Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 134 of 345
Found at i:45382604 original size:13 final size:13
Alignment explanation
Indices: 45382586--45382617 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
45382576 GGCACATGGG
45382586 CGTGTGCCCAGGC
1 CGTGTGCCCAGGC
45382599 CGTGTGCCCAGGC
1 CGTGTGCCCAGGC
45382612 CGTGTG
1 CGTGTG
45382618 GTTCCTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.06, C:0.34, G:0.41, T:0.19
Consensus pattern (13 bp):
CGTGTGCCCAGGC
Found at i:45383021 original size:21 final size:20
Alignment explanation
Indices: 45382981--45383024 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
45382971 CCCCTGTAAC
*
45382981 TTTGAAAAGTTTCAATGTTT
1 TTTGAAAAATTTCAATGTTT
45383001 TTTGAAAAATTCTCTAA-GTTT
1 TTTGAAAAATT-TC-AATGTTT
45383022 TTT
1 TTT
45383025 ATTTAGTCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 10 0.48
21 9 0.43
22 2 0.10
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (20 bp):
TTTGAAAAATTTCAATGTTT
Found at i:45387881 original size:46 final size:44
Alignment explanation
Indices: 45387701--45387915 Score: 157
Period size: 46 Copynumber: 4.7 Consensus size: 44
45387691 AGGTATGTGC
* * * *
45387701 GCCAGTGTTAGACATGTCTGGGACATGCATCGGCCAC-ATAATGAGA
1 GCCAGTGTCAGACATGTCTGGGACATGCATCGGCCTCGA-GAT--GT
* * * * * *
45387747 GCCAGTGTAAGACCATGTCAGGGACAAGGCATCAGCATTGACACGA-GT
1 GCCAGTGTCAGA-CATGTCTGGGAC-ATGCATCGGCCTCG--A-GATGT
* *
45387795 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTT
1 GCCAGTGTCAGACATGTCTGGGACATGCATCGGCCTCGAGATG-T
* *
45387840 AGCCAGTGTCAGACATGTCTAGGACATGCGTCGG-CTACGAGATGT
1 -GCCAGTGTCAGACATGTCTGGGACATGCATCGGCCT-CGAGATGT
* * *
45387885 GCTAGTGACATACATGTCTGGGACATGCATC
1 GCCAGTGTCAGACATGTCTGGGACATGCATC
45387916 AGCATGGTTA
Statistics
Matches: 135, Mismatches: 25, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
43 2 0.01
44 28 0.21
45 4 0.03
46 57 0.42
47 22 0.16
48 20 0.15
51 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (44 bp):
GCCAGTGTCAGACATGTCTGGGACATGCATCGGCCTCGAGATGT
Found at i:45388546 original size:16 final size:16
Alignment explanation
Indices: 45388534--45388569 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
45388524 TACCTAATGG
45388534 GAATGAAACCTAAGAC
1 GAATGAAACCTAAGAC
45388550 GAATGAAACCTAAGAC
1 GAATGAAACCTAAGAC
45388566 GAAT
1 GAAT
45388570 CTTGTTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.17, G:0.19, T:0.14
Consensus pattern (16 bp):
GAATGAAACCTAAGAC
Found at i:45397569 original size:28 final size:28
Alignment explanation
Indices: 45397529--45397635 Score: 169
Period size: 28 Copynumber: 3.8 Consensus size: 28
45397519 GAATCATTCG
* * *
45397529 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGTACACTAAGTGCCATTCTCA
*
45397557 ATATCTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGTACACTAAGTGCCATTCTCA
45397585 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGTACACTAAGTGCCATTCTCA
*
45397613 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGTACACTAAGTGCCAT
45397636 ATTTGATTGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (28 bp):
ATATTTCGTACACTAAGTGCCATTCTCA
Found at i:45402316 original size:19 final size:19
Alignment explanation
Indices: 45402289--45402326 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
45402279 GAATAGGGAT
45402289 TAAGAAATTACTCCAAGGA
1 TAAGAAATTACTCCAAGGA
* *
45402308 TAAGGAATTACTCCGAGGA
1 TAAGAAATTACTCCAAGGA
45402327 AGCCGATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (19 bp):
TAAGAAATTACTCCAAGGA
Found at i:45412424 original size:23 final size:23
Alignment explanation
Indices: 45412398--45412495 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
45412388 ATAAGTGCCA
45412398 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
45412421 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
45412444 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
45412466 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
45412489 CACTGAT
1 CACTGAT
45412496 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:45412463 original size:45 final size:45
Alignment explanation
Indices: 45412405--45412493 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
45412395 CCACACTGAT
* *
45412405 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
45412450 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
45412494 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:45416900 original size:46 final size:46
Alignment explanation
Indices: 45416850--45417022 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
45416840 TGGTTGAGCA
45416850 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
45416896 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
45416941 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
45416989 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
45417023 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:45417006 original size:93 final size:93
Alignment explanation
Indices: 45416847--45417017 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
45416837 GGATGGTTGA
* *
45416847 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
45416912 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
45416940 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
45417005 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
45417018 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:45424412 original size:46 final size:44
Alignment explanation
Indices: 45424361--45424531 Score: 220
Period size: 46 Copynumber: 3.8 Consensus size: 44
45424351 ATGGTTGAGC
45424361 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * * *
45424405 ATGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGA
45424453 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* *
45424497 ACCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
45424532 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 36 0.33
45 2 0.02
46 64 0.59
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:45437635 original size:25 final size:25
Alignment explanation
Indices: 45437609--45437657 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
45437599 ACCGTGAATC
*
45437609 GGGGAATCAGCACTTAGCAACCCTCG
1 GGGGAATCA-CACATAGCAACCCTCG
45437635 GGGGAATCACACATAGCAACCCT
1 GGGGAATCACACATAGCAACCCT
45437658 TTCACATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.31, C:0.31, G:0.24, T:0.14
Consensus pattern (25 bp):
GGGGAATCACACATAGCAACCCTCG
Found at i:45437748 original size:100 final size:102
Alignment explanation
Indices: 45437575--45437823 Score: 352
Period size: 100 Copynumber: 2.5 Consensus size: 102
45437565 TAACCGTTAT
* * *
45437575 TGGTGGATCTCGCACTTAGCAACCACC-GTGAATCGGGGAATCAGCACTTAGCAACCCTCGGGGG
1 TGGTGGATATCGCACTTAGC-ACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCTCGGGGG
45437639 AATCACACATAGCAA-CCC-TTTCACATTTCAAAGATA
65 AATCACACATAGCAACCCCTTTTCACATTTCAAAGATA
45437675 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGC-ACCCTCGGGGGA
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCTCGGGGG-
45437739 AAT-AGCACATAGCAACCCCTTTTCACATTTCAAAGATA
65 AATCA-CACATAGCAACCCCTTTTCACATTTCAAAGATA
*
45437777 TGGTGGATCA-CGCACATAGCA-CACCAATGAAACTCGGGG-ATCAGCAC
1 TGGTGGAT-ATCGCACTTAGCACCACCAATG-AAC-CGGGGAATCAGCAC
45437824 ACGCAACCCC
Statistics
Matches: 137, Mismatches: 4, Indels: 14
0.88 0.03 0.09
Matches are distributed among these distances:
99 18 0.13
100 55 0.40
101 11 0.08
102 47 0.34
103 6 0.04
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.20
Consensus pattern (102 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCTCGGGGGA
ATCACACATAGCAACCCCTTTTCACATTTCAAAGATA
Found at i:45448007 original size:27 final size:26
Alignment explanation
Indices: 45447977--45448538 Score: 502
Period size: 27 Copynumber: 21.1 Consensus size: 26
45447967 AGTACTCCCA
45447977 ATTTACAGAATTATCGTTTTACCCTCG
1 ATTTACAGAATTA-CGTTTTACCCTCG
*
45448004 ATTTATAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTA-CGTTTTACCCTCG
** * *
45448031 ATTTTTAAAATTACTGTTTTACCCTTG
1 ATTTACAGAATTAC-GTTTTACCCTCG
45448058 ATTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTA-CGTTTTACCCTCG
** *
45448085 ATTTGTAAAATTACCGTTTTACCCTCG
1 ATTTACAGAATTA-CGTTTTACCCTCG
*
45448112 ATTTACAGAATTACCATTTTACCCTCG
1 ATTTACAGAATTA-CGTTTTACCCTCG
45448139 ATTTACAGAATTACCGTTTTACCCTC-
1 ATTTACAGAATTA-CGTTTTACCCTCG
* *
45448165 AGTTTATAGAATTACTGTTTTACCCTTG
1 A-TTTACAGAATTAC-GTTTTACCCTCG
*
45448193 ATTTATAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTA-CGTTTTACCCTCG
** * * *
45448220 ATTTGTAAAATTACTATTTTACCCTTG
1 ATTTACAGAATTAC-GTTTTACCCTCG
45448247 ATTTACAGAATTATCGTTTTACCCTC-
1 ATTTACAGAATTA-CGTTTTACCCTCG
*
45448273 AGTTTACAGAATTACTATTTTACCCTCG
1 A-TTTACAGAATTAC-GTTTTACCCTCG
*
45448301 ATTTATAGAATTATCGTTTTACCCTCG
1 ATTTACAGAATTA-CGTTTTACCCTCG
** * *
45448328 ATTTGTAAAATTACTATTTTACCCTCG
1 ATTTACAGAATTAC-GTTTTACCCTCG
45448355 ATTTACAGAATTACCGTTTTACCCTC-
1 ATTTACAGAATTA-CGTTTTACCCTCG
45448381 AGTTTACAGAATTACTGTTTTA-CCT--
1 A-TTTACAGAATTAC-GTTTTACCCTCG
* **
45448406 -TATA-A-AATTACCATTTACCCTCG
1 ATTTACAGAATTACGTTTTACCCTCG
** * *
45448429 ATTTGTAAAATTACTGTTTTACCCTTG
1 ATTTACAGAATTAC-GTTTTACCCTCG
*
45448456 ATTTATAGAATTAC-TAGTTTACCCTC-
1 ATTTACAGAATTACGT--TTTACCCTCG
*
45448482 AGTTTACAAAATATTA--TTTTACCCTCG
1 A-TTTAC-AGA-ATTACGTTTTACCCTCG
*
45448509 ATTTACAGAATTACCGTTTTACCCTTG
1 ATTTACAGAATTA-CGTTTTACCCTCG
45448536 ATT
1 ATT
45448539 GTGAAATTAC
Statistics
Matches: 449, Mismatches: 54, Indels: 64
0.79 0.10 0.11
Matches are distributed among these distances:
20 4 0.01
21 9 0.02
22 1 0.00
23 3 0.01
24 6 0.01
25 4 0.01
26 33 0.07
27 375 0.84
28 10 0.02
29 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (26 bp):
ATTTACAGAATTACGTTTTACCCTCG
Found at i:45448016 original size:54 final size:54
Alignment explanation
Indices: 45447977--45448538 Score: 574
Period size: 54 Copynumber: 10.6 Consensus size: 54
45447967 AGTACTCCCA
* *
45447977 ATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCG
** * * * * *
45448031 ATTTTTAAAATTACTGTTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCG
** * *
45448085 ATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCG
** *
45448139 ATTTACAGAATTACCGTTTTACCCTC-AGTTTATAGAATTACTGTTTTACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCGA-TTTATAGAATTACCATTTTACCCTCG
* * * * *
45448193 ATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACTATTTTACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCG
* * *
45448247 ATTTACAGAATTATCGTTTTACCCTC-AGTTTACAGAATTACTATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCGA-TTTATAGAATTACCATTTTACCCTCG
* * * * *
45448301 ATTTATAGAATTATCGTTTTACCCTCGATTTGTAAAATTACTATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCG
* **
45448355 ATTTACAGAATTACCGTTTTACCCTC-AGTTTACAGAATTACTGTTTTA-CCT--
1 ATTTACAGAATTACCGTTTTACCCTCGA-TTTATAGAATTACCATTTTACCCTCG
* * * * ** *
45448406 -TATA-A-AATTACC-ATTTACCCTCGATTTGTAAAATTACTGTTTTACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCG
* * * * **
45448456 ATTTATAGAATTACTAG-TTTACCCTC-AGTTTACA-AAATATTATTTTACCCTCG
1 ATTTACAGAATTAC-CGTTTTACCCTCGA-TTTATAGAATTACCATTTTACCCTCG
*
45448509 ATTTACAGAATTACCGTTTTACCCTTGATT
1 ATTTACAGAATTACCGTTTTACCCTCGATT
45448539 GTGAAATTAC
Statistics
Matches: 437, Mismatches: 54, Indels: 35
0.83 0.10 0.07
Matches are distributed among these distances:
47 26 0.06
48 11 0.03
49 1 0.00
50 3 0.01
51 3 0.01
52 2 0.00
53 51 0.12
54 338 0.77
55 2 0.00
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (54 bp):
ATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCG
Found at i:45448122 original size:108 final size:108
Alignment explanation
Indices: 45447977--45448550 Score: 722
Period size: 108 Copynumber: 5.4 Consensus size: 108
45447967 AGTACTCCCA
* * * * ** ** *
45447977 ATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTTTAAAAT
1 ATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACTATTTTACCCTCGATTTACAGAAT
* *
45448042 TACTGTTTTACCCT-TGATTTACAGAATTACCGTTTTACCCTCG
66 TACTGTTTTACCCTCAG-TTTACAGAATTACTGTTTTACCCTCG
* * ** * *
45448085 ATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAAT
1 ATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACTATTTTACCCTCGATTTACAGAAT
* * *
45448150 TACCGTTTTACCCTCAGTTTATAGAATTACTGTTTTACCCTTG
66 TACTGTTTTACCCTCAGTTTACAGAATTACTGTTTTACCCTCG
*
45448193 ATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACTATTTTACCCTTGATTTACAGAAT
1 ATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACTATTTTACCCTCGATTTACAGAAT
*
45448258 TA-TCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCG
66 TACT-GTTTTACCCTCAGTTTACAGAATTACTGTTTTACCCTCG
*
45448301 ATTTATAGAATTATCGTTTTACCCTCGATTTGTAAAATTACTATTTTACCCTCGATTTACAGAAT
1 ATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACTATTTTACCCTCGATTTACAGAAT
*
45448366 TACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTA--C-C-
66 TACTGTTTTACCCTCAGTTTACAGAATTACTGTTTTACCCTCG
* * * * *
45448405 --TTATAAAATTACC-ATTTACCCTCGATTTGTAAAATTACTGTTTTACCCTTGATTTATAGAAT
1 ATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACTATTTTACCCTCGATTTACAGAAT
* * *
45448467 TACTAG-TTTACCCTCAGTTTACA-AAATATTATTTTACCCTCG
66 TACT-GTTTTACCCTCAGTTTACAGAATTACTGTTTTACCCTCG
* * *
45448509 ATTTACAGAATTACCGTTTTACCCTTGA-TTGTGAAATTACTA
1 ATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACTA
45448551 AAATACCCCT
Statistics
Matches: 410, Mismatches: 45, Indels: 24
0.86 0.09 0.05
Matches are distributed among these distances:
100 10 0.02
101 65 0.16
102 13 0.03
103 1 0.00
105 1 0.00
106 24 0.06
107 10 0.02
108 285 0.70
109 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (108 bp):
ATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACTATTTTACCCTCGATTTACAGAAT
TACTGTTTTACCCTCAGTTTACAGAATTACTGTTTTACCCTCG
Found at i:45448573 original size:27 final size:27
Alignment explanation
Indices: 45448543--45448737 Score: 214
Period size: 27 Copynumber: 7.2 Consensus size: 27
45448533 TTGATTGTGA
*
45448543 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
** *
45448570 AATTTTTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
45448597 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
45448624 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
45448651 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
45448678 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
45448705 AATTAC-CAAGATACCCTTGTGGGGTAA
1 AATTACTGAA-ATACCCCTGTAGGGTAG
45448732 AATTAC
1 AATTAC
45448738 CATTTTGCCC
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
26 2 0.01
27 139 0.99
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:45448611 original size:54 final size:54
Alignment explanation
Indices: 45448543--45448738 Score: 243
Period size: 54 Copynumber: 3.6 Consensus size: 54
45448533 TTGATTGTGA
* * *** *
45448543 AATTACTAAAATACCCCTGTAGGGTAGAATTTTTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
45448597 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
*
45448651 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
45448705 AATTAC-CAAGATACCCTTGTGGGGTAAAATTACC
1 AATTACTGAA-ATACCCTTGTAGGGTAGAATTACC
45448739 ATTTTGCCCC
Statistics
Matches: 122, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
53 3 0.02
54 119 0.98
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:45448644 original size:81 final size:81
Alignment explanation
Indices: 45448543--45448736 Score: 262
Period size: 81 Copynumber: 2.4 Consensus size: 81
45448533 TTGATTGTGA
* * * * *
45448543 AATTACTAAAATACCCCTGTAGGGTAGAATTTTTGAAATACCCCTATAGGGTAGAATTACTGAAA
1 AATTACCAAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAA
*
45448608 TACCCTTATAGGATAG
66 TACCCCTATAGGATAG
* *
45448624 AATTACCAAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATACCGAAA
1 AATTACCAAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAA
* *
45448689 TACCCCTGTAGGGTAG
66 TACCCCTATAGGATAG
* * * *
45448705 AATTACCAAGATACCCTTGTGGGGTAAAATTA
1 AATTACCAAAATACCCCTGTAGGGTAGAATTA
45448737 CCATTTTGCC
Statistics
Matches: 99, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 99 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.27
Consensus pattern (81 bp):
AATTACCAAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAA
TACCCCTATAGGATAG
Found at i:45448975 original size:27 final size:26
Alignment explanation
Indices: 45448937--45449019 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
45448927 CGGAGGAAGC
45448937 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
45448964 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * * *
45448990 GTATTTGGTGACTCTGTCATAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
45449017 GTT
1 GTT
45449020 GACCGATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 10 0.20
27 40 0.80
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:45449139 original size:22 final size:22
Alignment explanation
Indices: 45449107--45449165 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
45449097 CCCGTTATTA
*
45449107 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
45449129 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
45449151 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
45449166 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:45449376 original size:27 final size:26
Alignment explanation
Indices: 45449345--45449403 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
45449335 CATTATTTGA
*
45449345 TTCTGGTGGCTCTGCCAAAATATCTG
1 TTCTGGTGACTCTGCCAAAATATCTG
* **
45449371 TATCTGGTGACTCTGTCATGATATCTG
1 T-TCTGGTGACTCTGCCAAAATATCTG
45449398 TTCTGG
1 TTCTGG
45449404 CAGCCATGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (26 bp):
TTCTGGTGACTCTGCCAAAATATCTG
Found at i:45449530 original size:6 final size:6
Alignment explanation
Indices: 45449521--45449695 Score: 157
Period size: 6 Copynumber: 28.8 Consensus size: 6
45449511 TTGCATTCAC
* *
45449521 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* *
45449570 -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* *
45449618 ATTCTG -TTACCTA ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG
*
45449667 ATTTTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
45449696 CATTTTGGTT
Statistics
Matches: 139, Mismatches: 14, Indels: 32
0.75 0.08 0.17
Matches are distributed among these distances:
5 12 0.09
6 113 0.81
7 10 0.07
8 4 0.03
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:45449587 original size:24 final size:24
Alignment explanation
Indices: 45449555--45449695 Score: 178
Period size: 24 Copynumber: 5.8 Consensus size: 24
45449545 AATTCTGATT
**
45449555 CTGATTCTGATTCTG-TTACTAATA
1 CTGATTCTGATTCTGATT-CTGTTA
45449579 CTGATTCTGATTCTGATTCTGTTA
1 CTGATTCTGATTCTGATTCTGTTA
45449603 CTGATTCTGATTCTGATTCTGTTA
1 CTGATTCTGATTCTGATTCTGTTA
* **
45449627 CCTAATTCTGATTCTG-TTACTAATA
1 -CTGATTCTGATTCTGATT-CTGTTA
* *
45449652 TTGATTCTGATTCTGATTTTGTTA
1 CTGATTCTGATTCTGATTCTGTTA
45449676 CTGATTCTGATTCTGATTCT
1 CTGATTCTGATTCTGATTCT
45449696 CATTTTGGTT
Statistics
Matches: 101, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
24 79 0.78
25 22 0.22
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (24 bp):
CTGATTCTGATTCTGATTCTGTTA
Found at i:45449635 original size:73 final size:73
Alignment explanation
Indices: 45449558--45449695 Score: 258
Period size: 73 Copynumber: 1.9 Consensus size: 73
45449548 TCTGATTCTG
45449558 ATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCTGATTCT
1 ATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCTGATTCT
45449623 GTTACCTA
66 GTTACCTA
* *
45449631 ATTCTGATTCTGTTACTAATATTGATTCTGATTCTGATTTTGTTACTGATTCTGATTCTGATTCT
1 ATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCTGATTCT
45449696 CATTTTGGTT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 63 1.00
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (73 bp):
ATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCTGATTCT
GTTACCTA
Found at i:45449675 original size:30 final size:30
Alignment explanation
Indices: 45449588--45449716 Score: 106
Period size: 30 Copynumber: 4.3 Consensus size: 30
45449578 ACTGATTCTG
* *
45449588 ATTCTGATTCTG-TTACTGATTCTGATT-CTG
1 ATTCTGATTCTGATT-CTGATTTTG-TTACTA
* *
45449618 ATTCTG-TTACCTAATTCTGATTCTGTTACTA
1 ATTCTGATT--CTGATTCTGATTTTGTTACTA
*
45449649 ATAT-TGATTCTGATTCTGATTTTGTTACTG
1 AT-TCTGATTCTGATTCTGATTTTGTTACTA
* *
45449679 ATTCTGATTCTGATTCTCATTTTGGTT-CCA
1 ATTCTGATTCTGATTCTGATTTT-GTTACTA
45449709 ATTCTGAT
1 ATTCTGAT
45449717 AATGTTTCTT
Statistics
Matches: 83, Mismatches: 8, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
29 3 0.04
30 55 0.66
31 20 0.24
32 5 0.06
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.50
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGATTTTGTTACTA
Found at i:45456051 original size:15 final size:15
Alignment explanation
Indices: 45456040--45456068 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45456030 TAAAGAGAGT
45456040 GAGT-AAAAAGAGAA
1 GAGTGAAAAAGAGAA
45456054 GAGTGAAAAAGAGAA
1 GAGTGAAAAAGAGAA
45456069 AGAAAAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.07
Consensus pattern (15 bp):
GAGTGAAAAAGAGAA
Found at i:45456082 original size:24 final size:27
Alignment explanation
Indices: 45456045--45456099 Score: 73
Period size: 25 Copynumber: 2.1 Consensus size: 27
45456035 AGAGTGAGTA
45456045 AAAAGAGAAGAGTGA-AAAAGAGAAA-G
1 AAAAGAGAAGAGTGAGAAAA-AGAAAGG
45456071 AAAAGA-AA-AGTGAGAAAAAGAAAGG
1 AAAAGAGAAGAGTGAGAAAAAGAAAGG
45456096 AAAA
1 AAAA
45456100 CAAGTGATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 10 0.37
25 11 0.41
26 6 0.22
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.04
Consensus pattern (27 bp):
AAAAGAGAAGAGTGAGAAAAAGAAAGG
Found at i:45462510 original size:23 final size:20
Alignment explanation
Indices: 45462457--45462516 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 20
45462447 AATTATATGT
*
45462457 CGAATTAAATTTGTCCCAGC
1 CGAATTAAATTTGTCCTAGC
45462477 CGAATTAAATTTGTCCTAGC
1 CGAATTAAATTTGTCCTAGC
*
45462497 TGCTGAATTTAATTTGTCCT
1 --C-GAATTAAATTTGTCCT
45462517 TAAAATTAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
20 19 0.54
22 1 0.03
23 15 0.43
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (20 bp):
CGAATTAAATTTGTCCTAGC
Found at i:45472927 original size:34 final size:33
Alignment explanation
Indices: 45472889--45472952 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
45472879 TAGCAGTAAC
45472889 AGTCTGGGCCTGAGCCCATTTCAGTATCAGTGGT
1 AGTCTGGGCCTGAGCCCATTTCAGTA-CAGTGGT
* *
45472923 AGTCTGGGCCTTAGCCCATTTTAGTACAGT
1 AGTCTGGGCCTGAGCCCATTTCAGTACAGT
45472953 ATGCACACAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 4 0.14
34 24 0.86
ACGTcount: A:0.19, C:0.23, G:0.27, T:0.31
Consensus pattern (33 bp):
AGTCTGGGCCTGAGCCCATTTCAGTACAGTGGT
Found at i:45475270 original size:22 final size:21
Alignment explanation
Indices: 45475241--45475283 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
45475231 AATTATTAAC
45475241 ATAAAAATTTTAATTAATTTT
1 ATAAAAATTTTAATTAATTTT
*
45475262 ATAATAAATTTTGATTAATTTT
1 ATAA-AAATTTTAATTAATTTT
45475284 GATAGATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
ATAAAAATTTTAATTAATTTT
Found at i:45477879 original size:79 final size:78
Alignment explanation
Indices: 45477779--45478002 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
45477769 GCTCCTCGTT
* * *
45477779 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATTCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
45477844 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
45477859 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
45477923 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
45477937 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
45478001 GA
63 GA
45478003 CATCATTCAA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 36 0.29
79 55 0.44
80 34 0.27
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:45477896 original size:39 final size:40
Alignment explanation
Indices: 45477779--45478002 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
45477769 GCTCCTCGTT
* *
45477779 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
45477819 CAAATTCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
45477859 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
45477898 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
45477937 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
45477978 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
45478003 CATCATTCAA
Statistics
Matches: 164, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 74 0.45
40 75 0.46
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:45483196 original size:43 final size:44
Alignment explanation
Indices: 45483096--45483214 Score: 115
Period size: 42 Copynumber: 2.8 Consensus size: 44
45483086 ATTTGGGATA
* *
45483096 TTGGCATCGACT-TATGATTTACGTGTAAGACCACGTCTGGGACG
1 TTGGCATCGA-TATTTGATTTACGTGTAAGACCACGTCTAGGACG
* *
45483140 TTGGCGTCG-TATTTGATTT-CGTGTAAGATCC-TGTCTAGGACAG
1 TTGGCATCGATATTTGATTTACGTGTAAGA-CCACGTCTAGGAC-G
* *
45483183 -TGGCATCGATATTTGA-TCACATGTAAGACCAC
1 TTGGCATCGATATTTGATTTACGTGTAAGACCAC
45483215 TTTGGGACAT
Statistics
Matches: 61, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
42 28 0.46
43 25 0.41
44 8 0.13
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (44 bp):
TTGGCATCGATATTTGATTTACGTGTAAGACCACGTCTAGGACG
Found at i:45487122 original size:35 final size:33
Alignment explanation
Indices: 45487044--45487110 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
45487034 GCACGTTGAT
*
45487044 AAACTTTTATATGACTATATATATATGCGCATA
1 AAACTTTTATATGACTATATATATATGCACATA
45487077 AAACTTTTATATGACTATATATATATGCACATA
1 AAACTTTTATATGACTATATATATATGCACATA
45487110 A
1 A
45487111 TTTCACTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.39
Consensus pattern (33 bp):
AAACTTTTATATGACTATATATATATGCACATA
Found at i:45490544 original size:39 final size:40
Alignment explanation
Indices: 45490467--45490613 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
45490457 TAGCTCCTCG
* * *
45490467 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
45490507 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
45490546 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
45490586 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
45490614 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:45490624 original size:80 final size:80
Alignment explanation
Indices: 45490513--45490693 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
45490503 CTCATTCAAT
* * *
45490513 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
45490576 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
45490592 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
45490656 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
45490673 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
45490694 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:45490653 original size:40 final size:40
Alignment explanation
Indices: 45490510--45490693 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
45490500 TAACTCATTC
* *
45490510 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
45490550 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
45490590 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
45490630 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
45490671 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
45490694 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:45493949 original size:102 final size:102
Alignment explanation
Indices: 45493773--45493977 Score: 376
Period size: 102 Copynumber: 2.0 Consensus size: 102
45493763 GTCTATTCTG
*
45493773 ATCACAAAAGCCTGAAATACTTGATGACTCAAAAAGATTAGAATTTGAGACAATGTCGATGGTTA
1 ATCACAAAAGCCTGAAATACTTGATGACTCAAAAAGATTAGAATTTGAGACAAAGTCGATGGTTA
45493838 GAATTACTAAAAGACTACGAGCTTGTGATTGATTACC
66 GAATTACTAAAAGACTACGAGCTTGTGATTGATTACC
*
45493875 ATCACAAAAGCCTGAAATACTTGATGACTCAAAAAGATCT-GAATTTGAGACAAAGTGGATGGTT
1 ATCACAAAAGCCTGAAATACTTGATGACTCAAAAAGAT-TAGAATTTGAGACAAAGTCGATGGTT
45493939 AGAATTACTAAAAGACTACGAGCTTGTGATTGATTACC
65 AGAATTACTAAAAGACTACGAGCTTGTGATTGATTACC
45493977 A
1 A
45493978 CCTAGGAAAG
Statistics
Matches: 100, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
102 99 0.99
103 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (102 bp):
ATCACAAAAGCCTGAAATACTTGATGACTCAAAAAGATTAGAATTTGAGACAAAGTCGATGGTTA
GAATTACTAAAAGACTACGAGCTTGTGATTGATTACC
Found at i:45495736 original size:34 final size:34
Alignment explanation
Indices: 45495693--45495762 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
45495683 ACTTAATCGC
45495693 GTAAATAGAAAATTTGATAGTTTAAAGTATAAAG
1 GTAAATAGAAAATTTGATAGTTTAAAGTATAAAG
45495727 GTAAATAGAAAATTTGATAGTTTAAAGTATAAAG
1 GTAAATAGAAAATTTGATAGTTTAAAGTATAAAG
45495761 GT
1 GT
45495763 CAAAAAGTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.49, C:0.00, G:0.19, T:0.33
Consensus pattern (34 bp):
GTAAATAGAAAATTTGATAGTTTAAAGTATAAAG
Found at i:45500446 original size:44 final size:44
Alignment explanation
Indices: 45500394--45500481 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
45500384 GTGACTGTTT
45500394 ATACAGACCGCTCGACGATTAAGTATTTACTTGCCAAGAAAGAC
1 ATACAGACCGCTCGACGATTAAGTATTTACTTGCCAAGAAAGAC
45500438 ATACAGACCGCTCGACGATTAAGTATTTACTTGCCAAGAAAGAC
1 ATACAGACCGCTCGACGATTAAGTATTTACTTGCCAAGAAAGAC
45500482 GCTAAGTCGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (44 bp):
ATACAGACCGCTCGACGATTAAGTATTTACTTGCCAAGAAAGAC
Found at i:45503094 original size:25 final size:27
Alignment explanation
Indices: 45503035--45503095 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
45503025 AAATTTTCTC
*
45503035 TTAA-ATTTTAAATTTTATTTAATCAT
1 TTAATATTTTAAATTTTATTGAATCAT
* *
45503061 TTAAT-TTTTCAA-TTTATTGAATTA-
1 TTAATATTTTAAATTTTATTGAATCAT
45503085 TTAATATTTTA
1 TTAATATTTTA
45503096 TATTAAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
24 5 0.17
25 14 0.48
26 10 0.34
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (27 bp):
TTAATATTTTAAATTTTATTGAATCAT
Found at i:45505911 original size:22 final size:22
Alignment explanation
Indices: 45505886--45505937 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
45505876 TTTCTACTTA
45505886 AATT-ATTAATATAATAAATTTC
1 AATTAATT-ATATAATAAATTTC
* *
45505908 AATTAATTTTATAATAAATTTT
1 AATTAATTATATAATAAATTTC
*
45505930 GATTAATT
1 AATTAATT
45505938 TTGATTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 23 0.88
23 3 0.12
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
AATTAATTATATAATAAATTTC
Found at i:45505938 original size:22 final size:22
Alignment explanation
Indices: 45505895--45505939 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
45505885 AAATTATTAA
45505895 TATAATAAATTTCAATTAATTT
1 TATAATAAATTTCAATTAATTT
**
45505917 TATAATAAATTTTGATTAATTT
1 TATAATAAATTTCAATTAATTT
45505939 T
1 T
45505940 GATTATTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
TATAATAAATTTCAATTAATTT
Found at i:45507518 original size:14 final size:14
Alignment explanation
Indices: 45507499--45507525 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45507489 AAATCTTAGT
45507499 TTTTAATCACCCTA
1 TTTTAATCACCCTA
45507513 TTTTAATCACCCT
1 TTTTAATCACCCT
45507526 CTTTAAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.30, G:0.00, T:0.44
Consensus pattern (14 bp):
TTTTAATCACCCTA
Found at i:45511300 original size:16 final size:16
Alignment explanation
Indices: 45511281--45511311 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45511271 CTTCTTCACT
45511281 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
45511297 TACTTACTTACTTAA
1 TACTCACTTACTTAA
45511312 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:45511317 original size:20 final size:20
Alignment explanation
Indices: 45511278--45511317 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
45511268 AAACTTCTTC
* *
45511278 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
45511298 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
45511318 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:45511691 original size:55 final size:53
Alignment explanation
Indices: 45511549--45511756 Score: 197
Period size: 55 Copynumber: 3.8 Consensus size: 53
45511539 ATCCTTTTGA
* * *
45511549 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTATG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGAGATCCTTGCCTTATG
* * * * *
45511602 AACTCACCAATGTCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGAGATCC-TTGCCTTAT-G
* ** *
45511656 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTTCCTTA-G
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGAGATCCTTGCCTTATG
* * *
45511709 AAACCTTACCAATTGCCATGCCTTGGCATGATCTTACATG-GTATCCTT
1 -AA-CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGAG-ATCCTT
45511757 AAACCCTAAT
Statistics
Matches: 124, Mismatches: 24, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
52 2 0.02
53 44 0.35
54 8 0.06
55 68 0.55
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (53 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGAGATCCTTGCCTTATG
Found at i:45514704 original size:20 final size:20
Alignment explanation
Indices: 45514671--45514711 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
45514661 TTAAATTCCA
45514671 ATTTTAACCCAAAA-TATTT
1 ATTTTAACCCAAAATTATTT
*
45514690 ATTTTTACCCAAAAATTATTT
1 ATTTTAACCC-AAAATTATTT
45514711 A
1 A
45514712 AAACCATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 4 0.21
21 6 0.32
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTTTAACCCAAAATTATTT
Found at i:45515519 original size:24 final size:24
Alignment explanation
Indices: 45515492--45515539 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
45515482 TTTACTGCAA
* *
45515492 TATTGAATGGCTTGGCCACAACGT
1 TATTGAATCGCTTGACCACAACGT
*
45515516 TATTGAGTCGCTTGACCACAACGT
1 TATTGAATCGCTTGACCACAACGT
45515540 GTAGCTTATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (24 bp):
TATTGAATCGCTTGACCACAACGT
Found at i:45518844 original size:27 final size:26
Alignment explanation
Indices: 45518810--45518981 Score: 173
Period size: 27 Copynumber: 6.4 Consensus size: 26
45518800 AAATGATAAT
45518810 TGACTGTTTTGCCCTTATGAGGTAAAA
1 TGACTGTTTTGCCCTTAT-AGGTAAAA
* *
45518837 TGATTGTTTTGCCCTTATGTGGTAAAA
1 TGACTGTTTTGCCCTTAT-AGGTAAAA
* * *
45518864 TGACTATTTTTCCCTTATAAAGTAAAA
1 TGACTGTTTTGCCCTTAT-AGGTAAAA
* *
45518891 TGTCTATTTTGCCCTTATATGGTAAAA
1 TGACTGTTTTGCCCTTATA-GGTAAAA
*
45518918 TGACTGTTTTTCCCTTATATGGTAAAA
1 TGACTGTTTTGCCCTTATA-GGTAAAA
* * * *
45518945 TGGCTGTTTTTCCCTTTTATGGTAAGA
1 TGACTGTTTTGCCCTTATA-GGTAAAA
*
45518972 TGACTATTTT
1 TGACTGTTTT
45518982 ACCCCTATGT
Statistics
Matches: 125, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 1 0.01
27 124 0.99
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.44
Consensus pattern (26 bp):
TGACTGTTTTGCCCTTATAGGTAAAA
Found at i:45518880 original size:54 final size:53
Alignment explanation
Indices: 45518810--45518990 Score: 202
Period size: 54 Copynumber: 3.4 Consensus size: 53
45518800 AAATGATAAT
* * *
45518810 TGACTGTTTTGCCCTTATGAGGTAAAATGATTGTTTTGCCCTTATGTGGTAAAA
1 TGACTATTTTTCCCTTATGAGGTAAAATG-TTGTTTTGCCCTTATATGGTAAAA
* * *
45518864 TGACTATTTTTCCCTTATAAAGTAAAATGTCTATTTTGCCCTTATATGGTAAAA
1 TGACTATTTTTCCCTTATGAGGTAAAATGT-TGTTTTGCCCTTATATGGTAAAA
* * * * *
45518918 TGACTGTTTTTCCCTTAT-ATGGTAAAATGGCTGTTTTTCCCTTTTATGGTAAGA
1 TGACTATTTTTCCCTTATGA-GGTAAAAT-GTTGTTTTGCCCTTATATGGTAAAA
* *
45518972 TGACTATTTTACCCCTATG
1 TGACTATTTTTCCCTTATG
45518991 TGATGTATGT
Statistics
Matches: 107, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
53 2 0.02
54 104 0.97
55 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.43
Consensus pattern (53 bp):
TGACTATTTTTCCCTTATGAGGTAAAATGTTGTTTTGCCCTTATATGGTAAAA
Found at i:45518979 original size:81 final size:81
Alignment explanation
Indices: 45518810--45518990 Score: 229
Period size: 81 Copynumber: 2.2 Consensus size: 81
45518800 AAATGATAAT
* * *
45518810 TGACTGTTTTGCCCTTATGAGGTAAAATGATTGTTTTGCCCTTATGTGGTAAAATGACTATTTTT
1 TGACTATTTTGCCCTTATGAGGTAAAATGACTGTTTTGCCCTTATATGGTAAAATGACTATTTTT
45518875 CCCTTATAAAGTAAAA
66 CCCTTATAAAGTAAAA
* * * *
45518891 TGTCTATTTTGCCCTTAT-ATGGTAAAATGACTGTTTTTCCCTTATATGGTAAAATGGCTGTTTT
1 TGACTATTTTGCCCTTATGA-GGTAAAATGACTGTTTTGCCCTTATATGGTAAAATGACTATTTT
* ** *
45518955 TCCCTTTTATGGTAAGA
65 TCCCTTATAAAGTAAAA
* *
45518972 TGACTATTTTACCCCTATG
1 TGACTATTTTGCCCTTATG
45518991 TGATGTATGT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
80 1 0.01
81 83 0.99
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.43
Consensus pattern (81 bp):
TGACTATTTTGCCCTTATGAGGTAAAATGACTGTTTTGCCCTTATATGGTAAAATGACTATTTTT
CCCTTATAAAGTAAAA
Found at i:45522770 original size:82 final size:81
Alignment explanation
Indices: 45522664--45522845 Score: 258
Period size: 82 Copynumber: 2.2 Consensus size: 81
45522654 CCAAATTGAT
*
45522664 AAATGACTATTTTTCCCTTATGAGGTAAAATAACTATTTTGCCCTTATGAGGTAAAATG-TCTGT
1 AAATGACTATTTTTCCCTTATGAGGTAAAATAACTACTTTGCCCTTATGAGGTAAAATGAT-TGT
* *
45522728 TTTGCCCTTATTTTGGTA
65 TTTGCCCTTA-TGTAGTA
* * *
45522746 AAATGACTATTTTTCCCTTATGAGGTAAAATGATTGCTTTGCCCTTATGAGGTAAAATGATTGTT
1 AAATGACTATTTTTCCCTTATGAGGTAAAATAACTACTTTGCCCTTATGAGGTAAAATGATTGTT
**
45522811 TTGTTCTTATGTAGTA
66 TTGCCCTTATGTAGTA
*
45522827 AAATGACTATTTTGCCCTT
1 AAATGACTATTTTTCCCTT
45522846 TTATGGTAAG
Statistics
Matches: 90, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
81 23 0.26
82 66 0.73
83 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (81 bp):
AAATGACTATTTTTCCCTTATGAGGTAAAATAACTACTTTGCCCTTATGAGGTAAAATGATTGTT
TTGCCCTTATGTAGTA
Found at i:45522861 original size:27 final size:27
Alignment explanation
Indices: 45522664--45522845 Score: 213
Period size: 27 Copynumber: 6.7 Consensus size: 27
45522654 CCAAATTGAT
*
45522664 AAATGACTATTTTTCCCTTATGAGGTA
1 AAATGACTATTTTGCCCTTATGAGGTA
*
45522691 AAATAACTATTTTGCCCTTATGAGGTA
1 AAATGACTATTTTGCCCTTATGAGGTA
* * **
45522718 AAATGTCTGTTTTGCCCTTATTTTGGTA
1 AAATGACTATTTTGCCCTTA-TGAGGTA
*
45522746 AAATGACTATTTTTCCCTTATGAGGTA
1 AAATGACTATTTTGCCCTTATGAGGTA
* **
45522773 AAATGATTGCTTTGCCCTTATGAGGTA
1 AAATGACTATTTTGCCCTTATGAGGTA
* * **
45522800 AAATGATTGTTTTGTTCTTATGTA-GTA
1 AAATGACTATTTTGCCCTTATG-AGGTA
45522827 AAATGACTATTTTGCCCTT
1 AAATGACTATTTTGCCCTT
45522846 TTATGGTAAG
Statistics
Matches: 130, Mismatches: 23, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
27 107 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (27 bp):
AAATGACTATTTTGCCCTTATGAGGTA
Found at i:45523314 original size:24 final size:24
Alignment explanation
Indices: 45523287--45523339 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
45523277 AATATGTCCT
*
45523287 GGAGGGAT-TGTAGGAGGGATTTAA
1 GGAGGGATATG-AGGAGAGATTTAA
* *
45523311 GGAGAGATATGAGGAGAGATTTTA
1 GGAGGGATATGAGGAGAGATTTAA
45523335 GGAGG
1 GGAGG
45523340 AAATCAAGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.32, C:0.00, G:0.45, T:0.23
Consensus pattern (24 bp):
GGAGGGATATGAGGAGAGATTTAA
Found at i:45523435 original size:17 final size:17
Alignment explanation
Indices: 45523405--45523437 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
45523395 ACCCACTGAT
45523405 TTCAGTTTGAGGGAGAA
1 TTCAGTTTGAGGGAGAA
45523422 TTCAGCTTTG-GGGAGA
1 TTCAG-TTTGAGGGAGA
45523438 GCTTTAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.24, C:0.09, G:0.36, T:0.30
Consensus pattern (17 bp):
TTCAGTTTGAGGGAGAA
Found at i:45524627 original size:27 final size:25
Alignment explanation
Indices: 45524593--45524692 Score: 110
Period size: 27 Copynumber: 3.8 Consensus size: 25
45524583 ATCGAAATGC
45524593 CCCTATAGGGTAAAATGACCGAAAAA
1 CCCTATAGGGTAAAATGACC-AAAAA
* *
45524619 CCCTAATAGGATAAAATGACCAATATAC
1 CCCT-ATAGGGTAAAATGACCAA-A-AA
*
45524647 CCCCATAGGGTAAAATGACCAAAATA
1 CCCTATAGGGTAAAATGACCAAAA-A
*
45524673 CCTCTGTAGGGTAAAATGAC
1 CC-CTATAGGGTAAAATGAC
45524693 TGTAATTCCC
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
25 1 0.02
26 9 0.15
27 48 0.77
28 4 0.06
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (25 bp):
CCCTATAGGGTAAAATGACCAAAAA
Found at i:45526126 original size:18 final size:18
Alignment explanation
Indices: 45526089--45526133 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
45526079 TTCTGTTCAA
*
45526089 ACTGTTACTACACTGATT
1 ACTGTTACTACACTCATT
* *
45526107 ACTGTTACTACTCTCTTT
1 ACTGTTACTACACTCATT
*
45526125 ACTGATACT
1 ACTGTTACT
45526134 GTAATGGGCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.42
Consensus pattern (18 bp):
ACTGTTACTACACTCATT
Found at i:45541965 original size:27 final size:27
Alignment explanation
Indices: 45541915--45541980 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
45541905 TTACCTAGAC
* *
45541915 CCCCTAAT-TGATAAAATGACTGTTATG
1 CCCCT-ATGTGATAAAATAACTGTTACG
* *
45541942 CCTCTATGTGATAAAATAATTGTTACG
1 CCCCTATGTGATAAAATAACTGTTACG
45541969 CCCCTATGTGAT
1 CCCCTATGTGAT
45541981 GTATGATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 2 0.06
27 31 0.94
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (27 bp):
CCCCTATGTGATAAAATAACTGTTACG
Found at i:45549911 original size:47 final size:46
Alignment explanation
Indices: 45549850--45550073 Score: 202
Period size: 47 Copynumber: 4.8 Consensus size: 46
45549840 ACTCTTAGAT
* * *
45549850 GATGCGTGTCCCAGACACGTCTTACACTGGCTA-TCATCATCGAGGCC
1 GATGCATGTCCCAGACAGGTCTTACACTGGC-ACTCATAAT-GAGGCC
* * * *
45549897 GTTGCATGTCCCAGACATGTCTTACACTGGCACTCACCT-CT-ACGCC
1 GATGCATGTCCCAGACAGGTCTTACACTGGCACTCA--TAATGAGGCC
* * * *
45549943 GATTCCATGTCTCAGACATGGTCTTATACTGGCACTCATAATGTGGCC
1 GA-TGCATGTCCCAGACA-GGTCTTACACTGGCACTCATAATGAGGCC
* * * *
45549991 AATGCATGTCCCAGACATGGTCTTATACTGGCACTCATAATGTGGCT
1 GATGCATGTCCCAGACA-GGTCTTACACTGGCACTCATAATGAGGCC
* * *
45550038 GATGCATGTCCCAGACATGTGTTACACTAGCACTCA
1 GATGCATGTCCCAGACAGGTCTTACACTGGCACTCA
45550074 AGAAATCCGA
Statistics
Matches: 148, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
46 22 0.15
47 103 0.70
48 22 0.15
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACAGGTCTTACACTGGCACTCATAATGAGGCC
Found at i:45552094 original size:49 final size:49
Alignment explanation
Indices: 45552016--45552196 Score: 238
Period size: 49 Copynumber: 3.7 Consensus size: 49
45552006 CTATTGTGAG
* *
45552016 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTT
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTT
* * *
45552065 GTCGCATGTGTAGTACTAAGTGCAGGCTACTA-TTCGTACCTGATAACTTT
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACAT-GTACCGGATAA-TTT
* * * *
45552115 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACATTTACCGAATAATTA
1 G-TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTT
*
45552165 GTCACATGTGTAGTACTAAGTGTAGGCTACTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTA
45552197 TGCATACTAG
Statistics
Matches: 115, Mismatches: 13, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
48 1 0.01
49 69 0.60
50 7 0.06
51 37 0.32
52 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.31
Consensus pattern (49 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTT
Found at i:45552192 original size:100 final size:100
Alignment explanation
Indices: 45552017--45552197 Score: 308
Period size: 100 Copynumber: 1.8 Consensus size: 100
45552007 TATTGTGAGG
* * * *
45552017 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTTGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGAATAATTAGTCACATGTGTAGTACT
45552082 AAGTGCAGGCTACTATTCGTACCTGATAACTTTGA
66 AAGTGCAGGCTACTATTCGTACCTGATAACTTTGA
*
45552117 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATTTACCGAATAATTAGTCACATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGAATAATTAGTCACATGTGTAGTACT
*
45552182 AAGTGTAGGCTACTAT
66 AAGTGCAGGCTACTAT
45552198 GCATACTAGA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 75 1.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGAATAATTAGTCACATGTGTAGTACT
AAGTGCAGGCTACTATTCGTACCTGATAACTTTGA
Found at i:45559546 original size:55 final size:55
Alignment explanation
Indices: 45559487--45559605 Score: 166
Period size: 55 Copynumber: 2.2 Consensus size: 55
45559477 CCTTAGCCCA
* * *
45559487 TGTACAACACTTACTTCAATACATAGCCATGGCACACGCCCGTGTGACCTACCCG
1 TGTACAACACTGACTTCAAGACACAGCCATGGCACACGCCCGTGTGACCTACCCG
* * * * *
45559542 TGTACGATACTGACTTTAAGACACGGCCATGGCACACGCCCGTGTGGCCTACCCG
1 TGTACAACACTGACTTCAAGACACAGCCATGGCACACGCCCGTGTGACCTACCCG
45559597 TGTACAACA
1 TGTACAACA
45559606 TAGACTAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (55 bp):
TGTACAACACTGACTTCAAGACACAGCCATGGCACACGCCCGTGTGACCTACCCG
Found at i:45560535 original size:46 final size:46
Alignment explanation
Indices: 45560485--45560641 Score: 169
Period size: 46 Copynumber: 3.4 Consensus size: 46
45560475 TCCCAGTCAC
45560485 GTCTTACACTGGCTA-TCATCATCGAGGCGATGCATGTCCCAAACAT
1 GTCTTACACTGGC-ACTCATCATCGAGGCGATGCATGTCCCAAACAT
* * *
45560531 GTCTTACACTAGCACTCATC-TCTACGTCGATGCCATGTCCCAAACAT
1 GTCTTACACTGGCACTCATCATCGA-GGCGATG-CATGTCCCAAACAT
* * * * *
45560578 GGTCTTATAATGGCACTCATAAT-GTGGTCGATGCATGT-CCAGACAT
1 -GTCTTACACTGGCACTCATCATCGAGG-CGATGCATGTCCCAAACAT
45560624 GTCTTACACTGGCACTCA
1 GTCTTACACTGGCACTCA
45560642 AGAAATTCGA
Statistics
Matches: 92, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
45 20 0.22
46 30 0.33
47 20 0.22
48 21 0.23
49 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (46 bp):
GTCTTACACTGGCACTCATCATCGAGGCGATGCATGTCCCAAACAT
Found at i:45566724 original size:26 final size:27
Alignment explanation
Indices: 45566695--45566747 Score: 90
Period size: 28 Copynumber: 2.0 Consensus size: 27
45566685 AACTACTAAT
45566695 AGCAGTAA-ACGTGGCAAAGCCACTAG
1 AGCAGTAATACGTGGCAAAGCCACTAG
45566721 AGCAGTAATTACGTGGCAAAGCCACTA
1 AGCAGTAA-TACGTGGCAAAGCCACTA
45566748 ATACAGTACT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 8 0.32
28 17 0.68
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.15
Consensus pattern (27 bp):
AGCAGTAATACGTGGCAAAGCCACTAG
Found at i:45566754 original size:28 final size:26
Alignment explanation
Indices: 45566689--45566755 Score: 82
Period size: 28 Copynumber: 2.5 Consensus size: 26
45566679 CAGCAAAACT
45566689 ACTAATAGCAGTAAACGTGGCAAAGCC
1 ACTAATA-CAGTAAACGTGGCAAAGCC
*
45566716 ACTAGA-GCAGTAATTACGTGGCAAAGCC
1 ACTA-ATACAGTAA--ACGTGGCAAAGCC
45566744 ACTAATACAGTA
1 ACTAATACAGTA
45566756 CTTCTTCCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
26 6 0.18
27 5 0.15
28 23 0.68
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.18
Consensus pattern (26 bp):
ACTAATACAGTAAACGTGGCAAAGCC
Found at i:45570831 original size:27 final size:29
Alignment explanation
Indices: 45570791--45570853 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
45570781 GCCCAGTCTG
*
45570791 ATTCATATGACCCA-T-GGCCCAAATCAC
1 ATTCATATGACCCATTAAGCCCAAATCAC
* *
45570818 ATTCGTATGGCCCATTAAGCCCAAATCAC
1 ATTCATATGACCCATTAAGCCCAAATCAC
*
45570847 ATACATA
1 ATTCATA
45570854 GTCATGCTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 12 0.41
28 1 0.03
29 16 0.55
ACGTcount: A:0.35, C:0.30, G:0.11, T:0.24
Consensus pattern (29 bp):
ATTCATATGACCCATTAAGCCCAAATCAC
Found at i:45578430 original size:44 final size:43
Alignment explanation
Indices: 45578330--45578455 Score: 155
Period size: 44 Copynumber: 2.9 Consensus size: 43
45578320 AGCTAGTACA
* * * *
45578330 ATGCCAACATCCTAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAATATCCTAGACGTGGTCTTACACGAAATCACAAATCG
* * *
45578373 GTGCCATTTTCCTAGACAG-GGTCTTACACGCAAATCACAAATCG
1 ATGCCAATATCCTAGAC-GTGGTCTTACACG-AAATCACAAATCG
*
45578417 ATGCCAATGTCCTAGACGTGGTCTTACACGAAATCACAA
1 ATGCCAATATCCTAGACGTGGTCTTACACGAAATCACAA
45578456 TGGGACTTTT
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
43 33 0.47
44 37 0.53
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATATCCTAGACGTGGTCTTACACGAAATCACAAATCG
Found at i:45579530 original size:13 final size:13
Alignment explanation
Indices: 45579512--45579536 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45579502 ACAAACGATA
45579512 AAATTTTCACACG
1 AAATTTTCACACG
45579525 AAATTTTCACAC
1 AAATTTTCACAC
45579537 ATAAAATATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:45580951 original size:20 final size:20
Alignment explanation
Indices: 45580926--45580963 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
45580916 AAGCGAATGC
45580926 TCATTAGTTAGTTAGATTCG
1 TCATTAGTTAGTTAGATTCG
45580946 TCATTAGTTAGTTAGATT
1 TCATTAGTTAGTTAGATT
45580964 TGTTGAGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.08, G:0.18, T:0.47
Consensus pattern (20 bp):
TCATTAGTTAGTTAGATTCG
Found at i:45581486 original size:20 final size:20
Alignment explanation
Indices: 45581420--45581486 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
45581410 ATTTTAGTAA
* *
45581420 ACATGGTATGTGTGATATGC
1 ACATGATATGTATGATATGC
* *
45581440 ACATGACATGTATGCTATGC
1 ACATGATATGTATGATATGC
45581460 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
45581480 ACATGAT
1 ACATGAT
45581487 GTATTCATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:45581590 original size:46 final size:47
Alignment explanation
Indices: 45581537--45581632 Score: 167
Period size: 47 Copynumber: 2.1 Consensus size: 47
45581527 AGGAAGTGCA
*
45581537 AAAGGGCTTATGCCCTAGTTATT-ATAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCTAGTTATTAAAAGGGCTTATGCCCCAGTTATT
*
45581583 AAAGGGCTTATGCCCTAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCTAGTTATTAAAAGGGCTTATGCCCCAGTTATT
45581630 AAA
1 AAA
45581633 AGAGGCTAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 23 0.49
47 24 0.51
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (47 bp):
AAAGGGCTTATGCCCTAGTTATTAAAAGGGCTTATGCCCCAGTTATT
Found at i:45581649 original size:25 final size:24
Alignment explanation
Indices: 45581536--45581653 Score: 152
Period size: 23 Copynumber: 5.0 Consensus size: 24
45581526 GAGGAAGTGC
*
45581536 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
45581560 -ATAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
45581583 -AAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
45581606 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
45581630 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
45581654 ATGATAAAGT
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
23 42 0.51
24 30 0.36
25 11 0.13
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:45581882 original size:31 final size:31
Alignment explanation
Indices: 45581847--45581906 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
45581837 CATTTACAGT
45581847 AAAGGCTTCGGCCCAGTAATATGAAATATTA
1 AAAGGCTTCGGCCCAGTAATATGAAATATTA
**
45581878 AAAGGCTTCGGCCCAGTGTTATGAAATAT
1 AAAGGCTTCGGCCCAGTAATATGAAATAT
45581907 GAAATATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATTA
Found at i:45606356 original size:107 final size:110
Alignment explanation
Indices: 45606167--45606417 Score: 290
Period size: 107 Copynumber: 2.4 Consensus size: 110
45606157 AGGGTTTAAG
* * * *
45606167 GATACCACGTCAGACCATGCCAAGGCATGGCAATTGGTAAGGATTCTAATGCAAAGATATCATGT
1 GATACCACGTAAGACCACGCCAAGGCATGGCAATTGGTAAGGATTCTAAGGCAAAGATACCATGT
*
45606232 AAGACCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGAAAA
66 AAGACCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGAAAA
* * *
45606277 GATACCATGTAAGACCACGCCAA-GCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATG
1 GATACCACGTAAGACCACGCCAAGGCATGGCAATTGGTAAGGATTC-TAAGGCAAAGATACCATG
* * *
45606338 TAAGACCATGTCGAGACATGGCAATGGTAAGTTTC----A--AAAG
65 TAAGACCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGAAAA
* * *
45606378 GATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 GATACCACGTAAGACCACGCCAAGGCATGGCAATTGGTAAG
45606418 CTACCCATGT
Statistics
Matches: 121, Mismatches: 16, Indels: 15
0.80 0.11 0.10
Matches are distributed among these distances:
101 23 0.19
102 11 0.09
103 2 0.02
106 3 0.02
107 48 0.40
108 7 0.06
109 7 0.06
110 20 0.17
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (110 bp):
GATACCACGTAAGACCACGCCAAGGCATGGCAATTGGTAAGGATTCTAAGGCAAAGATACCATGT
AAGACCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGAAAA
Found at i:45607601 original size:13 final size:13
Alignment explanation
Indices: 45607583--45607609 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45607573 GCTTGGTAGG
45607583 GACACGCCCGTGT
1 GACACGCCCGTGT
45607596 GACACGCCCGTGT
1 GACACGCCCGTGT
45607609 G
1 G
45607610 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:45607954 original size:16 final size:16
Alignment explanation
Indices: 45607933--45607963 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45607923 ATAAATTTTA
45607933 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
45607949 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
45607964 AGTGAATAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:45632027 original size:43 final size:43
Alignment explanation
Indices: 45631961--45632117 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 43
45631951 AGCTCGTACA
*
45631961 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACATGTAATCAAATATCG
* *** * * *
45632004 ATGCCACTGTTTTAGACAGGGTCTTACACGAAATCATATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCAAATATCG
* *
45632046 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCACAA-ATTG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGT-AATCA-AATATCG
* *
45632090 ATGCCAACGTCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACAGGGTCTTACA
45632118 CGATAACACA
Statistics
Matches: 92, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
42 26 0.28
43 36 0.39
44 30 0.33
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCAAATATCG
Found at i:45635116 original size:41 final size:45
Alignment explanation
Indices: 45635061--45635165 Score: 110
Period size: 45 Copynumber: 2.4 Consensus size: 45
45635051 GATGTGATTT
* * * * *
45635061 TCCCAAACAGGGTCTTACACG-AATCA-A-ATA-CGATGCCGATG
1 TCCCAGACATGGTCTTACACGTAACCACATATATCGATGCCAACG
* *
45635102 TCCCAGACATGGTCTTGCACGTAACCACATCTATCGATGCCAACG
1 TCCCAGACATGGTCTTACACGTAACCACATATATCGATGCCAACG
*
45635147 TCCCAGACGTGGTCTTACA
1 TCCCAGACATGGTCTTACA
45635166 TGAGAACACA
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
41 18 0.35
42 4 0.08
43 1 0.02
44 2 0.04
45 26 0.51
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (45 bp):
TCCCAGACATGGTCTTACACGTAACCACATATATCGATGCCAACG
Found at i:45635508 original size:15 final size:15
Alignment explanation
Indices: 45635484--45635513 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45635474 GTTCTTGATC
45635484 TAAACATATTCAAAT
1 TAAACATATTCAAAT
*
45635499 TAAACTTATTCAAAT
1 TAAACATATTCAAAT
45635514 ATATTTTCAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAACATATTCAAAT
Found at i:45647306 original size:19 final size:19
Alignment explanation
Indices: 45647282--45647321 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
45647272 CCTGTCTGAG
45647282 AGTACATTTGTCATAATTA
1 AGTACATTTGTCATAATTA
45647301 AGTACATTTGTCATAATTA
1 AGTACATTTGTCATAATTA
45647320 AG
1 AG
45647322 CGAGGTTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (19 bp):
AGTACATTTGTCATAATTA
Found at i:45660143 original size:18 final size:18
Alignment explanation
Indices: 45660101--45660143 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
45660091 GCCCATTCCG
*
45660101 AAGTATATATATATACAT
1 AAGTATGTATATATACAT
45660119 ATA-TATGTATATATACAT
1 A-AGTATGTATATATACAT
45660137 AAGTATG
1 AAGTATG
45660144 CCCATTCGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (18 bp):
AAGTATGTATATATACAT
Found at i:45660628 original size:29 final size:28
Alignment explanation
Indices: 45660582--45660678 Score: 99
Period size: 27 Copynumber: 3.5 Consensus size: 28
45660572 ATGAGATTGG
* *
45660582 CACTAAGTGTGCGGGTTTAAATTGT-TCAA
1 CACTAAGTGTGCGAGTTT-AATTATAT-AA
* *
45660611 CACTAAGTGTGCGAGTTTGATTATATAG
1 CACTAAGTGTGCGAGTTTAATTATATAA
* *
45660639 CACTAAGTGTGCGAG-TTGATTATATAG
1 CACTAAGTGTGCGAGTTTAATTATATAA
*
45660666 CACTGAGTGTGCG
1 CACTAAGTGTGCG
45660679 GACTTAATAT
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
27 24 0.39
28 20 0.32
29 18 0.29
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTATATAA
Found at i:45660665 original size:27 final size:28
Alignment explanation
Indices: 45660611--45660678 Score: 120
Period size: 27 Copynumber: 2.5 Consensus size: 28
45660601 AATTGTTCAA
45660611 CACTAAGTGTGCGAGTTTGATTATATAG
1 CACTAAGTGTGCGAGTTTGATTATATAG
45660639 CACTAAGTGTGCGAG-TTGATTATATAG
1 CACTAAGTGTGCGAGTTTGATTATATAG
*
45660666 CACTGAGTGTGCG
1 CACTAAGTGTGCG
45660679 GACTTAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.62
28 15 0.38
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTGATTATATAG
Found at i:45660692 original size:29 final size:27
Alignment explanation
Indices: 45660611--45660692 Score: 92
Period size: 27 Copynumber: 2.9 Consensus size: 27
45660601 AATTGTTCAA
* *
45660611 CACTAAGTGTGCGAGTTTGATTATATAG
1 CACTAAGTGTGCGA-CTTAATTATATAG
* *
45660639 CACTAAGTGTGCGAGTTGATTATATAG
1 CACTAAGTGTGCGACTTAATTATATAG
*
45660666 CACTGAGTGTGCGGACTTAATATATAT
1 CACTAAGTGTGC-GACTTAAT-TATAT
45660693 TTTTGAATCA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
27 23 0.48
28 20 0.42
29 5 0.10
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.34
Consensus pattern (27 bp):
CACTAAGTGTGCGACTTAATTATATAG
Found at i:45662384 original size:92 final size:93
Alignment explanation
Indices: 45662279--45662486 Score: 260
Period size: 92 Copynumber: 2.2 Consensus size: 93
45662269 TGAGTGCTAG
*
45662279 TGTAAAACATGTCTGGGACATGCATCGGCCT-CGAGATG-TAAGCCAGTGTAAGA-CATGTCTAG
1 TGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGAT-AGCCAGTGTAAGACCATGTCTAG
* *
45662341 GACATGGCATCGACTTGAGACGTAAGCCAG
64 GACATCGCATCGACTTGAGACGTAAGCCAA
* * *
45662371 TGTATGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTCAGTGTAAGACCATGTCTGGGA
1 TGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGCCAGTGTAAGACCATGTCTAGGA
* * * *
45662436 CATCGCATTGACTTTAGATGTGAGCCAA
66 CATCGCATCGACTTGAGACGTAAGCCAA
* *
45662464 TGTAAGACCGTGTCTTGGACATG
1 TGTAAGA-CATGTCTGGGACATG
45662487 GCGTTGGTAC
Statistics
Matches: 99, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
91 2 0.02
92 45 0.45
93 39 0.39
94 13 0.13
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (93 bp):
TGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGCCAGTGTAAGACCATGTCTAGGA
CATCGCATCGACTTGAGACGTAAGCCAA
Found at i:45662455 original size:47 final size:45
Alignment explanation
Indices: 45662277--45662486 Score: 215
Period size: 46 Copynumber: 4.5 Consensus size: 45
45662267 GATGAGTGCT
* * *
45662277 AGTGTAAAACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GACTTGAGATGTAAGCC
* *
45662323 AGTGTAAGACATGTCTAGGACATGGCATCGACTTGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGACTTGAGATGTAAGCC
* * * *
45662369 AGTGTATGACATGTCTGGGACATGCATCGGCTACGAGATG-ATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGACT-TGAGATGTA-AGCC
* * *
45662415 AGTGTAAGACCATGTCTGGGACATCGCATTGACTTTAGATGTGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACTTGAGATGTAAGCC
* * *
45662462 AATGTAAGACCGTGTCTTGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
45662487 GCGTTGGTAC
Statistics
Matches: 137, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
45 9 0.07
46 73 0.53
47 48 0.35
48 7 0.05
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACTTGAGATGTAAGCC
Found at i:45665434 original size:40 final size:40
Alignment explanation
Indices: 45665337--45665594 Score: 330
Period size: 40 Copynumber: 6.5 Consensus size: 40
45665327 TGGATGATAA
*
45665337 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* * * *
45665378 TCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
45665418 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
45665458 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
45665498 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTA-TGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAT
* *
45665538 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
45665577 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
45665595 TACTTGGCTT
Statistics
Matches: 194, Mismatches: 18, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
38 15 0.08
39 14 0.07
40 139 0.72
41 23 0.12
42 3 0.02
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:45673548 original size:46 final size:46
Alignment explanation
Indices: 45673310--45673562 Score: 187
Period size: 46 Copynumber: 5.4 Consensus size: 46
45673300 TTGTGTGTGG
* * * * *
45673310 GCTAGTGTAAGACATGTCTGGGACACGCATCAGCCAC-ATTATGAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATA
* * * * *
45673356 GCCAGTGTAAGACCGTGTCTAGTACATGGCATCGGC-ATTGAGATGAGT-
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGATGA-TA
* * *
45673404 GCTAGTGTAAGAAATGTTTGGGACATGCATCGGCCT-CGAGACG-TAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGAT-A
* * * * * *
45673450 GCCAATGTAAGACATGTCTAGGACATGGCATCGACT-TGAGACG-TAA
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCTACGAGATGAT-A
45673496 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATA
*
45673542 GTTAGTGTAAGACCATGTCTG
1 GCTAGTGTAAGA-CATGTCTG
45673563 AGGCATGGCA
Statistics
Matches: 163, Mismatches: 31, Indels: 25
0.74 0.14 0.11
Matches are distributed among these distances:
44 1 0.01
45 8 0.05
46 95 0.58
47 36 0.22
48 22 0.13
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATA
Found at i:45673598 original size:47 final size:45
Alignment explanation
Indices: 45673355--45673622 Score: 175
Period size: 46 Copynumber: 5.8 Consensus size: 45
45673345 ACATTATGAA
* * * * *
45673355 AGCCAGTGTAAGACCGTGTCTAGTACATGGCATCGGCATTGAGATG-
1 AGCCAATGTAAGA-CATGTCTGGGACATGGCATCGAC-TTGAGATGT
* * * * * * *
45673401 AGTGCTAGTGTAAGAAATGTTTGGGACAT-GCATCGGCCTCGAGACGT
1 A--GCCAATGTAAGACATGTCTGGGACATGGCATC-GACTTGAGATGT
* *
45673448 AAGCCAATGTAAGACATGTCTAGGACATGGCATCGACTTGAGACGT
1 -AGCCAATGTAAGACATGTCTGGGACATGGCATCGACTTGAGATGT
* * * *
45673494 AAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCTACGAGATGAT
1 -AGCCAATGTAAGACATGTCTGGGACATGGCATCGACT-TGAGATG-T
** * *
45673541 AGTTAGTGTAAGACCATGTCTGAGG-CATGGCATTGACTTGAGATGT
1 AGCCAATGTAAGA-CATGTCTG-GGACATGGCATCGACTTGAGATGT
* *
45673587 GAGCCAATGTAAGACCGTGTTTGGGACATGGCATCG
1 -AGCCAATGTAAGA-CATGTCTGGGACATGGCATCG
45673623 GTACCTTACC
Statistics
Matches: 177, Mismatches: 32, Indels: 25
0.76 0.14 0.11
Matches are distributed among these distances:
45 8 0.05
46 88 0.50
47 60 0.34
48 21 0.12
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (45 bp):
AGCCAATGTAAGACATGTCTGGGACATGGCATCGACTTGAGATGT
Found at i:45679997 original size:21 final size:22
Alignment explanation
Indices: 45679971--45680011 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
45679961 CTAGAGAATA
*
45679971 AAAATTGGGT-ATCTTAAAACG
1 AAAATTAGGTCATCTTAAAACG
*
45679992 AAAATTAGGTCATTTTAAAA
1 AAAATTAGGTCATCTTAAAA
45680012 GATCTTGGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.46, C:0.07, G:0.15, T:0.32
Consensus pattern (22 bp):
AAAATTAGGTCATCTTAAAACG
Found at i:45681095 original size:46 final size:47
Alignment explanation
Indices: 45680952--45681215 Score: 288
Period size: 47 Copynumber: 5.7 Consensus size: 47
45680942 TGTGTGGGCT
*** *
45680952 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGA-GATGAGAGCC
* * * * * *
45680998 AGTGTAAGATCGTGTCTAGGACATGGCATCGGCATTGAGACGAGTGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAGATGAGAGCC
*
45681046 AGTGTAAGA-CATGTCTGGGACATGGTATCGACTTGAGATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATG-AGAGCC
* * * * *
45681092 AGTGTAAGA-CATGTCTGGGGCAT-GCATCGGCAATGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAGATGAGAGCC
*
45681138 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGAGAGCC
*
45681185 AGTGTAAGACCATGTTTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
45681216 GTACCTTACC
Statistics
Matches: 183, Mismatches: 27, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
45 7 0.04
46 60 0.33
47 85 0.46
48 30 0.16
49 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGAGAGCC
Found at i:45681205 original size:140 final size:140
Alignment explanation
Indices: 45680952--45681215 Score: 354
Period size: 140 Copynumber: 1.9 Consensus size: 140
45680942 TGTGTGGGCT
* * *
45680952 AGTGTAAGACATGTCTGGGACATGCATCGACCACATTATGAGAGCCAGTGTAAGATCGTGTCTAG
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACATGATGAGAGCCAGTGTAAGACCATGTCTAG
* * *
45681017 GACATGGCATCGGCATTGAGACGAGTGCCAGTGTAAGACATGTCTGGGACATGGTATCGACTTGA
66 GACATGGCATCGACATTGAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACTTGA
45681082 GATGTAAGCC
131 GATGTAAGCC
* * * *
45681092 AGTGTAAGACATGTCTGGGGCATGCATCG-GCA-ATGAGATGATAGTCAGTGTAAGACCATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACAT--GATGAGAGCCAGTGTAAGACCATGTCT
* * * *
45681155 GGGACATGGCATCGAC-TTGAGATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCG
64 AGGACATGGCATCGACATTGAGACGAGAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCG
45681216 GTACCTTACC
Statistics
Matches: 107, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
138 2 0.02
139 22 0.21
140 83 0.78
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCACATGATGAGAGCCAGTGTAAGACCATGTCTAG
GACATGGCATCGACATTGAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACTTGA
GATGTAAGCC
Found at i:45690902 original size:46 final size:45
Alignment explanation
Indices: 45690823--45691034 Score: 158
Period size: 47 Copynumber: 4.5 Consensus size: 45
45690813 AGTTCTAGTA
* * * *
45690823 TAAGACATTTTTGGGACATGCATCGGCCTCGAGACGTAAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCAG-CTCGAGATGTAAGCCAGTG
*
45690869 TAAGACATGTCTGGGACATGCATCAGCTACGAGATG-ATAGTCAGTG
1 TAAGACATGTCTGGGACATGCATCAGCT-CGAGATGTA-AGCCAGTG
* * * * *
45690915 TAAGTCCATGTCTGGTACATGGCATCAACTTGAGATGTGAGCCAGTG
1 TAAG-ACATGTCTGGGACAT-GCATCAGCTCGAGATGTAAGCCAGTG
* ** * * * *
45690962 TAAGACTGTGTCTCAGACATGGCAT-GGACTTGAGATGTGAGCTAGTG
1 TAAGAC-ATGTCTGGGACAT-GCATCAG-CTCGAGATGTAAGCCAGTG
*
45691009 TAAGACCATGTCTCGGACATGGCATC
1 TAAGA-CATGTCTGGGACAT-GCATC
45691035 GGCACCTTAC
Statistics
Matches: 136, Mismatches: 21, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
45 3 0.02
46 41 0.30
47 83 0.61
48 9 0.07
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (45 bp):
TAAGACATGTCTGGGACATGCATCAGCTCGAGATGTAAGCCAGTG
Found at i:45690950 original size:47 final size:46
Alignment explanation
Indices: 45690864--45691034 Score: 179
Period size: 47 Copynumber: 3.7 Consensus size: 46
45690854 AGACGTAAGC
* * *
45690864 CAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTACGAGATGAT-AG
1 CAGTGTAAGACCATGTCTCGGACATGGCATCAACT-TGAGATG-TGAG
*
45690909 TCAGTGTAAGTCCATGTCT-GGTACATGGCATCAACTTGAGATGTGAG
1 -CAGTGTAAGACCATGTCTCGG-ACATGGCATCAACTTGAGATGTGAG
** * **
45690956 CCAGTGTAAGACTGTGTCTCAGACATGGCATGGACTTGAGATGTGAG
1 -CAGTGTAAGACCATGTCTCGGACATGGCATCAACTTGAGATGTGAG
45691003 CTAGTGTAAGACCATGTCTCGGACATGGCATC
1 C-AGTGTAAGACCATGTCTCGGACATGGCATC
45691035 GGCACCTTAC
Statistics
Matches: 105, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
46 13 0.12
47 83 0.79
48 9 0.09
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (46 bp):
CAGTGTAAGACCATGTCTCGGACATGGCATCAACTTGAGATGTGAG
Found at i:45691484 original size:13 final size:14
Alignment explanation
Indices: 45691463--45691495 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
45691453 ATTATTATGG
*
45691463 AATTATTTTTT-AA
1 AATTTTTTTTTGAA
45691476 AATTTTTTTTTGAA
1 AATTTTTTTTTGAA
45691490 AATTTT
1 AATTTT
45691496 GATGTTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (14 bp):
AATTTTTTTTTGAA
Found at i:45692716 original size:50 final size:50
Alignment explanation
Indices: 45692593--45693034 Score: 368
Period size: 50 Copynumber: 8.8 Consensus size: 50
45692583 TTGTGAGAAA
* * * * *** *
45692593 ACATGTGTAGTACTATGTGCAGGATATTATGTGTTTAAGATAGTTTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT--TGTTAGGTC
* * *
45692645 ACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACAAGATTGTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC
* * * * * * *
45692695 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGTTTCGATC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGTC
* *
45692746 AC--GTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATTGTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC
* * *
45692794 ACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGATAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC
* * * * * * *
45692844 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTCGATC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT--GTTAGGTC
* * * * * * *
45692895 ACGTGTGTAGTACTAAGTGCGGGCTACTACATGTATCAGATGGATAAGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC
* * ** * * * * *
45692945 ACGTGTGTAGTACTAAGAGCAGGGAAGTACATATACCAGATTGATAGGTT
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC
** * *
45692995 GTATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
45693035 GAGCTTTGGT
Statistics
Matches: 307, Mismatches: 77, Indels: 14
0.77 0.19 0.04
Matches are distributed among these distances:
48 7 0.02
49 35 0.11
50 190 0.62
51 41 0.13
52 34 0.11
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC
Found at i:45692985 original size:151 final size:149
Alignment explanation
Indices: 45692642--45693031 Score: 584
Period size: 151 Copynumber: 2.6 Consensus size: 149
45692632 ATAGTTTTAG
* *
45692642 GTCACGTGTGTAGTACTAA-ATGCAGGCTACTACGTGTACAAGATTGTTAGGTCGCATGTGTAGT
1 GTCACGTGTGTAGTACTAAGA-GCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
**
45692706 ACTAAGTGCAGGCTACTATGCGTACCCGATAGTTTCGATCACGTGTAGTACTAAGTGCAGGCTAC
65 ACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTAGTACTAAGTGCAGGCTAC
* * *
45692771 TACATGTATCAGATTGTTAG
130 TACATGTATCAGATGGATAA
* *
45692791 GTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTA
1 GTCACGTGTGTAGTACTAAGAGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTA
* *
45692856 CTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGCGGGCTA
66 CTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCAC--GTGTAGTACTAAGTGCAGGCTA
45692921 CTACATGTATCAGATGGATAA
129 CTACATGTATCAGATGGATAA
** * * * * *
45692942 GTCACGTGTGTAGTACTAAGAGCAGGGAAGTACATATACCAGATTGATAGGTTGTATGTGTAGTA
1 GTCACGTGTGTAGTACTAAGAGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTA
45693007 CTAAGTGCAGGCTACTATGCGTACC
66 CTAAGTGCAGGCTACTATGCGTACC
45693032 AGAGAGCTTT
Statistics
Matches: 218, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
149 98 0.45
151 120 0.55
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (149 bp):
GTCACGTGTGTAGTACTAAGAGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTA
CTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTAGTACTAAGTGCAGGCTACT
ACATGTATCAGATGGATAA
Found at i:45702913 original size:50 final size:50
Alignment explanation
Indices: 45702839--45703229 Score: 317
Period size: 50 Copynumber: 7.7 Consensus size: 50
45702829 TAAGGCAGTT
45702839 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
* * * *
45702889 TTAGGTCGCATGTGTAGTATTAAGTGCAGGCTACT--ATGCATAGCCA-ATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATG--TA-CCAGATTG
* * * * * *
45702939 TTTCGATCAGGTGTGTAGTACTAAGTGCAGGCTACTACATGGATCAGATGG
1 -TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
* * * *
45702990 TCAAGTCACGTGTGTAGTACTTAAGTGCAGGCTACTACGTGTACCTGATTG
1 TTAGGTCACGTGTGTAGTAC-TAAGTGCAGGCTACTACATGTACCAGATTG
* * * * *
45703041 ATAGGTCACATGTGTAGTACTAAGTGCAAGCTACT--ATGCATACCCG-TTAAC
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATG--TACCAGATT--G
* * * * * * *
45703092 TTCGATCATGTGTGTAGTACTAAGTGCGGGCTACTACGTGTATCAGATGG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
* * * * * *
45703142 ATAAGTCACGTGTGTAATACTAAGTGCAGGATACTACGTGTACCGGATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
* * *
45703192 ATAGGTTGCATGTATAGTAGTACTAAGTGCAGGCTACT
1 TTAGG-T-CACGTGT-GTAGTACTAAGTGCAGGCTACT
45703230 GTGCGTACCA
Statistics
Matches: 264, Mismatches: 59, Indels: 33
0.74 0.17 0.09
Matches are distributed among these distances:
48 5 0.02
49 2 0.01
50 116 0.44
51 110 0.42
52 6 0.02
53 25 0.09
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
Found at i:45702966 original size:51 final size:50
Alignment explanation
Indices: 45702844--45703127 Score: 186
Period size: 51 Copynumber: 5.6 Consensus size: 50
45702834 CAGTTTTAGG
* * *
45702844 TCACGTGTGTAGTACTAAGTGCAGGCTACTA--CAT-GTACCAGATTGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATAG--CCA-ATAGTTCGA
* * *
45702894 TCGCATGTGTAGTATTAAGTGCAGGCTACTATGCATAGCCAATAGTTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATAGCCAATAG-TTCGA
* * * * *
45702945 TCAGGTGTGTAGTACTAAGTGCAGGCTACTA--CATGGATCAGAT-GGTCAA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATAG-CCA-ATAGTTCGA
* ** * * * * *
45702994 GTCACGTGTGTAGTACTTAAGTGCAGGCTACTACGTGTA-CCTGATTGATAGG
1 -TCACGTGTGTAGTAC-TAAGTGCAGGCTACTATGCATAGCC-AATAGTTCGA
* * * ** *
45703046 TCACATGTGTAGTACTAAGTGCAAGCTACTATGCATACCCGTTAACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATAGCCAAT-AGTTCGA
* *
45703097 TCATGTGTGTAGTACTAAGTGCGGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
45703128 CGTGTATCAG
Statistics
Matches: 181, Mismatches: 39, Indels: 27
0.73 0.16 0.11
Matches are distributed among these distances:
49 7 0.04
50 68 0.38
51 99 0.55
52 5 0.03
53 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATAGCCAATAGTTCGA
Found at i:45703055 original size:101 final size:99
Alignment explanation
Indices: 45702840--45703178 Score: 299
Period size: 101 Copynumber: 3.4 Consensus size: 99
45702830 AAGGCAGTTT
* * * * *
45702840 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGTTAGGTCGCATGTGTA
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATG-ACCAGATCGTCAAGTCACGTGTGTA
* ** * *
45702905 GTA-TTAAGTGCAGGCTACTATGCATAGCCAATAGTT
65 GTACTTAAGTGCAGGCTACTACGTGTA-CCGATAG-A
* * * * *
45702941 TCGATCAGGTGTGTAGTACTAAGTGCAGGCTACTACATGGATCAGATGGTCAAGTCACGTGTGTA
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACAT-GACCAGATCGTCAAGTCACGTGTGTA
*
45703006 GTACTTAAGTGCAGGCTACTACGTGTACCTGATTGA
65 GTACTTAAGTGCAGGCTACTACGTGTACC-GATAGA
* * * * * * *
45703042 TAGGTCACATGTGTAGTACTAAGTGCAAGCTACTATGCAT-ACCCGTTAACTTCGA-TCATGTGT
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA--CATGACCAG--ATCGTCAAGTCACGTGT
* * *
45703105 GTAGTAC-TAAGTGCGGGCTACTACGTGTATCAGATGGA
62 GTAGTACTTAAGTGCAGGCTACTACGTGTA-CCGATAGA
* * *
45703143 TAAGTCACGTGTGTAATACTAAGTGCAGGATACTAC
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAC
45703179 GTGTACCGGA
Statistics
Matches: 195, Mismatches: 35, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
99 1 0.01
101 148 0.76
102 39 0.20
103 7 0.04
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (99 bp):
TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGACCAGATCGTCAAGTCACGTGTGTAG
TACTTAAGTGCAGGCTACTACGTGTACCGATAGA
Found at i:45703074 original size:152 final size:151
Alignment explanation
Indices: 45702843--45703238 Score: 551
Period size: 152 Copynumber: 2.6 Consensus size: 151
45702833 GCAGTTTTAG
* *
45702843 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGTTAGGTCGCATGTGTAGTA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTA
* * **
45702908 TTAAGTGCAGGCTACTATGCATAGCCAATAGTTTCGATCAGGTGTGTAGTACTAAGTGCAGGCTA
66 CTAAGTGCAGGCTACTATGCATACCCAATAACTTCGATCAGGTGTGTAGTACTAAGTGCAGGCTA
45702973 CTACATGGATCAGATGG-TCAA
131 CTACATGGATCAGATGGAT-AA
* *
45702994 GTCACGTGTGTAGTACTTAAGTGCAGGCTACTACGTGTACCTGATTGATAGGTCACATGTGTAGT
1 GTCACGTGTGTAGTAC-TAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* ** * *
45703059 ACTAAGTGCAAGCTACTATGCATACCCGTTAACTTCGATCATGTGTGTAGTACTAAGTGCGGGCT
65 ACTAAGTGCAGGCTACTATGCATACCCAATAACTTCGATCAGGTGTGTAGTACTAAGTGCAGGCT
* *
45703124 ACTACGTGTATCAGATGGATAA
130 ACTACATGGATCAGATGGATAA
* * * *
45703146 GTCACGTGTGTAATACTAAGTGCAGGATACTACGTGTACCGGATTGATAGGTTGCATGTATAGTA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATG--T-GTA
* *
45703211 GTACTAAGTGCAGGCTACTGTGCGTACC
63 GTACTAAGTGCAGGCTACTATGCATACC
45703239 AGAGAGCTTC
Statistics
Matches: 217, Mismatches: 23, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
151 54 0.25
152 133 0.61
153 2 0.01
154 28 0.13
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (151 bp):
GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTA
CTAAGTGCAGGCTACTATGCATACCCAATAACTTCGATCAGGTGTGTAGTACTAAGTGCAGGCTA
CTACATGGATCAGATGGATAA
Found at i:45712237 original size:50 final size:50
Alignment explanation
Indices: 45712027--45712407 Score: 294
Period size: 50 Copynumber: 7.7 Consensus size: 50
45712017 AAGACAGTTT
* * * * *
45712027 TAGGTCACATGTATAGTACTAAGTGTAGGCTACTACGTGTACTAGATTGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACTTGTACCAGATTGA
* * * * *
45712077 TAGGTCGCATGT-TACTACTAAGTGCAGGCTACTA--TGCATACCCGATAGTT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACTTG--TACCAGATTG-A
* * * * * * *
45712127 TCGATCACGTGTGTAGTACTAAGTACAGG---CTACTTGTATCAGATGGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACTTGTACCAGATTGA
* * *
45712174 TAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACTTGTACCGGATTGA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACTTGTACCAGATTGA
** * * *
45712224 TAGGTCGTATGTGTAGTACTAAGTGCGGGCTACTA-TGCGTACCAG-TTAA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACT-TGTACCAGATTGA
* * * * * *
45712273 CTTCA-ATCACGTGTGTAGTACTAAGTGCGGGCTACTACATGTATCAGATGGA
1 --T-AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACTTGTACCAGATTGA
* * * *
45712325 TAAGTCACATGTGTAGCACTAAGTGCAGGCTACTACATGTGCCAGATTGA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACTTGTACCAGATTGA
* * *
45712375 TAGGTCGCATCTGTAGTACTATGTGCAGGCTAC
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTAC
45712408 AATACGTACC
Statistics
Matches: 263, Mismatches: 52, Indels: 32
0.76 0.15 0.09
Matches are distributed among these distances:
47 28 0.11
48 10 0.04
49 32 0.12
50 141 0.54
51 49 0.19
52 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACTTGTACCAGATTGA
Found at i:45712290 original size:101 final size:101
Alignment explanation
Indices: 45712178--45712359 Score: 265
Period size: 101 Copynumber: 1.8 Consensus size: 101
45712168 GATGGTTAGG
* * * * * ** *
45712178 TCACGTGTGTAGTACTAAGTGTAGGCTACTACTTGTACCGGATTGATAGGTCGTATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGATAAGTCACATGTGTAGCAC
*
45712243 TAAGTGCGGGCTACTATGCGTACCAGTTAACTTCAA
66 TAAGTGCAGGCTACTATGCGTACCAGTTAACTTCAA
* *
45712279 TCACGTGTGTAGTACTAAGTGCGGGCTACTACATGTATCAGATGGATAAGTCACATGTGTAGCAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGATAAGTCACATGTGTAGCAC
45712344 TAAGTGCAGGCTACTA
66 TAAGTGCAGGCTACTA
45712360 CATGTGCCAG
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 70 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGATAAGTCACATGTGTAGCAC
TAAGTGCAGGCTACTATGCGTACCAGTTAACTTCAA
Found at i:45712375 original size:151 final size:148
Alignment explanation
Indices: 45712030--45712420 Score: 505
Period size: 151 Copynumber: 2.6 Consensus size: 148
45712020 ACAGTTTTAG
* * * * *
45712030 GTCACATGTATAGTACTAAGTGTAGGCTACTACGTGTACTAGATTGTTAGGTCGCATGT-TACTA
1 GTCACATGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTA
* * ** *
45712094 CTAAGTGCAGGCTACTATGCATACCCGATAGTTTCGATCACGTGTGTAGTACTAAGTACAGGCTA
66 CTAAGTGCAGGCTACTATGCGTACCAGATAACTTCAATCACGTGTGTAGTACTAAGTACAGGCTA
* *
45712159 CTTGTATCAGATGGTTAG
131 CTTGTATCAGATGGATAA
* * * *
45712177 GTCACGTGTGTAGTACTAAGTGTAGGCTACTACTTGTACCGGATTGATAGGTCGTATGTGTAGTA
1 GTCACATGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTA
* * * *
45712242 CTAAGTGCGGGCTACTATGCGTACCAGTTAACTTCAATCACGTGTGTAGTACTAAGTGCGGGCTA
66 CTAAGTGCAGGCTACTATGCGTACCAGATAACTTCAATCACGTGTGTAGTACTAAGTACAGGCTA
45712307 CTACATGTATCAGATGGATAA
131 CT---TGTATCAGATGGATAA
* * * *
45712328 GTCACATGTGTAGCACTAAGTGCAGGCTACTACATGTGCCAGATTGATAGGTCGCATCTGTAGTA
1 GTCACATGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTA
* * *
45712393 CTATGTGCAGGCTACAATACGTACCAGA
66 CTAAGTGCAGGCTACTATGCGTACCAGA
45712421 AAGCTTTGGT
Statistics
Matches: 208, Mismatches: 32, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
147 52 0.25
148 62 0.30
151 94 0.45
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (148 bp):
GTCACATGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTA
CTAAGTGCAGGCTACTATGCGTACCAGATAACTTCAATCACGTGTGTAGTACTAAGTACAGGCTA
CTTGTATCAGATGGATAA
Found at i:45722400 original size:13 final size:13
Alignment explanation
Indices: 45722368--45722409 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
45722358 CAGATGAAAA
45722368 AATTAAAGA-AAAT
1 AATTAAA-ATAAAT
45722381 GAATTAAAATAAAT
1 -AATTAAAATAAAT
*
45722395 AATTAAGATAAAT
1 AATTAAAATAAAT
45722408 AA
1 AA
45722410 AATAGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (13 bp):
AATTAAAATAAAT
Found at i:45724714 original size:15 final size:16
Alignment explanation
Indices: 45724694--45724726 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
45724684 GATTTATCTA
45724694 CCTAA-CTGTAACACC
1 CCTAACCTGTAACACC
45724709 CCTAACCTGTAACACC
1 CCTAACCTGTAACACC
45724725 CC
1 CC
45724727 GTACCCGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.30, C:0.45, G:0.06, T:0.18
Consensus pattern (16 bp):
CCTAACCTGTAACACC
Found at i:45726137 original size:40 final size:39
Alignment explanation
Indices: 45726093--45726283 Score: 247
Period size: 40 Copynumber: 4.8 Consensus size: 39
45726083 GGATATAGCT
* * * *
45726093 ACTCGCTCGAATGCCTTCGGGGCATAGCCCGATTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGATT-TAGTA
* * *
45726133 ACTCGCACCAATGGCTTCGGGACTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC-GATTTAGTA
*
45726173 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC-GATTTAGTA
*
45726213 ACTCGCACAAATGCCTTTGGGACTTAGCCCGAATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCG-ATTTAGTA
* *
45726253 GCTTGCACAAATGCCTTCGGGACTTAGCCCG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCG
45726284 GTTATCATCC
Statistics
Matches: 136, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 131 0.96
41 4 0.03
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGATTTAGTA
Found at i:45745821 original size:29 final size:29
Alignment explanation
Indices: 45745710--45745821 Score: 91
Period size: 29 Copynumber: 3.9 Consensus size: 29
45745700 ACCCCTACAT
* *
45745710 ACATGCATATGGCCCACTAGGCCTAA-TC
1 ACATTCATATGGCCCACTAGGCCCAATTC
** * * * * *
45745738 TTATTCAAATGGCCTATTTGGCCCAGTTC
1 ACATTCATATGGCCCACTAGGCCCAATTC
* * *
45745767 ATATTCTTATGGCCCACTAGACCCAATTC
1 ACATTCATATGGCCCACTAGGCCCAATTC
* *
45745796 ACATTCATATGGCCCATTAGGTCCAA
1 ACATTCATATGGCCCACTAGGCCCAA
45745822 ATCATATTAT
Statistics
Matches: 61, Mismatches: 22, Indels: 1
0.73 0.26 0.01
Matches are distributed among these distances:
28 17 0.28
29 44 0.72
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAATTC
Found at i:45746654 original size:17 final size:18
Alignment explanation
Indices: 45746631--45746674 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
45746621 GGCACAGATT
45746631 AAAGAAAAAGAGTAG-AAG
1 AAAGAAAAA-AGTAGAAAG
*
45746649 -AAGAAATAAGTAGAAAG
1 AAAGAAAAAAGTAGAAAG
45746666 AAAGAAAAA
1 AAAGAAAAA
45746675 CTAAAGGGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 5 0.23
17 10 0.45
18 7 0.32
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (18 bp):
AAAGAAAAAAGTAGAAAG
Found at i:45749656 original size:58 final size:58
Alignment explanation
Indices: 45749518--45749659 Score: 175
Period size: 57 Copynumber: 2.5 Consensus size: 58
45749508 CATCTGTACA
* * * * *
45749518 ATAGGATTACCAGTCCAGGCTAAATCCTTCTTATGACATATGCTCTAAGGAGCTTGAT
1 ATAGGATTACCTGTCCAGGCTAAATCCATCTCATAACATATGCTCGAAGGAGCTTGAT
*
45749576 AT-GGATTACCTGTCCGGGCTAAATCCAATC-CATAACATATGCTCGAGAGGA-CTT-AT
1 ATAGGATTACCTGTCCAGGCTAAATCC-ATCTCATAACATATGCTCGA-AGGAGCTTGAT
45749632 ATCAGGATTACCTGTCCAGGCTAAATCC
1 AT-AGGATTACCTGTCCAGGCTAAATCC
45749660 TATCAGAAAT
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
56 4 0.05
57 38 0.52
58 31 0.42
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (58 bp):
ATAGGATTACCTGTCCAGGCTAAATCCATCTCATAACATATGCTCGAAGGAGCTTGAT
Found at i:45749931 original size:17 final size:17
Alignment explanation
Indices: 45749911--45749947 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
45749901 TCATTTTTCA
45749911 GGCATTATCGTTCATCG
1 GGCATTATCGTTCATCG
45749928 GGCATTATCGTTCATCG
1 GGCATTATCGTTCATCG
45749945 GGC
1 GGC
45749948 TTTGTCAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.16, C:0.24, G:0.27, T:0.32
Consensus pattern (17 bp):
GGCATTATCGTTCATCG
Found at i:45750295 original size:9 final size:9
Alignment explanation
Indices: 45750281--45750314 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
45750271 CGGAAAATGA
45750281 AATTTATGC
1 AATTTATGC
*
45750290 AATTTAATGA
1 AATTT-ATGC
45750300 AATTTATGC
1 AATTTATGC
45750309 AATTTA
1 AATTTA
45750315 CTCCCTATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (9 bp):
AATTTATGC
Found at i:45750300 original size:19 final size:19
Alignment explanation
Indices: 45750276--45750314 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
45750266 AGGCTCGGAA
45750276 AATGAAATTTATGCAATTT
1 AATGAAATTTATGCAATTT
45750295 AATGAAATTTATGCAATTT
1 AATGAAATTTATGCAATTT
45750314 A
1 A
45750315 CTCCCTATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (19 bp):
AATGAAATTTATGCAATTT
Found at i:45752531 original size:13 final size:13
Alignment explanation
Indices: 45752513--45752538 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45752503 TCCCACCCCT
45752513 AAATACAAATACA
1 AAATACAAATACA
45752526 AAATACAAATACA
1 AAATACAAATACA
45752539 GTATTTAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.15
Consensus pattern (13 bp):
AAATACAAATACA
Found at i:45754703 original size:19 final size:19
Alignment explanation
Indices: 45754659--45754695 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
45754649 TATAAAAATT
45754659 AAGCTAAAAATTCGCAAGC
1 AAGCTAAAAATTCGCAAGC
45754678 AAGCTAAAAATTCGCAAG
1 AAGCTAAAAATTCGCAAG
45754696 TATGCTAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.19, G:0.16, T:0.16
Consensus pattern (19 bp):
AAGCTAAAAATTCGCAAGC
Found at i:45761517 original size:118 final size:118
Alignment explanation
Indices: 45761309--45761546 Score: 458
Period size: 118 Copynumber: 2.0 Consensus size: 118
45761299 CATTACTATG
* *
45761309 GACCCTTCAATGAGAGCAACAGTTTCAAATTCCCCTAGTTTGTGCTTCTTTGACAATATGTCCTT
1 GACCCTTCAATGAGAGCAACAGTTTCAAATTCCCCTAGTCTGTGCTTCTTTGACAATATGTCATT
45761374 CATGAACTTTACTTAATTGGCATTTTCTCTAATGCTTCCACCAGTGGTATGTT
66 CATGAACTTTACTTAATTGGCATTTTCTCTAATGCTTCCACCAGTGGTATGTT
45761427 GACCCTTCAATGAGAGCAACAGTTTCAAATTCCCCTAGTCTGTGCTTCTTTGACAATATGTCATT
1 GACCCTTCAATGAGAGCAACAGTTTCAAATTCCCCTAGTCTGTGCTTCTTTGACAATATGTCATT
45761492 CATGAACTTTACTTAATTGGCATTTTCTCTAATGCTTCCACCAGTGGTATGTT
66 CATGAACTTTACTTAATTGGCATTTTCTCTAATGCTTCCACCAGTGGTATGTT
45761545 GA
1 GA
45761547 TATAAAGTTG
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 118 1.00
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (118 bp):
GACCCTTCAATGAGAGCAACAGTTTCAAATTCCCCTAGTCTGTGCTTCTTTGACAATATGTCATT
CATGAACTTTACTTAATTGGCATTTTCTCTAATGCTTCCACCAGTGGTATGTT
Found at i:45763676 original size:17 final size:16
Alignment explanation
Indices: 45763642--45763672 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45763632 CCTATTTACT
*
45763642 TTCCCTCAAACTTTTA
1 TTCCCTAAAACTTTTA
45763658 TTCCCTAAAACTTTT
1 TTCCCTAAAACTTTT
45763673 TATTTTCCCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (16 bp):
TTCCCTAAAACTTTTA
Found at i:45767820 original size:8 final size:8
Alignment explanation
Indices: 45767807--45767831 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
45767797 TTAGAGTGGG
45767807 CCCATGAT
1 CCCATGAT
45767815 CCCATGAT
1 CCCATGAT
45767823 CCCATGAT
1 CCCATGAT
45767831 C
1 C
45767832 TTTTTCCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.40, G:0.12, T:0.24
Consensus pattern (8 bp):
CCCATGAT
Done.