Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 94 of 222
Found at i:29361794 original size:46 final size:45
Alignment explanation
Indices: 29361738--29361889 Score: 158
Period size: 39 Copynumber: 3.5 Consensus size: 45
29361728 GGAATGATAA
* * *
29361738 TGGTTCTCTCTGAAATAGAGAAATTGAATCATTTGGAAATAAATG
1 TGGTTTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATG
* * * *
29361783 TAGGTTTTCTCTGAAATGGAGAAA--CATTCA---GG-AATGATTA
1 T-GGTTTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATG
29361823 TGGTTTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATG
1 TGGTTTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATG
* *
29361868 TGGGTTTCTC-AAAATGGA-AAAT
1 TGGTTTTCTCTGAAATGGAGAAAT
29361890 GAAAATGAAA
Statistics
Matches: 87, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
39 22 0.25
40 6 0.07
41 6 0.07
43 4 0.05
44 13 0.15
45 16 0.18
46 20 0.23
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.34
Consensus pattern (45 bp):
TGGTTTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATG
Found at i:29367952 original size:23 final size:23
Alignment explanation
Indices: 29367921--29367972 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
29367911 AAATGTTTAG
29367921 AAGG-ATCGTCTGTTAGTTAGAT
1 AAGGAATCGTCTGTTAGTTAGAT
29367943 AAGGAATCGTCTGTTAGTTAGAT
1 AAGGAATCGTCTGTTAGTTAGAT
29367966 AAGGAAT
1 AAGGAAT
29367973 ATATGAGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 4 0.14
23 25 0.86
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.33
Consensus pattern (23 bp):
AAGGAATCGTCTGTTAGTTAGAT
Found at i:29385563 original size:33 final size:33
Alignment explanation
Indices: 29385534--29385600 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
29385524 GATTATGCAT
29385534 TGAAATGGTAAGTTATGTTCATGTTTTATGAAC
1 TGAAATGGTAAGTTATGTTCATGTTTTATGAAC
* *
29385567 TGAAATGGTGAGTTATGTTCATGTTTTACGAAC
1 TGAAATGGTAAGTTATGTTCATGTTTTATGAAC
29385600 T
1 T
29385601 TACTAAGCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.42
Consensus pattern (33 bp):
TGAAATGGTAAGTTATGTTCATGTTTTATGAAC
Found at i:29386909 original size:3 final size:3
Alignment explanation
Indices: 29386901--29386930 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
29386891 TCTGGCTACC
29386901 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
29386931 AAAGGCGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:29388010 original size:82 final size:81
Alignment explanation
Indices: 29387861--29388012 Score: 189
Period size: 82 Copynumber: 1.9 Consensus size: 81
29387851 TGGTCAAATG
* ** * *
29387861 TCGATATTTTATGAATTATTGATACCCTTCTTAAAAAAGATACCAAAATGGCATTTTATTTTTTC
1 TCGATATTTTATGAAATATCAATACCCTTCTTAAAAAAGATACCAAAATAGCA-TTCATTTTTTC
29387926 ACAAACCCTATTAAGTA
65 ACAAACCCTATTAAGTA
* * * *
29387943 TCGATATTTTTTGAAATATCAATACCTTTTCTTAAAAATGATACTAAAATAGCA-TCATTTTTCT
1 TCGATATTTTATGAAATATCAATACC-CTTCTTAAAAAAGATACCAAAATAGCATTCATTTTT-T
29388007 CACAAA
64 CACAAA
29388013 ACTTACAAAG
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
81 7 0.12
82 29 0.49
83 23 0.39
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (81 bp):
TCGATATTTTATGAAATATCAATACCCTTCTTAAAAAAGATACCAAAATAGCATTCATTTTTTCA
CAAACCCTATTAAGTA
Found at i:29388024 original size:82 final size:81
Alignment explanation
Indices: 29387861--29388030 Score: 180
Period size: 82 Copynumber: 2.1 Consensus size: 81
29387851 TGGTCAAATG
* ** * *
29387861 TCGATATTTTATGAATTATTGATACCCTTCTTAAAAAAGATACCAAAATGGCATTTTATTTTTTC
1 TCGATATTTTATGAAATATCAATACCCTTCTTAAAAAAGATACCAAAATAGCA-TTCATTTTTTC
* **
29387926 ACAAACCCTATTAAGTA
65 ACAAAACCTACAAAGTA
* * * *
29387943 TCGATATTTTTTGAAATATCAATACCTTTTCTTAAAAATGATACTAAAATAGCA-TCATTTTTCT
1 TCGATATTTTATGAAATATCAATACC-CTTCTTAAAAAAGATACCAAAATAGCATTCATTTTT-T
*
29388007 CACAAAACTTACAAAGTA
64 CACAAAACCTACAAAGTA
*
29388025 TTGATA
1 TCGATA
29388031 AAATTATTTT
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
81 7 0.10
82 42 0.58
83 23 0.32
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (81 bp):
TCGATATTTTATGAAATATCAATACCCTTCTTAAAAAAGATACCAAAATAGCATTCATTTTTTCA
CAAAACCTACAAAGTA
Found at i:29388983 original size:43 final size:43
Alignment explanation
Indices: 29388908--29388989 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
29388898 ATAGTATGGA
** *
29388908 CACATGGTCGTGTCTCAGCCTGTGTGGGTATTCGAAATAGGGT
1 CACATGGTCGTGTCTCAGCCTGTGTGCATATTCAAAATAGGGT
**
29388951 CACATGGTCGTGT-TGCAGGTTGTGTGCATATTCAAAATA
1 CACATGGTCGTGTCT-CAGCCTGTGTGCATATTCAAAATA
29388990 TAGCCACACA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 32 0.97
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (43 bp):
CACATGGTCGTGTCTCAGCCTGTGTGCATATTCAAAATAGGGT
Found at i:29390525 original size:26 final size:26
Alignment explanation
Indices: 29390489--29390540 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
29390479 AGGTATGAAT
29390489 GATAATTTGAATGGTTAAGGCACTAA
1 GATAATTTGAATGGTTAAGGCACTAA
29390515 GATAATTTGAATGGTTAAGGCACTAA
1 GATAATTTGAATGGTTAAGGCACTAA
29390541 CCCTCATGTT
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:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (26 bp):
GATAATTTGAATGGTTAAGGCACTAA
Found at i:29391639 original size:34 final size:34
Alignment explanation
Indices: 29391601--29391665 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
29391591 CAGTTCAGTT
* *
29391601 GGCCTTAGCCTATTACAGTGACAGTATCAGTGTA
1 GGCCTTAGCCCATTACAGTGACAGTAACAGTGTA
29391635 GGCCTTAGCCCATTACAGTGACAGTAACAGT
1 GGCCTTAGCCCATTACAGTGACAGTAACAGT
29391666 TCAAACATGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (34 bp):
GGCCTTAGCCCATTACAGTGACAGTAACAGTGTA
Found at i:29391973 original size:27 final size:27
Alignment explanation
Indices: 29391936--29392150 Score: 290
Period size: 27 Copynumber: 7.8 Consensus size: 27
29391926 ATAACATTAA
29391936 GCAT-ACAGTCATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACATAGGG
*
29391962 GCCTAACAGTCATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACATAGGG
*
29391989 GCATAACCGTCATTTTATAACATAAGAGCTTGG
1 GCATAACAGTCATTTTATAACAT---AG---GG
29392022 GCATAACAGTCATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACATAGGG
*
29392049 GCATAACCGTCATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACATAGGG
* * *
29392076 GCATAACTGTTATTTTATAATATA-GG
1 GCATAACAGTCATTTTATAACATAGGG
*
29392102 GCATAATAGTCATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACATAGGG
*
29392129 GCATAACAATCATTTTATAACA
1 GCATAACAGTCATTTTATAACA
29392151 GCTTGGGGGT
Statistics
Matches: 167, Mismatches: 14, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
26 25 0.15
27 114 0.68
30 4 0.02
33 24 0.14
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (27 bp):
GCATAACAGTCATTTTATAACATAGGG
Found at i:29392037 original size:60 final size:55
Alignment explanation
Indices: 29391943--29392150 Score: 280
Period size: 60 Copynumber: 3.8 Consensus size: 55
29391933 TAAGCATACA
*
29391943 GTCATTTTATAACAT-AGGGGCCTAACAGTCATTTTATAACATAGGGGCATAACC
1 GTCATTTTATAACATAAGGGGCATAACAGTCATTTTATAACATAGGGGCATAACC
29391997 GTCATTTTATAACATAAGAGCTTGGGCATAACAGTCATTTTATAACATAGGGGCATAACC
1 GTCATTTTATAACAT-A-AG---GGGCATAACAGTCATTTTATAACATAGGGGCATAACC
* * * **
29392057 GTCATTTTATAACAT-AGGGGCATAACTGTTATTTTATAATATA-GGGCATAATA
1 GTCATTTTATAACATAAGGGGCATAACAGTCATTTTATAACATAGGGGCATAACC
*
29392110 GTCATTTTATAACAT-AGGGGCATAACAATCATTTTATAACA
1 GTCATTTTATAACATAAGGGGCATAACAGTCATTTTATAACA
29392151 GCTTGGGGGT
Statistics
Matches: 138, Mismatches: 10, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
53 45 0.33
54 38 0.28
57 4 0.03
60 51 0.37
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.33
Consensus pattern (55 bp):
GTCATTTTATAACATAAGGGGCATAACAGTCATTTTATAACATAGGGGCATAACC
Found at i:29392041 original size:87 final size:80
Alignment explanation
Indices: 29391936--29392150 Score: 297
Period size: 87 Copynumber: 2.6 Consensus size: 80
29391926 ATAACATTAA
*
29391936 GCAT-ACAGTCATTTTATAACATAGGGGCCTAACAGTCATTTTATAACATAGGGGCATAACCGTC
1 GCATAACAGTCATTTTATAACATAGGGGCATAACAGTCATTTTATAACATAGGGGCATAACCGTC
*
29392000 ATTTTATAACATAAGAGCTTGG
66 ATTTTAT-A-AT---A--TAGG
* * *
29392022 GCATAACAGTCATTTTATAACATAGGGGCATAACCGTCATTTTATAACATAGGGGCATAACTGTT
1 GCATAACAGTCATTTTATAACATAGGGGCATAACAGTCATTTTATAACATAGGGGCATAACCGTC
29392087 ATTTTATAATATAGG
66 ATTTTATAATATAGG
* *
29392102 GCATAATAGTCATTTTATAACATAGGGGCATAACAATCATTTTATAACA
1 GCATAACAGTCATTTTATAACATAGGGGCATAACAGTCATTTTATAACA
29392151 GCTTGGGGGT
Statistics
Matches: 120, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
80 49 0.41
82 1 0.01
85 2 0.02
86 5 0.04
87 63 0.52
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (80 bp):
GCATAACAGTCATTTTATAACATAGGGGCATAACAGTCATTTTATAACATAGGGGCATAACCGTC
ATTTTATAATATAGG
Found at i:29393189 original size:33 final size:33
Alignment explanation
Indices: 29393139--29393213 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
29393129 GAGAAAGGGT
29393139 TTCGGCAAA-TGCAATGAATAGAGAGAAGTAACA
1 TTCGGCAAACT-CAATGAATAGAGAGAAGTAACA
* * * *
29393172 TTCGTCAAACTCAATGAATGGGGAGAAGTAATA
1 TTCGGCAAACTCAATGAATAGAGAGAAGTAACA
29393205 TTCGGCAAA
1 TTCGGCAAA
29393214 GGGAACTACT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
33 35 0.97
34 1 0.03
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.21
Consensus pattern (33 bp):
TTCGGCAAACTCAATGAATAGAGAGAAGTAACA
Found at i:29394698 original size:16 final size:17
Alignment explanation
Indices: 29394661--29394700 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
29394651 GAGTTATCTG
*
29394661 AAAAATATAATGAACCT
1 AAAAAGATAATGAACCT
29394678 AAAAAGATAATGAACCT
1 AAAAAGATAATGAACCT
29394695 AAAAAG
1 AAAAAG
29394701 GGTAAGTAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.17
Consensus pattern (17 bp):
AAAAAGATAATGAACCT
Found at i:29413702 original size:11 final size:11
Alignment explanation
Indices: 29413686--29413718 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
29413676 AAACCTTTTC
29413686 TCTCTCAAAAT
1 TCTCTCAAAAT
29413697 TCTCTCTAAAA-
1 TCTCTC-AAAAT
29413708 TCTCTCAAAAT
1 TCTCTCAAAAT
29413719 AATTTTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 4 0.20
11 12 0.60
12 4 0.20
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.36
Consensus pattern (11 bp):
TCTCTCAAAAT
Found at i:29415117 original size:18 final size:20
Alignment explanation
Indices: 29415071--29415112 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
29415061 GCCATGGATG
*
29415071 TATTATGCCAATATAATTGA
1 TATTGTGCCAATATAATTGA
29415091 TTGATTGTGCCAATATAATTGA
1 -T-ATTGTGCCAATATAATTGA
29415113 ATGTGATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (20 bp):
TATTGTGCCAATATAATTGA
Found at i:29420208 original size:26 final size:27
Alignment explanation
Indices: 29420179--29420231 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
29420169 CACCAATGAT
29420179 TCGGG-GAATCAGCACTTAGCAACCCC
1 TCGGGAGAATCAGCACTTAGCAACCCC
29420205 TCGGGAGAATCAGCACTTAGCAACCCC
1 TCGGGAGAATCAGCACTTAGCAACCCC
29420232 CTTCACATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.28, C:0.34, G:0.23, T:0.15
Consensus pattern (27 bp):
TCGGGAGAATCAGCACTTAGCAACCCC
Found at i:29420231 original size:102 final size:100
Alignment explanation
Indices: 29420104--29420437 Score: 560
Period size: 102 Copynumber: 3.3 Consensus size: 100
29420094 CACCAATGAG
* **
29420104 TCGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGTTCAGCACTTAGCAAC
1 TCGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAAC
29420169 CACCAATGATTCGGGGAATCAGCACTTAGCAACCCC
66 CACCAATGATT-GGGGAATCAGCACTTAGCAACCCC
*
29420205 TCGGGAGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTCGCAA
1 TCGGG-GAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAA
29420270 CCACCAATGAGTTGGGGAATCAGCACTTAGCAACCCC
65 CCACCAATGA-TTGGGGAATCAGCACTTAGCAACCCC
* *
29420307 TTGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAACACTTAGCAA
1 -TCGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAA
*
29420372 CCACCAATGAATAGGGGAATCAGCACTTAGCAACCCC
65 CCACCAATG-ATTGGGGAATCAGCACTTAGCAACCCC
29420409 TCGGGGAATCAGCACTTAGCAACCCCCTT
1 TCGGGGAATCAGCACTTAGCAACCCCCTT
29420438 TTTATTCAAT
Statistics
Matches: 220, Mismatches: 9, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
101 33 0.15
102 180 0.82
103 7 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (100 bp):
TCGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAAC
CACCAATGATTGGGGAATCAGCACTTAGCAACCCC
Found at i:29420414 original size:26 final size:26
Alignment explanation
Indices: 29420385--29420434 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
29420375 CCAATGAATA
29420385 GGGGAATCAGCACTTAGCAACCCCTC
1 GGGGAATCAGCACTTAGCAACCCCTC
29420411 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
29420435 CTTTTTATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.34, G:0.24, T:0.14
Consensus pattern (26 bp):
GGGGAATCAGCACTTAGCAACCCCTC
Found at i:29427821 original size:102 final size:101
Alignment explanation
Indices: 29427697--29428029 Score: 497
Period size: 102 Copynumber: 3.3 Consensus size: 101
29427687 CCAATGAGTC
* ** *
29427697 GGGGAATCAGCATTTAGCAACCCCTTTCACATTTAAGATACGGTGGGTTCATCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCA
29427762 CCAATAATTCAGGGAATCAACACTTAGCAACCCCTCG
66 CCAATAA-TCAGGGAATCAACACTTAGCAACCCCTCG
* * *
29427799 AGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCA
* * *
29427864 CCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTG
66 CCAAT-AATCAGGGAATCAACACTTAGCAACCCCTCG
*
29427901 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGATGGAATCAACACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCA
*
29427966 CCAATGAAT-AGGGGAATCAGCACTTAGCAACCCCTCG
66 CCAAT-AATCA-GGGAATCAACACTTAGCAACCCCTCG
* *
29428003 GGGGAATTAGCACTTAGCAAGCCCTTT
1 GGGGAATCAGCACTTAGCAACCCCTTT
29428030 TTATTCAATG
Statistics
Matches: 210, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
102 209 1.00
103 1 0.00
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.21
Consensus pattern (101 bp):
GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCA
CCAATAATCAGGGAATCAACACTTAGCAACCCCTCG
Found at i:29427888 original size:33 final size:33
Alignment explanation
Indices: 29427843--29427997 Score: 115
Period size: 33 Copynumber: 4.6 Consensus size: 33
29427833 AAGATACGGT
29427843 GGAATCAGCACTTAGCAACCACCAATGAGTCGG
1 GGAATCAGCACTTAGCAACCACCAATGAGTCGG
* *
29427876 GGAATCAACACTTAGCAACC-CC--T---TGGG
1 GGAATCAGCACTTAGCAACCACCAATGAGTCGG
* * *
29427903 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGAT
1 GGAATCAGCACTTAGCAACCAC---CA-A--TGAG-T-CG-G
* * *
29427945 GGAATCAACACTTAGCAACCACCAATGAATAGG
1 GGAATCAGCACTTAGCAACCACCAATGAGTCGG
29427978 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
29427998 CCTCGGGGGA
Statistics
Matches: 95, Mismatches: 12, Indels: 30
0.69 0.09 0.22
Matches are distributed among these distances:
27 22 0.23
28 1 0.01
30 1 0.01
31 1 0.01
32 2 0.02
33 38 0.40
34 1 0.01
35 1 0.01
36 3 0.03
38 1 0.01
39 2 0.02
40 1 0.01
41 1 0.01
42 20 0.21
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGAGTCGG
Found at i:29427914 original size:27 final size:27
Alignment explanation
Indices: 29427874--29427926 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
29427864 CCAATGAGTC
29427874 GGGGAATCAACACTTAGCAACCCCTTG
1 GGGGAATCAACACTTAGCAACCCCTTG
*
29427901 GGGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAACACTTAGCAACCCCTT
29427927 TCACATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (27 bp):
GGGGAATCAACACTTAGCAACCCCTTG
Found at i:29428014 original size:27 final size:27
Alignment explanation
Indices: 29427976--29428027 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
29427966 CCAATGAATA
29427976 GGGGAATCAGCACTTAGCAACCCCTCG
1 GGGGAATCAGCACTTAGCAACCCCTCG
* *
29428003 GGGGAATTAGCACTTAGCAAGCCCT
1 GGGGAATCAGCACTTAGCAACCCCT
29428028 TTTTATTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.17
Consensus pattern (27 bp):
GGGGAATCAGCACTTAGCAACCCCTCG
Found at i:29433455 original size:22 final size:23
Alignment explanation
Indices: 29433430--29433483 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
29433420 ACTAATGAAT
29433430 AGAGAGCACTA-AAGTGCTAAAC
1 AGAGAGCACTAGAAGTGCTAAAC
*
29433452 AGAGAGCAC-AGATGTGCTAAAC
1 AGAGAGCACTAGAAGTGCTAAAC
*
29433474 GGAGAGCACT
1 AGAGAGCACT
29433484 GTCGTGCTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.41, C:0.19, G:0.28, T:0.13
Consensus pattern (23 bp):
AGAGAGCACTAGAAGTGCTAAAC
Found at i:29434435 original size:16 final size:17
Alignment explanation
Indices: 29434408--29434439 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
29434398 CATTTTAAGC
29434408 TTTCTGTTTCTTTCTTA
1 TTTCTGTTTCTTTCTTA
29434425 TTTCT-TTTCTTTCTT
1 TTTCTGTTTCTTTCTT
29434440 TTGTTTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTCTGTTTCTTTCTTA
Found at i:29450769 original size:2 final size:2
Alignment explanation
Indices: 29450757--29450795 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
29450747 TCCAACTTTA
*
29450757 TG TG CG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
29450796 TTGGATCTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.03, G:0.49, T:0.49
Consensus pattern (2 bp):
TG
Found at i:29453747 original size:23 final size:23
Alignment explanation
Indices: 29453704--29453747 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
29453694 TAAAAATAGA
* *
29453704 ATTTTATATATAGATATGATTTT
1 ATTTTAAATATAGATAAGATTTT
29453727 ATTTTAAATAT-GATAAAGATT
1 ATTTTAAATATAGAT-AAGATT
29453748 AAATCAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (23 bp):
ATTTTAAATATAGATAAGATTTT
Found at i:29461099 original size:22 final size:22
Alignment explanation
Indices: 29461068--29461116 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
29461058 TACGTACATT
*
29461068 CCCGTGTGCAACCCCTCACACC
1 CCCGTATGCAACCCCTCACACC
*
29461090 CCCGTATGCAACCCCTCACACG
1 CCCGTATGCAACCCCTCACACC
29461112 CCCGT
1 CCCGT
29461117 GTGAAAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.18, C:0.53, G:0.14, T:0.14
Consensus pattern (22 bp):
CCCGTATGCAACCCCTCACACC
Found at i:29469164 original size:50 final size:50
Alignment explanation
Indices: 29469105--29469233 Score: 129
Period size: 50 Copynumber: 2.6 Consensus size: 50
29469095 GTCATTAGGG
* * * *
29469105 TTACCGATTCTTAGCTCATATGAGCCTAAC-GATTTACAGCTCTTGAGAGC
1 TTACTGATTCTTAGCTCATATGAGCAT-ACTAATTTACAGCTCGTGAGAGC
* * *
29469155 TTACTGATTCTTGGATCGTATGAGCATACTAATTTACAGCTCGTGAGAGC
1 TTACTGATTCTTAGCTCATATGAGCATACTAATTTACAGCTCGTGAGAGC
* *
29469205 ATA-TCGATTCATAGCTCGA-ATGAGCATAC
1 TTACT-GATTCTTAGCTC-ATATGAGCATAC
29469234 GTGCATAGGA
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
49 3 0.05
50 61 0.95
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (50 bp):
TTACTGATTCTTAGCTCATATGAGCATACTAATTTACAGCTCGTGAGAGC
Found at i:29469198 original size:25 final size:26
Alignment explanation
Indices: 29469170--29469233 Score: 62
Period size: 25 Copynumber: 2.5 Consensus size: 26
29469160 GATTCTTGGA
*
29469170 TCGTATGAGCATACT-AATTTACAGC
1 TCGTATGAGCATACTCAATTCACAGC
* *
29469195 TCGTGA-GAGCATA-TCGATTCATAGC
1 TCGT-ATGAGCATACTCAATTCACAGC
*
29469220 TCGAATGAGCATAC
1 TCGTATGAGCATAC
29469234 GTGCATAGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
24 2 0.06
25 28 0.90
26 1 0.03
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (26 bp):
TCGTATGAGCATACTCAATTCACAGC
Found at i:29470789 original size:27 final size:27
Alignment explanation
Indices: 29470755--29470807 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
29470745 GTATGTATGA
29470755 TTTTGATTGGTTTTGATATGAATATTT
1 TTTTGATTGGTTTTGATATGAATATTT
29470782 TTTTGATTGGTTTTGATATGAATATT
1 TTTTGATTGGTTTTGATATGAATATT
29470808 GAAATGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (27 bp):
TTTTGATTGGTTTTGATATGAATATTT
Found at i:29470815 original size:27 final size:27
Alignment explanation
Indices: 29470758--29470815 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
29470748 TGTATGATTT
****
29470758 TGATTGGTTTTGATATGAATATTTTTT
1 TGATTGGTTTTGATATGAATATTGAAA
29470785 TGATTGGTTTTGATATGAATATTGAAA
1 TGATTGGTTTTGATATGAATATTGAAA
29470812 TGAT
1 TGAT
29470816 ATGAAATGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (27 bp):
TGATTGGTTTTGATATGAATATTGAAA
Found at i:29490767 original size:4 final size:4
Alignment explanation
Indices: 29490748--29490795 Score: 50
Period size: 4 Copynumber: 12.5 Consensus size: 4
29490738 TTATATGCCA
29490748 TAAT TAAAT T-AT TAAT TAAT TAA- -AAT TAATT TAAT TAAT T-AT TAAT
1 TAAT T-AAT TAAT TAAT TAAT TAAT TAAT TAA-T TAAT TAAT TAAT TAAT
29490794 TA
1 TA
29490796 TTAGAATTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
2 2 0.05
3 6 0.16
4 22 0.58
5 8 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:29490769 original size:16 final size:16
Alignment explanation
Indices: 29490748--29490804 Score: 68
Period size: 16 Copynumber: 3.7 Consensus size: 16
29490738 TTATATGCCA
29490748 TAATTAAATTATTAAT
1 TAATTAAATTATTAAT
29490764 TAATTAAA--ATTAATT
1 TAATTAAATTATTAA-T
29490779 TAATT-AATTATTAAT
1 TAATTAAATTATTAAT
29490794 T-ATTAGAATTA
1 TAATTA-AATTA
29490805 ACCTTAATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 10 0.28
15 8 0.22
16 18 0.50
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
TAATTAAATTATTAAT
Found at i:29490783 original size:19 final size:17
Alignment explanation
Indices: 29490748--29490798 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
29490738 TTATATGCCA
29490748 TAATT-AAATTATTAAT
1 TAATTAAAATTATTAAT
29490764 TAATTAAAATTAATTTAAT
1 TAATTAAAATT-A-TTAAT
*
29490783 TAATTATTAATTATTA
1 TAATTA-AAATTATTA
29490799 GAATTAACCT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
16 5 0.17
17 5 0.17
18 4 0.13
19 12 0.40
20 4 0.13
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TAATTAAAATTATTAAT
Found at i:29490790 original size:30 final size:30
Alignment explanation
Indices: 29490748--29490815 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 30
29490738 TTATATGCCA
*
29490748 TAATTAAATTATTAATTAATTAAAATTAA-TT
1 TAATT-AATTATTAATT-ATTAAAATTAACCT
*
29490779 TAATTAATTATTAATTATTAGAATTAACCT
1 TAATTAATTATTAATTATTAAAATTAACCT
29490809 TAATTAA
1 TAATTAA
29490816 ATAAAATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 10 0.29
30 19 0.56
31 5 0.15
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (30 bp):
TAATTAATTATTAATTATTAAAATTAACCT
Found at i:29490791 original size:22 final size:22
Alignment explanation
Indices: 29490749--29490792 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
29490739 TATATGCCAT
29490749 AATTAAATTATTAATTAATTAA
1 AATTAAATTATTAATTAATTAA
*
29490771 AATTAATTTAATTAATT-ATTAA
1 AATTAAATT-ATTAATTAATTAA
29490793 TTATTAGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATTAAATTATTAATTAATTAA
Found at i:29495697 original size:9 final size:9
Alignment explanation
Indices: 29495671--29495709 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
29495661 GGAAGAATTT
29495671 TAGAGAGAG
1 TAGAGAGAG
29495680 TAGA-A-AG
1 TAGAGAGAG
29495687 TAGAGAGAG
1 TAGAGAGAG
*
29495696 TAAAGAGAG
1 TAGAGAGAG
29495705 TAGAG
1 TAGAG
29495710 GGAATTCGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 6 0.23
8 2 0.08
9 18 0.69
ACGTcount: A:0.49, C:0.00, G:0.38, T:0.13
Consensus pattern (9 bp):
TAGAGAGAG
Found at i:29499155 original size:51 final size:51
Alignment explanation
Indices: 29499035--29499171 Score: 160
Period size: 50 Copynumber: 2.8 Consensus size: 51
29499025 ATTATCATTT
* * * *
29499035 GATACACGTAGTAGCTTTCACATAGTACTACACATGTG-ATTAAACTTTCC
1 GATACACGTAGTAGCCTGCACATAGTACTACACACGTGAATTAAACTATCC
* *
29499085 GGTTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCATT-AA-TATCC
1 GATACACGTAGTAGCCTGCACATAGTACTACACACGTGA--ATTAAACTATCC
29499136 GATACACGTAGTAGCCTGCACA-A--ACTACACACGTGA
1 GATACACGTAGTAGCCTGCACATAGTACTACACACGTGA
29499172 TTGAAGCTAT
Statistics
Matches: 76, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
48 13 0.17
50 34 0.45
51 24 0.32
52 2 0.03
53 3 0.04
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (51 bp):
GATACACGTAGTAGCCTGCACATAGTACTACACACGTGAATTAAACTATCC
Found at i:29500687 original size:50 final size:50
Alignment explanation
Indices: 29500503--29500688 Score: 282
Period size: 50 Copynumber: 3.7 Consensus size: 50
29500493 ACATGCCATA
** * *
29500503 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCAAT
** * *
29500554 GCCATGTCCCAGACATGGTCTTACGGGGGACCTTTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
29500604 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
*
29500654 GCCATGTCCCAGACATGGTCTTACATAGGACCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
29500689 TTACTCAAAT
Statistics
Matches: 122, Mismatches: 13, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
50 94 0.77
51 28 0.23
ACGTcount: A:0.19, C:0.31, G:0.24, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
Found at i:29500804 original size:13 final size:13
Alignment explanation
Indices: 29500783--29500812 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
29500773 GCTTGGATCA
29500783 TCATCAAATAAAT
1 TCATCAAATAAAT
*
29500796 TCATGAAATAAAT
1 TCATCAAATAAAT
29500809 TCAT
1 TCAT
29500813 AGTTGCTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (13 bp):
TCATCAAATAAAT
Found at i:29503541 original size:67 final size:67
Alignment explanation
Indices: 29503452--29503683 Score: 284
Period size: 67 Copynumber: 3.5 Consensus size: 67
29503442 CTCTATATGT
* * * *
29503452 TGCCATAGTCGAGCTATGGTCTTACAGAGTATAGCCCATGTTTAACGTCCTGGTGGACTCCCTTT
1 TGCCATAGCCGAGCTATGGTCTTACATAGTATACCCCATGTTTAACATCCTGGTGGACTCCCTTT
29503517 GC
66 GC
* * * * *
29503519 TGCCATAGCCGAGCCATAGTCTTACATAATATACCCCAAGTTTAACATCCTGATGGACTCCCTTT
1 TGCCATAGCCGAGCTATGGTCTTACATAGTATACCCCATGTTTAACATCCTGGTGGACTCCCTTT
29503584 GC
66 GC
* * * * **
29503586 TTCCATAGCCGGGCTATGGTCTTACATAGTATATCCCATGTTTAACATCCTAGCAGACTCCCTTT
1 TGCCATAGCCGAGCTATGGTCTTACATAGTATACCCCATGTTTAACATCCTGGTGGACTCCCTTT
29503651 GC
66 GC
*** * *
29503653 AATCATAGCCTAGCTATGGTCTTACACAGTA
1 TGCCATAGCCGAGCTATGGTCTTACATAGTA
29503684 AACATCTTTT
Statistics
Matches: 139, Mismatches: 26, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
67 139 1.00
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (67 bp):
TGCCATAGCCGAGCTATGGTCTTACATAGTATACCCCATGTTTAACATCCTGGTGGACTCCCTTT
GC
Found at i:29506178 original size:29 final size:29
Alignment explanation
Indices: 29506128--29506261 Score: 182
Period size: 29 Copynumber: 4.7 Consensus size: 29
29506118 TTTTAGAGTC
*
29506128 TCACCACAAAGGCGTT-C-TTTAAAAGAGA
1 TCACCACAAAGGC-TTCCTTTTAACAGAGA
** * *
29506156 TTGCCTCAAAGGCTTCCTTTTAACAGATA
1 TCACCACAAAGGCTTCCTTTTAACAGAGA
*
29506185 TCACCACAAAGGCTTTCTTTTAACAGAGA
1 TCACCACAAAGGCTTCCTTTTAACAGAGA
*
29506214 TCACCATAAAGGCTTCCTTTTAACAGAGA
1 TCACCACAAAGGCTTCCTTTTAACAGAGA
29506243 TCACCACAAAGGCTTCCTT
1 TCACCACAAAGGCTTCCTT
29506262 ACAGAAACTG
Statistics
Matches: 91, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
27 2 0.02
28 11 0.12
29 78 0.86
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (29 bp):
TCACCACAAAGGCTTCCTTTTAACAGAGA
Found at i:29510268 original size:39 final size:39
Alignment explanation
Indices: 29510151--29510452 Score: 371
Period size: 39 Copynumber: 7.6 Consensus size: 39
29510141 GCTCCTCGTT
* * *
29510151 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGTA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
29510191 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
29510231 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
29510270 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
*
29510309 CAAATGCCTTCGGGCTTAGCTCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* *
29510348 CAAATGCCTTCGGGCTTAGCTCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * * *
29510387 CAAATGCCTTCGGATCTTGGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
29510428 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
29510453 CATCATTCAA
Statistics
Matches: 237, Mismatches: 18, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
39 151 0.64
40 73 0.31
41 13 0.05
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:29520371 original size:20 final size:20
Alignment explanation
Indices: 29520346--29520384 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
29520336 TACTTTCTTC
29520346 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
29520366 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
29520385 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:29520714 original size:56 final size:50
Alignment explanation
Indices: 29520587--29520730 Score: 166
Period size: 50 Copynumber: 2.8 Consensus size: 50
29520577 TGATAAAAAC
* *
29520587 ATGCCAAAGCCATGTCCCAGACATGGTCTTACG-GAGGACCTCTCATCTTG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACGTG-GGACCTCTCATCTTA
*
29520637 GTGCCAACT-CCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATAACCTCAATA
1 ATGCCAA-TGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCAT---CT---TA
*
29520693 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGA
29520731 TTTCATTCCC
Statistics
Matches: 80, Mismatches: 5, Indels: 12
0.82 0.05 0.12
Matches are distributed among these distances:
50 41 0.51
51 1 0.01
53 2 0.03
55 1 0.01
56 35 0.44
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCTTA
Found at i:29523446 original size:17 final size:17
Alignment explanation
Indices: 29523424--29523465 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
29523414 ATACCATTTT
29523424 GTTTTATTTTTGTTTAA
1 GTTTTATTTTTGTTTAA
29523441 GTTTTA--TTTGTTTAA
1 GTTTTATTTTTGTTTAA
29523456 -TTATTATTTT
1 GTT-TTATTTT
29523466 ACCCTTAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 2 0.09
15 12 0.55
17 8 0.36
ACGTcount: A:0.19, C:0.00, G:0.10, T:0.71
Consensus pattern (17 bp):
GTTTTATTTTTGTTTAA
Found at i:29525785 original size:41 final size:41
Alignment explanation
Indices: 29525706--29525996 Score: 350
Period size: 41 Copynumber: 7.1 Consensus size: 41
29525696 CATAGGTACT
* *
29525706 ATTCAGGGGTACCGAAGT-CAAACAGGGTGGCACATATGTGCA
1 ATTCAGGGGTACCAAAGTACAAACA-GG-GGCACGTATGTGCA
* * *
29525748 ATTCAGTGGTATCAAAGTATAAACAGGGGCACGTATGTGCA
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCA
* * * *
29525789 ATTCAAGGGTACCGAAGTACAAACAGGGGCACATATGTGTA
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCA
**
29525830 ATTCAGGGGTACCAAAGTACAAACAGGGGCACACATGTGCA
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCA
* * * * *
29525871 ATTCAAGGGTATCGAAGTACAAAAAGGGGCACGTATATGCA
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCA
* * * *
29525912 ATTTAGGGGTACCAAAGTATAAACTGGGACACGTATGTGCA
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCA
* * *
29525953 ATTCAGGGGTATCGAAGTACAAACAGGGGCATGTATGTGCA
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCA
29525994 ATT
1 ATT
29525997 TAGGAAATAA
Statistics
Matches: 209, Mismatches: 39, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
41 187 0.89
42 17 0.08
43 5 0.02
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (41 bp):
ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCA
Found at i:29525991 original size:123 final size:123
Alignment explanation
Indices: 29525706--29525996 Score: 388
Period size: 123 Copynumber: 2.4 Consensus size: 123
29525696 CATAGGTACT
*
29525706 ATTCAGGGGTACCGAAGT-CAAACAGGGTGGCACATATGTGCAATTCAGTGGTATCAAAGTATAA
1 ATTCAGGGGTACCGAAGTACAAACA-GG-GGCACATATGTGCAATTCAGTGGTATCAAAGTACAA
* * * * *
29525770 ACAGGGGCACGTATGTGCAATTCAAGGGTACCGAAGTACAAACAGGGGCACATATGTGTA
64 AAAGGGGCACGTATATGCAATTCAAGGGTACCAAAGTACAAACAGGGACACATATGTGCA
* * *
29525830 ATTCAGGGGTACCAAAGTACAAACAGGGGCACACATGTGCAATTCAAG-GGTATCGAAGTACAAA
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTC-AGTGGTATCAAAGTACAAA
* * * * *
29525894 AAGGGGCACGTATATGCAATTTAGGGGTACCAAAGTATAAACTGGGACACGTATGTGCA
65 AAGGGGCACGTATATGCAATTCAAGGGTACCAAAGTACAAACAGGGACACATATGTGCA
* **
29525953 ATTCAGGGGTATCGAAGTACAAACAGGGGCATGTATGTGCAATT
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATT
29525997 TAGGAAATAA
Statistics
Matches: 146, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
123 119 0.82
124 21 0.14
125 6 0.04
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (123 bp):
ATTCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAGTGGTATCAAAGTACAAAA
AGGGGCACGTATATGCAATTCAAGGGTACCAAAGTACAAACAGGGACACATATGTGCA
Found at i:29526000 original size:82 final size:82
Alignment explanation
Indices: 29525706--29525996 Score: 395
Period size: 82 Copynumber: 3.5 Consensus size: 82
29525696 CATAGGTACT
* * *
29525706 ATTCAGGGGTACCGAAGT-CAAACAGGGTGGCACATATGTGCAATTCAGTGGTATCAAAGTATAA
1 ATTCAAGGGTACCGAAGTACAAACA-GG-GGCACATATGTGCAATTCAGGGGTACCAAAGTATAA
29525770 ACAGGGGCACGTATGTGCA
64 ACAGGGGCACGTATGTGCA
* *
29525789 ATTCAAGGGTACCGAAGTACAAACAGGGGCACATATGTGTAATTCAGGGGTACCAAAGTACAAAC
1 ATTCAAGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAGGGGTACCAAAGTATAAAC
**
29525854 AGGGGCACACATGTGCA
66 AGGGGCACGTATGTGCA
* * * * *
29525871 ATTCAAGGGTATCGAAGTACAAAAAGGGGCACGTATATGCAATTTAGGGGTACCAAAGTATAAAC
1 ATTCAAGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAGGGGTACCAAAGTATAAAC
* *
29525936 TGGGACACGTATGTGCA
66 AGGGGCACGTATGTGCA
* * **
29525953 ATTCAGGGGTATCGAAGTACAAACAGGGGCATGTATGTGCAATT
1 ATTCAAGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATT
29525997 TAGGAAATAA
Statistics
Matches: 185, Mismatches: 22, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
82 160 0.86
83 19 0.10
84 6 0.03
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (82 bp):
ATTCAAGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAGGGGTACCAAAGTATAAAC
AGGGGCACGTATGTGCA
Found at i:29531362 original size:26 final size:27
Alignment explanation
Indices: 29531333--29531400 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 27
29531323 ATTTTCCATG
29531333 TCATATTTTA-GTATATCAA-ATAATT
1 TCATATTTTATGTATATCAAGATAATT
* *
29531358 ATCAT-TTCTATGTATTTCAAGTATAATT
1 -TCATATTTTATGTATATCAAG-ATAATT
29531386 TCATGATTTTATGTA
1 TCAT-ATTTTATGTA
29531401 ATTATCATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
25 4 0.12
26 12 0.35
27 4 0.12
28 6 0.18
29 8 0.24
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (27 bp):
TCATATTTTATGTATATCAAGATAATT
Found at i:29531632 original size:67 final size:67
Alignment explanation
Indices: 29531524--29531655 Score: 219
Period size: 67 Copynumber: 2.0 Consensus size: 67
29531514 TTTTCAATTC
* * * *
29531524 AGAGAGGACACTCCTGCGAACCTCATTTCTTACAGCGGGATTACCAGTCTAGGCTAAATCCCCTG
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCAGGATTACCAATCTAGGCTAAATCCCCTG
29531589 CA
66 CA
*
29531591 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGTAGGATTACCAATCTAGGCTAAATCCCCTG
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCAGGATTACCAATCTAGGCTAAATCCCCTG
29531656 TAATATAAAC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 60 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCAGGATTACCAATCTAGGCTAAATCCCCTG
CA
Found at i:29535692 original size:43 final size:43
Alignment explanation
Indices: 29535623--29535716 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
29535613 ACCTATATGG
*
29535623 GACACACGACTATGTCGAATGACCGTGTGTCACACACAATTGA
1 GACACACGACTATGTCAAATGACCGTGTGTCACACACAATTGA
* * *
29535666 GACACACGACTGTGTCAAATGGCCGTGTGTCACACACAGTTGA
1 GACACACGACTATGTCAAATGACCGTGTGTCACACACAATTGA
29535709 GACACACG
1 GACACACG
29535717 CCCGTATCTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.31, C:0.27, G:0.23, T:0.19
Consensus pattern (43 bp):
GACACACGACTATGTCAAATGACCGTGTGTCACACACAATTGA
Found at i:29540189 original size:18 final size:18
Alignment explanation
Indices: 29540148--29540183 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
29540138 CATTCCGAAG
*
29540148 TATATATATATATACATA
1 TATATGTATATATACATA
29540166 TATATGTATATATACATA
1 TATATGTATATATACATA
29540184 AGTATGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (18 bp):
TATATGTATATATACATA
Found at i:29540697 original size:28 final size:28
Alignment explanation
Indices: 29540659--29540808 Score: 248
Period size: 28 Copynumber: 5.4 Consensus size: 28
29540649 TAAATTGTAC
29540659 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
29540687 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
29540715 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
* *
29540743 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
29540771 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
29540798 AGCACTGAGTG
1 AGCACTAAGTG
29540809 CGCGGACTTA
Statistics
Matches: 119, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
27 20 0.17
28 99 0.83
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATGT
Found at i:29540725 original size:56 final size:55
Alignment explanation
Indices: 29540659--29540825 Score: 248
Period size: 56 Copynumber: 3.0 Consensus size: 55
29540649 TAAATTGTAC
*
29540659 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGATTATGTAGCACTAAGTGTGCGAGCTTGATTATAT
*
29540715 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAG-TTGATTATGTAGCACTAAGTGTGCGAGCTTGATTATAT
* * *
29540771 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGCGCG-GACTT-ATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTGTGCGAG-CTTGATTATAT
29540825 A
1 A
29540826 CTTTTGAAAT
Statistics
Matches: 103, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
54 9 0.09
55 24 0.23
56 70 0.68
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTGTGCGAGCTTGATTATAT
Found at i:29542325 original size:28 final size:28
Alignment explanation
Indices: 29542287--29542436 Score: 248
Period size: 28 Copynumber: 5.4 Consensus size: 28
29542277 TAAATTGTAC
29542287 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
29542315 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
29542343 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
* *
29542371 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
29542399 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
29542426 AGCACTGAGTG
1 AGCACTAAGTG
29542437 CGCGGACTTA
Statistics
Matches: 119, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
27 20 0.17
28 99 0.83
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATGT
Found at i:29542353 original size:56 final size:55
Alignment explanation
Indices: 29542287--29542453 Score: 248
Period size: 56 Copynumber: 3.0 Consensus size: 55
29542277 TAAATTGTAC
*
29542287 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGATTATGTAGCACTAAGTGTGCGAGCTTGATTATAT
*
29542343 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAG-TTGATTATGTAGCACTAAGTGTGCGAGCTTGATTATAT
* * *
29542399 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGCGCG-GACTT-ATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTGTGCGAG-CTTGATTATAT
29542453 A
1 A
29542454 CTTTTGAAAT
Statistics
Matches: 103, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
54 9 0.09
55 24 0.23
56 70 0.68
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTGTGCGAGCTTGATTATAT
Found at i:29550008 original size:18 final size:18
Alignment explanation
Indices: 29549966--29550008 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
29549956 GCCCATTCCG
*
29549966 AAGTATATATATATACAT
1 AAGTATGTATATATACAT
29549984 ATA-TATGTATATATACAT
1 A-AGTATGTATATATACAT
29550002 AAGTATG
1 AAGTATG
29550009 CCCATTCATG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (18 bp):
AAGTATGTATATATACAT
Found at i:29550514 original size:28 final size:28
Alignment explanation
Indices: 29550476--29550629 Score: 256
Period size: 28 Copynumber: 5.5 Consensus size: 28
29550466 TAAATTGTAC
29550476 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
29550504 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
29550532 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
* *
29550560 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
29550588 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
29550615 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29550630 GACTTATTAT
Statistics
Matches: 123, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
27 24 0.20
28 99 0.80
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATGT
Found at i:29559643 original size:41 final size:41
Alignment explanation
Indices: 29559568--29559753 Score: 230
Period size: 41 Copynumber: 4.5 Consensus size: 41
29559558 AGTGTAAGCA
* *
29559568 GGCACGTACGTGCTATTTAGGGGGTACCGAAGTACAAACAGG
1 GGCACGTATGTGCAATTTA-GGGGTACCGAAGTACAAACAGG
* * *
29559610 GGCACATATGTGCAATTTAGGGGTACTGAAGTACAAATAGG
1 GGCACGTATGTGCAATTTAGGGGTACCGAAGTACAAACAGG
* * *
29559651 GACACGTATGTGCAATTCAGGGGTACCGAAGTACAAA-AAG
1 GGCACGTATGTGCAATTTAGGGGTACCGAAGTACAAACAGG
* * * * *
29559691 GGAATGTATGTGTAATTTAGGGGTATCAAAGTACAAACAGG
1 GGCACGTATGTGCAATTTAGGGGTACCGAAGTACAAACAGG
*
29559732 GGCACGTATGTACAATTTAGGG
1 GGCACGTATGTGCAATTTAGGG
29559754 AATAGTTAAG
Statistics
Matches: 121, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
40 32 0.26
41 73 0.60
42 16 0.13
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (41 bp):
GGCACGTATGTGCAATTTAGGGGTACCGAAGTACAAACAGG
Found at i:29559710 original size:81 final size:82
Alignment explanation
Indices: 29559570--29559753 Score: 228
Period size: 81 Copynumber: 2.2 Consensus size: 82
29559560 TGTAAGCAGG
* * * *
29559570 CACGTACGTGCTATTTAGGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTTAGGGGTA
1 CACGTATGTGCAATTTA-GGGGTACCGAAGTACAAACAAGGGAACATATGTGCAATTTAGGGGTA
* *
29559635 -CTGAAGTACAAATAGGGA
65 TC-AAAGTACAAACAGGGA
* ** *
29559653 CACGTATGTGCAATTCAGGGGTACCGAAGTACAAA-AAGGGAATGTATGTGTAATTTAGGGGTAT
1 CACGTATGTGCAATTTAGGGGTACCGAAGTACAAACAAGGGAACATATGTGCAATTTAGGGGTAT
*
29559717 CAAAGTACAAACAGGGG
66 CAAAGTACAAACAGGGA
*
29559734 CACGTATGTACAATTTAGGG
1 CACGTATGTGCAATTTAGGG
29559754 AATAGTTAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
81 54 0.62
82 19 0.22
83 14 0.16
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (82 bp):
CACGTATGTGCAATTTAGGGGTACCGAAGTACAAACAAGGGAACATATGTGCAATTTAGGGGTAT
CAAAGTACAAACAGGGA
Found at i:29559902 original size:32 final size:32
Alignment explanation
Indices: 29559861--29559924 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
29559851 CTAGAGCGTA
29559861 AAACTACGATCATGCTAATCCGTAATTTTCGC
1 AAACTACGATCATGCTAATCCGTAATTTTCGC
29559893 AAACTACGATCATGCTAATCCGTAATTTTCGC
1 AAACTACGATCATGCTAATCCGTAATTTTCGC
29559925 CTTTCCTCAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (32 bp):
AAACTACGATCATGCTAATCCGTAATTTTCGC
Found at i:29562705 original size:25 final size:25
Alignment explanation
Indices: 29562670--29562734 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
29562660 ATACCCTCAA
29562670 AGGGTAAAATAACCAAAATACCCCT
1 AGGGTAAAATAACCAAAATACCCCT
* *
29562695 GGGGTAAAATAACCAAAATACCTCT
1 AGGGTAAAATAACCAAAATACCCCT
* *
29562720 AGGATAAAATTACCA
1 AGGGTAAAATAACCA
29562735 TTTTACCCCT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (25 bp):
AGGGTAAAATAACCAAAATACCCCT
Found at i:29596461 original size:140 final size:140
Alignment explanation
Indices: 29596231--29596505 Score: 388
Period size: 140 Copynumber: 2.0 Consensus size: 140
29596221 GGCTCGGCCA
* * * * * *
29596231 TGTGACCCAAGTCAGAGAGTTACATGGGCACGGACACAGGCTGGGACACGGTTGTTTGTCCCTAC
1 TGTGACCAAAGTCAGAAAGTTACATGGGCACAGACACAGCCTGGGACACGGTCGTTTGTCCATAC
* * * * *
29596296 TTCGAATACCTACACGGCTTGAGACATGAGCATGTGTCTCAGCCGTGTGAGTCACACGGCCTGGC
66 TTCGAATACCCACACGGCCTGAGACATGAGCATGTATCTCAGCCATGTAAGTCACACGGCCTGGC
29596361 CACATAGCTT
131 CACATAGCTT
* *
29596371 TGTGACCAAAGTTAGAAAGTTACATGGGCACAGACATAGCCTGGGACACGGTCGTTTGTCCATAC
1 TGTGACCAAAGTCAGAAAGTTACATGGGCACAGACACAGCCTGGGACACGGTCGTTTGTCCATAC
* * * * *
29596436 TTCGAATGCCCACACTGCCTGAGACATGGGCATGTATTTCAGCCATGTAAGTCACACGGCTTGGC
66 TTCGAATACCCACACGGCCTGAGACATGAGCATGTATCTCAGCCATGTAAGTCACACGGCCTGGC
29596501 CACAT
131 CACAT
29596506 GGCCGTGTAA
Statistics
Matches: 117, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
140 117 1.00
ACGTcount: A:0.25, C:0.26, G:0.26, T:0.23
Consensus pattern (140 bp):
TGTGACCAAAGTCAGAAAGTTACATGGGCACAGACACAGCCTGGGACACGGTCGTTTGTCCATAC
TTCGAATACCCACACGGCCTGAGACATGAGCATGTATCTCAGCCATGTAAGTCACACGGCCTGGC
CACATAGCTT
Found at i:29603202 original size:15 final size:15
Alignment explanation
Indices: 29603154--29603205 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
29603144 GGCCGTGTGT
29603154 CACACACAGTTGAGA
1 CACACACAGTTGAGA
* *** * *
29603169 CACACGCCCATGTGT
1 CACACACAGTTGAGA
29603184 CACACACAGTTGAGA
1 CACACACAGTTGAGA
29603199 CACACAC
1 CACACAC
29603206 CCGTGTCTCA
Statistics
Matches: 25, Mismatches: 12, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.35, C:0.35, G:0.17, T:0.13
Consensus pattern (15 bp):
CACACACAGTTGAGA
Found at i:29603476 original size:12 final size:13
Alignment explanation
Indices: 29603450--29603482 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
29603440 TTCACTCAAG
29603450 AAATACCTAATCA
1 AAATACCTAATCA
29603463 AAATACCT-ATCA
1 AAATACCTAATCA
29603475 AAGATACC
1 AA-ATACC
29603483 ACAATCACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.52, C:0.24, G:0.03, T:0.21
Consensus pattern (13 bp):
AAATACCTAATCA
Found at i:29605664 original size:13 final size:13
Alignment explanation
Indices: 29605646--29605673 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
29605636 ACTTTAGTGC
29605646 ATCTGTACTTTTA
1 ATCTGTACTTTTA
29605659 ATCTGTACTTTTA
1 ATCTGTACTTTTA
29605672 AT
1 AT
29605674 TATTGGTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.54
Consensus pattern (13 bp):
ATCTGTACTTTTA
Found at i:29606943 original size:98 final size:98
Alignment explanation
Indices: 29606772--29606968 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
29606762 GTGCAATAAA
* *
29606772 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGCCACAATT
*
29606837 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACACGGAATATTTCCTTT
29606870 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGCCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGCCACAATT
*
29606935 CCTTTAAAATCCCAAACACGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACACGGAATATTTCCTTT
29606968 A
1 A
29606969 TTATTTTTAA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGCCACAATT
CCTCTAAAATCCCAAACACGGAATATTTCCTTT
Found at i:29607123 original size:103 final size:103
Alignment explanation
Indices: 29607013--29607335 Score: 262
Period size: 103 Copynumber: 3.1 Consensus size: 103
29607003 AATGCGTCAC
29607013 ATCCAATACGTTAGGACATTACGTGTTGAATTCCCAATAATGAATTCTTATTTTTTGATTAAAAA
1 ATCCAATACGTTAGGACATTACGTGTTGAATTCCCAATAATGAATTCTTATTTTTTGATTAAAAA
29607078 GAAATGCTCGATTATTGGATTTAACAAAGAAAATCGGA
66 GAAATGCTCGATTATTGGATTTAACAAAGAAAATCGGA
* ** * * ** *
29607116 ATCCAATACGTTAGGGCTCAATT-C-CCTTGAAAATCCTAAATACGGAATATTTCCTTTATTATT
1 ATCCAATACGTTA-GG-AC-ATTACGTGTTG-AATTCC-CAATAATG-A-A-TT-C-TTATTTTT
* * **
29607179 T--TT-AAAAGAAAT-CTTC-ATT-TCGAGA---AATCAATG--CGTC--A
56 TGATTAAAAAGAAATGC-TCGATTATTG-GATTTAA-CAAAGAAAATCGGA
** *
29607217 CATCCAATACGTTAGGACACAACGTGTTGAATTCCCAATAATGAATTCTTATTTTTTGATTAAAG
1 -ATCCAATACGTTAGGACATTACGTGTTGAATTCCCAATAATGAATTCTTATTTTTTGATTAAAA
*
29607282 AGAAATGCTCGATTATTGGATTTAACAAAGAAAACCGGA
65 AGAAATGCTCGATTATTGGATTTAACAAAGAAAATCGGA
*
29607321 ACCCAATACGTTAGG
1 ATCCAATACGTTAGG
29607336 GCTCAATTCC
Statistics
Matches: 162, Mismatches: 29, Indels: 58
0.65 0.12 0.23
Matches are distributed among these distances:
94 8 0.05
95 1 0.01
96 4 0.02
97 11 0.07
98 7 0.04
99 8 0.05
100 11 0.07
101 8 0.05
102 14 0.09
103 29 0.18
104 8 0.05
105 11 0.07
106 10 0.06
107 7 0.04
108 12 0.07
109 4 0.02
110 1 0.01
111 8 0.05
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.33
Consensus pattern (103 bp):
ATCCAATACGTTAGGACATTACGTGTTGAATTCCCAATAATGAATTCTTATTTTTTGATTAAAAA
GAAATGCTCGATTATTGGATTTAACAAAGAAAATCGGA
Found at i:29607169 original size:205 final size:205
Alignment explanation
Indices: 29606912--29607364 Score: 809
Period size: 205 Copynumber: 2.2 Consensus size: 205
29606902 AAGAAATCAC
* * * * *
29606912 ACCCAATACGTTAGGCCACAATT-CCTTTAAAATCCCAAACACGGAATATTTCCTTTATTATTTT
1 ACCCAATACGTTAGGGCTCAATTCCCTTGAAAATCCTAAATACGGAATATTTCCTTTATTATTTT
**
29606976 TAAAAGAAATCTTCATTTCGAGAAATCAATGCGTCACATCCAATACGTTAGGACATTACGTGTTG
66 TAAAAGAAATCTTCATTTCGAGAAATCAATGCGTCACATCCAATACGTTAGGACACAACGTGTTG
29607041 AATTCCCAATAATGAATTCTTATTTTTTGATTAAAAAGAAATGCTCGATTATTGGATTTAACAAA
131 AATTCCCAATAATGAATTCTTATTTTTTGATTAAAAAGAAATGCTCGATTATTGGATTTAACAAA
*
29607106 GAAAATCGGA
196 GAAAACCGGA
*
29607116 ATCCAATACGTTAGGGCTCAATTCCCTTGAAAATCCTAAATACGGAATATTTCCTTTATTATTTT
1 ACCCAATACGTTAGGGCTCAATTCCCTTGAAAATCCTAAATACGGAATATTTCCTTTATTATTTT
29607181 TAAAAGAAATCTTCATTTCGAGAAATCAATGCGTCACATCCAATACGTTAGGACACAACGTGTTG
66 TAAAAGAAATCTTCATTTCGAGAAATCAATGCGTCACATCCAATACGTTAGGACACAACGTGTTG
*
29607246 AATTCCCAATAATGAATTCTTATTTTTTGATTAAAGAGAAATGCTCGATTATTGGATTTAACAAA
131 AATTCCCAATAATGAATTCTTATTTTTTGATTAAAAAGAAATGCTCGATTATTGGATTTAACAAA
29607311 GAAAACCGGA
196 GAAAACCGGA
29607321 ACCCAATACGTTAGGGCTCAATTCCCTTGAAAATCCTAAATACG
1 ACCCAATACGTTAGGGCTCAATTCCCTTGAAAATCCTAAATACG
29607365 AGCATTATCT
Statistics
Matches: 237, Mismatches: 11, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
204 20 0.08
205 217 0.92
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.32
Consensus pattern (205 bp):
ACCCAATACGTTAGGGCTCAATTCCCTTGAAAATCCTAAATACGGAATATTTCCTTTATTATTTT
TAAAAGAAATCTTCATTTCGAGAAATCAATGCGTCACATCCAATACGTTAGGACACAACGTGTTG
AATTCCCAATAATGAATTCTTATTTTTTGATTAAAAAGAAATGCTCGATTATTGGATTTAACAAA
GAAAACCGGA
Found at i:29607833 original size:20 final size:20
Alignment explanation
Indices: 29607805--29607851 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
29607795 ATATATGTGT
* *
29607805 ATATATATATAAATTATAAA
1 ATATATATAGAAAGTATAAA
* *
29607825 ATATGTATAGAAAGTATAAT
1 ATATATATAGAAAGTATAAA
29607845 ATATATA
1 ATATATA
29607852 CGTACATATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.38
Consensus pattern (20 bp):
ATATATATAGAAAGTATAAA
Found at i:29607880 original size:52 final size:50
Alignment explanation
Indices: 29607696--29607868 Score: 150
Period size: 56 Copynumber: 3.2 Consensus size: 50
29607686 ATAAAGAAAA
* * *
29607696 ATATATATAGAAATTATAAAAATATGGGTAGAAAGTATAATATATATACATAC
1 ATATATATATAAA-T-TAAAAATAT-GATAGAAAGTATAATATATATACGTAC
* * * * **
29607749 ATATATATGTAAATTAATAAATATAGACCATAAAG-ATAATGATTGCATATATGTGT
1 ATATATATATAAATTAA-AAATAT-GA-TAGAAAGTATAAT-A-T--ATATACGTAC
29607805 ATATATATATAAATTATAAAATATGTATAGAAAGTATAATATATATACGTAC
1 ATATATATATAAATTA-AAAATATG-ATAGAAAGTATAATATATATACGTAC
29607857 ATATATATATAA
1 ATATATATATAA
29607869 GGTAACAAAT
Statistics
Matches: 95, Mismatches: 16, Indels: 19
0.73 0.12 0.15
Matches are distributed among these distances:
51 3 0.03
52 32 0.34
53 17 0.18
54 2 0.02
55 7 0.07
56 33 0.35
57 1 0.01
ACGTcount: A:0.51, C:0.04, G:0.10, T:0.35
Consensus pattern (50 bp):
ATATATATATAAATTAAAAATATGATAGAAAGTATAATATATATACGTAC
Found at i:29609300 original size:44 final size:44
Alignment explanation
Indices: 29609227--29609566 Score: 222
Period size: 44 Copynumber: 7.8 Consensus size: 44
29609217 ACTTGCTTCA
* *
29609227 TTAATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTAGGGTT
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAGGGTT
* * * *
29609270 TTAATCCGCTCCACTACAACTTCAGGGAGATAGGAT-TATCGGTT
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTA-GGGTT
* * * * **
29609314 TTAATTTGCTCCACTGTAACTTTAGGGAAATAAGAT-TAGCCATT
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAG-GGTT
* * *
29609358 TTCAGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGA-CT-TGCTT
1 TT-AATCTGCTC-CACTGCAACTTCAGGGA-GATAAGATCTAGGGTT
* * *
29609401 ACTTAGTCTGCTCCACTGCCACTTCAGGGAGATAAGA-CTA--GAT
1 --TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAGGGTT
*** ** * * *
29609444 GCGATCTGCT-CTTTGCAACTTCAGAGAGGTAAGATCT-GAGATT
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAG-GGTT
* * * *
29609487 TTAATCCGCTCCACTGCAACTTCAGGAAGATAGGAT-T-GTTGGCT
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAG--GGTT
29609531 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
29609567 TTGCCATCTT
Statistics
Matches: 225, Mismatches: 54, Indels: 35
0.72 0.17 0.11
Matches are distributed among these distances:
40 19 0.08
41 8 0.04
43 23 0.10
44 146 0.65
45 29 0.13
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (44 bp):
TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAGGGTT
Found at i:29609635 original size:217 final size:217
Alignment explanation
Indices: 29609230--29609635 Score: 543
Period size: 217 Copynumber: 1.9 Consensus size: 217
29609220 TGCTTCATTA
*
29609230 ATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAGGGTTTTAATCCGCTCCACTACAACTTCAG
1 ATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAGGATTTTAATCCGCTCCACTACAACTTCAG
* * * * * *
29609295 GGAGATAGGATTATCGGTTTTAATTTGCTCCACTGTAACTTTAGGGAAATAAGATTAGCCATTTT
66 GAAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTAGCCATCTT
* ** * *
29609360 CAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCCACTT
131 CAGTCTGCCTCACTACAACTTCAGGAGGATAAGACTTGAATACTTAATCTACTCCACTGCCACTT
29609425 CAGGGAGATAAGACTAGATGCG
196 CAGGGAGATAAGACTAGATGCG
* * *
29609447 ATCTGCTCTTTGCAACTTCAGAGAGGTAAGATCT-GAGATTTTAATCCGCTCCACTGCAACTTCA
1 ATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAG-GATTTTAATCCGCTCCACTACAACTTCA
* * * *
29609511 GGAAGATAGGATTGTTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCT
65 GGAAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTAGCCATCT
* *
29609576 TCAGTCTGCCTCACTACTACTT-AGG-GAGATAAGA-TCTGAA-ATCTTCAATCTATTCCACTG
130 TCAGTCTGCCTCACTACAACTTCAGGAG-GATAAGACT-TGAATA-CTT-AATCTACTCCACTG
29609636 TTGTCCAGGG
Statistics
Matches: 163, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
215 3 0.02
216 16 0.10
217 144 0.88
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (217 bp):
ATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAGGATTTTAATCCGCTCCACTACAACTTCAG
GAAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTAGCCATCTT
CAGTCTGCCTCACTACAACTTCAGGAGGATAAGACTTGAATACTTAATCTACTCCACTGCCACTT
CAGGGAGATAAGACTAGATGCG
Found at i:29610155 original size:132 final size:132
Alignment explanation
Indices: 29609569--29610141 Score: 913
Period size: 132 Copynumber: 4.3 Consensus size: 132
29609559 GATAAGATTT
*
29609569 GCCATCTTC-AGTCTGC-CTCACTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCC
1 GCCATCTTCGA-TCTGCTC-CACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCC
* * *
29609632 ACTGTTGTCCAGGGAAGTAGAGTTACTGGCTTCAATGTACTCCACTGTAACCATAGGGAGGTAAA
64 ACTGTTGTTCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAA
29609697 ATCC
129 ATCC
* *
29609701 GCCATCTTCGATCTGCTCCACTACTGTTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCAC
1 GCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCAC
* * * *
29609766 T-TTTTTCCAGGAAAGTATAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAA
66 TGTTGTT-CAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAA
*
29609830 TCT
130 TCC
*
29609833 GCCATCTTCGATCTGCCCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCAC
1 GCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCAC
*
29609898 TGTTGTTCAGGGAAGTAGAATTACTGGCTTCAATGTATTCCACTGTAACCACAGGGAGGTAAAAT
66 TGTTGTTCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAAT
29609963 CC
131 CC
** *
29609965 GCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCTATTTTC-A-CTGATTTCC
1 GCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCT-A-TTCC
*
29610028 ACTGTTGTTCAGGGAAGTAGAATTACTGGCTTCAATGTATTCCACTGTAACCACAGGGAGGTAAA
64 ACTGTTGTTCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAA
29610093 ATCC
129 ATCC
29610097 GCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
1 GCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
29610142 CTATTTTCAC
Statistics
Matches: 411, Mismatches: 24, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
130 2 0.00
131 5 0.01
132 398 0.97
133 6 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (132 bp):
GCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCAC
TGTTGTTCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAAT
CC
Found at i:29613794 original size:24 final size:24
Alignment explanation
Indices: 29613766--29613811 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
29613756 ATCATTTTTT
* *
29613766 GCTGCTCATTCATTTGCTTTTGAA
1 GCTGCTCATGCATTTCCTTTTGAA
*
29613790 GCTGCTCCTGCATTTCCTTTTG
1 GCTGCTCATGCATTTCCTTTTG
29613812 GGATTGTTCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (24 bp):
GCTGCTCATGCATTTCCTTTTGAA
Found at i:29615652 original size:103 final size:103
Alignment explanation
Indices: 29615537--29615857 Score: 281
Period size: 103 Copynumber: 3.1 Consensus size: 103
29615527 TGCGTCACAT
29615537 CCAATACGTTAGGACACAACGTGTTGAATTCCCAATAATGAATTCTTATTTTTTGATTAAAGAGA
1 CCAATACGTTAGGACACAACGTGTTGAATTCCCAATAATGAATTCTTATTTTTTGATTAAAGAGA
29615602 AATGCTCGATTATTGGATTTAACAAAGAAAATCAGAAC
66 AATGCTCGATTATTGGATTTAACAAAGAAAATCAGAAC
* * ** * * ** *
29615640 CCAATACGTTAGGGCTCAATTC-CCTTGAAAATCCTAAATACGGAATATTTCCTTTATTATTT--
1 CCAATACGTTAGGACACAA--CGTGTTG-AATTCC-CAATAATG-A-A-TT-C-TTATTTTTTGA
* * ** * *
29615702 TTAAA-AGAAAT-CTTC-ATT-TCGAGA---AATCAATG--CGTCA-CAT
57 TTAAAGAGAAATGC-TCGATTATTG-GATTTAA-CAAAGAAAATCAGAAC
29615742 CCAATACGTTAGGACACAACGTGTTGAATTCCCAATAATGAATTCTTATTTTTTGATTAAAGAGA
1 CCAATACGTTAGGACACAACGTGTTGAATTCCCAATAATGAATTCTTATTTTTTGATTAAAGAGA
* *
29615807 AATGCTCGATTATTAGATTTAACAAAGAAAATCGGAAC
66 AATGCTCGATTATTGGATTTAACAAAGAAAATCAGAAC
*
29615845 CCAATACTTTAGG
1 CCAATACGTTAGG
29615858 GCTTAATTCC
Statistics
Matches: 160, Mismatches: 33, Indels: 50
0.66 0.14 0.21
Matches are distributed among these distances:
94 8 0.05
95 1 0.01
96 7 0.04
97 9 0.06
98 7 0.04
99 6 0.04
100 10 0.06
101 5 0.03
102 20 0.12
103 33 0.21
104 5 0.03
105 10 0.06
106 7 0.04
107 7 0.04
108 9 0.06
109 7 0.04
110 1 0.01
111 8 0.05
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (103 bp):
CCAATACGTTAGGACACAACGTGTTGAATTCCCAATAATGAATTCTTATTTTTTGATTAAAGAGA
AATGCTCGATTATTGGATTTAACAAAGAAAATCAGAAC
Found at i:29615785 original size:205 final size:205
Alignment explanation
Indices: 29615434--29615886 Score: 811
Period size: 205 Copynumber: 2.2 Consensus size: 205
29615424 AAGAAATCAC
* * * *
29615434 ACCCAATACGTTAGAGCACAATT-CCTTTAAAATCCCAAACT-CGGAATATTTCCTTTATTATTT
1 ACCCAATACGTTAGGGCTCAATTCCCTTGAAAATCCTAAA-TACGGAATATTTCCTTTATTATTT
29615497 TTAAAAGAAATCTTCATTTCGAGAAATCAATGCGTCACATCCAATACGTTAGGACACAACGTGTT
65 TTAAAAGAAATCTTCATTTCGAGAAATCAATGCGTCACATCCAATACGTTAGGACACAACGTGTT
*
29615562 GAATTCCCAATAATGAATTCTTATTTTTTGATTAAAGAGAAATGCTCGATTATTGGATTTAACAA
130 GAATTCCCAATAATGAATTCTTATTTTTTGATTAAAGAGAAATGCTCGATTATTAGATTTAACAA
29615627 AGAAAATCAGA
195 AGAAAATCAGA
29615638 ACCCAATACGTTAGGGCTCAATTCCCTTGAAAATCCTAAATACGGAATATTTCCTTTATTATTTT
1 ACCCAATACGTTAGGGCTCAATTCCCTTGAAAATCCTAAATACGGAATATTTCCTTTATTATTTT
29615703 TAAAAGAAATCTTCATTTCGAGAAATCAATGCGTCACATCCAATACGTTAGGACACAACGTGTTG
66 TAAAAGAAATCTTCATTTCGAGAAATCAATGCGTCACATCCAATACGTTAGGACACAACGTGTTG
29615768 AATTCCCAATAATGAATTCTTATTTTTTGATTAAAGAGAAATGCTCGATTATTAGATTTAACAAA
131 AATTCCCAATAATGAATTCTTATTTTTTGATTAAAGAGAAATGCTCGATTATTAGATTTAACAAA
*
29615833 GAAAATCGGA
196 GAAAATCAGA
* *
29615843 ACCCAATACTTTAGGGCTTAATTCCCTTGAAAATCCTAAATACG
1 ACCCAATACGTTAGGGCTCAATTCCCTTGAAAATCCTAAATACG
29615887 AGCATTATCT
Statistics
Matches: 239, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
204 22 0.09
205 217 0.91
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (205 bp):
ACCCAATACGTTAGGGCTCAATTCCCTTGAAAATCCTAAATACGGAATATTTCCTTTATTATTTT
TAAAAGAAATCTTCATTTCGAGAAATCAATGCGTCACATCCAATACGTTAGGACACAACGTGTTG
AATTCCCAATAATGAATTCTTATTTTTTGATTAAAGAGAAATGCTCGATTATTAGATTTAACAAA
GAAAATCAGA
Found at i:29616376 original size:58 final size:53
Alignment explanation
Indices: 29616224--29616400 Score: 155
Period size: 58 Copynumber: 3.2 Consensus size: 53
29616214 ATAAAGAAAA
* *
29616224 ATATATATAGAAATTATAAAAATATGGGTAGAAAGTATAATATATATATACGTAC
1 ATATATATATAAATTAT-AAAATAT-GATAGAAAGTATAATATATATATACGTAC
* * * * **
29616279 ATATATATGTAAATTA-ATAAATATAGACCATAAAG-ATAATGATTGCATATATATGTGT
1 ATATATATATAAATTATA-AAATAT-GA-TAGAAAGTATAAT-A-T--ATATATACGTAC
*
29616337 GTATATATATAAATTATAAAATATGTATAGAAAGTAT-A-ATATATATACGTAC
1 ATATATATATAAATTATAAAATATG-ATAGAAAGTATAATATATATATACGTAC
29616389 ATATATATATAA
1 ATATATATATAA
29616401 GGTAACAAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 21
0.72 0.13 0.16
Matches are distributed among these distances:
52 20 0.21
53 1 0.01
54 13 0.14
55 21 0.22
56 1 0.01
57 7 0.07
58 32 0.33
59 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.11, T:0.36
Consensus pattern (53 bp):
ATATATATATAAATTATAAAATATGATAGAAAGTATAATATATATATACGTAC
Found at i:29616443 original size:112 final size:113
Alignment explanation
Indices: 29616225--29616443 Score: 291
Period size: 112 Copynumber: 1.9 Consensus size: 113
29616215 TAAAGAAAAA
* *
29616225 TATATATAGAAATTATAAAAATATGGGTAGAAAGTATAATATATATATACGTACATATATATGTA
1 TATATATAGAAATTATAAAAATATGGATAGAAAGTATAATATATATATACGTACATATATATATA
* * * * * *
29616290 AATTAATAAATATAGACCATAAAGATAATGATTGCATATATATGTGTG
66 AAGTAACAAATATAGACCATAAACATAATAATTACACATATATGTGTG
* *
29616338 TATATATATAAATTAT-AAAATATGTATAGAAAGTAT-A-ATATATATACGTACATATATATATA
1 TATATATAGAAATTATAAAAATATGGATAGAAAGTATAATATATATATACGTACATATATATATA
* *
29616400 AGGTAACAAATATATACATCATAAACATAATAATTACACATATA
66 AAGTAACAAATATAGAC--CATAAACATAATAATTACACATATA
29616444 AGCTTAAAAG
Statistics
Matches: 92, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
110 37 0.40
111 1 0.01
112 39 0.42
113 15 0.16
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (113 bp):
TATATATAGAAATTATAAAAATATGGATAGAAAGTATAATATATATATACGTACATATATATATA
AAGTAACAAATATAGACCATAAACATAATAATTACACATATATGTGTG
Found at i:29621019 original size:13 final size:13
Alignment explanation
Indices: 29621001--29621055 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
29620991 AGCACACATG
*
29621001 AAACATATCTTTA
1 AAACATATCTTGA
* *
29621014 AAACATAACTTAA
1 AAACATATCTTGA
*
29621027 AAAAATATCTTGA
1 AAACATATCTTGA
*
29621040 AAATATATCTTGA
1 AAACATATCTTGA
29621053 AAA
1 AAA
29621056 TAGACTATCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.55, C:0.11, G:0.04, T:0.31
Consensus pattern (13 bp):
AAACATATCTTGA
Found at i:29621547 original size:23 final size:18
Alignment explanation
Indices: 29621497--29621545 Score: 98
Period size: 18 Copynumber: 2.7 Consensus size: 18
29621487 TTCTTGTCGA
29621497 AAAATAATTAAATATTAT
1 AAAATAATTAAATATTAT
29621515 AAAATAATTAAATATTAT
1 AAAATAATTAAATATTAT
29621533 AAAATAATTAAAT
1 AAAATAATTAAAT
29621546 TATGTTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAATAATTAAATATTAT
Found at i:29622371 original size:20 final size:20
Alignment explanation
Indices: 29622346--29622383 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
29622336 ACGAAGAACG
*
29622346 GAGAAATTAGTCAAGCCATA
1 GAGAAATCAGTCAAGCCATA
29622366 GAGAAATCAGTCAAGCCA
1 GAGAAATCAGTCAAGCCA
29622384 CGAAAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.16
Consensus pattern (20 bp):
GAGAAATCAGTCAAGCCATA
Found at i:29630646 original size:12 final size:10
Alignment explanation
Indices: 29630621--29630660 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
29630611 GAACATGATG
29630621 AATTTTAATT
1 AATTTTAATT
29630631 AATTTTATAGTT
1 AATTTTA-A-TT
*
29630643 AATTTTGATT
1 AATTTTAATT
29630653 AATTTTAA
1 AATTTTAA
29630661 CTATTTTCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 16 0.62
11 2 0.08
12 8 0.31
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (10 bp):
AATTTTAATT
Found at i:29631838 original size:7 final size:7
Alignment explanation
Indices: 29631828--29631860 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
29631818 TTTTTTTTTT
29631828 TTTTGCA
1 TTTTGCA
29631835 TTTTGCA
1 TTTTGCA
29631842 TTTTGCA
1 TTTTGCA
29631849 TTTTGCA
1 TTTTGCA
29631856 TTTTG
1 TTTTG
29631861 GTGAAGTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.12, C:0.12, G:0.15, T:0.61
Consensus pattern (7 bp):
TTTTGCA
Found at i:29636437 original size:20 final size:20
Alignment explanation
Indices: 29636412--29636451 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
29636402 AATATTTTCC
*
29636412 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
29636432 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
29636452 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:29636457 original size:34 final size:35
Alignment explanation
Indices: 29636400--29636466 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
29636390 CAAACAGCAG
*
29636400 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
29636435 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
29636467 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:29636458 original size:14 final size:14
Alignment explanation
Indices: 29636435--29636474 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
29636425 ACAGAAAAGT
*
29636435 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
29636449 AAATCATTTTACGG
1 AAAACATTTTACAG
29636463 AAAACATTTTAC
1 AAAACATTTTAC
29636475 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:29637539 original size:20 final size:20
Alignment explanation
Indices: 29637514--29637571 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
29637504 TTTATATATT
*
29637514 TAAAATTATTATTTTTAATC
1 TAAAATTATTATTTTTAAAC
*
29637534 TAAAATT-TTAGTTTTCAAAC
1 TAAAATTATTA-TTTTTAAAC
29637554 -AAAATTATAATATTTTTA
1 TAAAATTAT--TATTTTTA
29637572 GGAATTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 9 0.29
20 15 0.48
21 5 0.16
22 2 0.06
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (20 bp):
TAAAATTATTATTTTTAAAC
Found at i:29639045 original size:11 final size:11
Alignment explanation
Indices: 29639031--29639080 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
29639021 TCAATTATTT
29639031 TCTCAATTTCC
1 TCTCAATTTCC
* *
29639042 TCTCAAATTGC
1 TCTCAATTTCC
29639053 TCTCAATTTCC
1 TCTCAATTTCC
*
29639064 TTCTAAATTT-C
1 -TCTCAATTTCC
29639075 TCTCAA
1 TCTCAA
29639081 ATCTATATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
10 5 0.16
11 19 0.59
12 8 0.25
ACGTcount: A:0.24, C:0.30, G:0.02, T:0.44
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:29639059 original size:22 final size:22
Alignment explanation
Indices: 29639031--29639080 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
29639021 TCAATTATTT
29639031 TCTCAATTTCC-TCTCAAATTGC
1 TCTCAATTTCCTTCT-AAATTGC
*
29639053 TCTCAATTTCCTTCTAAATTTC
1 TCTCAATTTCCTTCTAAATTGC
29639075 TCTCAA
1 TCTCAA
29639081 ATCTATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 23 0.88
23 3 0.12
ACGTcount: A:0.24, C:0.30, G:0.02, T:0.44
Consensus pattern (22 bp):
TCTCAATTTCCTTCTAAATTGC
Found at i:29639141 original size:51 final size:51
Alignment explanation
Indices: 29639042--29639141 Score: 141
Period size: 51 Copynumber: 2.0 Consensus size: 51
29639032 CTCAATTTCC
*
29639042 TCTCAAATTGCTCTCAATTTCCTTCTAAATTTCTCTCAAATCTATATTTAA
1 TCTCAAATTGCTCTCAATTTCCTTCTAAATTTCTCTCAAATCCATATTTAA
* *
29639093 TCTC-AATCTGCTCTCAATTTCC-TCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAAAT-TGCTCTCAATTTCCTTC-TAAATTTCTCTCAAATCCATATTT
29639142 TTAATTATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
50 5 0.11
51 39 0.89
ACGTcount: A:0.26, C:0.26, G:0.02, T:0.46
Consensus pattern (51 bp):
TCTCAAATTGCTCTCAATTTCCTTCTAAATTTCTCTCAAATCCATATTTAA
Found at i:29644775 original size:20 final size:21
Alignment explanation
Indices: 29644734--29644788 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
29644724 AATAATAGTG
* *
29644734 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTGGATACTGTA
29644755 GCGGTGAGATTGGAT-CTGTA
1 GCGGTGAGATTGGATACTGTA
*
29644775 GCGATGAGATTGGA
1 GCGGTGAGATTGGA
29644789 AAGAATGGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 18 0.58
21 13 0.42
ACGTcount: A:0.24, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTGGATACTGTA
Found at i:29648396 original size:39 final size:39
Alignment explanation
Indices: 29648342--29648422 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
29648332 ATGCAATCGA
29648342 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
1 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
29648381 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
1 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
29648420 TTT
1 TTT
29648423 TCACTTTATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (39 bp):
TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
Found at i:29648784 original size:29 final size:29
Alignment explanation
Indices: 29648742--29649614 Score: 1289
Period size: 29 Copynumber: 29.9 Consensus size: 29
29648732 CACTATATAT
29648742 ATATATTTTTTATTTTTAAAATACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
29648771 ATATATTTTTTATTTTTAAAATACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
*
29648800 ATATATTTTTTATTTTTAAACTACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
*
29648829 ATATATTTTTTTTATTTTTAAAATGCACTAC
1 ATATA--TTTTTTATTTTTAAAATACACTAC
*
29648860 ATATATTTTTTATTTTTAAAATACACTAAAT
1 ATATATTTTTTATTTTTAAAATACACT--AC
29648891 ATATATTTTTTATTTTTAAAATACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
29648920 ATATATTTTTTATTTTTAAAATACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
29648949 ATATATTTTTTATTTTTAAAATACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
29648978 ATATACTTTTTTTTTATTTTTAAAATACACTAC
1 ATATA----TTTTTTATTTTTAAAATACACTAC
29649011 --ATA----TT-TTTTT-AAATACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
29649032 ATATATTTTTTTATTTTTAAAATACACTAC
1 ATATA-TTTTTTATTTTTAAAATACACTAC
29649062 ATATA-TTTTTATTTTTAAAATACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
29649090 ATATATTTTTTTATTTTTAAAATACACTAC
1 ATATA-TTTTTTATTTTTAAAATACACTAC
29649120 ATATATTTTTTATTTTTAAAATACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
* *
29649149 ATAAATTTTTTATTTTTAAAATGCACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
*
29649178 ATATATTTTTTATTTTTAAAATGCACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
29649207 ATATATTTTTTATTTTTAAAATACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
29649236 ATATATTTTTTTATTTTTAAAATACACTAC
1 ATATA-TTTTTTATTTTTAAAATACACTAC
29649266 ATATATATTTTTATTTTTAAAATACACTAC
1 ATATAT-TTTTTATTTTTAAAATACACTAC
*
29649296 ATATATTTTTT-TATTT----TACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
29649320 ATATATTTTTTATTTTTAAAATACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
29649349 ATATA-TTTTTATTTTTAAAATACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
29649377 ATATATTTTTTTATTTTTAAAATACACTAC
1 ATATA-TTTTTTATTTTTAAAATACACTAC
29649407 ATAT-TTTTTTA-TTTTAAAATACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
29649434 ATATATATATTTTATTTTTAAAATACACTAC
1 ATATAT-T-TTTTATTTTTAAAATACACTAC
* * *
29649465 AAATA-TATATATTTTTAAAATACACTAC
1 ATATATTTTTTATTTTTAAAATACACTAC
29649493 ATATATATATTTTTTATTTTTAAAATACACTTA-
1 ----ATATATTTTTTATTTTTAAAATACAC-TAC
29649526 ATATATTTTTTTTATTTTTAAAATACACTAC
1 ATATA--TTTTTTATTTTTAAAATACACTAC
*
29649557 ATATATTTTTTTATTTTTAGAATACACTAC
1 ATATA-TTTTTTATTTTTAAAATACACTAC
29649587 ATATATATTTTTTATTTTTAAAATACAC
1 --ATATATTTTTTATTTTTAAAATACAC
29649615 AAATACAATG
Statistics
Matches: 781, Mismatches: 20, Indels: 84
0.88 0.02 0.09
Matches are distributed among these distances:
21 11 0.01
22 5 0.01
23 5 0.01
24 19 0.02
25 4 0.01
27 20 0.03
28 90 0.12
29 290 0.37
30 160 0.20
31 124 0.16
32 9 0.01
33 42 0.05
34 2 0.00
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (29 bp):
ATATATTTTTTATTTTTAAAATACACTAC
Found at i:29649024 original size:21 final size:22
Alignment explanation
Indices: 29648992--29649042 Score: 86
Period size: 21 Copynumber: 2.4 Consensus size: 22
29648982 ACTTTTTTTT
*
29648992 TATTTTTAAAATACACTACATA
1 TATTTTTTAAATACACTACATA
29649014 T-TTTTTTAAATACACTACATA
1 TATTTTTTAAATACACTACATA
29649035 TATTTTTT
1 TATTTTTT
29649043 TATTTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (22 bp):
TATTTTTTAAATACACTACATA
Found at i:29649727 original size:17 final size:17
Alignment explanation
Indices: 29649705--29649739 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
29649695 CCATTCCCAT
*
29649705 TTCCCCACTTCTACCGA
1 TTCCCCACTTCCACCGA
*
29649722 TTCCCCTCTTCCACCGA
1 TTCCCCACTTCCACCGA
29649739 T
1 T
29649740 CAAAGTCCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.14, C:0.49, G:0.06, T:0.31
Consensus pattern (17 bp):
TTCCCCACTTCCACCGA
Found at i:29649761 original size:79 final size:79
Alignment explanation
Indices: 29649646--29649801 Score: 258
Period size: 79 Copynumber: 2.0 Consensus size: 79
29649636 TCCCTATCTT
* *
29649646 CCCTCTTCTACCGATCAAAGTCCCAAACCCTATGCCCTCATCCCATTTCCCATTCCCATTTCCCC
1 CCCTCTTCCACCGATCAAAGTCCCAAACCCCATGCCCTCATCCCATTTCCCATTCCCATTTCCCC
*
29649711 ACTTCTACCGATTC
66 ACTTCCACCGATTC
* *
29649725 CCCTCTTCCACCGATCAAAGTCCCAAACCCCGTGCCCTCCTCCCATTTCCCATTCCCATTTCCCC
1 CCCTCTTCCACCGATCAAAGTCCCAAACCCCATGCCCTCATCCCATTTCCCATTCCCATTTCCCC
*
29649790 TCTTCCACCGAT
66 ACTTCCACCGAT
29649802 CAAAGTCCCA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 71 1.00
ACGTcount: A:0.19, C:0.48, G:0.06, T:0.28
Consensus pattern (79 bp):
CCCTCTTCCACCGATCAAAGTCCCAAACCCCATGCCCTCATCCCATTTCCCATTCCCATTTCCCC
ACTTCCACCGATTC
Found at i:29649867 original size:21 final size:19
Alignment explanation
Indices: 29649843--29649881 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
29649833 AATTGAAAAG
*
29649843 CATTTGTTTTCTTGTCATGGC
1 CATTTCTTTT-TTG-CATGGC
29649864 CATTTCTTTTTTGCATGG
1 CATTTCTTTTTTGCATGG
29649882 ATTTCCTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 3 0.18
21 9 0.53
ACGTcount: A:0.10, C:0.18, G:0.18, T:0.54
Consensus pattern (19 bp):
CATTTCTTTTTTGCATGGC
Found at i:29651883 original size:17 final size:17
Alignment explanation
Indices: 29651849--29651900 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
29651839 AAATCCCAGA
*
29651849 TTTTGATATCCA-ATCT
1 TTTTGATACCCATATCT
29651865 TTTTGATACCCATATCT
1 TTTTGATACCCATATCT
*
29651882 TTCTGATACCCATATCT
1 TTTTGATACCCATATCT
29651899 TT
1 TT
29651901 GACTTTCTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
16 11 0.33
17 22 0.67
ACGTcount: A:0.23, C:0.23, G:0.06, T:0.48
Consensus pattern (17 bp):
TTTTGATACCCATATCT
Found at i:29655456 original size:17 final size:17
Alignment explanation
Indices: 29655431--29655483 Score: 88
Period size: 17 Copynumber: 3.1 Consensus size: 17
29655421 AAATCCCAGA
*
29655431 TTTTGATACCCATATCT
1 TTTTTATACCCATATCT
29655448 TTTTTATACCCATATCT
1 TTTTTATACCCATATCT
*
29655465 TTCTTATACCCATATCT
1 TTTTTATACCCATATCT
29655482 TT
1 TT
29655484 GACTTTCTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.23, C:0.25, G:0.02, T:0.51
Consensus pattern (17 bp):
TTTTTATACCCATATCT
Found at i:29656985 original size:21 final size:21
Alignment explanation
Indices: 29656961--29657042 Score: 83
Period size: 21 Copynumber: 3.9 Consensus size: 21
29656951 AAGAACAAAG
* *
29656961 CAAAAAGGGGGGAGAAACCAA
1 CAAAAACGAGGGAGAAACCAA
*
29656982 CAAAAACGAGGGACAAACCAA
1 CAAAAACGAGGGAGAAACCAA
* * *
29657003 TAAGAACAAGGGAGAAACCAA
1 CAAAAACGAGGGAGAAACCAA
* *
29657024 CAAGAACAAGGGGAGAAAC
1 CAAAAACGA-GGGAGAAAC
29657043 TGTTGGTTTC
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
21 43 0.83
22 9 0.17
ACGTcount: A:0.55, C:0.17, G:0.27, T:0.01
Consensus pattern (21 bp):
CAAAAACGAGGGAGAAACCAA
Found at i:29660611 original size:54 final size:51
Alignment explanation
Indices: 29660486--29660668 Score: 154
Period size: 54 Copynumber: 3.5 Consensus size: 51
29660476 GGTGGTAACG
* * * * * * *
29660486 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-A-TGATAGGTTACA
1 TGTGTACTACTATGTGCAGGCTACTATGCGTACCAGATAGTAAT-GATCACA
* * **
29660536 TGTGTAGTACTATGGGCAGGCTACTATGCGTACCAGATAGTTTTGATCACA
1 TGTGTACTACTATGTGCAGGCTACTATGCGTACCAGATAGTAATGATCACA
* * * * * *
29660587 TGTGTGGTACTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACA
1 --TGT-GTACTACTATGTGCAGGCTACTATGCGTACCAGATAGTAATGATCACA
*
29660641 TGTGTAGTACTATGTGCAGGCTACTATG
1 TGTGTACTACTATGTGCAGGCTACTATG
29660669 TGAACTGAAC
Statistics
Matches: 108, Mismatches: 20, Indels: 9
0.79 0.15 0.07
Matches are distributed among these distances:
50 33 0.31
51 29 0.27
52 5 0.05
53 3 0.03
54 38 0.35
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (51 bp):
TGTGTACTACTATGTGCAGGCTACTATGCGTACCAGATAGTAATGATCACA
Found at i:29671158 original size:31 final size:30
Alignment explanation
Indices: 29671121--29671189 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
29671111 ATGTTAATGG
* *
29671121 GTGACTGATTTGTCACTTTTTGATAATGTT-A
1 GTGACTGATTTGTCA-TTTTTCA-AAAGTTGA
* *
29671152 GTGACTGTTTTGTTATTTTTCAAAAGTTGA
1 GTGACTGATTTGTCATTTTTCAAAAGTTGA
29671182 GTGACTGA
1 GTGACTGA
29671190 ATTGAAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 5 0.16
30 14 0.44
31 13 0.41
ACGTcount: A:0.23, C:0.09, G:0.22, T:0.46
Consensus pattern (30 bp):
GTGACTGATTTGTCATTTTTCAAAAGTTGA
Found at i:29671171 original size:173 final size:174
Alignment explanation
Indices: 29670882--29671196 Score: 436
Period size: 173 Copynumber: 1.8 Consensus size: 174
29670872 AGTTAATTAA
* *
29670882 CCACATTAGCTAATTTATTGGCCACGTCACCTGTCTCATTAGGCCAGTAACGGAAAATGTTAATG
1 CCACATTAGCTAATTAATTGGCCACGTCACCTGTCTCATTAGGCCAGTAACAGAAAATGTTAATG
* * * * **
29670947 GATGATTGATTTGTCTCTTTTCGGTAACGTTAGTGATTGATTAGCTATTTTTTTAAAGTTAAGTG
66 GATGACTGATTTGTCACTTTTCGATAACGTTAGTGACTGATTAGCTATTTTTCAAAAGTTAAGTG
29671012 ACTGAATTGAAACTTTGCCTCGACCAGCGTGACAAGTTAACTGG
131 ACTGAATTGAAACTTTGCCTCGACCAGCGTGACAAGTTAACTGG
* * * *
29671056 CCACGTTAGCTAGTTAATTGGCCACGTCACCT-TC-CTGTTAGGCCCGTAACAGAAAATGTTAAT
1 CCACATTAGCTAATTAATTGGCCACGTCACCTGTCTC-ATTAGGCCAGTAACAGAAAATGTTAAT
* * * * * * *
29671119 GGGTGACTGATTTGTCACTTTTTGATAATGTTAGTGACTGTTTTGTTATTTTTCAAAAGTTGAGT
65 GGATGACTGATTTGTCACTTTTCGATAACGTTAGTGACTGATTAGCTATTTTTCAAAAGTTAAGT
29671184 GACTGAATTGAAA
130 GACTGAATTGAAA
29671197 ATAGAGTGAC
Statistics
Matches: 121, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
172 1 0.01
173 91 0.75
174 29 0.24
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.36
Consensus pattern (174 bp):
CCACATTAGCTAATTAATTGGCCACGTCACCTGTCTCATTAGGCCAGTAACAGAAAATGTTAATG
GATGACTGATTTGTCACTTTTCGATAACGTTAGTGACTGATTAGCTATTTTTCAAAAGTTAAGTG
ACTGAATTGAAACTTTGCCTCGACCAGCGTGACAAGTTAACTGG
Found at i:29674561 original size:23 final size:23
Alignment explanation
Indices: 29674535--29674606 Score: 119
Period size: 23 Copynumber: 3.1 Consensus size: 23
29674525 TAAGTGCCAT
29674535 ACTGATATGTAGCCGAAGCTACC
1 ACTGATATGTAGCCGAAGCTACC
29674558 ACTGATATGTAGCC-ATAGCTACC
1 ACTGATATGTAGCCGA-AGCTACC
*
29674581 ACTGAAATGTAGCCGAAGCTACC
1 ACTGATATGTAGCCGAAGCTACC
29674604 ACT
1 ACT
29674607 AATTAATAAC
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
22 1 0.02
23 44 0.96
24 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.22
Consensus pattern (23 bp):
ACTGATATGTAGCCGAAGCTACC
Found at i:29706573 original size:23 final size:21
Alignment explanation
Indices: 29706520--29706574 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
29706510 AATATTTGAC
*
29706520 ATGTTATTATT-TGGTTAAAT
1 ATGTTATTGTTATGGTTAAAT
*
29706540 -TGATATTGTTATGAGTTAAATT
1 ATGTTATTGTTATG-GTTAAA-T
29706562 ATGTTATTGTTAT
1 ATGTTATTGTTAT
29706575 TATTGGTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 8 0.29
20 2 0.07
21 6 0.21
22 1 0.04
23 11 0.39
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATGTTATTGTTATGGTTAAAT
Found at i:29709785 original size:50 final size:50
Alignment explanation
Indices: 29709704--29709839 Score: 155
Period size: 50 Copynumber: 2.7 Consensus size: 50
29709694 TATTGAGGTT
* * * * *
29709704 ATGAAAGGTCCCACGTAAGACCATGCCTGGGATATGGCGTTGGCATCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGATATGGCATGGGCACCGAG
* * * *
29709754 ATGAGAGGTCCCCCGTAAGACCATGTGTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGATATGGCATGGGCACCGAG
** * *
29709804 ATGAGAACTCCCATGTAAGACCATATCTGGGATATG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGATATG
29709840 ACATTGGAAG
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 70 1.00
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGATATGGCATGGGCACCGAG
Found at i:29710125 original size:20 final size:20
Alignment explanation
Indices: 29710100--29710148 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
29710090 TGAGTTATTT
*
29710100 AAGTAAGCAAGTAGGTAAAG
1 AAGTAAGCAAGTAAGTAAAG
29710120 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAG
29710140 AAG-AAGCAA
1 AAGTAAGCAA
29710149 AGACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.55, C:0.04, G:0.29, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAG
Found at i:29723705 original size:21 final size:21
Alignment explanation
Indices: 29723679--29723720 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
29723669 GACGAGAAGT
29723679 CTACTTAAGCCCATAGATGAA
1 CTACTTAAGCCCATAGATGAA
*
29723700 CTACTTAAGCCCGTAGATGAA
1 CTACTTAAGCCCATAGATGAA
29723721 GTTCTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.24
Consensus pattern (21 bp):
CTACTTAAGCCCATAGATGAA
Found at i:29725983 original size:56 final size:56
Alignment explanation
Indices: 29725897--29726072 Score: 334
Period size: 56 Copynumber: 3.1 Consensus size: 56
29725887 ACAAGGGATG
*
29725897 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
*
29725953 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGATTAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
29726009 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
29726065 ATGGGCAA
1 ATGGGCAA
29726073 TAAACTAATA
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
56 117 1.00
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:29727431 original size:40 final size:40
Alignment explanation
Indices: 29727200--29727424 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
29727190 TCGAATGATG
* * * *
29727200 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
29727240 TCCGGACTAAGAT-CCGAAGGCATTTGTTCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29727280 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
29727319 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29727359 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
29727400 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
29727425 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 32 0.20
40 120 0.75
41 9 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:29727446 original size:119 final size:119
Alignment explanation
Indices: 29727207--29727457 Score: 278
Period size: 119 Copynumber: 2.1 Consensus size: 119
29727197 ATGTCCGGGC
* *
29727207 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTTCGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
* **
29727272 ATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCAGGT
66 ATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCCAGGT
* * * **
29727326 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
* * * *
29727389 AGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGT
64 AGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAATCCAGGT
* *
29727445 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
29727458 TACGTGATTT
Statistics
Matches: 111, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 77 0.69
120 31 0.28
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (119 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
ATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCCAGGT
Found at i:29733977 original size:56 final size:56
Alignment explanation
Indices: 29733891--29734122 Score: 446
Period size: 56 Copynumber: 4.1 Consensus size: 56
29733881 ACAAGGGATG
* *
29733891 ATGGGCAAAACAAGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
29733947 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
29734003 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
29734059 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
29734115 ATGGGCAA
1 ATGGGCAA
29734123 TAAACTAATA
Statistics
Matches: 174, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 174 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.22
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:29735479 original size:40 final size:40
Alignment explanation
Indices: 29735248--29735472 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
29735238 TCGAATGATG
* * * *
29735248 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
29735288 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29735328 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29735367 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29735407 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
29735448 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
29735473 AACGAGTAGA
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 120 0.74
41 9 0.06
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:29735490 original size:80 final size:80
Alignment explanation
Indices: 29735248--29735505 Score: 222
Period size: 79 Copynumber: 3.2 Consensus size: 80
29735238 TCGAATGATG
* * * * * * *
29735248 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
*** * * *
29735311 TTGTGTGAGATACTAAT
64 TTGAACGAGTTAATAAA
* *
29735328 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
** *
29735392 GTGCGAGTTACTAAA
66 GAACGAGTTAATAAA
* * *
29735407 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CTGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
29735471 TGAACGAG-TAGATATA
65 TGAACGAGTTA-ATAAA
* *
29735487 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
29735506 TACGTGATTT
Statistics
Matches: 152, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
78 1 0.01
79 75 0.49
80 74 0.49
81 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGTTAATAAA
Found at i:29739845 original size:50 final size:50
Alignment explanation
Indices: 29739736--29740032 Score: 301
Period size: 50 Copynumber: 5.8 Consensus size: 50
29739726 ATTTGGGTAA
*
29739736 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-C--G
*
29739792 AGAGGTTCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* * *
29739842 AGAGGTCCCATGTAAGACTATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
** * * * *
29739892 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCGTGGGCACCGATAGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
** * * * * *
29739942 AGAACTCCCATGTAAGACCATATCTGGGATATGGAATTGGCA--GTACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGACG
* ** * * *
29739991 AAACATCCCATGTAAGACCATGTATGAGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
29740033 TGTTATTATC
Statistics
Matches: 208, Mismatches: 32, Indels: 9
0.84 0.13 0.04
Matches are distributed among these distances:
48 1 0.00
49 36 0.17
50 124 0.60
52 1 0.00
53 4 0.02
55 2 0.01
56 40 0.19
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
Found at i:29748937 original size:43 final size:43
Alignment explanation
Indices: 29748876--29749001 Score: 191
Period size: 43 Copynumber: 2.9 Consensus size: 43
29748866 TGGAGCTTGT
*
29748876 TTAATCCTTAAGCATGCATGGATGAATTTATGAAGCTAATTGC
1 TTAATCTTTAAGCATGCATGGATGAATTTATGAAGCTAATTGC
*
29748919 TTAATCTTTAAGCATGCATGGATGAATTTATGAAGCCT-TTTGC
1 TTAATCTTTAAGCATGCATGGATGAATTTATGAAG-CTAATTGC
* * *
29748962 TTAATCTTTAAGCATGCATGGACGGATTTGTGAAGCTAAT
1 TTAATCTTTAAGCATGCATGGATGAATTTATGAAGCTAAT
29749002 ATTGGTTTTT
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
42 2 0.03
43 71 0.95
44 2 0.03
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (43 bp):
TTAATCTTTAAGCATGCATGGATGAATTTATGAAGCTAATTGC
Found at i:29750043 original size:49 final size:49
Alignment explanation
Indices: 29749971--29750069 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
29749961 TGAACCGAAG
29749971 GAATAATTTTTGAGAGGTAAAAGGTATGAGTGAGTGAAATTATTAGAGT
1 GAATAATTTTTGAGAGGTAAAAGGTATGAGTGAGTGAAATTATTAGAGT
*
29750020 GAATAATTTTTGAGAGGTAAAAGGTGTGAGTGAGTGAAATTATTAGAGT
1 GAATAATTTTTGAGAGGTAAAAGGTATGAGTGAGTGAAATTATTAGAGT
29750069 G
1 G
29750070 GAAAAATCCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.32
Consensus pattern (49 bp):
GAATAATTTTTGAGAGGTAAAAGGTATGAGTGAGTGAAATTATTAGAGT
Done.