA--CATTGCAGT-TAAAAG
* * * *
18721604 GATTAAAGTCACAACAGTGAATCTTG-TCTCCTTGACATTGCAGTTGAAAA-
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCC-CGACATTGCAGTT-AAAAG
* * * * * * * *
18721654 GACTAAAGCCACAGCGGTGAGTGTTAC-TTCCCTGGCAATGCAGTGAAGAA-
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCC-GACATTGCAGTTAA-AAG
*
18721704 GATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAG
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAG
* ** ** * * * *
18721754 GATTAAAGTCACAACGACGAATCTCACTCTCTCAGCCAGTGCAG-TAGATAAG
1 GATTAAAGCCACAACGGTGAATCTTGCTTTC-CCGACATTGCAGTTA-A-AAG
* * **
18721806 G-TTAAAGCCACATCGGTGAATCTTGCTTTCCCGAAATTGCAACTAAAAG
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAG
* * ** * * * * *
18721855 GATTAAAGCTACAACAGCAAATCTTAC-TTCCCAGGCAGTGCAGTGGAACA-
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCC-GACATTGCAGT-TAAAAG
* * *
18721905 GATTAAACCCACAACGGTGAATCTTG-TCTCCCTGACATTGTAGTTGAAAA-
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCC-GACATTGCAGTT-AAAAG
* * * * * * * * * **
18721955 GACTAAAGCCACAGCGGCGAGTGTTAC-TTCCCTGGCAATGCAGTGAAGCG
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCC-GACATTGCAGTTAAAAG
* *
18722005 GATTAAAGCCACAACGGTAAATCTTACTTTCCCGACATTGCAGTTAAAAG
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAG
* ** * * * * * *
18722055 GATTAAAGTCACAACGACGAATCTAGCTCTCTCAGCCAGTGCAG-T-AGAG
1 GATTAAAGCCACAACGGTGAATCTTGCTTTC-CCGACATTGCAGTTAAAAG
* *
18722104 CAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCAACATTGCAGCTAAAAG
1 --GATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAG
* *** * * * *
18722156 GATTAAAGCTACAACAACGAATCTTAC-TTCCCAAGCAGTGCAGTGGAACAA-
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCCGA-CATTGCAGT-TAA-AAG
* *
18722207 -ATTAAAGCCACAAC-GTGAATCTTG-TCTCACTGACATTGCAGTTGAAAA-
1 GATTAAAGCCACAACGGTGAATCTTGCTTTC-CCGACATTGCAGTT-AAAAG
* ** * * * * * * * * *
18722255 GACTAAAGCCACAGTGGCGATTGTTAC-TTCCCTGGCAATACA-TGAAGCA-
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCC-GACATTGCAGTTAA-AAG
* *
18722304 GATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAATTAAAAG
1 GATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAG
** **** ** * * * * * *
18722354 GATTAAAGTAACAATAACGAATCTCACTCTCTCAGCCAGTGCA-AT-AGAG
1 GATTAAAGCCACAACGGTGAATCTTGCTTTC-CCGACATTGCAGTTAAAAG
* * *
18722403 CAGATTAAAGCCACATCGGTGAATCTTGCTTTCCAGACATTGCAGCTAAAAG
1 --GATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAG
* * *
18722455 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACGGTGAATCTT
18722480 ACTTCCCAGG
Statistics
Matches: 950, Mismatches: 312, Indels: 130
0.68 0.22 0.09
Matches are distributed among these distances:
48 5 0.01
49 103 0.11
50 665 0.70
51 161 0.17
52 16 0.02
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (50 bp):
GATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAG
Found at i:18724098 original size:21 final size:22
Alignment explanation
Indices: 18724054--18724099 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
18724044 ATCTATTATT
*
18724054 ATTATTTGTTATTTTTATTGAC
1 ATTATTTGTTATTTTGATTGAC
18724076 ATTATTT-TTATATTTGATT-AC
1 ATTATTTGTTAT-TTTGATTGAC
18724097 ATT
1 ATT
18724100 TTCGGTTACC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.26, C:0.04, G:0.07, T:0.63
Consensus pattern (22 bp):
ATTATTTGTTATTTTGATTGAC
Found at i:18725842 original size:225 final size:224
Alignment explanation
Indices: 18725448--18725897 Score: 855
Period size: 225 Copynumber: 2.0 Consensus size: 224
18725438 TTTTTTTAAA
18725448 ATAAATGAGTTTTATCTTCCAATTCATTTTATTCAAATAAAAGGATTGTATTTTAAAATCTTTTC
1 ATAAATGAGTTTTATCTTCCAATTCATTTTATTCAAATAAAAGGATTGTATTTTAAAATCTTTTC
18725513 AAAATTTCGACATTAAGACATTAAACAATCAATTCGGTACAAATTTTGGGCGTCACGAGGGTGCT
66 AAAATTTCGACATTAAGACATTAAACAATCAATTCGGTACAAATTTTGGGCGTCACGAGGGTGCT
* *
18725578 AACCCTTCCTCGTGTGTAATCGACTCCCAAACATGTTTTCTCAAAAATTCGCAGACCTAAAATTA
131 AACCCTTCCTCGTGCGTAATCGACTCCCAAACATGTTTTCTCAAAAATTCACAGACCTAAAATTA
18725643 TTTTCAAGGTGATCCGAGCACACCACAAT
196 TTTTCAAGGTGATCCGAGCACACCACAAT
18725672 ATAAATGAGTTTTATCTTCCAATTCATTTTATTCAAAATAAAAGGATTGTATTTTAAAATCTTTT
1 ATAAATGAGTTTTATCTTCCAATTCATTTTATTC-AAATAAAAGGATTGTATTTTAAAATCTTTT
*
18725737 CAAAATTTCGACATTAAGACATTAAACAATCAATTCGGTACCAATTTTGGGCGTCACGAGGGTGC
65 CAAAATTTCGACATTAAGACATTAAACAATCAATTCGGTACAAATTTTGGGCGTCACGAGGGTGC
*
18725802 TAACCCTTCCTCGTGCGTAATCGACTCCCAAACCTGTTTTCTCAAAAATTCACAGACCTAAAATT
130 TAACCCTTCCTCGTGCGTAATCGACTCCCAAACATGTTTTCTCAAAAATTCACAGACCTAAAATT
18725867 ATTTTCAAGGTGATCCGAGCACACCACAAT
195 ATTTTCAAGGTGATCCGAGCACACCACAAT
18725897 A
1 A
18725898 AAAGATCGGT
Statistics
Matches: 221, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
224 34 0.15
225 187 0.85
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (224 bp):
ATAAATGAGTTTTATCTTCCAATTCATTTTATTCAAATAAAAGGATTGTATTTTAAAATCTTTTC
AAAATTTCGACATTAAGACATTAAACAATCAATTCGGTACAAATTTTGGGCGTCACGAGGGTGCT
AACCCTTCCTCGTGCGTAATCGACTCCCAAACATGTTTTCTCAAAAATTCACAGACCTAAAATTA
TTTTCAAGGTGATCCGAGCACACCACAAT
Found at i:18727574 original size:24 final size:24
Alignment explanation
Indices: 18727542--18727591 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
18727532 CAGGTTATAA
18727542 AATTTCATCTAAATTAAAACTTTC
1 AATTTCATCTAAATTAAAACTTTC
18727566 AATTTCATCTAAATTAAAACTTTC
1 AATTTCATCTAAATTAAAACTTTC
18727590 AA
1 AA
18727592 ATTTTTTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (24 bp):
AATTTCATCTAAATTAAAACTTTC
Found at i:18731136 original size:50 final size:50
Alignment explanation
Indices: 18731012--18731395 Score: 414
Period size: 50 Copynumber: 7.7 Consensus size: 50
18731002 GATAATAACA
* ** *
18731012 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTC-TCTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCT-CGG
* * * * ** ** * *
18731061 TACCAATGTCATATCCCAGATATGGTCTTACATATGAGTTCTTATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* ** * *
18731111 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTTATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* **
18731161 TGCCAATGCCATATCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * * *
18731211 TGCCAATTCCATGTCCCAAACATAGTCTTACACGGGGCCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
18731261 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTCTCATCTGGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
18731311 TGCCAACGTCATGTCCCAGACATGGTCTTATATGGGACCTCTCATCTGGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
18731361 TGCCAACGCCATGTCCCAGACATGGTCTTACATGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGG
18731396 CTCACATATT
Statistics
Matches: 285, Mismatches: 47, Indels: 5
0.85 0.14 0.01
Matches are distributed among these distances:
48 5 0.02
49 32 0.11
50 248 0.87
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:18733925 original size:51 final size:50
Alignment explanation
Indices: 18733849--18734041 Score: 226
Period size: 51 Copynumber: 3.8 Consensus size: 50
18733839 TACAAACACG
* * *
18733849 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGATTGATAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGAT-TTGGTCACA
* * * * *
18733900 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAAGGCTTTGGTCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATC-GAATGATTTGGTCACA
* * * *
18733951 TGTGTAGTACTATGTGCAGGCTACTACGTGAACTAGAAAG-TTTGATCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTA-TCGAATGATTTGGTCACA
* *
18734001 TGTGTAGTACTACGTGAAGGCTACTACGTGTATCGAATGAT
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGAT
18734042 ATTAATTACA
Statistics
Matches: 119, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
49 5 0.04
50 38 0.32
51 72 0.61
52 4 0.03
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGATTTGGTCACA
Found at i:18750183 original size:43 final size:42
Alignment explanation
Indices: 18750130--18750229 Score: 137
Period size: 43 Copynumber: 2.4 Consensus size: 42
18750120 TTTCGTTTAT
* * ** *
18750130 CCCTAATGGGTTTTCGTTCAGCTCTTTTGAGCTTCAGTTTAA
1 CCCTTATGGGTTTCCGTTCAGCTCTTACGAGCTTCAGTTCAA
*
18750172 CCCTTATTGGGTTTCCGTTCAGCTCTTACGAGCTTCCGTTCAA
1 CCCTTA-TGGGTTTCCGTTCAGCTCTTACGAGCTTCAGTTCAA
18750215 CCCTTATGGGTTTCC
1 CCCTTATGGGTTTCC
18750230 ATTTAGCACT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
42 14 0.27
43 37 0.73
ACGTcount: A:0.14, C:0.27, G:0.19, T:0.40
Consensus pattern (42 bp):
CCCTTATGGGTTTCCGTTCAGCTCTTACGAGCTTCAGTTCAA
Found at i:18750229 original size:21 final size:21
Alignment explanation
Indices: 18750170--18750229 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
18750160 GCTTCAGTTT
18750170 AACCCTTATTGGGTTTCCGTTC
1 AACCCTTA-TGGGTTTCCGTTC
* * * * *
18750192 AGCTCTTACGAGCTTCCGTTC
1 AACCCTTATGGGTTTCCGTTC
18750213 AACCCTTATGGGTTTCC
1 AACCCTTATGGGTTTCC
18750230 ATTTAGCACT
Statistics
Matches: 28, Mismatches: 10, Indels: 1
0.72 0.26 0.03
Matches are distributed among these distances:
21 22 0.79
22 6 0.21
ACGTcount: A:0.15, C:0.30, G:0.18, T:0.37
Consensus pattern (21 bp):
AACCCTTATGGGTTTCCGTTC
Found at i:18756525 original size:11 final size:11
Alignment explanation
Indices: 18756509--18756537 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
18756499 ACATTGAAAG
18756509 AAATAGTGATT
1 AAATAGTGATT
18756520 AAATAGTGATT
1 AAATAGTGATT
18756531 AAATAGT
1 AAATAGT
18756538 AAATAAGGGA
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:0.48, C:0.00, G:0.17, T:0.34
Consensus pattern (11 bp):
AAATAGTGATT
Found at i:18757389 original size:11 final size:12
Alignment explanation
Indices: 18757373--18757405 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
18757363 GAACAGAAAC
18757373 AAAAATAAAA-T
1 AAAAATAAAATT
18757384 AAAAATAAAATT
1 AAAAATAAAATT
18757396 ACAAAATAAA
1 A-AAAATAAA
18757406 TTTTGTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.50
12 2 0.10
13 8 0.40
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (12 bp):
AAAAATAAAATT
Found at i:18760705 original size:21 final size:20
Alignment explanation
Indices: 18760667--18760725 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 20
18760657 TTGAGTGTGC
* **
18760667 TGATTGTAGTTCTGTTGTTGT
1 TGATTGTAATTCCCTTGTT-T
18760688 TGATTGTAATTCCCTTGTTT
1 TGATTGTAATTCCCTTGTTT
* *
18760708 TGAATTATAATTTCCTTG
1 TG-ATTGTAATTCCCTTG
18760726 AATAGATATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 3 0.09
21 29 0.91
ACGTcount: A:0.17, C:0.10, G:0.19, T:0.54
Consensus pattern (20 bp):
TGATTGTAATTCCCTTGTTT
Found at i:18766139 original size:54 final size:54
Alignment explanation
Indices: 18766094--18766221 Score: 184
Period size: 54 Copynumber: 2.4 Consensus size: 54
18766084 TAGCCTTTGA
* *
18766094 ACTAGGGAGACACAGCCGTGTCCCAGCCCGTGTCCTCAAATGTGTAACTCTCTG
1 ACTAGGGACACACAGCCGTGCCCCAGCCCGTGTCCTCAAATGTGTAACTCTCTG
* * *
18766148 AGTAGGGTCACACGGCCGTGCCCCAGCCCGTGTCCTCAAATGTGTAACTCTCTG
1 ACTAGGGACACACAGCCGTGCCCCAGCCCGTGTCCTCAAATGTGTAACTCTCTG
* * *
18766202 AGTAGGGTCACACGGCCGTG
1 ACTAGGGACACACAGCCGTG
18766222 TCTTGTGCTC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.20, C:0.31, G:0.27, T:0.21
Consensus pattern (54 bp):
ACTAGGGACACACAGCCGTGCCCCAGCCCGTGTCCTCAAATGTGTAACTCTCTG
Found at i:18776721 original size:100 final size:104
Alignment explanation
Indices: 18776591--18776826 Score: 246
Period size: 100 Copynumber: 2.3 Consensus size: 104
18776581 TTTCATGTAC
* * * ** * *
18776591 TGCCAATGCCATATCCCAGATATGGTCTTACACAGGAGTTCTCATATCGATGCCCATGCCATGTC
1 TGCCAATGCCATGTCCCAAACATGGTCTTACACAGGACCTCTCATATCGATGCCAACGCCATGTC
* *
18776656 CCACAAACGGTCTTACGGGGGACCT-TTCATCTC-A-G-
66 CCACAAACGGTCTTACAGGGGACCTCATCATCTCAAGGA
* ** * * *
18776691 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCAACGCCATGTC
1 TGCCAATGCCATGTCCCAAACATGGTCTTACACAGGACCTCTCATATCGATGCCAACGCCATGTC
* * * * *
18776756 CCAGACATGGTCTTACATGGGACCTGCCATGATCTCAAGGA
66 CCACAAACGGTCTTACAGGGGACCT--CATCATCTCAAGGA
18776797 TGCCAATGCCATGTCCCAAACATGGTCTTA
1 TGCCAATGCCATGTCCCAAACATGGTCTTA
18776827 TATGGGATCT
Statistics
Matches: 109, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
100 72 0.66
103 6 0.06
104 1 0.01
105 1 0.01
106 29 0.27
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.25
Consensus pattern (104 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACACAGGACCTCTCATATCGATGCCAACGCCATGTC
CCACAAACGGTCTTACAGGGGACCTCATCATCTCAAGGA
Found at i:18776808 original size:56 final size:50
Alignment explanation
Indices: 18776648--18776838 Score: 206
Period size: 50 Copynumber: 3.7 Consensus size: 50
18776638 CGATGCCCAT
* ** * * *
18776648 GCCATGTCCCACAA-ACGGTCTTACGGGGGACCTTTCATCTCAGTGCCAAC
1 GCCATGTCCCA-AACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCAAC
18776698 GCCATGTCCCAAACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCAAC
1 GCCATGTCCCAAACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCAAC
* *
18776748 GCCATGTCCCAGACATGGTCTTACATGGGACCTGC-CATGATCTCAAGGATGCCAAT
1 GCCATGTCCCAAACATGGTCTTACATGGGACCT-CTC--G-TCTC--GG-TGCCAAC
* *
18776804 GCCATGTCCCAAACATGGTCTTATATGGGATCTCT
1 GCCATGTCCCAAACATGGTCTTACATGGGACCTCT
18776839 TTACCCAAAT
Statistics
Matches: 121, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
49 2 0.02
50 74 0.61
51 1 0.01
52 1 0.01
53 4 0.03
55 3 0.02
56 36 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.25
Consensus pattern (50 bp):
GCCATGTCCCAAACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCAAC
Found at i:18784895 original size:56 final size:50
Alignment explanation
Indices: 18784628--18784924 Score: 213
Period size: 50 Copynumber: 5.8 Consensus size: 50
18784618 GATAAGAACA
* ** * * * **
18784628 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGT-AT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
* * * * * * ** * *
18784677 TGCCAATGCCATATCCCAGATATTGTCTTACACGAGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
* * * * * *
18784727 TGCCTATGCCATGTCCCACAAATGGTCTT--ATGGAGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAT-G-GGACCTCTCGTCTCGG
* * *
18784777 TACGAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
* * *
18784827 TGCCAACACCATGTCCCAGACATGGTTTTACATGGGACCTTTCATGATCTCAAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--G-TCTC--GG
* *
18784882 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
18784925 TTACCCAAAT
Statistics
Matches: 195, Mismatches: 42, Indels: 15
0.77 0.17 0.06
Matches are distributed among these distances:
48 1 0.01
49 38 0.19
50 109 0.56
51 1 0.01
52 3 0.02
53 4 0.02
55 2 0.01
56 37 0.19
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
Found at i:18792911 original size:42 final size:42
Alignment explanation
Indices: 18792865--18792947 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
18792855 CGTATATGTG
** *
18792865 AGGCAATTTTGTGAGTTACACAGCCTGGCACAT-GAGCGTGTA
1 AGGCAATTTCATGAGGTACACAGCCTGGCACATAG-GCGTGTA
*
18792907 AGGCAATTTCATGAGGTACACGGCCTGGCACATAGGCGTGT
1 AGGCAATTTCATGAGGTACACAGCCTGGCACATAGGCGTGT
18792948 GACACGGCCG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 35 0.97
43 1 0.03
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (42 bp):
AGGCAATTTCATGAGGTACACAGCCTGGCACATAGGCGTGTA
Found at i:18798399 original size:30 final size:30
Alignment explanation
Indices: 18798338--18798399 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
18798328 GCTTTTTGAA
* * * * **
18798338 AATATTTACAAAATGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGAAACCAAAAATTT
18798368 AATATTTACAAAAAGAGAAACCAAAAATTT
1 AATATTTACAAAAAGAGAAACCAAAAATTT
18798398 AA
1 AA
18798400 AAATAATTCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.53, C:0.10, G:0.06, T:0.31
Consensus pattern (30 bp):
AATATTTACAAAAAGAGAAACCAAAAATTT
Found at i:18806161 original size:60 final size:60
Alignment explanation
Indices: 18806094--18806208 Score: 203
Period size: 60 Copynumber: 1.9 Consensus size: 60
18806084 GCAAGAGCCA
* *
18806094 AGACTTGAACCCAGGCTCCCTTGCAACCTTAATGACACCGCAACCACTAGACCACGAGCT
1 AGACTTGAACCCAGGCTCCATTGCAACCTTAATGACACCGCAACAACTAGACCACGAGCT
*
18806154 AGACTTGAACCCAGGCTCCATTGCAACCTTAATGACACTGCAACAACTAGACCAC
1 AGACTTGAACCCAGGCTCCATTGCAACCTTAATGACACCGCAACAACTAGACCAC
18806209 AAGTTTCCTT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.32, C:0.35, G:0.16, T:0.17
Consensus pattern (60 bp):
AGACTTGAACCCAGGCTCCATTGCAACCTTAATGACACCGCAACAACTAGACCACGAGCT
Found at i:18810706 original size:126 final size:126
Alignment explanation
Indices: 18810568--18810856 Score: 452
Period size: 126 Copynumber: 2.3 Consensus size: 126
18810558 TAATTTCAAA
* * *
18810568 AAGCTCCCACGTGGATGCTCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACATTT
* * * * *
18810633 TTGAGTAAATAGTGTCAAAAACGCTTTTAGTAGGATGCTTTGTCAACAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGATTTGTCAACAAAAGTACTGAAAG
* * *
18810694 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGGGTAGACATTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACATTT
* *
18810759 CTGAGCAAATAGTGTTAAAAACGCTTTAAGCAGGATGATTTGTGAACAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGATTTGTCAACAAAAGTACTGAAAG
*
18810820 AAGCTCCCACGTGGACGCGCTTTTGCTATAGTAGCTC
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTC
18810857 TTGTTTGGCC
Statistics
Matches: 149, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 149 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (126 bp):
AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACATTT
CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGATTTGTCAACAAAAGTACTGAAAG
Found at i:18816427 original size:11 final size:11
Alignment explanation
Indices: 18816408--18816480 Score: 69
Period size: 11 Copynumber: 6.6 Consensus size: 11
18816398 TAAAATGAAT
18816408 TTGAGAGGAAA
1 TTGAGAGGAAA
* *
18816419 TTGAAAGGAAC
1 TTGAGAGGAAA
*
18816430 TTGAGAGGAAT
1 TTGAGAGGAAA
* *
18816441 TTAAGAGGAAT
1 TTGAGAGGAAA
18816452 TTGAGA-GAATA
1 TTGAGAGGAA-A
18816463 TTG-GAGAGAAA
1 TTGAGAG-GAAA
18816474 TTGAGAG
1 TTGAGAG
18816481 AAAGGATTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
10 5 0.10
11 40 0.78
12 6 0.12
ACGTcount: A:0.42, C:0.01, G:0.33, T:0.23
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:18819102 original size:18 final size:19
Alignment explanation
Indices: 18819022--18819103 Score: 60
Period size: 20 Copynumber: 4.2 Consensus size: 19
18819012 CTTTTCAAAA
*
18819022 ATAATAAAATATATAATTTT
1 ATAATAAAA-ATAAAATTTT
*
18819042 ATTAA-AATAATAAAAATATTT
1 A-TAATAAAAAT-AAAAT-TTT
* *
18819063 ATACATAAAAGTAAAATATT
1 ATA-ATAAAAATAAAATTTT
*
18819083 ATAA-AAAAATATAATTTT
1 ATAATAAAAATAAAATTTT
18819101 ATA
1 ATA
18819104 TTAACATTTA
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
18 14 0.29
19 3 0.06
20 15 0.31
21 13 0.27
22 4 0.08
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (19 bp):
ATAATAAAAATAAAATTTT
Found at i:18819242 original size:22 final size:23
Alignment explanation
Indices: 18819217--18819266 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
18819207 AAAAATAAAA
18819217 ATATAATT-TTAT-ATTAATATTT
1 ATATAATTATTATAATTAA-ATTT
18819239 ATAT-ATTATTATAATTAAATTT
1 ATATAATTATTATAATTAAATTT
*
18819261 AAATAA
1 ATATAA
18819267 AAATATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 3 0.12
22 15 0.62
23 6 0.25
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATATAATTATTATAATTAAATTT
Found at i:18820405 original size:5 final size:5
Alignment explanation
Indices: 18820366--18820404 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
18820356 ATATAATGTT
*
18820366 ATATC ATATC ATATC ATATC ATATC ATATC ATATA ATAT
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATAT
18820405 ATTGATAGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATC
Found at i:18820594 original size:15 final size:16
Alignment explanation
Indices: 18820567--18820597 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
18820557 TCAACTTTTT
18820567 TGGCCCAGGCCCGGCC
1 TGGCCCAGGCCCGGCC
18820583 TGGCCC-GGCCCGGCC
1 TGGCCCAGGCCCGGCC
18820598 CGAATATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.03, C:0.52, G:0.39, T:0.06
Consensus pattern (16 bp):
TGGCCCAGGCCCGGCC
Found at i:18820701 original size:23 final size:22
Alignment explanation
Indices: 18820650--18820702 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
18820640 TTAAAATACT
*
18820650 TTAAAAATATTTTTTTTATTTT
1 TTAAAAATATTTTTTTTATTTA
* *
18820672 TTTAAAATATTTTTTTGTGTTTA
1 TTAAAAATATTTTTTT-TATTTA
18820695 TTAAAAAT
1 TTAAAAAT
18820703 CGNNNNNNNN
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (22 bp):
TTAAAAATATTTTTTTTATTTA
Found at i:18821194 original size:41 final size:41
Alignment explanation
Indices: 18821089--18821527 Score: 475
Period size: 41 Copynumber: 10.9 Consensus size: 41
18821079 CTTTGAGTTT
* *
18821089 TCGGGGCTTTAGTGGCGTTTTTGAAAAAGCGTCCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCG--CCGCTAATGC
* *
18821132 TCGGGGGCTTTAGCGGTGTTTTTGGAAAAGCGCCGCTAATAC
1 TC-GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* *
18821174 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCACTAGTGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * * *
18821215 TCAGGGCTTTAACGGCGTTTTTGGAGAAGCGCCGCTAGTGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * * * *
18821256 TCAGGGCTTTAGCCGCGTTTTGGGAGAAGCGCCGCTAGTGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * * * *
18821297 TCGGGGCTTTAGCGGTGTTTTGGGAGAAGCGTCGCTAGTGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
*
18821338 TCGAGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* **
18821379 TCGGGGCTTTAGCGGCGTTTTTGGAGAAGCATCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
** * * * *
18821420 AGGGGGCTTTAGCGTCGTTTTTGGAGAAGTGCTGCTAATG-
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
*
18821460 -C-AGG-----G-GGCGTTTTTGGAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* *
18821493 TCAGGGCTTTAGCGGCGTTTGTT-GAAAAGTGCCGC
1 TCGGGGCTTTAGCGGCGTTT-TTGGAAAAGCGCCGC
18821528 AAAAATATTT
Statistics
Matches: 341, Mismatches: 44, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
32 23 0.07
33 1 0.00
34 1 0.00
35 2 0.01
38 2 0.01
40 1 0.00
41 270 0.79
42 13 0.04
43 2 0.01
44 26 0.08
ACGTcount: A:0.17, C:0.20, G:0.35, T:0.28
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
Found at i:18822218 original size:21 final size:21
Alignment explanation
Indices: 18822128--18822226 Score: 60
Period size: 21 Copynumber: 4.6 Consensus size: 21
18822118 ATTTAAGGCC
* *
18822128 GGTTTAAGAGTTGTTATTTTAA
1 GGTTTAAGGGTTGTGA-TTTAA
*
18822150 GGTTTAGAGGAGTATG-GATTTAG
1 GGTTTA-AGG-GT-TGTGATTTAA
* * *
18822173 GGATT-AGGGATTAGGGA-TTAT
1 GGTTTAAGGG-TT-GTGATTTAA
18822194 GGTTTAAGGGTTGTGATTTAA
1 GGTTTAAGGGTTGTGATTTAA
*
18822215 GGTTTAGGGGTT
1 GGTTTAAGGGTT
18822227 AGACATTATC
Statistics
Matches: 60, Mismatches: 9, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
20 5 0.08
21 28 0.47
22 12 0.20
23 10 0.17
24 3 0.05
25 2 0.03
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.40
Consensus pattern (21 bp):
GGTTTAAGGGTTGTGATTTAA
Found at i:18825883 original size:43 final size:43
Alignment explanation
Indices: 18825823--18825913 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 43
18825813 CTTTGAGTTC
* *
18825823 ATTA-CAAGATTTCCTTGATTAA-ATAAATATATTATATATTTT
1 ATTACCAAGATTTACTTGATTAAGA-AAATACATTATATATTTT
* * *
18825865 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATGTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATACATTATATATTTT
18825908 ATTACC
1 ATTACC
18825914 TTGCATATGT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 4 0.10
43 37 0.88
44 1 0.02
ACGTcount: A:0.37, C:0.10, G:0.09, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATACATTATATATTTT
Found at i:18826245 original size:43 final size:41
Alignment explanation
Indices: 18826180--18826490 Score: 334
Period size: 43 Copynumber: 7.3 Consensus size: 41
18826170 GATATGTTTT
* * *
18826180 TAGCAGCGTTTGTGTGAAAAGCGCTGCTAAAGGTCTGTTCTA
1 TAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTCTGATCTA
18826222 TAGCGGCGTTTGTACGGAAAAGCGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGT--GGAAAAGCGCCGCTAAAGGTC-TGATCTA
** * *
18826266 TAGTAGCGTTTGTGGGAAAAGCGTCGCTAAATGTCTTGATCTA
1 TAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTC-TGATCTA
* * * * *
18826309 TAGCGACGTTTGTGAAAAAAGCGCCACTAAAGATCTTGAGCTA
1 TAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTC-TGATCTA
* *
18826352 TACCGGCATTTGTGGAAAAGCGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGT-CTGATCTA
* * * *
18826394 TAGTGGCGTTTCTGGAAAAGGCACCACTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGAAAA-GCGCCGCTAAAGGT-CTGATCTA
*
18826437 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTGATGATCTA
1 TAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGT-CTGATCTA
18826480 TAGCGGCGTTT
1 TAGCGGCGTTT
18826491 ATTTATATAA
Statistics
Matches: 226, Mismatches: 36, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
42 50 0.22
43 152 0.67
44 24 0.11
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (41 bp):
TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCTGATCTA
Found at i:18826481 original size:128 final size:128
Alignment explanation
Indices: 18826180--18826486 Score: 366
Period size: 128 Copynumber: 2.4 Consensus size: 128
18826170 GATATGTTTT
* * * * * *
18826180 TAGCAGCGTTTGTGTGAAAAGCGCTGCTAAAGGTCTGTTCTATAGCGGCGTTTGTACGGAAAAGC
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTATGATCTATAGCGGCATTTGTA-GGAAAAGC
* * ** * * *
18826245 GCCGCTAAAGGTCTTGATCTATAGTAGCGTTTGTGGGAAAAGCGTCGCTAAATGTCTTGATCTA
65 GCCGCTAAAGGTCCTGATCTATAGTAGCGTTTCTGGGAAAAGCACCACTAAAGGTCCTGATCTA
* * * * * * *
18826309 TAGCGACGTTTGTGAAAAAAGCGCCACTAAAGATCTTGAGCTATACCGGCATTTGT-GGAAAAGC
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGT-ATGATCTATAGCGGCATTTGTAGGAAAAGC
*
18826373 GCCGCTAAAGGTCCTGATCTATAGTGGCGTTTCT-GGAAAAGGCACCACTAAAGGTCCTGATCTA
65 GCCGCTAAAGGTCCTGATCTATAGTAGCGTTTCTGGGAAAA-GCACCACTAAAGGTCCTGATCTA
*
18826437 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTGATGATCTATAGCGGC
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGT-ATGATCTATAGCGGC
18826487 GTTTATTTAT
Statistics
Matches: 147, Mismatches: 29, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
127 6 0.04
128 98 0.67
129 27 0.18
130 16 0.11
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (128 bp):
TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTATGATCTATAGCGGCATTTGTAGGAAAAGCG
CCGCTAAAGGTCCTGATCTATAGTAGCGTTTCTGGGAAAAGCACCACTAAAGGTCCTGATCTA
Found at i:18834964 original size:31 final size:31
Alignment explanation
Indices: 18834918--18834985 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
18834908 ATGGGGGTAC
* *
18834918 GACATTGTATCTGTTCCAATCTG-TTCTGCAT
1 GACACTGTATATGTTCCAATCTGCTT-TGCAT
*
18834949 GACACTGTATATGTTCTAATCTGCTTTGCAT
1 GACACTGTATATGTTCCAATCTGCTTTGCAT
18834980 GACACT
1 GACACT
18834986 ATATCTATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 31 0.94
32 2 0.06
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (31 bp):
GACACTGTATATGTTCCAATCTGCTTTGCAT
Found at i:18839305 original size:37 final size:36
Alignment explanation
Indices: 18839264--18839359 Score: 88
Period size: 37 Copynumber: 2.6 Consensus size: 36
18839254 ATAATGATAG
* * *
18839264 TTATATATGTATTAATATTTTTAGTAATAGTTATATA
1 TTATATAT-TATTAATATTTTTAGTAATACTAATACA
* *
18839301 TTATAATATTATT-TTATGTATTAGTAATACTAATACA
1 TTAT-ATATTATTAATAT-TTTTAGTAATACTAATACA
*
18839338 TTATA-ATATATTACTATTTTTA
1 TTATATAT-TATTAATATTTTTA
18839360 TACATTAGTA
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
35 2 0.04
36 12 0.25
37 30 0.62
38 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (36 bp):
TTATATATTATTAATATTTTTAGTAATACTAATACA
Found at i:18839316 original size:30 final size:31
Alignment explanation
Indices: 18839260--18839325 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
18839250 TATTATAATG
18839260 ATAGTTATATATGTATTAATATTTTTA-GTA
1 ATAGTTATATATGTATTAATATTTTTATGTA
18839290 ATAGTTATATAT-TA-TAATATTATTTTATGTA
1 ATAGTTATATATGTATTAATA-T-TTTTATGTA
*
18839321 TTAGT
1 ATAGT
18839326 AATACTAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
28 5 0.16
29 3 0.09
30 17 0.53
31 7 0.22
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (31 bp):
ATAGTTATATATGTATTAATATTTTTATGTA
Found at i:18839387 original size:26 final size:25
Alignment explanation
Indices: 18839333--18839387 Score: 58
Period size: 26 Copynumber: 2.1 Consensus size: 25
18839323 AGTAATACTA
* *
18839333 ATACATTATAATATATTACTATTTTT
1 ATACATTATAATATACTAC-ATTTGT
18839359 ATACATTAGTAATATACTA-ATTTAGT
1 ATACATTA-TAATATACTACATTT-GT
18839385 ATA
1 ATA
18839388 TTGATTTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 4 0.16
26 12 0.48
27 9 0.36
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (25 bp):
ATACATTATAATATACTACATTTGT
Found at i:18849066 original size:389 final size:389
Alignment explanation
Indices: 18848338--18849120 Score: 1251
Period size: 389 Copynumber: 2.0 Consensus size: 389
18848328 TGGCTTGTTC
18848338 TAGTGGTACTTCAATACTTCATGAAGAAATCTTTCTTTTTTACGGCCTGTGACACCCAATGGGAG
1 TAGTGGTACTTCAATACTTCATGAAGAAATCTTTCTTTTTTACGGCCTGTGACACCCAATGGGAG
*
18848403 TTTTCCATACACTAGATAACTAACCAAATCCGCATACTAAGAGGTTCCATCTACAACAAATAACT
66 TTTTCCATACACTAGATAACTAACCAAATCCGCATACCAAGAGGTTCCATCTACAACAAATAACT
* *
18848468 TCTCATCGGGGAATGCGTCGACAATTTGAAGTATGTTTCCATCTTCACTGCCAACTTTCAATCGA
131 TCTCATCGGGGAATGCGTAGACAATTTGAAGTATGTTTCCATCTTCACTGCCAACTTCCAATCGA
*
18848533 GATAGATAGTCTGCAACCTGATTTTCTGAACCCTTGAGATCTTTTATCTCGATGTCGAATTCTTC
196 GATAGATAGTCTGCAACCTGATTTTCTGAAACCTTGAGATCTTTTATCTCGATGTCGAATTCTTC
* * * *
18848598 GTTTTACATCCTTCTTCGTAAAAAGATATCTTAACGACGAGTGATTAGTAAATACGGTAACCTTT
261 GTTTTACATCATTCTTCGTAAAAAGATATCTCAACGACAAGTGATCAGTAAATACGGTAACCTTT
* * * *
18848663 GGGCCAAAAAGATAAGAACAAAACTTGTTGAAAGCAAAGACTACAGCCAACAATTCTTTCTCTG
326 GGGCCAAAAAGATAAGAACAAAACTTGTGGAAAGCAAAGACTACAACCAAAAATTATTTCTCTG
* * *
18848727 TAGTGGTACTTCACTACTTCATGAAGAAATCTTTCTTTTTTATGGCCTGTTACACCCAATGGGAG
1 TAGTGGTACTTCAATACTTCATGAAGAAATCTTTCTTTTTTACGGCCTGTGACACCCAATGGGAG
* * * * * *
18848792 TTTTCCATACACTAGATAATTAACCAAATCTGCATACCAAGGGGTTGCATCTATAGCAAATAACT
66 TTTTCCATACACTAGATAACTAACCAAATCCGCATACCAAGAGGTTCCATCTACAACAAATAACT
*
18848857 TCTCATCTGGGAATGCGTAGACAATTTGAAGTATGTTTCCATCTTCACTGCCAACTTCCAATCGA
131 TCTCATCGGGGAATGCGTAGACAATTTGAAGTATGTTTCCATCTTCACTGCCAACTTCCAATCGA
* * *
18848922 GATAGATGGTCTGCAACCTGATTTTTTGAAACCTTGAGATCTTTTATCTCGATGTCGAATTCTTG
196 GATAGATAGTCTGCAACCTGATTTTCTGAAACCTTGAGATCTTTTATCTCGATGTCGAATTCTTC
* * *
18848987 GTTTTGCATCATTCTTCGTAAAAAGATATCTCAACGCCAATTGATCAGTAAATACGGTAACCTTT
261 GTTTTACATCATTCTTCGTAAAAAGATATCTCAACGACAAGTGATCAGTAAATACGGTAACCTTT
* * * * * * *
18849052 GTGTCGACAAGATAAGAATAAAACTTGTGGAAAGCAAAGACTATAACCAAAAATTATTTCTTTG
326 GGGCCAAAAAGATAAGAACAAAACTTGTGGAAAGCAAAGACTACAACCAAAAATTATTTCTCTG
18849116 TAGTG
1 TAGTG
18849121 CTATAATTGA
Statistics
Matches: 359, Mismatches: 35, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
389 359 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.32
Consensus pattern (389 bp):
TAGTGGTACTTCAATACTTCATGAAGAAATCTTTCTTTTTTACGGCCTGTGACACCCAATGGGAG
TTTTCCATACACTAGATAACTAACCAAATCCGCATACCAAGAGGTTCCATCTACAACAAATAACT
TCTCATCGGGGAATGCGTAGACAATTTGAAGTATGTTTCCATCTTCACTGCCAACTTCCAATCGA
GATAGATAGTCTGCAACCTGATTTTCTGAAACCTTGAGATCTTTTATCTCGATGTCGAATTCTTC
GTTTTACATCATTCTTCGTAAAAAGATATCTCAACGACAAGTGATCAGTAAATACGGTAACCTTT
GGGCCAAAAAGATAAGAACAAAACTTGTGGAAAGCAAAGACTACAACCAAAAATTATTTCTCTG
Found at i:18869976 original size:5 final size:5
Alignment explanation
Indices: 18869966--18869990 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18869956 GGGCTATTAG
18869966 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
18869991 TGATAATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:18870364 original size:25 final size:25
Alignment explanation
Indices: 18870296--18870364 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
18870286 CGGATACACC
* * *
18870296 ACAGCTCGTATGAGCTTACCAATTT
1 ACAGCTCGTATGAGCATATCAATTA
*
18870321 ACAGCTCGTGA-GAGAATATCAATTA
1 ACAGCTCGT-ATGAGCATATCAATTA
*
18870346 ATAGCTCGTATGAGCATAT
1 ACAGCTCGTATGAGCATAT
18870365 TTGTACATGA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
24 1 0.03
25 34 0.94
26 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (25 bp):
ACAGCTCGTATGAGCATATCAATTA
Found at i:18877918 original size:17 final size:17
Alignment explanation
Indices: 18877896--18877928 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18877886 TAGGGATTCA
*
18877896 TACATGTGTTGTGGTCC
1 TACATGTGTTGCGGTCC
18877913 TACATGTGTTGCGGTC
1 TACATGTGTTGCGGTC
18877929 ACACCACAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.18, G:0.30, T:0.39
Consensus pattern (17 bp):
TACATGTGTTGCGGTCC
Found at i:18878023 original size:25 final size:25
Alignment explanation
Indices: 18877995--18878052 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
18877985 CGGCTCGTTT
* *
18877995 GAGCTTACCAATTTATAGCTTGTGA
1 GAGCATACCAATTCATAGCTTGTGA
*
18878020 GAGCATACCGATTCATAGCTTGT-A
1 GAGCATACCAATTCATAGCTTGTGA
18878044 TGAGCATAC
1 -GAGCATAC
18878053 ATGTACAGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 1 0.03
25 28 0.97
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (25 bp):
GAGCATACCAATTCATAGCTTGTGA
Found at i:18878048 original size:50 final size:50
Alignment explanation
Indices: 18877935--18878048 Score: 122
Period size: 50 Copynumber: 2.3 Consensus size: 50
18877925 GGTCACACCA
* * * *
18877935 CAGCTCGTATGAGCTTACCGATTTGCAGCTCATGAGAGCTTATCGATTCT
1 CAGCTCGTATGAGCTTACCAATTTACAGCTCATGAGAGCATACCGATTCT
* * * **
18877985 CGGCTCGTTTGAGCTTACCAATTTATAGCTTGTGAGAGCATACCGATTCAT
1 CAGCTCGTATGAGCTTACCAATTTACAGCTCATGAGAGCATACCGATTC-T
*
18878036 -AGCTTGTATGAGC
1 CAGCTCGTATGAGC
18878049 ATACATGTAC
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
50 50 0.98
51 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (50 bp):
CAGCTCGTATGAGCTTACCAATTTACAGCTCATGAGAGCATACCGATTCT
Found at i:18879424 original size:20 final size:20
Alignment explanation
Indices: 18879399--18879437 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
18879389 TATTTTCTTC
18879399 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
18879419 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
18879438 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:18879766 original size:50 final size:49
Alignment explanation
Indices: 18879646--18879768 Score: 124
Period size: 49 Copynumber: 2.5 Consensus size: 49
18879636 ACATGAAAAA
* * *
18879646 GCCATTTCCCAGACATGGTCTTACATGGGATGTTTCCTGTACTGCAAAT
1 GCCATATCCCAGACATGGTCTTACATGAGATGTTTCATGTACTGCAAAT
* * * **
18879695 GTCATATACCAGATATGGTCTTACATGAGA-GTTCTCATGT-CGGTGCCCAT
1 GCCATATCCCAGACATGGTCTTACATGAGATGTT-TCATGTAC--TGCAAAT
*
18879745 GCCATGTCCCAGACATGGTCTTAC
1 GCCATATCCCAGACATGGTCTTAC
18879769 GTGGGACCTC
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
48 4 0.07
49 30 0.51
50 25 0.42
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (49 bp):
GCCATATCCCAGACATGGTCTTACATGAGATGTTTCATGTACTGCAAAT
Found at i:18883187 original size:14 final size:14
Alignment explanation
Indices: 18883168--18883197 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18883158 AGTGAGAGAG
*
18883168 GAGAGAAGAGTTGT
1 GAGAGAAGAGATGT
18883182 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
18883196 GA
1 GA
18883198 ATGAGGGATG
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:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (14 bp):
GAGAGAAGAGATGT
Found at i:18893239 original size:14 final size:14
Alignment explanation
Indices: 18893220--18893249 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18893210 ATTGAGAGAG
*
18893220 GAGAGAAGAGTTGT
1 GAGAGAAGAGATGT
18893234 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
18893248 GA
1 GA
18893250 ATGAGGGATG
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:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (14 bp):
GAGAGAAGAGATGT
Found at i:18898847 original size:10 final size:10
Alignment explanation
Indices: 18898832--18898856 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
18898822 AATATGAATT
18898832 ATTTTGATTG
1 ATTTTGATTG
18898842 ATTTTGATTG
1 ATTTTGATTG
18898852 ATTTT
1 ATTTT
18898857 TATATGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.16, T:0.64
Consensus pattern (10 bp):
ATTTTGATTG
Found at i:18904851 original size:25 final size:25
Alignment explanation
Indices: 18904823--18904872 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
18904813 GTTTCATATA
18904823 CATGTATCATCCAATTCAATTTTCC
1 CATGTATCATCCAATTCAATTTTCC
18904848 CATGTATCATCCAATTCAATTTTCC
1 CATGTATCATCCAATTCAATTTTCC
18904873 ATATACCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.04, T:0.40
Consensus pattern (25 bp):
CATGTATCATCCAATTCAATTTTCC
Found at i:18904882 original size:31 final size:30
Alignment explanation
Indices: 18904814--18904884 Score: 91
Period size: 25 Copynumber: 2.5 Consensus size: 30
18904804 ATAAATTATG
18904814 TTTCATATA-CATGTATCATCCAATTCAAT
1 TTTCATATACCATGTATCATCCAATTCAAT
18904843 TTTC-----CCATGTATCATCCAATTCAAT
1 TTTCATATACCATGTATCATCCAATTCAAT
18904868 TTTCCATATACCATGTA
1 TTT-CATATACCATGTA
18904885 ATAACATTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
25 23 0.66
26 1 0.03
29 4 0.11
31 7 0.20
ACGTcount: A:0.31, C:0.24, G:0.04, T:0.41
Consensus pattern (30 bp):
TTTCATATACCATGTATCATCCAATTCAAT
Found at i:18909067 original size:22 final size:22
Alignment explanation
Indices: 18909025--18909068 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
18909015 AACAACAAAC
* *
18909025 TGGTAGCAACATAGTACTAAAA
1 TGGTAGCAAAATAGTAATAAAA
18909047 TGGTAGCAAAATAG-AGATAAAA
1 TGGTAGCAAAATAGTA-ATAAAA
18909069 CAACAAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.50, C:0.09, G:0.20, T:0.20
Consensus pattern (22 bp):
TGGTAGCAAAATAGTAATAAAA
Found at i:18909092 original size:23 final size:23
Alignment explanation
Indices: 18909064--18909108 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
18909054 AAAATAGAGA
* *
18909064 TAAAACAACAAGAAAATAACATT
1 TAAAACAAAAAGAAAAAAACATT
18909087 TAAAACAAAAAGAAAAAAACAT
1 TAAAACAAAAAGAAAAAAACAT
18909109 ATTTTTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.71, C:0.11, G:0.04, T:0.13
Consensus pattern (23 bp):
TAAAACAAAAAGAAAAAAACATT
Found at i:18909864 original size:21 final size:21
Alignment explanation
Indices: 18909839--18909902 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
18909829 ATCATTATTG
18909839 TAAATTTTTTATAATTTTTAA
1 TAAATTTTTTATAATTTTTAA
*
18909860 TAAA-TTTTTA-AATTTTCTTTA
1 TAAATTTTTTATAA-TTT-TTAA
18909881 TAAATTTTTTTTATAATTTTTA
1 TAAA--TTTTTTATAATTTTTA
18909903 TATCTTTTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
19 2 0.06
20 9 0.26
21 11 0.31
23 2 0.06
24 9 0.26
25 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
TAAATTTTTTATAATTTTTAA
Found at i:18909867 original size:20 final size:20
Alignment explanation
Indices: 18909813--18909889 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 20
18909803 TATAGATAGC
18909813 AATTTTTAATAAA--TTTAT
1 AATTTTTAATAAATTTTTAT
* * *
18909831 CATTATT-GTAAATTTTTTAT
1 AATTTTTAATAAA-TTTTTAT
18909851 AATTTTTAATAAATTTTTA-
1 AATTTTTAATAAATTTTTAT
*
18909870 AATTTTCTTTATAAATTTTT
1 AA-TTT-TTAATAAATTTTT
18909890 TTTATAATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
17 4 0.09
18 5 0.11
19 2 0.04
20 19 0.41
21 16 0.35
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (20 bp):
AATTTTTAATAAATTTTTAT
Found at i:18909896 original size:44 final size:45
Alignment explanation
Indices: 18909843--18909933 Score: 123
Period size: 44 Copynumber: 2.0 Consensus size: 45
18909833 TTATTGTAAA
*
18909843 TTTTTTATAATTTTTAATAAATTTTTAA-ATTTTCTTTATAA-ATT
1 TTTTTTATAATTTTT-ATAAATTTTGAATATTTTCTTTATAATATT
** *
18909887 TTTTTTATAATTTTTATATCTTTTGAATATTTTTTTTATAATATT
1 TTTTTTATAATTTTTATAAATTTTGAATATTTTCTTTATAATATT
18909932 TT
1 TT
18909934 AAATCACATC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
43 9 0.22
44 27 0.66
45 5 0.12
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (45 bp):
TTTTTTATAATTTTTATAAATTTTGAATATTTTCTTTATAATATT
Found at i:18909900 original size:12 final size:12
Alignment explanation
Indices: 18909864--18909901 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 12
18909854 TTTTAATAAA
18909864 TTTTTA-AATTT
1 TTTTTATAATTT
*
18909875 TCTTTATAAATTT
1 TTTTTAT-AATTT
18909888 TTTTTATAATTT
1 TTTTTATAATTT
18909900 TT
1 TT
18909902 ATATCTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 5 0.22
12 7 0.30
13 11 0.48
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTTTATAATTT
Found at i:18910032 original size:3 final size:3
Alignment explanation
Indices: 18910024--18910049 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18910014 CGATTTGCAT
18910024 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
18910050 TAATAACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18910701 original size:126 final size:126
Alignment explanation
Indices: 18910518--18910744 Score: 375
Period size: 126 Copynumber: 1.8 Consensus size: 126
18910508 GTTTCTGATA
18910518 AAATAGTACAAAATCGCTTCTAGCAGGATGATATTTGAGAAGAATTTGTGAAATCGCGCCCTCAT
1 AAATAGTACAAAATCGCTTCTAGCAGGATGATATTTGAGAAGAATTTGTGAAATCGCGCCCTCAT
*
18910583 -GGACGCACTTTTGCTACAGTAGGTCATGGAAGAAATAATTATTTTTTTGACGTTATTGAGC
66 CAG-CGCACTTTTGCTACAGTAGGTCATGGAAGAAATAATTATTTTTTTGACGTTATTGAGC
* * * *
18910644 AAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGGCCTCGT
1 AAATAGTACAAAATCGCTTCTAGCAGGATGATATTTGAGAAGAATTTGTGAAATCGCGCCCTCAT
* *
18910709 CAGCGCGCTTTTGCTACAGTAGGTCATGTAAGAAAT
66 CAGCGCACTTTTGCTACAGTAGGTCATGGAAGAAAT
18910745 TTTTTTTTGA
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
126 92 0.99
127 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.30
Consensus pattern (126 bp):
AAATAGTACAAAATCGCTTCTAGCAGGATGATATTTGAGAAGAATTTGTGAAATCGCGCCCTCAT
CAGCGCACTTTTGCTACAGTAGGTCATGGAAGAAATAATTATTTTTTTGACGTTATTGAGC
Found at i:18914905 original size:116 final size:116
Alignment explanation
Indices: 18914701--18914915 Score: 385
Period size: 116 Copynumber: 1.9 Consensus size: 116
18914691 TGATAAATTG
*
18914701 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTAAGTAAAATTATCAAATTATATAAAATTATTAATTGT
18914766 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
* * *
18914817 TATTAAGTCAAAAAATTGTATTAATGGTAAGTAAAATTATCAAATTATGTAAATTTATTATTTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTAAGTAAAATTATCAAATTATATAAAATTATTAATTGT
*
18914882 TAGTACCAGTCAAAATATTTTTCCAAATCTAACA
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACA
18914916 ATACGTTAAG
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 94 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (116 bp):
TATTAAGTCAAAAAATTGTATTAATGGTAAGTAAAATTATCAAATTATATAAAATTATTAATTGT
TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
Found at i:18914957 original size:22 final size:20
Alignment explanation
Indices: 18914920--18914965 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
18914910 CTAACAATAC
18914920 GTTAAGGTTAGAGTTTTTAA
1 GTTAAGGTTAGAGTTTTTAA
*
18914940 GTTAAGGGTTTAGGGTTTTTAA
1 GTTAA-GG-TTAGAGTTTTTAA
18914962 -TTAA
1 GTTAA
18914966 ATTAGGTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 5 0.22
21 6 0.26
22 12 0.52
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (20 bp):
GTTAAGGTTAGAGTTTTTAA
Found at i:18914993 original size:18 final size:20
Alignment explanation
Indices: 18914953--18915016 Score: 74
Period size: 23 Copynumber: 2.9 Consensus size: 20
18914943 AAGGGTTTAG
18914953 GGTTTTTAATTAAATTAGGTT
1 GGTTTTTAATTAAATTA-GTT
18914974 AGTGTTTTTAATTAAATTAGGTT
1 -G-GTTTTTAATTAAATTA-GTT
18914997 AGGGTTTTTAATTAAATTAG
1 --GGTTTTTAATTAAATTAG
18915017 GTTAAGGTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
22 2 0.05
23 36 0.92
24 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (20 bp):
GGTTTTTAATTAAATTAGTT
Found at i:18915025 original size:29 final size:29
Alignment explanation
Indices: 18914944--18915450 Score: 505
Period size: 29 Copynumber: 18.4 Consensus size: 29
18914934 TTTTAAGTTA
18914944 AGGGTTTAGGGTTTTTAATTAAATTAGGTT
1 AGGG-TTAGGGTTTTTAATTAAATTAGGTT
18914974 A--G-T---GTTTTTAATT-AA--A--TT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
18914992 A-GGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* * *
18915020 AAGGTTAGGTTTTTTAAATAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
18915049 AGGGTTAAGGTTTTTAATTAAATTAGATT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
18915078 AAGGTTAGGGTTTTTAAGTT-AA--GGGTTT
1 AGGGTTAGGGTTTTTAA-TTAAATTAGG-TT
* **
18915106 AGGGTT----TTTAATTCAAATAGGTTAGG--
1 AGGGTTAGGGTTT--TT-AATTAAATTAGGTT
* *
18915132 ---GTTAGGGTTTGTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
18915158 AAGGGTTAGGGTTTTTAATTAAATTAGGTT
1 -AGGGTTAGGGTTTTTAATTAAATTAGGTT
* * *
18915188 AGGGTTAGGCTTTGTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
18915217 AGGGGTTAGGGTTTTTAATTAAATTAGGTT
1 A-GGGTTAGGGTTTTTAATTAAATTAGGTT
18915247 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
18915276 AGGGTTAGGGTTTTTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
18915305 AGGGTTAGGGTTTTTAATT-AA-T---TT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
18915329 A-GGTTAGGG--TTTAAGGTTAAATTAGGTT
1 AGGGTTAGGGTTTTTAA--TTAAATTAGGTT
18915357 AGGGTTAGGGTTTTTAATT-AA--A--TT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
18915381 A-GGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
18915409 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
18915438 AGGGTTTAGGGTT
1 AGGG-TTAGGGTT
18915451 AAATTAGGTT
Statistics
Matches: 400, Mismatches: 30, Indels: 94
0.76 0.06 0.18
Matches are distributed among these distances:
18 3 0.01
19 1 0.00
20 2 0.00
21 5 0.01
22 2 0.00
23 50 0.12
24 24 0.06
25 2 0.00
26 7 0.02
27 7 0.02
28 20 0.05
29 211 0.53
30 61 0.15
31 5 0.01
ACGTcount: A:0.28, C:0.00, G:0.27, T:0.45
Consensus pattern (29 bp):
AGGGTTAGGGTTTTTAATTAAATTAGGTT
Found at i:18915027 original size:52 final size:52
Alignment explanation
Indices: 18914949--18915466 Score: 538
Period size: 52 Copynumber: 9.6 Consensus size: 52
18914939 AGTTAAGGGT
18914949 TTAGGGTTTTTAATTAAATTAGGTTA--G-T---GTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG
* * *
18914995 TTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGTTTTTTAAATAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG
* * *
18915047 TTAGGGTTAAGGTTTTTAATTAAATTAGATTAAGGTTAGGGTTTTTAAGTT-AA--GGG
1 TTA--G----GGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAA-TTAAATTAGG
*
18915103 TTTAGGGTTTTTAATTCAAA-TAGGTTAGGGTTAGGGTTTGTAATTAATTTAGGTTAAGGG
1 -TTAGGGTTTTTAATT-AAATTAGGTTAGGGTTAGGGTTTTTAATTAA---A--TT-A-GG
* *
18915163 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGCTTTGTAATTAATTTAGGTTAGGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA---A--TTA--GG
18915222 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT-AA--A--TTA-GG
* *
18915280 TTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG
18915332 TTAGGG--TTTAAGGTTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAA--TTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG
18915384 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG
****
18915436 TTAGGGTTTAGGGTTAAATTAGGTTAGGGTT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTT
18915467 TTTATTACAT
Statistics
Matches: 419, Mismatches: 21, Indels: 58
0.84 0.04 0.12
Matches are distributed among these distances:
46 26 0.06
48 1 0.00
49 1 0.00
50 7 0.02
51 32 0.08
52 139 0.33
53 3 0.01
54 7 0.02
55 1 0.00
56 2 0.00
57 5 0.01
58 88 0.21
59 103 0.25
60 4 0.01
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.45
Consensus pattern (52 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG
Found at i:18915405 original size:18 final size:21
Alignment explanation
Indices: 18915360--18915414 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 21
18915350 TTAGGTTAGG
18915360 GTTAGGGTTTTTAATTAAATTA
1 GTTAGGGTTTTTAATTAAA-TA
18915382 GGTTAGGGTTTTTAATTAAATTA
1 -GTTAGGGTTTTTAATTAAA-TA
18915405 GGTTAGGGTT
1 -GTTAGGGTT
18915415 AGGGTTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.47
Consensus pattern (21 bp):
GTTAGGGTTTTTAATTAAATA
Found at i:18915494 original size:25 final size:25
Alignment explanation
Indices: 18915466--18915578 Score: 105
Period size: 25 Copynumber: 4.7 Consensus size: 25
18915456 AGGTTAGGGT
*
18915466 TTTTATTACATCAAATAAACGTCTA
1 TTTTATTACATCAAATAAACTTCTA
18915491 TTTTATTACATCAAAT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * * *
18915514 --AAATAAC-TCGAAA-AAATTTTTA
1 TTTTATTACATC-AAATAAACTTCTA
18915536 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
18915561 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
18915579 TATCAAAATA
Statistics
Matches: 69, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
20 2 0.03
21 10 0.14
22 2 0.03
23 1 0.01
24 11 0.16
25 43 0.62
ACGTcount: A:0.44, C:0.13, G:0.02, T:0.41
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:18915546 original size:70 final size:69
Alignment explanation
Indices: 18915466--18915621 Score: 269
Period size: 70 Copynumber: 2.3 Consensus size: 69
18915456 AGGTTAGGGT
18915466 TTTTATTACATCAAATAAACGTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAAT
1 TTTTATTACATCAAATAAACGTCTATTTTATTACATCAAATAATATCAAAATAACTC-AAAAAAT
*
18915531 TTTTA
65 TTCTA
*
18915536 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAATT
1 TTTTATTACATCAAATAAACGTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAATT
18915601 TCTA
66 TCTA
*
18915605 TTTT-TTACATAAAATAA
1 TTTTATTACATCAAATAA
18915622 TATCAAAATA
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
68 12 0.14
69 15 0.18
70 56 0.67
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.40
Consensus pattern (69 bp):
TTTTATTACATCAAATAAACGTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAATT
TCTA
Found at i:18915620 original size:43 final size:45
Alignment explanation
Indices: 18915546--18915631 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 45
18915536 TTTTATTACA
*
18915546 TCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAAC
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
*
18915591 TCAAA-AAATTTCTATTTT-TTACATAAAATAATATCAAAATA
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATA
18915632 TTTGTACAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 22 0.56
44 12 0.31
45 5 0.13
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (45 bp):
TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
Found at i:18916067 original size:18 final size:18
Alignment explanation
Indices: 18916044--18916078 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18916034 CGGAAAAGGA
*
18916044 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
18916062 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
18916079 AAACGCACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:18917962 original size:50 final size:50
Alignment explanation
Indices: 18917880--18917998 Score: 213
Period size: 50 Copynumber: 2.4 Consensus size: 50
18917870 TATTTTAAAA
18917880 AAGGAAATTGAGAGGAAATTGAAATTAAATATGGATTTCAGAGAATTTTGG
1 AAGGAAATTGAGAGG-AATTGAAATTAAATATGGATTTCAGAGAATTTTGG
*
18917931 AAGGAAATTGAGAGGAATTGAAATTAAATATGGATTTGAGAGAATTTTGG
1 AAGGAAATTGAGAGGAATTGAAATTAAATATGGATTTCAGAGAATTTTGG
18917981 AAGGAAATTGAGA-GAATT
1 AAGGAAATTGAGAGGAATT
18917999 TTGGAAGGAA
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
49 5 0.07
50 47 0.70
51 15 0.22
ACGTcount: A:0.44, C:0.01, G:0.27, T:0.29
Consensus pattern (50 bp):
AAGGAAATTGAGAGGAATTGAAATTAAATATGGATTTCAGAGAATTTTGG
Found at i:18917991 original size:22 final size:22
Alignment explanation
Indices: 18917966--18918021 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
18917956 AAATATGGAT
18917966 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
18917988 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
18918010 TTGAGAGGAATT
1 TTGAGA-GAATT
18918022 GAGAGGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 28 0.85
23 5 0.15
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:18920260 original size:23 final size:23
Alignment explanation
Indices: 18920230--18920278 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
18920220 GGTAGTCTAA
18920230 ATGGGTTTTAAATGCCAACTTGG
1 ATGGGTTTTAAATGCCAACTTGG
18920253 ATGGGTTTTAAATGCCAACTTGG
1 ATGGGTTTTAAATGCCAACTTGG
18920276 ATG
1 ATG
18920279 TCTAGTTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.35
Consensus pattern (23 bp):
ATGGGTTTTAAATGCCAACTTGG
Found at i:18924053 original size:2 final size:2
Alignment explanation
Indices: 18924040--18924083 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
18924030 GGTTTAAGAG
* *
18924040 TA TA TG TA TA TA TA TA TA TA TA TA TA TA T- TA -A TC TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18924080 TA TA
1 TA TA
18924084 ATTACATCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18924206 original size:30 final size:30
Alignment explanation
Indices: 18924170--18924229 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
18924160 TAGTATTTTA
*
18924170 ACGATTTTGAATTT-AAAAAAAATTATATAT
1 ACGATTTTAAATTTAAAAAAAAATTA-ATAT
18924200 ACGATTTTAAATTTAAAAAAAAATTAATAT
1 ACGATTTTAAATTTAAAAAAAAATTAATAT
18924230 TTTCAATATC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 17 0.61
31 11 0.39
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.38
Consensus pattern (30 bp):
ACGATTTTAAATTTAAAAAAAAATTAATAT
Found at i:18949880 original size:36 final size:36
Alignment explanation
Indices: 18949833--18949905 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
18949823 TATCCAAATC
18949833 AATGCAATGACGGTTATCGAGTCCTAATTGAACCTT
1 AATGCAATGACGGTTATCGAGTCCTAATTGAACCTT
18949869 AATGCAATGACGGTTATCGAGTCCTAATTGAACCTT
1 AATGCAATGACGGTTATCGAGTCCTAATTGAACCTT
18949905 A
1 A
18949906 GTAATTCATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (36 bp):
AATGCAATGACGGTTATCGAGTCCTAATTGAACCTT
Found at i:18975207 original size:28 final size:29
Alignment explanation
Indices: 18975167--18975229 Score: 101
Period size: 28 Copynumber: 2.2 Consensus size: 29
18975157 ATGGTGATAA
*
18975167 TGTTTTGTTTTATTAACTAAAC-AAATTT
1 TGTTTTCTTTTATTAACTAAACAAAATTT
18975195 TGTTTTCTTTTATTAACTAAACAAAATTT
1 TGTTTTCTTTTATTAACTAAACAAAATTT
*
18975224 TATTTT
1 TGTTTT
18975230 AACAATTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 21 0.66
29 11 0.34
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.56
Consensus pattern (29 bp):
TGTTTTCTTTTATTAACTAAACAAAATTT
Found at i:18978479 original size:15 final size:14
Alignment explanation
Indices: 18978454--18978489 Score: 63
Period size: 15 Copynumber: 2.5 Consensus size: 14
18978444 ATATTTGTAT
18978454 TATTTTTAATTTAA
1 TATTTTTAATTTAA
18978468 TATTTATTAATTTAA
1 TATTT-TTAATTTAA
18978483 TATTTTT
1 TATTTTT
18978490 CTTTCATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTTTTAATTTAA
Found at i:18979767 original size:6 final size:6
Alignment explanation
Indices: 18979756--18979783 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
18979746 TAAATCACTG
18979756 TTTTTA TTTTTA TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTT
18979784 GAAAAAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:18983099 original size:11 final size:11
Alignment explanation
Indices: 18983083--18983110 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
18983073 TTTTGTAAAA
18983083 GAAATTTTGAT
1 GAAATTTTGAT
18983094 GAAATTTTGAT
1 GAAATTTTGAT
18983105 GAAATT
1 GAAATT
18983111 ATCAATTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (11 bp):
GAAATTTTGAT
Found at i:18995861 original size:38 final size:35
Alignment explanation
Indices: 18995785--18995862 Score: 86
Period size: 38 Copynumber: 2.1 Consensus size: 35
18995775 TTACTGTTGT
* *
18995785 TACTACTATGTTACTAATTGCATGTTCAACATGCC
1 TACTACTATGTTACTAATTGCATGATCAACATGAC
*
18995820 TACTACTATTGTTAAACTGATTGCATGAT-AAGCATGAC
1 TACTACTA-TGTT--ACTAATTGCATGATCAA-CATGAC
18995858 TACTA
1 TACTA
18995863 TTTCTATATT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
35 8 0.22
36 4 0.11
37 2 0.06
38 22 0.61
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (35 bp):
TACTACTATGTTACTAATTGCATGATCAACATGAC
Found at i:19016100 original size:64 final size:64
Alignment explanation
Indices: 19015994--19016141 Score: 206
Period size: 64 Copynumber: 2.3 Consensus size: 64
19015984 CGCTGTGTCC
* * * * *
19015994 AAGCCACTCAACATTGCAGTCAAGCTGCATCATTGTGGTCAAGCCACTCAATAATGTTGTGGCA
1 AAGCTACTCAATATTGCAGTCAAGCTACATCATTGTAGTCAAGCCACTCAATAAAGTTGTGGCA
* * * **
19016058 AAGCTACTCAATATCGCAGTCAAGGTACATCGTTGTAGTCAAGCCACTCAATAAAGTTGTGGTT
1 AAGCTACTCAATATTGCAGTCAAGCTACATCATTGTAGTCAAGCCACTCAATAAAGTTGTGGCA
19016122 AAGCTACTCAATATTGCAGT
1 AAGCTACTCAATATTGCAGT
19016142 AAAACTGCCA
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 73 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (64 bp):
AAGCTACTCAATATTGCAGTCAAGCTACATCATTGTAGTCAAGCCACTCAATAAAGTTGTGGCA
Found at i:19016125 original size:24 final size:24
Alignment explanation
Indices: 19016089--19016134 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
19016079 AAGGTACATC
19016089 GTTGTAGTCAAGCCACTCAATAAA
1 GTTGTAGTCAAGCCACTCAATAAA
* * *
19016113 GTTGTGGTTAAGCTACTCAATA
1 GTTGTAGTCAAGCCACTCAATA
19016135 TTGCAGTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (24 bp):
GTTGTAGTCAAGCCACTCAATAAA
Found at i:19016334 original size:42 final size:42
Alignment explanation
Indices: 19016225--19016336 Score: 134
Period size: 42 Copynumber: 2.7 Consensus size: 42
19016215 TTTCAATAGG
* * * *
19016225 CATGCTTAACATGCGAATCGAATCTAAGAAAAACATAGTCGG
1 CATGCTTAACATGCAAATCAAATCTCAGAAAAACATAGTCGA
* *** * *
19016267 CATGTTTAACATGCAAATCAAATCTCAGTTTATCATAGTTGA
1 CATGCTTAACATGCAAATCAAATCTCAGAAAAACATAGTCGA
19016309 CATGCTTAACATGCAAATCAAATCTCAG
1 CATGCTTAACATGCAAATCAAATCTCAG
19016337 CTAATAAATC
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (42 bp):
CATGCTTAACATGCAAATCAAATCTCAGAAAAACATAGTCGA
Found at i:19022808 original size:15 final size:16
Alignment explanation
Indices: 19022761--19022812 Score: 70
Period size: 17 Copynumber: 3.2 Consensus size: 16
19022751 TGTAAAATTT
*
19022761 TAGACTTTGAAAACTA
1 TAGACTGTGAAAACTA
19022777 TAGAACTGTGAAAACTA
1 TAG-ACTGTGAAAACTA
*
19022794 TAGATTGTG-AAACTA
1 TAGACTGTGAAAACTA
19022809 TAGA
1 TAGA
19022813 AAACATTAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
15 10 0.30
16 8 0.24
17 15 0.45
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (16 bp):
TAGACTGTGAAAACTA
Found at i:19034461 original size:19 final size:19
Alignment explanation
Indices: 19034437--19034477 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
19034427 ATCTCATTTC
19034437 ATTCA-TTGCATTTAGATTA
1 ATTCATTTGCATTTA-ATTA
19034456 ATTCATTTGCATTTAATTA
1 ATTCATTTGCATTTAATTA
19034475 ATT
1 ATT
19034478 TACTGTAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (19 bp):
ATTCATTTGCATTTAATTA
Found at i:19039054 original size:15 final size:15
Alignment explanation
Indices: 19039031--19039072 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
19039021 TGAAATAAAT
*
19039031 TGATCAAATGTTGAA
1 TGATCAAATGATGAA
* *
19039046 TGATAAAATGATGTA
1 TGATCAAATGATGAA
19039061 TGATCAAATGAT
1 TGATCAAATGAT
19039073 AAGAAGTATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.33
Consensus pattern (15 bp):
TGATCAAATGATGAA
Found at i:19041134 original size:19 final size:19
Alignment explanation
Indices: 19041110--19041150 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
19041100 ATCTCATTTT
19041110 ATTCA-TTGCATTTAGATTA
1 ATTCATTTGCATTTA-ATTA
19041129 ATTCATTTGCATTTAATTA
1 ATTCATTTGCATTTAATTA
19041148 ATT
1 ATT
19041151 TACTGTAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (19 bp):
ATTCATTTGCATTTAATTA
Found at i:19044508 original size:12 final size:13
Alignment explanation
Indices: 19044485--19044514 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
19044475 TAAGTGTTGC
19044485 TTTCTTTGTTTTT
1 TTTCTTTGTTTTT
19044498 TTTCTTT-TTTTT
1 TTTCTTTGTTTTT
19044510 TTTCT
1 TTTCT
19044515 GTTGAAGGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (13 bp):
TTTCTTTGTTTTT
Found at i:19048244 original size:50 final size:51
Alignment explanation
Indices: 19048186--19048312 Score: 148
Period size: 51 Copynumber: 2.5 Consensus size: 51
19048176 ATGGTCACGC
* *
19048186 GTGTAGTACTATGTGTAGGCTACTACATGTACCGGA-ACGAAAGGTCGCAT
1 GTGTAGTACTATGTGCAGGCTACTACATGTACCGGATACGAAAGGTCACAT
* * ** ** * **
19048236 GTGTAGTACAATGTGCAGGCTACTACGTGTATTGGATATTAATGGTCATGT
1 GTGTAGTACTATGTGCAGGCTACTACATGTACCGGATACGAAAGGTCACAT
19048287 GTGTAGTACTATGTGCAGGCTACTAC
1 GTGTAGTACTATGTGCAGGCTACTAC
19048313 GTGAACCAGA
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
50 31 0.48
51 33 0.52
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (51 bp):
GTGTAGTACTATGTGCAGGCTACTACATGTACCGGATACGAAAGGTCACAT
Found at i:19048301 original size:51 final size:50
Alignment explanation
Indices: 19048176--19048367 Score: 186
Period size: 50 Copynumber: 3.8 Consensus size: 50
19048166 AGTGAAAGTG
* * *
19048176 ATGGTCACGCGTGTAGTACTATGTGTAGGCTACTACATGTACCGGAACGA
1 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAACGA
* * * * ** **
19048226 AAGGTCGCATGTGTAGTACAATGTGCAGGCTACTACGTGTATTGGATATTA
1 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-ACGA
* * * * *
19048277 ATGGTCATGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGT
1 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAACGA
* * * * *
19048327 TTGATCACGTATGTAGTACTGTGTGAAGGCTACTACGTGTA
1 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA
19048368 TCGAATGATA
Statistics
Matches: 111, Mismatches: 30, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
50 72 0.65
51 39 0.35
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (50 bp):
ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAACGA
Found at i:19049623 original size:33 final size:33
Alignment explanation
Indices: 19049581--19049646 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
19049571 CATTTTGGTA
* *
19049581 CATAGATAATGCTGGGTGATAATCATGCTTTGT
1 CATAGATAATGATGGATGATAATCATGCTTTGT
19049614 CATAGATAATGATGGATGATAATCATGCTTTGT
1 CATAGATAATGATGGATGATAATCATGCTTTGT
19049647 GAAATATCTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (33 bp):
CATAGATAATGATGGATGATAATCATGCTTTGT
Found at i:19064475 original size:480 final size:480
Alignment explanation
Indices: 19063574--19064525 Score: 1559
Period size: 480 Copynumber: 2.0 Consensus size: 480
19063564 CATCTAACAT
*
19063574 AGTTATTAGTTGATCAGAATTAGCTGGTTCAGAAGTTACCTTGTCAGATTTTACAAATTCAATTT
1 AGTTATTAGTTGATCAGAATTAGCTGGTTCAAAAGTTACCTTGTCAGATTTTACAAATTCAATTT
** *
19063639 ATGGTGAAATAGGAATTTCAACACTCGGTTGAACTTCCTCTGATTCTTGAGCATCAGCTAGCTCC
66 ACAGTGAAATAGGAATTTCAACACTCGATTGAACTTCCTCTGATTCTTGAGCATCAGCTAGCTCC
* * *
19063704 TTCTCAACTTTGATGGAATTGGGATCTAAATTTTTTCCGCTCCTCAATGTTAACGCTTTACAATG
131 TTCTCAACTTTGATGGAATTGGGATCTAAAGTCTTTCCGCTCCTCAATGTTAACGCTTTACAATA
* * *
19063769 CTCCTTCCCTGGATTCCTCAAATTCTCCGTATCACTAGGTAAAGCACATTGTGGTCAGTTTCTGA
196 CTCCTTCCCTAGATTCCTCAAATTCTCCATATCACTAGGTAAAGCACATTGTGGTCAGTTTCTAA
* * *
19063834 GTTCAGTTGCAAGTTGGCCCACTTAATTCTCCAATTTCCTTAGATAAGTATCATTTCTCACCATG
261 GTTCAGTTGCAAGCTGGCCCACTTAATTCTCCAAATTCCTTAGAGAAGTATCATTTCTCACCATG
* * *
19063899 TATTCCTTCAATAGATTCTCTAGGCTATTGTATGGTTCAGCTTGGGTTGGTTTTTGAGCTTGTTG
326 TATTCCTTCAACAGATTCTCTAGGCTATTGGATGGTTCAGCTTGGGTTGGTTTCTGAGCTTGTTG
* * * *
19063964 GGAAAAACTAGGTGGCTAGGTCGATCTAGGTTGGACTTAATTGTTACTGTTTCCTACGGTTAGTC
391 GGAAAAACTAGGTGGCTAGGTCAATCTAGGTTGGACATAATTGTTACTGGTTCCTACGGTTACTC
*
19064029 TAGGAAAAATTTGGGTGTTTAACGC
456 TAGGAAAAATTCGGGTGTTTAACGC
* *
19064054 AGTTATTAGTTGATCAGAATTAGCTGGTTCAAAAGTTACCTTGTCAGATTTTATAGATTCAATTT
1 AGTTATTAGTTGATCAGAATTAGCTGGTTCAAAAGTTACCTTGTCAGATTTTACAAATTCAATTT
* * * *
19064119 CCAGTGTAACTA-GAATTTCAACACTCGATTGAACTTCCTCTTATTCTTGAGCGTCAGCTAGCTC
66 ACAGTG-AAATAGGAATTTCAACACTCGATTGAACTTCCTCTGATTCTTGAGCATCAGCTAGCTC
* *
19064183 CTTCTCAACTTTGATGGAATTGGGCTCTAAAGTCTTTCTGCTCCTCAATGTTAACGCTTTACAAT
130 CTTCTCAACTTTGATGGAATTGGGATCTAAAGTCTTTCCGCTCCTCAATGTTAACGCTTTACAAT
*
19064248 ACTCCTTCCCTAGATTCCTCAAATTCTCCATATCACTAGGTAAAGCACCTTGTGGTCAGTTTCTA
195 ACTCCTTCCCTAGATTCCTCAAATTCTCCATATCACTAGGTAAAGCACATTGTGGTCAGTTTCTA
* *
19064313 AGTTCAGTTGCATGCTGGCCCACTTGATTCTCCAAATTCCTTAGAGAAGTATCATTTCT-AGCCA
260 AGTTCAGTTGCAAGCTGGCCCACTTAATTCTCCAAATTCCTTAGAGAAGTATCATTTCTCA-CCA
19064377 TGT-TTGCCTTCAACAGATTCTCTAGGCTATTGGATGGTTCAGCTTGGGTTGGTTTCTGAGCTTG
324 TGTATT-CCTTCAACAGATTCTCTAGGCTATTGGATGGTTCAGCTTGGGTTGGTTTCTGAGCTTG
*
19064441 TTGGGAAAAACTAGGTGGCTAGGTCAATCTAGGTTGGACATAATTGTTACTGGTTCCTGCGGTTA
388 TTGGGAAAAACTAGGTGGCTAGGTCAATCTAGGTTGGACATAATTGTTACTGGTTCCTACGGTTA
19064506 CTCTAGGAAAAATTCGGGTG
453 CTCTAGGAAAAATTCGGGTG
19064526 GTTTCGCCAT
Statistics
Matches: 436, Mismatches: 33, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
479 3 0.01
480 429 0.98
481 4 0.01
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (480 bp):
AGTTATTAGTTGATCAGAATTAGCTGGTTCAAAAGTTACCTTGTCAGATTTTACAAATTCAATTT
ACAGTGAAATAGGAATTTCAACACTCGATTGAACTTCCTCTGATTCTTGAGCATCAGCTAGCTCC
TTCTCAACTTTGATGGAATTGGGATCTAAAGTCTTTCCGCTCCTCAATGTTAACGCTTTACAATA
CTCCTTCCCTAGATTCCTCAAATTCTCCATATCACTAGGTAAAGCACATTGTGGTCAGTTTCTAA
GTTCAGTTGCAAGCTGGCCCACTTAATTCTCCAAATTCCTTAGAGAAGTATCATTTCTCACCATG
TATTCCTTCAACAGATTCTCTAGGCTATTGGATGGTTCAGCTTGGGTTGGTTTCTGAGCTTGTTG
GGAAAAACTAGGTGGCTAGGTCAATCTAGGTTGGACATAATTGTTACTGGTTCCTACGGTTACTC
TAGGAAAAATTCGGGTGTTTAACGC
Found at i:19070917 original size:25 final size:25
Alignment explanation
Indices: 19070866--19070918 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
19070856 AAAATATGAT
* *
19070866 TTTTTGATTAATTTGAATAGAATTA
1 TTTTTGAATAATTTGAATAGAAATA
* **
19070891 TTTTTGAATGATTTGAATTTAAATA
1 TTTTTGAATAATTTGAATAGAAATA
19070916 TTT
1 TTT
19070919 AGATCAAGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (25 bp):
TTTTTGAATAATTTGAATAGAAATA
Done.