Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 70 of 145
Found at i:23905087 original size:31 final size:31
Alignment explanation
Indices: 23905052--23905213 Score: 228
Period size: 31 Copynumber: 5.4 Consensus size: 31
23905042 ACTACAAAAA
23905052 TAGTCACTTTTATTTGTATCAAATTACATTT
1 TAGTCACTTTTATTTGTATCAAATTACATTT
* *
23905083 TAGTCACTTTTGTTTG-A--AATGTTACATTT
1 TAGTCACTTTTATTTGTATCAA-ATTACATTT
23905112 TAGTCACTTTTATTTGTATCAAATTACATTT
1 TAGTCACTTTTATTTGTATCAAATTACATTT
* *
23905143 TAGTCACTTTTGTTTG-A--AATGTTACATTT
1 TAGTCACTTTTATTTGTATCAA-ATTACATTT
23905172 TAGTCACTTTTATTTGTATCAAATTACATTT
1 TAGTCACTTTTATTTGTATCAAATTACATTT
23905203 TAGTCACTTTT
1 TAGTCACTTTT
23905214 GTTTAAATGT
Statistics
Matches: 115, Mismatches: 8, Indels: 16
0.83 0.06 0.12
Matches are distributed among these distances:
28 4 0.03
29 46 0.40
30 4 0.03
31 57 0.50
32 4 0.03
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52
Consensus pattern (31 bp):
TAGTCACTTTTATTTGTATCAAATTACATTT
Found at i:23905114 original size:29 final size:29
Alignment explanation
Indices: 23905075--23905239 Score: 219
Period size: 29 Copynumber: 5.6 Consensus size: 29
23905065 TTGTATCAAA
23905075 TTACATTTTAGTCACTTTTGTTTGAAATG
1 TTACATTTTAGTCACTTTTGTTTGAAATG
* *
23905104 TTACATTTTAGTCACTTTTATTTGTATCAA-A
1 TTACATTTTAGTCACTTTTGTTTG-A--AATG
23905135 TTACATTTTAGTCACTTTTGTTTGAAATG
1 TTACATTTTAGTCACTTTTGTTTGAAATG
* *
23905164 TTACATTTTAGTCACTTTTATTTGTATCAA-A
1 TTACATTTTAGTCACTTTTGTTTG-A--AATG
23905195 TTACATTTTAGTCACTTTTGTTT-AAATG
1 TTACATTTTAGTCACTTTTGTTTGAAATG
23905223 TTACATTTTAGTCACTT
1 TTACATTTTAGTCACTT
23905240 ACATTATTGT
Statistics
Matches: 120, Mismatches: 8, Indels: 17
0.83 0.06 0.12
Matches are distributed among these distances:
27 2 0.02
28 19 0.16
29 47 0.39
30 3 0.03
31 45 0.38
32 4 0.03
ACGTcount: A:0.26, C:0.12, G:0.10, T:0.52
Consensus pattern (29 bp):
TTACATTTTAGTCACTTTTGTTTGAAATG
Found at i:23905123 original size:60 final size:60
Alignment explanation
Indices: 23905052--23905239 Score: 369
Period size: 60 Copynumber: 3.1 Consensus size: 60
23905042 ACTACAAAAA
23905052 TAGTCACTTTTATTTGTATCAAATTACATTTTAGTCACTTTTGTTTGAAATGTTACATTT
1 TAGTCACTTTTATTTGTATCAAATTACATTTTAGTCACTTTTGTTTGAAATGTTACATTT
23905112 TAGTCACTTTTATTTGTATCAAATTACATTTTAGTCACTTTTGTTTGAAATGTTACATTT
1 TAGTCACTTTTATTTGTATCAAATTACATTTTAGTCACTTTTGTTTGAAATGTTACATTT
23905172 TAGTCACTTTTATTTGTATCAAATTACATTTTAGTCACTTTTGTTT-AAATGTTACATTT
1 TAGTCACTTTTATTTGTATCAAATTACATTTTAGTCACTTTTGTTTGAAATGTTACATTT
23905231 TAGTCACTT
1 TAGTCACTT
23905240 ACATTATTGT
Statistics
Matches: 128, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
59 22 0.17
60 106 0.83
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.52
Consensus pattern (60 bp):
TAGTCACTTTTATTTGTATCAAATTACATTTTAGTCACTTTTGTTTGAAATGTTACATTT
Found at i:23906730 original size:72 final size:72
Alignment explanation
Indices: 23906591--23906722 Score: 205
Period size: 72 Copynumber: 1.9 Consensus size: 72
23906581 TTATAAAATA
*
23906591 AAACGTAGTTTTCTTGCTACCCTTTGCCTCTTTAAATTTCCTTTTATTTTTGCCCAAACTTTAAA
1 AAACGTAGTTTTCTTGCTACCCTTTGCCTCTTTAAATTTCCTTTTAATTTTGCCCAAACTTTAAA
23906656 AAATGAT
66 AAATGAT
* * * *
23906663 AAACGTAGTTTTCTTGCTACCCTTTTCTTCTTT-AATTTTC-TTTAATTTTGCCCTAACTTT
1 AAACGTAGTTTTCTTGCTACCCTTTGCCTCTTTAAATTTCCTTTTAATTTTGCCCAAACTTT
23906723 TCTAAAAACA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 18 0.33
71 6 0.11
72 31 0.56
ACGTcount: A:0.23, C:0.21, G:0.08, T:0.48
Consensus pattern (72 bp):
AAACGTAGTTTTCTTGCTACCCTTTGCCTCTTTAAATTTCCTTTTAATTTTGCCCAAACTTTAAA
AAATGAT
Found at i:23914401 original size:33 final size:34
Alignment explanation
Indices: 23914341--23914413 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
23914331 AAACTATCAT
*
23914341 ATAATAATAGTATGATAAATAAAAATGATATA-G
1 ATAATAATAGTATGATAAATAAAAATGATAAATG
* * *
23914374 ATAATAATATTATGA-ATAATGATAATGATAAATG
1 ATAATAATAGTATGATA-AATAAAAATGATAAATG
23914408 ATAATA
1 ATAATA
23914414 CATTGAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 1 0.03
33 26 0.76
34 7 0.21
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (34 bp):
ATAATAATAGTATGATAAATAAAAATGATAAATG
Found at i:23916305 original size:44 final size:44
Alignment explanation
Indices: 23916258--23916817 Score: 182
Period size: 44 Copynumber: 12.6 Consensus size: 44
23916248 GATCTACTCT
* * *
23916258 ACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCACTCT
1 ACTGTAACTTCAGGGAGATAAGATCATTTATTTTAATCCGCTCC
* * ** * * *
23916302 ACTG-AAATCTCAGGGGGATCGGAT-AGTGT-CTTTAATCTGCTCC
1 ACTGTAACT-TCAGGGAGATAAGATCA-TTTATTTTAATCCGCTCC
* * **
23916345 GCTGTAA-TCTCAGGGAGATAAGATCCTAAATTTTAATCCGCTCC
1 ACTGTAACT-TCAGGGAGATAAGATCATTTATTTTAATCCGCTCC
* * * **
23916389 ACTGTAACTTCAGGGAGATAGGATTATCGGCTTCAATTTGATGTGATCTACTCTC
1 ACTGTAACTTCAGGGAGATAAGATCAT----TT--A-TT--T-TAATCCGCTC-C
** * *
23916444 -CTGTAACCCCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
1 ACTGTAACTTCAGGGAGATAAGATCATTTATTTTAATCCGCTCC
* * * * *
23916487 ACTATAATTTTAGGGAGATAAGATCCTTTATTTTAATCTGCTCC
1 ACTGTAACTTCAGGGAGATAAGATCATTTATTTTAATCCGCTCC
* * * * * * *
23916531 ACTGTAATTTCAGGGAGATAGGATTACTGT-CTTCAATCTGCTCC
1 ACTGTAACTTCAGGGAGATAAGATCA-TTTATTTTAATCCGCTCC
* ** * *
23916575 GCTGTAATCTT-AGGGAGATAAGATC-TGAATTTT-TTCGGTCTACTAC
1 ACTGTAA-CTTCAGGGAGATAAGATCATTTATTTTAATCCG-CT-C--C
* * * *** *** *
23916621 ACTGTAACCTCAGGGAGATAAGACCA--GA-TGCGATTTACTCT
1 ACTGTAACTTCAGGGAGATAAGATCATTTATTTTAATCCGCTCC
* * *
23916662 ACTGTAACCTCAGAGAGATAAGATC-TTAAATTTTAATCCGCTCC
1 ACTGTAACTTCAGGGAGATAAGATCATT-TATTTTAATCCGCTCC
* * * ** **
23916706 ACTGTAACTTCAGGGAGATAGGAT-AGTGT-CTTGGATCTACTCC
1 ACTGTAACTTCAGGGAGATAAGATCA-TTTATTTTAATCCGCTCC
* *** * *
23916749 GCTGTAA-TCTCAGGGAGATAAGATC-TCTGGCTTCAATCTGCTCC
1 ACTGTAACT-TCAGGGAGATAAGATCAT-TTATTTTAATCCGCTCC
*
23916793 ACTGTAACCTCAGGGAGATAAGATC
1 ACTGTAACTTCAGGGAGATAAGATC
23916818 TGAAATTCTT
Statistics
Matches: 376, Mismatches: 101, Indels: 78
0.68 0.18 0.14
Matches are distributed among these distances:
41 23 0.06
42 7 0.02
43 68 0.18
44 210 0.56
45 11 0.03
46 20 0.05
47 2 0.01
48 1 0.00
50 3 0.01
51 2 0.01
53 1 0.00
54 27 0.07
55 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
ACTGTAACTTCAGGGAGATAAGATCATTTATTTTAATCCGCTCC
Found at i:23916747 original size:87 final size:86
Alignment explanation
Indices: 23916498--23916812 Score: 289
Period size: 87 Copynumber: 3.6 Consensus size: 86
23916488 CTATAATTTT
* ** * *
23916498 AGGGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATTTCAGGGAGATAGGATTACTGTCT
1 AGGGAGATAAGAT-CTTAATTTTAATCTGCTCCACTGTAACCTCAGGGAGATAGGACTAGTGTCT
* * *
23916563 TCAATCTGCTCCGCTGTAATCTT
65 T-GATCTACTCCGCTGTAATCTC
* * * * *
23916586 AGGGAGATAAGATCTGAATTTT-TTCGGTCTACTACACTGTAACCTCAGGGAGATAAGACCAGAT
1 AGGGAGATAAGATCTTAATTTTAATCTG-CT-C--CACTGTAACCTCAGGGAGATAGGACTAG-T
* ** *
23916650 G-C--GATTTACTCTACTGTAACCTC
61 GTCTTGATCTACTCCGCTGTAATCTC
* * *
23916673 AGAGAGATAAGATCTTAAATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGA-TAGTGTCT
1 AGGGAGATAAGATCTT-AATTTTAATCTGCTCCACTGTAACCTCAGGGAGATAGGACTAGTGTCT
23916737 TGGATCTACTCCGCTGTAATCTC
65 T-GATCTACTCCGCTGTAATCTC
*** *
23916760 AGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATA
1 AGGGAGATAAGATCT-TAATTTTAATCTGCTCCACTGTAACCTCAGGGAGATA
23916813 AGATCTGAAA
Statistics
Matches: 180, Mismatches: 35, Indels: 25
0.75 0.15 0.10
Matches are distributed among these distances:
83 2 0.01
84 3 0.02
85 22 0.12
86 3 0.02
87 99 0.55
88 23 0.13
89 3 0.02
90 23 0.13
91 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (86 bp):
AGGGAGATAAGATCTTAATTTTAATCTGCTCCACTGTAACCTCAGGGAGATAGGACTAGTGTCTT
GATCTACTCCGCTGTAATCTC
Found at i:23916818 original size:44 final size:44
Alignment explanation
Indices: 23916444--23916818 Score: 201
Period size: 44 Copynumber: 8.6 Consensus size: 44
23916434 ATCTACTCTC
* * * * * *
23916444 CTGTAACCCCAGAGAGATAAGATC-CTTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCTCTGT-CTTCAATCTGCTCCA
* ** * * * *
23916488 CTATAATTTTAGGGAGATAAGATC-CTTTATTTTAATCTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCTCTGT-CTTCAATCTGCTCCA
** * *
23916532 CTGTAATTTCAGGGAGATAGGAT-TACTGTCTTCAATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCT-CTGTCTTCAATCTGCTCCA
* * * * * ** * *
23916576 CTGTAATCTTAGGGAGATAAGATCTGAATTTTTTCGGTCTACTACA
1 CTGTAACCTCAGGGAGATAAGATCT--CTGTCTTCAATCTGCTCCA
* * * * * * *
23916622 CTGTAACCTCAGGGAGATAAGA-C-CAG-ATGCGATTTACTCTA
1 CTGTAACCTCAGGGAGATAAGATCTCTGTCTTCAATCTGCTCCA
* * * *
23916663 CTGTAACCTCAGAGAGATAAGATCT-TAAAT-TTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCTCT--GTCTTCAATCTGCTCCA
* * ** ** * *
23916707 CTGTAACTTCAGGGAGATAGGAT-AGTGTCTTGGATCTACTCCG
1 CTGTAACCTCAGGGAGATAAGATCTCTGTCTTCAATCTGCTCCA
* *
23916750 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCTCTGTCTTCAATCTGCTCCA
23916794 CTGTAACCTCAGGGAGATAAGATCT
1 CTGTAACCTCAGGGAGATAAGATCT
23916819 GAAATTCTTC
Statistics
Matches: 252, Mismatches: 67, Indels: 24
0.73 0.20 0.07
Matches are distributed among these distances:
41 30 0.12
42 2 0.01
43 29 0.12
44 154 0.61
45 5 0.02
46 32 0.13
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
CTGTAACCTCAGGGAGATAAGATCTCTGTCTTCAATCTGCTCCA
Found at i:23929596 original size:45 final size:45
Alignment explanation
Indices: 23929545--23929635 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
23929535 AACATGCATG
* * *
23929545 ACAAAGACAATAATAAGAGTACAAATAATAATATGGGGAACAATA
1 ACAAAGACAATAATAACAATACAAATAATAATATGGAGAACAATA
* * * *
23929590 ACAAAGAGAATAATAACAATATAAATGATAATATGGAGAATAATA
1 ACAAAGACAATAATAACAATACAAATAATAATATGGAGAACAATA
23929635 A
1 A
23929636 GAGCGATATA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.59, C:0.07, G:0.14, T:0.20
Consensus pattern (45 bp):
ACAAAGACAATAATAACAATACAAATAATAATATGGAGAACAATA
Found at i:23942150 original size:39 final size:39
Alignment explanation
Indices: 23942084--23942159 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 39
23942074 CATTTAATTA
* * *
23942084 ATTTTTTAAATTTAAAAAATCAAAAAATTATAAAAAAAT
1 ATTTTTAAAAATTAAAAAATCAAAAAATCATAAAAAAAT
* *
23942123 ATTTTTAAAAATT-AAAAATCATTAAAATCATTAAAAA
1 ATTTTTAAAAATTAAAAAATCA-AAAAATCATAAAAAA
23942160 TATAAAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 8 0.26
39 23 0.74
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (39 bp):
ATTTTTAAAAATTAAAAAATCAAAAAATCATAAAAAAAT
Found at i:23942182 original size:27 final size:26
Alignment explanation
Indices: 23942120--23942184 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
23942110 ATTATAAAAA
* *
23942120 AATATTTTTAAAAATTAAAAATCATT
1 AATATTATTAAAAATTAAAAATAATT
* *
23942146 AAAATCATTAAAAATATAAAAA-AATTT
1 AATATTATTAAAAAT-TAAAAATAA-TT
23942173 AATATTATTAAA
1 AATATTATTAAA
23942185 TCCACATGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
26 13 0.42
27 18 0.58
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (26 bp):
AATATTATTAAAAATTAAAAATAATT
Found at i:23943651 original size:17 final size:17
Alignment explanation
Indices: 23943615--23944021 Score: 191
Period size: 18 Copynumber: 22.7 Consensus size: 17
23943605 TGAAACAATT
*
23943615 TTTTTTAAACACGAAAAA
1 TTTTTAAAACACG-AAAA
* *
23943633 TTTTTAAAACATGAGAA
1 TTTTTAAAACACGAAAA
*
23943650 -TTTTAGAGACACGAAAA
1 TTTTTA-AAACACGAAAA
* * *
23943667 TTCTTAAAAATACCAAAA
1 TT-TTTAAAACACGAAAA
*
23943685 TTTTTGAAAACACGGAAA
1 TTTTT-AAAACACGAAAA
* *
23943703 TTTTTAAAACACGGGAAT
1 TTTTTAAAACAC-GAAAA
*
23943721 TTTTTGAAAACATGAAAA
1 TTTTT-AAAACACGAAAA
* **
23943739 TTTTTTAAACA--AATTTT
1 TTTTTAAAACACGAA--AA
23943756 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
*
23943774 TTTTTAAAACACCG-GAA
1 TTTTTAAAACA-CGAAAA
**
23943791 TTTTTGAAAACACGAGGA
1 TTTTT-AAAACACGAAAA
*
23943809 TTTTTGAAACAC-AAAA
1 TTTTTAAAACACGAAAA
*
23943825 TTTTCCTTGAAAACAC-AAAT
1 -TTT--TT-AAAACACGAAAA
** * *
23943845 TTTTTTTATCACCAGAAA
1 TTTTTAAAACACGA-AAA
*
23943863 TTTTGAAAACACGAAAA
1 TTTTTAAAACACGAAAA
* *
23943880 TTTTTGAAATATCG-AAA
1 TTTTTAAAACA-CGAAAA
* *
23943897 TTTTTGAAAACGCGGAAA
1 TTTTT-AAAACACGAAAA
*
23943915 TTTATAAAACACGGAAAAA
1 TTTTTAAAACAC-G-AAAA
*
23943934 TTTTTTCTGAAAACAAGAAAA
1 --TTTT-T-AAAACACGAAAA
* * **
23943955 -TTTTGAAATACGGGAA
1 TTTTTAAAACACGAAAA
23943971 TTTTTGAAAACACGAGAAA
1 TTTTT-AAAACACGA-AAA
23943990 TTTTTTTGAAAACACGAAAA
1 --TTTTT-AAAACACGAAAA
23944010 TTTTTAAAACAC
1 TTTTTAAAACAC
23944022 AATTTTATTT
Statistics
Matches: 295, Mismatches: 60, Indels: 69
0.70 0.14 0.16
Matches are distributed among these distances:
15 2 0.01
16 18 0.06
17 96 0.33
18 116 0.39
19 19 0.06
20 14 0.05
21 22 0.07
22 2 0.01
23 6 0.02
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.32
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:23943722 original size:35 final size:35
Alignment explanation
Indices: 23943621--23944021 Score: 255
Period size: 35 Copynumber: 11.2 Consensus size: 35
23943611 AATTTTTTTT
* * *
23943621 AAACACGAAAAATTTTTAAAACATGAGAATTTTAG-
1 AAACACG-AAAATTTTTAAAACACGAAAATTTTTGA
* * * *
23943656 AGACACGAAAATTCTTAAAAATACCAAAATTTTTGA
1 AAACACGAAAATT-TTTAAAACACGAAAATTTTTGA
* * *
23943692 AAACACGGAAATTTTTAAAACACGGGAATTTTTTGA
1 AAACACGAAAATTTTTAAAACAC-GAAAATTTTTGA
* * **
23943728 AAACATGAAAATTTTTTAAACA--AATTTTTTTTTGA
1 AAACACGAAAATTTTTAAAACACGAA--AATTTTTGA
*
23943763 AAACACGAAAATTTTTAAAACACCG-GAATTTTTGA
1 AAACACGAAAATTTTTAAAACA-CGAAAATTTTTGA
** *
23943798 AAACACGAGGATTTTTGAAACAC-AAAATTTTCCTTGA
1 AAACACGAAAATTTTTAAAACACGAAAA-TTT--TTGA
* ** * *
23943835 AAACAC-AAATTTTTTTTATCACCAGAAA-TTTTGA
1 AAACACGAAAATTTTTAAAACACGA-AAATTTTTGA
* *
23943869 AAACACGAAAATTTTTGAAATATCG-AAATTTTTGA
1 AAACACGAAAATTTTTAAAACA-CGAAAATTTTTGA
* * *
23943904 AAACGCGGAAATTTATAAAACACGGAAAAATTTTTTCTGA
1 AAACACGAAAATTTTTAAAACAC-G-AAAA--TTTT-TGA
* * * **
23943944 AAACAAGAAAA-TTTTGAAATACGGGAATTTTTGA
1 AAACACGAAAATTTTTAAAACACGAAAATTTTTGA
23943978 AAACACGAGAAATTTTTTTGAAAACACGAAAATTTTT-A
1 AAACACGA-AAA--TTTTT-AAAACACGAAAATTTTTGA
23944016 AAACAC
1 AAACAC
23944022 AATTTTATTT
Statistics
Matches: 280, Mismatches: 58, Indels: 53
0.72 0.15 0.14
Matches are distributed among these distances:
33 1 0.00
34 33 0.12
35 127 0.45
36 52 0.19
37 16 0.06
38 15 0.05
39 25 0.09
40 11 0.04
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.31
Consensus pattern (35 bp):
AAACACGAAAATTTTTAAAACACGAAAATTTTTGA
Found at i:23943849 original size:71 final size:70
Alignment explanation
Indices: 23943589--23943930 Score: 230
Period size: 71 Copynumber: 4.9 Consensus size: 70
23943579 TTTTAAAAAA
* ** *
23943589 AAAACACGAAGATTTTTG-AAAC--AATTTT--TTTTAAACACGAAAAATTTTTAAAACA-TGAG
1 AAAACACGAAAATTTTTGAAAACAAAATTTTCCTTGAAAACACG--AAATTTTTAAAACACCG-G
*
23943648 AATTTTAG
63 AATTTTTG
* ** *
23943656 -AGACACGAAAATTCTTAAAAATACCAAAA-TTT--TTGAAAACACGGAAATTTTTAAAACACGG
1 AAAACACGAAAATT-TTTGAAA-A-CAAAATTTTCCTTGAAAACAC-GAAATTTTTAAAACACCG
23943717 GAATTTTTTG
62 GAA-TTTTTG
* * * **
23943727 AAAACATGAAAATTTTT-TAAACAAATTTTTTTTTGAAAACACGAAAATTTTTAAAACACCGGAA
1 AAAACACGAAAATTTTTGAAAACAAAATTTTCCTTGAAAACACG-AAATTTTTAAAACACCGGAA
23943791 TTTTTG
65 TTTTTG
** ** * *
23943797 AAAACACGAGGATTTTTGAAACACAAAATTTTCCTTGAAAACAC-AAATTTTTTTTATCACCAGA
1 AAAACACGAAAATTTTTGAAA-ACAAAATTTTCCTTGAAAACACGAAA-TTTTTAAAACACCGGA
*
23943861 AATTTTG
64 ATTTTTG
* * *
23943868 AAAACACGAAAATTTTTGAAATATCGAAA-TTT--TTGAAAACGCGGAAATTTATAAAACA-CGG
1 AAAACACGAAAATTTTTGAAA-A-CAAAATTTTCCTTGAAAACAC-GAAATTTTTAAAACACCGG
23943929 AA
63 AA
23943931 AAATTTTTTC
Statistics
Matches: 219, Mismatches: 36, Indels: 38
0.75 0.12 0.13
Matches are distributed among these distances:
66 11 0.05
67 2 0.01
68 6 0.03
69 18 0.08
70 51 0.23
71 94 0.43
72 37 0.17
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.32
Consensus pattern (70 bp):
AAAACACGAAAATTTTTGAAAACAAAATTTTCCTTGAAAACACGAAATTTTTAAAACACCGGAAT
TTTTG
Found at i:23943981 original size:57 final size:55
Alignment explanation
Indices: 23943893--23944019 Score: 159
Period size: 57 Copynumber: 2.3 Consensus size: 55
23943883 TTGAAATATC
*
23943893 GAAATTTTTGAAAACGCGGAAATTTATAAAACACGGAAAAATTTTTTCTGAAAACAA
1 GAAAATTTTGAAAACGCGGAAATTTATAAAACAC-GAAAAATTTTTT-TGAAAACAA
* * *
23943950 GAAAATTTTGAAATACG-GG-AATTTTTGAAAACACGAGAAATTTTTTTGAAAACAC
1 GAAAATTTTGAAA-ACGCGGAAATTTAT-AAAACACGAAAAATTTTTTTGAAAACAA
*
23944005 GAAAATTTTTAAAAC
1 GAAAATTTTGAAAAC
23944020 ACAATTTTAT
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
54 2 0.03
55 20 0.32
56 17 0.27
57 21 0.33
58 3 0.05
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.30
Consensus pattern (55 bp):
GAAAATTTTGAAAACGCGGAAATTTATAAAACACGAAAAATTTTTTTGAAAACAA
Found at i:23943996 original size:21 final size:20
Alignment explanation
Indices: 23943863--23944014 Score: 82
Period size: 17 Copynumber: 8.1 Consensus size: 20
23943853 TCACCAGAAA
23943863 TTTTGAAAACACGAAAA--T
1 TTTTGAAAACACGAAAATTT
*
23943881 TTTTGAAATA-TCG-AAA--T
1 TTTTGAAA-ACACGAAAATTT
* *
23943898 TTTTGAAAACGCGGAAA--T
1 TTTTGAAAACACGAAAATTT
*
23943916 TTAT-AAAACACGGAAAAATTT
1 TTTTGAAAACAC-G-AAAATTT
*
23943937 TTTCTGAAAACAAGAAAA---
1 TTT-TGAAAACACGAAAATTT
* **
23943955 TTTTG-AAATACGGGAA--T
1 TTTTGAAAACACGAAAATTT
23943972 TTTTGAAAACACGAGAAATTT
1 TTTTGAAAACACGA-AAATTT
23943993 TTTTGAAAACACGAAAATTT
1 TTTTGAAAACACGAAAATTT
23944013 TT
1 TT
23944015 AAAACACAAT
Statistics
Matches: 106, Mismatches: 14, Indels: 26
0.73 0.10 0.18
Matches are distributed among these distances:
16 8 0.08
17 27 0.25
18 27 0.25
19 6 0.06
20 8 0.08
21 22 0.21
22 2 0.02
23 6 0.06
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (20 bp):
TTTTGAAAACACGAAAATTT
Found at i:23944159 original size:16 final size:17
Alignment explanation
Indices: 23944117--23944163 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
23944107 TTATTATTAT
23944117 TTTTGAAACACGAGAAA
1 TTTTGAAACACGAGAAA
*
23944134 TTTTGAAAACATGA-AAA
1 TTTTG-AAACACGAGAAA
23944151 TTTTGAAACACGA
1 TTTTGAAACACGA
23944164 TTAGTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 7 0.26
17 13 0.48
18 7 0.26
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.28
Consensus pattern (17 bp):
TTTTGAAACACGAGAAA
Found at i:23944983 original size:9 final size:9
Alignment explanation
Indices: 23944956--23945022 Score: 59
Period size: 9 Copynumber: 7.4 Consensus size: 9
23944946 GTCGACAGAC
23944956 TCTTTTTGTT
1 TCTTTTT-TT
23944966 T-TATTTTTT
1 TCT-TTTTTT
*
23944975 T-ATTTTTT
1 TCTTTTTTT
*
23944983 TC-CTTTTT
1 TCTTTTTTT
23944991 TCTTCTTTTT
1 TCTT-TTTTT
*
23945001 TCTTCTTTT
1 TCTTTTTTT
23945010 TCTTTTTTT
1 TCTTTTTTT
23945019 TCTT
1 TCTT
23945023 CTCCTTCGTT
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
8 14 0.29
9 20 0.42
10 14 0.29
ACGTcount: A:0.03, C:0.13, G:0.01, T:0.82
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:23944990 original size:10 final size:10
Alignment explanation
Indices: 23944985--23945024 Score: 66
Period size: 9 Copynumber: 4.2 Consensus size: 10
23944975 TATTTTTTTC
23944985 CTTTTTTCTT
1 CTTTTTTCTT
23944995 CTTTTTTCTT
1 CTTTTTTCTT
23945005 C-TTTTTCTT
1 CTTTTTTCTT
23945014 -TTTTTTCTT
1 CTTTTTTCTT
23945023 CT
1 CT
23945025 CCTTCGTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 16 0.57
10 12 0.43
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
CTTTTTTCTT
Found at i:23944991 original size:19 final size:19
Alignment explanation
Indices: 23944969--23945028 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
23944959 TTTTGTTTTA
*
23944969 TTTTTTTATTTTTT-TCCT
1 TTTTTTTTTTTTTTCTCCT
* *
23944987 TTTTTCTTCTTTTTTCTTCT
1 TTTTT-TTTTTTTTTCTCCT
23945007 TTTTCTTTTTTTTCTTCTCCT
1 TTTT-TTTTTTTT-TTCTCCT
23945028 T
1 T
23945029 CGTTCAGCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
18 5 0.15
19 8 0.24
20 13 0.38
21 8 0.24
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTTTTTTTTTTCTCCT
Found at i:23945018 original size:8 final size:8
Alignment explanation
Indices: 23944964--23945018 Score: 56
Period size: 8 Copynumber: 6.5 Consensus size: 8
23944954 ACTCTTTTTG
*
23944964 TTTTATTT
1 TTTTCTTT
*
23944972 TTTTATTT
1 TTTTCTTT
*
23944980 TTTTCCTT
1 TTTTCTTT
23944988 TTTTCTTCTT
1 TTTTC-T-TT
23944998 TTTTCTTCT
1 TTTTCTT-T
23945007 TTTTCTTT
1 TTTTCTTT
23945015 TTTT
1 TTTT
23945019 TCTTCTCCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
8 25 0.61
9 9 0.22
10 7 0.17
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTCTTT
Found at i:23945019 original size:18 final size:18
Alignment explanation
Indices: 23944977--23945024 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
23944967 TATTTTTTTA
*
23944977 TTTTTTTCCT-TTTTTCT
1 TTTTTTTCTTCTTTTTCT
23944994 TCTTTTTTCTTCTTTTTCT
1 T-TTTTTTCTTCTTTTTCT
23945013 TTTTTTTCTTCT
1 TTTTTTTCTTCT
23945025 CCTTCGTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 1 0.04
18 19 0.68
19 8 0.29
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTTTTCTTCTTTTTCT
Found at i:23945561 original size:30 final size:29
Alignment explanation
Indices: 23945540--23945700 Score: 205
Period size: 30 Copynumber: 5.4 Consensus size: 29
23945530 TTTGGGGCCG
* *
23945540 AAATGTAATTTTGATAAAGTTTAAGGGTCA
1 AAATGTAATTTTGA-AAATTTTAGGGGTCA
** *
23945570 AAATGTAATTTCAAGAAATTTTAAGGGTCA
1 AAATGTAATTTTGA-AAATTTTAGGGGTCA
* **
23945600 AAATGTAATTTAGAAAATTTTAGGGGTTG
1 AAATGTAATTTTGAAAATTTTAGGGGTCA
*
23945629 AAATGTAATTTTGAAAAAGTTTAGGGGTCA
1 AAATGTAATTTTG-AAAATTTTAGGGGTCA
23945659 AAATGTAATTTTAGAAAATTTTAGGGGTCA
1 AAATGTAATTTT-GAAAATTTTAGGGGTCA
23945689 AAATGTAATTTT
1 AAATGTAATTTT
23945701 TTTAAACACG
Statistics
Matches: 115, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
29 24 0.21
30 90 0.78
31 1 0.01
ACGTcount: A:0.40, C:0.03, G:0.20, T:0.37
Consensus pattern (29 bp):
AAATGTAATTTTGAAAATTTTAGGGGTCA
Found at i:23945609 original size:60 final size:58
Alignment explanation
Indices: 23945540--23945699 Score: 212
Period size: 59 Copynumber: 2.7 Consensus size: 58
23945530 TTTGGGGCCG
* * *
23945540 AAATGTAATTTTGATAAAGTTTAAGGGTCAAAATGTAATTTCAAGAAATTTTAAGGGTCA
1 AAATGTAATTTTGA-AAATTTTAGGGGTCAAAATGTAATTTCAA-AAAGTTTAAGGGTCA
* ** * *
23945600 AAATGTAATTTAGAAAATTTTAGGGGTTGAAATGTAATTTTGAAAAAGTTTAGGGGTCA
1 AAATGTAATTTTGAAAATTTTAGGGGTCAAAATGTAA-TTTCAAAAAGTTTAAGGGTCA
23945659 AAATGTAATTTTAGAAAATTTTAGGGGTCAAAATGTAATTT
1 AAATGTAATTTT-GAAAATTTTAGGGGTCAAAATGTAATTT
23945700 TTTTAAACAC
Statistics
Matches: 87, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
59 46 0.53
60 41 0.47
ACGTcount: A:0.41, C:0.03, G:0.20, T:0.36
Consensus pattern (58 bp):
AAATGTAATTTTGAAAATTTTAGGGGTCAAAATGTAATTTCAAAAAGTTTAAGGGTCA
Found at i:23949508 original size:26 final size:26
Alignment explanation
Indices: 23949459--23949524 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
23949449 CATTCCAACC
* *
23949459 CACAGCTCATGTAAGCAGACCCATTT
1 CACAGCTCGTGTGAGCAGACCCATTT
*
23949485 TAC-GACTCGTGTGAGCAGACCCATTT
1 CACAG-CTCGTGTGAGCAGACCCATTT
23949511 CACAGCTCGTGTGA
1 CACAGCTCGTGTGA
23949525 ACACTATTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
25 1 0.03
26 32 0.94
27 1 0.03
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAGACCCATTT
Found at i:23949663 original size:16 final size:17
Alignment explanation
Indices: 23949642--23949682 Score: 75
Period size: 16 Copynumber: 2.5 Consensus size: 17
23949632 AATGGCATGA
23949642 TATTTATACAATTGGG-
1 TATTTATACAATTGGGT
23949658 TATTTATACAATTGGGT
1 TATTTATACAATTGGGT
23949675 TATTTATA
1 TATTTATA
23949683 ACCCCAGTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 16 0.67
17 8 0.33
ACGTcount: A:0.32, C:0.05, G:0.15, T:0.49
Consensus pattern (17 bp):
TATTTATACAATTGGGT
Found at i:23950001 original size:18 final size:18
Alignment explanation
Indices: 23949978--23950014 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
23949968 TCATCATTAT
23949978 TATTAGTATTAT-TATTTA
1 TATTAGT-TTATATATTTA
23949996 TATTAGTTTATATATTTA
1 TATTAGTTTATATATTTA
23950014 T
1 T
23950015 CAACATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TATTAGTTTATATATTTA
Found at i:23950205 original size:17 final size:17
Alignment explanation
Indices: 23950185--23950218 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
23950175 ATACATACAT
23950185 TTTTTTAAAAAAAGAAA
1 TTTTTTAAAAAAAGAAA
23950202 TTTTTTAAAAAAAGAAA
1 TTTTTTAAAAAAAGAAA
23950219 AAAAAACCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (17 bp):
TTTTTTAAAAAAAGAAA
Found at i:23951868 original size:26 final size:26
Alignment explanation
Indices: 23951812--23951873 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
23951802 CCAACCCACA
* *
23951812 ACTCATGTAAGCAGACCCATTTCACG
1 ACTCGTGTGAGCAGACCCATTTCACG
23951838 ACTCGTGTGAGCAGACCCATTTCAC-
1 ACTCGTGTGAGCAGACCCATTTCACG
23951863 AGCTCGTGTGA
1 A-CTCGTGTGA
23951874 ACACTATTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
25 1 0.03
26 32 0.97
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (26 bp):
ACTCGTGTGAGCAGACCCATTTCACG
Found at i:23953125 original size:27 final size:25
Alignment explanation
Indices: 23953094--23953154 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 25
23953084 TATTTATTTG
23953094 ATTAAATTATAGAATAAAAATTTAAAT
1 ATTAAATTA-AGAATAAAAA-TTAAAT
* *
23953121 ATTAAAATTAAGTATATAAATTAAAT
1 ATT-AAATTAAGAATAAAAATTAAAT
*
23953147 CTTAAATT
1 ATTAAATT
23953155 TGAACAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 5 0.17
26 8 0.27
27 11 0.37
28 6 0.20
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (25 bp):
ATTAAATTAAGAATAAAAATTAAAT
Found at i:23953151 original size:26 final size:28
Alignment explanation
Indices: 23953097--23953152 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 28
23953087 TTATTTGATT
23953097 AAATTATAGAATAAAAATTTAAATATTA
1 AAATTATAGAATAAAAATTTAAATATTA
* * *
23953125 AAATTA-AGTATATAAA-TTAAATCTTA
1 AAATTATAGAATAAAAATTTAAATATTA
23953151 AA
1 AA
23953153 TTTGAACAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 11 0.44
27 8 0.32
28 6 0.24
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.36
Consensus pattern (28 bp):
AAATTATAGAATAAAAATTTAAATATTA
Found at i:23956084 original size:100 final size:98
Alignment explanation
Indices: 23955881--23956110 Score: 424
Period size: 100 Copynumber: 2.3 Consensus size: 98
23955871 CTAAATGAAG
*
23955881 CATTAAATTTATAACACATTTGTTAGCAGTATCTGTCATTATATACATACATGGACTTATGTGAC
1 CATTAAATTTATAACACATTTGTTAGCAGTATCTGACATTATATACATACATGGACTTATGTGAC
*
23955946 TTATAGGACTTTAATGTTTTATTTACATACATA
66 TTATAGGACTTTAATGTTTTATATACATACATA
23955979 CATTAAATTTATAACACATTTGTTAGCAGTATCTGACATTATATACATACATGTGGACTTATGTG
1 CATTAAATTTATAACACATTTGTTAGCAGTATCTGACATTATATACATACA--TGGACTTATGTG
23956044 ACTTATAGGACTTTAATGTTTTATATACATACATA
64 ACTTATAGGACTTTAATGTTTTATATACATACATA
23956079 CATTAAATTTATAACACATTTGTTAGCAGTAT
1 CATTAAATTTATAACACATTTGTTAGCAGTAT
23956111 TTGTTAGACA
Statistics
Matches: 128, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
98 50 0.39
100 78 0.61
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (98 bp):
CATTAAATTTATAACACATTTGTTAGCAGTATCTGACATTATATACATACATGGACTTATGTGAC
TTATAGGACTTTAATGTTTTATATACATACATA
Found at i:23958763 original size:39 final size:39
Alignment explanation
Indices: 23958697--23958772 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 39
23958687 CATTTAATTA
* * *
23958697 ATTTTTTAAATTTAAAAAATCAAAAAATTATAAAAAAAT
1 ATTTTTAAAAATTAAAAAATCAAAAAATCATAAAAAAAT
* *
23958736 ATTTTTAAAAATT-AAAAATCATTAAAATCATTAAAAA
1 ATTTTTAAAAATTAAAAAATCA-AAAAATCATAAAAAA
23958773 TATAAAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 8 0.26
39 23 0.74
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (39 bp):
ATTTTTAAAAATTAAAAAATCAAAAAATCATAAAAAAAT
Found at i:23958787 original size:27 final size:26
Alignment explanation
Indices: 23958740--23958815 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 26
23958730 AAAAATATTT
*
23958740 TTAAAAATTAAAAATCATTAAAATCA
1 TTAAAAATTAAAAATAATTAAAATCA
* *
23958766 TTAAAAATATAAAAA-AATTTAATATTA
1 TTAAAAAT-TAAAAATAA-TTAAAATCA
**
23958793 TTAAATTTTAAAAAATAATTAAA
1 TTAAAAATT-AAAAATAATTAAA
23958816 TATTGATGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
26 10 0.25
27 28 0.70
28 2 0.05
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (26 bp):
TTAAAAATTAAAAATAATTAAAATCA
Found at i:23964414 original size:50 final size:50
Alignment explanation
Indices: 23964360--23964498 Score: 125
Period size: 50 Copynumber: 2.8 Consensus size: 50
23964350 TGCAATGTTG
* * * *
23964360 GGGAAACCAGATTCGCCGTCGTAGCTTCAATCTGTTCCACCGCACCGTCA
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACCACAACATCA
*** * * * * * ** ** *
23964410 GGGAAGTAAGATCCGCTGTTGTGGCTTCATTCTTTTTAATTACAATATCA
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACCACAACATCA
23964460 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCA
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCA
23964499 TTGCACTGCT
Statistics
Matches: 62, Mismatches: 27, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
50 62 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.28
Consensus pattern (50 bp):
GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACCACAACATCA
Found at i:23964478 original size:100 final size:100
Alignment explanation
Indices: 23964360--23964573 Score: 313
Period size: 100 Copynumber: 2.1 Consensus size: 100
23964350 TGCAATGTTG
* * *
23964360 GGGAAACCAGATTCGCCGTCGTAGCTTCAATCTGTTCCACCGCACCG-TCAGGGAAGTAAGATCC
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACCGCACCGCT-AAGGAAATAAGATCC
* *
23964424 GCTGTTGTGGCTTCATTCTTTTTAATTACAATATCA
65 GCAGTTGTGGCTTCAATCTTTTTAATTACAATATCA
** * * *
23964460 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCATTGCACTGCTAAGGAAATAATATCTG
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACCGCACCGCTAAGGAAATAAGATCCG
*
23964525 CAGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
66 CAGTTGTGGCTTCAATCTTTTTAATTACAATATCA
23964560 GGGAAACCAGATCC
1 GGGAAACCAGATCC
23964574 TACTCCGCTG
Statistics
Matches: 102, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
100 101 0.99
101 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (100 bp):
GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACCGCACCGCTAAGGAAATAAGATCCG
CAGTTGTGGCTTCAATCTTTTTAATTACAATATCA
Found at i:23964565 original size:50 final size:50
Alignment explanation
Indices: 23964407--23964565 Score: 149
Period size: 50 Copynumber: 3.2 Consensus size: 50
23964397 CACCGCACCG
* * * *
23964407 TCAGGGAAGTAAGATCCGCTGTTGTGGCTTCATTCTTTTTAATTACAATA
1 TCAGGGAAATAAGATCCGCAGTTGTGGCTTCAATCTTTTTAATTGCAATA
** * * * * ** *
23964457 TCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCATTGCACT-
1 TCAGGGAAATAAGATCCGCAGTTGTGGCTTCAATCTTTTTAATTGCAATA
* * * *
23964506 GCTAAGGAAATAATATCTGCAGTTGTGGCTTCAATCTTTTTAATTGCAATA
1 TC-AGGGAAATAAGATCCGCAGTTGTGGCTTCAATCTTTTTAATTGCAATA
23964557 TCAGGGAAA
1 TCAGGGAAA
23964566 CCAGATCCTA
Statistics
Matches: 80, Mismatches: 27, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
49 1 0.01
50 78 0.98
51 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (50 bp):
TCAGGGAAATAAGATCCGCAGTTGTGGCTTCAATCTTTTTAATTGCAATA
Found at i:23964640 original size:82 final size:82
Alignment explanation
Indices: 23964503--23964655 Score: 245
Period size: 82 Copynumber: 1.9 Consensus size: 82
23964493 GTTCCATTGC
* * * *
23964503 ACTGCTAAGGAAATAATATCTGCAGTTGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACC
1 ACTGCTAAGGAAATAAGATCCGCAGTTGTGGCTTCAATCTTTTAAATCGCAATATCAGGGAAACC
23964568 AGATCCTACTCCGCTGT
66 AGATCCTACTCCGCTGT
*
23964585 ACTGCTAAGGAAGTAAGATCCGTC-GTTGTGGCTTCAATCTTTTAAATCGCAATATCAGGGAAAC
1 ACTGCTAAGGAAATAAGATCCG-CAGTTGTGGCTTCAATCTTTTAAATCGCAATATCAGGGAAAC
23964649 CAGATCC
65 CAGATCC
23964656 GCCGTCGTAG
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
82 64 0.98
83 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (82 bp):
ACTGCTAAGGAAATAAGATCCGCAGTTGTGGCTTCAATCTTTTAAATCGCAATATCAGGGAAACC
AGATCCTACTCCGCTGT
Found at i:23964704 original size:50 final size:50
Alignment explanation
Indices: 23964650--23964921 Score: 169
Period size: 50 Copynumber: 5.4 Consensus size: 50
23964640 CAGGGAAACC
*
23964650 AGATCCGCCGTCGTAGCTTCAATCTGCTCCGCTGTACTGCTAAGGAAGTA
1 AGATCCGCCGTCGTAGCTTCAATCTGCTCCGCTGTACTGCTAAGGAAATA
* * * ** * ** * **
23964700 AGATCCGCTGTTGTGGCTTCAATCTTTTAAATCGCAATA-T-C-AGGGAAACC
1 AGATCCGCCGTCGTAGCTTCAATCTGCT---CCGCTGTACTGCTAAGGAAATA
* *
23964750 AGATCCGCTGTCATAGCTTCAATCTGCTCCGCTGTACTGCTAAGGAAATA
1 AGATCCGCCGTCGTAGCTTCAATCTGCTCCGCTGTACTGCTAAGGAAATA
* * * ** * ** * **
23964800 AGATCCGCTGTTGTGGCTTCAATCTTTTAAATCGCAATA-T-C-AGGGAAACC
1 AGATCCGCCGTCGTAGCTTCAATCTGCT---CCGCTGTACTGCTAAGGAAATA
* * * *
23964850 AGATCCACCGTCGTAGCTTTAATCTGCTCCACTGTACTGCTAAGGAAGTA
1 AGATCCGCCGTCGTAGCTTCAATCTGCTCCGCTGTACTGCTAAGGAAATA
* *
23964900 AGATCCGCCGTTGTGGCTTCAA
1 AGATCCGCCGTCGTAGCTTCAA
23964922 NNNNNNNNNN
Statistics
Matches: 157, Mismatches: 53, Indels: 24
0.67 0.23 0.10
Matches are distributed among these distances:
47 9 0.06
48 2 0.01
49 2 0.01
50 130 0.83
51 2 0.01
52 2 0.01
53 10 0.06
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.28
Consensus pattern (50 bp):
AGATCCGCCGTCGTAGCTTCAATCTGCTCCGCTGTACTGCTAAGGAAATA
Found at i:23964749 original size:100 final size:100
Alignment explanation
Indices: 23964576--23964921 Score: 613
Period size: 100 Copynumber: 3.5 Consensus size: 100
23964566 CCAGATCCTA
23964576 CTCCGCTGTACTGCTAAGGAAGTAAGATCCG-TCGTTGTGGCTTCAATCTTTTAAATCGCAATAT
1 CTCCGCTGTACTGCTAAGGAAGTAAGATCCGCT-GTTGTGGCTTCAATCTTTTAAATCGCAATAT
23964640 CAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTG
65 CAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTG
23964676 CTCCGCTGTACTGCTAAGGAAGTAAGATCCGCTGTTGTGGCTTCAATCTTTTAAATCGCAATATC
1 CTCCGCTGTACTGCTAAGGAAGTAAGATCCGCTGTTGTGGCTTCAATCTTTTAAATCGCAATATC
* *
23964741 AGGGAAACCAGATCCGCTGTCATAGCTTCAATCTG
66 AGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTG
*
23964776 CTCCGCTGTACTGCTAAGGAAATAAGATCCGCTGTTGTGGCTTCAATCTTTTAAATCGCAATATC
1 CTCCGCTGTACTGCTAAGGAAGTAAGATCCGCTGTTGTGGCTTCAATCTTTTAAATCGCAATATC
* *
23964841 AGGGAAACCAGATCCACCGTCGTAGCTTTAATCTG
66 AGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTG
* *
23964876 CTCCACTGTACTGCTAAGGAAGTAAGATCCGCCGTTGTGGCTTCAA
1 CTCCGCTGTACTGCTAAGGAAGTAAGATCCGCTGTTGTGGCTTCAA
23964922 NNNNNNNNNN
Statistics
Matches: 235, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
100 234 1.00
101 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (100 bp):
CTCCGCTGTACTGCTAAGGAAGTAAGATCCGCTGTTGTGGCTTCAATCTTTTAAATCGCAATATC
AGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTG
Found at i:23974140 original size:263 final size:263
Alignment explanation
Indices: 23973667--23974193 Score: 757
Period size: 263 Copynumber: 2.0 Consensus size: 263
23973657 GTTCAGAGCC
* *
23973667 GTGGTACAGGGTATGATAGATAATAAGGAGATGGAATTTTGTGAAGGAGTTCAGAAGGAGAGCCA
1 GTGGTACAGGGTATGATAGATAATAAGGAGATGGAATTTTGTGAAGGAATTCAGAAGGAGAACCA
* * *
23973732 TGTATGTACGTCAGAATTGGCATTGGGAGTTCCAAAGGCTAACCATCCTGTGGTCATCATCTCAC
66 TGTATGCACGTCAGAATTGGCATTGGGAGTCCCAAAGGCTAACCATCATGTGGTCATCATCTCAC
* * * * *
23973797 GACCTAAGAATAGTGAGGCTGGAGCTCGAATAACACCAAAAGTAATCATTTAAAAACCGGCTGTG
131 GACCTAAGAACAGTGAGGCTGGAGCACGAATAACACCAAAAGTAATCATTCAAAAACCGACCGTG
* * * * *
23973862 TTTGCTTATAAGGATAACAGGATGGTTCTTTGGAATTACGATTGTAATGTGACAATCCCGGGGAA
196 TTTACTTACAAGGATAACAGGAGGGTTCCTTGGAATTACAATTGTAATGTGACAATCCCGGGGAA
23973927 GGA
261 GGA
* * * *
23973930 GTGGTACAGGGTATGATGGATAATAAGGAGGTGGAATTTTGTGAAGGAATTCAGAGGGAGAATCA
1 GTGGTACAGGGTATGATAGATAATAAGGAGATGGAATTTTGTGAAGGAATTCAGAAGGAGAACCA
* * ** * * * *
23973995 TGTATGCACGTCAGAGTTGGCGTTGGGAGTCCCGGAGGCTAACCGTCATGTGGTTATCATTTCGC
66 TGTATGCACGTCAGAATTGGCATTGGGAGTCCCAAAGGCTAACCATCATGTGGTCATCATCTCAC
* * * ** *
23974060 GACCTCAGAACAGTGAGGTTGGGGCACGAATAACACCAACGGTTATCATTCAAAAACCGACCGTG
131 GACCTAAGAACAGTGAGGCTGGAGCACGAATAACACCAAAAGTAATCATTCAAAAACCGACCGTG
23974125 TTTACTTACAAGGATAACAGGAGGGTTCCTTGGAATTACAATTGTAATGTGACAATCCCGGGGAA
196 TTTACTTACAAGGATAACAGGAGGGTTCCTTGGAATTACAATTGTAATGTGACAATCCCGGGGAA
23974190 GGA
261 GGA
23974193 G
1 G
23974194 GACGTGATTA
Statistics
Matches: 231, Mismatches: 33, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
263 231 1.00
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.25
Consensus pattern (263 bp):
GTGGTACAGGGTATGATAGATAATAAGGAGATGGAATTTTGTGAAGGAATTCAGAAGGAGAACCA
TGTATGCACGTCAGAATTGGCATTGGGAGTCCCAAAGGCTAACCATCATGTGGTCATCATCTCAC
GACCTAAGAACAGTGAGGCTGGAGCACGAATAACACCAAAAGTAATCATTCAAAAACCGACCGTG
TTTACTTACAAGGATAACAGGAGGGTTCCTTGGAATTACAATTGTAATGTGACAATCCCGGGGAA
GGA
Found at i:23980700 original size:50 final size:50
Alignment explanation
Indices: 23980644--23980976 Score: 151
Period size: 50 Copynumber: 6.7 Consensus size: 50
23980634 ACAGCGGAGC
*
23980644 AGATTGAAGCTATGACAGCGGATCTGGTTTCCCTGATATTGCGATTTAAA
1 AGATTGAAGCTACGACAGCGGATCTGGTTTCCCTGATATTGCGATTTAAA
* * *** * ** * **
23980694 AGATTGAAGCCACAACAGCGGATCTTACTTCCTTAGCAGTACAGCG---GAGC
1 AGATTGAAGCTACGACAGCGGATCTGGTTTCCCT-G-A-TATTGCGATTTAAA
*
23980744 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCGATTTAAA
1 AGATTGAAGCTACGACAGCGGATCTGGTTTCCCTGATATTGCGATTTAAA
* * * * ** *** * ** *
23980794 GGATTGAAGCCACAACGGTAGATCTTACTTCCTTAGCAGTACAGCGGA-GT---
1 AGATTGAAGCTACGACAGCGGATCTGGTTTCCCT-G-A-TATTGC-GATTTAAA
** * *
23980844 AGATTGAAGCTACGATGGCGGATCTGGTTTCCCTGATCTTACGATTTAAA
1 AGATTGAAGCTACGACAGCGGATCTGGTTTCCCTGATATTGCGATTTAAA
* * *** *** * **
23980894 AGATTGAAGCCACGACGGCGGATCTTACTTCCCTGACGGTGCGGTGGAACA
1 AGATTGAAGCTACGACAGCGGATCTGGTTTCCCTGATATTGCGATTTAA-A
* *
23980945 A-ATTGAAGCTACGACGGCGGATTTGGTTTCCC
1 AGATTGAAGCTACGACAGCGGATCTGGTTTCCC
23980977 CAACATTGCA
Statistics
Matches: 200, Mismatches: 68, Indels: 30
0.67 0.23 0.10
Matches are distributed among these distances:
46 2 0.01
47 8 0.04
48 2 0.01
49 2 0.01
50 168 0.84
51 4 0.02
52 2 0.01
53 10 0.05
54 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCTACGACAGCGGATCTGGTTTCCCTGATATTGCGATTTAAA
Found at i:23980784 original size:100 final size:100
Alignment explanation
Indices: 23980611--23980976 Score: 545
Period size: 100 Copynumber: 3.7 Consensus size: 100
23980601 NNNNNNNNNN
* *
23980611 GCGGATCTTACTTCCTTAGCAGTACAGCGGAGCAGATTGAAGCTATGACAGCGGATCTGGTTTCC
1 GCGGATCTTACTTCCTTAGCAGTACAGCGGAGCAGATTGAAGCTACGACGGCGGATCTGGTTTCC
*
23980676 CTGATATTGCGATTTAAAAGATTGAAGCCACAACA
66 CTGATATTGCGATTTAAAAGATTGAAGCCACAACG
23980711 GCGGATCTTACTTCCTTAGCAGTACAGCGGAGCAGATTGAAGCTACGACGGCGGATCTGGTTTCC
1 GCGGATCTTACTTCCTTAGCAGTACAGCGGAGCAGATTGAAGCTACGACGGCGGATCTGGTTTCC
*
23980776 CTGATATTGCGATTTAAAGGATTGAAGCCACAACG
66 CTGATATTGCGATTTAAAAGATTGAAGCCACAACG
** * *
23980811 GTAGATCTTACTTCCTTAGCAGTACAGCGGAGTAGATTGAAGCTACGATGGCGGATCTGGTTTCC
1 GCGGATCTTACTTCCTTAGCAGTACAGCGGAGCAGATTGAAGCTACGACGGCGGATCTGGTTTCC
* * *
23980876 CTGATCTTACGATTTAAAAGATTGAAGCCACGACG
66 CTGATATTGCGATTTAAAAGATTGAAGCCACAACG
* * * * * * * *
23980911 GCGGATCTTACTTCCCT-GACGGTGCGGTGGAACAAATTGAAGCTACGACGGCGGATTTGGTTTC
1 GCGGATCTTACTTCCTTAG-CAGTACAGCGGAGCAGATTGAAGCTACGACGGCGGATCTGGTTTC
23980975 CC
65 CC
23980977 CAACATTGCA
Statistics
Matches: 241, Mismatches: 24, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
99 1 0.00
100 240 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (100 bp):
GCGGATCTTACTTCCTTAGCAGTACAGCGGAGCAGATTGAAGCTACGACGGCGGATCTGGTTTCC
CTGATATTGCGATTTAAAAGATTGAAGCCACAACG
Found at i:23988492 original size:23 final size:23
Alignment explanation
Indices: 23988466--23988565 Score: 139
Period size: 23 Copynumber: 4.3 Consensus size: 23
23988456 ATAAGTGTCA
*
23988466 CACTGATGTGTAGCCAAAGCTAC
1 CACTGATATGTAGCCAAAGCTAC
*
23988489 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCAAAGCTAC
**
23988512 CACTG-TAATGTAGCCGTAGCTAC
1 CACTGAT-ATGTAGCCAAAGCTAC
*
23988535 CACTGAAATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCAAAGCTAC
23988558 CACTGATA
1 CACTGATA
23988566 AATAACACTG
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
22 1 0.01
23 67 0.99
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCAAAGCTAC
Found at i:23993072 original size:26 final size:26
Alignment explanation
Indices: 23993043--23993102 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
23993033 CATTCCAACC
*
23993043 CACAGCTCATGTAAGCAGACCCATTT
1 CACAACTCATGTAAGCAGACCCATTT
** *
23993069 CACAACTTGTGTGAGCAGACCCATTT
1 CACAACTCATGTAAGCAGACCCATTT
23993095 CACAACTC
1 CACAACTC
23993103 GTGTGAACAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.32, G:0.15, T:0.23
Consensus pattern (26 bp):
CACAACTCATGTAAGCAGACCCATTT
Found at i:23993106 original size:26 final size:26
Alignment explanation
Indices: 23993056--23993108 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
23993046 AGCTCATGTA
*
23993056 AGCAGACCCATTTCACAACTTGTGTG
1 AGCAGACCCATTTCACAACTCGTGTG
23993082 AGCAGACCCATTTCACAACTCGTGTG
1 AGCAGACCCATTTCACAACTCGTGTG
23993108 A
1 A
23993109 ACACTATTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (26 bp):
AGCAGACCCATTTCACAACTCGTGTG
Found at i:23998299 original size:14 final size:14
Alignment explanation
Indices: 23998271--23998320 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
23998261 TCTAAATATT
**
23998271 AATATTAAATATTA
1 AATATTAAACCTTA
*
23998285 AATGTTAAACCTTA
1 AATATTAAACCTTA
* *
23998299 AATTTTAAACCCTA
1 AATATTAAACCTTA
23998313 AATATTAA
1 AATATTAA
23998321 CCCAAAAGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (14 bp):
AATATTAAACCTTA
Found at i:24004544 original size:16 final size:17
Alignment explanation
Indices: 24004509--24004542 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
24004499 TATATTTAAT
24004509 ATATATTTGATTAAAAA
1 ATATATTTGATTAAAAA
24004526 ATATATTTGATTAAAAA
1 ATATATTTGATTAAAAA
24004543 TAAAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
ATATATTTGATTAAAAA
Found at i:24005407 original size:22 final size:22
Alignment explanation
Indices: 24005365--24005407 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
24005355 TGATGTTGTT
*
24005365 TTGCTATCATTTTGTTATTATA
1 TTGCTATCATTTTATTATTATA
*
24005387 TTGCTA-CTATTTTATTGTTAT
1 TTGCTATC-ATTTTATTATTAT
24005408 TGTTCGGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.21, C:0.09, G:0.09, T:0.60
Consensus pattern (22 bp):
TTGCTATCATTTTATTATTATA
Found at i:24007039 original size:3 final size:3
Alignment explanation
Indices: 24007016--24007064 Score: 75
Period size: 3 Copynumber: 17.0 Consensus size: 3
24007006 ATATTACACC
*
24007016 ATT AAT ATT A-T ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
24007062 ATT
1 ATT
24007065 TCCTCATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 4 0.10
3 38 0.90
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:24009061 original size:46 final size:45
Alignment explanation
Indices: 24008954--24009354 Score: 433
Period size: 46 Copynumber: 9.6 Consensus size: 45
24008944 TACGTATGAT
* *
24008954 CACTTATCAC-TTGTCTCTT-ATCAGATAAGTGTAGCT-AGGCTA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
* *
24008996 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAACTA
1 -CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
24009042 CCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
1 -CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
* *
24009088 TCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAACTA
1 -CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
24009134 CCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT-
1 -CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
*
24009179 -A---A-CAC-TTATCACTTGATCAGATAAGTGTAG-------T-
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
24009210 -ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT-
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
*
24009253 -A---A-CAC-TTATCACTTGATCAGATAAGTGTAG-------T-
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
24009284 -ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
24009328 CCACTTATCACTTTGTCAC-TGATCAGA
1 -CACTTATCACTTTGTCACTTGATCAGA
24009355 AGTACTCAAA
Statistics
Matches: 312, Mismatches: 16, Indels: 58
0.81 0.04 0.15
Matches are distributed among these distances:
31 4 0.01
34 2 0.01
35 6 0.02
36 48 0.15
38 48 0.15
39 6 0.02
40 2 0.01
43 14 0.04
44 7 0.02
45 25 0.08
46 150 0.48
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.34
Consensus pattern (45 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
Found at i:24009108 original size:92 final size:83
Alignment explanation
Indices: 24009043--24009354 Score: 392
Period size: 74 Copynumber: 3.9 Consensus size: 83
24009033 CTAAAACTAC
24009043 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTATCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTATCACT
24009108 TGATCAGATAAGTGTAGCTAAAACT
66 TGATCAGATAAGTGTAG-------T
24009133 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGC--T-A---A-CAC-TTATCA
1 --CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTATCA
24009190 CTTGATCAGATAAGTGTAGT
64 CTTGATCAGATAAGTGTAGT
24009210 -ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGC--T-A---A-CAC-TTATCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTATCACT
24009266 TGATCAGATAAGTGTAGT
66 TGATCAGATAAGTGTAGT
* *
24009284 -ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCAC-
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTATCACT
24009347 TGATCAGA
66 TGATCAGA
24009355 AGTACTCAAA
Statistics
Matches: 210, Mismatches: 2, Indels: 27
0.88 0.01 0.11
Matches are distributed among these distances:
74 116 0.55
77 2 0.01
80 1 0.00
81 11 0.05
82 6 0.03
84 25 0.12
85 3 0.01
86 1 0.00
89 1 0.00
90 1 0.00
92 43 0.20
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.34
Consensus pattern (83 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTATCACT
TGATCAGATAAGTGTAGT
Found at i:24009234 original size:36 final size:38
Alignment explanation
Indices: 24009136--24009322 Score: 246
Period size: 38 Copynumber: 5.0 Consensus size: 38
24009126 TAAAACTACC
24009136 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-A
* *
24009175 AGC-TAACAC-TTATCACTTGATCAGATAAGTGTAG-T-
1 A-CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTA
24009210 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-A
* *
24009249 AGC-TAACAC-TTATCACTTGATCAGATAAGTGTAG-T-
1 A-CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTA
24009284 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTA
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTA
24009322 A
1 A
24009323 AGCTACCACT
Statistics
Matches: 129, Mismatches: 8, Indels: 23
0.81 0.05 0.14
Matches are distributed among these distances:
34 2 0.02
35 12 0.09
36 48 0.37
37 4 0.03
38 49 0.38
39 12 0.09
40 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (38 bp):
ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTA
Found at i:24009257 original size:74 final size:74
Alignment explanation
Indices: 24009136--24009340 Score: 401
Period size: 74 Copynumber: 2.8 Consensus size: 74
24009126 TAAAACTACC
24009136 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTGATCAGAT
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTGATCAGAT
24009201 AAGTGTAGT
66 AAGTGTAGT
24009210 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTGATCAGAT
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTGATCAGAT
24009275 AAGTGTAGT
66 AAGTGTAGT
*
24009284 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTT
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTT
24009341 TGTCACTGAT
Statistics
Matches: 130, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 130 1.00
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (74 bp):
ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTGATCAGAT
AAGTGTAGT
Found at i:24009334 original size:120 final size:125
Alignment explanation
Indices: 24008954--24009354 Score: 403
Period size: 120 Copynumber: 3.2 Consensus size: 125
24008944 TACGTATGAT
* **
24008954 CACTTATCAC-TTGTCTCTT-ATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTATCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACT--CA--TATCACTTTATCACT
24009016 TGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT
62 TGATCAGATAAGTGTAG------CTA--ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT
24009081 AAAGCTA
119 AAAGCTA
* *
24009088 TCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTTGTCAC
1 -CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACT--CA--TATCACTTTATCAC
* *
24009153 TTGATCAGATAAGTGTAGCTAAAGC-TAACAC-TTATCACTTGATCAGATAA--GT-G-T--AG-
61 TTGATCAGATAAGTGTAGCT-AA-CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
24009209 T-
124 TA
*
24009210 -ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT-A-A-CAC-TTATCACTTGAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACTCATATCACTTTATCACTTGAT
24009270 CAGATAAGTGTAG-T-ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 CAGATAAGTGTAGCTAACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
24009328 CCACTTATCACTTTGTCAC-TGATCAGA
1 -CACTTATCACTTTGTCACTTGATCAGA
24009355 AGTACTCAAA
Statistics
Matches: 237, Mismatches: 12, Indels: 50
0.79 0.04 0.17
Matches are distributed among these distances:
108 1 0.00
109 6 0.03
110 18 0.08
111 1 0.00
112 26 0.11
113 4 0.02
114 2 0.01
116 2 0.01
117 2 0.01
119 8 0.03
120 58 0.24
123 1 0.00
124 2 0.01
126 1 0.00
127 1 0.00
128 2 0.01
130 18 0.08
131 6 0.03
132 3 0.01
133 1 0.00
135 10 0.04
136 7 0.03
137 17 0.07
138 40 0.17
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.34
Consensus pattern (125 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACTCATATCACTTTATCACTTGAT
CAGATAAGTGTAGCTAACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
Found at i:24019167 original size:22 final size:22
Alignment explanation
Indices: 24019141--24019183 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
24019131 AGATTTCAAT
*
24019141 AAATAAAAAAATATTAATATTA
1 AAATAAAAAAATATAAATATTA
* *
24019163 AAATAATATAATATAAATATT
1 AAATAAAAAAATATAAATATT
24019184 TTTAAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATAAAAAAATATAAATATTA
Found at i:24019188 original size:25 final size:26
Alignment explanation
Indices: 24019160--24019208 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
24019150 AATATTAATA
* *
24019160 TTAAAATAATATAATATA-AATATTT
1 TTAAAAAAATATAAAATATAATATTT
*
24019185 TTAAAAAAATCTAAAATATAATAT
1 TTAAAAAAATATAAAATATAATAT
24019209 GAATAGGCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (26 bp):
TTAAAAAAATATAAAATATAATATTT
Found at i:24020662 original size:33 final size:32
Alignment explanation
Indices: 24020625--24020699 Score: 107
Period size: 31 Copynumber: 2.3 Consensus size: 32
24020615 TGGTATAATT
*
24020625 ATATATATAAAATTTTAATTGTGGTTCAAATG
1 ATATATATAAAATTTTAATTGTGATTCAAATG
* *
24020657 -TATATATAAAATTTTAATTTTGATTCAATTG
1 ATATATATAAAATTTTAATTGTGATTCAAATG
24020688 CATATATATAAA
1 -ATATATATAAA
24020700 GGAATAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 28 0.74
33 10 0.26
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (32 bp):
ATATATATAAAATTTTAATTGTGATTCAAATG
Found at i:24034412 original size:31 final size:32
Alignment explanation
Indices: 24034377--24034445 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 32
24034367 TCAAATCATC
* *
24034377 AAAATCAATATTAAGTGATAAAATTTAA-TT-A
1 AAAATCAAAATT-AGTGACAAAATTTAATTTGA
* *
24034408 AAAATAAAAATTAGTGACAAATTTTAATTTGA
1 AAAATCAAAATTAGTGACAAAATTTAATTTGA
24034440 AAAATC
1 AAAATC
24034446 TCATTATAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 13 0.42
31 12 0.39
32 6 0.19
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.33
Consensus pattern (32 bp):
AAAATCAAAATTAGTGACAAAATTTAATTTGA
Found at i:24036068 original size:13 final size:13
Alignment explanation
Indices: 24036052--24036097 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
24036042 GGTGGTAGGA
24036052 TTCTGTATATCTG
1 TTCTGTATATCTG
*
24036065 TTCTGTTTATCTG
1 TTCTGTATATCTG
24036078 ATTCTG-ATATCTG
1 -TTCTGTATATCTG
24036091 TATCTGT
1 T-TCTGT
24036098 TATGGACTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
12 1 0.04
13 22 0.79
14 5 0.18
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (13 bp):
TTCTGTATATCTG
Found at i:24040353 original size:20 final size:21
Alignment explanation
Indices: 24040328--24040368 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
24040318 CTTTTTTAAA
24040328 TATATAATATA-GATTATTTT
1 TATATAATATATGATTATTTT
* *
24040348 TATATATTATATTATTATTTT
1 TATATAATATATGATTATTTT
24040369 AAACACAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TATATAATATATGATTATTTT
Found at i:24040354 original size:22 final size:21
Alignment explanation
Indices: 24040327--24040368 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
24040317 ACTTTTTTAA
24040327 ATATATAATATAGATTATTTTT
1 ATATATAATAT-GATTATTTTT
* *
24040349 ATATATTATATTATTATTTT
1 ATATATAATATGATTATTTT
24040369 AAACACAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
ATATATAATATGATTATTTTT
Found at i:24043474 original size:19 final size:18
Alignment explanation
Indices: 24043452--24043491 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
24043442 TGAATAAAAC
24043452 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
24043471 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
24043489 TTA
1 TTA
24043492 AATATATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:24051885 original size:17 final size:18
Alignment explanation
Indices: 24051863--24051896 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24051853 TGAAACAAAA
24051863 TAATTATATTTA-ATATT
1 TAATTATATTTATATATT
*
24051880 TAATTATGTTTATATAT
1 TAATTATATTTATATAT
24051897 AGTTAATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TAATTATATTTATATATT
Found at i:24052252 original size:3 final size:3
Alignment explanation
Indices: 24052244--24052279 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
24052234 AAACTTACAC
24052244 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
24052280 GGTGAGAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:24052711 original size:41 final size:39
Alignment explanation
Indices: 24052650--24052726 Score: 93
Period size: 41 Copynumber: 1.9 Consensus size: 39
24052640 GGGATTTAAG
24052650 GTTTAAGGTTCGAGTTCGGGTTTTG-GGCTCAAGGTTCAA
1 GTTTAAGGTTCGAGTTCGGG-TTTGAGGCTCAAGGTTCAA
* * *
24052689 GTTTAGGGTTTGAGATTACGGGTTTGAGGTTCAAGGTT
1 GTTTAAGGTTCGAG-TT-CGGGTTTGAGGCTCAAGGTT
24052727 TGAGTTCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 12 0.38
40 6 0.19
41 14 0.44
ACGTcount: A:0.18, C:0.09, G:0.35, T:0.38
Consensus pattern (39 bp):
GTTTAAGGTTCGAGTTCGGGTTTGAGGCTCAAGGTTCAA
Found at i:24063953 original size:4 final size:4
Alignment explanation
Indices: 24063929--24063993 Score: 51
Period size: 4 Copynumber: 16.0 Consensus size: 4
24063919 TTTTTATTAT
* * * * *
24063929 TTTA TTCA TTTA TTTA CTTA TTTA TTTA TTTA TTCA -TAA TTCA TTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA
*
24063977 TTTTA TTCA TTTA TTTA
1 -TTTA TTTA TTTA TTTA
24063994 CTCATATACT
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
3 2 0.04
4 39 0.80
5 8 0.16
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:24064197 original size:23 final size:23
Alignment explanation
Indices: 24064153--24064198 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
24064143 ATTATTATTA
*
24064153 CTATGTTATTATTATCTATTTAT
1 CTATGTTATTATTACCTATTTAT
*
24064176 CTAT-TTATTTATTACCTCTTTAT
1 CTATGTTA-TTATTACCTATTTAT
24064199 TTTTATACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.24, C:0.13, G:0.02, T:0.61
Consensus pattern (23 bp):
CTATGTTATTATTACCTATTTAT
Found at i:24064881 original size:17 final size:18
Alignment explanation
Indices: 24064859--24064892 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24064849 TCATTTATTT
*
24064859 ATTATTACTA-TAATATG
1 ATTATTAATATTAATATG
24064876 ATTATTAATATTAATAT
1 ATTATTAATATTAATAT
24064893 TATCATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATTATTAATATTAATATG
Found at i:24066943 original size:21 final size:22
Alignment explanation
Indices: 24066910--24066952 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
24066900 TTTTTATTTA
24066910 AAATTTAATTATAAAA-TATAT
1 AAATTTAATTATAAAATTATAT
24066931 AAATATTAA-TATAAAATTATAT
1 AAAT-TTAATTATAAAATTATAT
24066953 TTTATATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAATTTAATTATAAAATTATAT
Found at i:24067601 original size:748 final size:748
Alignment explanation
Indices: 24066247--24067743 Score: 2985
Period size: 748 Copynumber: 2.0 Consensus size: 748
24066237 AAAAATGATG
24066247 GTCTAAGCGATCCTTTCAAAAGACATTGAAATTTTGTTCCACCAATGTGGTATGAGTGGACATTG
1 GTCTAAGCGATCCTTTCAAAAGACATTGAAATTTTGTTCCACCAATGTGGTATGAGTGGACATTG
24066312 GTCGCATACCTATCGTGTGCTTGAACATCTTGTAAAGCTTTATTAAGCCTTCATAAAAAAAAGAA
66 GTCGCATACCTATCGTGTGCTTGAACATCTTGTAAAGCTTTATTAAGCCTTCATAAAAAAAAGAA
24066377 TATTGAAAAAAATTCGACTTATCAAAATGACGATGTAGAGACTAATTTTGCTTAAAATGATTATT
131 TATTGAAAAAAATTCGACTTATCAAAATGACGATGTAGAGACTAATTTTGCTTAAAATGATTATT
24066442 TTGAAGACCTTGTTGATATGAGATATAAAGAATCAAGAATTTTAAAATATAAAGAATAATATTTT
196 TTGAAGACCTTGTTGATATGAGATATAAAGAATCAAGAATTTTAAAATATAAAGAATAATATTTT
24066507 AGATTTCTTTCATTGTTTTATAATTCTTGCTATTCATGTTTGAGTGACTTTAGTATGCTTCCAGT
261 AGATTTCTTTCATTGTTTTATAATTCTTGCTATTCATGTTTGAGTGACTTTAGTATGCTTCCAGT
24066572 ATGTTATGTTATATTTTTAAGTGCACCACCTCCATATTCGATACTATCCCTAACACTGATTTATT
326 ATGTTATGTTATATTTTTAAGTGCACCACCTCCATATTCGATACTATCCCTAACACTGATTTATT
24066637 TGGTTTAATTTGGGTTTTTCCTATATTCAAATTACTTCTTTTTTCATGGACTAAATTGCAAGTAT
391 TGGTTTAATTTGGGTTTTTCCTATATTCAAATTACTTCTTTTTTCATGGACTAAATTGCAAGTAT
24066702 TTTTACTTGAGTGATCCAAATAAAAACTTTCAAAAATTTAAGTGATGAATTAAATAATTTACCCA
456 TTTTACTTGAGTGATCCAAATAAAAACTTTCAAAAATTTAAGTGATGAATTAAATAATTTACCCA
24066767 CCATATATATTTTCATAAAGTCTTTTGAAGAAATTTATTAGAAAAATACTAAGTATATGCAAATA
521 CCATATATATTTTCATAAAGTCTTTTGAAGAAATTTATTAGAAAAATACTAAGTATATGCAAATA
24066832 ACAAAAGTTGCAACAACACAAAAATATGTTTTAAAAAAAATTACATGCATTATTTTAAGTCTGAT
586 ACAAAAGTTGCAACAACACAAAAATATGTTTTAAAAAAAATTACATGCATTATTTTAAGTCTGAT
24066897 GATTTTTTATTTAAAATTTAATTATAAAATATATAAATATTAATATAAAATTATATTTTATATTA
651 GATTTTTTATTTAAAATTTAATTATAAAATATATAAATATTAATATAAAATTATATTTTATATTA
24066962 TAAACAAAAATAATAGATAAAAGATGAATATGA
716 TAAACAAAAATAATAGATAAAAGATGAATATGA
24066995 GTCTAAGCGATCCTTTCAAAAGACATTGAAATTTTGTTCCACCAATGTGGTATGAGTGGACATTG
1 GTCTAAGCGATCCTTTCAAAAGACATTGAAATTTTGTTCCACCAATGTGGTATGAGTGGACATTG
24067060 GTCGCATACCTATCGTGTGCTTGAACATCTTGTAAAGCTTTATTAAGCCTTCATAAAAAAAAGAA
66 GTCGCATACCTATCGTGTGCTTGAACATCTTGTAAAGCTTTATTAAGCCTTCATAAAAAAAAGAA
24067125 TATTGAAAAAAATTCGACTTATCAAAATGACGATGTAGAGACTAATTTTGCTTAAAATGATTATT
131 TATTGAAAAAAATTCGACTTATCAAAATGACGATGTAGAGACTAATTTTGCTTAAAATGATTATT
24067190 TTGAAGACCTTGTTGATATGAGATATAAAGAATCAAGAATTTTAAAATATAAAGAATAATATTTT
196 TTGAAGACCTTGTTGATATGAGATATAAAGAATCAAGAATTTTAAAATATAAAGAATAATATTTT
24067255 AGATTTCTTTCATTGTTTTATAATTCTTGCTATTCATGTTTGAGTGACTTTAGTATGCTTCCAGT
261 AGATTTCTTTCATTGTTTTATAATTCTTGCTATTCATGTTTGAGTGACTTTAGTATGCTTCCAGT
24067320 ATGTTATGTTATATTTTTAAGTGCACCACCTCCATATTCGATACTATCCCTAACACTGATTTATT
326 ATGTTATGTTATATTTTTAAGTGCACCACCTCCATATTCGATACTATCCCTAACACTGATTTATT
24067385 TGGTTTAATTTGGGTTTTTCCTATATTCAAATTACTTCTTTTTTCATGGACTAAATTGCAAGTAT
391 TGGTTTAATTTGGGTTTTTCCTATATTCAAATTACTTCTTTTTTCATGGACTAAATTGCAAGTAT
24067450 TTTTACTTGAGTGATCCAAATAAAAACTTTCAAAAATTTAAGTGATGAATTAAATAATTTACCCA
456 TTTTACTTGAGTGATCCAAATAAAAACTTTCAAAAATTTAAGTGATGAATTAAATAATTTACCCA
24067515 CCATATATATTTTCATAAAGTCTTTTGAAGAAATTTATTAGAAAAATACTAAGTATATGCAAATA
521 CCATATATATTTTCATAAAGTCTTTTGAAGAAATTTATTAGAAAAATACTAAGTATATGCAAATA
24067580 ACAAAAGTTGCAACAACACAAAAATATGTTTTAAAAAAAATTACATGCATTATTTTAAGTCTGAT
586 ACAAAAGTTGCAACAACACAAAAATATGTTTTAAAAAAAATTACATGCATTATTTTAAGTCTGAT
24067645 GATTTTTTATTTAAAATTTAATTATAAAATATATAAATATTAATATAAAATTATATTTTATATTA
651 GATTTTTTATTTAAAATTTAATTATAAAATATATAAATATTAATATAAAATTATATTTTATATTA
*
24067710 TAAACAAAAATAATAGATAAAAGATGGATATGA
716 TAAACAAAAATAATAGATAAAAGATGAATATGA
24067743 G
1 G
24067744 AATATGAAGA
Statistics
Matches: 748, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
748 748 1.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.38
Consensus pattern (748 bp):
GTCTAAGCGATCCTTTCAAAAGACATTGAAATTTTGTTCCACCAATGTGGTATGAGTGGACATTG
GTCGCATACCTATCGTGTGCTTGAACATCTTGTAAAGCTTTATTAAGCCTTCATAAAAAAAAGAA
TATTGAAAAAAATTCGACTTATCAAAATGACGATGTAGAGACTAATTTTGCTTAAAATGATTATT
TTGAAGACCTTGTTGATATGAGATATAAAGAATCAAGAATTTTAAAATATAAAGAATAATATTTT
AGATTTCTTTCATTGTTTTATAATTCTTGCTATTCATGTTTGAGTGACTTTAGTATGCTTCCAGT
ATGTTATGTTATATTTTTAAGTGCACCACCTCCATATTCGATACTATCCCTAACACTGATTTATT
TGGTTTAATTTGGGTTTTTCCTATATTCAAATTACTTCTTTTTTCATGGACTAAATTGCAAGTAT
TTTTACTTGAGTGATCCAAATAAAAACTTTCAAAAATTTAAGTGATGAATTAAATAATTTACCCA
CCATATATATTTTCATAAAGTCTTTTGAAGAAATTTATTAGAAAAATACTAAGTATATGCAAATA
ACAAAAGTTGCAACAACACAAAAATATGTTTTAAAAAAAATTACATGCATTATTTTAAGTCTGAT
GATTTTTTATTTAAAATTTAATTATAAAATATATAAATATTAATATAAAATTATATTTTATATTA
TAAACAAAAATAATAGATAAAAGATGAATATGA
Found at i:24067691 original size:21 final size:22
Alignment explanation
Indices: 24067658--24067700 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
24067648 TTTTTATTTA
24067658 AAATTTAATTATAAAA-TATAT
1 AAATTTAATTATAAAATTATAT
24067679 AAATATTAA-TATAAAATTATAT
1 AAAT-TTAATTATAAAATTATAT
24067701 TTTATATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAATTTAATTATAAAATTATAT
Found at i:24069186 original size:6 final size:6
Alignment explanation
Indices: 24069175--24069215 Score: 66
Period size: 6 Copynumber: 6.8 Consensus size: 6
24069165 NNNNNNNNNN
24069175 CTAAAA CTAAAA CTAAAA CTAAAAA CTAAAA CT-AAA CTAAA
1 CTAAAA CTAAAA CTAAAA CT-AAAA CTAAAA CTAAAA CTAAA
24069216 GTCTAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.15
6 22 0.67
7 6 0.18
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:24069201 original size:13 final size:13
Alignment explanation
Indices: 24069175--24069210 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
24069165 NNNNNNNNNN
24069175 CTAAAACT-AAAA
1 CTAAAACTAAAAA
24069187 CTAAAACTAAAAA
1 CTAAAACTAAAAA
24069200 CTAAAACTAAA
1 CTAAAACTAAA
24069211 CTAAAGTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 8 0.35
13 15 0.65
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (13 bp):
CTAAAACTAAAAA
Found at i:24069209 original size:25 final size:25
Alignment explanation
Indices: 24069175--24069224 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
24069165 NNNNNNNNNN
24069175 CTAAAACTAAAACTAAA-ACTAAAAA
1 CTAAAACT-AAACTAAAGACTAAAAA
*
24069200 CTAAAACTAAACTAAAGTCTAAAAA
1 CTAAAACTAAACTAAAGACTAAAAA
24069225 TAATTTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.64, C:0.16, G:0.02, T:0.18
Consensus pattern (25 bp):
CTAAAACTAAACTAAAGACTAAAAA
Found at i:24069223 original size:18 final size:19
Alignment explanation
Indices: 24069177--24069215 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
24069167 NNNNNNNNCT
24069177 AAAACTAAAACTAAAACTA
1 AAAACTAAAACTAAAACTA
24069196 AAAACTAAAACT-AAACTA
1 AAAACTAAAACTAAAACTA
24069214 AA
1 AA
24069216 GTCTAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.15
Consensus pattern (19 bp):
AAAACTAAAACTAAAACTA
Found at i:24069261 original size:9 final size:9
Alignment explanation
Indices: 24069247--24069295 Score: 80
Period size: 9 Copynumber: 5.4 Consensus size: 9
24069237 GTAGTGATTC
*
24069247 AATTCGGTT
1 AATTCGGGT
24069256 AATTCGGGT
1 AATTCGGGT
24069265 AATTCGGGT
1 AATTCGGGT
*
24069274 AATTCGGTT
1 AATTCGGGT
24069283 AATTCGGGT
1 AATTCGGGT
24069292 AATT
1 AATT
24069296 TTTAACCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.24, C:0.10, G:0.27, T:0.39
Consensus pattern (9 bp):
AATTCGGGT
Found at i:24075044 original size:14 final size:15
Alignment explanation
Indices: 24075020--24075073 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 15
24075010 CCCCTAAAAC
24075020 TTTTACTCCCTCACA
1 TTTTACTCCCTCACA
* *
24075035 TTTT-CTCCCTAAAA
1 TTTTACTCCCTCACA
24075049 CTTTTACTCCCTCACA
1 -TTTTACTCCCTCACA
24075065 TTTT-CTCCC
1 TTTTACTCCC
24075074 CAAAACTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
14 13 0.39
15 12 0.36
16 8 0.24
ACGTcount: A:0.19, C:0.39, G:0.00, T:0.43
Consensus pattern (15 bp):
TTTTACTCCCTCACA
Found at i:24075047 original size:30 final size:30
Alignment explanation
Indices: 24075007--24075089 Score: 150
Period size: 30 Copynumber: 2.8 Consensus size: 30
24074997 ATCTCTTTAC
24075007 TTTC-CCCTAAAACTTTTACTCCCTCACAT
1 TTTCTCCCTAAAACTTTTACTCCCTCACAT
24075036 TTTCTCCCTAAAACTTTTACTCCCTCACAT
1 TTTCTCCCTAAAACTTTTACTCCCTCACAT
*
24075066 TTTCTCCCCAAAACTTTTACTCCC
1 TTTCTCCCTAAAACTTTTACTCCC
24075090 CTCCCATCTC
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 4 0.08
30 48 0.92
ACGTcount: A:0.23, C:0.39, G:0.00, T:0.39
Consensus pattern (30 bp):
TTTCTCCCTAAAACTTTTACTCCCTCACAT
Found at i:24075060 original size:16 final size:16
Alignment explanation
Indices: 24075011--24075089 Score: 85
Period size: 16 Copynumber: 5.2 Consensus size: 16
24075001 CTTTACTTTC
24075011 CCCTAAAACTTTTACT
1 CCCTAAAACTTTTACT
* *
24075027 CCCTCACA-TTTT-CT
1 CCCTAAAACTTTTACT
24075041 CCCTAAAACTTTTACT
1 CCCTAAAACTTTTACT
* *
24075057 CCCTCACA-TTTT-CT
1 CCCTAAAACTTTTACT
*
24075071 CCCCAAAACTTTTACT
1 CCCTAAAACTTTTACT
24075087 CCC
1 CCC
24075090 CTCCCATCTC
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
14 15 0.30
15 16 0.32
16 19 0.38
ACGTcount: A:0.24, C:0.39, G:0.00, T:0.37
Consensus pattern (16 bp):
CCCTAAAACTTTTACT
Found at i:24075090 original size:16 final size:16
Alignment explanation
Indices: 24075009--24075090 Score: 68
Period size: 15 Copynumber: 5.3 Consensus size: 16
24074999 CTCTTTACTT
24075009 TCCCCTAAAACTTTTAC
1 TCCCC-AAAACTTTTAC
*
24075026 TCCCTC-ACA-TTTT-C
1 TCCC-CAAAACTTTTAC
*
24075040 TCCCTAAAACTTTTAC
1 TCCCCAAAACTTTTAC
*
24075056 TCCCTC-ACA-TTTT-C
1 TCCC-CAAAACTTTTAC
24075070 TCCCCAAAACTTTTAC
1 TCCCCAAAACTTTTAC
24075086 TCCCC
1 TCCCC
24075091 TCCCATCTCA
Statistics
Matches: 51, Mismatches: 6, Indels: 17
0.69 0.08 0.23
Matches are distributed among these distances:
13 1 0.02
14 14 0.27
15 16 0.31
16 15 0.29
17 4 0.08
18 1 0.02
ACGTcount: A:0.23, C:0.40, G:0.00, T:0.37
Consensus pattern (16 bp):
TCCCCAAAACTTTTAC
Found at i:24075443 original size:113 final size:114
Alignment explanation
Indices: 24075311--24075542 Score: 448
Period size: 113 Copynumber: 2.0 Consensus size: 114
24075301 ATAAGTTTAT
24075311 ATATACTATTTATATTATTAAATTAAATTTTACATTTTGTACTTGTTAGAATTAAGTGACTCAAA
1 ATATACTATTTATATTATTAAATTAAATTTTACATTTTGTACTTGTTAGAATTAAGTGACTCAAA
24075376 TCCTTACTTAAATCAAATACAGTGGTAAAATAAAATAAAAGTAAAATCC
66 TCCTTACTTAAATCAAATACAGTGGTAAAATAAAATAAAAGTAAAATCC
24075425 ATATACTA-TTATATTATTAAATTAAATTTTACATTTTGTACTTGTTAGAATTAAGTGACTCAAA
1 ATATACTATTTATATTATTAAATTAAATTTTACATTTTGTACTTGTTAGAATTAAGTGACTCAAA
24075489 TCCTTACTTAAATCAAATACAGTGGTAAAATAAAATAAAAGTAAAATCC
66 TCCTTACTTAAATCAAATACAGTGGTAAAATAAAATAAAAGTAAAATCC
*
24075538 CTATA
1 ATATA
24075543 GAATTATACT
Statistics
Matches: 117, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
113 109 0.93
114 8 0.07
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.38
Consensus pattern (114 bp):
ATATACTATTTATATTATTAAATTAAATTTTACATTTTGTACTTGTTAGAATTAAGTGACTCAAA
TCCTTACTTAAATCAAATACAGTGGTAAAATAAAATAAAAGTAAAATCC
Found at i:24081004 original size:27 final size:28
Alignment explanation
Indices: 24080962--24081015 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
24080952 ATTGAATATA
*
24080962 AAGGGGATTGCTAAGTGCTGATTCCCCC
1 AAGGGGATTACTAAGTGCTGATTCCCCC
24080990 AAGGGG-TTACTAAGTGCTGATTCCCC
1 AAGGGGATTACTAAGTGCTGATTCCCC
24081016 GAATCATTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (28 bp):
AAGGGGATTACTAAGTGCTGATTCCCCC
Found at i:24081044 original size:33 final size:33
Alignment explanation
Indices: 24080994--24081201 Score: 110
Period size: 33 Copynumber: 5.7 Consensus size: 33
24080984 TCCCCCAAGG
*
24080994 GGTTACTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * * * *
24081027 GGTTGCTAAGTGTTGATTCCACTGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--AT-CAT-T---GGT
* * *
24081069 GGTTGCTAAGTGTTGATTCCCTGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * *
24081102 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCGAATC----AT-TG---GT
* *
24081144 GGTTGCTAAGTGCTGATTCTCCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
24081177 GGTTGCTAAGTGCTGAATCCACCGA
1 GGTTGCTAAGTGCTGATTCC-CCGA
24081202 TAACAGACAA
Statistics
Matches: 134, Mismatches: 22, Indels: 37
0.69 0.11 0.19
Matches are distributed among these distances:
33 57 0.43
34 10 0.07
35 1 0.01
36 3 0.02
37 4 0.03
38 5 0.04
39 3 0.02
40 1 0.01
41 9 0.07
42 41 0.31
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
Found at i:24081086 original size:42 final size:41
Alignment explanation
Indices: 24081027--24081162 Score: 126
Period size: 42 Copynumber: 3.5 Consensus size: 41
24081017 AATCATTGGT
*
24081027 GGTTGCTAAGTGTTGATTCCACTGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACTGTA-TTTAAATGTGAAGGG
* * * *
24081069 GGTTGCTAAGTGTTGATTCC-CTG-A-CT-CAT-T---GGT
1 GGTTGCTAAGTGCTGATTCCACTGTATTTAAATGTGAAGGG
* * *
24081102 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACTGTAT-TTAAATGTGAAGGG
24081144 GGTTGCTAAGTGCTGATTC
1 GGTTGCTAAGTGCTGATTC
24081163 TCCGAATCAC
Statistics
Matches: 74, Mismatches: 11, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
33 20 0.27
34 2 0.03
35 1 0.01
36 1 0.01
37 3 0.04
38 3 0.04
39 1 0.01
40 1 0.01
41 3 0.04
42 39 0.53
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.35
Consensus pattern (41 bp):
GGTTGCTAAGTGCTGATTCCACTGTATTTAAATGTGAAGGG
Found at i:24081134 original size:75 final size:73
Alignment explanation
Indices: 24080990--24081200 Score: 296
Period size: 75 Copynumber: 2.8 Consensus size: 73
24080980 TGATTCCCCC
* * * *
24080990 AAGGGGTTACTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGTTGATTCCACTGTATT
1 AAGGGGTTGCTAAGTGCTGATT-CCCGAATCATTGGTGGTTGCTAAGTGCTGA-TCCACCGTATC
24081055 TTAAATGTGA
64 TTAAATGTGA
* * *
24081065 AGGGGGTTGCTAAGTGTTGATTCCCTGACTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCC-GAATCATTGGTGGTTGCTAAGTGCTGAT-CCACCGTATC
24081130 TTAAATGTGA
64 TTAAATGTGA
*
24081140 AAGGGGTTGCTAAGTGCTGATTCTCCGAATCACTGGTGGTTGCTAAGTGCTGAATCCACCG
1 AAGGGGTTGCTAAGTGCTGATTC-CCGAATCATTGGTGGTTGCTAAGTGCTG-ATCCACCG
24081201 ATAACAGACA
Statistics
Matches: 121, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
74 4 0.03
75 113 0.93
76 4 0.03
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (73 bp):
AAGGGGTTGCTAAGTGCTGATTCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCACCGTATCTT
AAATGTGA
Found at i:24082989 original size:19 final size:19
Alignment explanation
Indices: 24082965--24083002 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
24082955 GAAGTTAATT
24082965 ACAAATTTAATTAGGGTGG
1 ACAAATTTAATTAGGGTGG
* *
24082984 ACAAATTTGATTATGGTGG
1 ACAAATTTAATTAGGGTGG
24083003 GTGACAGTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.34
Consensus pattern (19 bp):
ACAAATTTAATTAGGGTGG
Found at i:24090116 original size:25 final size:25
Alignment explanation
Indices: 24090088--24090170 Score: 130
Period size: 25 Copynumber: 3.3 Consensus size: 25
24090078 ACTTTAGCGC
24090088 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGATTATTAGCACGTTGGT
*
24090113 GCTCTCTGATTATTAGCATGTTGGT
1 GCTCTCTGATTATTAGCACGTTGGT
* **
24090138 GCTCTCTGATTACTAGCACGTCAGT
1 GCTCTCTGATTATTAGCACGTTGGT
24090163 GCTCTCTG
1 GCTCTCTG
24090171 TTTAGCACAC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACGTTGGT
Found at i:24090186 original size:22 final size:22
Alignment explanation
Indices: 24090159--24090216 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
24090149 ACTAGCACGT
*
24090159 CAGTGCTCTCTGTTTAGCACAC
1 CAGTGCTCTCTGTTTAACACAC
* * * **
24090181 CTGTGCTCTATGTATAACACTT
1 CAGTGCTCTCTGTTTAACACAC
24090203 CAGTGCTCTCTGTT
1 CAGTGCTCTCTGTT
24090217 CATTAGTGCA
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.38
Consensus pattern (22 bp):
CAGTGCTCTCTGTTTAACACAC
Found at i:24091170 original size:28 final size:27
Alignment explanation
Indices: 24091139--24091192 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 27
24091129 ATTTGAGAAA
24091139 TTAAGAGC-TAAATTGTGAAAATAAATTT
1 TTAAGAGCTTAAA-TGTG-AAATAAATTT
*
24091167 TTAAGGGCTTTAAATGTGAAATAAAT
1 TTAAGAGC-TTAAATGTGAAATAAAT
24091193 GAAATGTGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
28 15 0.65
29 4 0.17
30 4 0.17
ACGTcount: A:0.44, C:0.04, G:0.17, T:0.35
Consensus pattern (27 bp):
TTAAGAGCTTAAATGTGAAATAAATTT
Found at i:24101665 original size:29 final size:28
Alignment explanation
Indices: 24101633--24101691 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
24101623 TTCGTATGCA
*
24101633 TTTTT-GAGCCAGTATTCTTTTATTTCTT
1 TTTTTCGAGCAAGTATTCTTTTATTT-TT
* *
24101661 TTTTTCGAGTAATTATTCTTTTATTTTT
1 TTTTTCGAGCAAGTATTCTTTTATTTTT
24101689 TTT
1 TTT
24101692 GCTACATCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.15, C:0.10, G:0.08, T:0.66
Consensus pattern (28 bp):
TTTTTCGAGCAAGTATTCTTTTATTTTT
Found at i:24107084 original size:1 final size:1
Alignment explanation
Indices: 24107078--24107144 Score: 62
Period size: 1 Copynumber: 67.0 Consensus size: 1
24107068 TACTTTTCTT
** * ** * * *
24107078 AAAAAAAAAGGAAAGAAAAAAAAAGGAAAGAAAGAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
24107143 AA
1 AA
24107145 NNNNNNNNNN
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (1 bp):
A
Found at i:24107118 original size:23 final size:20
Alignment explanation
Indices: 24107078--24107144 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 20
24107068 TACTTTTCTT
*
24107078 AAAAAAAAAGGAAAGAAAAA
1 AAAAAAAAAAGAAAGAAAAA
24107098 AAAAGGAAAGAAAGAAAGAAAAA
1 AAAA--AAA-AAAGAAAGAAAAA
24107121 AAAAAAAAAA-AAA-AAAAA
1 AAAAAAAAAAGAAAGAAAAA
24107139 AAAAAA
1 AAAAAA
24107145 NNNNNNNNNN
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
18 11 0.26
19 3 0.07
20 7 0.16
21 3 0.07
22 3 0.07
23 16 0.37
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAGAAAGAAAAA
Found at i:24120483 original size:1 final size:1
Alignment explanation
Indices: 24120477--24120579 Score: 53
Period size: 1 Copynumber: 103.0 Consensus size: 1
24120467 TACTTTTCTT
* * * * * * * * * * *
24120477 AAAAAAAAGAAAAAGAAAAGAAAAAATAAAAAGAAAAGAAAAAAAAGAAGAAAGAAAGAAAAGAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * *
24120542 AAAGAAAAAAAGAAAGAAAGAAAAGAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
24120580 GGAAAAGGAG
Statistics
Matches: 68, Mismatches: 34, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
1 68 1.00
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.01
Consensus pattern (1 bp):
A
Found at i:24120508 original size:27 final size:26
Alignment explanation
Indices: 24120477--24120579 Score: 111
Period size: 26 Copynumber: 3.9 Consensus size: 26
24120467 TACTTTTCTT
*
24120477 AAAAAAAAGAAAAAGAAAAGAAAAAATA
1 AAAAAAAAGAAAAAGAAAA-AAAAAA-G
* *
24120505 AAAAGAAAAGAAAAA-AAAGAAGAAAG
1 AAAA-AAAAGAAAAAGAAAAAAAAAAG
*
24120531 AAAGAAAAGAAAAAGAAAAAAAGAAAG
1 AAAAAAAAGAAAAAGAAAAAAA-AAAG
*
24120558 AAAGAAAAG-AAAAGAAAAAAAA
1 AAAAAAAAGAAAAAGAAAAAAAA
24120580 GGAAAAGGAG
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
25 11 0.17
26 20 0.30
27 18 0.27
28 7 0.11
29 10 0.15
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.01
Consensus pattern (26 bp):
AAAAAAAAGAAAAAGAAAAAAAAAAG
Found at i:24120545 original size:31 final size:31
Alignment explanation
Indices: 24120480--24120576 Score: 121
Period size: 31 Copynumber: 3.2 Consensus size: 31
24120470 TTTTCTTAAA
* *
24120480 AAAAAGAAAAAGAA-AAGAAA-AAATAAAA-
1 AAAAAGAAAAAAAAGAAGAAAGAAAGAAAAG
24120508 AGAAAAGAAAAAAAAGAAGAAAGAAAGAAAAG
1 A-AAAAGAAAAAAAAGAAGAAAGAAAGAAAAG
24120540 AAAAAG-AAAAAAAGAAAGAAAGAAAAGAAAAG
1 AAAAAGAAAAAAAAG-AAGAAAG-AAAGAAAAG
24120572 AAAAA
1 AAAAA
24120577 AAAGGAAAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
28 1 0.02
29 12 0.20
30 14 0.23
31 19 0.31
32 15 0.25
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.01
Consensus pattern (31 bp):
AAAAAGAAAAAAAAGAAGAAAGAAAGAAAAG
Found at i:24120580 original size:27 final size:26
Alignment explanation
Indices: 24120481--24120580 Score: 121
Period size: 27 Copynumber: 3.7 Consensus size: 26
24120471 TTTCTTAAAA
* *
24120481 AAAAGAAAAAGAAAAGAAAAAATAAAAAG
1 AAAAGAAAAA-AAAA-AAAGAA-AGAAAG
*
24120510 AAAAG-AAAAAAAAGAAGAAAGAAAG
1 AAAAGAAAAAAAAAAAAGAAAGAAAG
24120535 AAAAGAAAAAGAAAAAAAGAAAGAAAG
1 AAAAGAAAAA-AAAAAAAGAAAGAAAG
24120562 AAAAGAAAAGAAAAAAAAG
1 AAAAGAAAA-AAAAAAAAG
24120581 GAAAAGGAGA
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
25 10 0.16
26 8 0.12
27 36 0.56
28 5 0.08
29 5 0.08
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.01
Consensus pattern (26 bp):
AAAAGAAAAAAAAAAAAGAAAGAAAG
Found at i:24120588 original size:6 final size:5
Alignment explanation
Indices: 24120477--24120586 Score: 96
Period size: 5 Copynumber: 23.0 Consensus size: 5
24120467 TACTTTTCTT
*
24120477 AAAA- AAAAG AAAAAG AAAAG AAAA- AATA- AAAAG AAAAG AAAA- AAAAG
1 AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
24120524 AAGAA- AGAAAG AAAAG AAAA- AGAAA- AAAAG -AAAG -AAAG AAAAG
1 AA-AAG A-AAAG AAAAG AAAAG A-AAAG AAAAG AAAAG AAAAG AAAAG
24120567 AAAAG AAAA- AAAAGG AAAAG
1 AAAAG AAAAG AAAA-G AAAAG
24120587 GAGAGGCCAA
Statistics
Matches: 92, Mismatches: 2, Indels: 23
0.79 0.02 0.20
Matches are distributed among these distances:
4 30 0.33
5 49 0.53
6 13 0.14
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.01
Consensus pattern (5 bp):
AAAAG
Found at i:24121813 original size:44 final size:44
Alignment explanation
Indices: 24121747--24122173 Score: 220
Period size: 44 Copynumber: 10.0 Consensus size: 44
24121737 GGTGAAACAG
24121747 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAA
* * **
24121791 TCCTATCTCTCTGAAGTTGCAGTGGAGC-G---GATTAACATCCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAA-AT-CA-A
* ** * ** * *
24121834 TCTTAACTTTCTGAGGTTGCA---GAG-AG-CAGATCACATCCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAAT-CAA
*
24121874 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACAGAAGAAATCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAA
* * * ** * **
24121918 TCCTATCTCTCTGAAGTTGCAGTGGAGCGGA-TTAA-CACCCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCA-A
** * * * * * *
24121961 TCTTATCTTTCTGAGGGTGCAG-AGAGCAGATC---A-CATTCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAGAAGAAATCAA
24122001 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAA
* * **
24122045 TCCTATCTCCCTGAAGTTACAGTGGAGC-G---GATTAACATCCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAA-AT-CA-A
** * ** * *
24122088 TCTTATCTTTCTGAGGTTGCA---GAG-AG-CAGATCACATCCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAAT-CAA
*
24122128 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAAAAATCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAA
24122172 TC
1 TC
24122174 CTNNNNNNNN
Statistics
Matches: 289, Mismatches: 64, Indels: 60
0.70 0.15 0.15
Matches are distributed among these distances:
40 70 0.24
41 26 0.09
42 21 0.07
43 65 0.22
44 93 0.32
45 14 0.05
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAA
Found at i:24121890 original size:83 final size:83
Alignment explanation
Indices: 24121794--24122158 Score: 312
Period size: 83 Copynumber: 4.3 Consensus size: 83
24121784 AAATCAATCC
* * * * *
24121794 TATCTCTCTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCTTAACTTTCTGAGGTTGCAGAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAACATCCAGATCTTATCTCTCTGAAGTTGCAGAGA
24121859 GCAGATCACATCCAGTCT
66 GCAGATCACATCCAGTCT
** *
24121877 TATCTCCCTGAAGTTGCAGTAGAGCAGACAGAAGAA-AT-CA-ATCCTATCTCTCTGAAGTTGCA
1 TATCTCCCTGAAGTTGCAGT-G-G-AG-CAGATTAACATCCAGATCTTATCTCTCTGAAGTTGCA
* * * *
24121939 GTGGAGCGGATTAACACCCAGATCT
62 G-AGAGCAGA-TCACATCCAG-TCT
** * * * * * *
24121964 TATCTTTCTGAGGGTGCAG-AGAGCAGA-TCACATTCAG-TCTTATCTCCCTGAAGTTGCAGTGG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAACATCCAGATCTTATCTCTCTGAAGTTGCA---G
** * * *
24122026 AGCAGACAGAAGAAAT-CAATCC
63 AG-AG-CAGATCACATCCAGTCT
* * * *
24122048 TATCTCCCTGAAGTTACAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAACATCCAGATCTTATCTCTCTGAAGTTGCAGAGA
24122113 GCAGATCACATCCAGTCT
66 GCAGATCACATCCAGTCT
24122131 TATCTCCCTGAAGTTGCAGTGGAGCAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA
24122159 CAGAAAAAAT
Statistics
Matches: 215, Mismatches: 48, Indels: 38
0.71 0.16 0.13
Matches are distributed among these distances:
81 1 0.00
82 13 0.06
83 74 0.34
84 40 0.19
85 18 0.08
86 25 0.12
87 44 0.20
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (83 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAACATCCAGATCTTATCTCTCTGAAGTTGCAGAGA
GCAGATCACATCCAGTCT
Found at i:24121971 original size:127 final size:127
Alignment explanation
Indices: 24121744--24122175 Score: 792
Period size: 127 Copynumber: 3.4 Consensus size: 127
24121734 ACCGGTGAAA
24121744 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCTCTGAAGTT
1 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCTCTGAAGTT
*
24121809 GCAGTGGAGCGGATTAACATCCAGATCTTAACTTTCTGAGGTTGCAGAGAGCAGATCACATC
66 GCAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCACATC
*
24121871 CAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACAGAAGAAATCAATCCTATCTCTCTGAAGTT
1 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCTCTGAAGTT
* * *
24121936 GCAGTGGAGCGGATTAACACCCAGATCTTATCTTTCTGAGGGTGCAGAGAGCAGATCACATT
66 GCAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCACATC
*
24121998 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTT
1 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCTCTGAAGTT
*
24122063 ACAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCACATC
66 GCAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCACATC
*
24122125 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAAAAATCAATCCT
1 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCT
24122176 NNNNNNNNNN
Statistics
Matches: 293, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
127 293 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (127 bp):
CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCTCTGAAGTT
GCAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCACATC
Found at i:24124844 original size:41 final size:41
Alignment explanation
Indices: 24124787--24124904 Score: 200
Period size: 41 Copynumber: 2.9 Consensus size: 41
24124777 AGTAAGATGA
* * *
24124787 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGTAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAT
24124828 TTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAT
*
24124869 TTCAGACTTTACGTCTAGCAGGCTAAATGCCGGTGA
1 TTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGA
24124905 TCTGAATCAA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAT
Found at i:24125145 original size:41 final size:41
Alignment explanation
Indices: 24125083--24125258 Score: 217
Period size: 41 Copynumber: 4.3 Consensus size: 41
24125073 GTTTGGAATT
* * * * *
24125083 GGTGATTTAAATCAGGTTATAAACTTAGCAGGCTAAGTGTC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* **
24125124 GGTGATCTGAATTAGGCTATAAGTCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* * *
24125165 GGTGATCTGAAACAGGCTATAAGCCTAGTAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* * *
24125206 GGTGATATGAATCAAGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
24125247 GGGGATCTGAAT
1 GGTGATCTGAAT
24125259 ATGTTTAATT
Statistics
Matches: 115, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 115 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
Found at i:24128374 original size:173 final size:173
Alignment explanation
Indices: 24128085--24128431 Score: 685
Period size: 173 Copynumber: 2.0 Consensus size: 173
24128075 TGAAAAAGGT
24128085 TAGATTAAAAACCCTGATAGCAAAATTAGAAAGGTCACTGCATCAATATCGTAGTTGCAACTCCG
1 TAGATTAAAAACCCTGATAGCAAAATTAGAAAGGTCACTGCATCAATATCGTAGTTGCAACTCCG
*
24128150 CAATTGAGTTGAAAATAGGCCTAAATAAGATTAAAGAGTTGAAGAGAAAGATAGAAGAGTTTGAG
66 CAATTGAGTTGAAAACAGGCCTAAATAAGATTAAAGAGTTGAAGAGAAAGATAGAAGAGTTTGAG
24128215 ACCGCATTGCAAAATTGTGAACTTTGAGTTGAACTTCTAGAAA
131 ACCGCATTGCAAAATTGTGAACTTTGAGTTGAACTTCTAGAAA
24128258 TAGATTAAAAACCCTGATAGCAAAATTAGAAAGGTCACTGCATCAATATCGTAGTTGCAACTCCG
1 TAGATTAAAAACCCTGATAGCAAAATTAGAAAGGTCACTGCATCAATATCGTAGTTGCAACTCCG
24128323 CAATTGAGTTGAAAACAGGCCTAAATAAGATTAAAGAGTTGAAGAGAAAGATAGAAGAGTTTGAG
66 CAATTGAGTTGAAAACAGGCCTAAATAAGATTAAAGAGTTGAAGAGAAAGATAGAAGAGTTTGAG
24128388 ACCGCATTGCAAAATTGTGAACTTTGAGTTGAACTTCTAGAAA
131 ACCGCATTGCAAAATTGTGAACTTTGAGTTGAACTTCTAGAAA
24128431 T
1 T
24128432 GAACAATGAA
Statistics
Matches: 173, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
173 173 1.00
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (173 bp):
TAGATTAAAAACCCTGATAGCAAAATTAGAAAGGTCACTGCATCAATATCGTAGTTGCAACTCCG
CAATTGAGTTGAAAACAGGCCTAAATAAGATTAAAGAGTTGAAGAGAAAGATAGAAGAGTTTGAG
ACCGCATTGCAAAATTGTGAACTTTGAGTTGAACTTCTAGAAA
Found at i:24135420 original size:44 final size:44
Alignment explanation
Indices: 24135357--24135911 Score: 591
Period size: 44 Copynumber: 12.6 Consensus size: 44
24135347 TCGTGGCGAG
* *
24135357 TCTTATCTC-CTTGAAGTTGCAGTGGAGCAGATTAAAGTTATAAA
1 TCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
* * *
24135401 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAACCTACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
* *
24135445 TCTTATCT-TCCTGAAGTTGTAGTGGAGCAGATTAAAGCCACAAA
1 TCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
* * * *
24135489 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTCAAGATAGCAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CAAA
* *
24135534 TCTTATCTCTCAGAAGTTGCAGTAGAGCAGATTAAAGCTACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
* * * * * *
24135578 T-TTGTTGTCCCTG-AGTTGCAGTGAAGCAGATTGAAGATAGCAAA
1 TCTT-ATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CAAA
* * * *
24135622 TCTTATCACTCTGAAGTTGTAGTAGAGCAGATTAAAGCTATAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
* * * * *
24135666 TTTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGCAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CAAA
* * *
24135711 TCTTATCACTCTGAAGTTGTAGTAGAGCAGATTAAAGCTACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
*
24135755 TCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
* * * * *
24135799 TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGATACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
* * * *
24135843 TCTTATTTC-CTTGAAGTTGCAGTGGAGTAGATTGAAA-TTACAAT
1 TCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATT-AAAGCTACAAA
* * * *
24135887 TCCTATATCCCTGAAGTTGTAGTGG
1 TCTTATCTCTCTGAAGTTGCAGTGG
24135912 GTTAGACTGA
Statistics
Matches: 430, Mismatches: 69, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
43 26 0.06
44 302 0.70
45 102 0.24
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (44 bp):
TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
Found at i:24135877 original size:177 final size:176
Alignment explanation
Indices: 24135368--24135878 Score: 673
Period size: 177 Copynumber: 2.9 Consensus size: 176
24135358 CTTATCTCCT
* * * * *
24135368 TGAAGTTGCAGTGGAGCAGATTAAAGTTATAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGAT
1 TGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCTCT-AAGTTGCAGTGGAGCAGAT
* * *
24135433 TAAACCTACAAATCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTAAAGCCACAAATCTTATCTC
65 TAAAGCTACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTACAAATCTTATCTC
* * *
24135498 CCTAAAGTTGCAGTGGAGCAGATTCAAGATAGCAAATCTTATCTCTC
130 CCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCACTC
* * * * * *
24135545 AGAAGTTGCAGTAGAGCAGATTAAAGCTACAAAT-TTGTTGTCCCTGAGTTGCAGTGAAGCAGAT
1 TGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTT-ATCTCTCTAAGTTGCAGTGGAGCAGAT
* * * * * * *
24135609 TGAAGATAGCAAATCTTATCACTCTGAAGTTGTAGTAGAGCAGATTAAAGCTATAAATTTTATCT
65 TAAAGCTA-CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTACAAATCTTATCT
*
24135674 CCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGCAAATCTTATCACTC
129 CCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCACTC
*
24135722 TGAAGTTGTAGTAGAGCAGATTAAAGCTACAAATCTTATCTCTCTAAAGTTGCAGTGGAGCAGAT
1 TGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCTCT-AAGTTGCAGTGGAGCAGAT
* * * * * *
24135787 TAAAGCTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGATACAAATCTTATTTC
65 TAAAGCTACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTACAAATCTTATCTC
* *
24135852 CTTGAAGTTGCAGTGGAGTAGATTGAA
130 CCTGAAGTTGCAGTGGAGCAGATTGAA
24135879 ATTACAATTC
Statistics
Matches: 282, Mismatches: 48, Indels: 8
0.83 0.14 0.02
Matches are distributed among these distances:
176 22 0.08
177 235 0.83
178 25 0.09
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.30
Consensus pattern (176 bp):
TGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCTCTAAGTTGCAGTGGAGCAGATT
AAAGCTACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTACAAATCTTATCTCC
CTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCACTC
Found at i:24138528 original size:28 final size:26
Alignment explanation
Indices: 24138497--24138549 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
24138487 TTTAAAAATT
*
24138497 AAAATTTAACCCTATACTTTTATTTTTA
1 AAAATTTAACCC-AT-CTGTTATTTTTA
*
24138525 AAAATTTAATCCATCTGTTATTTTT
1 AAAATTTAACCCATCTGTTATTTTT
24138550 CTTATGTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 10 0.43
27 2 0.09
28 11 0.48
ACGTcount: A:0.34, C:0.13, G:0.02, T:0.51
Consensus pattern (26 bp):
AAAATTTAACCCATCTGTTATTTTTA
Found at i:24142642 original size:6 final size:6
Alignment explanation
Indices: 24142631--24142656 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
24142621 TATGTCATGC
24142631 TTTCAT TTTCAT TTTCAT TTTCAT TT
1 TTTCAT TTTCAT TTTCAT TTTCAT TT
24142657 GACTCTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTCAT
Found at i:24144430 original size:17 final size:16
Alignment explanation
Indices: 24144393--24144429 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
24144383 AAAACCAAGA
24144393 TTTTTACAACATGCAT
1 TTTTTACAACATGCAT
* *
24144409 TTTTTACAATATTCAT
1 TTTTTACAACATGCAT
24144425 TTTTT
1 TTTTT
24144430 TTTTCATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.27, C:0.14, G:0.03, T:0.57
Consensus pattern (16 bp):
TTTTTACAACATGCAT
Found at i:24148268 original size:47 final size:47
Alignment explanation
Indices: 24148173--24148312 Score: 255
Period size: 47 Copynumber: 3.0 Consensus size: 47
24148163 TTAAAAACAC
* *
24148173 AAAAATTACAAGACAAGAGCAAGAATTGAACTCACATGATGC-AAAA
1 AAAAAATACAAGAAAAGAGCAAGAATTGAACTCACATGATGCAAAAA
24148219 AAAAAATACAAGAAAAGAGCAAGAATTGAACTCACATGATGCAAAAA
1 AAAAAATACAAGAAAAGAGCAAGAATTGAACTCACATGATGCAAAAA
24148266 AAAAAATACAAGAAAAGAGCAAGAATTGAACTCACATGATGCAAAAA
1 AAAAAATACAAGAAAAGAGCAAGAATTGAACTCACATGATGCAAAAA
24148313 TATGAAAAAC
Statistics
Matches: 91, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
46 40 0.44
47 51 0.56
ACGTcount: A:0.58, C:0.14, G:0.15, T:0.14
Consensus pattern (47 bp):
AAAAAATACAAGAAAAGAGCAAGAATTGAACTCACATGATGCAAAAA
Found at i:24163109 original size:18 final size:18
Alignment explanation
Indices: 24163076--24163125 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
24163066 TATTATGCTC
*
24163076 ATTTTGAAAATAATATCAT
1 ATTTT-AAATTAATATCAT
*
24163095 ATTTTAAATTAATATTAT
1 ATTTTAAATTAATATCAT
*
24163113 ATTATTTAATTAA
1 ATT-TTAAATTAA
24163126 ATCCCTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (18 bp):
ATTTTAAATTAATATCAT
Found at i:24163757 original size:61 final size:60
Alignment explanation
Indices: 24163633--24163765 Score: 167
Period size: 61 Copynumber: 2.2 Consensus size: 60
24163623 TTTTCTAAAC
* * ** * *
24163633 TTTTAGAATTAAAACTAAATTGACAAACTTTGTAAATGTTGAGGGCTAAATTTATTGATTT
1 TTTTAGAATTAGAACTAAAATGACAAACTTTGTAAACATTGAGGGCTAAATTTATAGA-AT
** *
24163694 TTTTAGAATTAGAACTAAAATGACAATTTTTGTAAACATTGAGGGCTAAATTTGTAGAAT
1 TTTTAGAATTAGAACTAAAATGACAAACTTTGTAAACATTGAGGGCTAAATTTATAGAAT
*
24163754 TTTTAGATTTAG
1 TTTTAGAATTAG
24163766 GATCAAATTG
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
60 12 0.19
61 50 0.81
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.41
Consensus pattern (60 bp):
TTTTAGAATTAGAACTAAAATGACAAACTTTGTAAACATTGAGGGCTAAATTTATAGAAT
Found at i:24164994 original size:14 final size:14
Alignment explanation
Indices: 24164977--24165005 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24164967 AAAAATATTT
24164977 TAAAAATAAAAATA
1 TAAAAATAAAAATA
24164991 TAAAAATAAAAATA
1 TAAAAATAAAAATA
24165005 T
1 T
24165006 TTTTAAAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAAAATAAAAATA
Found at i:24165045 original size:43 final size:42
Alignment explanation
Indices: 24164972--24165053 Score: 121
Period size: 42 Copynumber: 1.9 Consensus size: 42
24164962 CACAAAAAAA
*
24164972 TATTTTAAAAATAAAAATATAAAAATAAAAATATTTTTAAAG
1 TATTTTAAAAATAAAAATATAAAAATAAAAATATATTTAAAG
*
24165014 TATTTTAAAATTAAAAA-ATAAAAATAAAAAAATATATTTA
1 TATTTTAAAAATAAAAATATAAAAAT--AAAAATATATTTA
24165054 TTATATTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 8 0.22
42 16 0.44
43 12 0.33
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (42 bp):
TATTTTAAAAATAAAAATATAAAAATAAAAATATATTTAAAG
Found at i:24165063 original size:41 final size:41
Alignment explanation
Indices: 24164976--24165065 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 41
24164966 AAAAAATATT
* *
24164976 TTAAAAATAAAAATATAAAAATAAAAATATTTTTAAAGTATT
1 TTAAAAATAAAAATATAAAAATAAAAATATATTT-AAGTATA
* *
24165018 TTAAAATTAAAAA-ATAAAAATAAAAAAATATATTT-ATTATA
1 TTAAAAATAAAAATATAAAAAT--AAAAATATATTTAAGTATA
24165059 TTAAAAA
1 TTAAAAA
24165066 GTTGAGCCCG
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
41 18 0.44
42 12 0.29
43 11 0.27
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (41 bp):
TTAAAAATAAAAATATAAAAATAAAAATATATTTAAGTATA
Found at i:24165741 original size:19 final size:20
Alignment explanation
Indices: 24165716--24165764 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
24165706 TTCATTCTTC
*
24165716 ATCTATTTTTTTTATATTTT
1 ATCTATTTTTTATATATTTT
*
24165736 -TCTATTATTTATATATTTT
1 ATCTATTTTTTATATATTTT
*
24165755 ATATATTTTT
1 ATCTATTTTT
24165765 AATTTCAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (20 bp):
ATCTATTTTTTATATATTTT
Found at i:24186793 original size:28 final size:27
Alignment explanation
Indices: 24186751--24186804 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
24186741 AAAATTTTCC
24186751 AAAAAAATTCATTTC-CCCTTTGTTTTA
1 AAAAAAATTCATTTCTCCCTTT-TTTTA
*
24186778 AAAAAAATCTCTTTTCTCCCTTTTTTT
1 AAAAAAAT-TCATTTCTCCCTTTTTTT
24186805 CCTCTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 8 0.33
28 10 0.42
29 6 0.25
ACGTcount: A:0.30, C:0.20, G:0.02, T:0.48
Consensus pattern (27 bp):
AAAAAAATTCATTTCTCCCTTTTTTTA
Found at i:24197087 original size:77 final size:77
Alignment explanation
Indices: 24196956--24197102 Score: 179
Period size: 77 Copynumber: 1.9 Consensus size: 77
24196946 TCGTACCGAT
* * ** * * *
24196956 TCATGGGTTAATCAATTTTTTACCTCTCACTGAACCGATACCCTAGCTGTTTCTT-ATTCCAACC
1 TCATGGGTCAATCAATTTTCTACCTCTCACCAAACCAATACCCCAGCTGGTTCTTGA-TCCAACC
24197020 AGTCTATATCGGA
65 AGTCTATATCGGA
* * * *
24197033 TCATGGGTCAATCAGTTTTCTCCCTCTCACCAAACTAATACCCCAGCTGGTTCTTGATCCAATCA
1 TCATGGGTCAATCAATTTTCTACCTCTCACCAAACCAATACCCCAGCTGGTTCTTGATCCAACCA
24197098 GTCTA
66 GTCTA
24197103 GTTCAAATTA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
77 57 0.98
78 1 0.02
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.34
Consensus pattern (77 bp):
TCATGGGTCAATCAATTTTCTACCTCTCACCAAACCAATACCCCAGCTGGTTCTTGATCCAACCA
GTCTATATCGGA
Found at i:24197135 original size:8 final size:8
Alignment explanation
Indices: 24197122--24197146 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
24197112 AGATAACATT
24197122 GAATTTTG
1 GAATTTTG
24197130 GAATTTTG
1 GAATTTTG
24197138 GAATTTTG
1 GAATTTTG
24197146 G
1 G
24197147 TTTTTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (8 bp):
GAATTTTG
Found at i:24197330 original size:34 final size:34
Alignment explanation
Indices: 24197287--24197357 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
24197277 TTTTTTATGT
24197287 ACTTTTAAAAGGTAATGACAAATTGACAGAAAAA
1 ACTTTTAAAAGGTAATGACAAATTGACAGAAAAA
24197321 ACTTTTAAAAGGTAATGACAAATTGACAGAAAAA
1 ACTTTTAAAAGGTAATGACAAATTGACAGAAAAA
24197355 ACT
1 ACT
24197358 ATAAATGTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.52, C:0.10, G:0.14, T:0.24
Consensus pattern (34 bp):
ACTTTTAAAAGGTAATGACAAATTGACAGAAAAA
Done.