Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 115 of 196
Found at i:34903969 original size:59 final size:60
Alignment explanation
Indices: 34903897--34904023 Score: 145
Period size: 59 Copynumber: 2.1 Consensus size: 60
34903887 TTTTCAAATT
* * *
34903897 TTACATTTTGACCC-CAAACTTT-TCTAAAATTTACATTTTGACCCCAAAACT-TTCTA-AAA
1 TTACATTTCGACCCTCAAACTTTCTC-AAAA-TTACACTTTGACCCCAAAACTCTT-AAGAAA
* * *
34903956 TTACATTTCGACCCTTAGACTTTCTCAAAATTACACTTTGACCCCTAAACTCTTAAGAAA
1 TTACATTTCGACCCTCAAACTTTCTCAAAATTACACTTTGACCCCAAAACTCTTAAGAAA
34904016 TTACATTT
1 TTACATTT
34904024 TGGCCCATAT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
59 33 0.57
60 23 0.40
61 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (60 bp):
TTACATTTCGACCCTCAAACTTTCTCAAAATTACACTTTGACCCCAAAACTCTTAAGAAA
Found at i:34904600 original size:13 final size:13
Alignment explanation
Indices: 34904575--34904653 Score: 67
Period size: 13 Copynumber: 6.2 Consensus size: 13
34904565 CGGCCCGAAG
34904575 AAGAAGAAAGAAAA
1 AAGAAG-AAGAAAA
34904589 AAGAAGAAGAAAA
1 AAGAAGAAGAAAA
* *
34904602 AGGGAGAAGAAAA
1 AAGAAGAAGAAAA
*
34904615 GGAGAA-AAG-AAA
1 -AAGAAGAAGAAAA
34904627 AAG-AGAA-AGAAA
1 AAGAAGAAGA-AAA
*
34904639 AAGAAAAAGAAAA
1 AAGAAGAAGAAAA
34904652 AA
1 AA
34904654 AATTAAAAGT
Statistics
Matches: 52, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
10 1 0.02
11 4 0.08
12 9 0.17
13 29 0.56
14 9 0.17
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (13 bp):
AAGAAGAAGAAAA
Found at i:34904650 original size:6 final size:6
Alignment explanation
Indices: 34904575--34904652 Score: 75
Period size: 6 Copynumber: 12.3 Consensus size: 6
34904565 CGGCCCGAAG
* * * *
34904575 AAGAAGA AAGAAAA AAGAAG AAGAAA AAGGGAG AAGAAA AGGAGAA AAGAAA
1 AAGAA-A AAG-AAA AAGAAA AAGAAA AA-GAAA AAGAAA AAGA-AA AAGAAA
*
34904627 AAGAGA AAGAAA AAGAAA AAGAAA AA
1 AAGAAA AAGAAA AAGAAA AAGAAA AA
34904653 AAATTAAAAG
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
6 40 0.69
7 16 0.28
8 2 0.03
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:34905071 original size:15 final size:16
Alignment explanation
Indices: 34905051--34905080 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34905041 TTAATTAGTT
34905051 TTATTT-ATTTAAATA
1 TTATTTCATTTAAATA
34905066 TTATTTCATTTAAAT
1 TTATTTCATTTAAAT
34905081 TTAATTAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATTTCATTTAAATA
Found at i:34905592 original size:17 final size:17
Alignment explanation
Indices: 34905572--34905621 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
34905562 AAAAAAATTA
*
34905572 TGTTTTCAAAACTTTCG
1 TGTTTTCAAAATTTTCG
*
34905589 TGTTTTCAAAATTTTTG
1 TGTTTTCAAAATTTTCG
34905606 TGTTTTCAAAATTTTC
1 TGTTTTCAAAATTTTC
34905622 ATGTGTTCGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.54
Consensus pattern (17 bp):
TGTTTTCAAAATTTTCG
Found at i:34905657 original size:21 final size:20
Alignment explanation
Indices: 34905631--34905699 Score: 90
Period size: 21 Copynumber: 3.5 Consensus size: 20
34905621 CATGTGTTCG
34905631 TGTTTTCAAAAAAAATTCTCA
1 TGTTTTCAAAAAAAATT-TCA
* *
34905652 TGTTTTTAAAAAAAATTTCG
1 TGTTTTCAAAAAAAATTTCA
34905672 TG-TTT-AAAAAAAA-TTCA
1 TGTTTTCAAAAAAAATTTCA
34905689 TGTTTTCAAAA
1 TGTTTTCAAAA
34905700 TTTTCTTGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
17 5 0.12
18 11 0.26
19 7 0.16
20 4 0.09
21 16 0.37
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (20 bp):
TGTTTTCAAAAAAAATTTCA
Found at i:34905772 original size:21 final size:21
Alignment explanation
Indices: 34905748--34905790 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
34905738 TCATGTATCG
* *
34905748 AAAATTTCCGTGTTTTCAAAA
1 AAAATTTCCGCGTTTCCAAAA
34905769 AAAATTTCCGCGTTTCCAAAA
1 AAAATTTCCGCGTTTCCAAAA
34905790 A
1 A
34905791 TTCAGGTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (21 bp):
AAAATTTCCGCGTTTCCAAAA
Found at i:34905896 original size:18 final size:18
Alignment explanation
Indices: 34905572--34905898 Score: 91
Period size: 18 Copynumber: 17.7 Consensus size: 18
34905562 AAAAAAATTA
*
34905572 TGTTTTC-AAAACTTTCG
1 TGTTTTCAAAAATTTTCG
*
34905589 TGTTTTC-AAAATTTTTG
1 TGTTTTCAAAAATTTTCG
34905606 TGTTTTCAAAATTTTCATGTGTTCG
1 TGTTTTCAAAA-----AT-T-TTCG
* *
34905631 TGTTTTCAAAAAAAATTCTCA
1 TGTTTTC---AAAAATTTTCG
* *
34905652 TGTTTTTAAAAAAAATTTCG
1 TG-TTTT-CAAAAATTTTCG
* ** *
34905672 TG-TTTAAAAAAAATTCA
1 TGTTTTCAAAAATTTTCG
*
34905689 TGTTTTC-AAAATTTTCT
1 TGTTTTCAAAAATTTTCG
* *
34905706 TGTTTTCAAGATTTTTCG
1 TGTTTTCAAAAATTTTCG
* *
34905724 TG---TCAAAATAATTCTCA
1 TGTTTTC-AAA-AATTTTCG
* * *
34905741 TG-TATCGAAAATTTCCG
1 TGTTTTCAAAAATTTTCG
*
34905758 TGTTTTCAAAAAAAATTTCCG
1 TGTTTTC---AAAAATTTTCG
* * ***
34905779 CGTTTCCAAAAATTCAGG
1 TGTTTTCAAAAATTTTCG
* * **
34905797 TGATTTAAAAAATCGTCG
1 TGTTTTCAAAAATTTTCG
* * *
34905815 TGTTTTTAAAAA-CTCCG
1 TGTTTTCAAAAATTTTCG
*
34905832 -GTTTTC-AAAATTTTCA
1 TGTTTTCAAAAATTTTCG
*
34905848 TGTTTTTCAAAAAATTCTCG
1 TG-TTTTC-AAAAATTTTCG
*
34905868 TGTTTTAAAAAATTTTCG
1 TGTTTTCAAAAATTTTCG
*
34905886 TGTTCTCAAAAAT
1 TGTTTTCAAAAAT
34905899 AAAAAATGTT
Statistics
Matches: 227, Mismatches: 55, Indels: 55
0.67 0.16 0.16
Matches are distributed among these distances:
15 6 0.03
16 9 0.04
17 66 0.29
18 77 0.34
19 6 0.03
20 20 0.09
21 19 0.08
22 5 0.02
23 4 0.02
24 1 0.00
25 10 0.04
28 4 0.02
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (18 bp):
TGTTTTCAAAAATTTTCG
Found at i:34909013 original size:29 final size:30
Alignment explanation
Indices: 34908954--34909011 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
34908944 TCCGAGCCTT
*
34908954 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
34908984 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
34909012 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:34909241 original size:13 final size:13
Alignment explanation
Indices: 34909223--34909254 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
34909213 TTTCCAGCAA
34909223 TTATGAATTTATT
1 TTATGAATTTATT
34909236 TTATGAATTTATT
1 TTATGAATTTATT
*
34909249 TGATGA
1 TTATGA
34909255 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:34909462 original size:50 final size:50
Alignment explanation
Indices: 34909349--34909590 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
34909339 ATTTGGGTAA
* * *
34909349 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
34909405 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
34909455 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
34909505 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
34909555 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
34909591 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:34909538 original size:100 final size:103
Alignment explanation
Indices: 34909349--34909598 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
34909339 ATTTGGGTAA
34909349 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
34909414 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
34909455 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
34909517 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
34909555 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
34909599 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:34916604 original size:29 final size:30
Alignment explanation
Indices: 34916545--34916602 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
34916535 TCCGAGCCTT
*
34916545 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
34916575 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
34916603 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:34916832 original size:13 final size:13
Alignment explanation
Indices: 34916814--34916845 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
34916804 TTTCCAGCAA
34916814 TTATGAATTTATT
1 TTATGAATTTATT
34916827 TTATGAATTTATT
1 TTATGAATTTATT
*
34916840 TGATGA
1 TTATGA
34916846 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:34917052 original size:50 final size:50
Alignment explanation
Indices: 34916939--34917180 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
34916929 CATTTGGTAA
* * *
34916939 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
34916995 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
34917045 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
34917095 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
34917145 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
34917181 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:34917128 original size:100 final size:103
Alignment explanation
Indices: 34916939--34917188 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
34916929 CATTTGGTAA
34916939 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
34917004 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
34917045 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
34917107 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
34917145 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
34917189 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:34926235 original size:15 final size:15
Alignment explanation
Indices: 34926215--34926251 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
34926205 GATTAGATTA
34926215 GTAATTATTTAACTT
1 GTAATTATTTAACTT
34926230 GTAATTATTTAACTT
1 GTAATTATTTAACTT
34926245 GTAATTA
1 GTAATTA
34926252 ACTTGATAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.51
Consensus pattern (15 bp):
GTAATTATTTAACTT
Found at i:34930205 original size:23 final size:23
Alignment explanation
Indices: 34930143--34930205 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
34930133 ACTAGATTTT
* *
34930143 TTCTAAATATTATTACAAAATAA
1 TTCTAAATATTATCACTAAATAA
34930166 -TCTTAAATATTATCACTAAATAA
1 TTC-TAAATATTATCACTAAATAA
*
34930189 TTCTAAATATTGTCACT
1 TTCTAAATATTATCACT
34930206 TTTAAAAGTC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 2 0.06
23 31 0.89
24 2 0.06
ACGTcount: A:0.44, C:0.13, G:0.02, T:0.41
Consensus pattern (23 bp):
TTCTAAATATTATCACTAAATAA
Found at i:34932962 original size:19 final size:19
Alignment explanation
Indices: 34932938--34932977 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
34932928 AAAGAGAGAT
34932938 ATATTAACATAAACTAGGG
1 ATATTAACATAAACTAGGG
*
34932957 ATATTAATATAAACTAGGG
1 ATATTAACATAAACTAGGG
34932976 AT
1 AT
34932978 TTCTACGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (19 bp):
ATATTAACATAAACTAGGG
Found at i:34933564 original size:49 final size:49
Alignment explanation
Indices: 34933490--34933587 Score: 169
Period size: 49 Copynumber: 2.0 Consensus size: 49
34933480 CAGGACCTTT
*
34933490 TCTTTTTGACAATGAAATAGGGAGTACAACTCGCAGAAATCGAAGAGAA
1 TCTTTTTGACAATGAAATAGAGAGTACAACTCGCAGAAATCGAAGAGAA
* *
34933539 TCTTTTTGATAGTGAAATAGAGAGTACAACTCGCAGAAATCGAAGAGAA
1 TCTTTTTGACAATGAAATAGAGAGTACAACTCGCAGAAATCGAAGAGAA
34933588 ATAAGGAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.23
Consensus pattern (49 bp):
TCTTTTTGACAATGAAATAGAGAGTACAACTCGCAGAAATCGAAGAGAA
Found at i:34939820 original size:12 final size:13
Alignment explanation
Indices: 34939803--34939831 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
34939793 TCTCCTTACT
34939803 TTTCTTTC-TTCC
1 TTTCTTTCTTTCC
34939815 TTTCTTTCTTTCC
1 TTTCTTTCTTTCC
34939828 TTTC
1 TTTC
34939832 CCTTTCTCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTCTTTCTTTCC
Found at i:34941639 original size:17 final size:17
Alignment explanation
Indices: 34941591--34941639 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
34941581 TTTTGAGTCC
*
34941591 TTTTATTTTCACTTTGT
1 TTTTATTTTCATTTTGT
* *
34941608 TTTTCTTTTCCTTTTGT
1 TTTTATTTTCATTTTGT
*
34941625 TTTTATTTTTATTTT
1 TTTTATTTTCATTTT
34941640 TACTTATCAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.08, C:0.10, G:0.04, T:0.78
Consensus pattern (17 bp):
TTTTATTTTCATTTTGT
Found at i:34944463 original size:19 final size:19
Alignment explanation
Indices: 34944441--34944480 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
34944431 AGAAAGAGAA
34944441 ATATTAACATAAACTAGGG
1 ATATTAACATAAACTAGGG
*
34944460 ATATTAATATAAACTAGGG
1 ATATTAACATAAACTAGGG
34944479 AT
1 AT
34944481 TTCTACGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (19 bp):
ATATTAACATAAACTAGGG
Found at i:34947219 original size:20 final size:20
Alignment explanation
Indices: 34947193--34947241 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
34947183 AAAGAAAACA
34947193 AACAAAATATAAATTCCTAC
1 AACAAAATATAAATTCCTAC
*
34947213 AATAAAATATAAATTCCTAC
1 AACAAAATATAAATTCCTAC
34947233 AACAAAATA
1 AACAAAATA
34947242 GCAGTAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.59, C:0.16, G:0.00, T:0.24
Consensus pattern (20 bp):
AACAAAATATAAATTCCTAC
Found at i:34948415 original size:23 final size:23
Alignment explanation
Indices: 34948389--34948434 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
34948379 ATATTATCAC
34948389 TAAATATTATCACTAAATAATTT
1 TAAATATTATCACTAAATAATTT
*
34948412 TAAATATTATCCCTAAATAATTT
1 TAAATATTATCACTAAATAATTT
34948435 AAAAATCGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (23 bp):
TAAATATTATCACTAAATAATTT
Found at i:34948430 original size:13 final size:13
Alignment explanation
Indices: 34948376--34948407 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
34948366 AAAATAATTT
34948376 TAAATATTATCAC
1 TAAATATTATCAC
34948389 TAAATATTATCAC
1 TAAATATTATCAC
34948402 TAAATA
1 TAAATA
34948408 ATTTTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAATATTATCAC
Found at i:34948447 original size:36 final size:36
Alignment explanation
Indices: 34948353--34948430 Score: 138
Period size: 36 Copynumber: 2.2 Consensus size: 36
34948343 AGATTTTTCT
34948353 TAAATATTATCACAAAATAATTTTAAATATTATCAC
1 TAAATATTATCACAAAATAATTTTAAATATTATCAC
* *
34948389 TAAATATTATCACTAAATAATTTTAAATATTATCCC
1 TAAATATTATCACAAAATAATTTTAAATATTATCAC
34948425 TAAATA
1 TAAATA
34948431 ATTTAAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.40
Consensus pattern (36 bp):
TAAATATTATCACAAAATAATTTTAAATATTATCAC
Found at i:34950904 original size:27 final size:27
Alignment explanation
Indices: 34950861--34950990 Score: 176
Period size: 27 Copynumber: 4.9 Consensus size: 27
34950851 CACCAGATAT
34950861 GATAT-TGTGGCAGAGCCACCAGAACA
1 GATATATGTGGCAGAGCCACCAGAACA
*
34950887 GATATATGTGGCAGAGCCACCAGATCA
1 GATATATGTGGCAGAGCCACCAGAACA
*
34950914 GATA-ATCGTGGCATAGCCACCAGAACA
1 GATATAT-GTGGCAGAGCCACCAGAACA
* *
34950941 GATATATGTGGCAGAGTCACCAGATCA
1 GATATATGTGGCAGAGCCACCAGAACA
*
34950968 GATA-ATTGTGGCATAGCCACCAG
1 GATATA-TGTGGCAGAGCCACCAG
34950991 GACGCTTCCT
Statistics
Matches: 92, Mismatches: 8, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.09
27 82 0.89
28 2 0.02
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.18
Consensus pattern (27 bp):
GATATATGTGGCAGAGCCACCAGAACA
Found at i:34950932 original size:54 final size:54
Alignment explanation
Indices: 34950851--34950990 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
34950841 GTGACGAAGT
*
34950851 CACCAGAT-ATGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCA-GATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
34950904 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGT
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
34950958 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
34950991 GACGCTTCCT
Statistics
Matches: 81, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
53 11 0.14
54 70 0.86
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:34952619 original size:26 final size:26
Alignment explanation
Indices: 34952588--34952695 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
34952578 TGAAATGCCC
*
34952588 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
34952614 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
34952640 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
34952666 ATCATGGAACATTTAACTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
34952692 ATCA
1 ATCA
34952696 ATTTGTACTA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:34953818 original size:3 final size:3
Alignment explanation
Indices: 34953810--34953839 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
34953800 CATTTTAAAG
34953810 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
34953840 ATTTGTTTAT
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:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:34954112 original size:29 final size:29
Alignment explanation
Indices: 34954076--34954150 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
34954066 ATATATATAC
*
34954076 ATATTATTTATTTTAAATTTACTTTTCAT
1 ATATTATTTACTTTAAATTTACTTTTCAT
34954105 ATATTATTTACTTTAAATTTACTTTTCAT
1 ATATTATTTACTTTAAATTTACTTTTCAT
*
34954134 ATATTATTTACGTTAAA
1 ATATTATTTACTTTAAA
34954151 CTCCTTCATG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.33, C:0.08, G:0.01, T:0.57
Consensus pattern (29 bp):
ATATTATTTACTTTAAATTTACTTTTCAT
Found at i:34954115 original size:18 final size:18
Alignment explanation
Indices: 34954092--34954144 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
34954082 TTTATTTTAA
34954092 ATTTACTTTTCATATATT
1 ATTTACTTTTCATATATT
34954110 ATTTAC--TT--TA-A--
1 ATTTACTTTTCATATATT
34954121 ATTTACTTTTCATATATT
1 ATTTACTTTTCATATATT
34954139 ATTTAC
1 ATTTAC
34954145 GTTAAACTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 14
0.67 0.00 0.33
Matches are distributed among these distances:
11 6 0.21
13 3 0.11
14 2 0.07
15 2 0.07
16 3 0.11
18 12 0.43
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTACTTTTCATATATT
Found at i:34958351 original size:21 final size:20
Alignment explanation
Indices: 34958302--34958340 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
34958292 ATGTCCCTAC
34958302 AGTAATGGATAAAAAACTAA
1 AGTAATGGATAAAAAACTAA
34958322 AGTAATGGATAAAAAACTA
1 AGTAATGGATAAAAAACTA
34958341 GAAAGACTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.59, C:0.05, G:0.15, T:0.21
Consensus pattern (20 bp):
AGTAATGGATAAAAAACTAA
Found at i:34966417 original size:45 final size:42
Alignment explanation
Indices: 34966301--34966548 Score: 155
Period size: 45 Copynumber: 5.6 Consensus size: 42
34966291 AATCACAAAC
** ** *
34966301 CTTATCTCCCTGAAGTTGCAGTGGAGTGGGTTGAAGTTATAAG-T
1 CTTATCT-CCTGAAGTTGCAGTGGAGCAGACTGAAG--ACAAGAT
** *
34966345 CTTATCTCCTTGAAGTTGCAGAAGAGCAAACTGAAGACAGATGAT
1 CTTATCTCC-TGAAGTTGCAGTGGAGCAGACTGAAGACA-A-GAT
* * *
34966390 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATCAGAACA-AACAT
1 CTTATCTC-CTGAAGTTGCAGTGGAGCAGA-CTGAAGACAAGAT
** *
34966433 C--ATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAATTTACAAG-T
1 CTTATCTCC-TGAAGTTGCAGTGGAGCAGACTG-AA--GACAAGAT
* *
34966476 CTTATTTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGAT
1 CTTATCT-CCTGAAGTTGCAGTGGAGCAGACTGAAGACA--AGAT
* *
34966521 CTTATCTCTTTGAAGTTGCAGTAGAGCA
1 CTTATCTC-CTGAAGTTGCAGTGGAGCA
34966549 AATTAAAGCT
Statistics
Matches: 159, Mismatches: 27, Indels: 35
0.72 0.12 0.16
Matches are distributed among these distances:
40 2 0.01
41 26 0.16
42 4 0.03
43 9 0.06
44 35 0.22
45 75 0.47
46 8 0.05
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (42 bp):
CTTATCTCCTGAAGTTGCAGTGGAGCAGACTGAAGACAAGAT
Found at i:34966509 original size:131 final size:130
Alignment explanation
Indices: 34966295--34966548 Score: 348
Period size: 131 Copynumber: 1.9 Consensus size: 130
34966285 CGGTGAAATC
* * ** * *
34966295 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTGGGTTGAAGTTATAAGTCTTATCTCCTTGAAG
1 ACAAACATCATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAG
*
34966360 TTGCAGAAGAGCAAACTGAAGACAG-ATGATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCAG
66 TTGCAGAAGAGCAAACTGAAGACAGCA-GATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAG
34966424 A
130 A
* * *
34966425 ACAAACATCATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAATTTACAAGTCTTATTTCCCTGAA
1 ACAAACATCATCTCCCTGAAGTTGCAGTGGAGCAGGTTG-AAGTTACAAGTCTTATCTCCCTGAA
** * * *
34966490 GTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTATCTCTTTGAAGTTGCAGTAGAGCA
65 GTTGCAGAAGAGCAAACTGAAGACAGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCA
34966549 AATTAAAGCT
Statistics
Matches: 107, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
130 34 0.32
131 72 0.67
132 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (130 bp):
ACAAACATCATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAG
TTGCAGAAGAGCAAACTGAAGACAGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAGA
Found at i:34966764 original size:44 final size:44
Alignment explanation
Indices: 34966624--34966739 Score: 142
Period size: 44 Copynumber: 2.6 Consensus size: 44
34966614 TCTTATCTTT
* * * * * * *
34966624 CTGAAGTTGTAGCGAAGCAGATTGAAGCCACCAGCCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATTGAAGTCACAAACCTTATCCCC
*
34966668 CTAAAGTTGCAGTGGAGCAGATTGAAGTCACAAACCTTATCCCC
1 CTGAAGTTGCAGTGGAGCAGATTGAAGTCACAAACCTTATCCCC
* *
34966712 CTGAAGTTGCAGTGGGGCAGGTTGAAGT
1 CTGAAGTTGCAGTGGAGCAGATTGAAGT
34966740 TACGATTCTT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (44 bp):
CTGAAGTTGCAGTGGAGCAGATTGAAGTCACAAACCTTATCCCC
Found at i:34968183 original size:12 final size:13
Alignment explanation
Indices: 34968161--34968193 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
34968151 GTCCTAGCCT
*
34968161 TTTAATTTATTTA
1 TTTAGTTTATTTA
34968174 TTT-GTTTATTTA
1 TTTAGTTTATTTA
34968186 TTTAGTTT
1 TTTAGTTT
34968194 TTTTTTTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (13 bp):
TTTAGTTTATTTA
Found at i:34968314 original size:3 final size:3
Alignment explanation
Indices: 34968306--34968356 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
34968296 CATTTTAAAG
34968306 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
34968354 TAT
1 TAT
34968357 ATTTGTTTAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:34968627 original size:29 final size:29
Alignment explanation
Indices: 34968591--34968665 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
34968581 ATATATATAC
*
34968591 ATATTATTTATTTTAAATTTACTTTTCAT
1 ATATTATTTACTTTAAATTTACTTTTCAT
34968620 ATATTATTTACTTTAAATTTACTTTTCAT
1 ATATTATTTACTTTAAATTTACTTTTCAT
*
34968649 ATATTATTTACGTTAAA
1 ATATTATTTACTTTAAA
34968666 CTCCTTCATG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.33, C:0.08, G:0.01, T:0.57
Consensus pattern (29 bp):
ATATTATTTACTTTAAATTTACTTTTCAT
Found at i:34968630 original size:18 final size:18
Alignment explanation
Indices: 34968607--34968659 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
34968597 TTTATTTTAA
34968607 ATTTACTTTTCATATATT
1 ATTTACTTTTCATATATT
34968625 ATTTAC--TT--TA-A--
1 ATTTACTTTTCATATATT
34968636 ATTTACTTTTCATATATT
1 ATTTACTTTTCATATATT
34968654 ATTTAC
1 ATTTAC
34968660 GTTAAACTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 14
0.67 0.00 0.33
Matches are distributed among these distances:
11 6 0.21
13 3 0.11
14 2 0.07
15 2 0.07
16 3 0.11
18 12 0.43
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTACTTTTCATATATT
Found at i:34969844 original size:63 final size:64
Alignment explanation
Indices: 34969766--34969894 Score: 242
Period size: 63 Copynumber: 2.0 Consensus size: 64
34969756 GTAAATCAAA
34969766 GTATTTTATTAAAATGACCAAATTTCTAGGTGATCCAATCACACCTAAAT-AAAAAAATTGGTG
1 GTATTTTATTAAAATGACCAAATTTCTAGGTGATCCAATCACACCTAAATAAAAAAAATTGGTG
*
34969829 GTATTTTATTAAAATGACCAAATTTCTAGGTGATCCGATCACACCTAAATAAAAAAAATTGGTG
1 GTATTTTATTAAAATGACCAAATTTCTAGGTGATCCAATCACACCTAAATAAAAAAAATTGGTG
34969893 GT
1 GT
34969895 GACTCCCGTT
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
63 49 0.77
64 15 0.23
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (64 bp):
GTATTTTATTAAAATGACCAAATTTCTAGGTGATCCAATCACACCTAAATAAAAAAAATTGGTG
Found at i:34974404 original size:49 final size:50
Alignment explanation
Indices: 34974332--34974488 Score: 150
Period size: 49 Copynumber: 3.3 Consensus size: 50
34974322 NNNNNNNNNN
*
34974332 TGTCTGGGACATGGCATGGGCACC-GAGACG-GAGGTCCCATGTAAGACCA
1 TGTCTGGGACATGGCATGGGCACCAG-GACGAGAGGTCCCATATAAGACCA
* * * *
34974381 TGTCTGGGACATGGCGTTGGCACCAGGATGAGAGGTCCCCTATAAGACCA
1 TGTCTGGGACATGGCATGGGCACCAGGACGAGAGGTCCCATATAAGACCA
** ** *
34974431 TGTCTGGGA-AT-GCA-GGGC-CTCATCACGA-ACATCCCATGTAAGACCA
1 TGTCTGGGACATGGCATGGGCAC-CAGGACGAGAGGTCCCATATAAGACCA
34974477 TG-CTGGGACATG
1 TGTCTGGGACATG
34974489 CTTGGCAGTA
Statistics
Matches: 89, Mismatches: 14, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
45 6 0.07
46 19 0.21
47 8 0.09
48 2 0.02
49 27 0.30
50 27 0.30
ACGTcount: A:0.25, C:0.25, G:0.31, T:0.19
Consensus pattern (50 bp):
TGTCTGGGACATGGCATGGGCACCAGGACGAGAGGTCCCATATAAGACCA
Found at i:34974435 original size:50 final size:49
Alignment explanation
Indices: 34974332--34974439 Score: 146
Period size: 50 Copynumber: 2.2 Consensus size: 49
34974322 NNNNNNNNNN
*
34974332 TGTCTGGGACATGGCATGGGCACCGAGACGGAGGTCCCATGTAAGACCA
1 TGTCTGGGACATGGCATGGGCACCGAGACGGAGGTCCCATATAAGACCA
* * * *
34974381 TGTCTGGGACATGGCGTTGGCACC-AGGATGAGAGGTCCCCTATAAGACCA
1 TGTCTGGGACATGGCATGGGCACCGA-GACG-GAGGTCCCATATAAGACCA
34974431 TGTCTGGGA
1 TGTCTGGGA
34974440 ATGCAGGGCC
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
48 1 0.02
49 25 0.48
50 26 0.50
ACGTcount: A:0.23, C:0.23, G:0.34, T:0.19
Consensus pattern (49 bp):
TGTCTGGGACATGGCATGGGCACCGAGACGGAGGTCCCATATAAGACCA
Found at i:34980534 original size:11 final size:11
Alignment explanation
Indices: 34980520--34980571 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
34980510 AAAAGAGAGA
34980520 AAAAAGACAAC
1 AAAAAGACAAC
*
34980531 AAAAAAACAAC
1 AAAAAGACAAC
*
34980542 AAAAAG-GAAC
1 AAAAAGACAAC
*
34980552 AAAAAAACAAAGC
1 AAAAAGAC-AA-C
34980565 AAAAAGA
1 AAAAAGA
34980572 AAAAACAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
10 8 0.25
11 15 0.47
12 2 0.06
13 7 0.22
ACGTcount: A:0.77, C:0.13, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAAAGACAAC
Found at i:34980545 original size:21 final size:21
Alignment explanation
Indices: 34980520--34980585 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 21
34980510 AAAAGAGAGA
34980520 AAAAAGACAACAAAAAAACAAC
1 AAAAAG-CAACAAAAAAACAAC
*
34980542 AAAAAGGAACAAAAAAACAAAGC
1 AAAAAGCAACAAAAAAAC-AA-C
* *
34980565 AAAAAGAAAAAACAAAAACAA
1 AAAAAGCAACAA-AAAAACAA
34980586 AGAAAAGAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
21 11 0.29
22 8 0.21
23 13 0.34
24 6 0.16
ACGTcount: A:0.79, C:0.14, G:0.08, T:0.00
Consensus pattern (21 bp):
AAAAAGCAACAAAAAAACAAC
Found at i:34980545 original size:22 final size:21
Alignment explanation
Indices: 34980520--34980595 Score: 82
Period size: 22 Copynumber: 3.4 Consensus size: 21
34980510 AAAAGAGAGA
34980520 AAAAAGACAACAAAAAAACAAC
1 AAAAAGA-AACAAAAAAACAAC
*
34980542 AAAAAGGAACAAAAAAACAAAGC
1 AAAAAGAAACAAAAAAAC-AA-C
*
34980565 AAAAAGAAAAAACAAAAACAA-
1 AAAAAGAAACAA-AAAAACAAC
34980586 AGAAAAGAAA
1 A-AAAAGAAA
34980596 AGAAAAATCA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
21 12 0.26
22 16 0.34
23 13 0.28
24 6 0.13
ACGTcount: A:0.79, C:0.12, G:0.09, T:0.00
Consensus pattern (21 bp):
AAAAAGAAACAAAAAAACAAC
Found at i:34981580 original size:76 final size:76
Alignment explanation
Indices: 34981471--34982903 Score: 1814
Period size: 76 Copynumber: 18.6 Consensus size: 76
34981461 TGTTTTTTTT
* * *
34981471 TTTTTC-AAATATCAACTCATAATACAGATGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
1 TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTT-T
34981535 TTTAAATTTCTG
65 TTTAAATTTCTG
*
34981547 TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
1 TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTT-T
34981611 TTTAAATTT-TCG
65 TTTAAATTTCT-G
*
34981623 TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
1 TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTT-T
*
34981687 TTTAAATTTTTG
65 TTTAAATTTCTG
* *
34981699 TTTTTCAAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGT-T
1 TTTTTC---AAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTAT
*
34981763 TTTTTTTAATTTCTG
62 TTTTTTAAATTTCTG
**
34981778 TTTTTTTCAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGTTGAGGTATT
1 --TTTTTC-AAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTA-T
34981843 TTTTTTAAATTTCTG
62 TTTTTTAAATTTCTG
* *
34981858 CTTTTTTCAAAAAATCAACTCATAATACAAAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
1 --TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTT
*
34981923 TTTTAATTTAATTTCTA
64 TTTT-A---AATTTCTG
* *
34981940 TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGTCTCGGGTCACGCTGAGGTATTTTT
1 TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTTT
34982005 TT-AATTTCTG
66 TTAAATTTCTG
* *
34982015 TTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGTCTCGGGTCACGCTGAGGTATTTT
1 -TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTT
34982080 TTT-AATTTCTG
65 TTTAAATTTCTG
*
34982091 TTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTT
1 -TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTT
*
34982156 TTTTAATTTCTG
65 TTTAAATTTCTG
* * *
34982168 CTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTTGGGTCACACTGAGGTATTT
1 --TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTA-TT
*
34982233 TTTTTTAATTTCTG
63 TTTTTAAATTTCTG
* * * * *
34982247 --CTTCAAAAAATCAACTCATAATACAGAAGTGAATTGAGCCTCAGGTCACGCTGAGGTATTTTT
1 TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTTT
34982310 TT-AATTTCTG
66 TTAAATTTCTG
* *
34982320 TTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTT
1 --TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTA-TT
34982385 TTTTTAAATTTCTG
63 TTTTTAAATTTCTG
*
34982399 CTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTT
1 --TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTT
*
34982464 CTTTTAAATTTCCG
64 -TTTTAAATTTCTG
*
34982478 TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
1 TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTT-T
*
34982542 TTTAAATTTCCG
65 TTTAAATTTCTG
* *
34982554 TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGTTATTTCT
1 TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTT-T
*
34982618 TTTAAATTTTTG
65 TTTAAATTTCTG
* * * * ** *
34982630 TTTTTC-AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTGGACCATGCCGAGGTATTTC
1 TTTTTCAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTT-
*
34982694 TTTTAAATTTTTG
64 TTTTAAATTTCTG
*
34982707 TTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTA--TT
1 TTTTTCAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTT
*
34982769 TTTCAA-TTCATG
65 TTTAAATTTC-TG
* ** * *
34982781 TTTTTC-AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGGCACATGTCGAGGTA--
1 TTTTTCAAAAAATCAACTCATAAT-ACAGAGGTGAGTTGAGCCTCGGGTCAC--GCCGAGGTATT
** *
34982843 -TTTTCGATTTTTG
63 TTTTTAAATTTCTG
* * * *
34982856 -TTTTC-GAAGATCAACTCATAATCCAAGAGGTGAGTTGAGTCTCGGGTC
1 TTTTTCAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTC
34982904 GCACACCGAG
Statistics
Matches: 1258, Mismatches: 66, Indels: 68
0.90 0.05 0.05
Matches are distributed among these distances:
73 10 0.01
74 101 0.08
75 69 0.05
76 470 0.37
77 170 0.14
78 108 0.09
79 178 0.14
80 108 0.09
81 37 0.03
82 7 0.01
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (76 bp):
TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTTT
TTAAATTTCTG
Found at i:34982450 original size:385 final size:384
Alignment explanation
Indices: 34981481--34982903 Score: 1819
Period size: 385 Copynumber: 3.7 Consensus size: 384
34981471 TTTTTCAAAT
* *
34981481 ATCAACTCATAATACAGATGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTTCT
1 ATCAACTCATAATACAGAAGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTCTTTTAAATTTCT
*
34981546 G--TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTT
66 GTTTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTT
34981609 CTTTTAAATTT-TCG-TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCA
131 -TTTTAAATTTCT-GTTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCA
* * * *
34981672 TGCCGAGGTATTTCTTTTAAATTTTTGTTTTTCAAAAAAAAATCAACTCATAATGCGAGAGGTGA
194 CGCCGAGGTATTTCTTTTAAATTTCTGTTTTTC----AAAAATCAACTCATAATACAAGAGGTGA
*
34981737 GTTGAGCCTCGGGTCACGCTGAGGT-TTTTTTTTAATTTCTGTTTTTTTCAAAAAAATCAACTCA
255 GTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTTAATTTCTGCTTTTTTC-AAAAAATCAACTCA
*
34981801 TAATACAGAGGTGAGTTGAGCCTCGGGTCACGTTGAGGTATTTTTTTTAAATTTCTGCTTTTTTC
319 TAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTTAAATTTCTGC----TTC
34981866 AAAAA
380 AAAAA
*
34981871 ATCAACTCATAATACA-AAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT-TTTT-AATTTA
1 ATCAACTCATAATACAGAA-GTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTCTTTTAAATTT-
* * * *
34981933 ATTTCTATTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGTCTCGGGTCACGCTGAGG
64 CTGT-T-TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGG
*
34981998 TATTTTTTT-AATTTCTGTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGTCTCGG
126 TATTTTTTTAAATTTCTGTTTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGG
*
34982062 GTCACGCTGAGGTATTT-TTTT-AATTTCTGTTTTTTCAAAAAATCAACTCATAATAC-AGAGGT
190 GTCACGCCGAGGTATTTCTTTTAAATTTCTG-TTTTTC-AAAAATCAACTCATAATACAAGAGGT
34982124 GAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTTAATTTCTGCTTTTTTCAAAAAATCAACTC
253 GAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTTAATTTCTGCTTTTTTCAAAAAATCAACTC
* * *
34982189 ATAATACAGAGGTGAGTTGAGCCTTGGGTCACACTGAGGTATTTTTTTTTAATTTCTGCTTCAAA
318 ATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTTAAATTTCTGCTTCAAA
34982254 AA
383 AA
* * *
34982256 ATCAACTCATAATACAGAAGTGAATTGAGCCTCAGGTCACGCTGAGGTATTT-TTTT-AATTTCT
1 ATCAACTCATAATACAGAAGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTCTTTTAAATTTCT
* *
34982319 GTTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATT
66 GTTTTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTA-T
34982384 TTTTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGT
129 TTTTTTAAATTTCTG-TTTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGT
* *
34982449 CATGCCGAGGTATTTCTTTTAAATTTCCGTTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGT
192 CACGCCGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATAATACAAGAGGTGAGT
* * * *
34982513 TGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTTC--CGTTTTTC-AAAAATCAACTCATA
257 TGAGCCTCGGGTCACGCTGAGGTATTT-TTTTTAATTTCTGCTTTTTTCAAAAAATCAACTCATA
* * * * * *
34982575 ATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGTTATTTCTTTTAAATTTTTGTTTTTC-AAA
321 ATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTTAAATTTCTG--CTTCAAAA
34982639 A
384 A
* * * ** *
34982640 ATCAACTCATATTGC-GAGAGATGAGTTGAGCCTTGGACCATGCCGAGGTATTTCTTTTAAATTT
1 ATCAACTCATAATACAGA-AG-TGAGTTGAGCCTCGGGTCACGCCGAGGTATTTCTTTTAAATTT
* *
34982704 -T-TGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTA
64 CTGTTTTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTA
* * **
34982767 --TTTTTCAA-TTCATG-TTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGG
128 TTTTTTTAAATTTC-TGTTTTTTCAAAAATCAACTCATAAT-ACAGAGGTGAGTTGAGCCTCGGG
* * ** * * * *
34982828 GCACATGTCGAGGTA----TTTTCGATTTTTG-TTTTCGAAGATCAACTCATAATCCAAGAGGTG
191 TCAC--GCCGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATAATACAAGAGGTG
*
34982888 AGTTGAGTCTCGGGTC
254 AGTTGAGCCTCGGGTC
34982904 GCACACCGAG
Statistics
Matches: 933, Mismatches: 69, Indels: 74
0.87 0.06 0.07
Matches are distributed among these distances:
377 21 0.02
378 31 0.03
379 16 0.02
380 29 0.03
381 3 0.00
382 75 0.08
383 72 0.08
384 54 0.06
385 246 0.26
386 27 0.03
387 12 0.01
388 5 0.01
389 107 0.11
390 89 0.10
392 13 0.01
393 27 0.03
394 106 0.11
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (384 bp):
ATCAACTCATAATACAGAAGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTTCTTTTAAATTTCT
GTTTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCCGAGGTATTT
TTTTAAATTTCTGTTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACG
CCGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATAATACAAGAGGTGAGTTGAG
CCTCGGGTCACGCTGAGGTATTTTTTTTAATTTCTGCTTTTTTCAAAAAATCAACTCATAATACA
GAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTTAAATTTCTGCTTCAAAAA
Found at i:34983153 original size:30 final size:30
Alignment explanation
Indices: 34983112--34983225 Score: 114
Period size: 29 Copynumber: 3.9 Consensus size: 30
34983102 TAACCCTTGT
*
34983112 ACTTTTC-AAATTTTACATTTTGACCC-AA
1 ACTTTTCTAAAATTTACATTTTGACCCAAA
34983140 ACTTTTCTAAAATTTACATTTTGACCCCAAA
1 ACTTTTCTAAAATTTACATTTTGA-CCCAAA
* * *
34983171 AC-TTTCTAAAA-TTACATTTCGACCCTTAG
1 ACTTTTCTAAAATTTACATTTTGACCC-AAA
*
34983200 AC-TTTCTCAAAA-TTACACTTTGACCC
1 ACTTTTCT-AAAATTTACATTTTGACCC
34983226 CTAAACTCTT
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
28 10 0.13
29 33 0.44
30 28 0.37
31 4 0.05
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.39
Consensus pattern (30 bp):
ACTTTTCTAAAATTTACATTTTGACCCAAA
Found at i:34983162 original size:29 final size:28
Alignment explanation
Indices: 34983124--34983278 Score: 136
Period size: 29 Copynumber: 5.3 Consensus size: 28
34983114 TTTTCAAATT
34983124 TTACATTTTGACCC-AAACTTTTCTAAAA
1 TTACATTTTGACCCTAAAC-TTTCTAAAA
*
34983152 TTTACATTTTGACCCCAAAACTTTCTAAAA
1 -TTACATTTTGA-CCCTAAACTTTCTAAAA
* *
34983182 TTACATTTCGACCCTTAGACTTTCTCAAAA
1 TTACATTTTGACCC-TAAACTTTCT-AAAA
* *
34983212 TTACACTTTGACCCCTAAACTCT-TAAGAA
1 TTACATTTTGA-CCCTAAACTTTCTAA-AA
* * *
34983241 TTACATTTTGGCCC-ATATTTTGCTAAAA
1 TTACATTTTGACCCTAAACTTT-CTAAAA
34983269 TTACACTTTT
1 TTACA-TTTT
34983279 TCCCCAGAAG
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
27 4 0.04
28 15 0.14
29 48 0.46
30 31 0.30
31 7 0.07
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (28 bp):
TTACATTTTGACCCTAAACTTTCTAAAA
Found at i:34984207 original size:13 final size:14
Alignment explanation
Indices: 34984189--34984217 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
34984179 TCCAGCAGAG
34984189 AAAAGAAAAAA-AA
1 AAAAGAAAAAAGAA
34984202 AAAAGAAAAAAGAA
1 AAAAGAAAAAAGAA
34984216 AA
1 AA
34984218 GGGCCCACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAGAA
Found at i:34984291 original size:15 final size:16
Alignment explanation
Indices: 34984271--34984300 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34984261 TTAATTAGTT
34984271 TTATTT-ATTTAAATA
1 TTATTTCATTTAAATA
34984286 TTATTTCATTTAAAT
1 TTATTTCATTTAAAT
34984301 TTAATTAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATTTCATTTAAATA
Found at i:34984810 original size:17 final size:17
Alignment explanation
Indices: 34984790--34984839 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
34984780 AAAAAAATTA
*
34984790 TGTTTTCAAAACTTTCG
1 TGTTTTCAAAATTTTCG
*
34984807 TGTTTTCAAAATTTTTG
1 TGTTTTCAAAATTTTCG
34984824 TGTTTTCAAAATTTTC
1 TGTTTTCAAAATTTTC
34984840 ATGTGTTCGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.54
Consensus pattern (17 bp):
TGTTTTCAAAATTTTCG
Found at i:34984874 original size:20 final size:19
Alignment explanation
Indices: 34984849--34984916 Score: 77
Period size: 21 Copynumber: 3.6 Consensus size: 19
34984839 CATGTGTTCG
34984849 TGTTTTCAAAAAAATTCTCA
1 TGTTTTCAAAAAAATT-TCA
* *
34984869 TGTTTTTAAAAAAAATTTCG
1 TG-TTTTCAAAAAAATTTCA
*
34984889 TG-TTT-AAAAAAAATTCA
1 TGTTTTCAAAAAAATTTCA
34984906 TGTTTTCAAAA
1 TGTTTTCAAAA
34984917 TTTTCTTGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
17 12 0.29
18 6 0.15
19 4 0.10
20 6 0.15
21 13 0.32
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (19 bp):
TGTTTTCAAAAAAATTTCA
Found at i:34984916 original size:17 final size:18
Alignment explanation
Indices: 34984849--34984931 Score: 62
Period size: 17 Copynumber: 4.5 Consensus size: 18
34984839 CATGTGTTCG
34984849 TGTTTTCAAAAAAATTCTCA
1 TGTTTTC-AAAAAATT-TCA
* *
34984869 TGTTTTTAAAAAAAATTTCG
1 TG-TTTT-CAAAAAATTTCA
* *
34984889 TG-TTTAAAAAAAATTCA
1 TGTTTTCAAAAAATTTCA
* *
34984906 TGTTTTC-AAAATTTTCT
1 TGTTTTCAAAAAATTTCA
34984923 TGTTTTCAA
1 TGTTTTCAA
34984932 GATTTTTCGT
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
17 26 0.51
18 7 0.14
20 6 0.12
21 12 0.24
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (18 bp):
TGTTTTCAAAAAATTTCA
Found at i:34984988 original size:20 final size:20
Alignment explanation
Indices: 34984965--34985006 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
34984955 TCATGTATCG
* *
34984965 AAAATTTCCGTGTTTTCAAA
1 AAAATTTCCGCGTTTCCAAA
34984985 AAAATTTCCGCGTTTCCAAA
1 AAAATTTCCGCGTTTCCAAA
34985005 AA
1 AA
34985007 TTCAGGTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (20 bp):
AAAATTTCCGCGTTTCCAAA
Found at i:34985112 original size:18 final size:18
Alignment explanation
Indices: 34984790--34985114 Score: 105
Period size: 18 Copynumber: 17.7 Consensus size: 18
34984780 AAAAAAATTA
*
34984790 TGTTTTC-AAAACTTTCG
1 TGTTTTCAAAAATTTTCG
*
34984807 TGTTTTC-AAAATTTTTG
1 TGTTTTCAAAAATTTTCG
34984824 TGTTTTCAAAATTTTCATGTGTTCG
1 TGTTTTCAAAA-----AT-T-TTCG
* *
34984849 TGTTTTCAAAAAAATTCTCA
1 TGTTTTC--AAAAATTTTCG
* *
34984869 TGTTTTTAAAAAAAATTTCG
1 TG-TTTT-CAAAAATTTTCG
* ** *
34984889 TG-TTTAAAAAAAATTCA
1 TGTTTTCAAAAATTTTCG
*
34984906 TGTTTTC-AAAATTTTCT
1 TGTTTTCAAAAATTTTCG
* *
34984923 TGTTTTCAAGATTTTTCG
1 TGTTTTCAAAAATTTTCG
* *
34984941 TG---TCAAAATAATTCTCA
1 TGTTTTC-AAA-AATTTTCG
* * *
34984958 TG-TATCGAAAATTTCCG
1 TGTTTTCAAAAATTTTCG
*
34984975 TGTTTTCAAAAAAATTTCCG
1 TGTTTTC--AAAAATTTTCG
* * ***
34984995 CGTTTCCAAAAATTCAGG
1 TGTTTTCAAAAATTTTCG
* * **
34985013 TGATTTAAAAAATCGTCG
1 TGTTTTCAAAAATTTTCG
* * *
34985031 TGTTTTTAAAAA-CTCCG
1 TGTTTTCAAAAATTTTCG
*
34985048 -GTTTTC-AAAATTTTCA
1 TGTTTTCAAAAATTTTCG
*
34985064 TGTTTTTCAAAAAATTCTCG
1 TG-TTTTC-AAAAATTTTCG
*
34985084 TGTTTTAAAAAATTTTCG
1 TGTTTTCAAAAATTTTCG
*
34985102 TGTTCTCAAAAAT
1 TGTTTTCAAAAAT
34985115 AAAAAATGTT
Statistics
Matches: 227, Mismatches: 55, Indels: 51
0.68 0.17 0.15
Matches are distributed among these distances:
15 6 0.03
16 9 0.04
17 66 0.29
18 77 0.34
19 6 0.03
20 39 0.17
21 5 0.02
22 2 0.01
23 2 0.01
24 1 0.00
25 10 0.04
27 4 0.02
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (18 bp):
TGTTTTCAAAAATTTTCG
Found at i:34988229 original size:29 final size:30
Alignment explanation
Indices: 34988170--34988227 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
34988160 TCCGAGCCTT
*
34988170 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
34988200 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
34988228 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:34988457 original size:13 final size:13
Alignment explanation
Indices: 34988439--34988470 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
34988429 TTTCCAGCAA
34988439 TTATGAATTTATT
1 TTATGAATTTATT
34988452 TTATGAATTTATT
1 TTATGAATTTATT
*
34988465 TGATGA
1 TTATGA
34988471 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:34988678 original size:50 final size:50
Alignment explanation
Indices: 34988565--34988806 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
34988555 ATTTGGGTAA
* * *
34988565 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
34988621 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
34988671 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
34988721 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
34988771 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
34988807 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:34988754 original size:100 final size:103
Alignment explanation
Indices: 34988565--34988814 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
34988555 ATTTGGGTAA
34988565 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
34988630 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
34988671 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
34988733 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
34988771 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
34988815 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:34995822 original size:29 final size:30
Alignment explanation
Indices: 34995763--34995820 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
34995753 TCCGAGCCTT
*
34995763 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
34995793 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
34995821 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:34996050 original size:13 final size:13
Alignment explanation
Indices: 34996032--34996063 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
34996022 TTTCCAGCAA
34996032 TTATGAATTTATT
1 TTATGAATTTATT
34996045 TTATGAATTTATT
1 TTATGAATTTATT
*
34996058 TGATGA
1 TTATGA
34996064 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:34996271 original size:50 final size:50
Alignment explanation
Indices: 34996158--34996399 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
34996148 ATTTGGGTAA
* * *
34996158 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
34996214 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
34996264 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
34996314 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
34996364 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
34996400 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:34996347 original size:100 final size:103
Alignment explanation
Indices: 34996158--34996407 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
34996148 ATTTGGGTAA
34996158 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
34996223 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
34996264 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
34996326 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
34996364 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
34996408 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:34999389 original size:38 final size:38
Alignment explanation
Indices: 34999331--34999789 Score: 560
Period size: 38 Copynumber: 12.1 Consensus size: 38
34999321 ATTTTCAAAA
* * * *
34999331 CACCGGCAC-AAGCCTACTAGGCACAGAGCCCGGATAA
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
* *
34999368 CACCGGTACAAAGCCTGCTAGGCACATAGCCCAAATAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
* *
34999406 CACCGGTACAAAGCCTACTAGGCACATAGCCCGAATAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
* *
34999444 CACCGGCATAAAGCTTGCTAGGCACATAGCCCGAATAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
34999482 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
* * * * * *
34999520 CATCGTCACAAAGCCTGCTAGGCACAGAGCTCAAATAA
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
* *
34999558 CATCGGTACAAAGCCTGCTAGGCACATAGCCCGAATAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
* * * * **
34999596 CACTGGTACAAAGCCTGCTAGGCATATATCTTGAATAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
* * *
34999634 CACTGGCACAAAGCCTGCTAAGCACATATCCCGAATAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
* * * * *
34999672 GACCAGCACAAATCCTGCTAGGCACAAAGCCCAAATAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
* * *
34999710 CACCGGCACAAAGCCTGCTAGGCACAGAGCTCGAATAA
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
* ** *
34999748 CATCGATACAAAGCCTGCTAGGCACATAGCCTGAATAT
1 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
34999786 CACC
1 CACC
34999790 ACATTTCTAT
Statistics
Matches: 361, Mismatches: 60, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
37 8 0.02
38 353 0.98
ACGTcount: A:0.34, C:0.31, G:0.19, T:0.16
Consensus pattern (38 bp):
CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAT
Found at i:35006376 original size:21 final size:20
Alignment explanation
Indices: 35006352--35006398 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
35006342 TAACACAATA
*
35006352 TCAATTATTTTTAATTTTTTT
1 TCAATTA-TCTTAATTTTTTT
35006373 TCAATTATCTTAATTTTTTT
1 TCAATTATCTTAATTTTTTT
35006393 T-AATTA
1 TCAATTA
35006399 AGTTATCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 5 0.20
20 13 0.52
21 7 0.28
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (20 bp):
TCAATTATCTTAATTTTTTT
Found at i:35008993 original size:20 final size:20
Alignment explanation
Indices: 35008909--35008995 Score: 65
Period size: 20 Copynumber: 4.3 Consensus size: 20
35008899 TAGTATTTTT
*
35008909 TTAATTTAATATTAAAGTGA
1 TTAATTTAATATTAAATTGA
*
35008929 TT-ATCTTAATATCAAA-T--
1 TTAAT-TTAATATTAAATTGA
* * *
35008946 TTAATCTAATATATATCATTATA
1 TTAATTTAATAT-TA-AATT-GA
35008969 TTAATTTAATATTAAATTGA
1 TTAATTTAATATTAAATTGA
35008989 TTAATTT
1 TTAATTT
35008996 TAATCATATT
Statistics
Matches: 52, Mismatches: 7, Indels: 16
0.69 0.09 0.21
Matches are distributed among these distances:
17 8 0.15
18 3 0.06
19 4 0.08
20 21 0.40
21 3 0.06
22 2 0.04
23 11 0.21
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (20 bp):
TTAATTTAATATTAAATTGA
Found at i:35009874 original size:17 final size:17
Alignment explanation
Indices: 35009852--35009884 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
35009842 AGTATAGGGG
35009852 CAAAATA-GTAATTTTTC
1 CAAAATATG-AATTTTTC
35009869 CAAAATATGAATTTTT
1 CAAAATATGAATTTTT
35009885 GATTGAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (17 bp):
CAAAATATGAATTTTTC
Found at i:35010269 original size:25 final size:25
Alignment explanation
Indices: 35010203--35010300 Score: 92
Period size: 25 Copynumber: 3.9 Consensus size: 25
35010193 GGACTCATCG
*
35010203 CAGCTCATATGAGCTTACCGAT-TT
1 CAGCTCGTATGAGCTTACCGATATT
* *
35010227 GCAGCTCGTGA-GAACTTACCGATACT
1 -CAGCTCGT-ATGAGCTTACCGATATT
* *
35010253 CAACTCGTATGAGCTTACCAATATT
1 CAGCTCGTATGAGCTTACCGATATT
* * *
35010278 CAGCTCGGAGGAGTTTACCGATA
1 CAGCTCGTATGAGCTTACCGATA
35010301 ATCGTTCGTA
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
24 1 0.02
25 55 0.95
26 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGATATT
Found at i:35016499 original size:14 final size:14
Alignment explanation
Indices: 35016480--35016527 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
35016470 TATCACTATA
*
35016480 GTTTAGGGTTTTTG
1 GTTTAGGGTTTATG
*
35016494 GTTTAGGGTATATG
1 GTTTAGGGTTTATG
* *
35016508 GTTTAGAGTTTAAG
1 GTTTAGGGTTTATG
35016522 GTTTAG
1 GTTTAG
35016528 AAGTTACTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:35016610 original size:7 final size:7
Alignment explanation
Indices: 35016600--35016744 Score: 52
Period size: 7 Copynumber: 19.9 Consensus size: 7
35016590 TAAAGGTTGG
35016600 GGTTTAA
1 GGTTTAA
35016607 GGTTTAGA
1 GGTTTA-A
*
35016615 GG-GTATA
1 GGTTTA-A
*
35016622 TGTT-AA
1 GGTTTAA
*
35016628 GAGTTTAG
1 G-GTTTAA
35016636 GGTTTTAA
1 GG-TTTAA
35016644 GGTTT-A
1 GGTTTAA
35016650 GGTTTTAA
1 GG-TTTAA
35016658 GGTTT-A
1 GGTTTAA
35016664 GAGTTTAAAA
1 G-GTTT--AA
*
35016674 GG-TTAG
1 GGTTTAA
35016680 GGTTTAA
1 GGTTTAA
35016687 GGTTTAAA
1 GGTTT-AA
35016695 GG-TT-A
1 GGTTTAA
*
35016700 TGTGTTAA
1 GGT-TTAA
35016708 GGATTTAA
1 GG-TTTAA
* *
35016716 GATTTTAG
1 G-GTTTAA
35016724 GGTTTTAA
1 GG-TTTAA
*
35016732 GGTTTAG
1 GGTTTAA
35016739 GGTTTA
1 GGTTTA
35016745 GATTAACTAG
Statistics
Matches: 103, Mismatches: 16, Indels: 38
0.66 0.10 0.24
Matches are distributed among these distances:
5 2 0.02
6 9 0.09
7 50 0.49
8 38 0.37
9 2 0.02
10 2 0.02
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (7 bp):
GGTTTAA
Found at i:35016648 original size:15 final size:15
Alignment explanation
Indices: 35016624--35016743 Score: 90
Period size: 15 Copynumber: 8.1 Consensus size: 15
35016614 AGGGTATATG
35016624 TTAAGAGTTTAGGGTT
1 TTAAG-GTTTAGGGTT
35016640 TTAAGGTTTA-GGTT
1 TTAAGGTTTAGGGTT
*
35016654 TTAAGGTTTAGAGTT
1 TTAAGGTTTAGGGTT
*
35016669 TAAAAGG-TTAGGG-T
1 T-TAAGGTTTAGGGTT
*
35016683 TTAAGGTTTAAAGG--
1 TTAAGGTTT-AGGGTT
* * *
35016697 TT-ATGTGTTAAGGAT
1 TTAAGGT-TTAGGGTT
*
35016712 TTAAGATTTTAGGGTT
1 TTAAG-GTTTAGGGTT
35016728 TTAAGGTTTAGGGTT
1 TTAAGGTTTAGGGTT
35016743 T
1 T
35016744 AGATTAACTA
Statistics
Matches: 84, Mismatches: 11, Indels: 19
0.74 0.10 0.17
Matches are distributed among these distances:
13 11 0.13
14 22 0.26
15 29 0.35
16 21 0.25
17 1 0.01
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (15 bp):
TTAAGGTTTAGGGTT
Found at i:35016655 original size:14 final size:14
Alignment explanation
Indices: 35016624--35016692 Score: 77
Period size: 14 Copynumber: 4.7 Consensus size: 14
35016614 AGGGTATATG
35016624 TTAAGAGTTTAGGGTT
1 TTAAG-GTTTA-GGTT
35016640 TTAAGGTTTAGGTT
1 TTAAGGTTTAGGTT
35016654 TTAAGGTTTAGAGTT
1 TTAAGGTTTAG-GTT
* *
35016669 TAAAAGG-TTAGGGT
1 T-TAAGGTTTAGGTT
35016683 TTAAGGTTTA
1 TTAAGGTTTA
35016693 AAGGTTATGT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
13 4 0.09
14 21 0.45
15 13 0.28
16 9 0.19
ACGTcount: A:0.28, C:0.00, G:0.29, T:0.43
Consensus pattern (14 bp):
TTAAGGTTTAGGTT
Found at i:35016728 original size:80 final size:80
Alignment explanation
Indices: 35016587--35016746 Score: 200
Period size: 80 Copynumber: 2.0 Consensus size: 80
35016577 ATGATTTATG
* * * *
35016587 GTTTAAAGGTTGGGGTTTAAGGTTTAGAGGGTATATGTTAAGAGTTTAGGGTTTTAAGG-TTT-A
1 GTTTAAAGGTTAGGGTTTAAGGTTTAAAGGGTATATGTTAAGAGTTTAAGATTTTAAGGTTTTAA
35016650 GGTTTTAAGGTTTAGA
66 GG-TTTAAGGTTTAGA
* * *
35016666 GTTTAAAAGGTTAGGGTTTAAGGTTTAAAGGTTATGTGTTAAG-GATTTAAGATTTTAGGGTTTT
1 GTTT-AAAGGTTAGGGTTTAAGGTTTAAAGGGTATATGTTAAGAG-TTTAAGATTTTAAGGTTTT
*
35016730 AAGGTTTAGGGTTTAGA
64 AAGGTTTAAGGTTTAGA
35016747 TTAACTAGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
79 5 0.07
80 46 0.67
81 15 0.22
82 3 0.04
ACGTcount: A:0.27, C:0.00, G:0.31, T:0.42
Consensus pattern (80 bp):
GTTTAAAGGTTAGGGTTTAAGGTTTAAAGGGTATATGTTAAGAGTTTAAGATTTTAAGGTTTTAA
GGTTTAAGGTTTAGA
Found at i:35016745 original size:7 final size:7
Alignment explanation
Indices: 35016624--35016744 Score: 54
Period size: 8 Copynumber: 16.4 Consensus size: 7
35016614 AGGGTATATG
35016624 TTAAGAGT
1 TTAAG-GT
*
35016632 TTAGGGTT
1 TTAAGG-T
35016640 TTAAGGT
1 TTAAGGT
35016647 TT-AGGTT
1 TTAAGG-T
35016654 TTAAGGT
1 TTAAGGT
35016661 TT-AGAGT
1 TTAAG-GT
35016668 TTAAAAGG-
1 TT--AAGGT
*
35016676 TTAGGGT
1 TTAAGGT
35016683 TTAAGGT
1 TTAAGGT
35016690 TTAAAGG-
1 TT-AAGGT
*
35016697 TT-ATGT
1 TTAAGGT
35016703 GTTAAGGAT
1 -TTAAGG-T
*
35016712 TTAAGATT
1 TTAAG-GT
*
35016720 TTAGGGTT
1 TTAAGG-T
35016728 TTAAGGT
1 TTAAGGT
*
35016735 TTAGGGT
1 TTAAGGT
35016742 TTA
1 TTA
35016745 GATTAACTAG
Statistics
Matches: 87, Mismatches: 11, Indels: 31
0.67 0.09 0.24
Matches are distributed among these distances:
5 2 0.02
6 8 0.09
7 36 0.41
8 37 0.43
9 2 0.02
10 2 0.02
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (7 bp):
TTAAGGT
Found at i:35016748 original size:29 final size:30
Alignment explanation
Indices: 35016624--35016748 Score: 98
Period size: 29 Copynumber: 4.3 Consensus size: 30
35016614 AGGGTATATG
* *
35016624 TTAAGAGTTTAGGGTTTTAAGGTTTAGGTT
1 TTAAGATTTTAGGGTTTTAAGGTTTAGGGT
* * *
35016654 TTAAG-GTTTAGAGTTTAAAAGG-TTAGGGT
1 TTAAGATTTTAGGGTTT-TAAGGTTTAGGGT
* * * * * *
35016683 TTAAGGTTTAAAGG--TTATGTGTTAAGGAT
1 TTAAGATTTTAGGGTTTTAAG-GTTTAGGGT
35016712 TTAAGATTTTAGGGTTTTAAGGTTTAGGGT
1 TTAAGATTTTAGGGTTTTAAGGTTTAGGGT
35016742 TT-AGATT
1 TTAAGATT
35016749 AACTAGTGTT
Statistics
Matches: 72, Mismatches: 17, Indels: 13
0.71 0.17 0.13
Matches are distributed among these distances:
27 2 0.03
28 2 0.03
29 42 0.58
30 22 0.31
31 4 0.06
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (30 bp):
TTAAGATTTTAGGGTTTTAAGGTTTAGGGT
Found at i:35019465 original size:21 final size:21
Alignment explanation
Indices: 35019439--35019481 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
35019429 AGTACTCGGG
35019439 TCTTTAAAGTTCCTCAATCAT
1 TCTTTAAAGTTCCTCAATCAT
35019460 TCTTTAAAGTTCCTCAATCAT
1 TCTTTAAAGTTCCTCAATCAT
35019481 T
1 T
35019482 TTCTTCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.44
Consensus pattern (21 bp):
TCTTTAAAGTTCCTCAATCAT
Found at i:35019864 original size:43 final size:43
Alignment explanation
Indices: 35019779--35019869 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
35019769 CTTTGAGTTC
* * * * *
35019779 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAAAGCATGATATCTTTT
* *
35019821 ATTACCAAGATTTACTTGATTAAGAAAAAGCATGGTATGTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAAAGCATGATATCTTTT
35019864 ATTACC
1 ATTACC
35019870 TTGCATATGT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 4 0.10
43 37 0.90
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAAAGCATGATATCTTTT
Found at i:35020502 original size:71 final size:71
Alignment explanation
Indices: 35020383--35020525 Score: 241
Period size: 71 Copynumber: 2.0 Consensus size: 71
35020373 CACTCTACCT
* * *
35020383 ATATTCACTATTGAATAAATTTGTTAAAACTAACGTCGATAATGGTAATATAGAATAATAACAGA
1 ATATTCACTATTGAATAAATTTGTTAAAACTAACGTCAATAATGGTAATATAGAACAATAACAAA
35020448 ACAGAA
66 ACAGAA
* *
35020454 ATATTCACTATTGAATAAATTTGTTAAAACTAACGTCAATAATTGTAATATTGAACAATAACAAA
1 ATATTCACTATTGAATAAATTTGTTAAAACTAACGTCAATAATGGTAATATAGAACAATAACAAA
35020519 ACAGAA
66 ACAGAA
35020525 A
1 A
35020526 GAAAAGAAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 67 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.30
Consensus pattern (71 bp):
ATATTCACTATTGAATAAATTTGTTAAAACTAACGTCAATAATGGTAATATAGAACAATAACAAA
ACAGAA
Found at i:35021567 original size:19 final size:20
Alignment explanation
Indices: 35021535--35021575 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
35021525 CAATAAATAA
*
35021535 TTTAAAAACTATAAAAATATT
1 TTTAAAAAC-ATAAAAAAATT
35021556 TTTAAAAA-ATAAAAAAATT
1 TTTAAAAACATAAAAAAATT
35021575 T
1 T
35021576 AAAATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
21 8 0.42
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
TTTAAAAACATAAAAAAATT
Found at i:35023167 original size:40 final size:37
Alignment explanation
Indices: 35023114--35023238 Score: 128
Period size: 40 Copynumber: 3.2 Consensus size: 37
35023104 TGGCCCGGCC
35023114 CAAAT-TATATATTAAATATATATTTTTATTTTTAAT
1 CAAATATATATATTAAATATATATTTTTATTTTTAAT
* *
35023150 CAAATATACTTTTTATTAAATATATATTTTTTGGACTTTTAAT
1 CAAATATA---TATATTAAATATATA-TTTTT--ATTTTTAAT
*
35023193 ACGAAT-TATATATTAAATATATATATTTTTATTTTTAAT
1 -CAAATATATATATT-AA-ATATATATTTTTATTTTTAAT
35023232 CAAATAT
1 CAAATAT
35023239 GGGCCAGGCC
Statistics
Matches: 72, Mismatches: 6, Indels: 19
0.74 0.06 0.20
Matches are distributed among these distances:
36 5 0.07
37 2 0.03
38 4 0.06
39 9 0.12
40 19 0.26
41 12 0.17
42 7 0.10
43 10 0.14
44 4 0.06
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (37 bp):
CAAATATATATATTAAATATATATTTTTATTTTTAAT
Found at i:35023176 original size:20 final size:19
Alignment explanation
Indices: 35023121--35023180 Score: 59
Period size: 18 Copynumber: 3.1 Consensus size: 19
35023111 GCCCAAATTA
35023121 TATATTAAATATATATTTT
1 TATATTAAATATATATTTT
* * *
35023140 TATTTTTAATCAAATATACTTT
1 TA-TATTAA--ATATATATTTT
35023162 T-TATTAAATATATATTTT
1 TATATTAAATATATATTTT
35023180 T
1 T
35023181 TGGACTTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
18 10 0.31
19 2 0.06
20 10 0.31
22 10 0.31
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATTAAATATATATTTT
Found at i:35024343 original size:52 final size:51
Alignment explanation
Indices: 35024228--35024343 Score: 126
Period size: 52 Copynumber: 2.2 Consensus size: 51
35024218 CAAAAAAAAC
* *
35024228 AAAACAAATTTTGGGTGCTGGCCTGTTAATGGCCAGCACCACCTAGGAAAACGA
1 AAAAC-AA-TTTGGGTGCTAGCCTGTCAATGGCCAGCACCACCTA-GAAAACGA
* * * *
35024282 AAAAAAATTTGGGTGCTAGCCTGTCAATGGTCGGCACCAGCCT-GAAAATGA
1 AAAACAATTTGGGTGCTAGCCTGTCAATGGCCAGCACCA-CCTAGAAAACGA
35024333 TAAAACAATTT
1 -AAAACAATTT
35024344 TTGTATCATA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
51 7 0.13
52 37 0.70
53 5 0.09
54 4 0.08
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (51 bp):
AAAACAATTTGGGTGCTAGCCTGTCAATGGCCAGCACCACCTAGAAAACGA
Found at i:35024448 original size:54 final size:54
Alignment explanation
Indices: 35024363--35025393 Score: 709
Period size: 54 Copynumber: 18.7 Consensus size: 54
35024353 ACTGGTATAC
*
35024363 AAAAAAAATTTGGGGTGCTGGCCTGTTAATGGTCGGCACCACCAGTACGAAAACA
1 AAAAAAAATTT-GGGTGCTGGCCTGTCAATGGTCGGCACCACCAGTACGAAAACA
* * * * * * *
35024418 AAAAAAAATTTAGATGTTGGCCTGTCAATGG-C--CAGCACCAATATGAAAATGAA
1 AAAAAAAATTTGGGTGCTGGCCTGTCAATGGTCGGCACCACCAGTACGAAAA--CA
* * * * * * *
35024471 AAAAATAAATTTTTTTTCGGCGCCGGCTTGTCAATGGTCGG---CACCAGTATGAAACCG
1 AAAAA-AAA-----TTTGGGTGCTGGCCTGTCAATGGTCGGCACCACCAGTACGAAAACA
* * * * ** *
35024528 AAAAAAATTTTGGTTGCTAGCCTGTCAATGG-CTGACACCACCAGTATAAAAACGG
1 AAAAAAAATTTGGGTGCTGGCCTGTCAATGGTC-GGCACCACCAGTACGAAAAC-A
** *
35024583 AAAAAAAATTTCTGTGCTGGCCTGTCAATGGTCGGCACCACCAGTACGAAAACG
1 AAAAAAAATTTGGGTGCTGGCCTGTCAATGGTCGGCACCACCAGTACGAAAACA
* * * *
35024637 AAAAAAATTTTGGGTGCTGGCCTGTAAATGG-CTGACACCACCAGTACAAAAACA
1 AAAAAAAATTTGGGTGCTGGCCTGTCAATGGTC-GGCACCACCAGTACGAAAACA
* * *
35024691 AAAAAAAATTTGGGTGATGCCCTGTCAATGGTCGGCACCACCAATACGAAAA-A
1 AAAAAAAATTTGGGTGCTGGCCTGTCAATGGTCGGCACCACCAGTACGAAAACA
* * * * *
35024744 GGAAAAAAAAATTGGGTGCTAGCCTGTAAATAGT-TG-A-CACCAGTACGAAAACAGA
1 --AAAAAAAATTTGGGTGCTGGCCTGTCAATGGTCGGCACCACCAGTACGAAAAC--A
* * * *
35024799 AAAAAAAATTTGGGTGCTAGCTTATCAATGG-CTGGCACCATCAGTACGAAAACGA
1 AAAAAAAATTTGGGTGCTGGCCTGTCAATGGTC-GGCACCACCAGTACGAAAAC-A
* * * * * * *
35024854 AAAAATATTTTAGGTACTGGCCTGTCAATGGCCGGCACTATCAGTACGAAAA-A
1 AAAAAAAATTTGGGTGCTGGCCTGTCAATGGTCGGCACCACCAGTACGAAAACA
** * * * * *
35024907 AAAAATATTTTTTTTGGTACTGGCCTGTCAATGGCCGGCACCACTAGTAGGAAAACA
1 AAAAA-A--AATTTGGGTGCTGGCCTGTCAATGGTCGGCACCACCAGTACGAAAACA
* * * *
35024964 AAAAAAAATTTGGGTGCTGGCCTGTAAATGGTCGACACCACCAGTACAAAAATGA
1 AAAAAAAATTTGGGTGCTGGCCTGTCAATGGTCGGCACCACCAGTACGAAAA-CA
* * *
35025019 AAAAAAAA-TTGGGTGAC-GTCCTGTCAATGGCCGACACCACCAGTACGAAAA-A
1 AAAAAAAATTTGGGTG-CTGGCCTGTCAATGGTCGGCACCACCAGTACGAAAACA
* * * * * *
35025071 GGAAAAAAATTTTTGGGTGCTGACATATAAATGG-CCG-A-CACCAGTACGAAAACGA
1 --AAAAAAA-ATTTGGGTGCTGGCCTGTCAATGGTCGGCACCACCAGTACGAAAAC-A
** * * * *
35025126 AAAAAAAATTTGCCTGCTTGCCTGTTAATGG-CTGACATCACCAGTACGAAAACGGA
1 AAAAAAAATTTGGGTGCTGGCCTGTCAATGGTC-GGCACCACCAGTACGAAAAC--A
* * * * *
35025182 AAAAAAAATTTGGGGTGTTGGCTTATCAATGGTTGGCACCATCAGTACGAAAACGA
1 AAAAAAAATTT-GGGTGCTGGCCTGTCAATGGTCGGCACCACCAGTACGAAAAC-A
* * ** * *
35025238 AAAAAATATTTTAGGTATTGGCCTGTCAATGGCCGGCACTACCAGTACGAAAACGA
1 AAAAAA-AATTTGGGTGCTGGCCTGTCAATGGTCGGCACCACCAGTACGAAAAC-A
* * * ** * *
35025294 AAAAAAATATTTTTTTTGGTACTGGCCTGTCAATGGCCAACACCATCAGTATGAAAACAA
1 AAAAAAA-A----TTTGGGTGCTGGCCTGTCAATGGTCGGCACCACCAGTACGAAAAC-A
* *
35025354 AAAAAAAATTTGGGTGCTAGCCTGTCAATGGCCGGCACCA
1 AAAAAAAATTTGGGTGCTGGCCTGTCAATGGTCGGCACCA
35025394 AATTTATCAA
Statistics
Matches: 776, Mismatches: 146, Indels: 108
0.75 0.14 0.10
Matches are distributed among these distances:
50 1 0.00
51 32 0.04
52 31 0.04
53 63 0.08
54 205 0.26
55 184 0.24
56 138 0.18
57 45 0.06
59 30 0.04
60 47 0.06
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (54 bp):
AAAAAAAATTTGGGTGCTGGCCTGTCAATGGTCGGCACCACCAGTACGAAAACA
Found at i:35024654 original size:273 final size:266
Alignment explanation
Indices: 35024363--35025300 Score: 727
Period size: 273 Copynumber: 3.4 Consensus size: 266
35024353 ACTGGTATAC
* *
35024363 AAAAAAAATTTGGGGTGCTGGCCTGTTAATGGTCGGCACCACCAGTACGAAAACAAAAAAAAATT
1 AAAAAAAATTTTGGGTGCTGGCCTGTAAATGG-CGGCACCACCAGTACGAAAACAAAAAAAAATT
* * * * * *
35024428 TAGATGTTGGCCTGTCAATGG-C-CAGCACCAATATGAAAATGAAAAAAATAAATTTTTTTTCGG
65 TGGGTGATGGCCTGTCAATGGTCGCACCACCAATACGAAAAAGAAAAAAA-AAA------TTCGG
* * * * * * * * * *
35024491 CGCCGGCTTGTCAATGGTCGGCACCAGTATG-AAACCG-AAAAAAATTTTGGTTGCTAGCCTGTC
123 CGCCAGCCTGTAAATAGTCGACACCAGTACGAAAACAGAAAAAAAAATTTGGGTGCTAGCCTATC
* * *
35024554 AATGGCTGACACCACCAGTATAAAAACGGAAAAAAAATTTCT-GTGCTGGCCTGTCAATGGTCGG
188 AATGGCTGACACCACCAGTACAAAAAC-GAAAAAAAATTT-TAGTACTGGCCTGTCAATGGCCGG
35024618 CACCACCAGTACGAAA
251 CACCACCAGTACGAAA
* *
35024634 ACGAAAAAAATTTTGGGTGCTGGCCTGTAAATGGCTGACACCACCAGTACAAAAACAAAAAAAAA
1 A--AAAAAAATTTTGGGTGCTGGCCTGTAAATGGC-GGCACCACCAGTACGAAAACAAAAAAAAA
* * * * *
35024699 TTTGGGTGATGCCCTGTCAATGGTCGGCACCACCAATACGAAAAAGGAAAAAAAAATTGGGTGCT
63 TTTGGGTGATGGCCTGTCAATGGTC-GCACCACCAATACGAAAAAGAAAAAAAAAATTCGGCGCC
* *
35024764 AGCCTGTAAATAGTTGACACCAGTACGAAAACAGAAAAAAAAATTTGGGTGCTAGCTTATCAATG
127 AGCCTGTAAATAGTCGACACCAGTACGAAAACAGAAAAAAAAATTTGGGTGCTAGCCTATCAATG
* * * * *
35024829 GCTGGCACCATCAGTACGAAAACGAAAAAATATTTTAGGTACTGGCCTGTCAATGGCCGGCACTA
192 GCTGACACCACCAGTACAAAAACGAAAAAAAATTTTA-GTACTGGCCTGTCAATGGCCGGCACCA
*
35024894 TCAGTACGAAA
256 CCAGTACGAAA
* * * * *
35024905 AAAAAAATATTTTTTTTGGTACTGGCCTGTCAATGGCCGGCACCACTAGTAGGAAAACAAAAAAA
1 AAAAAAA-A---TTTTGGGTGCTGGCCTGTAAATGG-CGGCACCACCAGTACGAAAACAAAAAAA
* * * * *
35024970 AATTTGGGTGCTGGCCTGTAAATGGTCGACACCACCAGTAC-AAAAATG-AAAAAAAAATTGGGT
61 AATTTGGGTGATGGCCTGTCAATGGTCG-CACCACCAATACGAAAAA-GAAAAAAAAAATTCGGC
* * * * **
35025033 GAC-GTCCTGTCAATGGCCGACACCACCAGTACGAAAA-AGGAAAAAAATTTTTGGGTGCT-GAC
124 GCCAG-CCTGTAAATAGTCG--A-CACCAGTACGAAAACA-GAAAAAAAAATTTGGGTGCTAG-C
* * * * * * * *
35025095 ATATAAATGGCCG--A-CACCAGTACGAAAACGAAAAAAAAATTT-GCCTGCTTGCCTGTTAATG
183 CTATCAATGGCTGACACCACCAGTACAAAAACGAAAAAAAATTTTAG--TACTGGCCTGTCAATG
* * *
35025156 GCTGACATCACCAGTACGAAAACGGA
246 GCCGGCACCACCAGTACG--AA---A
* * * * * * * *
35025182 AAAAAAAATTTGGGGTGTTGGCTTATCAATGGTTGGCACCATCAGTACGAAAACGAAAAAAATAT
1 AAAAAAAATTTTGGGTGCTGGCCTGTAAATGG-CGGCACCACCAGTACGAAAAC-AAAAAAA-AA
* * * * *
35025247 TTTAGGT-ATTGGCCTGTCAATGGCCGGCACTACCAGTACGAAAACGAAAAAAAA
63 TTTGGGTGA-TGGCCTGTCAATGGTC-GCACCACCAATACGAAAAAGAAAAAAAA
35025301 TATTTTTTTT
Statistics
Matches: 544, Mismatches: 87, Indels: 67
0.78 0.12 0.10
Matches are distributed among these distances:
269 33 0.06
270 18 0.03
271 82 0.15
272 84 0.15
273 191 0.35
274 14 0.03
275 79 0.15
276 35 0.06
277 8 0.01
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.22
Consensus pattern (266 bp):
AAAAAAAATTTTGGGTGCTGGCCTGTAAATGGCGGCACCACCAGTACGAAAACAAAAAAAAATTT
GGGTGATGGCCTGTCAATGGTCGCACCACCAATACGAAAAAGAAAAAAAAAATTCGGCGCCAGCC
TGTAAATAGTCGACACCAGTACGAAAACAGAAAAAAAAATTTGGGTGCTAGCCTATCAATGGCTG
ACACCACCAGTACAAAAACGAAAAAAAATTTTAGTACTGGCCTGTCAATGGCCGGCACCACCAGT
ACGAAA
Found at i:35024970 original size:327 final size:327
Alignment explanation
Indices: 35024599--35025393 Score: 947
Period size: 327 Copynumber: 2.4 Consensus size: 327
35024589 AATTTCTGTG
* *
35024599 CTGGCCTGTCAATGGTCGGCACCACCAGTACGAAAACGAAAAAAATTTTGGGTGCTGGCCTGTAA
1 CTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAACAAAAAAAATTTTGGGTGCTGGCCTGTAA
*
35024664 ATGGCTGACACCACCAGTACAAAAACAAAAAAAAATTTGGGTGATGCCCTGTCAATGGTCGGCAC
66 ATGGCTGACACCACCAGTACAAAAACAAAAAAAAATTTGGGTGATG-CCTGTCAATGGCCGGCAC
* * **
35024729 CACCAATACGAAAAAGGAAAAAAA-AATTGGGTGCT-AGCCTGTAAATAGTTGACACCAGTACGA
130 CACCAATACGAAAAAGGAAAAAAATAATTGGGTGCTGA-CATATAAATAGCCGACACCAGTACGA
** * * *
35024792 AAACAGAAAAAAAAATTTGGGTGCTAGCTTATCAATGGCTGGCACCATCAGTACGAAAAC-G-AA
194 AAAC-GAAAAAAAAATTTGCCTGCTAGCCTATCAATGGCTGACACCACCAGTACGAAAACGGAAA
* * * * *
35024855 AAAATATTTTAGGTACTGGCCTGTCAATGGCCGGCACTATCAGTACGAAAA-AAAAAATATTTTT
258 AAAAAATTTGAGGTACTGGCCTATCAATGGCCGGCACCATCAGTACGAAAACAAAAAA-A-TATT
*
35024919 TTTGGTA
321 TTAGGTA
* * *
35024926 CTGGCCTGTCAATGGCCGGCACCACTAGTAGGAAAACAAAAAAAAATTTGGGTGCTGGCCTGTAA
1 CTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAACAAAAAAAATTTTGGGTGCTGGCCTGTAA
* * *
35024991 ATGG-TCGACACCACCAGTACAAAAATGAAAAAAAAA-TTGGGTGACGTCCTGTCAATGGCCGAC
66 ATGGCT-GACACCACCAGTACAAAAA-CAAAAAAAAATTTGGGTGATG-CCTGTCAATGGCCGGC
* ** *
35025054 ACCACCAGTACGAAAAAGGAAAAAAATTTTTGGGTGCTGACATATAAATGGCCGACACCAGTACG
128 ACCACCAATACGAAAAAGGAAAAAAATAATTGGGTGCTGACATATAAATAGCCGACACCAGTACG
* * * *
35025119 AAAACGAAAAAAAAATTTGCCTGCTTGCCTGTTAATGGCTGACATCACCAGTACGAAAACGGAAA
193 AAAACGAAAAAAAAATTTGCCTGCTAGCCTATCAATGGCTGACACCACCAGTACGAAAACGGAAA
* ** * **
35025184 AAAAAATTTGGGGTGTTGGCTTATCAATGGTTGGCACCATCAGTACGAAAACGAAAAAAATATTT
258 AAAAAATTTGAGGTACTGGCCTATCAATGGCCGGCACCATCAGTACGAAAAC-AAAAAAATATTT
35025249 TAGGTA
322 TAGGTA
* * * *
35025255 TTGGCCTGTCAATGGCCGGCACTACCAGTACGAAAACGAAAAAAAATATTTTTTTTGGTACTGGC
1 CTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAAC--AAAAAAA-A---TTTTGGGTGCTGGC
* ** * ** *
35025320 CTGTCAATGGCCAACACCATCAGTATGAAAACAAAAAAAAAATTTGGGTGCTAGCCTGTCAATGG
60 CTGTAAATGGCTGACACCACCAGTACAAAAAC-AAAAAAAAATTTGGGTGAT-GCCTGTCAATGG
35025385 CCGGCACCA
123 CCGGCACCA
35025394 AATTTATCAA
Statistics
Matches: 394, Mismatches: 56, Indels: 27
0.83 0.12 0.06
Matches are distributed among these distances:
326 1 0.00
327 177 0.45
328 44 0.11
329 86 0.22
330 1 0.00
331 13 0.03
332 1 0.00
335 44 0.11
336 26 0.07
337 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (327 bp):
CTGGCCTGTCAATGGCCGGCACCACCAGTACGAAAACAAAAAAAATTTTGGGTGCTGGCCTGTAA
ATGGCTGACACCACCAGTACAAAAACAAAAAAAAATTTGGGTGATGCCTGTCAATGGCCGGCACC
ACCAATACGAAAAAGGAAAAAAATAATTGGGTGCTGACATATAAATAGCCGACACCAGTACGAAA
ACGAAAAAAAAATTTGCCTGCTAGCCTATCAATGGCTGACACCACCAGTACGAAAACGGAAAAAA
AAATTTGAGGTACTGGCCTATCAATGGCCGGCACCATCAGTACGAAAACAAAAAAATATTTTAGG
TA
Found at i:35027060 original size:21 final size:22
Alignment explanation
Indices: 35027036--35027076 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
35027026 AAGTTAAATT
*
35027036 TAAATTCA-AAAATAATATAAA
1 TAAATTCAGAAAAAAATATAAA
*
35027057 TAAATTGAGAAAAAAATATA
1 TAAATTCAGAAAAAAATATA
35027077 TTTTTTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (22 bp):
TAAATTCAGAAAAAAATATAAA
Found at i:35027093 original size:5 final size:5
Alignment explanation
Indices: 35027083--35027161 Score: 50
Period size: 5 Copynumber: 14.6 Consensus size: 5
35027073 TATATTTTTT
* * * *
35027083 AAATG AAATG AAAGGG AAATGG TAATGG TAATG AAAATG AAATT AGAATG
1 AAATG AAATG AAA-TG AAAT-G AAAT-G AAATG -AAATG AAATG A-AATG
* *
35027133 AAATG AAATAA AAATA AAATG AAATG AAA
1 AAATG AAAT-G AAATG AAATG AAATG AAA
35027162 AAAAGAAGTT
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
5 35 0.57
6 26 0.43
ACGTcount: A:0.59, C:0.00, G:0.20, T:0.20
Consensus pattern (5 bp):
AAATG
Found at i:35027138 original size:16 final size:16
Alignment explanation
Indices: 35027112--35027163 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
35027102 TGGTAATGGT
* *
35027112 AATGAAAATGAAATTAG
1 AATG-AAATGAAATAAA
35027129 AATGAAATGAAATAAA
1 AATGAAATGAAATAAA
*
35027145 AATAAAATGAAATGAAA
1 AATGAAATGAAAT-AAA
35027162 AA
1 AA
35027164 AAGAAGTTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
16 22 0.71
17 9 0.29
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.19
Consensus pattern (16 bp):
AATGAAATGAAATAAA
Found at i:35027437 original size:25 final size:25
Alignment explanation
Indices: 35027384--35027437 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
35027374 AAATTGACAA
* *
35027384 AAATAATAAATAAATGAAAATATTT
1 AAATAATAAATAAATGAAAATAATG
*
35027409 AAATAATATATTAAATGAAAA-AATG
1 AAATAATA-AATAAATGAAAATAATG
35027434 AAAT
1 AAAT
35027438 TAGATTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.30
Consensus pattern (25 bp):
AAATAATAAATAAATGAAAATAATG
Found at i:35027901 original size:27 final size:26
Alignment explanation
Indices: 35027878--35027926 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
35027868 TTTAAATTGA
35027878 TAAAAATAATA-AATAAATGAAAATG
1 TAAAAATAATATAATAAATGAAAATG
** *
35027903 TTTAAATAATATATTAAATGAAAA
1 TAAAAATAATATAATAAATGAAAA
35027927 AATGAAATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 9 0.45
26 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (26 bp):
TAAAAATAATATAATAAATGAAAATG
Found at i:35031502 original size:55 final size:52
Alignment explanation
Indices: 35031406--35031591 Score: 191
Period size: 52 Copynumber: 3.5 Consensus size: 52
35031396 AAAAAAAATT
* * *
35031406 TGTTTCCGTACTGGTGTCGGCCATTGA-TAGCCCAGCACCCAATTTTTTTTTC
1 TGTTTTCGTACTGGTGTCCGCCATTGACAAG-CCAGCACCCAATTTTTTTTTC
* *
35031458 TGTTTTCGTACTGGTAGTGCCGGCTATTGACAAGCGAGCACCCAAATTTTTTTTTC
1 TGTTTTCGTACTGGT-GT-CC-GCCATTGACAAGCCAGCACCC-AATTTTTTTTTC
* * * *
35031514 -GTTTTCGTACTGGTGTTCGCCATTGACAGGCCAACACCCCAAATTTTTTTT-
1 TGTTTTCGTACTGGTGTCCGCCATTGACAAGCCAGCA-CCCAATTTTTTTTTC
*
35031565 TGTTTTCGTGCTGGTG-CCGACCATTGA
1 TGTTTTCGTACTGGTGTCCG-CCATTGA
35031592 TAGGCTAGTA
Statistics
Matches: 113, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
51 2 0.02
52 59 0.52
53 6 0.05
54 3 0.03
55 29 0.26
56 14 0.12
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (52 bp):
TGTTTTCGTACTGGTGTCCGCCATTGACAAGCCAGCACCCAATTTTTTTTTC
Found at i:35031787 original size:53 final size:52
Alignment explanation
Indices: 35031719--35031863 Score: 148
Period size: 53 Copynumber: 2.8 Consensus size: 52
35031709 GTTTTAGTGT
* * * **
35031719 TGGTGCCAGCTATTGACAGGCCAGCGCTCAAATTTTTTTTTTGTTTTCAAAAG
1 TGGTGCCACCCATTGACAGGCCAGCAC-CAAATTTTTTTTTCATTTTCAAAAG
* * ** *
35031772 TGGTGCCGA-CCATTGACACGACAGCACCGAAATTTTTTTTTCATTTTCCTAGG
1 TGGTGCC-ACCCATTGACAGGCCAGCACC-AAATTTTTTTTTCATTTTCAAAAG
* *
35031825 TGGTGCCACCCATTGACAGGCAAGCACCCAATTTTTTTT
1 TGGTGCCACCCATTGACAGGCCAGCACCAAATTTTTTTT
35031864 ATTTTTTTTT
Statistics
Matches: 76, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
52 12 0.16
53 63 0.83
54 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (52 bp):
TGGTGCCACCCATTGACAGGCCAGCACCAAATTTTTTTTTCATTTTCAAAAG
Found at i:35035300 original size:20 final size:19
Alignment explanation
Indices: 35035267--35035317 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 19
35035257 TCACACCAAT
* *
35035267 AAATAATTTAAAAACTATAA
1 AAATATTTTAAAAA-AATAA
*
35035287 AAATATTTTTAAAAAATAA
1 AAATATTTTAAAAAAATAA
*
35035306 AAA-ATTTCAAAA
1 AAATATTTTAAAA
35035318 TTAAAAGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 7 0.27
19 7 0.27
20 12 0.46
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (19 bp):
AAATATTTTAAAAAAATAA
Found at i:35035305 original size:19 final size:19
Alignment explanation
Indices: 35035273--35035312 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
35035263 CAATAAATAA
35035273 TTTAAAAACTATAAAAATATT
1 TTTAAAAAC-ATAAAAA-ATT
35035294 TTTAAAAA-ATAAAAAATT
1 TTTAAAAACATAAAAAATT
35035312 T
1 T
35035313 CAAAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 7 0.37
21 8 0.42
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
TTTAAAAACATAAAAAATT
Found at i:35043908 original size:46 final size:45
Alignment explanation
Indices: 35043833--35043949 Score: 173
Period size: 46 Copynumber: 2.6 Consensus size: 45
35043823 TACGTATGAT
* *
35043833 CACTTATCAC-TTGTCCCTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
35043877 CACTTATCACTTTGTCACTAGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACT-GATCAGATAAGTGTAGCTAAAGCTAC
* *
35043923 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTGTCAC-TGATCAGA
35043950 AGTACTCAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
44 10 0.15
45 7 0.11
46 48 0.73
47 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (45 bp):
CACTTATCACTTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:35049039 original size:23 final size:22
Alignment explanation
Indices: 35049008--35049050 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
35048998 CTTAATTCCT
*
35049008 TCAAAAATGATCAAATTATAAA
1 TCAAAAATGATAAAATTATAAA
35049030 TCAATAAATGATAAAATTATA
1 TCAA-AAATGATAAAATTATA
35049051 TTTTGATCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.58, C:0.07, G:0.05, T:0.30
Consensus pattern (22 bp):
TCAAAAATGATAAAATTATAAA
Found at i:35050597 original size:31 final size:29
Alignment explanation
Indices: 35050563--35050664 Score: 93
Period size: 31 Copynumber: 3.4 Consensus size: 29
35050553 TAAATATACT
*
35050563 AATTTGGTACTTATGTTTGGTTTCAATGTTT
1 AATTTGGTACTTA-GTTT-GTTTCAATGTTC
* *
35050594 AATTTAGTACTTAAGTTT-TTT--TTGTCTC
1 AATTTGGTACTT-AGTTTGTTTCAATGT-TC
*
35050622 AATTTGGTACTTGAGTTTAGCTTCAATGTTC
1 AATTTGGTACTT-AGTTT-GTTTCAATGTTC
35050653 AATTTGGTACTT
1 AATTTGGTACTT
35050665 GAATTTTTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
27 3 0.05
28 17 0.29
29 3 0.05
30 2 0.03
31 29 0.50
32 4 0.07
ACGTcount: A:0.22, C:0.10, G:0.17, T:0.52
Consensus pattern (29 bp):
AATTTGGTACTTAGTTTGTTTCAATGTTC
Found at i:35050630 original size:59 final size:59
Alignment explanation
Indices: 35050563--35050674 Score: 156
Period size: 59 Copynumber: 1.9 Consensus size: 59
35050553 TAAATATACT
* * *
35050563 AATTTGGTACTT-ATGTTTGGTTTCAATGTTTAATTTAGTACTT-AAGTTTTTTTTGTCTC
1 AATTTGGTACTTGA-GTTTAGCTTCAATGTTCAATTTAGTACTTGAA-TTTTTTTTGTCTC
*
35050622 AATTTGGTACTTGAGTTTAGCTTCAATGTTCAATTTGGTACTTGAATTTTTTT
1 AATTTGGTACTTGAGTTTAGCTTCAATGTTCAATTTAGTACTTGAATTTTTTT
35050675 ATTTTGATGC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
59 44 0.94
60 3 0.06
ACGTcount: A:0.21, C:0.09, G:0.16, T:0.54
Consensus pattern (59 bp):
AATTTGGTACTTGAGTTTAGCTTCAATGTTCAATTTAGTACTTGAATTTTTTTTGTCTC
Found at i:35051541 original size:35 final size:33
Alignment explanation
Indices: 35051485--35051550 Score: 96
Period size: 35 Copynumber: 1.9 Consensus size: 33
35051475 TCTAAATATG
*
35051485 TTACGATTAGTAATCTGATTATGCTTTATAATACA
1 TTACAATTAGTAATCTGATTATG-TTTA-AATACA
*
35051520 TTACAATTATTAATCTGATTATGTTTAAATA
1 TTACAATTAGTAATCTGATTATGTTTAAATA
35051551 TCTATTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 4 0.14
34 4 0.14
35 21 0.72
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (33 bp):
TTACAATTAGTAATCTGATTATGTTTAAATACA
Found at i:35051975 original size:30 final size:29
Alignment explanation
Indices: 35051926--35051982 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
35051916 TATCATATTG
35051926 AAAAAACCCAAGTACCAAATT-AACATAA
1 AAAAAACCCAAGTACCAAATTGAACATAA
*
35051954 AAAAAACGCTCAAGTATCAAATTGAACAT
1 AAAAAAC-C-CAAGTACCAAATTGAACAT
35051983 TGAAATCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 7 0.28
29 1 0.04
30 12 0.48
31 5 0.20
ACGTcount: A:0.56, C:0.19, G:0.07, T:0.18
Consensus pattern (29 bp):
AAAAAACCCAAGTACCAAATTGAACATAA
Found at i:35059883 original size:23 final size:23
Alignment explanation
Indices: 35059835--35059883 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
35059825 TTTTGAGTAA
*
35059835 TTTAATTTTTTCTTTTATGTTCT
1 TTTAATTTTTTCTTTTATGTTAT
35059858 TTTAACTTTTATT-TTTTAT-TTAT
1 TTTAA-TTTT-TTCTTTTATGTTAT
35059881 TTT
1 TTT
35059884 TCATTTTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 11 0.48
24 10 0.43
25 2 0.09
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (23 bp):
TTTAATTTTTTCTTTTATGTTAT
Found at i:35066253 original size:8 final size:8
Alignment explanation
Indices: 35066240--35066264 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
35066230 TATACTAAAC
35066240 AATAAAAT
1 AATAAAAT
35066248 AATAAAAT
1 AATAAAAT
35066256 AATAAAAT
1 AATAAAAT
35066264 A
1 A
35066265 TTATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:35066884 original size:22 final size:22
Alignment explanation
Indices: 35066857--35066903 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
35066847 TTTTAATGAC
* *
35066857 ATTTTTAATGCATTAAGTTTAA
1 ATTTTTAATGCAATAAGTATAA
*
35066879 ATTTTTCATGCAATAAGTATAA
1 ATTTTTAATGCAATAAGTATAA
35066901 ATT
1 ATT
35066904 CACGTGTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (22 bp):
ATTTTTAATGCAATAAGTATAA
Found at i:35068968 original size:5 final size:5
Alignment explanation
Indices: 35068958--35068989 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
35068948 TACGAAGTGT
35068958 AATAA AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AA
35068990 ACAGATTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:35069936 original size:16 final size:15
Alignment explanation
Indices: 35069902--35069946 Score: 58
Period size: 16 Copynumber: 3.1 Consensus size: 15
35069892 AAATAATTTA
*
35069902 AAATTTAAA--AATC
1 AAATTTAAACTAATT
35069915 AAATTTAAACTACATT
1 AAATTTAAACTA-ATT
35069931 AAATTTAAACTAATT
1 AAATTTAAACTAATT
35069946 A
1 A
35069947 GAGAGTTGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 9 0.32
15 5 0.18
16 14 0.50
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.36
Consensus pattern (15 bp):
AAATTTAAACTAATT
Found at i:35076344 original size:3 final size:3
Alignment explanation
Indices: 35076336--35076361 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
35076326 ATGCTTTTAA
35076336 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
35076362 AAAAGAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:35087361 original size:23 final size:23
Alignment explanation
Indices: 35087323--35087373 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
35087313 CCAATGTCGT
* *
35087323 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
35087346 TGTAATACCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
35087369 AGTAA
1 TGTAA
35087374 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:35091110 original size:59 final size:61
Alignment explanation
Indices: 35091043--35091160 Score: 177
Period size: 59 Copynumber: 2.0 Consensus size: 61
35091033 TGATTAAACT
* * *
35091043 TAATCACTTTAATAATAAATTAATATAATA-TTAA-TATTAGATTAAATTTAATATTAAGA
1 TAATCACTTTAATAATAAATTAATAAAATAGATAAGTATTAAATTAAATTTAATATTAAGA
* *
35091102 TAATCACTTTAATATTAAATTAATAAAATAGATAAGTATTAAATTTAATTTAATATTAA
1 TAATCACTTTAATAATAAATTAATAAAATAGATAAGTATTAAATTAAATTTAATATTAA
35091161 ACTATTAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
59 28 0.54
60 3 0.06
61 21 0.40
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.42
Consensus pattern (61 bp):
TAATCACTTTAATAATAAATTAATAAAATAGATAAGTATTAAATTAAATTTAATATTAAGA
Found at i:35091468 original size:13 final size:13
Alignment explanation
Indices: 35091452--35091495 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
35091442 TTTTTCAAGA
35091452 AAATTCCTTAATC
1 AAATTCCTTAATC
* * *
35091465 AAATTCCTGAGTT
1 AAATTCCTTAATC
*
35091478 AAATTCTTTAATC
1 AAATTCCTTAATC
35091491 AAATT
1 AAATT
35091496 ATTTAGTTGA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.41
Consensus pattern (13 bp):
AAATTCCTTAATC
Found at i:35094322 original size:23 final size:23
Alignment explanation
Indices: 35094296--35094346 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
35094286 TGTTATTGAC
*
35094296 CAGTGGTAGCTTCGGCTACATTT
1 CAGTGGTAGCTTCGGCTACATAT
35094319 CAGTGGTAGCTTCGGCTACATAT
1 CAGTGGTAGCTTCGGCTACATAT
35094342 CAGTG
1 CAGTG
35094347 TGGCACTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (23 bp):
CAGTGGTAGCTTCGGCTACATAT
Found at i:35098286 original size:15 final size:15
Alignment explanation
Indices: 35098266--35098295 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35098256 CTATGCATGC
*
35098266 AAAATATAAAAGACA
1 AAAATACAAAAGACA
35098281 AAAATACAAAAGACA
1 AAAATACAAAAGACA
35098296 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.10, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAATACAAAAGACA
Found at i:35101134 original size:53 final size:53
Alignment explanation
Indices: 35101076--35101183 Score: 198
Period size: 53 Copynumber: 2.0 Consensus size: 53
35101066 ATGTCATGTT
*
35101076 TACATGGACCGATTATTTAATTAATAGAAGAAGTACAAGATTATTTAACTACA
1 TACATGGACCGATTATTTAATTAATAGAAGAAGTACAAGAATATTTAACTACA
*
35101129 TACATGGACCGATTATTTAATTAGTAGAAGAAGTACAAGAATATTTAACTACA
1 TACATGGACCGATTATTTAATTAATAGAAGAAGTACAAGAATATTTAACTACA
35101182 TA
1 TA
35101184 AACAATATAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (53 bp):
TACATGGACCGATTATTTAATTAATAGAAGAAGTACAAGAATATTTAACTACA
Found at i:35103389 original size:22 final size:23
Alignment explanation
Indices: 35103364--35103409 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
35103354 CCATTCAATG
* *
35103364 TTCAGTTTGGTACTT-GAGTTTT
1 TTCAATTTGATACTTCGAGTTTT
*
35103386 TTCAATTTGATATTTCGAGTTTT
1 TTCAATTTGATACTTCGAGTTTT
35103409 T
1 T
35103410 CTTTATCCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.17, C:0.09, G:0.17, T:0.57
Consensus pattern (23 bp):
TTCAATTTGATACTTCGAGTTTT
Found at i:35106681 original size:3 final size:3
Alignment explanation
Indices: 35106673--35106702 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
35106663 GCCAGAATTC
35106673 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
35106703 TTTTATTAAA
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:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:35109154 original size:12 final size:11
Alignment explanation
Indices: 35109137--35109172 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
35109127 AACAAATCCT
35109137 CTCTCATATTTC
1 CTCTCA-ATTTC
*
35109149 CTCTCAATTTT
1 CTCTCAATTTC
35109160 CTCTCAATTTC
1 CTCTCAATTTC
35109171 CT
1 CT
35109173 TCCAAAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.17, C:0.33, G:0.00, T:0.50
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:35109183 original size:22 final size:23
Alignment explanation
Indices: 35109136--35109184 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
35109126 AAACAAATCC
**
35109136 TCTCTCATATTTCCTCTCAATTT
1 TCTCTCATATTTCCTCTCAAAAT
35109159 TCTCTCA-ATTTCCT-TCCAAAAT
1 TCTCTCATATTTCCTCT-CAAAAT
35109181 TCTC
1 TCTC
35109185 ATAAATCCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 1 0.04
22 15 0.65
23 7 0.30
ACGTcount: A:0.20, C:0.33, G:0.00, T:0.47
Consensus pattern (23 bp):
TCTCTCATATTTCCTCTCAAAAT
Found at i:35109217 original size:51 final size:51
Alignment explanation
Indices: 35109152--35109275 Score: 187
Period size: 51 Copynumber: 2.4 Consensus size: 51
35109142 ATATTTCCTC
* * *
35109152 TCAATTTTCTCTCAATTTCCTTCCAAAATTCTCAT-AAATCCATATTTAATT
1 TCAATTTCCTCTCAATTTCCTTCCAAAAATCTC-TCAAAGCCATATTTAATT
*
35109203 TCAATTTCCTCTCAATTTCATTCCAAAAATCTCTCAAAGCCATATTTAATT
1 TCAATTTCCTCTCAATTTCCTTCCAAAAATCTCTCAAAGCCATATTTAATT
*
35109254 TCAATTTGCTCTCAATTTCCTT
1 TCAATTTCCTCTCAATTTCCTT
35109276 TTTTAAAATA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 1 0.02
51 65 0.98
ACGTcount: A:0.30, C:0.25, G:0.02, T:0.44
Consensus pattern (51 bp):
TCAATTTCCTCTCAATTTCCTTCCAAAAATCTCTCAAAGCCATATTTAATT
Done.