Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 94 of 135
Found at i:31836064 original size:5 final size:5
Alignment explanation
Indices: 31836060--31836103 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
31836050 TGAGATGAAT
* * *
31836060 GGAAT GGAAT GGAAC GGAAC GGAAC GGAAT GGAAC GGAAC GGAA
1 GGAAC GGAAC GGAAC GGAAC GGAAC GGAAC GGAAC GGAAC GGAA
31836104 TAGAGCGGCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.41, C:0.11, G:0.41, T:0.07
Consensus pattern (5 bp):
GGAAC
Found at i:31836071 original size:10 final size:10
Alignment explanation
Indices: 31836056--31836103 Score: 69
Period size: 10 Copynumber: 4.8 Consensus size: 10
31836046 CAAATGAGAT
*
31836056 GAATGGAATG
1 GAATGGAACG
31836066 GAATGGAACG
1 GAATGGAACG
*
31836076 GAACGGAACG
1 GAATGGAACG
31836086 GAATGGAACG
1 GAATGGAACG
*
31836096 GAACGGAA
1 GAATGGAA
31836104 TAGAGCGGCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 34 1.00
ACGTcount: A:0.42, C:0.10, G:0.40, T:0.08
Consensus pattern (10 bp):
GAATGGAACG
Found at i:31836083 original size:15 final size:15
Alignment explanation
Indices: 31836056--31836104 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
31836046 CAAATGAGAT
* *
31836056 GAATGGAATGGAATG
1 GAATGGAACGGAACG
*
31836071 GAACGGAACGGAACG
1 GAATGGAACGGAACG
31836086 GAATGGAACGGAACG
1 GAATGGAACGGAACG
31836101 GAAT
1 GAAT
31836105 AGAGCGGCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.41, C:0.10, G:0.39, T:0.10
Consensus pattern (15 bp):
GAATGGAACGGAACG
Found at i:31840554 original size:50 final size:51
Alignment explanation
Indices: 31840427--31840565 Score: 142
Period size: 50 Copynumber: 2.7 Consensus size: 51
31840417 AAACTACTGT
* * *
31840427 AGCTTCACTCCATTCCACTGTAACTTCAGGGAGATTGAAATTCGCTGTGGT
1 AGCTTCACTCCATTCCACTATAACTTCAAGGAGATTGAAATTCGCTGTGGA
* * * * * *
31840478 AGTCTTGACT-CAATCCACTGAT-ACTTCAAGGATA-T-AAGATTTGGTGTTGA
1 AG-CTTCACTCCATTCCACT-ATAACTTCAAGGAGATTGAA-ATTCGCTGTGGA
31840528 AGCTTCACTCCATTCCACTATAACTTCAAGGAGATTGA
1 AGCTTCACTCCATTCCACTATAACTTCAAGGAGATTGA
31840566 GATTTACTTC
Statistics
Matches: 69, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
49 10 0.14
50 30 0.43
51 21 0.30
52 8 0.12
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (51 bp):
AGCTTCACTCCATTCCACTATAACTTCAAGGAGATTGAAATTCGCTGTGGA
Found at i:31840648 original size:46 final size:46
Alignment explanation
Indices: 31840580--31840694 Score: 167
Period size: 46 Copynumber: 2.5 Consensus size: 46
31840570 TACTTCTGTG
* *
31840580 AGATGGTAGCTTCAATCTGCCCCTCTTGATTTAGGGGTAAAAGATT
1 AGATGGTGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT
* * *
31840626 GGATGGTGGCTTTAATCTGCCCCTCTTGACTTAGGGGTAAAATATT
1 AGATGGTGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT
* *
31840672 AGATGATGGCTTCAATATGCCCC
1 AGATGGTGGCTTCAATCTGCCCC
31840695 ATAATCGAGG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 60 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (46 bp):
AGATGGTGGCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATT
Found at i:31840776 original size:83 final size:83
Alignment explanation
Indices: 31840657--31840957 Score: 280
Period size: 83 Copynumber: 3.7 Consensus size: 83
31840647 CCTCTTGACT
* * * *
31840657 TAGGGGTAAAATATTAGATGATGGCTTCAATATGCCCCATAATCGAGGTAAGAGATTGGATGATG
1 TAGGGGTAAGAGATTGGATGAT-GCTTCAATATGCCCCATGATCGAGGTAAGAGATTGGATGATG
*
31840722 GCTTCAATCTA-CCCATGA
65 TCTTCAATCTATCCCATGA
* *
31840740 TAGGGGTAAGAGATTGGATGATGTCTTCAATTTGCCCCATGAT-TAGGGTAAGAGATTGGATGAT
1 TAGGGGTAAGAGATTGGATGATG-CTTCAATATGCCCCATGATCGA-GGTAAGAGATTGGATGAT
*
31840804 GTCTTCAATCTATCTCATGA
64 GTCTTCAATCTATCCCATGA
* * ** * *
31840824 TCGGGGTAAGAGATTGGATG--GCTTTAACCTACCCCATGATCGGGGTAAGAGATTGG-TG-TGT
1 TAGGGGTAAGAGATTGGATGATGCTTCAATATGCCCCATGATCGAGGTAAGAGATTGGATGATGT
* ** *
31840885 CTTCAATCTGTCCTTTAA
66 CTTCAATCTATCCCATGA
* * * * * *
31840903 TTA-GGGTAAAAGATT-G--GATGCTTCTATTTGCCTCATGGTCGGGGTAAGAGATTGG
1 -TAGGGGTAAGAGATTGGATGATGCTTCAATATGCCCCATGATCGAGGTAAGAGATTGG
31840958 TGCATCTTTA
Statistics
Matches: 182, Mismatches: 29, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
76 1 0.01
78 30 0.16
79 27 0.15
80 3 0.02
81 28 0.15
82 3 0.02
83 65 0.36
84 25 0.14
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (83 bp):
TAGGGGTAAGAGATTGGATGATGCTTCAATATGCCCCATGATCGAGGTAAGAGATTGGATGATGT
CTTCAATCTATCCCATGA
Found at i:31840837 original size:125 final size:122
Alignment explanation
Indices: 31840611--31840922 Score: 340
Period size: 125 Copynumber: 2.5 Consensus size: 122
31840601 CCTCTTGATT
* * * * *
31840611 TAGGGGTAAAAGATTGGATGGTGGCTTTAATCTGCCCCTCTTGACTTAGGGGTAAAATATTAGAT
1 TAGGGGTAAGAGATTGGAT-GTGTCTTCAATCTG-CCC-CTTGA-TTA-GGGTAAAAGATTGGAT
* *
31840676 GATGGCTTCAATATGCCCCATAATCGAGGTAAGAGATTGGATGATGGCTTCAATCTA-CCCATGA
61 GATGGCTTCAATATACCCCATAATCGAGGTAAGAGATT-G--GATGGCTTCAACCTACCCCATGA
* * *
31840740 TAGGGGTAAGAGATTGGATGATGTCTTCAATTTGCCCCATGATTAGGGTAAGAGATTGGATGATG
1 TAGGGGTAAGAGATTGGATG-TGTCTTCAATCTGCCCCTTGATTAGGGTAAAAGATTGGATGATG
* * * * * * *
31840805 TCTTCAATCTATCTCATGATCGGGGTAAGAGATTGGATGGCTTTAACCTACCCCATGA
65 GCTTCAATATACCCCATAATCGAGGTAAGAGATTGGATGGCTTCAACCTACCCCATGA
* * * *
31840863 TCGGGGTAAGAGATTGG-TGTGTCTTCAATCTGTCCTTTAATTAGGGTAAAAGATTGGATG
1 TAGGGGTAAGAGATTGGATGTGTCTTCAATCTGCCCCTTGATTAGGGTAAAAGATTGGATG
31840923 CTTCTATTTG
Statistics
Matches: 157, Mismatches: 24, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
121 35 0.22
122 15 0.10
123 23 0.15
124 1 0.01
125 44 0.28
126 3 0.02
127 4 0.03
128 4 0.03
129 28 0.18
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (122 bp):
TAGGGGTAAGAGATTGGATGTGTCTTCAATCTGCCCCTTGATTAGGGTAAAAGATTGGATGATGG
CTTCAATATACCCCATAATCGAGGTAAGAGATTGGATGGCTTCAACCTACCCCATGA
Found at i:31840873 original size:39 final size:41
Alignment explanation
Indices: 31840681--31840893 Score: 236
Period size: 42 Copynumber: 5.2 Consensus size: 41
31840671 TAGATGATGG
* * * * *
31840681 CTTCAATATGCCCCATAATCGAGGTAAGAGATTGGATGATGG
1 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGA-GT
*
31840723 CTTCAATCTA-CCCATGATAGGGGTAAGAGATTGGATGATGT
1 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGA-GT
* * **
31840764 CTTCAATTTGCCCCATGATTAGGGTAAGAGATTGGATGATGT
1 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGA-GT
* *
31840806 CTTCAATCTATCTCATGATCGGGGTAAGAGATTGGATG-G-
1 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGAGT
* * *
31840845 CTTTAACCTACCCCATGATCGGGGTAAGAGATTGG-TGTGT
1 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGAGT
31840885 CTTCAATCT
1 CTTCAATCT
31840894 GTCCTTTAAT
Statistics
Matches: 146, Mismatches: 22, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.22
40 8 0.05
41 35 0.24
42 69 0.47
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (41 bp):
CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGAGT
Found at i:31840972 original size:78 final size:77
Alignment explanation
Indices: 31840827--31841170 Score: 291
Period size: 78 Copynumber: 4.4 Consensus size: 77
31840817 CTCATGATCG
* * * * * **
31840827 GGGTAAGAGATTGGATGGCTTTAACCTACCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAAT
1 GGGTAAAAGATTGGAT-GCTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGTGCATCTTCAAT
31840892 CTGTCCTTTAATTA
65 CTG-CCTTTAATTA
* * * *
31840906 GGGTAAAAGATTGGATGCTTCTATTTGCCTCATGGTCGGGGTAAGAGATTGGTGCATCTTTAATC
1 GGGTAAAAGATTGGATGCTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGTGCATCTTCAATC
*
31840971 TGCCTTCTGATTA
66 TGCCTT-TAATTA
* * * * * * *
31840984 GGATAAAATATTGGATGCGTCAATCTGCCCCATGGTCGGGGTAAGAGA-TCG-ACATGTCTTCAA
1 GGGTAAAAGATTGGATGCTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGTGCA--TCTTCAA
*
31841047 TCTGCCCTCTAATTA
64 TCTG-CCTTTAATTA
** * ** *
31841062 AAGTAAAAGATTGGATGCTTCAATCTG-CTCTATGATCGGGGTAAAAGATTGGTGTGTTTTCAAT
1 GGGTAAAAGATTGGATGCTTCAATCTGCCTC-ATGATCGGGGTAAGAGATTGGTGCATCTTCAAT
* *
31841126 CTGCCCTCTGATTA
65 CTG-CCTTTAATTA
* *
31841140 AGGTAAGAGATTGG-TGTATCTTCAATCTGCC
1 GGGTAAAAGATTGGATG---CTTCAATCTGCC
31841171 CTTCTTAACT
Statistics
Matches: 215, Mismatches: 39, Indels: 20
0.78 0.14 0.07
Matches are distributed among these distances:
76 2 0.01
77 10 0.05
78 172 0.80
79 20 0.09
80 10 0.05
81 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (77 bp):
GGGTAAAAGATTGGATGCTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGTGCATCTTCAATC
TGCCTTTAATTA
Found at i:31841145 original size:40 final size:40
Alignment explanation
Indices: 31840867--31841172 Score: 162
Period size: 40 Copynumber: 7.8 Consensus size: 40
31840857 CCATGATCGG
* * * * *
31840867 GGTAAGAGATTGGTGTGTCTTCAATCTGTCCTTTAATTAG
1 GGTAAAAGATTGGTGTGTCTTCAATCTGCCCTCTGATTAA
* * * * ***
31840907 GGTAAAAGATTGG-ATG-CTTCTATTTG-CCTCATGGTCGG
1 GGTAAAAGATTGGTGTGTCTTCAATCTGCCCTC-TGATTAA
* ** * *
31840945 GGTAAGAGATTGGTGCATCTTTAATCTGCCTTCTGATT-A
1 GGTAAAAGATTGGTGTGTCTTCAATCTGCCCTCTGATTAA
* * * * ***
31840984 GGATAAAATATTGG-ATG-CGTCAATCTGCCC-CATGGTCGG
1 GG-TAAAAGATTGGTGTGTCTTCAATCTGCCCTC-TGATTAA
* * *** *
31841023 GGTAAGAGATCGACATGTCTTCAATCTGCCCTCTAATTAA
1 GGTAAAAGATTGGTGTGTCTTCAATCTGCCCTCTGATTAA
* * * * ***
31841063 AGTAAAAGATTGG-ATG-CTTCAATCTGCTCTATGATCGG
1 GGTAAAAGATTGGTGTGTCTTCAATCTGCCCTCTGATTAA
*
31841101 GGTAAAAGATTGGTGTGTTTTCAATCTGCCCTCTGATTAA
1 GGTAAAAGATTGGTGTGTCTTCAATCTGCCCTCTGATTAA
* *
31841141 GGTAAGAGATTGGTGTATCTTCAATCTGCCCT
1 GGTAAAAGATTGGTGTGTCTTCAATCTGCCCT
31841173 TCTTAACTTA
Statistics
Matches: 192, Mismatches: 62, Indels: 24
0.69 0.22 0.09
Matches are distributed among these distances:
37 4 0.02
38 71 0.37
39 14 0.07
40 99 0.52
41 4 0.02
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (40 bp):
GGTAAAAGATTGGTGTGTCTTCAATCTGCCCTCTGATTAA
Found at i:31841153 original size:156 final size:156
Alignment explanation
Indices: 31840828--31841153 Score: 397
Period size: 156 Copynumber: 2.1 Consensus size: 156
31840818 TCATGATCGG
* * * ***
31840828 GGTAAGAGATTGGATGGCTTTAACCTACCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATC
1 GGTAAGAGATTGGATGGCGTCAACCTACCCCATGATCGGGGTAAGAGATCGACATGTCTTCAATC
* * ** * * * *
31840893 TGTCCTTTAATTAGGGTAAAAGATTGGATGCTTCTATTTGCCTCATGGTCGGGGTAAGAGATTGG
66 TGCCCTCTAATTAAAGTAAAAGATTGGATGCTTCAATCTGCCTCATGATCGGGGTAAAAGATTGG
*
31840958 TGCATCTTTAATCTGCCTTCTGATTA
131 TGCATCTTTAATCTGCCCTCTGATTA
* * * * *
31840984 GGATAAAATATTGGAT-GCGTCAATCTGCCCCATGGTCGGGGTAAGAGATCGACATGTCTTCAAT
1 GG-TAAGAGATTGGATGGCGTCAACCTACCCCATGATCGGGGTAAGAGATCGACATGTCTTCAAT
31841048 CTGCCCTCTAATTAAAGTAAAAGATTGGATGCTTCAATCTG-CTCTATGATCGGGGTAAAAGATT
65 CTGCCCTCTAATTAAAGTAAAAGATTGGATGCTTCAATCTGCCTC-ATGATCGGGGTAAAAGATT
**
31841112 GGTGTGT-TTTCAATCTGCCCTCTGATTAA
129 GGTGCATCTTT-AATCTGCCCTCTGATT-A
31841141 GGTAAGAGATTGG
1 GGTAAGAGATTGG
31841154 TGTATCTTCA
Statistics
Matches: 142, Mismatches: 24, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
155 6 0.04
156 122 0.86
157 14 0.10
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (156 bp):
GGTAAGAGATTGGATGGCGTCAACCTACCCCATGATCGGGGTAAGAGATCGACATGTCTTCAATC
TGCCCTCTAATTAAAGTAAAAGATTGGATGCTTCAATCTGCCTCATGATCGGGGTAAAAGATTGG
TGCATCTTTAATCTGCCCTCTGATTA
Found at i:31841548 original size:49 final size:47
Alignment explanation
Indices: 31841495--31841939 Score: 381
Period size: 49 Copynumber: 9.2 Consensus size: 47
31841485 AAGTATAAGA
* * *
31841495 TTCGCCGTTGTGGCTTCAATCTTTCCCCTCACATCTCTAAGGTATAAGG
1 TTCGCCGTTGCGGCTTCAACCTTT-CCCTC-CATCTCTAAGGTACAAGG
* *** * * * *
31841544 TTCGCCATAATGGCTTTAACCTTTCCCTCCATATCTATAGGTTATAAGA
1 TTCGCCGTTGCGGCTTCAACCTTTCCCTCCATCTCTA-AGG-TACAAGG
* * *
31841593 TTCGTCGTTGCGGCTTCAATCC-TTCCCACCACATCTTTAAGGTACAAGG
1 TTCGCCGTTGCGGCTTCAA-CCTTTCCC-TC-CATCTCTAAGGTACAAGG
* * * * * *
31841642 TTCGTCATTGCGACATCAACCTTTCCATTCATCTCTAAGGTACAAGG
1 TTCGCCGTTGCGGCTTCAACCTTTCCCTCCATCTCTAAGGTACAAGG
* * * *
31841689 TTCGTCTTTGCGGCCTCAACCTTTCCCTCGCATCTCTAAGGTATAAGG
1 TTCGCCGTTGCGGCTTCAACCTTTCCCTC-CATCTCTAAGGTACAAGG
** * * *
31841737 TTCGCCGTTATGGCCTCAACCTTTCCCTCCGTATCTCTAGGGTACAAGA
1 TTCGCCGTTGCGGCTTCAACCTTTCCCTCC--ATCTCTAAGGTACAAGG
* * * *
31841786 TTCGCTGTTGCGGCCTT-AACGTTTCCATTCATCTCTAAGGTACAAGG
1 TTCGCCGTTGCGG-CTTCAACCTTTCCCTCCATCTCTAAGGTACAAGG
* * *
31841833 TTCGTCGTTGCGGCCTCAACCTTTCCCTCGTATCTCTAAGGTACAAGG
1 TTCGCCGTTGCGGCTTCAACCTTTCCCTC-CATCTCTAAGGTACAAGG
* * * *
31841881 TTCGCCGTTACAGCCTCAACCTTTCCCTCCGTATCTCTAAGGTACAAGA
1 TTCGCCGTTGCGGCTTCAACCTTTCCCTCC--ATCTCTAAGGTACAAGG
*
31841930 TTCGCTGTTG
1 TTCGCCGTTG
31841940 TAAACTCAAT
Statistics
Matches: 321, Mismatches: 61, Indels: 28
0.78 0.15 0.07
Matches are distributed among these distances:
46 2 0.01
47 84 0.26
48 95 0.30
49 126 0.39
50 8 0.02
51 6 0.02
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.33
Consensus pattern (47 bp):
TTCGCCGTTGCGGCTTCAACCTTTCCCTCCATCTCTAAGGTACAAGG
Found at i:31841682 original size:47 final size:47
Alignment explanation
Indices: 31841561--31841933 Score: 354
Period size: 48 Copynumber: 7.7 Consensus size: 47
31841551 TAATGGCTTT
* * * * *
31841561 AACCTTTCCCTCCATATCTATAGGTTATAAGATTCGTCGTTGCGGCTTC
1 AACCTTTCCCTTCATCTCTA-AGG-TACAAGGTTCGTCGTTGCGGCCTC
* ** * * * *
31841610 AATCCTTCCCACCACATCTTTAAGGTACAAGGTTCGTCATTGCGACATC
1 AA-CCTTTCC-CTTCATCTCTAAGGTACAAGGTTCGTCGTTGCGGCCTC
* *
31841659 AACCTTTCCATTCATCTCTAAGGTACAAGGTTCGTCTTTGCGGCCTC
1 AACCTTTCCCTTCATCTCTAAGGTACAAGGTTCGTCGTTGCGGCCTC
* * * **
31841706 AACCTTTCCCTCGCATCTCTAAGGTATAAGGTTCGCCGTTATGGCCTC
1 AACCTTTCCCT-TCATCTCTAAGGTACAAGGTTCGTCGTTGCGGCCTC
* * * *
31841754 AACCTTTCCCTCCGTATCTCTAGGGTACAAGATTCG-CTGTTGCGGCCTT
1 AACCTTTCCCTTC--ATCTCTAAGGTACAAGGTTCGTC-GTTGCGGCCTC
* *
31841803 AACGTTTCCATTCATCTCTAAGGTACAAGGTTCGTCGTTGCGGCCTC
1 AACCTTTCCCTTCATCTCTAAGGTACAAGGTTCGTCGTTGCGGCCTC
* * *
31841850 AACCTTTCCC-TCGTATCTCTAAGGTACAAGGTTCGCCGTTACAGCCTC
1 AACCTTTCCCTTC--ATCTCTAAGGTACAAGGTTCGTCGTTGCGGCCTC
* *
31841898 AACCTTTCCCTCCGTATCTCTAAGGTACAAGATTCG
1 AACCTTTCCCTTC--ATCTCTAAGGTACAAGGTTCG
31841934 CTGTTGTAAA
Statistics
Matches: 269, Mismatches: 45, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
46 2 0.01
47 79 0.29
48 90 0.33
49 82 0.30
50 9 0.03
51 7 0.03
ACGTcount: A:0.21, C:0.30, G:0.17, T:0.32
Consensus pattern (47 bp):
AACCTTTCCCTTCATCTCTAAGGTACAAGGTTCGTCGTTGCGGCCTC
Found at i:31841815 original size:144 final size:144
Alignment explanation
Indices: 31841663--31841939 Score: 500
Period size: 144 Copynumber: 1.9 Consensus size: 144
31841653 GACATCAACC
*
31841663 TTTCCATTCATCTCTAAGGTACAAGGTTCGTCTTTGCGGCCTCAACCTTTCCCTCGCATCTCTAA
1 TTTCCATTCATCTCTAAGGTACAAGGTTCGTCGTTGCGGCCTCAACCTTTCCCTCGCATCTCTAA
* ** *
31841728 GGTATAAGGTTCGCCGTTATGGCCTCAACCTTTCCCTCCGTATCTCTAGGGTACAAGATTCGCTG
66 GGTACAAGGTTCGCCGTTACAGCCTCAACCTTTCCCTCCGTATCTCTAAGGTACAAGATTCGCTG
31841793 TTGCGGCCTTAACG
131 TTGCGGCCTTAACG
*
31841807 TTTCCATTCATCTCTAAGGTACAAGGTTCGTCGTTGCGGCCTCAACCTTTCCCTCGTATCTCTAA
1 TTTCCATTCATCTCTAAGGTACAAGGTTCGTCGTTGCGGCCTCAACCTTTCCCTCGCATCTCTAA
31841872 GGTACAAGGTTCGCCGTTACAGCCTCAACCTTTCCCTCCGTATCTCTAAGGTACAAGATTCGCTG
66 GGTACAAGGTTCGCCGTTACAGCCTCAACCTTTCCCTCCGTATCTCTAAGGTACAAGATTCGCTG
31841937 TTG
131 TTG
31841940 TAAACTCAAT
Statistics
Matches: 127, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
144 127 1.00
ACGTcount: A:0.19, C:0.30, G:0.19, T:0.32
Consensus pattern (144 bp):
TTTCCATTCATCTCTAAGGTACAAGGTTCGTCGTTGCGGCCTCAACCTTTCCCTCGCATCTCTAA
GGTACAAGGTTCGCCGTTACAGCCTCAACCTTTCCCTCCGTATCTCTAAGGTACAAGATTCGCTG
TTGCGGCCTTAACG
Found at i:31841919 original size:193 final size:193
Alignment explanation
Indices: 31841510--31841934 Score: 527
Period size: 193 Copynumber: 2.2 Consensus size: 193
31841500 CGTTGTGGCT
* * * *
31841510 TCAATCTTTCCCCTCACATCTCTAAGGTATAAGGTTCGCCATAATGGCTTTAACCTTTCCCTCCA
1 TCAACCTTT-CCCTCGCATCTCTAAGGTATAAGGTTCGCCATAATGGCCTCAACCTTTCCCTCCA
* * *
31841575 TATCTATAGGTTATAAGATTCGTCGTTGCGGCTTCAATCCTTCCCACCACATCTTTAAGGTACAA
65 TATCTATAGGGTACAAGATTCGTCGTTGCGGCTTCAATCCTTCCCACCACATCTCTAAGGTACAA
* * * *
31841640 GGTTCGTCATTGCGACATCAACCTTTCCATTCATCTCTAAGGTACAAGGTTCGTCTTTGCGGCC
130 GGTTCGTCATTGCGACATCAACCTTTCCATTCATCTCTAAGGTACAAGGTTCGCCGTTACAGCC
* * *
31841704 TCAACCTTTCCCTCGCATCTCTAAGGTATAAGGTTCGCCGTTATGGCCTCAACCTTTCCCTCCGT
1 TCAACCTTTCCCTCGCATCTCTAAGGTATAAGGTTCGCCATAATGGCCTCAACCTTTCCCTCCAT
* * * **
31841769 ATCTCTAGGGTACAAGATTCG-CTGTTGCGGCCTT-AA-CGTTTCCA-TTCATCTCTAAGGTACA
66 ATCTATAGGGTACAAGATTCGTC-GTTGCGG-CTTCAATCCTTCCCACCACATCTCTAAGGTACA
* * * *
31841830 AGGTTCGTCGTTGCGGCCTCAACCTTTCC-CTCGTATCTCTAAGGTACAAGGTTCGCCGTTACAG
129 AGGTTCGTCATTGCGACATCAACCTTTCCATTC--ATCTCTAAGGTACAAGGTTCGCCGTTACAG
31841894 CC
192 CC
* * *
31841896 TCAACCTTTCCCTCCGTATCTCTAAGGTACAAGATTCGC
1 TCAACCTTTCCCT-CGCATCTCTAAGGTATAAGGTTCGC
31841935 TGTTGTAAAC
Statistics
Matches: 200, Mismatches: 26, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
190 2 0.01
191 40 0.20
192 48 0.24
193 99 0.50
194 11 0.05
ACGTcount: A:0.21, C:0.30, G:0.17, T:0.32
Consensus pattern (193 bp):
TCAACCTTTCCCTCGCATCTCTAAGGTATAAGGTTCGCCATAATGGCCTCAACCTTTCCCTCCAT
ATCTATAGGGTACAAGATTCGTCGTTGCGGCTTCAATCCTTCCCACCACATCTCTAAGGTACAAG
GTTCGTCATTGCGACATCAACCTTTCCATTCATCTCTAAGGTACAAGGTTCGCCGTTACAGCC
Found at i:31842711 original size:21 final size:21
Alignment explanation
Indices: 31842663--31842712 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
31842653 TCGGCCTGAC
31842663 CCATTGACAGTTAACAGTTGA
1 CCATTGACAGTTAACAGTTGA
* *
31842684 CTATTGACTGTTAACAGTTGA
1 CCATTGACAGTTAACAGTTGA
*
31842705 CCGTTGAC
1 CCATTGAC
31842713 CTTTGATCGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (21 bp):
CCATTGACAGTTAACAGTTGA
Found at i:31845777 original size:23 final size:23
Alignment explanation
Indices: 31845734--31845818 Score: 91
Period size: 23 Copynumber: 3.7 Consensus size: 23
31845724 TAATGTTCAT
**
31845734 GAACATGTTCATTTAAC-TTAATC
1 GAACATGTTCA-CGAACATTAATC
* *
31845757 AAACATGTTCACGAACATTAAAC
1 GAACATGTTCACGAACATTAATC
* *
31845780 GAACATGTTCATGAACATATAATT
1 GAACATGTTCACGAACAT-TAATC
31845804 GAACATGTTCACGAA
1 GAACATGTTCACGAA
31845819 TAATGTTAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
22 3 0.06
23 31 0.61
24 17 0.33
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (23 bp):
GAACATGTTCACGAACATTAATC
Found at i:31845850 original size:15 final size:15
Alignment explanation
Indices: 31845830--31845859 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31845820 AATGTTAATG
31845830 AATAATAAACAAATA
1 AATAATAAACAAATA
*
31845845 AATAATAAATAAATA
1 AATAATAAACAAATA
31845860 CATACACAAA
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:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAATAAACAAATA
Found at i:31849781 original size:7 final size:7
Alignment explanation
Indices: 31849769--31849851 Score: 53
Period size: 7 Copynumber: 11.9 Consensus size: 7
31849759 ACCATTAACA
31849769 GTTGATC
1 GTTGATC
31849776 GTTGATC
1 GTTGATC
* *
31849783 ATTGACC
1 GTTGATC
*
31849790 GTT-AAC
1 GTTGATC
*
31849796 AGTTTATC
1 -GTTGATC
31849804 GTTGA-C
1 GTTGATC
*
31849810 AGTTGATA
1 -GTTGATC
*
31849818 GTTGACC
1 GTTGATC
*
31849825 GTTGACC
1 GTTGATC
31849832 GTTGATC
1 GTTGATC
* *
31849839 ATTGACC
1 GTTGATC
31849846 GTTGAT
1 GTTGAT
31849852 AATTGACCAT
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
6 3 0.05
7 53 0.91
8 2 0.03
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (7 bp):
GTTGATC
Found at i:31849787 original size:14 final size:14
Alignment explanation
Indices: 31849770--31849864 Score: 68
Period size: 14 Copynumber: 6.8 Consensus size: 14
31849760 CCATTAACAG
*
31849770 TTGATCGTTGATCA
1 TTGACCGTTGATCA
*
31849784 TTGACCGTT-AACA
1 TTGACCGTTGATCA
* *
31849797 GTTTATCGTTGA-CA
1 -TTGACCGTTGATCA
** * *
31849811 GTTGATAGTTGACCG
1 -TTGACCGTTGATCA
31849826 TTGACCGTTGATCA
1 TTGACCGTTGATCA
*
31849840 TTGACCGTTGATAA
1 TTGACCGTTGATCA
*
31849854 TTGACCATTGA
1 TTGACCGTTGA
31849865 CTGTTGACTT
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
13 3 0.05
14 60 0.92
15 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (14 bp):
TTGACCGTTGATCA
Found at i:31849820 original size:21 final size:21
Alignment explanation
Indices: 31849766--31849850 Score: 73
Period size: 21 Copynumber: 4.0 Consensus size: 21
31849756 TTGACCATTA
* *
31849766 ACAGTTGATCGTTGATCATTG
1 ACAGTTGATAGTTGATCGTTG
* * * *
31849787 ACCGTTAACAGTTTATCGTTG
1 ACAGTTGATAGTTGATCGTTG
*
31849808 ACAGTTGATAGTTGACCGTTG
1 ACAGTTGATAGTTGATCGTTG
* *
31849829 ACCGTTGATCA-TTGACCGTTG
1 ACAGTTGAT-AGTTGATCGTTG
31849850 A
1 A
31849851 TAATTGACCA
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
21 50 0.98
22 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (21 bp):
ACAGTTGATAGTTGATCGTTG
Found at i:31849857 original size:21 final size:21
Alignment explanation
Indices: 31849819--31849872 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
31849809 CAGTTGATAG
** *
31849819 TTGACCGTTGACCGTTGATCA
1 TTGACCGTTGACAATTGACCA
*
31849840 TTGACCGTTGATAATTGACCA
1 TTGACCGTTGACAATTGACCA
*
31849861 TTGACTGTTGAC
1 TTGACCGTTGAC
31849873 TTCTTTCGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (21 bp):
TTGACCGTTGACAATTGACCA
Found at i:31851288 original size:49 final size:49
Alignment explanation
Indices: 31851177--31851354 Score: 124
Period size: 49 Copynumber: 3.6 Consensus size: 49
31851167 GGGTTACAAT
* * * *
31851177 AAGATTCGTCGTTACGGTCTCAATCTTTCCCATAACATCTTTAAGGTAC
1 AAGATTCGTCGTTGCGGCCTCAACCTTTCCCATAACATCTCTAAGGTAC
* * * * * * *
31851226 AAGGTTCGCCGTTGCGGCCTCAACCTTTCCCCTCATATCTCTATGGTTC
1 AAGATTCGTCGTTGCGGCCTCAACCTTTCCCATAACATCTCTAAGGTAC
* * ** * ** * *
31851275 CAGATTCGTCGTTGTGGTTTCAATCC-TTCCCATCATGTCTCCAAGGTAA
1 AAGATTCGTCGTTGCGGCCTCAA-CCTTTCCCATAACATCTCTAAGGTAC
* * * *
31851324 AAGGTTTGTCATTGCAGCCTCAACCTTTCCC
1 AAGATTCGTCGTTGCGGCCTCAACCTTTCCC
31851355 TCCGTATCTC
Statistics
Matches: 96, Mismatches: 31, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
48 2 0.02
49 92 0.96
50 2 0.02
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (49 bp):
AAGATTCGTCGTTGCGGCCTCAACCTTTCCCATAACATCTCTAAGGTAC
Found at i:31851366 original size:98 final size:98
Alignment explanation
Indices: 31851178--31851354 Score: 228
Period size: 98 Copynumber: 1.8 Consensus size: 98
31851168 GGTTACAATA
* ** * * *
31851178 AGATTCGTCGTTACGGTCTCAATCTTTCCCATAACATCTTTAAGGTACAAGGTTCGCCGTTGCGG
1 AGATTCGTCGTTACGGTCTCAATCCTTCCCATAACATCTCCAAGGTAAAAGGTTCGCCATTGCAG
31851243 CCTCAACCTTTCCCCTCATATCTCTATGGTTCC
66 CCTCAACCTTTCCCCTCATATCTCTATGGTTCC
** * * ** * *
31851276 AGATTCGTCGTTGTGGTTTCAATCCTTCCCATCATGTCTCCAAGGTAAAAGGTTTGTCATTGCAG
1 AGATTCGTCGTTACGGTCTCAATCCTTCCCATAACATCTCCAAGGTAAAAGGTTCGCCATTGCAG
31851341 CCTCAACCTTTCCC
66 CCTCAACCTTTCCC
31851355 TCCGTATCTC
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
98 65 1.00
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (98 bp):
AGATTCGTCGTTACGGTCTCAATCCTTCCCATAACATCTCCAAGGTAAAAGGTTCGCCATTGCAG
CCTCAACCTTTCCCCTCATATCTCTATGGTTCC
Found at i:31854261 original size:58 final size:57
Alignment explanation
Indices: 31854191--31854310 Score: 179
Period size: 58 Copynumber: 2.1 Consensus size: 57
31854181 AAAAGGAGTT
* *
31854191 GTTTATGAGTGTTATTTTG-GAATAAAATTATATTTGGGTTTAAAAATATTTGGGTTTA
1 GTTTATAAGTG-T-TTTTGAGAATAAAATTATATTTGGATTTAAAAATATTTGGGTTTA
*
31854249 GTTTATAAGTGTTTTTGAAGAATGAAATTATATTTGGATTTAAAAATATTTGGGTTTA
1 GTTTATAAGTGTTTTTG-AGAATAAAATTATATTTGGATTTAAAAATATTTGGGTTTA
31854307 GTTT
1 GTTT
31854311 GTTGATGGAC
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
56 5 0.09
57 1 0.02
58 51 0.89
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (57 bp):
GTTTATAAGTGTTTTTGAGAATAAAATTATATTTGGATTTAAAAATATTTGGGTTTA
Found at i:31854845 original size:30 final size:30
Alignment explanation
Indices: 31854809--31854876 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
31854799 AACTTATATC
*
31854809 TTTATTATTTTGAAAAGATTAA-AT-TAAATT
1 TTTATTATTTTAAAAAGATTAAGATCT-AA-T
31854839 TTTATTATTTTAAAAAGATTAAGATCTAAT
1 TTTATTATTTTAAAAAGATTAAGATCTAAT
31854869 TTTATTAT
1 TTTATTAT
31854877 AATTAATTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
30 30 0.86
31 4 0.11
32 1 0.03
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.51
Consensus pattern (30 bp):
TTTATTATTTTAAAAAGATTAAGATCTAAT
Found at i:31856366 original size:17 final size:17
Alignment explanation
Indices: 31856335--31856367 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
31856325 TAACGCAAGG
31856335 GACCTTTTCATGATCCC
1 GACCTTTTCATGATCCC
31856352 GACCTGTTTCA-GATCC
1 GACCT-TTTCATGATCC
31856368 GTCACTGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.18, C:0.33, G:0.15, T:0.33
Consensus pattern (17 bp):
GACCTTTTCATGATCCC
Found at i:31862697 original size:34 final size:34
Alignment explanation
Indices: 31862623--31862699 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
31862613 TTTCAGTTTA
* * *
31862623 TGTT-TGCATCTTTAAATTAATGTCTTGTATTAT
1 TGTTCTGCATCTTTAAATTAATGACTTGCAATAT
31862656 T-TATCTGCATCTTTAAATT-ATGACTTGCAATAT
1 TGT-TCTGCATCTTTAAATTAATGACTTGCAATAT
31862689 GTGTTCTGCAT
1 -TGTTCTGCAT
31862700 TTAATTATCT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
32 1 0.03
33 13 0.35
34 22 0.59
35 1 0.03
ACGTcount: A:0.25, C:0.13, G:0.13, T:0.49
Consensus pattern (34 bp):
TGTTCTGCATCTTTAAATTAATGACTTGCAATAT
Found at i:31869342 original size:28 final size:28
Alignment explanation
Indices: 31869297--31869350 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
31869287 GATAAACTAC
* * * *
31869297 CACATAATTGCCATAAATGGCCACATAT
1 CACATAAATGCAAAAAATGACCACATAT
31869325 CACATAAATGCAAAAAATGACCACAT
1 CACATAAATGCAAAAAATGACCACAT
31869351 CTTCCACCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.46, C:0.24, G:0.09, T:0.20
Consensus pattern (28 bp):
CACATAAATGCAAAAAATGACCACATAT
Found at i:31870299 original size:22 final size:22
Alignment explanation
Indices: 31870274--31870323 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
31870264 GGCGGTGCAT
* *
31870274 GGTGGTGCTAGTGGCGACAGAC
1 GGTGGTCCTAGCGGCGACAGAC
* *
31870296 GGTGGTCCTAGCGGCGATAGAT
1 GGTGGTCCTAGCGGCGACAGAC
31870318 GGTGGT
1 GGTGGT
31870324 TAGAGGTGAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.16, C:0.16, G:0.46, T:0.22
Consensus pattern (22 bp):
GGTGGTCCTAGCGGCGACAGAC
Found at i:31872493 original size:28 final size:25
Alignment explanation
Indices: 31872462--31872521 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 25
31872452 ACTTTTCATA
31872462 TTTTTTTCTCACTCATGAATTTTTCTTC
1 TTTTTTTCT-ACTCAT--ATTTTTCTTC
* *
31872490 TTTTGTATCTACTCATCTTTTTCTTC
1 TTTT-TTTCTACTCATATTTTTCTTC
31872516 TTTTTT
1 TTTTTT
31872522 GGATTTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.04
26 13 0.46
28 10 0.36
29 4 0.14
ACGTcount: A:0.12, C:0.20, G:0.03, T:0.65
Consensus pattern (25 bp):
TTTTTTTCTACTCATATTTTTCTTC
Found at i:31879061 original size:19 final size:18
Alignment explanation
Indices: 31879029--31879074 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
31879019 GGGGATGGGA
*
31879029 AATGAGAGGAAAGATGAGAG
1 AATGAGA-G-AAGAAGAGAG
31879049 AATTGAGAGAAGAAGAGAG
1 AA-TGAGAGAAGAAGAGAG
31879068 AATGAGA
1 AATGAGA
31879075 ATGTGAAGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 5 0.21
19 11 0.46
20 3 0.12
21 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.37, T:0.11
Consensus pattern (18 bp):
AATGAGAGAAGAAGAGAG
Found at i:31905874 original size:17 final size:17
Alignment explanation
Indices: 31905848--31905925 Score: 50
Period size: 17 Copynumber: 4.6 Consensus size: 17
31905838 CTGTTGATTA
*
31905848 TCACTACATTTTAATTG
1 TCACTGCATTTTAATTG
**
31905865 TCACTGCATTTGCATTG
1 TCACTGCATTTTAATTG
* * *
31905882 TCATTGTATTTTCATTTG
1 TCACTGCATTTT-AATTG
* * *
31905900 TCATTGTAATTTAA-TG
1 TCACTGCATTTTAATTG
*
31905916 TCAGTGCATT
1 TCACTGCATT
31905926 GGGGACAATG
Statistics
Matches: 47, Mismatches: 13, Indels: 3
0.75 0.21 0.05
Matches are distributed among these distances:
16 9 0.19
17 24 0.51
18 14 0.30
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.49
Consensus pattern (17 bp):
TCACTGCATTTTAATTG
Found at i:31920088 original size:12 final size:12
Alignment explanation
Indices: 31920071--31920118 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
31920061 TTTTGAGAGC
31920071 ATAAAATAAAAG
1 ATAAAATAAAAG
*
31920083 ATAAAATAAAAT
1 ATAAAATAAAAG
* *
31920095 AAAAAATGAAAG
1 ATAAAATAAAAG
31920107 -TAAAAGTAAAAG
1 ATAAAA-TAAAAG
31920119 TTTAAGATGT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
11 4 0.14
12 25 0.86
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (12 bp):
ATAAAATAAAAG
Found at i:31920093 original size:17 final size:18
Alignment explanation
Indices: 31920071--31920118 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
31920061 TTTTGAGAGC
31920071 ATAAAATAAAAGAT-AAA
1 ATAAAATAAAAGATGAAA
*
31920088 ATAAAATAAAAAATGAAA
1 ATAAAATAAAAGATGAAA
*
31920106 GTAAAAGTAAAAG
1 ATAAAA-TAAAAG
31920119 TTTAAGATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 13 0.50
18 8 0.31
19 5 0.19
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (18 bp):
ATAAAATAAAAGATGAAA
Found at i:31922182 original size:20 final size:21
Alignment explanation
Indices: 31922135--31922187 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
31922125 TAGTGCAGAT
31922135 TTCTACCGATACAAGTGATAG
1 TTCTACCGATACAAGTGATAG
*
31922156 TTCTACCGATACAAGT-TTACG
1 TTCTACCGATACAAGTGATA-G
31922177 -TCTACCGATAC
1 TTCTACCGATAC
31922188 TAAAATCTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (21 bp):
TTCTACCGATACAAGTGATAG
Found at i:31936281 original size:17 final size:17
Alignment explanation
Indices: 31936242--31936289 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
31936232 TGATATGTAG
**
31936242 AAATGCAATGACAATGT
1 AAATGCAATGACAATAA
* *
31936259 AGATGCAGTGACAATAA
1 AAATGCAATGACAATAA
31936276 AAATGCAATGACAA
1 AAATGCAATGACAA
31936290 AGGAAATGTG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.19
Consensus pattern (17 bp):
AAATGCAATGACAATAA
Found at i:31936296 original size:17 final size:17
Alignment explanation
Indices: 31936241--31936297 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
31936231 ATGATATGTA
*
31936241 GAAATGCAATGACAATG
1 GAAATGCAATGACAAAG
* * *
31936258 TAGATGCAGTGACAATA-
1 GAAATGCAATGACAA-AG
*
31936275 AAAATGCAATGACAAAG
1 GAAATGCAATGACAAAG
31936292 GAAATG
1 GAAATG
31936298 TGATAACAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
16 1 0.03
17 29 0.97
ACGTcount: A:0.49, C:0.11, G:0.23, T:0.18
Consensus pattern (17 bp):
GAAATGCAATGACAAAG
Found at i:31956251 original size:21 final size:22
Alignment explanation
Indices: 31956227--31956268 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
31956217 AATCAAAAAG
31956227 AAAAGAAAAATGAGT-AGAAAC
1 AAAAGAAAAATGAGTAAGAAAC
**
31956248 AAAAGAATCATGAGTAAGAAA
1 AAAAGAAAAATGAGTAAGAAA
31956269 ACATGTGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.64, C:0.05, G:0.19, T:0.12
Consensus pattern (22 bp):
AAAAGAAAAATGAGTAAGAAAC
Found at i:31958434 original size:56 final size:56
Alignment explanation
Indices: 31958237--31958434 Score: 243
Period size: 56 Copynumber: 3.5 Consensus size: 56
31958227 TTGAACCGAA
* * ***** *
31958237 ATAGCTTTACGCTCTCACCGAGACATAAACAAACCAAAGCTCTACCTGAGCTATAC
1 ATAGCATTACGCTCTAACCGAGACATAAGTGTTCCAAAGCTCTACCCGAGCTATAC
* * * * *
31958293 ATAGCATTACGTTGTAACTGAGACATAAGCGTTCCAAAGCTCTACTCGAGCTATAC
1 ATAGCATTACGCTCTAACCGAGACATAAGTGTTCCAAAGCTCTACCCGAGCTATAC
* *
31958349 ATAGCATTACACTCTAACCAAGACATAAGTGTTCCAAAGCTCTACCCGAGCTATAC
1 ATAGCATTACGCTCTAACCGAGACATAAGTGTTCCAAAGCTCTACCCGAGCTATAC
* *
31958405 ATGGCATTACGCTCTAACCGAGACGTAAGT
1 ATAGCATTACGCTCTAACCGAGACATAAGT
31958435 AGATCGGAGC
Statistics
Matches: 120, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 120 1.00
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.24
Consensus pattern (56 bp):
ATAGCATTACGCTCTAACCGAGACATAAGTGTTCCAAAGCTCTACCCGAGCTATAC
Found at i:31958455 original size:56 final size:56
Alignment explanation
Indices: 31958270--31958458 Score: 175
Period size: 56 Copynumber: 3.4 Consensus size: 56
31958260 CATAAACAAA
* ** * ** * *
31958270 CCAAAGCTCT-ACCTGAGCTATACATAGCATTACGTTGTAACTGAGACATAAGCGTT
1 CCAAAGCTCTAATC-GAGCTATACATAGCATTACACTCTAACCAAGACATAAGTGAT
* *
31958326 CCAAAGCTCTACTCGAGCTATACATAGCATTACACTCTAACCAAGACATAAGTGTT
1 CCAAAGCTCTAATCGAGCTATACATAGCATTACACTCTAACCAAGACATAAGTGAT
** * * * *
31958382 CCAAAGCTCTACCCGAGCTATACATGGCATTACGCTCTAACCGAGACGTAAGTAGAT
1 CCAAAGCTCTAATCGAGCTATACATAGCATTACACTCTAACCAAGACATAAGT-GAT
** *
31958439 -CGGAGCTTTAATCGAGCTAT
1 CCAAAGCTCTAATCGAGCTAT
31958459 CCTTCGACAA
Statistics
Matches: 112, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
56 109 0.97
57 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (56 bp):
CCAAAGCTCTAATCGAGCTATACATAGCATTACACTCTAACCAAGACATAAGTGAT
Found at i:31958740 original size:9 final size:9
Alignment explanation
Indices: 31958726--31958755 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
31958716 CCTTTTTGGA
31958726 AAATTTATT
1 AAATTTATT
31958735 AAATTTATT
1 AAATTTATT
31958744 AAATTTATT
1 AAATTTATT
31958753 AAA
1 AAA
31958756 CCATTTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
AAATTTATT
Found at i:31966447 original size:19 final size:19
Alignment explanation
Indices: 31966405--31966448 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
31966395 GTCTCACGTC
31966405 AAAAAATAATTTAAAATTA
1 AAAAAATAATTTAAAATTA
* *
31966424 TAAAAAT-ATTTCAAAGTTA
1 AAAAAATAATTT-AAAATTA
31966443 AAAAAA
1 AAAAAA
31966449 AACATATAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAAAATAATTTAAAATTA
Found at i:31970267 original size:18 final size:17
Alignment explanation
Indices: 31970228--31970267 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
31970218 TATATAAAAA
*
31970228 GAAAAAAAAGTATTTTT
1 GAAAAAAAAGTATTTTG
*
31970245 AAAAAAAAAGTTATTTTG
1 GAAAAAAAAG-TATTTTG
31970263 GAAAA
1 GAAAA
31970268 TTAAAAAAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (17 bp):
GAAAAAAAAGTATTTTG
Found at i:31973681 original size:941 final size:941
Alignment explanation
Indices: 31971859--31973743 Score: 3617
Period size: 941 Copynumber: 2.0 Consensus size: 941
31971849 GGTAACCTAA
31971859 CAATGTGATTTAGTTGGTGTAGGGAAACGATACTGGACCAACCTCGAGAAAAATATCATTTAGAG
1 CAATGTGATTTAGTTGGTGTAGGGAAACGATACTGGACCAACCTCGAGAAAAATATCATTTAGAG
31971924 TGGGTTTCGTGACACTGATGCCATGGAAGTCGCAACACCCAAACCTATCACCTTGAGGATGCAAA
66 TGGGTTTCGTGACACTGATGCCATGGAAGTCGCAACACCCAAACCTATCACCTTGAGGATGCAAA
*
31971989 ACTTCAAAAAAATCAACATGGAGCTTACTATTATGAGAGTCGTGAAACCAAAGGATGGAAGTTGT
131 ACTTCAAAAAAATCAACATGGAGCTTACTATTATGAGAGTCGTGAAACCAAAGGATGGAAGTCGT
31972054 AACGTCGAGCCAAAGTCGCGATACCGACCCTCCGAAGTCATGATACCCTAGGAGGTGTTGAATTG
196 AACGTCGAGCCAAAGTCGCGATACCGACCCTCCGAAGTCATGATACCCTAGGAGGTGTTGAATTG
* *
31972119 AAGAAATTGAGGCCAACTCTAGTGATCTCGCAACACTAAGAACCATAGGATCCACAAATTCACCA
261 AAGAAATTGAGGCCAACTCTAGTGATCTCGCAACACCAAGAACCATAAGATCCACAAATTCACCA
*
31972184 TTTTTGGGTGTTGTGACATTAAAGCCTTGGTATCGCGAAACCACAACCTGACCTGGAAAAATTAG
326 TTTTTGGGTGTTGTGACACTAAAGCCTTGGTATCGCGAAACCACAACCTGACCTGGAAAAATTAG
*
31972249 CTGGAATTGTTATCTTTTGTCCATATTTCTTTATTGATGGAATCCTTTACAATAAGTCATTTACC
391 CTGGAATTGTTATCTTTTGTCCATATTTCTTTATTGATGGAATCCTTTACAATAAGACATTTACC
31972314 TATCCTTTGCTACTCCATCACTCCCTAGGCGAGTCTACGAAAGCCATTTGGAGGGTGAAGCTTAA
456 TATCCTTTGCTACTCCATCACTCCCTAGGCGAGTCTACGAAAGCCATTTGGAGGGTGAAGCTTAA
31972379 GCTTAAAAAGCCTTGTGGCAGGGGTACTTTTGGCATTGATTAAAAATCAGTGCTACTAATCTAAT
521 GCTTAAAAAGCCTTGTGGCAGGGGTACTTTTGGCATTGATTAAAAATCAGTGCTACTAATCTAAT
* * *
31972444 TAAAAGATGAGAGCGAAGTTAGAAAGTTCACCACTTACTAAGACAACTAGTTGAGATGTTAAAAA
586 TAAAAGATGAGAGCGAAGTTAGAAAGTTCACAACTTACTAAGACAACTAGCTAAGATGTTAAAAA
*
31972509 ATATCTTCAACCCGAAGCCCTACATGACTTGGGGTATTAATATGCTGGGCCCATTTCTATTGGTC
651 ATATCTTCAACCCGAAACCCTACATGACTTGGGGTATTAATATGCTGGGCCCATTTCTATTGGTC
31972574 ACAAGGAAGCAAATTTTATTATTGTTGCTTGTGATTATTTTATGAAACGAGTAGAAGTAGAACTC
716 ACAAGGAAGCAAATTTTATTATTGTTGCTTGTGATTATTTTATGAAACGAGTAGAAGTAGAACTC
31972639 ATTGCAATCCTCACTACAATAGTTGTAGAAAGTTTTCTCTTGAAAAATGTCTTATGTCGATTTAG
781 ATTGCAATCCTCACTACAATAGTTGTAGAAAGTTTTCTCTTGAAAAATGTCTTATGTCGATTTAG
31972704 AATACATAAAGTTAAATTTAGCCCGCAACATTTATCTTTTGTCAATTTGGCCCTTGTTTGTTTTA
846 AATACATAAAGTTAAATTTAGCCCGCAACATTTATCTTTTGTCAATTTGGCCCTTGTTTGTTTTA
31972769 GCTAAATTTGATTTTTAACATTTTAAATTGT
911 GCTAAATTTGATTTTTAACATTTTAAATTGT
31972800 CAATGTGATTTAGTTGGTGTAGGGAAACGATACTGGACCAACCTCGAGAAAAATATCATTTAGAG
1 CAATGTGATTTAGTTGGTGTAGGGAAACGATACTGGACCAACCTCGAGAAAAATATCATTTAGAG
31972865 TGGGTTTCGTGACACTGATGCCATGGAAGTCGCAACACCCAAACCTATCACCTTGAGGATGCAAA
66 TGGGTTTCGTGACACTGATGCCATGGAAGTCGCAACACCCAAACCTATCACCTTGAGGATGCAAA
31972930 ACTTCAAAAAAATCAACATGGAGCTTACTATTATGAGAGTCGTGAAACCAAAGGATGGAAGTCGT
131 ACTTCAAAAAAATCAACATGGAGCTTACTATTATGAGAGTCGTGAAACCAAAGGATGGAAGTCGT
*
31972995 GACGTCGAGCCAAAGTCGCGATACCGACCCTCCGAAGTCATGATACCCTAGGAGGTGTTGAATTG
196 AACGTCGAGCCAAAGTCGCGATACCGACCCTCCGAAGTCATGATACCCTAGGAGGTGTTGAATTG
* * * *
31973060 AAGAAATTGAGGCTAACTCTAGTGATGTCGTAACACCGAGAACCATAAGATCCACAAATTCACCA
261 AAGAAATTGAGGCCAACTCTAGTGATCTCGCAACACCAAGAACCATAAGATCCACAAATTCACCA
*
31973125 TTTTTGGGTGTTGTGACACTAAAGCCTTGGTATCGCGATACCACAACCTGACCTGGAAAAATTAG
326 TTTTTGGGTGTTGTGACACTAAAGCCTTGGTATCGCGAAACCACAACCTGACCTGGAAAAATTAG
31973190 CTGGAATTGTTATCTTTTGTCCATATTTCTTTATTGATGGAATCCTTTACAATAAGACATTTACC
391 CTGGAATTGTTATCTTTTGTCCATATTTCTTTATTGATGGAATCCTTTACAATAAGACATTTACC
*
31973255 TATCCTTTGCTACTCCATCACTCCCTAGGCGAGTCTACGAAAGCCATTTGGAGGGTGAAGCTTAT
456 TATCCTTTGCTACTCCATCACTCCCTAGGCGAGTCTACGAAAGCCATTTGGAGGGTGAAGCTTAA
31973320 GCTTAAAAAGCCTTGTGGCAGGGGTACTTTTGGCATTGATTAAAAATCAGTGCTACTAATCTAAT
521 GCTTAAAAAGCCTTGTGGCAGGGGTACTTTTGGCATTGATTAAAAATCAGTGCTACTAATCTAAT
*
31973385 TAAAAGATGCGAGCGAAGTTAGAAAGTTCACAACTTACTAAGACAACTAGCTAAGATGTTAAAAA
586 TAAAAGATGAGAGCGAAGTTAGAAAGTTCACAACTTACTAAGACAACTAGCTAAGATGTTAAAAA
31973450 ATATCTTCAACCCGAAACCCTACATGACTTGGGGTATTAATATGCTGGGCCCATTTCTATTGGTC
651 ATATCTTCAACCCGAAACCCTACATGACTTGGGGTATTAATATGCTGGGCCCATTTCTATTGGTC
31973515 ACAAGGAAGCAAATTTTATTATTGTTGCTTGTGATTATTTTATGAAACGAGTAGAAGTAGAACTC
716 ACAAGGAAGCAAATTTTATTATTGTTGCTTGTGATTATTTTATGAAACGAGTAGAAGTAGAACTC
31973580 ATTGCAATCCTCACTACAATAGTTGTAGAAAGTTTTCTCTTGAAAAATGTCTTATGTCGATTTAG
781 ATTGCAATCCTCACTACAATAGTTGTAGAAAGTTTTCTCTTGAAAAATGTCTTATGTCGATTTAG
31973645 AATACATAAAGTTAAATTTAGCCCGCAACATTTATCTTTTGTCAATTTGGCCCTTGTTTGTTTTA
846 AATACATAAAGTTAAATTTAGCCCGCAACATTTATCTTTTGTCAATTTGGCCCTTGTTTGTTTTA
31973710 GCTAAATTTGATTTTTAACATTTTAAATTGT
911 GCTAAATTTGATTTTTAACATTTTAAATTGT
31973741 CAA
1 CAA
31973744 ATCTCTTTTT
Statistics
Matches: 927, Mismatches: 17, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
941 927 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (941 bp):
CAATGTGATTTAGTTGGTGTAGGGAAACGATACTGGACCAACCTCGAGAAAAATATCATTTAGAG
TGGGTTTCGTGACACTGATGCCATGGAAGTCGCAACACCCAAACCTATCACCTTGAGGATGCAAA
ACTTCAAAAAAATCAACATGGAGCTTACTATTATGAGAGTCGTGAAACCAAAGGATGGAAGTCGT
AACGTCGAGCCAAAGTCGCGATACCGACCCTCCGAAGTCATGATACCCTAGGAGGTGTTGAATTG
AAGAAATTGAGGCCAACTCTAGTGATCTCGCAACACCAAGAACCATAAGATCCACAAATTCACCA
TTTTTGGGTGTTGTGACACTAAAGCCTTGGTATCGCGAAACCACAACCTGACCTGGAAAAATTAG
CTGGAATTGTTATCTTTTGTCCATATTTCTTTATTGATGGAATCCTTTACAATAAGACATTTACC
TATCCTTTGCTACTCCATCACTCCCTAGGCGAGTCTACGAAAGCCATTTGGAGGGTGAAGCTTAA
GCTTAAAAAGCCTTGTGGCAGGGGTACTTTTGGCATTGATTAAAAATCAGTGCTACTAATCTAAT
TAAAAGATGAGAGCGAAGTTAGAAAGTTCACAACTTACTAAGACAACTAGCTAAGATGTTAAAAA
ATATCTTCAACCCGAAACCCTACATGACTTGGGGTATTAATATGCTGGGCCCATTTCTATTGGTC
ACAAGGAAGCAAATTTTATTATTGTTGCTTGTGATTATTTTATGAAACGAGTAGAAGTAGAACTC
ATTGCAATCCTCACTACAATAGTTGTAGAAAGTTTTCTCTTGAAAAATGTCTTATGTCGATTTAG
AATACATAAAGTTAAATTTAGCCCGCAACATTTATCTTTTGTCAATTTGGCCCTTGTTTGTTTTA
GCTAAATTTGATTTTTAACATTTTAAATTGT
Found at i:31973909 original size:19 final size:19
Alignment explanation
Indices: 31973864--31973909 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
31973854 TCTCAAGAGA
*
31973864 AAAAATA-ATTTCAAATTT
1 AAAAATATATTTCAAAATT
* *
31973882 TAACA-ATATTTCAAAATT
1 AAAAATATATTTCAAAATT
31973900 AAAAATATAT
1 AAAAATATAT
31973910 ATATAAGAAG
Statistics
Matches: 21, Mismatches: 5, Indels: 3
0.72 0.17 0.10
Matches are distributed among these distances:
17 1 0.05
18 16 0.76
19 4 0.19
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATATATTTCAAAATT
Found at i:31975158 original size:8 final size:8
Alignment explanation
Indices: 31975145--31975178 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
31975135 CCACCCTAAC
31975145 ATAAAATG
1 ATAAAATG
31975153 ATAAAATG
1 ATAAAATG
31975161 ATAAAATG
1 ATAAAATG
31975169 ATAAAATG
1 ATAAAATG
31975177 AT
1 AT
31975179 TTTAGATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.26
Consensus pattern (8 bp):
ATAAAATG
Found at i:31976544 original size:13 final size:13
Alignment explanation
Indices: 31976523--31976558 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
31976513 CAGATGCAAG
* *
31976523 AAAGAAAAAGGGC
1 AAAGCAAAAGGCC
31976536 AAAGCAAAAGGCC
1 AAAGCAAAAGGCC
31976549 AAAGCAAAAG
1 AAAGCAAAAG
31976559 TAGATGATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.61, C:0.14, G:0.25, T:0.00
Consensus pattern (13 bp):
AAAGCAAAAGGCC
Found at i:31977057 original size:12 final size:12
Alignment explanation
Indices: 31977042--31977083 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
31977032 GAAGAAGTGG
31977042 AAGAAGAAGGAA
1 AAGAAGAAGGAA
31977054 AAGAAGAA-GAA
1 AAGAAGAAGGAA
* *
31977065 AGAGAGGAAGCAA
1 A-AGAAGAAGGAA
31977078 AAGAAG
1 AAGAAG
31977084 TCGAGGCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 4 0.16
12 18 0.72
13 3 0.12
ACGTcount: A:0.64, C:0.02, G:0.33, T:0.00
Consensus pattern (12 bp):
AAGAAGAAGGAA
Found at i:31977558 original size:17 final size:18
Alignment explanation
Indices: 31977532--31977576 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
31977522 TGCATTTTTA
31977532 ATTT-TCATTGCATGTGC
1 ATTTGTCATTGCATGTGC
* *
31977549 A-TTGTCATTGCATTTTC
1 ATTTGTCATTGCATGTGC
31977566 ATTTGTCATTG
1 ATTTGTCATTG
31977577 TAAATTAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 2 0.08
17 13 0.54
18 9 0.38
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.51
Consensus pattern (18 bp):
ATTTGTCATTGCATGTGC
Found at i:31977573 original size:18 final size:18
Alignment explanation
Indices: 31977518--31977576 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
31977508 ATTCCCTTTC
*
31977518 TCATTGCATTTTTAATTT-
1 TCATTGCA-TTTTCATTTG
* *
31977536 TCATTGCATGTGCA-TTG
1 TCATTGCATTTTCATTTG
31977553 TCATTGCATTTTCATTTG
1 TCATTGCATTTTCATTTG
31977571 TCATTG
1 TCATTG
31977577 TAAATTAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
16 2 0.06
17 15 0.44
18 17 0.50
ACGTcount: A:0.19, C:0.15, G:0.14, T:0.53
Consensus pattern (18 bp):
TCATTGCATTTTCATTTG
Found at i:31977949 original size:21 final size:21
Alignment explanation
Indices: 31977923--31977965 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
31977913 TTATGAATGA
*
31977923 AAGACACTCCAATATTGGTGT
1 AAGACACTCCAATATGGGTGT
31977944 AAGACACTCCAATATGGGTGT
1 AAGACACTCCAATATGGGTGT
31977965 A
1 A
31977966 TTGTGAACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (21 bp):
AAGACACTCCAATATGGGTGT
Found at i:31979435 original size:335 final size:334
Alignment explanation
Indices: 31978820--31979490 Score: 1146
Period size: 335 Copynumber: 2.0 Consensus size: 334
31978810 TAACCAACTC
*
31978820 GTACGGCCAGAGAATGCTAGATCTGAAAGGAAGGACACCTGTACTGTTAAGCTGCAATTAAATAT
1 GTACGGCCAGAGAATGCTAGATCTGAAAGGAAGGACACCTGTACTATTAAGCTGCAATTAAATAT
31978885 TAATGAGATAAGAGAGAAAGGATCTTCTTTTTTCAGCCGGATTTGATTTCCTTCTTCAATACACT
66 TAATGAGATAAGAGAGAAAGGATCTTCTTTTTTCAGCCGGATTTGATTTCCTTCTTCAATACACT
*
31978950 TTTCTCAAAGCTTGCATCCATGGCAGCTTAACTTCCCAAGGGCGAGCTGACGCAAAAAAGAAGGC
131 TTTCTCAAAGCTTGCATCCATGGCAGCTTAACTTCCCAAGGGCGACCTGACGCAAAAAAGAAGGC
*
31979015 AGATCTGCTCCTGACGAGGAGCATCCTAAGTGCGACCCAAGAGGAGAGTAAGGGAGCAATTTAAG
196 AGATCTGATCCTGACGAGGAGCATCCTAAGTGCGACCCAAGAGGAGAGTAAGGGAGCAATTTAAG
* *
31979080 TAGACTAGGAATAGAATGCCCTATTTGTTTTGTTATTTCTCATTCTTAAACGCTGGTAGTTCTTG
261 TAGACTAGGAATAGAATGCCCCATTTGTTCTGTTATTTCTCATTCTTAAACGCTGGTAGTTCTTG
31979145 TTAATTCAA
326 TTAATTCAA
* *
31979154 GTACGGCCAGAGAATGCTAGATCTGAAAGGAAGGACACCTGTACTATTCAGCTTCAATTAAATAT
1 GTACGGCCAGAGAATGCTAGATCTGAAAGGAAGGACACCTGTACTATTAAGCTGCAATTAAATAT
* * * *
31979219 TAATGAGATGAGGGAGAAAGGATCTTCTTTTTTTAGCCGGATTTGATTTTCTTCTTCAATACACA
66 TAATGAGATAAGAGAGAAAGGATCTTCTTTTTTCAGCCGGATTTGATTTCCTTCTTCAATACAC-
* * *
31979284 TTTTCTCAAAGCTTGCATCCATGGCAGCTTAACTTCCCAAGGGCGACCTGATGCAGAAGAGAAGG
130 TTTTCTCAAAGCTTGCATCCATGGCAGCTTAACTTCCCAAGGGCGACCTGACGCAAAAAAGAAGG
* * *
31979349 CAGATCTGATTCTGATG-GGAAGCATCCTAAGTGCGACCCAAGAGGAGAGTAAGGGAGCAATTTG
195 CAGATCTGATCCTGACGAGG-AGCATCCTAAGTGCGACCCAAGAGGAGAGTAAGGGAGCAATTTA
* *
31979413 AGTAGACTAGGAATATAATGCCCCATTTGTTCTGTTATTTCTCGTTCTTAAACGCTGGTAGTTCT
259 AGTAGACTAGGAATAGAATGCCCCATTTGTTCTGTTATTTCTCATTCTTAAACGCTGGTAGTTCT
31979478 TGTTAATTCAA
324 TGTTAATTCAA
31979489 GT
1 GT
31979491 TGTATGGAAG
Statistics
Matches: 316, Mismatches: 19, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
334 124 0.39
335 192 0.61
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (334 bp):
GTACGGCCAGAGAATGCTAGATCTGAAAGGAAGGACACCTGTACTATTAAGCTGCAATTAAATAT
TAATGAGATAAGAGAGAAAGGATCTTCTTTTTTCAGCCGGATTTGATTTCCTTCTTCAATACACT
TTTCTCAAAGCTTGCATCCATGGCAGCTTAACTTCCCAAGGGCGACCTGACGCAAAAAAGAAGGC
AGATCTGATCCTGACGAGGAGCATCCTAAGTGCGACCCAAGAGGAGAGTAAGGGAGCAATTTAAG
TAGACTAGGAATAGAATGCCCCATTTGTTCTGTTATTTCTCATTCTTAAACGCTGGTAGTTCTTG
TTAATTCAA
Found at i:31982990 original size:26 final size:26
Alignment explanation
Indices: 31982961--31983012 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
31982951 AAGTTATAGA
31982961 CTTGAAAGTTGGAATACTACATATGG
1 CTTGAAAGTTGGAATACTACATATGG
31982987 CTTGAAAGTTGGAATACTACATATGG
1 CTTGAAAGTTGGAATACTACATATGG
31983013 ATTGGTAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.31
Consensus pattern (26 bp):
CTTGAAAGTTGGAATACTACATATGG
Found at i:31983652 original size:21 final size:21
Alignment explanation
Indices: 31983604--31983655 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
31983594 GGAGTTTTTA
* *
31983604 GTATCTGTAGAAGTATGACAT
1 GTATCGGTAGAAGTATCACAT
* * *
31983625 GTTTCGGTAGAAGTCTCACTT
1 GTATCGGTAGAAGTATCACAT
31983646 GTATCGGTAG
1 GTATCGGTAG
31983656 TACTGCTTCA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.35
Consensus pattern (21 bp):
GTATCGGTAGAAGTATCACAT
Found at i:31988255 original size:36 final size:36
Alignment explanation
Indices: 31988208--31988279 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
31988198 TGGGGGGAAC
31988208 TATGGCTGAAAAAGAAGTAGTTGTTGTAGTAGAGGA
1 TATGGCTGAAAAAGAAGTAGTTGTTGTAGTAGAGGA
*
31988244 TATGGCTGAAAAAGAAGTAGTTGTTTTAGTAGAGGA
1 TATGGCTGAAAAAGAAGTAGTTGTTGTAGTAGAGGA
31988280 GCAAATAACC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.36, C:0.03, G:0.32, T:0.29
Consensus pattern (36 bp):
TATGGCTGAAAAAGAAGTAGTTGTTGTAGTAGAGGA
Found at i:31993105 original size:14 final size:15
Alignment explanation
Indices: 31993081--31993111 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
31993071 GAGTGTTTTT
31993081 AAAGTATAAAAATAA
1 AAAGTATAAAAATAA
31993096 AAAG-ATAAAAATAA
1 AAAGTATAAAAATAA
31993110 AA
1 AA
31993112 TAAATAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.16
Consensus pattern (15 bp):
AAAGTATAAAAATAA
Found at i:32005511 original size:32 final size:32
Alignment explanation
Indices: 32005475--32005536 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
32005465 AGCTTTTGGG
32005475 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
1 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
*
32005507 TTTTTCGTGTTGTCAAAGAGTTGAACAATG
1 TTTTTCATGTTGTCAAAGAGTTGAACAATG
32005537 AAAATAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (32 bp):
TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
Found at i:32008575 original size:5 final size:5
Alignment explanation
Indices: 32008544--32008574 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
32008534 CTTGCCCTTA
*
32008544 ACTTT ACTTT ACTTT ACTTT ACTTT AATTT A
1 ACTTT ACTTT ACTTT ACTTT ACTTT ACTTT A
32008575 AGGCTATGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.26, C:0.16, G:0.00, T:0.58
Consensus pattern (5 bp):
ACTTT
Found at i:32013687 original size:18 final size:18
Alignment explanation
Indices: 32013664--32013700 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
32013654 ATACTAATCT
32013664 AATACTAATAGAATAGAA
1 AATACTAATAGAATAGAA
*
32013682 AATACTAATATAATAGAA
1 AATACTAATAGAATAGAA
32013700 A
1 A
32013701 GAAAAGAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.05, G:0.08, T:0.24
Consensus pattern (18 bp):
AATACTAATAGAATAGAA
Found at i:32013691 original size:6 final size:6
Alignment explanation
Indices: 32013623--32013673 Score: 56
Period size: 6 Copynumber: 9.2 Consensus size: 6
32013613 GGGATCACTA
* *
32013623 ACTAAT ACTAAT -CTAAT ACTAAT A-GAAT A-GAAT ACTAAT -CTAAT
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT
32013667 ACTAAT A
1 ACTAAT A
32013674 GAATAGAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
5 19 0.47
6 21 0.52
ACGTcount: A:0.51, C:0.14, G:0.04, T:0.31
Consensus pattern (6 bp):
ACTAAT
Found at i:32013703 original size:27 final size:29
Alignment explanation
Indices: 32013626--32013696 Score: 119
Period size: 27 Copynumber: 2.5 Consensus size: 29
32013616 ATCACTAACT
32013626 AATACTAATCTAATACTAATAGAATAG--
1 AATACTAATCTAATACTAATAGAATAGAA
32013653 AATACTAATCTAATACTAATAGAATAGAA
1 AATACTAATCTAATACTAATAGAATAGAA
*
32013682 AATACTAATATAATA
1 AATACTAATCTAATA
32013697 GAAAGAAAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 27 0.66
29 14 0.34
ACGTcount: A:0.55, C:0.10, G:0.06, T:0.30
Consensus pattern (29 bp):
AATACTAATCTAATACTAATAGAATAGAA
Found at i:32014213 original size:12 final size:13
Alignment explanation
Indices: 32014192--32014218 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32014182 GAATAAAATA
32014192 AAATCAAAAAAAG
1 AAATCAAAAAAAG
32014205 AAATCAAAAAAAG
1 AAATCAAAAAAAG
32014218 A
1 A
32014219 GAGGAAAAAA
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:0.78, C:0.07, G:0.07, T:0.07
Consensus pattern (13 bp):
AAATCAAAAAAAG
Found at i:32021914 original size:18 final size:18
Alignment explanation
Indices: 32021851--32021911 Score: 86
Period size: 18 Copynumber: 3.4 Consensus size: 18
32021841 CAAGGTCACG
*
32021851 ATCAATAGCGTTACTATC
1 ATCAATAGCGTCACTATC
* *
32021869 ATCAAAAGCGTCACTAGC
1 ATCAATAGCGTCACTATC
*
32021887 ATCAATATCGTCACTATC
1 ATCAATAGCGTCACTATC
32021905 ATCAATA
1 ATCAATA
32021912 TCGATATCAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.28
Consensus pattern (18 bp):
ATCAATAGCGTCACTATC
Found at i:32021919 original size:15 final size:17
Alignment explanation
Indices: 32021863--32021926 Score: 69
Period size: 18 Copynumber: 3.8 Consensus size: 17
32021853 CAATAGCGTT
* *
32021863 ACTATCATCAAAAGCGTC
1 ACTATCATCAATATCG-C
*
32021881 ACTAGCATCAATATCGTC
1 ACTATCATCAATATCG-C
32021899 ACTATCATCAATATCG-
1 ACTATCATCAATATCGC
32021915 A-TATCATCAATA
1 ACTATCATCAATA
32021927 AGAAAACCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
15 11 0.26
16 1 0.02
18 30 0.71
ACGTcount: A:0.39, C:0.25, G:0.08, T:0.28
Consensus pattern (17 bp):
ACTATCATCAATATCGC
Found at i:32024318 original size:21 final size:21
Alignment explanation
Indices: 32024288--32024376 Score: 63
Period size: 21 Copynumber: 4.1 Consensus size: 21
32024278 CTCATAAAGA
* *
32024288 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTAGAC
* * *
32024308 AAAAAGAGAAGAAAGTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
* * *
32024329 AAAAATAAAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
32024350 AAAAAGAAACGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTAACTTAGAC
32024374 AAA
1 AAA
32024377 TCTTTTTTGT
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
20 6 0.11
21 33 0.61
23 1 0.02
24 14 0.26
ACGTcount: A:0.56, C:0.08, G:0.22, T:0.13
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTAGAC
Found at i:32042737 original size:14 final size:14
Alignment explanation
Indices: 32042718--32042745 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
32042708 CTCATTAATG
32042718 GTGCTTGACTTTAA
1 GTGCTTGACTTTAA
32042732 GTGCTTGACTTTAA
1 GTGCTTGACTTTAA
32042746 TGATGCCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.43
Consensus pattern (14 bp):
GTGCTTGACTTTAA
Found at i:32046322 original size:26 final size:26
Alignment explanation
Indices: 32046279--32046329 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
32046269 AATTCTAGGC
*
32046279 ACAATTCTGGACACGTTCATGCAGCT
1 ACAATTCTGAACACGTTCATGCAGCT
*
32046305 ACAATTCTGAACATGTTCATGCAGC
1 ACAATTCTGAACACGTTCATGCAGC
32046330 GACATTCCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (26 bp):
ACAATTCTGAACACGTTCATGCAGCT
Found at i:32055351 original size:26 final size:26
Alignment explanation
Indices: 32055322--32055377 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
32055312 CAGATGCGGT
32055322 GACAATTCTAGACACGTTCATGCAGC
1 GACAATTCTAGACACGTTCATGCAGC
* *
32055348 GACAATTCTGGACATGTTCATGCAGC
1 GACAATTCTAGACACGTTCATGCAGC
32055374 GACA
1 GACA
32055378 TTCCTAGCTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.23
Consensus pattern (26 bp):
GACAATTCTAGACACGTTCATGCAGC
Found at i:32055408 original size:37 final size:38
Alignment explanation
Indices: 32055367--32055451 Score: 111
Period size: 38 Copynumber: 2.3 Consensus size: 38
32055357 GGACATGTTC
* *
32055367 ATGCAGCGACA-TTCCTAGCTGCAA-TTGGAGAATACTT
1 ATGCAGCGACAGTT-CTAGATGCAATTTGAAGAATACTT
* *
32055404 ATGCAGCGATAGTTCTAGATGCAATTTGAAGAATATTT
1 ATGCAGCGACAGTTCTAGATGCAATTTGAAGAATACTT
32055442 ATGCAGCGAC
1 ATGCAGCGAC
32055452 TGTCTTGGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
37 19 0.46
38 22 0.54
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (38 bp):
ATGCAGCGACAGTTCTAGATGCAATTTGAAGAATACTT
Found at i:32058579 original size:36 final size:36
Alignment explanation
Indices: 32058528--32058772 Score: 294
Period size: 36 Copynumber: 6.8 Consensus size: 36
32058518 TCAAAAAGAA
* *
32058528 GCATACATCTCGGTTAGAGCGTATTGCTATGATGTT
1 GCATACGTCTCAGTTAGAGCGTATTGCTATGATGTT
** * *
32058564 GCATACGTCTTGGTTAGAGCGTACTACTATGATGTT
1 GCATACGTCTCAGTTAGAGCGTATTGCTATGATGTT
* * *
32058600 GCATACATCTCAGTTAGAGTGAATTGCTATGATGTT
1 GCATACGTCTCAGTTAGAGCGTATTGCTATGATGTT
*
32058636 GCATACGTCTCAGTTAGAGCGTATTGCTAAGATGTT
1 GCATACGTCTCAGTTAGAGCGTATTGCTATGATGTT
* * * *
32058672 ACATACATCTCAGTTAGAGTGTATTGCTATGAAGTT
1 GCATACGTCTCAGTTAGAGCGTATTGCTATGATGTT
* *
32058708 GCATACGTCTTAGTTAGAGTGTATTGCTATGTAT-TT
1 GCATACGTCTCAGTTAGAGCGTATTGCTATG-ATGTT
* * * *
32058744 GCTTACGTCTTAGTTAAAGCGTAATGCTA
1 GCATACGTCTCAGTTAGAGCGTATTGCTA
32058773 AGTGATCGCT
Statistics
Matches: 180, Mismatches: 28, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
36 179 0.99
37 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (36 bp):
GCATACGTCTCAGTTAGAGCGTATTGCTATGATGTT
Found at i:32058784 original size:36 final size:36
Alignment explanation
Indices: 32058711--32058795 Score: 91
Period size: 36 Copynumber: 2.4 Consensus size: 36
32058701 TGAAGTTGCA
* * * * *
32058711 TACGTCTTAGTTAGAGTGTATTGCTATGTATTTGCT
1 TACGTCTTAGTTAAAGCGTAATGCTAAGTATTCGCT
32058747 TACGTCTTAGTTAAAGCGTAATGCTAAGTGA-TCGCT
1 TACGTCTTAGTTAAAGCGTAATGCTAAGT-ATTCGCT
* *
32058783 TATGTCTTGGTTA
1 TACGTCTTAGTTA
32058796 GAGCATAAGG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
36 40 0.98
37 1 0.02
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.42
Consensus pattern (36 bp):
TACGTCTTAGTTAAAGCGTAATGCTAAGTATTCGCT
Found at i:32059061 original size:19 final size:19
Alignment explanation
Indices: 32059037--32059075 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
32059027 TTTATCTCAT
32059037 TTCATTATATGCCATGTAC
1 TTCATTATATGCCATGTAC
32059056 TTCATTATATGCCATGTAC
1 TTCATTATATGCCATGTAC
32059075 T
1 T
32059076 AGGGATTTTA
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:0.26, C:0.21, G:0.10, T:0.44
Consensus pattern (19 bp):
TTCATTATATGCCATGTAC
Found at i:32063940 original size:24 final size:24
Alignment explanation
Indices: 32063890--32063943 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
32063880 CGACAAAAAT
* *
32063890 TTCTTCCTTCTCTCCTTCTTTTCC
1 TTCTTCCTTCTCTCCTCCTTCTCC
*
32063914 TTCTTCCTTTTCCTCCTCCTTCT-C
1 TTCTTCCTTCT-CTCCTCCTTCTCC
32063938 TTCTTC
1 TTCTTC
32063944 TTTCCCATCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (24 bp):
TTCTTCCTTCTCTCCTCCTTCTCC
Found at i:32079130 original size:42 final size:42
Alignment explanation
Indices: 32078977--32079691 Score: 607
Period size: 42 Copynumber: 16.8 Consensus size: 42
32078967 TTTGGTTTTA
* * *
32078977 GGGGTAAAAGATTTGATGGTGGCTTCAATCTTTCCCTCTTGATTT
1 GGGGTAAAAGATTGGATGGTGGCTTCAATC-TGCCCTCTGGA--T
* * * * * *
32079022 AAGGGTAAAAGATTGGATGGCGACTTCAATTTACCCCTCTTGATTT
1 -GGGGTAAAAGATTGGATGGTGGCTTCAATCT-GCCCTCTGGA--T
* *
32079068 AGGGGTAAAAGATTAGATGGTGGCTTCAATCTACCCTCTGGAT
1 -GGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCTCTGGAT
* * * * *
32079111 GAGGTAAAAGATTTGATGGTGGCTTCAATTTGTCCTCT-GCT
1 GGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCTCTGGAT
* * * *
32079152 GGGGGTAAATGATTGGATGGTAGCTTCAA-CTTGCCCTCTAGTT
1 -GGGGTAAAAGATTGGATGGTGGCTTCAATC-TGCCCTCTGGAT
* * * * *
32079195 CGGGTAAAAAATTGGATGGTGGCTTCGATCTGCACT-TTGATT
1 GGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCTCTGGA-T
* * * * *
32079237 GGGGTAAAAGATTGGACGGTGGCTTTAATCTACTCTCTGGTT
1 GGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCTCTGGAT
* * *
32079279 GGGGTAAAAGATTGGTTGGTGGCTTCAAGCCGCCCTCT-GATT
1 GGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCTCTGGA-T
* * * * * * *
32079321 GGGGTAAAATATTGGATTGTGACTTCCATCTACCCTCTAGTT
1 GGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCTCTGGAT
* *
32079363 GGGGTAAAAGATTGGAATTGTGGC-TCAATCTGCCCTCTGGTT
1 GGGGTAAAAGATTGG-ATGGTGGCTTCAATCTGCCCTCTGGAT
* * * *
32079405 GGGGTAAAAGATTGGATGATGGCTTCAATCTGCCCCCTAGTT
1 GGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCTCTGGAT
* * * *
32079447 GGGGTAAAAGATTGGATGTTGGCTTCAATCTACCCTCTAGTT
1 GGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCTCTGGAT
* * * * *
32079489 AGGGTAAAAGATTGGATAGTGGCTTCAATCTTCTCTCTGGTT
1 GGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCTCTGGAT
* * *
32079531 AGGGTAAAAGATTGGATGGTTGCTTCAATTTGCCCTCTGGAT
1 GGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCTCTGGAT
* * *
32079573 GGTGTAAAAGATTGGATGGTGGCTTCAATCTTCCC-CTTGATT
1 GGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCTCTGGA-T
* * * * *
32079615 TGGGTAAAAGATTCGATAGTGGCTTCAATCTTCCCT-TTGATT
1 GGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCTCTGGA-T
* * ** *
32079657 TGGGTAAAAGATTCGACAGTGGCTTCAATATGCCC
1 GGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCC
32079692 CTTTTAATTT
Statistics
Matches: 559, Mismatches: 97, Indels: 30
0.81 0.14 0.04
Matches are distributed among these distances:
41 15 0.03
42 457 0.82
43 14 0.03
45 9 0.02
46 64 0.11
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (42 bp):
GGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCTCTGGAT
Found at i:32079189 original size:84 final size:84
Alignment explanation
Indices: 32078977--32079685 Score: 699
Period size: 84 Copynumber: 8.3 Consensus size: 84
32078967 TTTGGTTTTA
* * * *
32078977 GGGGTAAAAGATTTGATGGTGGCTTCAATCTTTCCCTCTTGATTTAAGGGTAAAAGATTGGATGG
1 GGGGTAAAAGATTGGATGGTGGCTTCAATC-TACCCTC-T-AGTT-GGGGTAAAAGATTGGATGG
* * * *
32079042 CGACTTCAATTTACCCCTCTTGATTT
62 TGGCTTCAATCT-GCCCTC-TGA-TT
* * * * *
32079068 AGGGGTAAAAGATTAGATGGTGGCTTCAATCTACCCTCTGGATGAGGTAAAAGATTTGATGGTGG
1 -GGGGTAAAAGATTGGATGGTGGCTTCAATCTACCCTCTAGTTGGGGTAAAAGATTGGATGGTGG
* * * *
32079133 CTTCAATTTGTCCTCTGCTG
65 CTTCAATCTGCCCTCTGATT
* * * * *
32079153 GGGGTAAATGATTGGATGGTAGCTTCAA-CTTGCCCTCTAGTTCGGGTAAAAAATTGGATGGTGG
1 GGGGTAAAAGATTGGATGGTGGCTTCAATC-TACCCTCTAGTTGGGGTAAAAGATTGGATGGTGG
* * *
32079217 CTTCGATCTGCACTTTGATT
65 CTTCAATCTGCCCTCTGATT
* * * * *
32079237 GGGGTAAAAGATTGGACGGTGGCTTTAATCTACTCTCTGGTTGGGGTAAAAGATTGGTTGGTGGC
1 GGGGTAAAAGATTGGATGGTGGCTTCAATCTACCCTCTAGTTGGGGTAAAAGATTGGATGGTGGC
* *
32079302 TTCAAGCCGCCCTCTGATT
66 TTCAATCTGCCCTCTGATT
* * * * *
32079321 GGGGTAAAATATTGGATTGTGACTTCCATCTACCCTCTAGTTGGGGTAAAAGATTGGAATTGTGG
1 GGGGTAAAAGATTGGATGGTGGCTTCAATCTACCCTCTAGTTGGGGTAAAAGATTGG-ATGGTGG
*
32079386 C-TCAATCTGCCCTCTGGTT
65 CTTCAATCTGCCCTCTGATT
* * * *
32079405 GGGGTAAAAGATTGGATGATGGCTTCAATCTGCCCCCTAGTTGGGGTAAAAGATTGGATGTTGGC
1 GGGGTAAAAGATTGGATGGTGGCTTCAATCTACCCTCTAGTTGGGGTAAAAGATTGGATGGTGGC
*
32079470 TTCAATCTACCCTCT-AGTT
66 TTCAATCTGCCCTCTGA-TT
* * * * * * *
32079489 AGGGTAAAAGATTGGATAGTGGCTTCAATCTTCTCTCTGGTTAGGGTAAAAGATTGGATGGTTGC
1 GGGGTAAAAGATTGGATGGTGGCTTCAATCTACCCTCTAGTTGGGGTAAAAGATTGGATGGTGGC
*
32079554 TTCAATTTGCCCTCTGGA-T
66 TTCAATCTGCCCTCT-GATT
* * * * * *
32079573 GGTGTAAAAGATTGGATGGTGGCTTCAATCTTCCC-CTTGATTTGGGTAAAAGATTCGATAGTGG
1 GGGGTAAAAGATTGGATGGTGGCTTCAATCTACCCTCTAG-TTGGGGTAAAAGATTGGATGGTGG
* *
32079637 CTTCAATCTTCCCTTTGATT
65 CTTCAATCTGCCCTCTGATT
* * **
32079657 TGGGTAAAAGATTCGACAGTGGCTTCAAT
1 GGGGTAAAAGATTGGATGGTGGCTTCAAT
32079686 ATGCCCCTTT
Statistics
Matches: 509, Mismatches: 99, Indels: 26
0.80 0.16 0.04
Matches are distributed among these distances:
83 12 0.02
84 419 0.82
85 8 0.02
86 3 0.01
87 4 0.01
88 26 0.05
89 1 0.00
90 1 0.00
91 6 0.01
92 29 0.06
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.33
Consensus pattern (84 bp):
GGGGTAAAAGATTGGATGGTGGCTTCAATCTACCCTCTAGTTGGGGTAAAAGATTGGATGGTGGC
TTCAATCTGCCCTCTGATT
Found at i:32079685 original size:126 final size:127
Alignment explanation
Indices: 32078977--32079691 Score: 717
Period size: 126 Copynumber: 5.6 Consensus size: 127
32078967 TTTGGTTTTA
* * *
32078977 GGGGTAAAAGATTTGATGGTGGCTTCAATCTTTCCCTCTTGATTTAAGGGTAAAAGATTGGATGG
1 GGGGTAAAAGATTGGATGGTGGCTTCAATC-TTCCCTC-TG-GTT-GGGGTAAAAGATTGGATGG
* * * * *
32079042 CGACTTCAATTTACCCCTCTTGATTTAGGGGTAAAAGATTAGATGGTGGCTTCAATCTACCCTCT
62 TGGCTTCAATTT-GCCCTCTAGA--T-GGGGTAAAAGATTGGATGGTGGCTTCAATCTACCCTCT
*
32079107 GGA-T
123 AGATT
* * * * * * *
32079111 GAGGTAAAAGATTTGATGGTGGCTTCAAT-TTGTCCTCTGCTGGGGGTAAATGATTGGATGGTAG
1 GGGGTAAAAGATTGGATGGTGGCTTCAATCTT-CCCTCTGGTTGGGGTAAAAGATTGGATGGTGG
* * * * * * * *
32079175 CTTCAACTTGCCCTCTAGTTCGGGTAAAAAATTGGATGGTGGCTTCGATCTGCACT-TTGATT
65 CTTCAATTTGCCCTCTAGATGGGGTAAAAGATTGGATGGTGGCTTCAATCTACCCTCTAGATT
* * * * *
32079237 GGGGTAAAAGATTGGACGGTGGCTTTAATCTACTCTCTGGTTGGGGTAAAAGATTGGTTGGTGGC
1 GGGGTAAAAGATTGGATGGTGGCTTCAATCTTCCCTCTGGTTGGGGTAAAAGATTGGATGGTGGC
*** * * * *
32079302 TTCAAGCCGCCCTCT-GATTGGGGTAAAATATTGGATTGTGACTTCCATCTACCCTCTAG-TT
66 TTCAATTTGCCCTCTAGA-TGGGGTAAAAGATTGGATGGTGGCTTCAATCTACCCTCTAGATT
* * *
32079363 GGGGTAAAAGATTGGAATTGTGGC-TCAATCTGCCCTCTGGTTGGGGTAAAAGATTGGATGATGG
1 GGGGTAAAAGATTGG-ATGGTGGCTTCAATCTTCCCTCTGGTTGGGGTAAAAGATTGGATGGTGG
* * * *
32079427 CTTCAATCTGCCCCCTAGTTGGGGTAAAAGATTGGATGTTGGCTTCAATCTACCCTCTAG-TT
65 CTTCAATTTGCCCTCTAGATGGGGTAAAAGATTGGATGGTGGCTTCAATCTACCCTCTAGATT
* * * * *
32079489 AGGGTAAAAGATTGGATAGTGGCTTCAATCTTCTCTCTGGTTAGGGTAAAAGATTGGATGGTTGC
1 GGGGTAAAAGATTGGATGGTGGCTTCAATCTTCCCTCTGGTTGGGGTAAAAGATTGGATGGTGGC
* * * *
32079554 TTCAATTTGCCCTCTGGATGGTGTAAAAGATTGGATGGTGGCTTCAATCTTCCC-CTTGATT
66 TTCAATTTGCCCTCTAGATGGGGTAAAAGATTGGATGGTGGCTTCAATCTACCCTCTAGATT
* * * * * * * **
32079615 TGGGTAAAAGATTCGATAGTGGCTTCAATCTTCCCTTTGATTTGGGTAAAAGATTCGACAGTGGC
1 GGGGTAAAAGATTGGATGGTGGCTTCAATCTTCCCTCTGGTTGGGGTAAAAGATTGGATGGTGGC
*
32079680 TTCAATATGCCC
66 TTCAATTTGCCC
32079692 CTTTTAATTT
Statistics
Matches: 486, Mismatches: 86, Indels: 26
0.81 0.14 0.04
Matches are distributed among these distances:
125 14 0.03
126 392 0.81
127 11 0.02
129 7 0.01
130 25 0.05
131 1 0.00
132 4 0.01
133 4 0.01
134 28 0.06
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (127 bp):
GGGGTAAAAGATTGGATGGTGGCTTCAATCTTCCCTCTGGTTGGGGTAAAAGATTGGATGGTGGC
TTCAATTTGCCCTCTAGATGGGGTAAAAGATTGGATGGTGGCTTCAATCTACCCTCTAGATT
Found at i:32080067 original size:97 final size:97
Alignment explanation
Indices: 32079738--32080214 Score: 436
Period size: 97 Copynumber: 4.9 Consensus size: 97
32079728 AACTTCACCC
* * * * * * * *
32079738 CATTCCACTACAACTTTA-AGGAGGTTGAGATCCACTATTGTAGTTTTAATCAGCTTCACTGCAA
1 CATTCCACTGCAACTTCAGTGGAGATTGAGATCCGCTACT-T-GTTTTAATCCGCTTCACTACAA
* * * *
32079802 CTTCAGGAAGATAGGATTTGGTGTGGTAACTTCGCTC
64 CTTTAGGAAGATAGGATTTGGTTTGG---CTTCACTT
* * * * * * * * * * * * **
32079839 CATTCCACTTCAACTTCTG-GGAGATTGTGGTCCGTTGCTTATTTTAGTACGATCCATTGTAACT
1 CATTCCACTGCAACTTCAGTGGAGATTGAGATCCGCTACTTGTTTTAATCCGCTTCACTACAACT
* *
32079903 TTAGGGATATAGGATTTGAGGTTGTGGCTTCACTT
66 TTAGGAAGATAGGATTT--GGTT-TGGCTTCACTT
* * * * * * *
32079938 TATTCCACTACAACTTTAGTGGAGATTGAGATCTGCTACTTATTTTAATTCGCTTTACTACAACT
1 CATTCCACTGCAACTTCAGTGGAGATTGAGATCCGCTACTTGTTTTAATCCGCTTCACTACAACT
*
32080003 TCAGGAAGATAGGATTTGGTTTGGCTTCACTT
66 TTAGGAAGATAGGATTTGGTTTGGCTTCACTT
* * *
32080035 CATTCCACTGCAACTTCAGTGGATATTAAGATCCGCTACTTGTTTTAATCCGCTTCATTACAACT
1 CATTCCACTGCAACTTCAGTGGAGATTGAGATCCGCTACTTGTTTTAATCCGCTTCACTACAACT
* *
32080100 TTAGGAAGATAGGATTTGGTGTGGCTTCACTC
66 TTAGGAAGATAGGATTTGGTTTGGCTTCACTT
* * * * * *
32080132 CATTCCATTGTAACTTCAATGGAGATTGAGATCCGCTAGTTGTTTTAATCCACTTCACTGCAACT
1 CATTCCACTGCAACTTCAGTGGAGATTGAGATCCGCTACTTGTTTTAATCCGCTTCACTACAACT
*
32080197 TTAGGAAGATGGGATTTG
66 TTAGGAAGATAGGATTTG
32080215 ACATTGTAAC
Statistics
Matches: 304, Mismatches: 67, Indels: 14
0.79 0.17 0.04
Matches are distributed among these distances:
97 168 0.55
98 4 0.01
99 51 0.17
100 47 0.15
101 31 0.10
102 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (97 bp):
CATTCCACTGCAACTTCAGTGGAGATTGAGATCCGCTACTTGTTTTAATCCGCTTCACTACAACT
TTAGGAAGATAGGATTTGGTTTGGCTTCACTT
Found at i:32080180 original size:194 final size:196
Alignment explanation
Indices: 32079730--32080214 Score: 512
Period size: 194 Copynumber: 2.5 Consensus size: 196
32079720 GGTGATGTAA
* * * *
32079730 CTTCACCCCATTCCACTACAACTTTAA-GGAGGTTGAGATCCACTATTGTAGTTTTAA-TCAGCT
1 CTTCACTCCATTCCACTACAACTTTAATGGAGATTGAGATCCGCTA--GTTGTTTTAATTC-GCT
* * *
32079793 TCACTGCAACTTCAGGAAGATAGGATTTGGTGTGGTAACTTCGCTCCATTCCACTTCAACTTCTG
63 TCACTGCAACTTCAGGAAGATAGGATTTGGTGTGG--ACTTCACTCCATTCCACTGCAACTTCAG
** * * * * ** * *
32079858 GGAGATTGTGGTCCGTTGCTTATTTTAGTACGATCCATTGTAACTTTAGGGATATAGGATTTGAG
126 GGAGATTAAGATCCGCTACTTATTTTAATACGATCCATTACAACTTTAGGAAGATAGGATTT-AG
32079923 GTTGTGG
190 GTTGTGG
** * * * * *
32079930 CTTCACTTTATTCCACTACAACTTTAGTGGAGATTGAGATCTGCTACTTATTTTAATTCGCTTTA
1 CTTCACTCCATTCCACTACAACTTTAATGGAGATTGAGATCCGCTAGTTGTTTTAATTCGCTTCA
* * * *
32079995 CTACAACTTCAGGAAGATAGGATTTGGTTTGG-CTTCACTTCATTCCACTGCAACTTCAGTGGAT
66 CTGCAACTTCAGGAAGATAGGATTTGGTGTGGACTTCACTCCATTCCACTGCAACTTCAG-GGAG
* * * *
32080059 ATTAAGATCCGCTACTTGTTTTAATCCGCTTCATTACAACTTTAGGAAGATAGGATTT-GG-TGT
130 ATTAAGATCCGCTACTTATTTTAATACGATCCATTACAACTTTAGGAAGATAGGATTTAGGTTGT
32080122 GG
195 GG
* ** * * *
32080124 CTTCACTCCATTCCATTGTAACTTCAATGGAGATTGAGATCCGCTAGTTGTTTTAATCCACTTCA
1 CTTCACTCCATTCCACTACAACTTTAATGGAGATTGAGATCCGCTAGTTGTTTTAATTCGCTTCA
* *
32080189 CTGCAACTTTAGGAAGATGGGATTTG
66 CTGCAACTTCAGGAAGATAGGATTTG
32080215 ACATTGTAAC
Statistics
Matches: 234, Mismatches: 48, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
194 80 0.34
195 2 0.01
196 23 0.10
197 47 0.20
199 42 0.18
200 25 0.11
201 15 0.06
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (196 bp):
CTTCACTCCATTCCACTACAACTTTAATGGAGATTGAGATCCGCTAGTTGTTTTAATTCGCTTCA
CTGCAACTTCAGGAAGATAGGATTTGGTGTGGACTTCACTCCATTCCACTGCAACTTCAGGGAGA
TTAAGATCCGCTACTTATTTTAATACGATCCATTACAACTTTAGGAAGATAGGATTTAGGTTGTG
G
Found at i:32082970 original size:15 final size:16
Alignment explanation
Indices: 32082950--32082979 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
32082940 GTTAGCTAAA
32082950 GAAAAGAA-AAAAAGT
1 GAAAAGAACAAAAAGT
32082965 GAAAAGAACAAAAAG
1 GAAAAGAACAAAAAG
32082980 AAAATGAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.73, C:0.03, G:0.20, T:0.03
Consensus pattern (16 bp):
GAAAAGAACAAAAAGT
Found at i:32082998 original size:23 final size:23
Alignment explanation
Indices: 32082972--32083016 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
32082962 AGTGAAAAGA
32082972 ACAAAAAGAAAATGAGT-AGAAAT
1 ACAAAAAGAAAA-GAGTAAGAAAT
32082995 ACAAAAAGAAAAGAGTAAGAAA
1 ACAAAAAGAAAAGAGTAAGAAA
32083017 AAATGTGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.69, C:0.04, G:0.18, T:0.09
Consensus pattern (23 bp):
ACAAAAAGAAAAGAGTAAGAAAT
Found at i:32086520 original size:58 final size:58
Alignment explanation
Indices: 32086408--32086520 Score: 138
Period size: 58 Copynumber: 1.9 Consensus size: 58
32086398 ATACGTAGAT
** **
32086408 TTTCAAGATGCCCTTTACGGATTCTCATCTCGAATTTTTTTTCTTTTCTTTCTTTGGG
1 TTTCAAGATGCCCTTTACGGATTCTCATCTCGAACCTTTTTTCTTACCTTTCTTTGGG
* * * *
32086466 TTTCAAGATGCCCTTTATGGGTTTTCATCTCGACCCTTTTTT-TTACCTTCTCTTT
1 TTTCAAGATGCCCTTTACGGATTCTCATCTCGAACCTTTTTTCTTACCTT-TCTTT
32086521 TAATAGGATG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
57 5 0.11
58 41 0.89
ACGTcount: A:0.13, C:0.23, G:0.12, T:0.51
Consensus pattern (58 bp):
TTTCAAGATGCCCTTTACGGATTCTCATCTCGAACCTTTTTTCTTACCTTTCTTTGGG
Found at i:32088816 original size:61 final size:61
Alignment explanation
Indices: 32088742--32088866 Score: 232
Period size: 61 Copynumber: 2.0 Consensus size: 61
32088732 CCATTACATG
* *
32088742 AGGTTTGAGTTCTAAAGTAAGGGTACCCAAAATAATATATTCCTCAATTCTCACCCATTAT
1 AGGTTTGAATTCTAAAGTAAGGGTACCCAAAACAATATATTCCTCAATTCTCACCCATTAT
32088803 AGGTTTGAATTCTAAAGTAAGGGTACCCAAAACAATATATTCCTCAATTCTCACCCATTAT
1 AGGTTTGAATTCTAAAGTAAGGGTACCCAAAACAATATATTCCTCAATTCTCACCCATTAT
32088864 AGG
1 AGG
32088867 CTCATACGGA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (61 bp):
AGGTTTGAATTCTAAAGTAAGGGTACCCAAAACAATATATTCCTCAATTCTCACCCATTAT
Found at i:32094299 original size:111 final size:111
Alignment explanation
Indices: 32094105--32094330 Score: 452
Period size: 111 Copynumber: 2.0 Consensus size: 111
32094095 GCAACAAACT
32094105 CCCAAGGAGCATGTAATTGTGTCGACACACACTCTTGCAGTGACAATCTTTGGCTAGATAATTTT
1 CCCAAGGAGCATGTAATTGTGTCGACACACACTCTTGCAGTGACAATCTTTGGCTAGATAATTTT
32094170 TCTAACACTTGTAGTGGAGTGTTCCCCCTTGTTGAGTCACAATTCA
66 TCTAACACTTGTAGTGGAGTGTTCCCCCTTGTTGAGTCACAATTCA
32094216 CCCAAGGAGCATGTAATTGTGTCGACACACACTCTTGCAGTGACAATCTTTGGCTAGATAATTTT
1 CCCAAGGAGCATGTAATTGTGTCGACACACACTCTTGCAGTGACAATCTTTGGCTAGATAATTTT
32094281 TCTAACACTTGTAGTGGAGTGTTCCCCCTTGTTGAGTCACAATTCA
66 TCTAACACTTGTAGTGGAGTGTTCCCCCTTGTTGAGTCACAATTCA
32094327 CCCA
1 CCCA
32094331 CGTTGGAGTG
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 115 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.32
Consensus pattern (111 bp):
CCCAAGGAGCATGTAATTGTGTCGACACACACTCTTGCAGTGACAATCTTTGGCTAGATAATTTT
TCTAACACTTGTAGTGGAGTGTTCCCCCTTGTTGAGTCACAATTCA
Found at i:32095210 original size:15 final size:15
Alignment explanation
Indices: 32095192--32095225 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
32095182 TTCTTCCCTC
*
32095192 TCTTTTTTTTCTTCA
1 TCTTTTCTTTCTTCA
*
32095207 TCTTTTCTTTCTTCT
1 TCTTTTCTTTCTTCA
32095222 TCTT
1 TCTT
32095226 CTACCTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (15 bp):
TCTTTTCTTTCTTCA
Found at i:32095221 original size:18 final size:17
Alignment explanation
Indices: 32095169--32095223 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
32095159 GTCGGGGCAA
32095169 CATCTTCTTCTTTTTCTT
1 CATCTT-TTCTTTTTCTT
*
32095187 CCCTCTCTTT-TTTTTCTT
1 -CATCT-TTTCTTTTTCTT
32095205 CATCTTTTCTTTCTTCTT
1 CATCTTTTCTTT-TTCTT
32095223 C
1 C
32095224 TTCTACCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
16 3 0.10
17 7 0.23
18 14 0.45
19 6 0.19
20 1 0.03
ACGTcount: A:0.04, C:0.31, G:0.00, T:0.65
Consensus pattern (17 bp):
CATCTTTTCTTTTTCTT
Found at i:32105216 original size:17 final size:17
Alignment explanation
Indices: 32105196--32105239 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
32105186 AAATGCTAGA
32105196 ACAAATAAAATGCAAAG
1 ACAAATAAAATGCAAAG
*
32105213 AC-AATAAAAATGCAATG
1 ACAAAT-AAAATGCAAAG
*
32105230 ACAATTAAAA
1 ACAAATAAAA
32105240 GAAATGCATG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 3 0.13
17 18 0.78
18 2 0.09
ACGTcount: A:0.64, C:0.11, G:0.09, T:0.16
Consensus pattern (17 bp):
ACAAATAAAATGCAAAG
Found at i:32105667 original size:15 final size:15
Alignment explanation
Indices: 32105632--32105684 Score: 72
Period size: 15 Copynumber: 3.5 Consensus size: 15
32105622 TGGGGAAACG
*
32105632 TCTTCTTAATTTTCT
1 TCTTCTTATTTTTCT
32105647 TCCTTCTTATTTTTCT
1 T-CTTCTTATTTTTCT
32105663 TCTTCTT-TTCTTTCT
1 TCTTCTTATT-TTTCT
32105678 TCTTCTT
1 TCTTCTT
32105685 CTGCCTCAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
14 2 0.06
15 19 0.54
16 14 0.40
ACGTcount: A:0.06, C:0.25, G:0.00, T:0.70
Consensus pattern (15 bp):
TCTTCTTATTTTTCT
Found at i:32118764 original size:18 final size:19
Alignment explanation
Indices: 32118719--32118770 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
32118709 GAGGAACTTA
*
32118719 AGAAGAAGAAGGAA-AATG
1 AGAAGAAGAAGGAAGAATC
32118737 AGGAAG-AGAAGGAAGAA-C
1 A-GAAGAAGAAGGAAGAATC
*
32118755 AGAAGAAGAATGAAGA
1 AGAAGAAGAAGGAAGA
32118771 GAAGGAAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 4 0.14
18 19 0.66
19 6 0.21
ACGTcount: A:0.60, C:0.02, G:0.35, T:0.04
Consensus pattern (19 bp):
AGAAGAAGAAGGAAGAATC
Found at i:32127327 original size:30 final size:30
Alignment explanation
Indices: 32127293--32127356 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
32127283 GCCATACCTC
*
32127293 CGATGCAGTAACAAAATCCTACTATACCCT
1 CGATGCAGCAACAAAATCCTACTATACCCT
* * * *
32127323 CGATGTAGCGATAAAATCCTGCTATACCCT
1 CGATGCAGCAACAAAATCCTACTATACCCT
32127353 CGAT
1 CGAT
32127357 ACCGCCACAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (30 bp):
CGATGCAGCAACAAAATCCTACTATACCCT
Found at i:32127369 original size:30 final size:30
Alignment explanation
Indices: 32127303--32127369 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
32127293 CGATGCAGTA
** *
32127303 ACAAAATCCTACTATACCCTCGATGTAGCG
1 ACAAAATCCTACTATACCCTCGATACAGCC
* * *
32127333 ATAAAATCCTGCTATACCCTCGATACCGCC
1 ACAAAATCCTACTATACCCTCGATACAGCC
32127363 ACAAAAT
1 ACAAAAT
32127370 GCTAATGACC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.36, C:0.31, G:0.10, T:0.22
Consensus pattern (30 bp):
ACAAAATCCTACTATACCCTCGATACAGCC
Found at i:32132766 original size:12 final size:11
Alignment explanation
Indices: 32132740--32132772 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
32132730 TAAATAGGTC
32132740 AATTTTT-TTA
1 AATTTTTATTA
32132750 AATTTTTATTGA
1 AATTTTTATT-A
32132762 AATTTTTATTA
1 AATTTTTATTA
32132773 TGCGATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 7 0.33
11 3 0.14
12 11 0.52
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (11 bp):
AATTTTTATTA
Found at i:32141300 original size:23 final size:23
Alignment explanation
Indices: 32141260--32141430 Score: 173
Period size: 23 Copynumber: 7.4 Consensus size: 23
32141250 CATTTACACA
* *
32141260 TTAATCAT-AATCAAATTAACTT
1 TTAAGCATAAATCATATTAACTT
* *
32141282 TTAAGCATAAATCACATTAGCTT
1 TTAAGCATAAATCATATTAACTT
* * **
32141305 TTGATCATAAATCATATTAAAAT
1 TTAAGCATAAATCATATTAACTT
*
32141328 TTAAGCATAAATCAAATTAACTT
1 TTAAGCATAAATCATATTAACTT
* * **
32141351 GTAAGAATAAATCATATTAAAAT
1 TTAAGCATAAATCATATTAACTT
*
32141374 TTAAGCATAAATCACATTAACATT
1 TTAAGCATAAATCATATTAAC-TT
* *
32141398 TTAAGCATAAATAATATTAACAT
1 TTAAGCATAAATCATATTAACTT
*
32141421 TTAAGTATAA
1 TTAAGCATAA
32141431 GCCGCATTAA
Statistics
Matches: 119, Mismatches: 28, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
22 7 0.06
23 92 0.77
24 20 0.17
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (23 bp):
TTAAGCATAAATCATATTAACTT
Found at i:32141331 original size:46 final size:46
Alignment explanation
Indices: 32141281--32141430 Score: 210
Period size: 46 Copynumber: 3.2 Consensus size: 46
32141271 CAAATTAACT
* * *
32141281 TTTAAGCATAAATCACATTAGCTTTTGATCATAAATCATATTAAAA
1 TTTAAGCATAAATCACATTAACTTTTAAGCATAAATCATATTAAAA
* * *
32141327 TTTAAGCATAAATCAAATTAACTTGTAAGAATAAATCATATTAAAA
1 TTTAAGCATAAATCACATTAACTTTTAAGCATAAATCATATTAAAA
* *
32141373 TTTAAGCATAAATCACATTAACATTTTAAGCATAAATAATATTAACA
1 TTTAAGCATAAATCACATTAAC-TTTTAAGCATAAATCATATTAAAA
*
32141420 TTTAAGTATAA
1 TTTAAGCATAA
32141431 GCCGCATTAA
Statistics
Matches: 91, Mismatches: 12, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
46 61 0.67
47 30 0.33
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.35
Consensus pattern (46 bp):
TTTAAGCATAAATCACATTAACTTTTAAGCATAAATCATATTAAAA
Found at i:32141346 original size:69 final size:70
Alignment explanation
Indices: 32141260--32141430 Score: 195
Period size: 69 Copynumber: 2.5 Consensus size: 70
32141250 CATTTACACA
* * *** * * *
32141260 TTAATCAT-AATCAAATTAACTTTTAAGCATAAATCACATTAGCTTTTGATCATAAATCATATTA
1 TTAAGCATAAATCAAATTAACTTTTAAGAATAAATCACATTAAAATTTAAGCATAAATCACATTA
32141324 A-AAT
66 ACAAT
* *
32141328 TTAAGCATAAATCAAATTAACTTGTAAGAATAAATCATATTAAAATTTAAGCATAAATCACATTA
1 TTAAGCATAAATCAAATTAACTTTTAAGAATAAATCACATTAAAATTTAAGCATAAATCACATTA
*
32141393 ACATT
66 ACAAT
* *
32141398 TTAAGCATAAAT-AATATTAACATTTAAGTATAA
1 TTAAGCATAAATCAA-ATTAACTTTTAAGAATAA
32141431 GCCGCATTAA
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
68 7 0.08
69 50 0.58
70 29 0.34
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (70 bp):
TTAAGCATAAATCAAATTAACTTTTAAGAATAAATCACATTAAAATTTAAGCATAAATCACATTA
ACAAT
Found at i:32143391 original size:21 final size:21
Alignment explanation
Indices: 32143365--32143404 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
32143355 CACCTATAGT
*
32143365 GGTATCGCGATATCCACTTTG
1 GGTATCGCGATACCCACTTTG
32143386 GGTATCGCGATACCCACTT
1 GGTATCGCGATACCCACTT
32143405 GGCAAGAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.28, G:0.23, T:0.30
Consensus pattern (21 bp):
GGTATCGCGATACCCACTTTG
Found at i:32150017 original size:34 final size:30
Alignment explanation
Indices: 32149930--32150024 Score: 127
Period size: 30 Copynumber: 3.0 Consensus size: 30
32149920 TTTGTTTTTA
* *
32149930 TTATTTTTAGTAAATTTCTTGCATTGAATT
1 TTATTTTTAGTTAATTTCTTGCATTGACTT
32149960 TTATTTTTAGTTAATTTCTTGCATTGACTT
1 TTATTTTTAGTTAATTTCTTGCATTGACTT
*
32149990 TTATTTTTATTTATAGTGTTTCTTGCATTGACTT
1 TTATTTTTAGTTA-A---TTTCTTGCATTGACTT
32150024 T
1 T
32150025 CATTATCAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
30 40 0.69
31 1 0.02
34 17 0.29
ACGTcount: A:0.21, C:0.08, G:0.11, T:0.60
Consensus pattern (30 bp):
TTATTTTTAGTTAATTTCTTGCATTGACTT
Found at i:32164117 original size:18 final size:18
Alignment explanation
Indices: 32164091--32164141 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
32164081 TGATTCAAAT
*
32164091 GAAGATCTTGAAGAAGAG
1 GAAGATCTTGAAGAAGAA
*
32164109 GAAGGTCTTGAAGAAGAA
1 GAAGATCTTGAAGAAGAA
*
32164127 GAAGATATTGAAGAA
1 GAAGATCTTGAAGAA
32164142 ATAGAGCCAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.47, C:0.04, G:0.31, T:0.18
Consensus pattern (18 bp):
GAAGATCTTGAAGAAGAA
Found at i:32164971 original size:13 final size:13
Alignment explanation
Indices: 32164953--32164978 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32164943 GATGCCTATG
32164953 TCGCGACACAAGA
1 TCGCGACACAAGA
32164966 TCGCGACACAAGA
1 TCGCGACACAAGA
32164979 CTTGGTGTGT
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:0.38, C:0.31, G:0.23, T:0.08
Consensus pattern (13 bp):
TCGCGACACAAGA
Found at i:32184369 original size:48 final size:48
Alignment explanation
Indices: 32184313--32184407 Score: 190
Period size: 48 Copynumber: 2.0 Consensus size: 48
32184303 AAAGCAAGAG
32184313 TTAAGGTTTTGGGTTTTCAAGGAGTTAAGGTAAGAGATGAAGAAATTT
1 TTAAGGTTTTGGGTTTTCAAGGAGTTAAGGTAAGAGATGAAGAAATTT
32184361 TTAAGGTTTTGGGTTTTCAAGGAGTTAAGGTAAGAGATGAAGAAATT
1 TTAAGGTTTTGGGTTTTCAAGGAGTTAAGGTAAGAGATGAAGAAATT
32184408 ATCATGACAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.35
Consensus pattern (48 bp):
TTAAGGTTTTGGGTTTTCAAGGAGTTAAGGTAAGAGATGAAGAAATTT
Found at i:32189370 original size:24 final size:24
Alignment explanation
Indices: 32189334--32189379 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
32189324 ACATTTATCC
* *
32189334 AATTCATGCATTA-GCATTCAAAAG
1 AATTCAAGAATTACGCA-TCAAAAG
32189358 AATTCAAGAATTACGCATCAAA
1 AATTCAAGAATTACGCATCAAA
32189380 TGAAAAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (24 bp):
AATTCAAGAATTACGCATCAAAAG
Found at i:32189990 original size:21 final size:20
Alignment explanation
Indices: 32189966--32190012 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
32189956 GGGGTAATGC
32189966 TTTCTTTGTCTTCCTTCTCTT
1 TTTCTTT-TCTTCCTTCTCTT
*
32189987 TTTCCTTTTCTTCTTTCTCTT
1 TTT-CTTTTCTTCCTTCTCTT
*
32190008 CTTCT
1 TTTCT
32190013 CTCGCTCCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 2 0.09
21 17 0.74
22 4 0.17
ACGTcount: A:0.00, C:0.30, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTCTTTTCTTCCTTCTCTT
Found at i:32200012 original size:267 final size:266
Alignment explanation
Indices: 32199523--32200015 Score: 727
Period size: 267 Copynumber: 1.8 Consensus size: 266
32199513 TTTTATACTG
32199523 AGCAGATTAAACTATTTTTCACACTTAAAGAGCTTGAAATCAAGTATTTTGGTTATGTTTTCATA
1 AGCAGATTAAACTATTTTTCACACTTAAAGAGCTTGAAATCAAGTATTTTGGTTATGTTTTCATA
* * *
32199588 GGATTTAATGTAGATTTCTTATTCAAATAAATTGTGTAATCTTAGTGTTAAAATGTCGTTTTATT
66 GGATTTAATGTAGATTTCTTATTCAAATAAATTGTGTAACCTAAGTGTTAAAATGTCGATTTATT
* ** ** **
32199653 TGACTCTAAGGCCAAATGAGGCCTAAAGGTTAGGTAATGTACTTGGTGAGTGTGTAGGAGACCAC
131 TGACTCTAAGGCCAAATGAGGCCTAAAGGTTAGCTAACATACTTGGCAAGTGTACAGGAGACCAC
* * **
32199718 AAGAAGTGTAATAATAGGAGGCTGATCACTTCATCACGACATAGACTGAGTGATCTACTGGTTTT
196 AAGAAGTATAATAAAAGGAAACTGATCACTTCATCACGACATAGACTGAGTGATCTACTGGTTTT
32199783 GTACCT
261 GTACCT
* * * *
32199789 AGCAGATTGAACTATTTTTTCACACTTGAAGAGCTTGAAATCAAGTATTTTTGTTATGTTTTTAT
1 AGCAGATTAAACTA-TTTTTCACACTTAAAGAGCTTGAAATCAAGTATTTTGGTTATGTTTTCAT
** * * *
32199854 ATTATTTAGTTTAGATTTCTTATTTAAATAAATTGTGTAACCTAAGTGTTAAAATGAT-GATTTA
65 AGGATTTAATGTAGATTTCTTATTCAAATAAATTGTGTAACCTAAGTGTTAAAATG-TCGATTTA
* *
32199918 TTTGTCTTTAAGGCCAAATGAGGCCTAAAGGTTAGCTAACATACTTGGCAAGTGTACAGGAGACC
129 TTTGACTCTAAGGCCAAATGAGGCCTAAAGGTTAGCTAACATACTTGGCAAGTGTACAGGAGACC
*
32199983 ACAAGAAGTATACTAAAAGGAAACTGATCACTT
194 ACAAGAAGTATAATAAAAGGAAACTGATCACTT
32200016 TTGTAACAGC
Statistics
Matches: 199, Mismatches: 26, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
266 13 0.07
267 185 0.93
268 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (266 bp):
AGCAGATTAAACTATTTTTCACACTTAAAGAGCTTGAAATCAAGTATTTTGGTTATGTTTTCATA
GGATTTAATGTAGATTTCTTATTCAAATAAATTGTGTAACCTAAGTGTTAAAATGTCGATTTATT
TGACTCTAAGGCCAAATGAGGCCTAAAGGTTAGCTAACATACTTGGCAAGTGTACAGGAGACCAC
AAGAAGTATAATAAAAGGAAACTGATCACTTCATCACGACATAGACTGAGTGATCTACTGGTTTT
GTACCT
Found at i:32202116 original size:21 final size:21
Alignment explanation
Indices: 32202090--32202162 Score: 146
Period size: 21 Copynumber: 3.5 Consensus size: 21
32202080 ACTTATAGAA
32202090 GTATCGGTAGCCTGTGTACTT
1 GTATCGGTAGCCTGTGTACTT
32202111 GTATCGGTAGCCTGTGTACTT
1 GTATCGGTAGCCTGTGTACTT
32202132 GTATCGGTAGCCTGTGTACTT
1 GTATCGGTAGCCTGTGTACTT
32202153 GTATCGGTAG
1 GTATCGGTAG
32202163 AAGTTATAGG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.15, C:0.18, G:0.30, T:0.37
Consensus pattern (21 bp):
GTATCGGTAGCCTGTGTACTT
Found at i:32212776 original size:18 final size:20
Alignment explanation
Indices: 32212736--32212776 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
32212726 ACATACGTAC
*
32212736 TTATATATATATTTATAACT
1 TTATATATATATATATAACT
32212756 TTATATATA-ATATATAA-T
1 TTATATATATATATATAACT
32212774 TTA
1 TTA
32212777 AATTAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 7 0.35
20 9 0.45
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TTATATATATATATATAACT
Found at i:32217507 original size:37 final size:37
Alignment explanation
Indices: 32217465--32217602 Score: 222
Period size: 37 Copynumber: 3.7 Consensus size: 37
32217455 ATCACCGGCT
* *
32217465 CGAAGCCTACTAGGTACATAGCCTGAAAACACCGACA
1 CGAAGCCTACTAGGCACATAGCCTGAAAACAACGACA
* *
32217502 CGAAGCCTACTAGACACATAGCCTGAAAACATCGACA
1 CGAAGCCTACTAGGCACATAGCCTGAAAACAACGACA
*
32217539 CGAAGCCTACTAGGCACATAGCCTAAAAACAACGACA
1 CGAAGCCTACTAGGCACATAGCCTGAAAACAACGACA
*
32217576 CGAAGCCTACTAGGCACATTGCCTGAA
1 CGAAGCCTACTAGGCACATAGCCTGAA
32217603 TATTGTGCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 93 1.00
ACGTcount: A:0.38, C:0.30, G:0.18, T:0.14
Consensus pattern (37 bp):
CGAAGCCTACTAGGCACATAGCCTGAAAACAACGACA
Found at i:32217545 original size:21 final size:21
Alignment explanation
Indices: 32217484--32217546 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
32217474 CTAGGTACAT
*
32217484 AGCCTGAAAACACCGACACGA
1 AGCCTGAAAACATCGACACGA
*
32217505 AGCCT----AC-TAGACAC-A
1 AGCCTGAAAACATCGACACGA
32217520 TAGCCTGAAAACATCGACACGA
1 -AGCCTGAAAACATCGACACGA
32217542 AGCCT
1 AGCCT
32217547 ACTAGGCACA
Statistics
Matches: 32, Mismatches: 3, Indels: 14
0.65 0.06 0.29
Matches are distributed among these distances:
15 1 0.03
16 10 0.31
17 2 0.06
20 2 0.06
21 16 0.50
22 1 0.03
ACGTcount: A:0.40, C:0.32, G:0.17, T:0.11
Consensus pattern (21 bp):
AGCCTGAAAACATCGACACGA
Found at i:32224954 original size:12 final size:12
Alignment explanation
Indices: 32224937--32224961 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32224927 TTGTTATATG
32224937 ATGAATGCTATT
1 ATGAATGCTATT
32224949 ATGAATGCTATT
1 ATGAATGCTATT
32224961 A
1 A
32224962 ATTCTTTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
ATGAATGCTATT
Found at i:32228348 original size:11 final size:10
Alignment explanation
Indices: 32228326--32228357 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
32228316 AATTTTTGAC
32228326 ATATAATTTT
1 ATATAATTTT
32228336 ATATAATTTT
1 ATATAATTTT
32228346 -TAT-ATTTT
1 ATATAATTTT
32228354 ATAT
1 ATAT
32228358 GTGATTGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 5 0.24
9 6 0.29
10 10 0.48
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
ATATAATTTT
Found at i:32232883 original size:17 final size:17
Alignment explanation
Indices: 32232861--32232903 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
32232851 TTGAAATAAC
32232861 TTCTCAGGATGAGAAGG
1 TTCTCAGGATGAGAAGG
32232878 TTCTCAGGATGAGAAGG
1 TTCTCAGGATGAGAAGG
32232895 TTCTCAGGA
1 TTCTCAGGA
32232904 GGAAGACCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.26
Consensus pattern (17 bp):
TTCTCAGGATGAGAAGG
Found at i:32235270 original size:21 final size:21
Alignment explanation
Indices: 32235237--32235292 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
32235227 TGAAGAGTGT
* *
32235237 TGTGGCTGTATCT-GATTCTGG
1 TGTGGATGCATCTAGATT-TGG
* *
32235258 TGTGGATGCATCTAGCTTTGT
1 TGTGGATGCATCTAGATTTGG
32235279 TGTGGATGCATCTA
1 TGTGGATGCATCTA
32235293 AGTGTGATGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 27 0.90
22 3 0.10
ACGTcount: A:0.14, C:0.14, G:0.30, T:0.41
Consensus pattern (21 bp):
TGTGGATGCATCTAGATTTGG
Found at i:32245810 original size:18 final size:18
Alignment explanation
Indices: 32245787--32245823 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
32245777 ATGTACTTTG
32245787 TGAGTGTGCAAGAGACCA
1 TGAGTGTGCAAGAGACCA
*
32245805 TGAGTGTGCAGGAGACCA
1 TGAGTGTGCAAGAGACCA
32245823 T
1 T
32245824 AAGAAGTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.16, G:0.35, T:0.19
Consensus pattern (18 bp):
TGAGTGTGCAAGAGACCA
Found at i:32249505 original size:12 final size:13
Alignment explanation
Indices: 32249487--32249516 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
32249477 TTAAACACAC
32249487 CATTTTGTGTTTT
1 CATTTTGTGTTTT
32249500 -ATTTTGTGTTTT
1 CATTTTGTGTTTT
32249512 CATTT
1 CATTT
32249517 GAAAGGAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.10, C:0.07, G:0.13, T:0.70
Consensus pattern (13 bp):
CATTTTGTGTTTT
Found at i:32256067 original size:7 final size:7
Alignment explanation
Indices: 32256027--32256160 Score: 85
Period size: 7 Copynumber: 19.6 Consensus size: 7
32256017 TTTTACCATG
32256027 AATTTTA
1 AATTTTA
** *
32256034 AAACTTG
1 AATTTTA
32256041 AATTTTA
1 AATTTTA
* *
32256048 AATCTTG
1 AATTTTA
32256055 AATTTTA
1 AATTTTA
32256062 AATTTTA
1 AATTTTA
32256069 AATTTTA
1 AATTTTA
*
32256076 AATTTAA
1 AATTTTA
* *
32256083 AACTCT-
1 AATTTTA
32256089 AATTTTA
1 AATTTTA
*
32256096 AATTTTG
1 AATTTTA
*
32256103 AATTTTG
1 AATTTTA
* *
32256110 GA-TTCA
1 AATTTTA
*
32256116 AATTTTG
1 AATTTTA
*
32256123 AATTTTG
1 AATTTTA
*
32256130 AA-TTCA
1 AATTTTA
32256136 AATTTTA
1 AATTTTA
* *
32256143 AATCTTG
1 AATTTTA
*
32256150 AACTTTA
1 AATTTTA
32256157 AATT
1 AATT
32256161 CGAACTTCAA
Statistics
Matches: 92, Mismatches: 32, Indels: 6
0.71 0.25 0.05
Matches are distributed among these distances:
6 11 0.12
7 81 0.88
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.49
Consensus pattern (7 bp):
AATTTTA
Found at i:32256079 original size:14 final size:14
Alignment explanation
Indices: 32256025--32256160 Score: 98
Period size: 14 Copynumber: 9.9 Consensus size: 14
32256015 TTTTTTACCA
**
32256025 TGAATTTTAAAACT
1 TGAATTTTAAATTT
*
32256039 TGAATTTTAAATCT
1 TGAATTTTAAATTT
32256053 TGAATTTTAAATTT
1 TGAATTTTAAATTT
*
32256067 TAAATTTTAAATTT
1 TGAATTTTAAATTT
** * *
32256081 AAAACTCT-AATTT
1 TGAATTTTAAATTT
* *
32256094 TAAATTTTGAATTT
1 TGAATTTTAAATTT
* *
32256108 TGGA-TTCAAATTT
1 TGAATTTTAAATTT
*
32256121 TGAATTTTGAA-TT
1 TGAATTTTAAATTT
** *
32256134 CAAATTTTAAATCT
1 TGAATTTTAAATTT
*
32256148 TGAACTTTAAATT
1 TGAATTTTAAATT
32256161 CGAACTTCAA
Statistics
Matches: 95, Mismatches: 24, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
13 30 0.32
14 65 0.68
ACGTcount: A:0.38, C:0.06, G:0.07, T:0.49
Consensus pattern (14 bp):
TGAATTTTAAATTT
Found at i:32256083 original size:20 final size:20
Alignment explanation
Indices: 32256041--32256160 Score: 87
Period size: 20 Copynumber: 5.8 Consensus size: 20
32256031 TTAAAACTTG
*
32256041 AATTTTAAATCTTGAATTTTA
1 AATTTTAAAT-TTAAATTTTA
*
32256062 AATTTTAAATTTTAAATTTAA
1 AATTTTAAA-TTTAAATTTTA
* * * *
32256083 AACTCTAATTTTAAATTTTG
1 AATTTTAAATTTAAATTTTA
** * *
32256103 AATTTTGGATTCAAATTTTG
1 AATTTTAAATTTAAATTTTA
* *
32256123 AATTTTGAATTCAAATTTTA
1 AATTTTAAATTTAAATTTTA
* *
32256143 AATCTTGAACTTTAAATT
1 AAT-TTTAAATTTAAATT
32256161 CGAACTTCAA
Statistics
Matches: 78, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
20 44 0.56
21 33 0.42
22 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (20 bp):
AATTTTAAATTTAAATTTTA
Found at i:32256119 original size:27 final size:27
Alignment explanation
Indices: 32256061--32256133 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
32256051 CTTGAATTTT
*
32256061 AAATTTTAAATTTTAAATTTAAAACTC
1 AAATTTTAAATTTTGAATTTAAAACTC
* *** *
32256088 TAATTTTAAATTTTGAATTTTGGATTC
1 AAATTTTAAATTTTGAATTTAAAACTC
*
32256115 AAATTTTGAATTTTGAATT
1 AAATTTTAAATTTTGAATT
32256134 CAAATTTTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (27 bp):
AAATTTTAAATTTTGAATTTAAAACTC
Found at i:32256172 original size:27 final size:27
Alignment explanation
Indices: 32256112--32256172 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
32256102 GAATTTTGGA
* * * *
32256112 TTCAAATTTTGAATTTTGAATTCAAAT
1 TTCAAATCTTGAACTTTAAATTCAAAC
* *
32256139 TTTAAATCTTGAACTTTAAATTCGAAC
1 TTCAAATCTTGAACTTTAAATTCAAAC
32256166 TTCAAAT
1 TTCAAAT
32256173 TTAGAGTTTA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (27 bp):
TTCAAATCTTGAACTTTAAATTCAAAC
Found at i:32257256 original size:21 final size:20
Alignment explanation
Indices: 32257216--32257256 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
32257206 CAAAAGTGTA
*
32257216 TTATTTTAAAAAATATTTTT
1 TTATTTTAAAAAATAATTTT
*
32257236 TTATTTTAAATTAATAATTTT
1 TTATTTTAAA-AAATAATTTT
32257257 AACACATTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTATTTTAAAAAATAATTTT
Found at i:32264047 original size:25 final size:26
Alignment explanation
Indices: 32264019--32264071 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
32264009 TGTACCTAAA
32264019 TATTAGG-CTCTGTGTCGGTGTT-ATC
1 TATTAGGTCT-TGTGTCGGTGTTAATC
*
32264044 TATTAGGTCTTGTGTTGGTGTTAATC
1 TATTAGGTCTTGTGTCGGTGTTAATC
32264070 TA
1 TA
32264072 GCAAGCTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.15, C:0.11, G:0.26, T:0.47
Consensus pattern (26 bp):
TATTAGGTCTTGTGTCGGTGTTAATC
Done.