Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 45 of 153
Found at i:14973920 original size:50 final size:52
Alignment explanation
Indices: 14973861--14973959 Score: 139
Period size: 50 Copynumber: 1.9 Consensus size: 52
14973851 TTAATAAAGT
* * *
14973861 CATGCATTATGTATCTCTCATGTAAGTT-AAGTTTGCATCA-TAAATTATGA
1 CATGAATTATGTAACTCCCATGTAAGTTAAAGTTTGCATCATTAAATTATGA
* *
14973911 CATGAATTATGTAACTCCCATGTTAGTTAAAGTTTGCATTATTAAATTA
1 CATGAATTATGTAACTCCCATGTAAGTTAAAGTTTGCATCATTAAATTA
14973960 AGTCTTGTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
50 24 0.57
51 11 0.26
52 7 0.17
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (52 bp):
CATGAATTATGTAACTCCCATGTAAGTTAAAGTTTGCATCATTAAATTATGA
Found at i:14973977 original size:52 final size:50
Alignment explanation
Indices: 14973861--14973979 Score: 121
Period size: 50 Copynumber: 2.3 Consensus size: 50
14973851 TTAATAAAGT
* * * * *
14973861 CATGCATTATGTATCTCTCATGTAAGTTAAGTTTGCATCATAAATTATGA
1 CATGAATTAAGTAACTCCCATGTAAGTTAAGTTTGCATCATAAATTAAGA
* * * *
14973911 CATGAATTATGTAACTCCCATGTTAGTTAAAGTTTGCATTATTAAATTAAGT
1 CATGAATTAAGTAACTCCCATGTAAGTT-AAGTTTGCATCA-TAAATTAAGA
* *
14973963 CTTGTATTAAGTAACTC
1 CATGAATTAAGTAACTC
14973980 ATTTGTTCAT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 24 0.42
51 11 0.19
52 22 0.39
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (50 bp):
CATGAATTAAGTAACTCCCATGTAAGTTAAGTTTGCATCATAAATTAAGA
Found at i:14977141 original size:26 final size:25
Alignment explanation
Indices: 14977112--14977160 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
14977102 AAACCTTAAA
14977112 CCCTTATTT-CTCCCTTTTCTTTCTTT
1 CCCTT-TTTCCTCCC-TTTCTTTCTTT
*
14977138 CCCTTTTTCCTTCCTTTCTTTCT
1 CCCTTTTTCCTCCCTTTCTTTCT
14977161 CCCCTGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.02, C:0.37, G:0.00, T:0.61
Consensus pattern (25 bp):
CCCTTTTTCCTCCCTTTCTTTCTTT
Found at i:14977342 original size:23 final size:23
Alignment explanation
Indices: 14977288--14977335 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
14977278 TAATAAATAA
* *
14977288 ATATATATGTATTACAAATGTAC
1 ATATGTATTTATTACAAATGTAC
* *
14977311 ATATGTATTTATTACACATTTAC
1 ATATGTATTTATTACAAATGTAC
14977334 AT
1 AT
14977336 TATTATTACC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (23 bp):
ATATGTATTTATTACAAATGTAC
Found at i:14977407 original size:8 final size:8
Alignment explanation
Indices: 14977394--14977432 Score: 69
Period size: 8 Copynumber: 4.9 Consensus size: 8
14977384 TTTAATTAAT
14977394 ATAATATA
1 ATAATATA
14977402 ATAATATA
1 ATAATATA
14977410 ATAATATA
1 ATAATATA
14977418 ATAATATA
1 ATAATATA
*
14977426 ATGATAT
1 ATAATAT
14977433 TTACTTAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (8 bp):
ATAATATA
Found at i:14983027 original size:101 final size:101
Alignment explanation
Indices: 14982852--14983054 Score: 325
Period size: 101 Copynumber: 2.0 Consensus size: 101
14982842 TAGCAGAAAA
* * * *
14982852 GTTTGTTGGAAAACGATTTTTGCTCATATTGGATTATGTGTGGAATGAATACCATTACAAGTGGG
1 GTTTGTTGGAAAACGATTTTTGCTCATATTGGATTATGTGTGAAATGAATACCATGACAAATGAG
* *
14982917 ACAGACTGAAGCAACCGCTATGGAGTGGACGAAGAG
66 ACAGACTGAAGCAACCGCTACGGAATGGACGAAGAG
*
14982953 GTTTGTTGGGAAACGATTTTTGCTCATATTGGATTATGTGTGAAATGAATACCATGACAAATGAG
1 GTTTGTTGGAAAACGATTTTTGCTCATATTGGATTATGTGTGAAATGAATACCATGACAAATGAG
**
14983018 ACAGACTGAAGCAAGTGCTACGGAATGGACGAAGAG
66 ACAGACTGAAGCAACCGCTACGGAATGGACGAAGAG
14983054 G
1 G
14983055 AAGTGAAGTC
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 93 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (101 bp):
GTTTGTTGGAAAACGATTTTTGCTCATATTGGATTATGTGTGAAATGAATACCATGACAAATGAG
ACAGACTGAAGCAACCGCTACGGAATGGACGAAGAG
Found at i:14992022 original size:43 final size:43
Alignment explanation
Indices: 14991940--14992114 Score: 128
Period size: 43 Copynumber: 4.1 Consensus size: 43
14991930 GGTTTATCCA
** *
14991940 ATGATGCACTATGTGTGTCAGTATAACTGTTTCGGTTTA-TCTG
1 ATGATGCACTATGTGTGTCAGTATAACTCCTTCGATTTATTC-G
* *
14991983 ATGATGCATTATGTGTGTCAGTAT-TCATCCTTCGATTTATTCG
1 ATGATGCACTATGTGTGTCAGTATAAC-TCCTTCGATTTATTCG
* * * * *
14992026 ATGATGCACTA--TGCG-CCGATATAACTACTTTGGTTTA-TCTG
1 ATGATGCACTATGTGTGTCAG-TATAACTCCTTCGATTTATTC-G
* * ** * *
14992067 ATGATGCACTATGTGTGCCAATATATTTCCTTCAATTTATCCG
1 ATGATGCACTATGTGTGTCAGTATAACTCCTTCGATTTATTCG
14992110 ATGAT
1 ATGAT
14992115 ACAATGCTGT
Statistics
Matches: 101, Mismatches: 22, Indels: 18
0.72 0.16 0.13
Matches are distributed among these distances:
40 4 0.04
41 27 0.27
42 2 0.02
43 64 0.63
44 4 0.04
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (43 bp):
ATGATGCACTATGTGTGTCAGTATAACTCCTTCGATTTATTCG
Found at i:14993831 original size:19 final size:19
Alignment explanation
Indices: 14993783--14993839 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
14993773 GATATATATA
14993783 AATAAT-TAATAAATAT-AT
1 AATAATATAA-AAATATAAT
14993801 AATACA-AGTAAAAATATAAT
1 AATA-ATA-TAAAAATATAAT
*
14993821 AATAATATAAAAAAATAAT
1 AATAATATAAAAATATAAT
14993840 GATGTAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
18 4 0.12
19 19 0.58
20 10 0.30
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
AATAATATAAAAATATAAT
Found at i:14993839 original size:16 final size:16
Alignment explanation
Indices: 14993818--14993859 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
14993808 GTAAAAATAT
14993818 AATAATAATATAAAAA
1 AATAATAATATAAAAA
* * *
14993834 AATAATGATGTAAAAT
1 AATAATAATATAAAAA
14993850 AATAATAATA
1 AATAATAATA
14993860 ATTTGTGAAG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (16 bp):
AATAATAATATAAAAA
Found at i:14993984 original size:21 final size:19
Alignment explanation
Indices: 14993955--14993995 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
14993945 ATAAAAGCAA
14993955 ATAACAATATATGAAATATAT
1 ATAACAATA-AT-AAATATAT
*
14993976 ATAATAATAATAAATATAT
1 ATAACAATAATAAATATAT
14993995 A
1 A
14993996 GGGCTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 2 0.11
21 8 0.42
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (19 bp):
ATAACAATAATAAATATAT
Found at i:14996070 original size:9 final size:9
Alignment explanation
Indices: 14996056--14996085 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
14996046 TATGTTTGAT
14996056 TTTTTAAAA
1 TTTTTAAAA
*
14996065 TTTTTAAAG
1 TTTTTAAAA
14996074 TTTTTAAAA
1 TTTTTAAAA
14996083 TTT
1 TTT
14996086 ATTATGGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:14997961 original size:18 final size:18
Alignment explanation
Indices: 14997940--14997981 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
14997930 GGAAGAAGAC
* *
14997940 GAAGAATCTGAAGGCGAA
1 GAAGAATCCGAAGGAGAA
*
14997958 GAAGCATCCGAAGGAGAA
1 GAAGAATCCGAAGGAGAA
14997976 GAAGAA
1 GAAGAA
14997982 GCTTCCGAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.48, C:0.12, G:0.33, T:0.07
Consensus pattern (18 bp):
GAAGAATCCGAAGGAGAA
Found at i:15000835 original size:9 final size:9
Alignment explanation
Indices: 15000821--15000850 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
15000811 TATGTTTGAT
15000821 TTTTTAAAA
1 TTTTTAAAA
*
15000830 TTTTTAAAG
1 TTTTTAAAA
15000839 TTTTTAAAA
1 TTTTTAAAA
15000848 TTT
1 TTT
15000851 ATTATGGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:15002726 original size:18 final size:18
Alignment explanation
Indices: 15002705--15002746 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
15002695 GGAAGAAGAC
* *
15002705 GAAGAATCTGAAGGCGAA
1 GAAGAATCCGAAGGAGAA
*
15002723 GAAGCATCCGAAGGAGAA
1 GAAGAATCCGAAGGAGAA
15002741 GAAGAA
1 GAAGAA
15002747 GCTTCCGAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.48, C:0.12, G:0.33, T:0.07
Consensus pattern (18 bp):
GAAGAATCCGAAGGAGAA
Found at i:15006859 original size:11 final size:10
Alignment explanation
Indices: 15006820--15006855 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
15006810 TAATTTTAAT
15006820 TTTTTAATAA
1 TTTTTAATAA
15006830 TTTTT-ATAA
1 TTTTTAATAA
15006839 TTTTTAATAA
1 TTTTTAATAA
15006849 TTTTTAA
1 TTTTTAA
15006856 ATAAAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 9 0.36
10 16 0.64
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:15017633 original size:21 final size:20
Alignment explanation
Indices: 15017589--15017625 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15017579 AATGCCTAGG
*
15017589 CCATGTGGAAGCCTACACCC
1 CCATGTGAAAGCCTACACCC
15017609 CCATGTGAAAG-CTACAC
1 CCATGTGAAAGCCTACAC
15017626 ACGCCCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.30, C:0.35, G:0.19, T:0.16
Consensus pattern (20 bp):
CCATGTGAAAGCCTACACCC
Found at i:15034745 original size:134 final size:133
Alignment explanation
Indices: 15034504--15034897 Score: 477
Period size: 134 Copynumber: 3.0 Consensus size: 133
15034494 AAAATTCTTC
* * * *
15034504 AAAACAAAGACGAGATTTGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGACGA-AATTGATATTTGGCAATTTGCGGAATAGTGCCCTAACGTGTTGGGTTGCAA
* *
15034569 TTTCGCGTTTGCTCAAAATAATTGAATATCACTTCAAAATTTCATTCATGTCTTTTAAAAATTTT
65 TTTCACGTTTGCTCAAAATAATTGAATATCCCTTCAAAATTTCATTCATGTCTTTTAAAAATTTT
15034634 CTCT
130 CTCT
15034638 AAAACGAAGACGAAATTCGATATTTGGCAATTTGCGGAATAGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGACGAAATT-GATATTTGGCAATTTGCGGAATAGTGCCCTAACGTGTTGGGTTGCAA
* * ** ***
15034703 TTTCACGTTTACTCAAAATAATTGAATATCCCTTCAAGATTTCACCCACACCTTTTAAAAA--TT
65 TTTCACGTTTGCTCAAAATAATTGAATATCCCTTCAAAATTTCATTCATGTCTTTTAAAAATTTT
*
15034766 CTTT
130 CTCT
** ** * * *
15034770 AAAACGAAGGTGATGTGTGATATTTGGCAATTTGCAGAATTGTGCCCTAACGTGTTAGGTTGCAA
1 AAAACGAAGACGAAAT-TGATATTTGGCAATTTGCGGAATAGTGCCCTAACGTGTTGGGTTGCAA
* * * * ** * **
15034835 TTTCTCGGTTGCTTAAAATGATCAAATATCCTTTCAAAATTTCATTCATGTCTCCTAAAAATT
65 TTTCACGTTTGCTCAAAATAATTGAATATCCCTTCAAAATTTCATTCATGTCTTTTAAAAATT
15034898 ATTTAAAACG
Statistics
Matches: 219, Mismatches: 37, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
132 106 0.48
133 4 0.02
134 109 0.50
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (133 bp):
AAAACGAAGACGAAATTGATATTTGGCAATTTGCGGAATAGTGCCCTAACGTGTTGGGTTGCAAT
TTCACGTTTGCTCAAAATAATTGAATATCCCTTCAAAATTTCATTCATGTCTTTTAAAAATTTTC
TCT
Found at i:15034894 original size:132 final size:130
Alignment explanation
Indices: 15034493--15034908 Score: 490
Period size: 132 Copynumber: 3.1 Consensus size: 130
15034483 TCATTCATTC
* * * * *
15034493 AAAAATTCTTCAAAACAAAGACGAGATTTGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTG
1 AAAAATTCTTTAAAACGAAGACGA-AATTGATATTTGGCAATTTGCGGAATAGTGCCCTAACGTG
*
15034558 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATTGAATATCACTTCAAAATTTCATTCATGTCTT
65 TTGGGTTGCAATTTCACGTTTGCTCAAAATAATTGAATATC-CTTCAAAATTTCATTCATGTCTT
15034623 TT
129 TT
*
15034625 AAAAATTTTCTCTAAAACGAAGACGAAATTCGATATTTGGCAATTTGCGGAATAGTGCCCTAACG
1 AAAAA--TTCTTTAAAACGAAGACGAAATT-GATATTTGGCAATTTGCGGAATAGTGCCCTAACG
* * ** ***
15034690 TGTTGGGTTGCAATTTCACGTTTACTCAAAATAATTGAATATCCCTTCAAGATTTCACCCACACC
63 TGTTGGGTTGCAATTTCACGTTTGCTCAAAATAATTGAATAT-CCTTCAAAATTTCATTCATGTC
15034755 TTTT
127 TTTT
** ** * *
15034759 AAAAATTCTTTAAAACGAAGGTGATGTGTGATATTTGGCAATTTGCAGAATTGTGCCCTAACGTG
1 AAAAATTCTTTAAAACGAAGACGAAAT-TGATATTTGGCAATTTGCGGAATAGTGCCCTAACGTG
* * * * * ** *
15034824 TTAGGTTGCAATTTCTCGGTTGCTTAAAATGATCAAATATCCTTTCAAAATTTCATTCATGTCTC
65 TTGGGTTGCAATTTCACGTTTGCTCAAAATAATTGAATATCC-TTCAAAATTTCATTCATGTCTT
*
15034889 CT
129 TT
*
15034891 AAAAATTATTTAAAACGA
1 AAAAATTCTTTAAAACGA
15034909 GGGCAACATT
Statistics
Matches: 240, Mismatches: 38, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
131 2 0.01
132 121 0.50
133 4 0.02
134 112 0.47
135 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (130 bp):
AAAAATTCTTTAAAACGAAGACGAAATTGATATTTGGCAATTTGCGGAATAGTGCCCTAACGTGT
TGGGTTGCAATTTCACGTTTGCTCAAAATAATTGAATATCCTTCAAAATTTCATTCATGTCTTTT
Found at i:15035271 original size:130 final size:129
Alignment explanation
Indices: 15035029--15035271 Score: 344
Period size: 130 Copynumber: 1.9 Consensus size: 129
15035019 ATTAAAAACA
* *
15035029 CTTTAAAACGAAGACGATGTTCAATGTTTGGTGATTTGAGAATCGTGCCCTAACGTGCTGGGTCG
1 CTTTAAAACGAAGACAATGTTCAATGTTTGGTGATTTGAGAATCGGGCCCTAACGTGCTGGGTCG
* * * *
15035094 CGCTTTTTCATTGGTCCGAAACAATTGCAGATCCCTTCGGAATTTCACTCACATTTTCTAAAAT
66 CGCTTTTTCATTGGTCCCAAACAATCGAACATCCCTTCGGAATTTCACTCACATTTTCTAAAAT
* *
15035158 CTTTCAAAATGAAGACAATGTTCGATGTTTGGTGATTTGAGAATCGGGCCCTATA-GTGCTGGGT
1 CTTT-AAAACGAAGACAATGTTCAATGTTTGGTGATTTGAGAATCGGGCCCTA-ACGTGCTGGGT
* * * * *
15035222 TGCGCTTTTTCATTTGTCCCAAATAATCGAACATCTCTTCGGGATTTCAC
64 CGCGCTTTTTCATTGGTCCCAAACAATCGAACATCCCTTCGGAATTTCAC
15035272 ACGTATTTTC
Statistics
Matches: 99, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
129 4 0.04
130 94 0.95
131 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (129 bp):
CTTTAAAACGAAGACAATGTTCAATGTTTGGTGATTTGAGAATCGGGCCCTAACGTGCTGGGTCG
CGCTTTTTCATTGGTCCCAAACAATCGAACATCCCTTCGGAATTTCACTCACATTTTCTAAAAT
Found at i:15036704 original size:15 final size:15
Alignment explanation
Indices: 15036686--15036719 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
15036676 TTAGCCCATC
15036686 ATTAATTAGAATTTG
1 ATTAATTAGAATTTG
15036701 ATTAATTAGAATTTG
1 ATTAATTAGAATTTG
15036716 ATTA
1 ATTA
15036720 GAAGAGTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (15 bp):
ATTAATTAGAATTTG
Found at i:15039639 original size:15 final size:14
Alignment explanation
Indices: 15039621--15039651 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
15039611 TTAATTTATT
15039621 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
15039636 TAATAATAATCTAA
1 TAATAATAATCTAA
15039650 TA
1 TA
15039652 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:15039662 original size:21 final size:20
Alignment explanation
Indices: 15039638--15039706 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
15039628 AATGCTAATA
15039638 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
15039659 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
15039678 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
15039699 ATAATAAT
1 ATAATAAT
15039707 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:15047291 original size:14 final size:14
Alignment explanation
Indices: 15047267--15047299 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
15047257 TCCTTGCTTC
15047267 GTTTCTGTTTCTTTT
1 GTTTCTGTTTC-TTT
15047282 GTTT-TGTTTCTTT
1 GTTTCTGTTTCTTT
15047295 GTTTC
1 GTTTC
15047300 CTTAATTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.41
14 6 0.35
15 4 0.24
ACGTcount: A:0.00, C:0.12, G:0.15, T:0.73
Consensus pattern (14 bp):
GTTTCTGTTTCTTT
Found at i:15047632 original size:15 final size:14
Alignment explanation
Indices: 15047614--15047644 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
15047604 TTAATTTATT
15047614 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
15047629 TAATAATAATCTAA
1 TAATAATAATCTAA
15047643 TA
1 TA
15047645 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:15047655 original size:21 final size:20
Alignment explanation
Indices: 15047631--15047699 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
15047621 AATGCTAATA
15047631 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
15047652 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
15047671 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
15047692 ATAATAAT
1 ATAATAAT
15047700 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:15056998 original size:12 final size:13
Alignment explanation
Indices: 15056967--15056998 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
15056957 AGTTACAGTA
15056967 AACTTAACTAACT
1 AACTTAACTAACT
15056980 AAC-TAACTAACT
1 AACTTAACTAACT
15056992 -ACTTAAC
1 AACTTAAC
15056999 CAAAAACCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 13 0.72
13 3 0.17
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (13 bp):
AACTTAACTAACT
Found at i:15058656 original size:19 final size:19
Alignment explanation
Indices: 15058632--15058668 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
15058622 AATTTTGAAA
15058632 AAATTAAATT-AAATTAATC
1 AAATT-AATTAAAATTAATC
15058651 AAATTAATTAAAATTAAT
1 AAATTAATTAAAATTAAT
15058669 ATGATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATTAATTAAAATTAATC
Found at i:15058918 original size:20 final size:21
Alignment explanation
Indices: 15058880--15058920 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
15058870 TGGTCGGAAA
*
15058880 GTCATTGGCCTAGACCAAACC
1 GTCATTGGCCCAGACCAAACC
15058901 GTCATTGGCCCA-ACCAAACC
1 GTCATTGGCCCAGACCAAACC
15058921 AGCAGCTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.29, C:0.37, G:0.17, T:0.17
Consensus pattern (21 bp):
GTCATTGGCCCAGACCAAACC
Found at i:15069016 original size:9 final size:9
Alignment explanation
Indices: 15068991--15069036 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
15068981 TCGAAAAAAA
15068991 AATTCGAGTT
1 AATTCGA-TT
*
15069001 GATTCGATT
1 AATTCGATT
15069010 AATTCGATT
1 AATTCGATT
*
15069019 AACTCGATT
1 AATTCGATT
*
15069028 AACTCGATT
1 AATTCGATT
15069037 CGAATAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.39
Consensus pattern (9 bp):
AATTCGATT
Found at i:15072890 original size:13 final size:13
Alignment explanation
Indices: 15072866--15072916 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
15072856 TTAAACCAAT
*
15072866 TTTTCAAAAGCAC
1 TTTTCCAAAGCAC
*
15072879 TTTTCCATAGCAC
1 TTTTCCAAAGCAC
*
15072892 TTTTCAAAAGCAC
1 TTTTCCAAAGCAC
15072905 TTTTCCAAAGCA
1 TTTTCCAAAGCA
15072917 TTGTCAAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.33, C:0.25, G:0.08, T:0.33
Consensus pattern (13 bp):
TTTTCCAAAGCAC
Found at i:15072895 original size:26 final size:25
Alignment explanation
Indices: 15072866--15072924 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 25
15072856 TTAAACCAAT
*
15072866 TTTTCAAAAGCACTTTTCCATAGCA
1 TTTTCAAAAGCACTTTTCCAAAGCA
15072891 CTTTTCAAAAGCACTTTTCCAAAGCA
1 -TTTTCAAAAGCACTTTTCCAAAGCA
*
15072917 TTGTCAAA
1 TTTTCAAA
15072925 CTTGCCCTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 7 0.23
26 24 0.77
ACGTcount: A:0.34, C:0.24, G:0.08, T:0.34
Consensus pattern (25 bp):
TTTTCAAAAGCACTTTTCCAAAGCA
Found at i:15076483 original size:18 final size:19
Alignment explanation
Indices: 15076449--15076505 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 19
15076439 CTATTTTCAC
15076449 AAATTAAATACATTA-TTA
1 AAATTAAATACATTATTTA
*
15076467 AAATTAAAATAGA-TATTTAA
1 AAATT-AAATACATTATTT-A
15076487 AAATATAAATA-ATTATTTA
1 AAAT-TAAATACATTATTTA
15076506 GCAGACACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
18 7 0.21
19 10 0.30
20 15 0.45
21 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
AAATTAAATACATTATTTA
Found at i:15076503 original size:20 final size:21
Alignment explanation
Indices: 15076449--15076505 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 21
15076439 CTATTTTCAC
15076449 AAAT-TAAATACATTA-TTAA
1 AAATATAAATACATTATTTAA
* *
15076468 AATTA-AAATAGA-TATTTAA
1 AAATATAAATACATTATTTAA
15076487 AAATATAAATA-ATTATTTA
1 AAATATAAATACATTATTTA
15076506 GCAGACACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 2 0.06
19 18 0.58
20 11 0.35
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
AAATATAAATACATTATTTAA
Found at i:15077658 original size:27 final size:26
Alignment explanation
Indices: 15077600--15077667 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 26
15077590 AAAGCTGTTG
15077600 TTTTTTTTACTATTTTCTTTTTTTAT
1 TTTTTTTTACTATTTTCTTTTTTTAT
* * *
15077626 TGTTTTGTTGCTATTTTCTTTTTCT-T
1 T-TTTTTTTACTATTTTCTTTTTTTAT
15077652 TTTTTTTTACTATTTT
1 TTTTTTTTACTATTTT
15077668 GCTACCATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 13 0.36
26 3 0.08
27 20 0.56
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.78
Consensus pattern (26 bp):
TTTTTTTTACTATTTTCTTTTTTTAT
Found at i:15090612 original size:40 final size:40
Alignment explanation
Indices: 15090540--15090618 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
15090530 GAATAAAATG
* * *
15090540 ATTTTTATATCATTCAAGCATTAATTGTTAAGAAACTATT
1 ATTTTTACACCATTCAAGCATTAATTGATAAGAAACTATT
*
15090580 ATTTTTACACCATT-AAGACATTCATTGATAAGAAACTAT
1 ATTTTTACACCATTCAAG-CATTAATTGATAAGAAACTAT
15090619 AACTTTAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.09
40 31 0.91
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.41
Consensus pattern (40 bp):
ATTTTTACACCATTCAAGCATTAATTGATAAGAAACTATT
Found at i:15096242 original size:15 final size:14
Alignment explanation
Indices: 15096205--15096286 Score: 64
Period size: 15 Copynumber: 5.7 Consensus size: 14
15096195 AATTTATATT
15096205 TTAAATATTATTAAA
1 TTAAATATTA-TAAA
15096220 TTATAATATTATAAA
1 TTA-AATATTATAAA
*
15096235 GTTAAATATTATATA
1 -TTAAATATTATAAA
*
15096250 TTATATATT-TGAAA
1 TTAAATATTAT-AAA
15096264 -TAAAT-TTCAT-AA
1 TTAAATATT-ATAAA
15096276 TATAAATATTA
1 T-TAAATATTA
15096287 CATTAAAGAT
Statistics
Matches: 55, Mismatches: 4, Indels: 17
0.72 0.05 0.22
Matches are distributed among these distances:
12 4 0.07
13 5 0.09
14 17 0.31
15 19 0.35
16 10 0.18
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.46
Consensus pattern (14 bp):
TTAAATATTATAAA
Found at i:15096252 original size:7 final size:7
Alignment explanation
Indices: 15096198--15096258 Score: 50
Period size: 7 Copynumber: 8.3 Consensus size: 7
15096188 AATATATAAT
*
15096198 TTATATT
1 TTATATA
*
15096205 TTAAATA
1 TTATATA
*
15096212 TTATTAAA
1 TTA-TATA
15096220 TTATAATA
1 TTAT-ATA
*
15096228 TTATAAA
1 TTATATA
*
15096235 GTTAAATA
1 -TTATATA
15096243 TTATATA
1 TTATATA
15096250 TTATATA
1 TTATATA
15096257 TT
1 TT
15096259 TGAAATAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
7 26 0.62
8 16 0.38
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (7 bp):
TTATATA
Found at i:15098829 original size:28 final size:30
Alignment explanation
Indices: 15098796--15098852 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 30
15098786 TAAATTTTGA
*
15098796 GTTGGAGTTATTTCGAA-TATG-AATTTTC
1 GTTGGAATTATTTCGAATTATGTAATTTTC
*
15098824 GTTGGAATTATTTTGAATTATGTAATTTT
1 GTTGGAATTATTTCGAATTATGTAATTTT
15098853 AGATCTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 15 0.60
29 4 0.16
30 6 0.24
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (30 bp):
GTTGGAATTATTTCGAATTATGTAATTTTC
Found at i:15099870 original size:17 final size:17
Alignment explanation
Indices: 15099828--15099870 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
15099818 ATGGACAAAT
15099828 AATTTAAAAATATAAAA
1 AATTTAAAAATATAAAA
* *
15099845 TATTCAAAAATA-AAAA
1 AATTTAAAAATATAAAA
15099861 AATTATAAAA
1 AATT-TAAAA
15099871 TTCAAAAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (17 bp):
AATTTAAAAATATAAAA
Found at i:15102081 original size:5 final size:5
Alignment explanation
Indices: 15102073--15102115 Score: 50
Period size: 5 Copynumber: 8.2 Consensus size: 5
15102063 AAAAAAATGA
* *
15102073 AAAAG AAAAG AAAAG AAACG AAGAG AAAAG AAGAAG AAGAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA-AAG AA-AAG A
15102116 TACAAATCGA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
5 23 0.70
6 10 0.30
ACGTcount: A:0.72, C:0.02, G:0.26, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:15105462 original size:6 final size:6
Alignment explanation
Indices: 15105445--15105499 Score: 92
Period size: 6 Copynumber: 9.2 Consensus size: 6
15105435 CTATTCACTC
* *
15105445 GGGTCA GCGTCA GGGTCA GGGTCA GGGTCA GGGTCA GGGGCA GGGTCA
1 GGGTCA GGGTCA GGGTCA GGGTCA GGGTCA GGGTCA GGGTCA GGGTCA
15105493 GGGTCA G
1 GGGTCA G
15105500 TAAAAGTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.16, C:0.18, G:0.51, T:0.15
Consensus pattern (6 bp):
GGGTCA
Found at i:15109108 original size:51 final size:49
Alignment explanation
Indices: 15109040--15109175 Score: 173
Period size: 49 Copynumber: 2.7 Consensus size: 49
15109030 TGTGAGGTCG
*
15109040 CATGTGAAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAA-T-TGATCA
* * * * * * *
15109091 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAATTGATCA
*
15109140 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACC
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
15109176 AGATAGCTTT
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
49 36 0.49
50 1 0.01
51 36 0.49
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAATTGATCA
Found at i:15109165 original size:49 final size:51
Alignment explanation
Indices: 15109035--15109175 Score: 178
Period size: 51 Copynumber: 2.8 Consensus size: 51
15109025 TCTATTGTGA
* *
15109035 GGTCGCATGTGAAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGT
* * * * * *
15109086 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-T
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGT
* *
15109135 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
15109176 AGATAGCTTT
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
49 36 0.47
50 1 0.01
51 39 0.51
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (51 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGT
Found at i:15111019 original size:18 final size:18
Alignment explanation
Indices: 15110995--15111074 Score: 115
Period size: 18 Copynumber: 4.4 Consensus size: 18
15110985 TATCAATATC
15110995 ATTCAGTAACAATCAATT
1 ATTCAGTAACAATCAATT
* * *
15111013 TTTCAGTAGCAATCAGTT
1 ATTCAGTAACAATCAATT
15111031 ATTCAGTAACAATCAATT
1 ATTCAGTAACAATCAATT
* *
15111049 ATTCAGTAGCAATCAGTT
1 ATTCAGTAACAATCAATT
15111067 ATTCAGTA
1 ATTCAGTA
15111075 CCTTTATTCA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 54 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (18 bp):
ATTCAGTAACAATCAATT
Found at i:15111035 original size:36 final size:36
Alignment explanation
Indices: 15110995--15111074 Score: 151
Period size: 36 Copynumber: 2.2 Consensus size: 36
15110985 TATCAATATC
*
15110995 ATTCAGTAACAATCAATTTTTCAGTAGCAATCAGTT
1 ATTCAGTAACAATCAATTATTCAGTAGCAATCAGTT
15111031 ATTCAGTAACAATCAATTATTCAGTAGCAATCAGTT
1 ATTCAGTAACAATCAATTATTCAGTAGCAATCAGTT
15111067 ATTCAGTA
1 ATTCAGTA
15111075 CCTTTATTCA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (36 bp):
ATTCAGTAACAATCAATTATTCAGTAGCAATCAGTT
Found at i:15111285 original size:43 final size:43
Alignment explanation
Indices: 15111235--15111317 Score: 132
Period size: 43 Copynumber: 1.9 Consensus size: 43
15111225 ACAGTAGCAG
*
15111235 TACGACACATATGGTGCCTCATCGACTTGAA-GTCGAAGTACAA
1 TACGACACATATAGTGCCTCATCGACTT-AAGGTCGAAGTACAA
*
15111278 TACGACACTTATAGTGCCTCATCGACTTAAGGTCGAAGTA
1 TACGACACATATAGTGCCTCATCGACTTAAGGTCGAAGTA
15111318 TCCCTAAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 2 0.05
43 35 0.95
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (43 bp):
TACGACACATATAGTGCCTCATCGACTTAAGGTCGAAGTACAA
Found at i:15112043 original size:12 final size:11
Alignment explanation
Indices: 15112003--15112043 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
15111993 TTAATATTTA
15112003 AATTTCTTATTC
1 AATTTC-TATTC
15112015 AATTTCTATTC
1 AATTTCTATTC
*
15112026 AATTTCTACTTT
1 AATTTCTA-TTC
15112038 AATTTC
1 AATTTC
15112044 AATTTTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 13 0.48
12 14 0.52
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTTCTATTC
Found at i:15112713 original size:22 final size:22
Alignment explanation
Indices: 15112701--15112747 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 22
15112691 TTTATTTTAT
15112701 AATATAATATAATATAATTTAA
1 AATATAATATAATATAATTTAA
15112723 AATATGATATAATAATATAATTTAA
1 AATAT-A-AT-ATAATATAATTTAA
15112748 TATTTAACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.23
23 1 0.05
24 2 0.09
25 14 0.64
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AATATAATATAATATAATTTAA
Found at i:15116558 original size:89 final size:88
Alignment explanation
Indices: 15116383--15116573 Score: 228
Period size: 89 Copynumber: 2.1 Consensus size: 88
15116373 CTTAAGGGTG
* * *
15116383 TAAAAAA-CCCTTAAAACTTTTTCAAAAAAAGTAATTAAGCCTTGCTCTTTTTTTTTCACTTCAT
1 TAAAAAAGCCC-TAAAACTCTTTCAAAAAAAGCAATTAAGCC-TCCTCTTTTTTTTTCACTTCAT
** *
15116447 TGGGTACTTGAACTTTCAAAATGCA
64 TGAATACTTGAACTGTCAAAATGCA
*
15116472 TAAAAAAGCCCTCAAACTCTTTCAAAAAAAAGCAATTAAGCC-CCTACTTTTTTTTTGCAC-TCA
1 TAAAAAAGCCCTAAAACTCTTTC-AAAAAAAGCAATTAAGCCTCCT-CTTTTTTTTT-CACTTC-
15116535 ATTGAATACTTGAACTGTC-AAATGCA
62 ATTGAATACTTGAACTGTCAAAATGCA
15116561 TAAAAAAGACCCT
1 TAAAAAAG-CCCT
15116574 TTGATCGTTA
Statistics
Matches: 89, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
88 2 0.02
89 44 0.49
90 43 0.48
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (88 bp):
TAAAAAAGCCCTAAAACTCTTTCAAAAAAAGCAATTAAGCCTCCTCTTTTTTTTTCACTTCATTG
AATACTTGAACTGTCAAAATGCA
Found at i:15116707 original size:17 final size:17
Alignment explanation
Indices: 15116671--15116715 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 17
15116661 GACATGTGAC
15116671 AAAAA-TAATAAAAAAT
1 AAAAATTAATAAAAAAT
15116687 -AAAATTAATAAAAAAT
1 AAAAATTAATAAAAAAT
*
15116703 AAAAATTATTAAA
1 AAAAATTAATAAA
15116716 TTTTAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 4 0.15
16 11 0.42
17 11 0.42
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAATTAATAAAAAAT
Found at i:15116744 original size:9 final size:9
Alignment explanation
Indices: 15116671--15116754 Score: 54
Period size: 10 Copynumber: 9.6 Consensus size: 9
15116661 GACATGTGAC
*
15116671 AAAAATAAT
1 AAAAATTAT
15116680 AAAAA--AT
1 AAAAATTAT
15116687 -AAAATTAAT
1 AAAAATT-AT
15116696 AAAAA--AT
1 AAAAATTAT
15116703 AAAAATTATT
1 AAAAATTA-T
**
15116713 AAATTTTAAT
1 AAAAATT-AT
15116723 AAAAA-TAT
1 AAAAATTAT
*
15116731 AAAAATATTT
1 AAAAAT-TAT
15116741 AAAAATTAT
1 AAAAATTAT
15116750 AAAAA
1 AAAAA
15116755 CTGTAAAAGA
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
6 4 0.07
7 9 0.15
8 7 0.12
9 16 0.27
10 22 0.37
11 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:15116751 original size:27 final size:27
Alignment explanation
Indices: 15116687--15116754 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
15116677 AATAAAAAAT
15116687 AAAATTAATAAAAAATAAAAATTATTA
1 AAAATTAATAAAAAATAAAAATTATTA
**
15116714 AATTTTAATAAAAATATAAAAA-TATTTA
1 AAAATTAATAAAAA-ATAAAAATTA-TTA
15116742 AAAATT-ATAAAAA
1 AAAATTAATAAAAA
15116755 CTGTAAAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
27 21 0.60
28 14 0.40
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (27 bp):
AAAATTAATAAAAAATAAAAATTATTA
Found at i:15116884 original size:40 final size:41
Alignment explanation
Indices: 15116818--15116907 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 41
15116808 AAAAGATATA
** * *
15116818 TATATAAAAAATGTAAAATTTTAT-AAAGTCGT-AAGAAAAT
1 TATA-AAAAAATGTAAAAAATCATAAAAGTCGTAAAAAAAAT
*
15116858 TATAAAAAAATGTAAAACAATCATAAAATTCGTAAAAAAAAT
1 TATAAAAAAATGTAAAA-AATCATAAAAGTCGTAAAAAAAAT
15116900 TATAAAAA
1 TATAAAAA
15116908 TTATTGTACC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 13 0.31
40 7 0.17
41 7 0.17
42 15 0.36
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (41 bp):
TATAAAAAAATGTAAAAAATCATAAAAGTCGTAAAAAAAAT
Found at i:15117161 original size:15 final size:16
Alignment explanation
Indices: 15117117--15117176 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 16
15117107 AAAAAAATAC
*
15117117 ATTTTTTATATTTTTT
1 ATTTTTAATATTTTTT
*
15117133 ATGATTT-ATA-TTTTT
1 AT-TTTTAATATTTTTT
*
15117148 -TTTCTAAT-TTTTTT
1 ATTTTTAATATTTTTT
15117162 ATTTTTAATATTTTT
1 ATTTTTAATATTTTT
15117177 ATTAAAGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
13 2 0.06
14 8 0.23
15 12 0.34
16 10 0.29
17 3 0.09
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (16 bp):
ATTTTTAATATTTTTT
Found at i:15117206 original size:19 final size:19
Alignment explanation
Indices: 15117164--15117217 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
15117154 ATTTTTTTAT
15117164 TTTTAATATTTTTATTAAAG
1 TTTTAATATTTTTA-TAAAG
15117184 -TTTAATAATTTTTAT-AAG
1 TTTTAAT-ATTTTTATAAAG
*
15117202 TTTTATTGATTTTTAT
1 TTTTAAT-ATTTTTAT
15117218 TTTTTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 3 0.10
19 20 0.67
20 7 0.23
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (19 bp):
TTTTAATATTTTTATAAAG
Found at i:15117230 original size:9 final size:9
Alignment explanation
Indices: 15117119--15117231 Score: 63
Period size: 9 Copynumber: 12.6 Consensus size: 9
15117109 AAAAATACAT
*
15117119 TTTTTATAT
1 TTTTTATAA
*
15117128 TTTTTATGA
1 TTTTTATAA
* **
15117137 TTTATATTT
1 TTTTTATAA
*
15117146 TTTTTCTAA
1 TTTTTATAA
*
15117155 TTTTT-TTA
1 TTTTTATAA
15117163 TTTTTA-ATA
1 TTTTTATA-A
15117172 TTTTTATTAAA
1 TTTTTA-T-AA
* *
15117183 GTTTAATAA
1 TTTTTATAA
15117192 TTTTTATAA
1 TTTTTATAA
* *
15117201 GTTTTATTGA
1 TTTTTA-TAA
15117211 TTTTTAT--
1 TTTTTATAA
15117218 TTTTTATAA
1 TTTTTATAA
15117227 TTTTT
1 TTTTT
15117232 CGCCACATGT
Statistics
Matches: 78, Mismatches: 18, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
7 7 0.09
8 7 0.09
9 50 0.64
10 8 0.10
11 5 0.06
12 1 0.01
ACGTcount: A:0.26, C:0.01, G:0.04, T:0.70
Consensus pattern (9 bp):
TTTTTATAA
Found at i:15120238 original size:46 final size:46
Alignment explanation
Indices: 15120171--15120263 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
15120161 GGTAATTCCT
15120171 CAGGAAACACTTTTGGATACTCACAAACTACAGGCACAGTCTCGAG
1 CAGGAAACACTTTTGGATACTCACAAACTACAGGCACAGTCTCGAG
15120217 CAGGAAACACTTTTGGATACTCACAAACTACAGGCACAGTCTCGAG
1 CAGGAAACACTTTTGGATACTCACAAACTACAGGCACAGTCTCGAG
15120263 C
1 C
15120264 TTTCATTCCG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.19
Consensus pattern (46 bp):
CAGGAAACACTTTTGGATACTCACAAACTACAGGCACAGTCTCGAG
Found at i:15123039 original size:24 final size:24
Alignment explanation
Indices: 15123012--15123100 Score: 97
Period size: 24 Copynumber: 3.7 Consensus size: 24
15123002 GCAGCGTTTC
*
15123012 CTCGCACACATAGTGCTATATAAT
1 CTCGCACACATAGTGCCATATAAT
* *
15123036 CTCGCACACATAGTGCCATGTAGTT
1 CTCGCACACATAGTGCCATATA-AT
* * ** *
15123061 TTTGCACACATAGTGCCGCATAAC
1 CTCGCACACATAGTGCCATATAAT
15123085 CTCGCACACATAGTGC
1 CTCGCACACATAGTGC
15123101 TGAAATTTCT
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
24 34 0.65
25 18 0.35
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (24 bp):
CTCGCACACATAGTGCCATATAAT
Found at i:15126738 original size:41 final size:42
Alignment explanation
Indices: 15126681--15126771 Score: 114
Period size: 41 Copynumber: 2.2 Consensus size: 42
15126671 GTATGGTCTG
*
15126681 TGCACTGGGTCGGGTCCAAATCTGCTAACCA-AGC-TTAACCC
1 TGCACTGGGTCGGGTCCAAATCTGCCAACCATA-CTTTAACCC
* * * *
15126722 TGCACTGGGTTGGGTCCGAGTCTGCCAACCATACTTTAACCT
1 TGCACTGGGTCGGGTCCAAATCTGCCAACCATACTTTAACCC
15126764 TGCACTGG
1 TGCACTGG
15126772 ATTATGTCGA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
41 28 0.65
42 15 0.35
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.25
Consensus pattern (42 bp):
TGCACTGGGTCGGGTCCAAATCTGCCAACCATACTTTAACCC
Found at i:15141876 original size:40 final size:40
Alignment explanation
Indices: 15141821--15141896 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
15141811 TATTGAAACC
15141821 TACAATTTTTTTATCAAATCAGCAACATTGTAGTTAGGCA
1 TACAATTTTTTTATCAAATCAGCAACATTGTAGTTAGGCA
*
15141861 TACAATTTTTTTATCAAATCAGCAACGTTGTAGTTA
1 TACAATTTTTTTATCAAATCAGCAACATTGTAGTTA
15141897 ATTATCTAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.39
Consensus pattern (40 bp):
TACAATTTTTTTATCAAATCAGCAACATTGTAGTTAGGCA
Found at i:15145027 original size:20 final size:19
Alignment explanation
Indices: 15144998--15145039 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
15144988 TTGTAATTAG
15144998 TATAAGTAATTATTATTA-AA
1 TATAAGTAA-TATT-TTATAA
*
15145018 TATAATTAATATTTTATAA
1 TATAAGTAATATTTTATAA
15145037 TAT
1 TAT
15145040 TTTCCAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 3 0.15
19 9 0.45
20 8 0.40
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
TATAAGTAATATTTTATAA
Found at i:15146008 original size:70 final size:71
Alignment explanation
Indices: 15145879--15146028 Score: 221
Period size: 74 Copynumber: 2.1 Consensus size: 71
15145869 GTACAGACTA
* * * *
15145879 GTTTTTAAATTATTATTTATTTATTTATTTTAATATGTTGAAAATTTTCTTTTTCAAAATAAAAA
1 GTTTTTAAAATATTATTTATTTATTAATTTTAATATATTG---ATTTTCATTTTCAAAATAAAAA
15145944 CCTTTAATG
63 CCTTTAATG
*
15145953 GTTTTTAAAATATTATTTATTTATTAATTTTAATATATTG-TTTTCATTTTCAAAATAAAAACTT
1 GTTTTTAAAATATTATTTATTTATTAATTTTAATATATTGATTTTCATTTTCAAAATAAAAACCT
15146017 TTAATG
66 TTAATG
15146023 GTTTTT
1 GTTTTT
15146029 CAAACACTCC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
70 34 0.48
74 37 0.52
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (71 bp):
GTTTTTAAAATATTATTTATTTATTAATTTTAATATATTGATTTTCATTTTCAAAATAAAAACCT
TTAATG
Found at i:15146454 original size:33 final size:33
Alignment explanation
Indices: 15146412--15146475 Score: 112
Period size: 33 Copynumber: 1.9 Consensus size: 33
15146402 TTTACAAAAA
15146412 AAATTTCACAAATAAGATCA-AAGGTTTAACACC
1 AAATTTCACAAATAAGATCAGAA-GTTTAACACC
15146445 AAATTTCACAAATAAGATCAGAAGTTTAACA
1 AAATTTCACAAATAAGATCAGAAGTTTAACA
15146476 AGTGTCTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.50, C:0.16, G:0.09, T:0.25
Consensus pattern (33 bp):
AAATTTCACAAATAAGATCAGAAGTTTAACACC
Found at i:15151003 original size:19 final size:20
Alignment explanation
Indices: 15150967--15151005 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
15150957 TTCTTGAAAT
*
15150967 AATTCTAAAAAAGTTTTAATA
1 AATTATAAAAAAG-TTTAATA
15150988 AATTATAAAAAA-TTTAAT
1 AATTATAAAAAAGTTTAAT
15151006 CAAAGGTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
AATTATAAAAAAGTTTAATA
Found at i:15151114 original size:20 final size:20
Alignment explanation
Indices: 15151074--15151114 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
15151064 AAGATCGAAC
*
15151074 ACATAAATTTTACGTGGAAA
1 ACATAAATTTTACGTGAAAA
15151094 ACATAAATTTTACGTGAAAA
1 ACATAAATTTTACGTGAAAA
15151114 A
1 A
15151115 ACTCCTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (20 bp):
ACATAAATTTTACGTGAAAA
Found at i:15151836 original size:13 final size:14
Alignment explanation
Indices: 15151820--15151850 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
15151810 AAGAAAGGAA
15151820 ATAAACAATT-TTT
1 ATAAACAATTGTTT
15151833 ATAAACAATTGTTT
1 ATAAACAATTGTTT
15151847 ATAA
1 ATAA
15151851 TAATTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (14 bp):
ATAAACAATTGTTT
Found at i:15151889 original size:14 final size:15
Alignment explanation
Indices: 15151868--15151907 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
15151858 TTAGAATCTC
*
15151868 TATAATTTTTTTATT
1 TATAATTTTATTATT
15151883 T-TAA-TTTATTATT
1 TATAATTTTATTATT
15151896 TATAA-TTTATTA
1 TATAATTTTATTA
15151908 AAAATTGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 9 0.39
14 13 0.57
15 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TATAATTTTATTATT
Found at i:15155100 original size:7 final size:7
Alignment explanation
Indices: 15155066--15155103 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
15155056 TTGTACTTGT
*
15155066 GGTTTAA
1 GGTTTAG
15155073 GGTTTAG
1 GGTTTAG
*
15155080 GATTTAG
1 GGTTTAG
15155087 GGTTTAG
1 GGTTTAG
15155094 GGTTTAG
1 GGTTTAG
15155101 GGT
1 GGT
15155104 CTCAAGTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.42
Consensus pattern (7 bp):
GGTTTAG
Found at i:15155160 original size:15 final size:15
Alignment explanation
Indices: 15155140--15155171 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15155130 TTTAATTTAG
15155140 AAGATAAATATAAAT
1 AAGATAAATATAAAT
*
15155155 AAGATAAATATATAT
1 AAGATAAATATAAAT
15155170 AA
1 AA
15155172 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAGATAAATATAAAT
Found at i:15157592 original size:39 final size:39
Alignment explanation
Indices: 15157549--15157624 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
15157539 AGGTAGAGAA
*
15157549 CTTAAATTTGTTATTTTGCATGATTATTTGAGATCTGTT
1 CTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGTT
15157588 CTTAAATTTGTTATTCTGCATGATTATTTGAGATCTG
1 CTTAAATTTGTTATTCTGCATGATTATTTGAGATCTG
15157625 CTTTTGTCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.24, C:0.09, G:0.16, T:0.51
Consensus pattern (39 bp):
CTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGTT
Found at i:15159800 original size:26 final size:26
Alignment explanation
Indices: 15159771--15159874 Score: 181
Period size: 26 Copynumber: 4.0 Consensus size: 26
15159761 ATTCCCATCT
*
15159771 TGGAACATTTACCTAAACCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
15159797 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
* *
15159823 TGGAATATTTACCTAATCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
15159849 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
15159875 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
TGGAACATTTACCTAACCCATTATCA
Found at i:15162038 original size:65 final size:65
Alignment explanation
Indices: 15161934--15162067 Score: 259
Period size: 65 Copynumber: 2.1 Consensus size: 65
15161924 TCTTGAGCAG
*
15161934 ACCATTGGATCTGAAGTCTTGTTTATGTTAAAAGATATCAACTTCAGTTATGGGAAGATGAATCA
1 ACCATTGGATCTGAAATCTTGTTTATGTTAAAAGATATCAACTTCAGTTATGGGAAGATGAATCA
15161999 ACCATTGGATCTGAAATCTTGTTTATGTTAAAAGATATCAACTTCAGTTATGGGAAGATGAATCA
1 ACCATTGGATCTGAAATCTTGTTTATGTTAAAAGATATCAACTTCAGTTATGGGAAGATGAATCA
15162064 ACCA
1 ACCA
15162068 CCTAACGCAC
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 68 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (65 bp):
ACCATTGGATCTGAAATCTTGTTTATGTTAAAAGATATCAACTTCAGTTATGGGAAGATGAATCA
Found at i:15170547 original size:25 final size:25
Alignment explanation
Indices: 15170513--15170563 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
15170503 TTCCTTATAA
**
15170513 ACTTTAAATTAGAAATTCTATTAGG
1 ACTTTAAATTAGAAATTAGATTAGG
*
15170538 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGAAATTAGATTAGG
15170563 A
1 A
15170564 TTTTCCTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGAAATTAGATTAGG
Found at i:15172162 original size:486 final size:487
Alignment explanation
Indices: 15171230--15172198 Score: 1904
Period size: 486 Copynumber: 2.0 Consensus size: 487
15171220 TTGGGCCACC
*
15171230 TATGAGTAATAACCCCTTGGGGGAACTTGCAAACTTGAGACAAACTGGGACGGTAGAAGAATATC
1 TATGAGTAATAACCCCTTGGAGGAACTTGCAAACTTGAGACAAACTGGGACGGTAGAAGAATATC
*
15171295 AACGTCAATTTCAATCACTACTGGCTAGGACTACTGATCTTAAACCTCGACAACAAGTAAACCTT
66 AACATCAATTTCAATCACTACTGGCTAGGACTACTGATCTTAAACCTCGACAACAAGTAAACCTT
15171360 TTTACTGCCGGATTAGTAGAGGAACTTAGAATTGATATCGAGATGCAACAACCGGGAAACCTTGG
131 TTTACTGCCGGATTAGTAGAGGAACTTAGAATTGATATCGAGATGCAACAACCGGGAAACCTTGG
15171425 AGTTGCAATGAATATGGCTCGAGCTTTGGAACGGAAACAAAAAGTCTCTTCCAAGATGTTATCTC
196 AGTTGCAATGAATATGGCTCGAGCTTTGGAACGGAAACAAAAAGTCTCTTCCAAGATGTTATCTC
15171490 AAACCAATCTAAACTGGTCAGCTTCCCAAAACACTGGCAGCAATTCCATTATTCCAACAACTAAG
261 AAACCAATCTAAACTGGTCAGCTTCCCAAAACACTGGCAGCAATTCCATTATTCCAACAACTAAG
15171555 AGCTTTGCAAAGGGAGGAGGACAAACAACGAAACCAATGGGGAATAACAGCAAAATAGGTTCTTC
326 AGCTTTGCAAAGGGAGGAGGACAAACAACGAAACCAATGGGGAATAACAGCAAAATAGGTTCTTC
15171620 CGCACCATTTATCAAAAGATTGACACGAGCAGAGATGGCGAAGAGAAGGGCTAAGGGATTGTGTT
391 CGCACCATTTATCAAAAGATTGACACGAGCAGAGATGGCGAAGAGAAGGGCTAAGGGATTGTGTT
15171685 ATAATTGTGACGAGTCTTACTCCATGGGACAT
456 ATAATTGTGACGAGTCTTACTCCATGGGACAT
15171717 TATGAGTAATAACCCCTT-GAGGAACTTGCAAACTTGAGACAAACTGGGACGGTAGAAGAATATC
1 TATGAGTAATAACCCCTTGGAGGAACTTGCAAACTTGAGACAAACTGGGACGGTAGAAGAATATC
*
15171781 AACATCAATTTCAATCATTACTGGCTAGGACTACTGATCTTAAACCTCGACAACAAGTAAACCTT
66 AACATCAATTTCAATCACTACTGGCTAGGACTACTGATCTTAAACCTCGACAACAAGTAAACCTT
15171846 TTTACTGCCGGATTAGTAGAGGAACTTAGAATTGATATCGAGATGCAACAACCGGGAAACCTTGG
131 TTTACTGCCGGATTAGTAGAGGAACTTAGAATTGATATCGAGATGCAACAACCGGGAAACCTTGG
15171911 AGTTGCAATGAATATGGCTCGAGCTTTGGAACGGAAACAAAAAGTCTCTTCCAAGATGTTATCTC
196 AGTTGCAATGAATATGGCTCGAGCTTTGGAACGGAAACAAAAAGTCTCTTCCAAGATGTTATCTC
15171976 AAACCAATCTAAACTGGTCAGCTTCCCAAAACACTGGCAGCAATTCCATTATTCCAACAACTAAG
261 AAACCAATCTAAACTGGTCAGCTTCCCAAAACACTGGCAGCAATTCCATTATTCCAACAACTAAG
15172041 AGCTTTGCAAAGGGAGGAGGACAAACAACGAAACCAATGGGGAATAACAGCAAAATAGGTTCTTC
326 AGCTTTGCAAAGGGAGGAGGACAAACAACGAAACCAATGGGGAATAACAGCAAAATAGGTTCTTC
15172106 CGCACCATTTATCAAAAGATTGACACGAGCAGAGATGGCGAAGAGAAGGGCTAAGGGATTGTGTT
391 CGCACCATTTATCAAAAGATTGACACGAGCAGAGATGGCGAAGAGAAGGGCTAAGGGATTGTGTT
15172171 ATAATTGTGACGAGTCTTACTCCATGGG
456 ATAATTGTGACGAGTCTTACTCCATGGG
15172199 GCACAAATGT
Statistics
Matches: 479, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
486 461 0.96
487 18 0.04
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (487 bp):
TATGAGTAATAACCCCTTGGAGGAACTTGCAAACTTGAGACAAACTGGGACGGTAGAAGAATATC
AACATCAATTTCAATCACTACTGGCTAGGACTACTGATCTTAAACCTCGACAACAAGTAAACCTT
TTTACTGCCGGATTAGTAGAGGAACTTAGAATTGATATCGAGATGCAACAACCGGGAAACCTTGG
AGTTGCAATGAATATGGCTCGAGCTTTGGAACGGAAACAAAAAGTCTCTTCCAAGATGTTATCTC
AAACCAATCTAAACTGGTCAGCTTCCCAAAACACTGGCAGCAATTCCATTATTCCAACAACTAAG
AGCTTTGCAAAGGGAGGAGGACAAACAACGAAACCAATGGGGAATAACAGCAAAATAGGTTCTTC
CGCACCATTTATCAAAAGATTGACACGAGCAGAGATGGCGAAGAGAAGGGCTAAGGGATTGTGTT
ATAATTGTGACGAGTCTTACTCCATGGGACAT
Found at i:15172904 original size:514 final size:514
Alignment explanation
Indices: 15171921--15172949 Score: 1959
Period size: 514 Copynumber: 2.0 Consensus size: 514
15171911 AGTTGCAATG
*
15171921 AATATGGCTCGAGCTTTGGAACGGAAACAAAAAGTCTCTTCCAAGATGTTATCTCAAACCAATCT
1 AATATGGCTCGAGCTTTGGAACGGAAACAAAAAGTCTCTTCCAAGATGTTATCTCAAACCAATAT
15171986 AAACTGGTCAGCTTCCCAAAACACTGGCAGCAATTCCATTATTCCAACAACTAAGAGCTTTGCAA
66 AAACTGGTCAGCTTCCCAAAACACTGGCAGCAATTCCATTATTCCAACAACTAAGAGCTTTGCAA
*
15172051 AGGGAGGAGGACAAACAACGAAACCAATGGGGAATAACAGCAAAATAGGTTCTTCCGCACCATTT
131 AGGGAGGAGGACAAACAACGAAACCAATGGGGAATAACAACAAAATAGGTTCTTCCGCACCATTT
15172116 ATCAAAAGATTGACACGAGCAGAGATGGCGAAGAGAAGGGCTAAGGGATTGTGTTATAATTGTGA
196 ATCAAAAGATTGACACGAGCAGAGATGGCGAAGAGAAGGGCTAAGGGATTGTGTTATAATTGTGA
* *
15172181 CGAGTCTTACTCCATGGGGCACAAATGTAAAAGGCTATTTTGGATAGAAGTACCAGATATTGAAG
261 CGAGTCTTACTCCATGGGACACAAATGTAAAAGGCTATTTTGGATAGAAGTACCAGATATTAAAG
15172246 ATGAGCAAGATGATGAGGTAGATGATCTTGAAATTTCCTTACATGCCATTAGAGGAACTTGCAAT
326 ATGAGCAAGATGATGAGGTAGATGATCTTGAAATTTCCTTACATGCCATTAGAGGAACTTGCAAT
15172311 TCATCTACTATGCAACTACCAGCAAAGGTGTCAGGAAAAACAGTGTTAGTTCTCGTTAATTCAAG
391 TCATCTACTATGCAACTACCAGCAAAGGTGTCAGGAAAAACAGTGTTAGTTCTCGTTAATTCAAG
*
15172376 CAGTATACATAACTTTCTACGCGAAGGTCTAGTGCCAAGATTGGGACTGAAAATACAAA
456 CAGTACACATAACTTTCTACGCGAAGGTCTAGTGCCAAGATTGGGACTGAAAATACAAA
*
15172435 AATATGGCTCGAGCTTTGGAATGGAAACAAAAAGTCTCTTCCAAGATGTTATCTCAAACCAATAT
1 AATATGGCTCGAGCTTTGGAACGGAAACAAAAAGTCTCTTCCAAGATGTTATCTCAAACCAATAT
15172500 AAACTGGTCAGCTTCCCAAAACACTGGCAGCAATTCCATTATTCCAACAACTAAGAGCTTTGCAA
66 AAACTGGTCAGCTTCCCAAAACACTGGCAGCAATTCCATTATTCCAACAACTAAGAGCTTTGCAA
15172565 AGGGAGGAGGACAAACAACGAAACCAATGGGGAATAACAACAAAATAGGTTCTTCCGCACCATTT
131 AGGGAGGAGGACAAACAACGAAACCAATGGGGAATAACAACAAAATAGGTTCTTCCGCACCATTT
*
15172630 ATCAAAAGATTGACACGAGCAGAGATGGCGGAGAGAAGGGCTAAGGGATTGTGTTATAATTGTGA
196 ATCAAAAGATTGACACGAGCAGAGATGGCGAAGAGAAGGGCTAAGGGATTGTGTTATAATTGTGA
15172695 CGAGTCTTACTCCATGGGACACAAATGTAAAAGGCTATTTTGGATAGAAGTACCAGATATTAAAG
261 CGAGTCTTACTCCATGGGACACAAATGTAAAAGGCTATTTTGGATAGAAGTACCAGATATTAAAG
15172760 ATGAGCAAGATGATGAGGTAGATGATCTTGAAATTTCCTTACATGCCATTAGAGGAACTTGCAAT
326 ATGAGCAAGATGATGAGGTAGATGATCTTGAAATTTCCTTACATGCCATTAGAGGAACTTGCAAT
* * *
15172825 TCATCTACTATGTAACTACCAGCAAAGGTGTCAGGAAAAACAGTGTTAGTTCTCGTTGATTCAGG
391 TCATCTACTATGCAACTACCAGCAAAGGTGTCAGGAAAAACAGTGTTAGTTCTCGTTAATTCAAG
*
15172890 CAGTACATATAACTTTCTACGCGAAGGTCTAGTGCCAAGATTGGGACTGAAAATACAAA
456 CAGTACACATAACTTTCTACGCGAAGGTCTAGTGCCAAGATTGGGACTGAAAATACAAA
15172949 A
1 A
15172950 GAAAAGGGGG
Statistics
Matches: 504, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
514 504 1.00
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (514 bp):
AATATGGCTCGAGCTTTGGAACGGAAACAAAAAGTCTCTTCCAAGATGTTATCTCAAACCAATAT
AAACTGGTCAGCTTCCCAAAACACTGGCAGCAATTCCATTATTCCAACAACTAAGAGCTTTGCAA
AGGGAGGAGGACAAACAACGAAACCAATGGGGAATAACAACAAAATAGGTTCTTCCGCACCATTT
ATCAAAAGATTGACACGAGCAGAGATGGCGAAGAGAAGGGCTAAGGGATTGTGTTATAATTGTGA
CGAGTCTTACTCCATGGGACACAAATGTAAAAGGCTATTTTGGATAGAAGTACCAGATATTAAAG
ATGAGCAAGATGATGAGGTAGATGATCTTGAAATTTCCTTACATGCCATTAGAGGAACTTGCAAT
TCATCTACTATGCAACTACCAGCAAAGGTGTCAGGAAAAACAGTGTTAGTTCTCGTTAATTCAAG
CAGTACACATAACTTTCTACGCGAAGGTCTAGTGCCAAGATTGGGACTGAAAATACAAA
Found at i:15173746 original size:25 final size:25
Alignment explanation
Indices: 15173718--15173768 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
15173708 TTCCTTATAA
**
15173718 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
15173743 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
15173768 A
1 A
15173769 TTTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:15173767 original size:12 final size:12
Alignment explanation
Indices: 15173721--15173768 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
15173711 CTTATAAACT
15173721 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
15173733 TTCTATTAGGACT
1 TTAAATTAGGA-A
15173746 TTAAATTAGGAA
1 TTAAATTAGGAA
*
15173758 TTAGATTAGGA
1 TTAAATTAGGA
15173769 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:15178046 original size:75 final size:74
Alignment explanation
Indices: 15177911--15178052 Score: 198
Period size: 75 Copynumber: 1.9 Consensus size: 74
15177901 TTCCCCTGCT
* *
15177911 GTTGATTTCATGTTCTTTTCTGATTTTTATTTCAGTTTTTATGTCATTAAATACTGGTTTAAGTT
1 GTTGATTTCATGCTCTTTTCTGATATTTATTTCAGTTTTTATGTCATTAAATACTGGTTTAAGTT
15177976 GAAGTTGAA
66 GAAGTTGAA
* * *
15177985 GTTGATTTCATGCTCTTTTCCT-A-ATTTATTTCTGTTTTTATATGTCATTAAATATTTGTTTAA
1 GTTGATTTCATGCTCTTTT-CTGATATTTATTTCAG-TTTT-TATGTCATTAAATACTGGTTTAA
15178048 GTTGA
63 GTTGA
15178053 CATTATTATG
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
73 9 0.15
74 23 0.38
75 28 0.47
ACGTcount: A:0.23, C:0.09, G:0.14, T:0.54
Consensus pattern (74 bp):
GTTGATTTCATGCTCTTTTCTGATATTTATTTCAGTTTTTATGTCATTAAATACTGGTTTAAGTT
GAAGTTGAA
Found at i:15186192 original size:21 final size:20
Alignment explanation
Indices: 15186153--15186193 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
15186143 TTTTTAAAAA
* *
15186153 AAAATTTAAAATAACATATG
1 AAAACTTAAAATAAAATATG
15186173 AAAACTTAAAATAATAATATG
1 AAAACTTAAAATAA-AATATG
15186194 TGGAAAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (20 bp):
AAAACTTAAAATAAAATATG
Found at i:15194822 original size:26 final size:26
Alignment explanation
Indices: 15194791--15194898 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
15194781 TGAAATTCCC
*
15194791 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
15194817 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
15194843 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
15194869 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
15194895 ATCA
1 ATCA
15194899 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:15196934 original size:29 final size:29
Alignment explanation
Indices: 15196899--15196956 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
15196889 CCCCTTGTTT
15196899 TTGTGGCTAGAACCCTCTAGTTTTTACAA
1 TTGTGGCTAGAACCCTCTAGTTTTTACAA
*
15196928 TTGTGGCTAGAACCCTCTATTTTTTACAA
1 TTGTGGCTAGAACCCTCTAGTTTTTACAA
15196957 GACTCAACTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.40
Consensus pattern (29 bp):
TTGTGGCTAGAACCCTCTAGTTTTTACAA
Found at i:15197397 original size:20 final size:20
Alignment explanation
Indices: 15197350--15197397 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
15197340 TACAAGATGT
* * *
15197350 ATGGGTAGAAGTGGACTTGT
1 ATGGGTAGAAGAGGACCTGA
**
15197370 ATTAGTAGAAGAGGACCTGA
1 ATGGGTAGAAGAGGACCTGA
15197390 ATGGGTAG
1 ATGGGTAG
15197398 GAGTCCCCCT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.06, G:0.38, T:0.25
Consensus pattern (20 bp):
ATGGGTAGAAGAGGACCTGA
Found at i:15198428 original size:10 final size:9
Alignment explanation
Indices: 15198406--15198445 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
15198396 AAAAGAACCA
*
15198406 TTTTATAAT
1 TTTTATTAT
15198415 TTTTATTGAT
1 TTTTATT-AT
15198425 TTTTATT-T
1 TTTTATTAT
15198433 TTTTATTAT
1 TTTTATTAT
15198442 TTTT
1 TTTT
15198446 CACCATATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 8 0.29
9 11 0.39
10 9 0.32
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (9 bp):
TTTTATTAT
Found at i:15205915 original size:26 final size:26
Alignment explanation
Indices: 15205879--15205934 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
15205869 GAAGAAGGAA
15205879 TAAACCATAACTATATTAAGCATGAT
1 TAAACCATAACTATATTAAGCATGAT
15205905 TAAACCATAACTATATTAAGCATGAT
1 TAAACCATAACTATATTAAGCATGAT
15205931 TAAA
1 TAAA
15205935 TCATTCCAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.30
Consensus pattern (26 bp):
TAAACCATAACTATATTAAGCATGAT
Found at i:15218245 original size:26 final size:26
Alignment explanation
Indices: 15218214--15218321 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
15218204 TGATACAAAT
15218214 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
15218240 TTATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15218266 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
15218292 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15218318 TGAT
1 TGAT
15218322 GGGAATTTAA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:15220040 original size:27 final size:27
Alignment explanation
Indices: 15219943--15220047 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
15219933 AGGAAGCGTC
*
15219943 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
15219970 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
15219997 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
15220024 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
15220048 GCAGCCTCGC
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
26 9 0.13
27 61 0.86
28 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:15236547 original size:17 final size:19
Alignment explanation
Indices: 15236516--15236554 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
15236506 CTCGACCTAT
*
15236516 TAGACCGTGTTGG-CCACA
1 TAGACCGTGTGGGCCCACA
15236534 TAGA-CGTGTGGGCCCACA
1 TAGACCGTGTGGGCCCACA
15236552 TAG
1 TAG
15236555 GTGAACCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.23, C:0.26, G:0.31, T:0.21
Consensus pattern (19 bp):
TAGACCGTGTGGGCCCACA
Found at i:15242648 original size:2 final size:2
Alignment explanation
Indices: 15242643--15242668 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15242633 TAAGATGAGT
15242643 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
15242669 AAATCCATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15245614 original size:42 final size:43
Alignment explanation
Indices: 15245543--15245672 Score: 131
Period size: 42 Copynumber: 3.1 Consensus size: 43
15245533 ATTAGGTTGT
* * *
15245543 TATAGTGATTATGTGTAAGACCGTGTCTGGGACATTGGCATCG
1 TATATTGATTATGTGTAAGACCCTGTCTGGGACAGTGGCATCG
*
15245586 TATATTGATT-TGTGTAAGACCCTTTCTGGGACAGTGGCATCG
1 TATATTGATTATGTGTAAGACCCTGTCTGGGACAGTGGCATCG
* ** * * * *
15245628 -ATATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTG
1 TATAT-TGATTATGTGTAAGACCCTGTCTGGGACAGTGGCATCG
15245670 TAT
1 TAT
15245673 GAGCTTATGT
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.05
42 40 0.55
43 29 0.40
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (43 bp):
TATATTGATTATGTGTAAGACCCTGTCTGGGACAGTGGCATCG
Found at i:15246281 original size:21 final size:20
Alignment explanation
Indices: 15246252--15246290 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15246242 CTTGTTTTGG
*
15246252 TATGTTTATCATAATTGTTGA
1 TATGGTTAT-ATAATTGTTGA
*
15246273 TATGGTTATATAGTTGTT
1 TATGGTTATATAATTGTT
15246291 CTTTTGGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.26, C:0.03, G:0.18, T:0.54
Consensus pattern (20 bp):
TATGGTTATATAATTGTTGA
Found at i:15248739 original size:42 final size:41
Alignment explanation
Indices: 15248628--15248749 Score: 140
Period size: 42 Copynumber: 3.0 Consensus size: 41
15248618 TGAATTTCCT
* *
15248628 TTTAACTCTAATGGGTTTCCGTTTAGCTC-TTGAGCTTCAG
1 TTTAACCCTCATGGGTTTCCGTTTAGCTCTTTGAGCTTCAG
** * **
15248668 AATAACCCTTC-TGGGTTTCAGTTCCGCTCTTTCGAGCTTCAG
1 TTTAACCC-TCATGGGTTTCCGTTTAGCTCTTT-GAGCTTCAG
15248710 TTTAACCCTCATGGGTTTCCGTTTAGCTCTTATGAGCTTC
1 TTTAACCCTCATGGGTTTCCGTTTAGCTCTT-TGAGCTTC
15248750 CATTCAACCC
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
40 20 0.31
41 5 0.08
42 39 0.60
43 1 0.02
ACGTcount: A:0.16, C:0.25, G:0.19, T:0.40
Consensus pattern (41 bp):
TTTAACCCTCATGGGTTTCCGTTTAGCTCTTTGAGCTTCAG
Found at i:15248759 original size:42 final size:41
Alignment explanation
Indices: 15248638--15248778 Score: 121
Period size: 42 Copynumber: 3.4 Consensus size: 41
15248628 TTTAACTCTA
* * * *
15248638 ATGGGTTTCCGTTTAGCTC-TTGAGCTTCAGAATAACCCTTC
1 ATGGGTTTCAGTTTAGCTCTTTGAGCTTC-CATTAACCCATC
**
15248679 -TGGGTTTCAGTTCCGCTCTTTCGAGCTT-CAGTTTAACCC-TC
1 ATGGGTTTCAGTTTAGCTCTTT-GAGCTTCCA--TTAACCCATC
*
15248720 ATGGGTTTCCGTTTAGCTCTTATGAGCTTCCATTCAACCCAT-
1 ATGGGTTTCAGTTTAGCTCTT-TGAGCTTCCATT-AACCCATC
*
15248762 ATAGGTTTCAGTTTAGC
1 ATGGGTTTCAGTTTAGC
15248779 ACTTATGTGC
Statistics
Matches: 81, Mismatches: 10, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
40 16 0.20
41 6 0.07
42 55 0.68
43 4 0.05
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.38
Consensus pattern (41 bp):
ATGGGTTTCAGTTTAGCTCTTTGAGCTTCCATTAACCCATC
Found at i:15256570 original size:26 final size:26
Alignment explanation
Indices: 15256539--15256646 Score: 155
Period size: 26 Copynumber: 4.2 Consensus size: 26
15256529 TGAAATGCCC
15256539 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
15256565 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
15256591 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
15256617 GTCATGAAACATTTACCT-AACACATT
1 ATCATGGAACATTTACCTAAAC-CATT
15256643 ATCA
1 ATCA
15256647 ATTTGTATCA
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
25 2 0.03
26 71 0.97
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:15256616 original size:52 final size:52
Alignment explanation
Indices: 15256539--15256646 Score: 171
Period size: 52 Copynumber: 2.1 Consensus size: 52
15256529 TGAAATGCCC
* *
15256539 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACACATT
* * *
15256591 ATCATGGAATATTTACCTAATCCATTGTCATGAAACATTTACCTAACACATT
1 ATCATGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACACATT
15256643 ATCA
1 ATCA
15256647 ATTTGTATCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACACATT
Found at i:15258172 original size:37 final size:37
Alignment explanation
Indices: 15258122--15258195 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
15258112 TTTCGACAAT
15258122 AGCAAAATGACAATGAAAAAGATGATGCTAATTTTTA
1 AGCAAAATGACAATGAAAAAGATGATGCTAATTTTTA
15258159 AGCAAAATGACAATGAAAAAGATGATGCTAATTTTTA
1 AGCAAAATGACAATGAAAAAGATGATGCTAATTTTTA
15258196 CTTGATTATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.49, C:0.08, G:0.16, T:0.27
Consensus pattern (37 bp):
AGCAAAATGACAATGAAAAAGATGATGCTAATTTTTA
Found at i:15260968 original size:37 final size:37
Alignment explanation
Indices: 15260912--15261066 Score: 183
Period size: 37 Copynumber: 4.2 Consensus size: 37
15260902 ACTTAATGCG
*
15260912 TGGCGTGTTATCG-GTTGGATTAGCTCTTATGAGCATT
1 TGGCATGTTATCGAG-TGGATTAGCTCTTATGAGCATT
* *
15260949 TGGCGTGTTATCGAATGGATTAGCT-TTGATGAGCATT
1 TGGCATGTTATCGAGTGGATTAGCTCTT-ATGAGCATT
* * *
15260986 TGGCATGTTATCTAGTGGATTAGCTTTTATGAGTATT
1 TGGCATGTTATCGAGTGGATTAGCTCTTATGAGCATT
* * *
15261023 TGGCATGTTATTGGGTGGATTAGCTCTTATGA-TA-T
1 TGGCATGTTATCGAGTGGATTAGCTCTTATGAGCATT
15261058 TGGCATGTT
1 TGGCATGTT
15261067 TTGGTTGGAT
Statistics
Matches: 106, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
35 10 0.09
36 4 0.04
37 90 0.85
38 2 0.02
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.42
Consensus pattern (37 bp):
TGGCATGTTATCGAGTGGATTAGCTCTTATGAGCATT
Found at i:15268889 original size:11 final size:11
Alignment explanation
Indices: 15268873--15268905 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
15268863 TTATAGCCGA
15268873 AAAATAAAAAT
1 AAAATAAAAAT
15268884 AAAATAAATAA-
1 AAAATAAA-AAT
15268895 AAAATAAAAAT
1 AAAATAAAAAT
15268906 TTCCTTGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 2 0.10
11 16 0.80
12 2 0.10
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:15268894 original size:15 final size:16
Alignment explanation
Indices: 15268874--15268903 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15268864 TATAGCCGAA
15268874 AAAT-AAAAATAAAAT
1 AAATAAAAAATAAAAT
15268889 AAATAAAAAATAAAA
1 AAATAAAAAATAAAA
15268904 ATTTCCTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (16 bp):
AAATAAAAAATAAAAT
Found at i:15269147 original size:25 final size:23
Alignment explanation
Indices: 15269101--15269147 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
15269091 TATTTTACTT
*
15269101 TGGGCTAATAATTTGCTTGTAAG
1 TGGGCTAATAATTGGCTTGTAAG
15269124 TGGGCTAGATAATTGGACTTGTAA
1 TGGGCTA-ATAATTGG-CTTGTAA
15269148 CAGGGACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 7 0.33
25 7 0.33
ACGTcount: A:0.28, C:0.09, G:0.28, T:0.36
Consensus pattern (23 bp):
TGGGCTAATAATTGGCTTGTAAG
Found at i:15270430 original size:11 final size:11
Alignment explanation
Indices: 15270410--15270463 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
15270400 AAAGCAACAG
*
15270410 CAAAATAGCAC
1 CAAAACAGCAC
15270421 CAAAACAGCAC
1 CAAAACAGCAC
*
15270432 C-AAACAGCAA
1 CAAAACAGCAC
*
15270442 CAAAACAACAC
1 CAAAACAGCAC
*
15270453 AAAAAACAGCA
1 -CAAAACAGCA
15270464 TCACCAACAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
10 9 0.26
11 18 0.51
12 8 0.23
ACGTcount: A:0.61, C:0.30, G:0.07, T:0.02
Consensus pattern (11 bp):
CAAAACAGCAC
Found at i:15270639 original size:9 final size:9
Alignment explanation
Indices: 15270625--15270655 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15270615 ATCGAAGAAA
15270625 CATCGTCCT
1 CATCGTCCT
15270634 CATCGTCCT
1 CATCGTCCT
*
15270643 CATCGTCAT
1 CATCGTCCT
15270652 CATC
1 CATC
15270656 ATTATTGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.16, C:0.42, G:0.10, T:0.32
Consensus pattern (9 bp):
CATCGTCCT
Found at i:15275833 original size:57 final size:57
Alignment explanation
Indices: 15275766--15275879 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
15275756 GACTAGTAAA
15275766 TTATTAGTTATGGTTTCTGGTTTCTATTTGTTATTTAGTTTTGAAAGTAAGGTTTTT
1 TTATTAGTTATGGTTTCTGGTTTCTATTTGTTATTTAGTTTTGAAAGTAAGGTTTTT
15275823 TTATTAGTTATGGTTTCTGGTTTCTATTTGTTATTTAGTTTTGAAAGTAAGGTTTTT
1 TTATTAGTTATGGTTTCTGGTTTCTATTTGTTATTTAGTTTTGAAAGTAAGGTTTTT
15275880 ACTAACACTG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.19, C:0.04, G:0.19, T:0.58
Consensus pattern (57 bp):
TTATTAGTTATGGTTTCTGGTTTCTATTTGTTATTTAGTTTTGAAAGTAAGGTTTTT
Found at i:15280845 original size:6 final size:6
Alignment explanation
Indices: 15280836--15280870 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
15280826 ATTTTCTTGC
15280836 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTC
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTC
15280871 CACTTGAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:15281379 original size:96 final size:97
Alignment explanation
Indices: 15281185--15281379 Score: 241
Period size: 96 Copynumber: 2.0 Consensus size: 97
15281175 GTCATACTTA
* * ** *
15281185 TATTCTTCTCTAGTTGGATATTTAATTGAACATTGGAAACCCTTATGATGTTTTGAACTACACTA
1 TATTCTTCTCTAGTTGGATATTTAATTGAACATTGAAAACCCTCATGACCTTTTGAACTACACCA
* * *
15281250 ATAAAATTGCACAAAAGGTGATAGCTCATTTG
66 ATAAAATTGCACAAAAGGTGAGAGATCAGTTG
* *
15281282 TATTC-TCTCTATTTGGATATTTCATT-AGACATTGAAAACCCTCATGACCTTTTGAACTACACC
1 TATTCTTCTCTAGTTGGATATTTAATTGA-ACATTGAAAACCCTCATGACCTTTTGAACTACACC
* * **
15281345 AATAACATTTCACAGTAGGTGAGAGATCAGTTG
65 AATAAAATTGCACAAAAGGTGAGAGATCAGTTG
15281378 TA
1 TA
15281380 CTCCTCCTTT
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
95 1 0.01
96 77 0.93
97 5 0.06
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (97 bp):
TATTCTTCTCTAGTTGGATATTTAATTGAACATTGAAAACCCTCATGACCTTTTGAACTACACCA
ATAAAATTGCACAAAAGGTGAGAGATCAGTTG
Found at i:15287429 original size:53 final size:53
Alignment explanation
Indices: 15287321--15287872 Score: 576
Period size: 53 Copynumber: 10.3 Consensus size: 53
15287311 TTAGTTTACC
* * * *
15287321 AAATTACGGAAATACCC-CCAGTTGTAAAATTACC-AAAGTACCC-CTGATTTATA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAA-TACCCTC-GA-TTGTA
** * *
15287374 AAATTACCCAAATATCCTCGATTTGTAAAATTACCGAAATACCGTCGATTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTGTA
* *
15287427 AAATTACTGAAATACCATCGATTTGTAAAATTACCGAAATACCGTCGATTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTGTA
* * * *
15287480 AAATTACTAAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCAGTTTGCA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTC-GATTGTA
* * *
15287534 AAATTACTGAAATACCCTCGACTTGTAAAATTACC-AAAGTACCCCCGATTTATA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAA-TACCCTCGA-TTGTA
** * * * * * * *
15287588 AAATTACCCAAATATCCTCGATTTATAAAATTATCAAAATATCGTTGATTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTGTA
* **
15287641 AAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACAGTCGATTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTGTA
* * *
15287694 AAATTACTAAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCAGTTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTC-GATTGTA
* *
15287748 AAATTATTGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGA-TTGTA
* * ** * ***
15287802 AAATTAC-CAAAGTACCCCCGATTTACAGAATTACCGTTTTACCCTCGATT-TACA
1 AAATTACTGAAA-TACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTGT--A
*
15287856 AAATTATTGAAATACCC
1 AAATTACTGAAATACCC
15287873 CTGTAGGGTA
Statistics
Matches: 418, Mismatches: 68, Indels: 25
0.82 0.13 0.05
Matches are distributed among these distances:
52 1 0.00
53 207 0.50
54 200 0.48
55 10 0.02
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (53 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTGTA
Found at i:15287711 original size:214 final size:214
Alignment explanation
Indices: 15287321--15287836 Score: 786
Period size: 214 Copynumber: 2.4 Consensus size: 214
15287311 TTAGTTTACC
* * * *
15287321 AAATTACGGAAATACCC-CCAGTTGTAAAATTACCAAAGTACCCCTGATTTATAAAATTACCCAA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
* *
15287385 ATATCCTCGATTTGTAAAATTACCGAAATACCGTCGATTGTAAAATTACTGAAATACCATCGATT
66 ATATCCTCGATTTATAAAATTACCAAAATACCGTCGATTGTAAAATTACTGAAATACCATCGATT
*
15287450 TGTAAAATTACCGAAATACCGTCGATTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTATC
131 TGTAAAATTACCGAAATACAGTCGATTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTATC
15287515 GAAATACCCTCAGTTTGCA
196 GAAATACCCTCAGTTTGCA
15287534 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
* * * *
15287599 ATATCCTCGATTTATAAAATTATCAAAATATCGTTGATTGTAAAATTACTGAAATACCCTCGATT
66 ATATCCTCGATTTATAAAATTACCAAAATACCGTCGATTGTAAAATTACTGAAATACCATCGATT
*
15287664 TGTAAAATTACTGAAATACAGTCGATTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTATC
131 TGTAAAATTACCGAAATACAGTCGATTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTATC
*
15287729 GAAATACCCTCAGTTTGTA
196 GAAATACCCTCAGTTTGCA
* * * * * *
15287748 AAATTATTGAAATACCCTCGATTTGTAAAATTACTGAAA-TACCCTCGACTTGTAAAATTA-CCA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTTATAAAATTACCCA
* * * *
15287811 AAGTACCCCCGATTTACAGAATTACC
65 AA-TATCCTCGATTTATAAAATTACC
15287837 GTTTTACCCT
Statistics
Matches: 276, Mismatches: 24, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
213 21 0.08
214 252 0.91
215 3 0.01
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (214 bp):
AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
ATATCCTCGATTTATAAAATTACCAAAATACCGTCGATTGTAAAATTACTGAAATACCATCGATT
TGTAAAATTACCGAAATACAGTCGATTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTATC
GAAATACCCTCAGTTTGCA
Found at i:15287871 original size:27 final size:27
Alignment explanation
Indices: 15287321--15287872 Score: 541
Period size: 27 Copynumber: 20.6 Consensus size: 27
15287311 TTAGTTTACC
* * *
15287321 AAATTACGGAAATACCC-CCAGTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
15287347 AAATTACC-AAAGTACCC-CTGATTTATA
1 AAATTACCGAAA-TACCCTC-GATTTGTA
* *
15287374 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
15287401 AAATTACCGAAATACCGTCGA-TTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
15287427 AAATTACTGAAATACCATCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
15287454 AAATTACCGAAATACCGTCGA-TTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
**
15287480 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
15287507 AAATTATCGAAATACCCTC-AGTTTGCA
1 AAATTACCGAAATACCCTCGA-TTTGTA
* *
15287534 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
15287561 AAATTACC-AAAGTACCCCCGATTTATA
1 AAATTACCGAAA-TACCCTCGATTTGTA
* * *
15287588 AAATTACCCAAATATCCTCGATTTATA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * * *
15287615 AAATTATCAAAATATCGTTGA-TTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
15287641 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* **
15287668 AAATTACTGAAATACAGTCGA-TTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
**
15287694 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
15287721 AAATTATCGAAATACCCTC-AGTTTGTA
1 AAATTACCGAAATACCCTCGA-TTTGTA
**
15287748 AAATTATTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
15287775 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* **
15287802 AAATTACC-AAAGTACCCCCGATTTACA
1 AAATTACCGAAA-TACCCTCGATTTGTA
* *** **
15287829 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCGAAATACCCTCGATTTGTA
**
15287856 AAATTATTGAAATACCC
1 AAATTACCGAAATACCC
15287873 CTGTAGGGTA
Statistics
Matches: 442, Mismatches: 68, Indels: 31
0.82 0.13 0.06
Matches are distributed among these distances:
25 3 0.01
26 110 0.25
27 320 0.72
28 9 0.02
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:15287893 original size:27 final size:27
Alignment explanation
Indices: 15287864--15288322 Score: 684
Period size: 27 Copynumber: 17.0 Consensus size: 27
15287854 CAAAATTATT
* * *
15287864 GAAATACCCCTGTAGGGTAGAAATACT
1 GAAATACCCTTGTAGGGTAGAATTACC
* * * *
15287891 GAAATACTCTTATAGGGTAGAAATATC
1 GAAATACCCTTGTAGGGTAGAATTACC
* **
15287918 GAAATACCCTTGTAGAGTAGAATTATT
1 GAAATACCCTTGTAGGGTAGAATTACC
*
15287945 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
15287972 GAAATACCCTTTTAGGGTAGAAATATC
1 GAAATACCCTTGTAGGGTAGAATTACC
*
15287999 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * * *
15288026 AAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
15288053 AAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
15288080 GAAATACCCTTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
15288107 GAAATACCCTTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
15288134 GAAATACCCTTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
15288161 GAAATACCCTTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
15288188 GAAATACCCTTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
15288215 GAAATACCCTTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
15288242 GAAATACCCTTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
*
15288269 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACC
** * *
15288296 GGGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
15288323 ATTTTGCCCC
Statistics
Matches: 397, Mismatches: 35, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 397 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAATTACC
Found at i:15288995 original size:26 final size:26
Alignment explanation
Indices: 15288948--15289035 Score: 106
Period size: 26 Copynumber: 3.4 Consensus size: 26
15288938 TGCCACGTAT
* *
15288948 TCTGTT-TAGTGGCTTTGTCACATTA
1 TCTGTTCTAGTGGCTCTGTCACAATA
*
15288973 TCTGTTCTAGTGGCTCTGCCACAATA
1 TCTGTTCTAGTGGCTCTGTCACAATA
* **
15288999 TCTGTATCTGGTAACTCTGTCACAATA
1 TCTGT-TCTAGTGGCTCTGTCACAATA
15289026 TCTGTTCTAG
1 TCTGTTCTAG
15289036 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
25 6 0.11
26 25 0.47
27 22 0.42
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.41
Consensus pattern (26 bp):
TCTGTTCTAGTGGCTCTGTCACAATA
Found at i:15289022 original size:27 final size:26
Alignment explanation
Indices: 15288963--15289035 Score: 92
Period size: 27 Copynumber: 2.8 Consensus size: 26
15288953 TTAGTGGCTT
* **
15288963 TGTCACATTATCTGTTCTAGTGGCTC
1 TGTCACAATATCTGTTCTAGTAACTC
* *
15288989 TGCCACAATATCTGTATCTGGTAACTC
1 TGTCACAATATCTGT-TCTAGTAACTC
15289016 TGTCACAATATCTGTTCTAG
1 TGTCACAATATCTGTTCTAG
15289036 CAGCCATGCT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 17 0.44
27 22 0.56
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.38
Consensus pattern (26 bp):
TGTCACAATATCTGTTCTAGTAACTC
Found at i:15289162 original size:6 final size:6
Alignment explanation
Indices: 15289153--15289240 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
15289143 TTGCATTCAC
* *
15289153 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
15289203 ATTCTG ATTCTA ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
15289241 AATGTTTCTT
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
5 4 0.06
6 52 0.80
7 7 0.11
8 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:15289184 original size:25 final size:25
Alignment explanation
Indices: 15289156--15289219 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
15289146 CATTCACATT
*
15289156 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTGATA
*
15289181 CTGATTCTGATTCTGTCACCTGATT
1 CTGATTCTGATTCTGTCACCTGATA
*
15289206 CTGATTCTAATTCT
1 CTGATTCTGATTCT
15289220 CATTTTGATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTGATA
Found at i:15295436 original size:19 final size:19
Alignment explanation
Indices: 15295412--15295449 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
15295402 ACATTATCAA
15295412 GTATTT-TTTTTATGAATAT
1 GTATTTGTTTTTAT-AATAT
15295431 GTATTTGGTTTTTATAATA
1 GTATTT-GTTTTTATAATA
15295450 AGAAATGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 4 0.24
21 7 0.41
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (19 bp):
GTATTTGTTTTTATAATAT
Found at i:15297596 original size:21 final size:21
Alignment explanation
Indices: 15297570--15297611 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
15297560 AAAGAGCTGA
15297570 TAAAATCCCATAGAAAGCCTG
1 TAAAATCCCATAGAAAGCCTG
15297591 TAAAATCCCATAGAAAGCCTG
1 TAAAATCCCATAGAAAGCCTG
15297612 CCATTTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.24, G:0.14, T:0.19
Consensus pattern (21 bp):
TAAAATCCCATAGAAAGCCTG
Found at i:15303715 original size:19 final size:20
Alignment explanation
Indices: 15303683--15303723 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
15303673 ACTCAATTCA
* *
15303683 AAAAAATTTCAAATTAAATT
1 AAAAAATTTAAAATAAAATT
15303703 AAAAAA-TTAAAATAAAATT
1 AAAAAATTTAAAATAAAATT
15303722 AA
1 AA
15303724 TCAACTCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAAATTTAAAATAAAATT
Found at i:15304001 original size:26 final size:26
Alignment explanation
Indices: 15303972--15304021 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
15303962 TAGGGTAAAT
15303972 TATATTGATA-TTCATTTAATTATTCG
1 TATATT-ATATTTCATTTAATTATTCG
* *
15303998 TATATTTTATTTTATTTAATTATT
1 TATATTATATTTCATTTAATTATT
15304022 TAATTATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (26 bp):
TATATTATATTTCATTTAATTATTCG
Found at i:15309579 original size:2 final size:2
Alignment explanation
Indices: 15309572--15309610 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
15309562 CAAGAGAAAT
15309572 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
15309611 TACATACAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:15320819 original size:8 final size:8
Alignment explanation
Indices: 15320801--15320844 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
15320791 CGTAGATCGG
15320801 CAAAA-GC
1 CAAAATGC
15320808 CAAAATGC
1 CAAAATGC
15320816 CAAAATGC
1 CAAAATGC
*
15320824 CGAAATGC
1 CAAAATGC
15320832 CGAAAA-GC
1 C-AAAATGC
15320840 CAAAA
1 CAAAA
15320845 GTTTGGCTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
7 9 0.27
8 21 0.64
9 3 0.09
ACGTcount: A:0.52, C:0.25, G:0.16, T:0.07
Consensus pattern (8 bp):
CAAAATGC
Found at i:15321087 original size:29 final size:29
Alignment explanation
Indices: 15321055--15321179 Score: 128
Period size: 29 Copynumber: 4.3 Consensus size: 29
15321045 GCGAGCATGA
* *
15321055 ATATGCATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGAATTGGGCCTAATGGGCC
* * * *
15321084 ATATGAATTTGAATTGGGCCTGATAGGCT
1 ATATGAATGTGAATTGGGCCTAATGGGCC
* * *
15321113 ATATAAATGTGAATTGGGCCTGATGGGCT
1 ATATGAATGTGAATTGGGCCTAATGGGCC
*
15321142 ATATGAATGAG-ATTGGGCC-AAGTGGGCC
1 ATATGAATGTGAATTGGGCCTAA-TGGGCC
*
15321170 ATATGCATGT
1 ATATGAATGT
15321180 ATGTAGGGGT
Statistics
Matches: 80, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
27 1 0.01
28 21 0.26
29 58 0.73
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGCCTAATGGGCC
Found at i:15328071 original size:21 final size:20
Alignment explanation
Indices: 15328034--15328076 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
15328024 ATTAATAAGC
* *
15328034 ATGAATGTTTTATGATAGATT
1 ATGAATGTTTGACGATAG-TT
15328055 ATGAATGTTTGACGATAGTT
1 ATGAATGTTTGACGATAGTT
15328075 AT
1 AT
15328077 ACAAGTTTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (20 bp):
ATGAATGTTTGACGATAGTT
Done.