Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 66 of 332
Found at i:19965722 original size:27 final size:27
Alignment explanation
Indices: 19965692--19965965 Score: 347
Period size: 27 Copynumber: 10.3 Consensus size: 27
19965682 TAATTTGTGA
19965692 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
19965719 AATTACCGAAATACCCTTGTAGGGT-G
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
19965745 AAATACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
19965772 AATTACCGAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
19965799 AATTATCAAAATACCCCTGTA-GGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
19965825 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
19965852 AATTATCGCAACACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
19965879 AATTACCGAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
19965906 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
19965933 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
19965959 AATTACC
1 AATTACC
19965966 ATTTTGCCCC
Statistics
Matches: 211, Mismatches: 34, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
26 63 0.30
27 148 0.70
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:19965770 original size:53 final size:53
Alignment explanation
Indices: 19965688--19965961 Score: 318
Period size: 53 Copynumber: 5.1 Consensus size: 53
19965678 CCCCTAATTT
19965688 GTGAAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
1 GTGAAA-TACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
* *
19965742 GTGAAATACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
1 GTGAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
* * * * *
19965795 GTAAAATTATCAAAATACCCCTGTA-GGTAGAATTACCGAAATACCCCTATAGG
1 GTGAAA-TACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
* * * * * *
19965848 GTAGAATTATCGCAACACCCCTGTAAGGTAGAATTACCGAAATACCCTTATAGG
1 GT-GAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
* ** * * *
19965902 GTAGAATTACTAAAATACCCCTGTAGGGTGGAATTACCGAGATA-CCTTGTGGG
1 GT-GAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
*
19965955 GTAAAAT
1 GTGAAAT
19965962 TACCATTTTG
Statistics
Matches: 192, Mismatches: 25, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
52 3 0.02
53 103 0.54
54 86 0.45
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (53 bp):
GTGAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
Found at i:19965788 original size:80 final size:81
Alignment explanation
Indices: 19965692--19965965 Score: 356
Period size: 80 Copynumber: 3.4 Consensus size: 81
19965682 TAATTTGTGA
* *
19965692 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGT-GAAATACCGAAA
1 AATTACCGAAATACCCCTGTAGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAA
*
19965756 TACCCTTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* * *
19965772 AATTACCGAAATACCCCTGTAGGGTAAAATTATCAAAATACCCCTGTA-GGTAGAATTACCGAAA
1 AATTACCGAAATACCCCTGTAGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAA
*
19965836 TACCCCTATAGGGTAG
66 TACCCCTGTAGGGTAG
* * * * * * **
19965852 AATTATCGCAACACCCCTGTAAGGTAGAATTACCGAAATACCCTTATAGGGTAGAATTACTAAAA
1 AATTACCGAAATACCCCTGTAGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAA
*
19965917 TACCCCTGTAGGGTGG
66 TACCCCTGTAGGGTAG
* * *
19965933 AATTACCGAGATA-CCTTGTGGGGTAAAATTACC
1 AATTACCGAAATACCCCTGTAGGGTAAAATTACC
19965966 ATTTTGCCCC
Statistics
Matches: 164, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
79 3 0.02
80 124 0.76
81 37 0.23
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (81 bp):
AATTACCGAAATACCCCTGTAGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAA
TACCCCTGTAGGGTAG
Found at i:19966385 original size:22 final size:22
Alignment explanation
Indices: 19966333--19966397 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
19966323 TTAAAGCCTT
* *
19966333 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
19966355 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
19966377 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
19966398 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:19966593 original size:26 final size:27
Alignment explanation
Indices: 19966562--19966628 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
19966552 TTAGTAGCTT
* *
19966562 TGCCACATTATCTGT-TCTGGTGGCTC
1 TGCCACAATATCTGTATCTGGTGACTC
*
19966588 TGCCACAATATCTATATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGACTC
*
19966615 TGTCACAATATCTG
1 TGCCACAATATCTG
19966629 ATAACTGAGC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
26 13 0.37
27 22 0.63
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGACTC
Found at i:19966797 original size:6 final size:6
Alignment explanation
Indices: 19966788--19966872 Score: 59
Period size: 6 Copynumber: 13.8 Consensus size: 6
19966778 TTTCTGTTAC
* * *
19966788 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* *
19966837 CTGATT TTG-TCAC CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGA-TT CTGAT
19966873 AATGTTTCTT
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
5 4 0.06
6 50 0.81
7 6 0.10
8 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:19966814 original size:31 final size:31
Alignment explanation
Indices: 19966765--19966863 Score: 144
Period size: 31 Copynumber: 3.2 Consensus size: 31
19966755 TTGCATTCAC
*
19966765 ATTCTGATTTTTGTTTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
19966797 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * *
19966828 ATTCTGATTCTGATTTTGTCACCTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
19966859 ATTCT
1 ATTCT
19966864 AGTTCTGATA
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
31 55 0.89
32 7 0.11
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.51
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:19972435 original size:20 final size:20
Alignment explanation
Indices: 19972410--19972454 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
19972400 GCTATGCCTA
*
19972410 TTGGAAATTTTGGCTAACAC
1 TTGGAAATTTCGGCTAACAC
19972430 TTGGAAATTTCGGCTAACAC
1 TTGGAAATTTCGGCTAACAC
19972450 TTGGA
1 TTGGA
19972455 GAAGATAAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (20 bp):
TTGGAAATTTCGGCTAACAC
Found at i:19973227 original size:44 final size:44
Alignment explanation
Indices: 19973164--19973254 Score: 173
Period size: 44 Copynumber: 2.1 Consensus size: 44
19973154 TTCTAACTCA
19973164 AATGGTAAAGGCAATCGATAAGCAACAGGCCCTATCCTTTCGGT
1 AATGGTAAAGGCAATCGATAAGCAACAGGCCCTATCCTTTCGGT
*
19973208 AATGGTAAAGGCAATCGATAAGCAACCGGCCCTATCCTTTCGGT
1 AATGGTAAAGGCAATCGATAAGCAACAGGCCCTATCCTTTCGGT
19973252 AAT
1 AAT
19973255 CTCATATGGT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (44 bp):
AATGGTAAAGGCAATCGATAAGCAACAGGCCCTATCCTTTCGGT
Found at i:19988872 original size:23 final size:23
Alignment explanation
Indices: 19988846--19988890 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
19988836 TGGGTATGTG
*
19988846 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
19988869 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
19988891 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:19991327 original size:22 final size:21
Alignment explanation
Indices: 19991300--19991353 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
19991290 TTTTATATAA
*
19991300 TTGATAAATTTTTATGATAAAT
1 TTGATAAACTTTTA-GATAAAT
* *
19991322 TTGATAACACTTTTAGTTTAAT
1 TTGATAA-ACTTTTAGATAAAT
19991344 TTGATAAACT
1 TTGATAAACT
19991354 AATACAAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.11
22 19 0.68
23 6 0.21
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.48
Consensus pattern (21 bp):
TTGATAAACTTTTAGATAAAT
Found at i:19991914 original size:21 final size:22
Alignment explanation
Indices: 19991878--19991934 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
19991868 AGTAAATGGA
19991878 AAAAACTTGAGTTTTTACAAGG
1 AAAAACTTGAGTTTTTACAAGG
*
19991900 AAAAACTTGAGTTTTTACAGGG
1 AAAAACTTGAGTTTTTACAAGG
19991922 AAAAACTTG-GTTT
1 AAAAACTTGAGTTT
19991935 AATTTACTGG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 4 0.12
22 30 0.88
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (22 bp):
AAAAACTTGAGTTTTTACAAGG
Found at i:19992895 original size:13 final size:13
Alignment explanation
Indices: 19992864--19992897 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
19992854 TTTGAATTTC
19992864 AATTT-ATTTAAT
1 AATTTAATTTAAT
19992876 AATTTTAATTTAAT
1 AA-TTTAATTTAAT
19992890 AATTTAAT
1 AATTTAAT
19992898 CCAAGGAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 2 0.10
13 9 0.45
14 9 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AATTTAATTTAAT
Found at i:19995371 original size:21 final size:22
Alignment explanation
Indices: 19995345--19995386 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
19995335 GTTTCATGTT
19995345 TCATTTACACATAC-TCACATC
1 TCATTTACACATACATCACATC
* *
19995366 TCATTTCCATATACATCACAT
1 TCATTTACACATACATCACAT
19995387 AACATTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.36
Consensus pattern (22 bp):
TCATTTACACATACATCACATC
Found at i:19995690 original size:44 final size:43
Alignment explanation
Indices: 19995549--19995710 Score: 118
Period size: 42 Copynumber: 3.8 Consensus size: 43
19995539 AGCTCGTACA
* * * *
19995549 ATGCCAACGTCCTAGACGTGGTCTT--ACATTAATCAAATATCG
1 ATGCCAACATCCCAGACATGGTCTTACACATAAATCAAA-ATCG
* * * * * *
19995591 ATGTC-ACTATCTCAGATAGGGTCTTACAC-GAAATC-ATATACG
1 ATGCCAAC-ATCCCAGACATGGTCTTACACATAAATCAAAAT-CG
* **
19995633 GTGCCAATGTCCCAGACATGGTCTTACACATAAATCACAAATCG
1 ATGCCAACATCCCAGACATGGTCTTACACATAAATCA-AAATCG
*
19995677 ATGCCAACATCCCAGACGTGGTCTTACACGATAA
1 ATGCCAACATCCCAGACATGGTCTTACAC-ATAA
19995711 CACATATCGG
Statistics
Matches: 88, Mismatches: 23, Indels: 15
0.70 0.18 0.12
Matches are distributed among these distances:
41 4 0.05
42 38 0.43
43 10 0.11
44 29 0.33
45 7 0.08
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAACATCCCAGACATGGTCTTACACATAAATCAAAATCG
Found at i:20002404 original size:25 final size:24
Alignment explanation
Indices: 20002376--20002435 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 24
20002366 AAGAAAAACG
20002376 AGAAAAAGAATACAAAAAT-AGTAAA
1 AGAAAAAGAATA-AAAAATGAG-AAA
* * *
20002401 AGAAGAAAAAATAACAAGTGAGAAA
1 AGAA-AAAGAATAAAAAATGAGAAA
20002426 AGAAAAAGAA
1 AGAAAAAGAA
20002436 GAGCAAGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
24 5 0.17
25 15 0.52
26 9 0.31
ACGTcount: A:0.72, C:0.03, G:0.17, T:0.08
Consensus pattern (24 bp):
AGAAAAAGAATAAAAAATGAGAAA
Found at i:20005486 original size:21 final size:20
Alignment explanation
Indices: 20005449--20005498 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
20005439 ATCAGTTCAC
20005449 TTGAGCTCAATTCAGCTCAT
1 TTGAGCTCAATTCAGCTCAT
* * *
20005469 TTGAGTTCGAATTTAGCTCGT
1 TTGAGCTC-AATTCAGCTCAT
*
20005490 TTCAGCTCA
1 TTGAGCTCA
20005499 TTCCTACTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (20 bp):
TTGAGCTCAATTCAGCTCAT
Found at i:20010026 original size:46 final size:46
Alignment explanation
Indices: 20009976--20010151 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
20009966 TGGTTGAGCA
20009976 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
20010022 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* *
20010069 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
20010115 CCCGAGCTCGTTGAGTTGATTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
20010152 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
44 3 0.03
45 1 0.01
46 68 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:20010132 original size:93 final size:93
Alignment explanation
Indices: 20009973--20010143 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
20009963 GGATGGTTGA
* *
20009973 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGCCCGAACTCGTTGAGT
20010038 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
20010066 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGCCCGAACTCGTTGAGT
*
20010131 TGATTCCGAGTTC
66 TGAGTCCGAGTTC
20010144 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:20015159 original size:56 final size:56
Alignment explanation
Indices: 20015085--20015192 Score: 207
Period size: 56 Copynumber: 1.9 Consensus size: 56
20015075 AATGCCGGTC
20015085 GGATCTGTTGAAGCGTCAGAATGACTTGGCCAACATTCACGTATAGAGCCTTGGTT
1 GGATCTGTTGAAGCGTCAGAATGACTTGGCCAACATTCACGTATAGAGCCTTGGTT
*
20015141 GGATCTGTTGAAGTGTCAGAATGACTTGGCCAACATTCACGTATAGAGCCTT
1 GGATCTGTTGAAGCGTCAGAATGACTTGGCCAACATTCACGTATAGAGCCTT
20015193 CGCCTATAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (56 bp):
GGATCTGTTGAAGCGTCAGAATGACTTGGCCAACATTCACGTATAGAGCCTTGGTT
Found at i:20016341 original size:27 final size:27
Alignment explanation
Indices: 20016303--20016354 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
20016293 ACCAACAAGC
20016303 TGCTGACACCGAGATCATCCATAAAGT
1 TGCTGACACCGAGATCATCCATAAAGT
20016330 TGCTGACACCGAGATCATCCATAAA
1 TGCTGACACCGAGATCATCCATAAA
20016355 CTTTTTATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (27 bp):
TGCTGACACCGAGATCATCCATAAAGT
Found at i:20027152 original size:17 final size:17
Alignment explanation
Indices: 20027127--20027163 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
20027117 TTTGAAAAGG
20027127 AAACAAATGAATCTTAA
1 AAACAAATGAATCTTAA
*
20027144 AAACGAATGAATCTTAA
1 AAACAAATGAATCTTAA
20027161 AAA
1 AAA
20027164 TGTAATAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.59, C:0.11, G:0.08, T:0.22
Consensus pattern (17 bp):
AAACAAATGAATCTTAA
Found at i:20030600 original size:40 final size:40
Alignment explanation
Indices: 20030554--20030778 Score: 272
Period size: 40 Copynumber: 5.6 Consensus size: 40
20030544 CTTGCGCAAG
* * * *
20030554 GCCTTCGGGTCTTAGCCCAGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
20030594 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
20030634 GCCTTCGGGTTTTAGCTCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
20030674 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
20030714 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
20030755 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
20030779 CATTCGAATA
Statistics
Matches: 156, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 126 0.81
41 29 0.19
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:20030649 original size:80 final size:80
Alignment explanation
Indices: 20030518--20030778 Score: 285
Period size: 80 Copynumber: 3.3 Consensus size: 80
20030508 CTCAAGTAAT
* * * * * * * * *
20030518 CTTCGGGATTTAG-CCGGATATAACTACTTGCGC-AAGGCCTTCGGGTCTTAGCCCAGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
20030581 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* * * *
20030596 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCTCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
20030660 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * *
20030676 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
20030741 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
20030757 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
20030779 CATTCGAATA
Statistics
Matches: 151, Mismatches: 27, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
78 12 0.08
79 15 0.10
80 91 0.60
81 33 0.22
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:20039173 original size:22 final size:19
Alignment explanation
Indices: 20039148--20039195 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 19
20039138 TACCGTTTTG
20039148 ATTAAATTCTTGTCAAAAAATA
1 ATTAAATT-TT-T-AAAAAATA
*
20039170 ATT-AATTTTTATAAAATA
1 ATTAAATTTTTAAAAAATA
20039188 ATTAAATT
1 ATTAAATT
20039196 ATACTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 10 0.42
19 5 0.21
20 2 0.08
21 4 0.17
22 3 0.12
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (19 bp):
ATTAAATTTTTAAAAAATA
Found at i:20041516 original size:55 final size:54
Alignment explanation
Indices: 20041388--20041574 Score: 200
Period size: 55 Copynumber: 3.5 Consensus size: 54
20041378 CTTACCATTA
* * * *
20041388 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCTTTAT-GT-ACTCACCAATG
1 CCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGTAACTCATCAATG
* * * *
20041441 CCATGCCTTGGCATGTTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAATG
1 CCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAGTAACTCATCAATG
* * * * *
20041496 GCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAG-AACTCATTAATG
1 CCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGTAACTCATCAATG
*
20041550 CCATGCCTTGGCATGGTCTTACATG
1 CCATGCCTTGACATGGTCTTACATG
20041575 ATATCCTTAT
Statistics
Matches: 110, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
52 2 0.02
53 30 0.27
54 35 0.32
55 41 0.37
56 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (54 bp):
CCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGTAACTCATCAATG
Found at i:20041569 original size:54 final size:54
Alignment explanation
Indices: 20041388--20041582 Score: 214
Period size: 54 Copynumber: 3.6 Consensus size: 54
20041378 CTTACCATTA
* * * * * *
20041388 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCTTTAT-GTACTCACCAATG
1 CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATG
* * ** *
20041441 CCATGCCTTGGCATGTTCTTACATGGGA-CCTTTTCCTTATAGTAACTCATCAATG
1 CCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCATCAATG
* * * *
20041496 GCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTCATTAATG
1 CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATG
*
20041550 CCATGCCTTGGCATGGTCTTACATGATATCCTT
1 CCATGCCTTGACATGGTCTTACATGATATCCTT
20041583 ATCTTACCAA
Statistics
Matches: 116, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
52 2 0.02
53 30 0.26
54 41 0.35
55 41 0.35
56 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.37
Consensus pattern (54 bp):
CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATG
Found at i:20041613 original size:47 final size:47
Alignment explanation
Indices: 20041561--20041664 Score: 156
Period size: 47 Copynumber: 2.2 Consensus size: 47
20041551 CATGCCTTGG
20041561 CATGGTCTTACATGATATCCTT-ATCTTACCAAATACCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTGA-CTTACCAAATACCATGTTCCAAA
* * *
20041608 CATGGTCTTACATGGTATCCTTGACTTACCAAATGCCATGTTCCAAG
1 CATGGTCTTACATGATATCCTTGACTTACCAAATACCATGTTCCAAA
*
20041655 CATGCTCTTA
1 CATGGTCTTA
20041665 TACGGTGTCC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
47 51 0.98
48 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTGACTTACCAAATACCATGTTCCAAA
Found at i:20041676 original size:47 final size:47
Alignment explanation
Indices: 20041561--20041682 Score: 138
Period size: 47 Copynumber: 2.6 Consensus size: 47
20041551 CATGCCTTGG
* * *
20041561 CATGGTCTTACATGATATCCTT-ATCTTACCAAATACCATGTTCCAAA
1 CATGCTCTTACACGGTATCCTTGA-CTTACCAAATACCATGTTCCAAA
* * * *
20041608 CATGGTCTTACATGGTATCCTTGACTTACCAAATGCCATGTTCCAAG
1 CATGCTCTTACACGGTATCCTTGACTTACCAAATACCATGTTCCAAA
* * *
20041655 CATGCTCTTATACGGTGTCCTTGTCTTA
1 CATGCTCTTACACGGTATCCTTGACTTA
20041683 GTGCCAATGC
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
47 65 0.98
48 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (47 bp):
CATGCTCTTACACGGTATCCTTGACTTACCAAATACCATGTTCCAAA
Found at i:20045586 original size:19 final size:16
Alignment explanation
Indices: 20045562--20045605 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 16
20045552 TATATTAAAT
20045562 TTTAATTAAATCCAATTAA
1 TTTAATTAAA-CC-ATT-A
20045581 TTTAATT-AACCATTA
1 TTTAATTAAACCATTA
20045596 TTTAATTAAA
1 TTTAATTAAA
20045606 AAAATTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.33
16 5 0.21
17 2 0.08
18 2 0.08
19 7 0.29
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTAATTAAACCATTA
Found at i:20048270 original size:27 final size:27
Alignment explanation
Indices: 20048240--20048378 Score: 169
Period size: 27 Copynumber: 5.2 Consensus size: 27
20048230 GTGATGAAGT
20048240 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
* *
20048267 CACCAGA-ACAAATATATGTGGCAGAAC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
20048294 CACCAGAT-CAGATATCGTGGCATAGC
1 CACCAGATACAGATATTGTGGCAGAGC
*
20048320 CACCAGA-ACAGATAATCGTGGCAGAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
*
20048347 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
20048374 CACCA
1 CACCA
20048379 AGACGCTTCC
Statistics
Matches: 98, Mismatches: 9, Indels: 10
0.84 0.08 0.09
Matches are distributed among these distances:
26 27 0.28
27 71 0.72
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:20048314 original size:53 final size:53
Alignment explanation
Indices: 20048240--20048378 Score: 208
Period size: 53 Copynumber: 2.6 Consensus size: 53
20048230 GTGATGAAGT
*
20048240 CACCAGATACAGATATTGTGGCAGAGCCACCAGAACAAATATAT-GTGGCAGAAC
1 CACCAGAT-CAGATATTGTGGCATAGCCACCAGAACAAATA-ATCGTGGCAGAAC
* * *
20048294 CACCAGATCAGATATCGTGGCATAGCCACCAGAACAGATAATCGTGGCAGAGC
1 CACCAGATCAGATATTGTGGCATAGCCACCAGAACAAATAATCGTGGCAGAAC
20048347 CACCAGATCAGATAATTGTGGCATAGCCACCA
1 CACCAGATCAGAT-ATTGTGGCATAGCCACCA
20048379 AGACGCTTCC
Statistics
Matches: 78, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
52 2 0.03
53 51 0.65
54 25 0.32
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (53 bp):
CACCAGATCAGATATTGTGGCATAGCCACCAGAACAAATAATCGTGGCAGAAC
Found at i:20048514 original size:26 final size:27
Alignment explanation
Indices: 20048485--20048558 Score: 96
Period size: 26 Copynumber: 2.7 Consensus size: 27
20048475 AAATTAACCC
* *
20048485 TAGGGGTATAACGGTAATTTTGC-ACA
1 TAGGGGTATAACAGTAATTTTCCAACA
20048511 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCCA-ACA
* *
20048539 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAACAGTAATTT
20048559 AGATGCTCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 21 0.50
28 21 0.50
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.35
Consensus pattern (27 bp):
TAGGGGTATAACAGTAATTTTCCAACA
Found at i:20050031 original size:26 final size:26
Alignment explanation
Indices: 20050001--20050082 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
20049991 TGAAATTCCC
20050001 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
**
20050027 ATCATAAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
20050053 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
20050079 ATCA
1 ATCA
20050083 ATTTGTATCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:20055804 original size:27 final size:27
Alignment explanation
Indices: 20055756--20055913 Score: 173
Period size: 27 Copynumber: 5.9 Consensus size: 27
20055746 GCGAGGCTGC
* *
20055756 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
20055783 CAGATATTGTGGTAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
20055809 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
20055836 CAGATAATCGTGGTATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
20055863 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
20055890 CAGATAATTGTGGCATAGCCACCA
1 CAGAT-ATTGTGGCAGAGCCACCA
20055914 AGACGCTTCC
Statistics
Matches: 112, Mismatches: 11, Indels: 16
0.81 0.08 0.12
Matches are distributed among these distances:
26 10 0.09
27 97 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:20055849 original size:54 final size:54
Alignment explanation
Indices: 20055774--20055913 Score: 237
Period size: 54 Copynumber: 2.6 Consensus size: 54
20055764 GTGACGAAGT
*
20055774 CACCAGATACAGAT-ATTGTGGTAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGTATAGCCACCAGAACAGATATATGTGGCAGAGC
*
20055828 CACCAGATCAGATAATCGTGGTATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGTATAGCCACCAGAACAGATATATGTGGCAGAGC
*
20055882 CACCAGATCAGATAATTGTGGCATAGCCACCA
1 CACCAGATCAGATAATTGTGGTATAGCCACCA
20055914 AGACGCTTCC
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 76 0.94
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGTATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:20057569 original size:26 final size:26
Alignment explanation
Indices: 20057535--20057642 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
20057525 TGAAATTCCC
* *
20057535 ATCACGGAACCTTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
20057561 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
20057587 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
20057613 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
20057639 ATCA
1 ATCA
20057643 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.35, C:0.29, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:20061317 original size:27 final size:28
Alignment explanation
Indices: 20061286--20061338 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
20061276 AGCACAATTT
20061286 GGGCCTAAACCC-TTTCAGTAACAGTTA
1 GGGCCTAAACCCATTTCAGTAACAGTTA
* *
20061313 GGGCCTTAGCCCATTTCAGTAACAGT
1 GGGCCTAAACCCATTTCAGTAACAGT
20061339 AGCGATTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (28 bp):
GGGCCTAAACCCATTTCAGTAACAGTTA
Found at i:20072359 original size:64 final size:65
Alignment explanation
Indices: 20072199--20072365 Score: 178
Period size: 68 Copynumber: 2.5 Consensus size: 65
20072189 ATACATATAG
* * *
20072199 TATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAAGAGAGCTACAAGACAT
1 TATGTAGCTAGGTCACATGTGT-GTACTAAGTGCACACCATGTGTACAAGAGAGCTAC-AGACAT
20072264 TA
64 TA
* * * * **
20072266 TGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGCTAC-GGGA
1 T-ATGTAGCTAGGTCACATGTGTG-TACTAAGTGCACACCATGT-GTACAAGAGAGCTACAGACA
20072329 -TA
63 TTA
20072331 TATGTAGCTAGGTCACATGTGTAGTACTAAGTGCA
1 TATGTAGCTAGGTCACATGTGT-GTACTAAGTGCA
20072366 GGCTACTATG
Statistics
Matches: 83, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
64 28 0.34
65 4 0.05
66 2 0.02
67 2 0.02
68 46 0.55
69 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.27
Consensus pattern (65 bp):
TATGTAGCTAGGTCACATGTGTGTACTAAGTGCACACCATGTGTACAAGAGAGCTACAGACATTA
Found at i:20072428 original size:28 final size:27
Alignment explanation
Indices: 20072395--20072479 Score: 74
Period size: 28 Copynumber: 3.3 Consensus size: 27
20072385 TAACTTCAAT
20072395 CACGTGTGTAGTACTAAGTGCAGGCTA
1 CACGTGTGTAGTACTAAGTGCAGGCTA
* **
20072422 CTACGTGTATCAG-A-T-A-TTTAGG-T-
1 C-ACGTGTGT-AGTACTAAGTGCAGGCTA
20072445 CACGTGTGTAGTACTAAGTGCAGGCTA
1 CACGTGTGTAGTACTAAGTGCAGGCTA
20072472 CAACGTGT
1 C-ACGTGT
20072480 ACCGAATAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 17
0.65 0.09 0.26
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 2 0.05
25 8 0.19
26 2 0.05
27 3 0.07
28 14 0.33
29 2 0.05
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (27 bp):
CACGTGTGTAGTACTAAGTGCAGGCTA
Found at i:20072469 original size:50 final size:49
Alignment explanation
Indices: 20072339--20072523 Score: 221
Period size: 50 Copynumber: 3.7 Consensus size: 49
20072329 TATATGTAGC
* *
20072339 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCGAT-A-TT
* * * *
20072391 CA-ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATATT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCGATATT
* * *
20072440 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACAACGTGTACCGAATAAT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCG-ATATT
*
20072490 T-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
20072524 TGCGTACCAG
Statistics
Matches: 116, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
49 35 0.30
50 42 0.36
51 38 0.33
52 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (49 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGATATT
Found at i:20076338 original size:40 final size:40
Alignment explanation
Indices: 20076275--20076499 Score: 324
Period size: 40 Copynumber: 5.6 Consensus size: 40
20076265 CAATTGAGGA
* *
20076275 TTATATCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
20076315 TTATTTCTGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
20076355 TTATTCCCGGGTTAAGTCCCAAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
20076395 TTATTTCCAGGTTAAGTCCCGAAGGCATTCATGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * *
20076435 CTATTTCCGGGTTAAGTCCCAAAGGCATTTGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
** * *
20076475 TTACATCCGGGCTAAATCCCGAAGG
1 TTATTTCCGGGTTAAGTCCCGAAGG
20076500 TAATTGGGTT
Statistics
Matches: 164, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 164 1.00
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.33
Consensus pattern (40 bp):
TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:20083215 original size:27 final size:26
Alignment explanation
Indices: 20083198--20083267 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
20083188 ATATTAAGTC
20083198 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
20083225 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
20083253 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
20083268 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:20083261 original size:28 final size:28
Alignment explanation
Indices: 20083198--20083295 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
20083188 ATATTAAGTC
*
20083198 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
20083225 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
20083253 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
20083282 CGCACACTTAGTGC
1 CGCACACTTAGTGC
20083296 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:20088215 original size:40 final size:40
Alignment explanation
Indices: 20088117--20088379 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
20088107 TCCTCGTTCA
* * * * *
20088117 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
20088156 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
20088196 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
20088236 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
20088276 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
20088316 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
20088356 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
20088380 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:20096159 original size:40 final size:40
Alignment explanation
Indices: 20096061--20096323 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
20096051 TCCTCGTTCA
* * * * *
20096061 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
20096100 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
20096140 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
20096180 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
20096220 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
20096260 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
20096300 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
20096324 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:20101237 original size:83 final size:80
Alignment explanation
Indices: 20101096--20101248 Score: 184
Period size: 83 Copynumber: 1.9 Consensus size: 80
20101086 CGACTCTTAG
* ** *
20101096 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTAGACCACTGGCTCGCAGGCCCTTCG-GA
1 CACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAGA-CACTGGCTCAAAAGCCCTTCGAG-
20101160 ACCAAGTCCGGTTATGA
64 ACCAAGTCCGGTTATGA
* *
20101177 CACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG-CACTGGCTCAAAAGCCCTTCG
1 CACTGGCTC--AAAAGCCCTTCGAAACCAAGCTCGG--ATTAGACACTGGCTCAAAAGCCCTTCG
20101241 AGACCAAG
62 AGACCAAG
20101249 CTCGGATTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
81 9 0.15
83 46 0.75
84 1 0.02
85 5 0.08
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (80 bp):
CACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAGACACTGGCTCAAAAGCCCTTCGAGAC
CAAGTCCGGTTATGA
Found at i:20101281 original size:41 final size:41
Alignment explanation
Indices: 20101096--20101269 Score: 178
Period size: 41 Copynumber: 4.2 Consensus size: 41
20101086 CGACTCTTAG
20101096 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTA-GAC
1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGG-TTATGAC
** *
20101137 CACTGGCTCGCAGGCCCTTCG-GAACCAAG-TCCGGTTATGA-
1 CACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGTTATGAC
* * * * *
20101177 CACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
1 CACTGGCTC--AAAAGCCCTTCGAGACCAAGCTCGGTTATGAC
*
20101220 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTA-AAC
1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGG-TTATGAC
20101261 CACTGGCTC
1 CACTGGCTC
20101270 GCAGGCCCTT
Statistics
Matches: 110, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
40 14 0.13
41 61 0.55
42 25 0.23
43 10 0.09
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (41 bp):
CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGTTATGAC
Found at i:20103275 original size:40 final size:39
Alignment explanation
Indices: 20103213--20103393 Score: 220
Period size: 40 Copynumber: 4.6 Consensus size: 39
20103203 ACCCAAGTAT
*
20103213 CTTCGGGACTTAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGC-ACTAGCACAAATGC
* * *
20103252 CTTTGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATGC
* * *
20103292 CTTCAGGATTTAGCCCGGATATAATCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATAT-AGCACTAGCACAAATGC
* * * *
20103332 CTTCGGGACTTAGCCCGGGTATAGTAACTTGTACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATGC
20103372 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
20103394 CATCCGAATA
Statistics
Matches: 120, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
39 12 0.10
40 106 0.88
41 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.26
Consensus pattern (39 bp):
CTTCGGGACTTAGCCCGGATATAGCACTAGCACAAATGC
Found at i:20105426 original size:40 final size:40
Alignment explanation
Indices: 20105368--20105530 Score: 222
Period size: 40 Copynumber: 4.1 Consensus size: 40
20105358 TCCTCGGGAT
*
20105368 TTAG-CCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
*
20105407 TTAGCCCGGATGTAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
* * * *
20105447 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAT-AGCAACTCGCACAAATGCCTTCGGGTC
* * *
20105487 ATAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
20105527 TTAG
1 TTAG
20105531 TCCAGTTATC
Statistics
Matches: 106, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
Found at i:20115881 original size:34 final size:34
Alignment explanation
Indices: 20115810--20115902 Score: 87
Period size: 34 Copynumber: 2.7 Consensus size: 34
20115800 TTAGGGCCTT
* * *
20115810 AGCCCATTTCAGTAACAATAGCAATCTGGGCGAG
1 AGCCCATTACAGTAACAGTAGCAATCTAGGCGAG
* * * **
20115844 AGCCCGTTGCAGTAACAGTAGCAGTCTAGGCTTG
1 AGCCCATTACAGTAACAGTAGCAATCTAGGCGAG
* *
20115878 AGCCCTTTATAGTAACAGTATGCAA
1 AGCCCATTACAGTAACAGTA-GCAA
20115903 ATAGAAATCC
Statistics
Matches: 47, Mismatches: 11, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
34 44 0.94
35 3 0.06
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.24
Consensus pattern (34 bp):
AGCCCATTACAGTAACAGTAGCAATCTAGGCGAG
Found at i:20121068 original size:7 final size:7
Alignment explanation
Indices: 20121024--20121066 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
20121014 TCACATTTCT
20121024 ACTCATC
1 ACTCATC
*
20121031 CCTCATC
1 ACTCATC
*
20121038 ACCCATC
1 ACTCATC
20121045 ACTCATC
1 ACTCATC
20121052 ACTCATC
1 ACTCATC
*
20121059 ATTCATC
1 ACTCATC
20121066 A
1 A
20121067 TTATCTCCGC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.28, C:0.44, G:0.00, T:0.28
Consensus pattern (7 bp):
ACTCATC
Found at i:20122786 original size:28 final size:29
Alignment explanation
Indices: 20122749--20122814 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
20122739 TAAAGTGATT
*
20122749 TTGAGTAAAAATGTATATT-AGGGATTAAA
1 TTGAG-AAAAATGTAAATTGAGGGATTAAA
* *
20122778 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGAGAAAAATGTAAATTGAGGGATTAAA
*
20122807 TTGTGAAA
1 TTGAGAAA
20122815 TAAATGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 11 0.34
29 21 0.66
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (29 bp):
TTGAGAAAAATGTAAATTGAGGGATTAAA
Found at i:20134057 original size:24 final size:24
Alignment explanation
Indices: 20134030--20134077 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
20134020 TTCACAAAAG
20134030 TTGTTTATTAGACAACTACAACTC
1 TTGTTTATTAGACAACTACAACTC
20134054 TTGTTTATTAGACAACTACAACTC
1 TTGTTTATTAGACAACTACAACTC
20134078 ATATTCTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (24 bp):
TTGTTTATTAGACAACTACAACTC
Found at i:20148813 original size:46 final size:45
Alignment explanation
Indices: 20148763--20148938 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 45
20148753 TGATTGAGCA
* *
20148763 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AAATG
* * * *
20148809 TCCGAACTCGTTGAGTTGAGTCAGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AA--ATG
*
20148854 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AAATG
* * *
20148902 -CCTGAGCCCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
20148939 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
43 5 0.05
45 6 0.06
46 58 0.54
47 28 0.26
48 4 0.04
50 6 0.06
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAATG
Found at i:20148919 original size:93 final size:93
Alignment explanation
Indices: 20148760--20148931 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
20148750 GGATGATTGA
** * *
20148760 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGAAAACGTCCGAACCCGTTGAGT
20148825 TGAGTCAGAGTTCGTGAGATGTAACTAG
66 TGAGTCAGAGTTCGTGAGATGTAACTAG
* *
20148853 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAAACG-CCTGAGCCCGTTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGAAAACGTCC-GAACCCGTTGAG
*
20148917 TTGAGTCCGAGTTCG
65 TTGAGTCAGAGTTCG
20148932 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGAAAACGTCCGAACCCGTTGAGT
TGAGTCAGAGTTCGTGAGATGTAACTAG
Found at i:20163463 original size:57 final size:59
Alignment explanation
Indices: 20163357--20163480 Score: 164
Period size: 57 Copynumber: 2.1 Consensus size: 59
20163347 AAATAAATTG
* *
20163357 TGAAAATAGAGAAATGGTAAATCATTTGAAAATAACTATGGTTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAATGGTAAACCATTTGAAAATAACTATGGTTTTCTCCAAAATGAAAA
* * * *
20163416 TGAAAATGGAGAAAT-G-AAACCATTTGGAAATGAA-TGTGTTTTTCTCCAAAATTAAAA
1 TGAAAATGGAGAAATGGTAAACCATTTGAAAAT-AACTATGGTTTTCTCCAAAATGAAAA
20163473 TGAAAATG
1 TGAAAATG
20163481 ACCTGAAATT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
57 41 0.71
58 3 0.05
59 14 0.24
ACGTcount: A:0.46, C:0.08, G:0.17, T:0.29
Consensus pattern (59 bp):
TGAAAATGGAGAAATGGTAAACCATTTGAAAATAACTATGGTTTTCTCCAAAATGAAAA
Found at i:20166937 original size:26 final size:25
Alignment explanation
Indices: 20166882--20166943 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
20166872 TTCAAGATCA
*
20166882 ATTTTTTTTGTTTTTTTTAATTCTTG
1 ATTTTTTTTCTTTTTTTT-ATTCTTG
*
20166908 ATTTTTTTTCTTCTTTTTT-TTCCTTT
1 ATTTTTTTTCTT-TTTTTTATT-CTTG
20166934 ATTTATTTTT
1 ATTT-TTTTT
20166944 TTAGAGAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 2 0.06
26 18 0.58
27 11 0.35
ACGTcount: A:0.10, C:0.08, G:0.03, T:0.79
Consensus pattern (25 bp):
ATTTTTTTTCTTTTTTTTATTCTTG
Found at i:20175392 original size:26 final size:26
Alignment explanation
Indices: 20175355--20175438 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
20175345 TGATATAAAT
* *
20175355 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
20175381 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
20175407 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
20175433 TGATAA
1 TGATAA
20175439 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:20177474 original size:137 final size:137
Alignment explanation
Indices: 20177225--20177511 Score: 520
Period size: 137 Copynumber: 2.1 Consensus size: 137
20177215 GAGTAGTCTC
20177225 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* * *
20177290 TGTTATCTGAATAATGGGCTAAGGCCCAGTTTATTGTAATCTTAAAAGGGTTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
20177355 ACTGTTA
131 ACTGTTA
20177362 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
20177427 TGTTATCTGAATAAGGGGCTAAGGCCTAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
20177492 ACTGTTA
131 ACTGTTA
**
20177499 CCTGAATGGGCTT
1 CCCAAATGGGCTT
20177512 AGGCCCAATA
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:20177805 original size:13 final size:13
Alignment explanation
Indices: 20177787--20177814 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
20177777 TATTACTAAG
20177787 ATAGGTAATACTT
1 ATAGGTAATACTT
20177800 ATAGGTAATACTT
1 ATAGGTAATACTT
20177813 AT
1 AT
20177815 TTTAACTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.39
Consensus pattern (13 bp):
ATAGGTAATACTT
Found at i:20181304 original size:26 final size:26
Alignment explanation
Indices: 20181267--20181350 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
20181257 TGATATAAAT
* *
20181267 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
20181293 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
20181319 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
20181345 TGATAA
1 TGATAA
20181351 AATTTCATGT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:20185148 original size:40 final size:40
Alignment explanation
Indices: 20185088--20185271 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
20185078 TATTCGAATG
* *
20185088 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTAACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
20185128 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
20185168 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
20185208 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
20185248 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
20185272 CTTGTGCGAG
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 122 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:20185221 original size:80 final size:80
Alignment explanation
Indices: 20185088--20185271 Score: 255
Period size: 80 Copynumber: 2.3 Consensus size: 80
20185078 TATTCGAATG
* * *
20185088 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTAACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCAACTATATCCGGACTAAG-TCCCGAAGGC
* *
20185152 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* * *
20185168 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCAACTATATCCGGACTAAGTCCCGAAGGCA
*
20185233 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
20185248 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
20185272 CTTGTGCGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 3 0.03
80 90 0.97
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCAACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:20185774 original size:137 final size:137
Alignment explanation
Indices: 20185527--20185813 Score: 547
Period size: 137 Copynumber: 2.1 Consensus size: 137
20185517 CGTTACACTC
20185527 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
20185592 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
20185657 ACTGTTA
131 ACTGTTA
*
20185664 CCCAAATGGGCTTGCATTTGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
20185729 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
20185794 ACTGTTA
131 ACTGTTA
*
20185801 CCTAAATGGGCTT
1 CCCAAATGGGCTT
20185814 AGGCCCAACA
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:20192677 original size:8 final size:7
Alignment explanation
Indices: 20192649--20192675 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
20192639 AAACATCAAT
20192649 TTTTTTA
1 TTTTTTA
20192656 TTTTTTA
1 TTTTTTA
20192663 TTTTTTA
1 TTTTTTA
20192670 TTTTTT
1 TTTTTT
20192676 TACCAAGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTA
Found at i:20194398 original size:56 final size:56
Alignment explanation
Indices: 20194338--20194519 Score: 267
Period size: 56 Copynumber: 3.2 Consensus size: 56
20194328 GGTTTTATTG
* * *
20194338 GCACACATAGAAT-GGAATCACATATCGATGCCAACGTTTTAAACTTGGTCTTACTT
1 GCACACATA-TATCGGAATCACATATCGATGCCAACGTATTAAACATGGTCTTACTT
* * * *
20194394 GCACACATATATCAGAATCACATATCGATGCAAATGTATTAAACATGGTCTTACTC
1 GCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACATGGTCTTACTT
*
20194450 GCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTT
1 GCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACATGGTCTTACTT
*
20194506 GCACACCTATATCG
1 GCACACATATATCG
20194520 ATGCCATGGT
Statistics
Matches: 112, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
55 2 0.02
56 110 0.98
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.29
Consensus pattern (56 bp):
GCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACATGGTCTTACTT
Found at i:20197678 original size:46 final size:43
Alignment explanation
Indices: 20197603--20197735 Score: 158
Period size: 46 Copynumber: 3.0 Consensus size: 43
20197593 CATTGGGTGG
* * * *
20197603 TATGTGAGCCAGTGTAAGACATGTCTGGGACATGTATCGGCCACAT
1 TATGAGAGCCAGTGTAAGACATGTTTGGGACATGCATCAG---CAT
20197649 TATGAGAGCCAGTGTAAGACATGTTTGGGACATGCATCAGCAT
1 TATGAGAGCCAGTGTAAGACATGTTTGGGACATGCATCAGCAT
* *
20197692 TGAGGTGAGAGCTAGTGTAAGACATGTTTGGGACATGCGTCAGC
1 T-A--TGAGAGCCAGTGTAAGACATGTTTGGGACATGCATCAGC
20197736 CTCGGGATAT
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
43 4 0.05
44 1 0.01
46 73 0.94
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.26
Consensus pattern (43 bp):
TATGAGAGCCAGTGTAAGACATGTTTGGGACATGCATCAGCAT
Found at i:20197884 original size:49 final size:49
Alignment explanation
Indices: 20197797--20197916 Score: 127
Period size: 49 Copynumber: 2.4 Consensus size: 49
20197787 GTTATGTGTT
* * * ** *
20197797 AGTGTAAGACTTGTTTGGGACATGGCATCGACACCGATAGATGGGAGCC
1 AGTGTAAGACCTGTTTGGGACATAGCATAGACACCGATAGATGAAAGCA
* *
20197846 AGTGTAAGACCTGTTTGGGACATAGCATTAG-C-CTCGATATATGAAAGTA
1 AGTGTAAGACCTGTTTGGGACATAGCA-TAGACAC-CGATAGATGAAAGCA
*
20197895 AGTGTAAGACCTGCTTGGGACA
1 AGTGTAAGACCTGTTTGGGACA
20197917 CGACATCTAC
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
48 1 0.02
49 57 0.95
50 2 0.03
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTTTGGGACATAGCATAGACACCGATAGATGAAAGCA
Found at i:20197935 original size:141 final size:141
Alignment explanation
Indices: 20197659--20197975 Score: 310
Period size: 142 Copynumber: 2.2 Consensus size: 141
20197649 TATGAGAGCC
** * *
20197659 AGTGTAAGACATGTTTGGGACAT-GCATCAGCATTGAGGTGAGAGCTAGTGTAAGACATGTTTGG
1 AGTGTAAGACATGTTTGGGACATGGCATCAGCACCGAGATGAGAGCCAGTGTAAGACATGTTTGG
* * * * *
20197723 GACATGCGTCAGCCTCGGGATATACAAGCTAGTGTAAGACCTGTCTAGGACATGGCGTCAGCTTG
66 GACATGCATCAGCCTCGAGATATACAAGCTAGTGTAAGACCTGTCTAGGACACGACATCAGCTTG
*
20197788 TTATGTG-T-T
131 TAATGTGCTAT
* * *
20197797 AGTGTAAGACTTGTTTGGGACATGGCATC-GACACCGATAGATGGGAGCCAGTGTAAGACCTGTT
1 AGTGTAAGACATGTTTGGGACATGGCATCAG-CACCG--AGATGAGAGCCAGTGTAAGACATGTT
* * *
20197861 TGGGACATAGCATTAGCCTCGATATATGA-AAG-TAAGTGTAAGACCTG-CTTGGGACACGACAT
63 TGGGACAT-GCATCAGCCTCGAGATAT-ACAAGCT-AGTGTAAGACCTGTC-TAGGACACGACAT
20197923 CTA-CTT-TAATGTGCTAGCT
124 C-AGCTTGTAATGTGCTA--T
* *
20197942 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCA
1 AGTGTAAGA-CATGTTTGGGACATGGCATCAGCA
20197976 TTTTATCCCA
Statistics
Matches: 145, Mismatches: 19, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
138 23 0.16
139 8 0.06
141 38 0.26
142 44 0.30
143 2 0.01
145 10 0.07
146 19 0.13
147 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (141 bp):
AGTGTAAGACATGTTTGGGACATGGCATCAGCACCGAGATGAGAGCCAGTGTAAGACATGTTTGG
GACATGCATCAGCCTCGAGATATACAAGCTAGTGTAAGACCTGTCTAGGACACGACATCAGCTTG
TAATGTGCTAT
Found at i:20202755 original size:20 final size:21
Alignment explanation
Indices: 20202716--20202755 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
20202706 GTCATAATGG
*
20202716 CCACATGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
20202737 CCACACGGGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
20202756 GCTTTAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.38, G:0.30, T:0.23
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:20206552 original size:56 final size:56
Alignment explanation
Indices: 20206492--20206683 Score: 312
Period size: 56 Copynumber: 3.4 Consensus size: 56
20206482 TCCCAGATAG
* * *
20206492 GGTCTTACTCGCACACATAGAACGGAATCACATATCGATGCCAATGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGT
* *
20206548 GGTCTTACTCACACATATATATCGGAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGT
* * *
20206604 GGTCTTATTCGCACACATATATCAGAATCACATATCAATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGT
20206660 GGTCTTACTCGCACACATATATCG
1 GGTCTTACTCGCACACATATATCG
20206684 ATGCCAACGT
Statistics
Matches: 124, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 124 1.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGT
Found at i:20206688 original size:43 final size:43
Alignment explanation
Indices: 20206635--20206732 Score: 160
Period size: 43 Copynumber: 2.3 Consensus size: 43
20206625 TCAGAATCAC
* * *
20206635 ATATCAATGCCAACGTATTAAACGTGGTCTTACTCGCACACAT
1 ATATCGATGCCAACGTATTAAACGTGGTCTCACTCACACACAT
*
20206678 ATATCGATGCCAACGTATTAAATGTGGTCTCACTCACACACAT
1 ATATCGATGCCAACGTATTAAACGTGGTCTCACTCACACACAT
20206721 ATATCGATGCCA
1 ATATCGATGCCA
20206733 TGGTCTTATG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.28
Consensus pattern (43 bp):
ATATCGATGCCAACGTATTAAACGTGGTCTCACTCACACACAT
Found at i:20209604 original size:40 final size:40
Alignment explanation
Indices: 20209546--20209747 Score: 277
Period size: 40 Copynumber: 5.0 Consensus size: 40
20209536 CGGATGATAA
* *
20209546 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
20209586 CCGGGCTAAGTCCTGAAGGCA-TTGTTGCGAGTTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTATA-T
20209626 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
**
20209666 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
20209706 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
20209746 CC
1 CC
20209748 AGTTAAATCC
Statistics
Matches: 149, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
39 5 0.03
40 140 0.94
41 4 0.03
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:20232052 original size:23 final size:23
Alignment explanation
Indices: 20232026--20232073 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
20232016 AAGAGATTAA
20232026 ATGGAGATCTTCGATCTTGAGGG
1 ATGGAGATCTTCGATCTTGAGGG
20232049 ATGGAGATCTTCGATCTTGAGGG
1 ATGGAGATCTTCGATCTTGAGGG
20232072 AT
1 AT
20232074 ATCCGCTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.23, C:0.12, G:0.33, T:0.31
Consensus pattern (23 bp):
ATGGAGATCTTCGATCTTGAGGG
Found at i:20247844 original size:6 final size:6
Alignment explanation
Indices: 20247829--20248012 Score: 175
Period size: 6 Copynumber: 30.5 Consensus size: 6
20247819 AACCAAAATG
* * *
20247829 AGAATT AGAATC AGAACC AGTAA-C AGAATC AGAATC AGAATC A-AATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
* *
20247876 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
*
20247925 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGAATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* *
20247973 AGAATC AGAATC AGAATT ACGTGA-C AGAATC AGAATC AGA
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGA
20248013 TTGTGAATGC
Statistics
Matches: 149, Mismatches: 14, Indels: 30
0.77 0.07 0.16
Matches are distributed among these distances:
5 14 0.09
6 121 0.81
7 12 0.08
8 2 0.01
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:20247863 original size:30 final size:30
Alignment explanation
Indices: 20247829--20248012 Score: 256
Period size: 30 Copynumber: 6.3 Consensus size: 30
20247819 AACCAAAATG
* **
20247829 AGAATTAGAATCAGAACCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
20247859 AGAATCAGAATCA-AATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
20247888 AGAATCAGAATCAGAATTAGGT----G-A-C
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
20247913 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
20247943 AGAATCAGAATCAGAATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
20247973 AGAATCAGAATCAGAATTACGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
20248004 AGAATCAGA
1 AGAATCAGA
20248013 TTGTGAATGC
Statistics
Matches: 139, Mismatches: 6, Indels: 17
0.86 0.04 0.10
Matches are distributed among these distances:
24 2 0.01
25 19 0.14
26 1 0.01
27 1 0.01
28 1 0.01
29 28 0.20
30 66 0.47
31 21 0.15
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:20248196 original size:27 final size:27
Alignment explanation
Indices: 20248132--20248205 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
20248122 AGCATGGCTG
* * *
20248132 CCAGAA-TAGATATCGTGACAGAGTCA
1 CCAGAATTAGATATTGTGGCAGAGCCA
*
20248158 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-TAGATATTGTGGCAGAGCCA
*
20248185 CCAGAATTAGATAATGTGGCA
1 CCAGAATTAGATATTGTGGCA
20248206 AACCCACCTA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.82
28 2 0.05
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.20
Consensus pattern (27 bp):
CCAGAATTAGATATTGTGGCAGAGCCA
Found at i:20248418 original size:22 final size:22
Alignment explanation
Indices: 20248370--20248428 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
20248360 GTAAATACGT
*
20248370 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
20248392 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
20248414 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
20248429 TAATAACAGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:20248514 original size:27 final size:26
Alignment explanation
Indices: 20248470--20248552 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 26
20248460 TCGATCGGTC
* *
20248470 AACAGATATTGTGACAGAGTCACCA-
1 AACAGATATTGTGGCAGAGCCACCAG
20248495 AATTCAGATATTGTGGCAGAGCCACCAG
1 AA--CAGATATTGTGGCAGAGCCACCAG
* *
20248523 AACAGATATTTGTGGTATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
20248550 AAC
1 AAC
20248553 GCTTCCTCCG
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
25 2 0.04
26 6 0.12
27 40 0.80
28 2 0.04
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:20248753 original size:27 final size:27
Alignment explanation
Indices: 20248723--20248918 Score: 248
Period size: 27 Copynumber: 7.3 Consensus size: 27
20248713 AGGGCAAAAT
* * *
20248723 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
20248750 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
20248777 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
20248804 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
20248831 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
20248858 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
20248885 GAAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
20248912 AGTAATT
1 GGTAATT
20248919 TCACAATCAA
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:20248953 original size:27 final size:27
Alignment explanation
Indices: 20248923--20249224 Score: 369
Period size: 27 Copynumber: 11.2 Consensus size: 27
20248913 GTAATTTCAC
* *
20248923 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
20248950 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
20248977 AA-CTGAGGGTAAACCCGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
20249004 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20249031 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
20249058 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20249085 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
20249112 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
20249139 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
20249166 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
20249193 AA-CTGAGGGTAAAACAGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
20249220 AATCG
1 AATCG
20249225 GGAGTACTTT
Statistics
Matches: 237, Mismatches: 30, Indels: 16
0.84 0.11 0.06
Matches are distributed among these distances:
26 4 0.02
27 229 0.97
28 4 0.02
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:20249255 original size:54 final size:54
Alignment explanation
Indices: 20248928--20249224 Score: 438
Period size: 54 Copynumber: 5.5 Consensus size: 54
20248918 TTCACAATCA
* * *
20248928 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAA-CGATAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAG-TAATTCTGTAAACTG
* * * * ** *
20248982 AGGGTAAACCCGTAATTCTATAAATCAAGGGTAAAACGGTAATT-T-TACAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTA-AACT-G
20249036 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTG
20249090 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTG
20249144 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTG
* *
20249198 AGGGTAAAACAGTAATTTTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
20249225 GGAGTACTTT
Statistics
Matches: 222, Mismatches: 16, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
52 2 0.01
53 4 0.02
54 209 0.94
55 5 0.02
56 2 0.01
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.28
Consensus pattern (54 bp):
AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTG
Found at i:20255436 original size:25 final size:25
Alignment explanation
Indices: 20255394--20255442 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
20255384 CTTTATTATT
* *
20255394 ATCATTATGAAGAATTATGTGATTA
1 ATCATTATCAAGAATTATATGATTA
* *
20255419 ATCATTATCATGAGTTATATGATT
1 ATCATTATCAAGAATTATATGATT
20255443 GGTCATCTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (25 bp):
ATCATTATCAAGAATTATATGATTA
Found at i:20257399 original size:44 final size:42
Alignment explanation
Indices: 20257350--20257477 Score: 125
Period size: 42 Copynumber: 3.0 Consensus size: 42
20257340 AGATGTGTTA
* *
20257350 TCGTGTAAGACCGCATCTAGGACATTGGCATCGATTTGA-GATT
1 TCGTGTAAGACC-CGTCTAGGACATTGGCATCGATAT-ATGATT
* * * *
20257393 TACGTGTAAAACCATGTCTGGGACATCGGCATCG-TATATGATT
1 T-CGTGTAAGACC-CGTCTAGGACATTGGCATCGATATATGATT
* *
20257436 TCGTGTAAGACCCTGTCTAGGACAGTGGCATCGATATTTGAT
1 TCGTGTAAGACCC-GTCTAGGACATTGGCATCGATATATGAT
20257478 AACTTGTAAA
Statistics
Matches: 68, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
42 27 0.40
43 15 0.22
44 26 0.38
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (42 bp):
TCGTGTAAGACCCGTCTAGGACATTGGCATCGATATATGATT
Found at i:20258105 original size:36 final size:36
Alignment explanation
Indices: 20258065--20258136 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
20258055 TGTATGGTTG
*
20258065 TTAATTTAAATTTTTTAATTGATAAATGAGATTGAA
1 TTAATTTAAATTTTTGAATTGATAAATGAGATTGAA
*
20258101 TTAATTTAAATTTTTGAATTGATAAATGATATTGAA
1 TTAATTTAAATTTTTGAATTGATAAATGAGATTGAA
20258137 ATGATTGAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (36 bp):
TTAATTTAAATTTTTGAATTGATAAATGAGATTGAA
Found at i:20258135 original size:18 final size:18
Alignment explanation
Indices: 20258081--20258141 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
20258071 TAAATTTTTT
*
20258081 AATTGATAAATGAGATTG
1 AATTGATAAATGATATTG
* *
20258099 AATTAATTTAAAT--TTTTG
1 AATTGA--TAAATGATATTG
20258117 AATTGATAAATGATATTG
1 AATTGATAAATGATATTG
*
20258135 AAATGAT
1 AATTGAT
20258142 TGAGGTTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 5 0.15
18 23 0.70
20 5 0.15
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (18 bp):
AATTGATAAATGATATTG
Found at i:20260062 original size:25 final size:25
Alignment explanation
Indices: 20260023--20260079 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
20260013 GTAAGGAGGG
20260023 GATAA-GGGAGAAGATTTAGGAGCT
1 GATAAGGGGAGAAGATTTAGGAGCT
*
20260047 GATAAGGGGAGAAGATTTAGGAGTT
1 GATAAGGGGAGAAGATTTAGGAGCT
20260072 GATCAAGG
1 GAT-AAGG
20260080 AGCAAGAGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 5 0.17
25 21 0.70
26 4 0.13
ACGTcount: A:0.37, C:0.04, G:0.39, T:0.21
Consensus pattern (25 bp):
GATAAGGGGAGAAGATTTAGGAGCT
Found at i:20261521 original size:27 final size:27
Alignment explanation
Indices: 20261479--20261543 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
20261469 AGGAAGCGTC
* * *
20261479 CTGGTGGCTATGCCACATTTATCTGA-T
1 CTGGTGGCTCTACCACATATATCT-ATT
20261506 CTGGTGGCTCTACCACATATATCTATT
1 CTGGTGGCTCTACCACATATATCTATT
20261533 CTGGTGGCTCT
1 CTGGTGGCTCT
20261544 GCCATAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 1 0.03
27 33 0.97
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTACCACATATATCTATT
Found at i:20261563 original size:54 final size:53
Alignment explanation
Indices: 20261479--20261589 Score: 125
Period size: 54 Copynumber: 2.1 Consensus size: 53
20261469 AGGAAGCGTC
* *
20261479 CTGGTGGCTATGCCACATTTATCTGATCTGGTGGCTCTACCACATATATCTATT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACAT-TATCTATT
* * * ** *
20261533 CTGGTGGCTCTGCCATAATTA-CTTGTTCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATC-TGATCTGGTGACTCTACCACATTATCTATT
20261586 CTGG
1 CTGG
20261590 CAGCCATGCT
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
53 12 0.25
54 36 0.75
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATTATCTATT
Found at i:20267931 original size:25 final size:26
Alignment explanation
Indices: 20267897--20267947 Score: 95
Period size: 25 Copynumber: 2.0 Consensus size: 26
20267887 AGGGGATAAA
20267897 GGAGAAGATTTAGGAGCTGAT-AAGG
1 GGAGAAGATTTAGGAGCTGATCAAGG
20267922 GGAGAAGATTTAGGAGCTGATCAAGG
1 GGAGAAGATTTAGGAGCTGATCAAGG
20267948 AGCAAGAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.35, C:0.06, G:0.39, T:0.20
Consensus pattern (26 bp):
GGAGAAGATTTAGGAGCTGATCAAGG
Found at i:20267954 original size:25 final size:23
Alignment explanation
Indices: 20267895--20267954 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 23
20267885 GGAGGGGATA
20267895 AAGGAGAAGATTTAGGAGCTGAT
1 AAGGAGAAGATTTAGGAGCTGAT
20267918 AAGGGGAGAAGATTTAGGAGCTGAT
1 AA--GGAGAAGATTTAGGAGCTGAT
20267943 CAAGGAGCAAGA
1 -AAGGAG-AAGA
20267955 GTTCGTCGGC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
23 2 0.06
24 4 0.12
25 25 0.76
26 2 0.06
ACGTcount: A:0.40, C:0.07, G:0.37, T:0.17
Consensus pattern (23 bp):
AAGGAGAAGATTTAGGAGCTGAT
Found at i:20269389 original size:27 final size:27
Alignment explanation
Indices: 20269350--20269455 Score: 124
Period size: 27 Copynumber: 4.0 Consensus size: 27
20269340 GGAAGCGTCT
* * * *
20269350 TGGTGGCTATGCCACATTTATTTGGTC
1 TGGTGGCTCTGCCACAATTATCTGTTC
*
20269377 TGGTGGCTCTGCCACAAATATCTGTTC
1 TGGTGGCTCTGCCACAATTATCTGTTC
*
20269404 TGCTGGCTCTGCCACAATTATCTGTTC
1 TGGTGGCTCTGCCACAATTATCTGTTC
* * *
20269431 TAGTGACTCTGTCAC-ATTATCTGTT
1 TGGTGGCTCTGCCACAATTATCTGTT
20269456 TTGGCAGCCA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
26 10 0.15
27 58 0.85
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.39
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATTATCTGTTC
Found at i:20273809 original size:78 final size:78
Alignment explanation
Indices: 20273680--20273835 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
20273670 ATCAAGCTAC
20273680 CATGTTGGATAAATGAACACAAACCTTTGAGTCTATGGCATGTATAGGGACTTAGTCATTTTGTG
1 CATGTTGGATAAATGAACACAAACCTTTGAGTCTATGGCATGTATAGGGACTTAGTCATTTTGTG
20273745 TATGTGTCATTAT
66 TATGTGTCATTAT
*
20273758 CATGTTGGGTAAATGAACACAAACCTTTGAGTCTATGGCATGTATAGGGACTTAGTCATTTTGTG
1 CATGTTGGATAAATGAACACAAACCTTTGAGTCTATGGCATGTATAGGGACTTAGTCATTTTGTG
20273823 TATGTGTCATTAT
66 TATGTGTCATTAT
20273836 GATATGGCCA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (78 bp):
CATGTTGGATAAATGAACACAAACCTTTGAGTCTATGGCATGTATAGGGACTTAGTCATTTTGTG
TATGTGTCATTAT
Found at i:20280187 original size:38 final size:38
Alignment explanation
Indices: 20280145--20280238 Score: 109
Period size: 38 Copynumber: 2.5 Consensus size: 38
20280135 TTAAAGACCT
*
20280145 GCAGGCTTCGTGCTGGTAAAATATCCA-GGTTAAATCCC
1 GCAGGCTTCGTGCTGGTAAAATAT-CAGGGATAAATCCC
* **
20280183 GCAGGCTTCATGCTGGTATTATATCAGGGATAAATCCC
1 GCAGGCTTCGTGCTGGTAAAATATCAGGGATAAATCCC
* * *
20280221 GTAGGCCTAGTGCTGGTA
1 GCAGGCTTCGTGCTGGTA
20280239 TTATATTCGG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
37 2 0.04
38 45 0.96
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (38 bp):
GCAGGCTTCGTGCTGGTAAAATATCAGGGATAAATCCC
Found at i:20280303 original size:43 final size:43
Alignment explanation
Indices: 20280242--20280654 Score: 682
Period size: 43 Copynumber: 9.6 Consensus size: 43
20280232 GCTGGTATTA
*
20280242 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGACGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
20280285 TATTCGGGCCTTCGTGCCTAGCAGGATTCGTGCCGATGATGTA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
20280328 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
** *
20280371 TATTTAGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
20280414 TATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCTGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
20280457 TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
20280500 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
20280543 TATTCGAGCTTTCGTGCCTAGCAGGCTTCCTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
20280586 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
20280629 TATTTGGGTCTTCGTGCCTAGTAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
20280655 GTAATGCCAG
Statistics
Matches: 344, Mismatches: 26, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 344 1.00
ACGTcount: A:0.11, C:0.25, G:0.33, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:20283395 original size:46 final size:46
Alignment explanation
Indices: 20283345--20283519 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
20283335 TGGTTGAGCA
20283345 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
20283391 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
20283436 CATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
20283484 CCCGAGC-CGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
20283520 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 19
0.78 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 30 0.28
46 35 0.32
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:20288173 original size:40 final size:40
Alignment explanation
Indices: 20288129--20288336 Score: 289
Period size: 40 Copynumber: 5.3 Consensus size: 40
20288119 GGATTAGAAT
* * *
20288129 CCGAAGGCCTTTGTGCGAG-TACTAAATCCGGTGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGG-GTTAAGTC
20288169 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
20288209 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTT-AGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
20288248 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
20288288 CCGAAGGCATT-GTGTG-GTTACTAAACCCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
20288326 CCGAAGGCATT
1 CCGAAGGCATT
20288337 TGAAGAAGGA
Statistics
Matches: 156, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
38 29 0.19
39 42 0.27
40 74 0.47
41 11 0.07
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:20288265 original size:79 final size:78
Alignment explanation
Indices: 20288129--20288336 Score: 294
Period size: 79 Copynumber: 2.6 Consensus size: 78
20288119 GGATTAGAAT
*
20288129 CCGAAGGCCTTTGTGCGAG-TACTAAATCCGGTGTTAAGTCCCGAAGGCATTCGTGCGAGTTATT
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGG-GTT-AGTCCCGAAGGCATTCGTGCGAGTTATT
20288193 AAATCCGGGTTAAGTC
63 AAATCCGGGTTAAGTC
* *
20288209 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTAGTCCCGAAGGCATTCGTGCGAGTTATTAA
*
20288274 ATCCGGGTTATGTC
65 ATCCGGGTTAAGTC
* * *
20288288 CCGAAGGCATTGTGTG-GTTACTAAACCCGGGCTATGTCCCGAAGGCATT
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTA-GTCCCGAAGGCATT
20288337 TGAAGAAGGA
Statistics
Matches: 117, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
77 15 0.13
78 18 0.15
79 56 0.48
80 17 0.15
81 11 0.09
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (78 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
TCCGGGTTAAGTC
Found at i:20296076 original size:40 final size:40
Alignment explanation
Indices: 20295993--20296255 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
20295983 TTGAATGCTG
* * * * * *
20295993 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
20296033 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
20296073 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
20296113 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
20296153 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
20296193 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
20296232 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
20296256 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:20296275 original size:79 final size:80
Alignment explanation
Indices: 20296032--20296290 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
20296022 AAGTGAATAT
* * * * * *
20296032 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
20296096 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
20296112 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
20296177 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
20296192 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
20296256 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
20296271 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
20296291 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:20311235 original size:49 final size:49
Alignment explanation
Indices: 20311160--20311255 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
20311150 AGGTTGCCTT
* *
20311160 TTCCTGTCAACAAAGCTTGGAGAGCTCAAGAGAGGCTCCAACTGGTCCA
1 TTCCTGTCAACAAAGCTTGGAAAGCTCAAAAGAGGCTCCAACTGGTCCA
20311209 TTCCTGTCAACAAAGCTTGGAAAGCTCAAAAGAGGCTCCAACTGGTC
1 TTCCTGTCAACAAAGCTTGGAAAGCTCAAAAGAGGCTCCAACTGGTC
20311256 TATACAGACA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (49 bp):
TTCCTGTCAACAAAGCTTGGAAAGCTCAAAAGAGGCTCCAACTGGTCCA
Found at i:20314134 original size:43 final size:43
Alignment explanation
Indices: 20313941--20314132 Score: 287
Period size: 43 Copynumber: 4.5 Consensus size: 43
20313931 ATTACGCTTC
* *
20313941 CTAGGCACAAAGGCCCGAATACACATCACCGGCACGAAGCC-A
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
** * *
20313983 AAAGGCACGAAGGCCCGAATACACATCACCGACATGAAGCCTG
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
*
20314026 CTAGGCACGAAGGCCCGAATACACATCGCCGGCACGAAGCCTG
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
* * *
20314069 CTAGGCACGAAGGCCCGAATATACATCGCCGGCACGAAACCTG
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
20314112 CTAGGCACGAAGGCCCGAATA
1 CTAGGCACGAAGGCCCGAATA
20314133 TAATACCAGC
Statistics
Matches: 136, Mismatches: 13, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
42 36 0.26
43 100 0.74
ACGTcount: A:0.33, C:0.33, G:0.25, T:0.09
Consensus pattern (43 bp):
CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
Found at i:20314209 original size:38 final size:38
Alignment explanation
Indices: 20314125--20314248 Score: 140
Period size: 38 Copynumber: 3.2 Consensus size: 38
20314115 GGCACGAAGG
* * *
20314125 CCCGAATATAATACCAGCACTAGGCCTGCCGGATTTAT
1 CCCGGATATAATACCAGCACTAGGCCTGCGGGATTTAA
**
20314163 CCTTGATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACTAGGCCTGCGGGATTTAA
** * * *
20314201 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACTAGGCCTGCGGG-ATTTAA
20314240 GCCCGGATA
1 -CCCGGATA
20314249 CACATCAAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
38 59 0.82
39 5 0.07
40 8 0.11
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACTAGGCCTGCGGGATTTAA
Found at i:20324178 original size:41 final size:41
Alignment explanation
Indices: 20324068--20324191 Score: 198
Period size: 41 Copynumber: 3.0 Consensus size: 41
20324058 TGATTTTTGT
* *
20324068 TACTTAGTTACACTGGAACAAAGATAGTAATGTATTTGATG
1 TACTTAGTTACACTAGAACTAAGATAGTAATGTATTTGATG
*
20324109 TACTTAGCT-CACTAGAACTAAGATAGTAATGTATTTGATG
1 TACTTAGTTACACTAGAACTAAGATAGTAATGTATTTGATG
20324149 TACTTAGTTACACTAGAACTAAG-TCAGTAATGTATTTGATG
1 TACTTAGTTACACTAGAACTAAGAT-AGTAATGTATTTGATG
20324190 TA
1 TA
20324192 ATTTGGTGCT
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
40 38 0.49
41 39 0.51
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.35
Consensus pattern (41 bp):
TACTTAGTTACACTAGAACTAAGATAGTAATGTATTTGATG
Found at i:20325038 original size:41 final size:41
Alignment explanation
Indices: 20324987--20325069 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
20324977 ACAAAACCAA
*
20324987 ATGATCCAAAAGGAAACCAGATATGATGTCTACAATGATGC
1 ATGATACAAAAGGAAACCAGATATGATGTCTACAATGATGC
*
20325028 ATGATACAAAAGGAAACCAGATATGATGTCTACAGTGATGC
1 ATGATACAAAAGGAAACCAGATATGATGTCTACAATGATGC
20325069 A
1 A
20325070 ATATAAAACC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (41 bp):
ATGATACAAAAGGAAACCAGATATGATGTCTACAATGATGC
Found at i:20331888 original size:16 final size:16
Alignment explanation
Indices: 20331867--20331918 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
20331857 TTTGGTTCGC
20331867 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
20331883 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
* *
20331899 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
20331915 TGTA
1 TGTA
20331919 ATAGCAAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:20332004 original size:39 final size:43
Alignment explanation
Indices: 20331898--20332008 Score: 133
Period size: 45 Copynumber: 2.6 Consensus size: 43
20331888 TGGATTAGAG
20331898 ATGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT
1 ATGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT
* * *
20331941 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTA-TGTTTGG-T
1 --ATGTAATGGAATAGAGGTGTAATAGCAAATC-AACTGTTTGGTT
20331984 -TG-AATGGAATAGAGGTGTAATAGCA
1 ATGTAATGGAATAGAGGTGTAATAGCA
20332009 TAATGGAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
39 20 0.34
40 2 0.03
43 1 0.02
44 11 0.19
45 25 0.42
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (43 bp):
ATGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT
Found at i:20332171 original size:16 final size:16
Alignment explanation
Indices: 20332134--20332175 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
20332124 TTAATCATAT
*
20332134 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
20332150 TT-AAATATATTATAA
1 TTAAAATATATTATAA
20332165 TTAAAATATAT
1 TTAAAATATAT
20332176 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:20332182 original size:14 final size:15
Alignment explanation
Indices: 20332143--20332184 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
20332133 TTTAAACATA
*
20332143 ATTATTATTAAATAT
1 ATTATAATTAAATAT
20332158 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
20332172 A-TATAATTTAATA
1 ATTATAATTAAATA
20332185 AAATTCTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:20332234 original size:61 final size:61
Alignment explanation
Indices: 20332163--20332356 Score: 193
Period size: 61 Copynumber: 3.2 Consensus size: 61
20332153 AATATATTAT
*
20332163 AATTAAAATATATAATTTAATAAAATTCTTTATAATCAATATTCTTATATGAATTTACTCA
1 AATTATAATATATAATTTAATAAAATTCTTTATAATCAATATTCTTATATGAATTTACTCA
* * * ** * * * *
20332224 AATCATAATATATGATACT-ATAAAATATAATT-TAA-C-ATAATTATTAT-TAAATATA-TTA
1 AATTATAATATATAAT-TTAATAAAAT-TCTTTATAATCAAT-ATTCTTATATGAATTTACTCA
* * *
20332282 TAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
1 -AATTATAATATATAATTTAATAAAATTCTTTATAATCAATATTCTTATATGAATTTACTCA
20332344 AATTATAATATAT
1 AATTATAATATAT
20332357 GATACTATAA
Statistics
Matches: 100, Mismatches: 23, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
58 5 0.05
59 31 0.31
60 15 0.15
61 43 0.43
62 6 0.06
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (61 bp):
AATTATAATATATAATTTAATAAAATTCTTTATAATCAATATTCTTATATGAATTTACTCA
Found at i:20332276 original size:120 final size:120
Alignment explanation
Indices: 20332132--20332389 Score: 471
Period size: 120 Copynumber: 2.1 Consensus size: 120
20332122 ATTTAATCAT
*
20332132 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTTATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
20332197 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
20332253 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
20332318 TTAATATTCTTATATGAATTTACTCAAATTATAATATATGATACTATAAAAGATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
20332373 ATTTAACATAATTATTA
1 ATTTAACATAATTATTA
20332390 GACAACTGCC
Statistics
Matches: 133, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
120 129 0.97
121 4 0.03
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
Found at i:20332293 original size:16 final size:16
Alignment explanation
Indices: 20332249--20332295 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
20332239 TACTATAAAA
*
20332249 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
20332265 TATTATT-AAATATAT
1 TATAATTAAAATATAT
20332280 TATAATTAAAATATAT
1 TATAATTAAAATATAT
20332296 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:20348480 original size:19 final size:20
Alignment explanation
Indices: 20348439--20348498 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
20348429 AAAAATTAAA
20348439 AAAATAATTTTCAAAATTTC
1 AAAATAATTTTCAAAATTTC
20348459 AAAATAATTATT-AAAA-TTC
1 AAAATAATT-TTCAAAATTTC
*
20348478 AAAAT-ATTTCTAAAAATTTC
1 AAAATAATTT-TCAAAATTTC
20348498 A
1 A
20348499 GAATTTATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
17 1 0.03
18 4 0.11
19 12 0.33
20 17 0.47
21 2 0.06
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAATAATTTTCAAAATTTC
Found at i:20349453 original size:19 final size:21
Alignment explanation
Indices: 20349416--20349458 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
20349406 TATATTTAAA
20349416 ATTTTATTTTTGATAAAAAAT
1 ATTTTATTTTTGATAAAAAAT
*
20349437 ATTTTA-TTTT-ATTAAAAAT
1 ATTTTATTTTTGATAAAAAAT
20349456 ATT
1 ATT
20349459 CATTAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 4 0.19
21 6 0.29
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTTTATTTTTGATAAAAAAT
Found at i:20354043 original size:48 final size:48
Alignment explanation
Indices: 20353978--20354074 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
20353968 TTTAAAGGGA
*
20353978 AACTATGCATTTTTGGGATTTGTGTGCTCCTTGGTTAGAACCTTTAAG
1 AACTATGCATTTTTGGGATTTGCGTGCTCCTTGGTTAGAACCTTTAAG
*
20354026 AACTATGCGTTTTTGGGATTTGCGTGCTCCTTGGTTAGAACCTTTAAG
1 AACTATGCATTTTTGGGATTTGCGTGCTCCTTGGTTAGAACCTTTAAG
20354074 A
1 A
20354075 GGTCCCAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.21, C:0.15, G:0.24, T:0.40
Consensus pattern (48 bp):
AACTATGCATTTTTGGGATTTGCGTGCTCCTTGGTTAGAACCTTTAAG
Found at i:20355337 original size:13 final size:13
Alignment explanation
Indices: 20355321--20355368 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
20355311 ACACTTAAAT
*
20355321 TTTTCAAAAGCAT
1 TTTTCAAAAGCAC
* *
20355334 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
20355347 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
20355360 TTTTCAAAA
1 TTTTCAAAA
20355369 ACAATGAAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.35
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:20356360 original size:4 final size:4
Alignment explanation
Indices: 20356351--20356375 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
20356341 AAAATGAAGG
20356351 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
20356376 AATCAATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:20363067 original size:19 final size:19
Alignment explanation
Indices: 20363043--20363080 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
20363033 TTTTTTTTTT
*
20363043 TTTTTGCTT-TAAAGATGAA
1 TTTTTG-TTATAAAAATGAA
20363062 TTTTTGTTATAAAAATGAA
1 TTTTTGTTATAAAAATGAA
20363081 GGCCAGAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.47
Consensus pattern (19 bp):
TTTTTGTTATAAAAATGAA
Found at i:20365740 original size:44 final size:43
Alignment explanation
Indices: 20365671--20365753 Score: 130
Period size: 44 Copynumber: 1.9 Consensus size: 43
20365661 GATTTTGATA
* *
20365671 TGTGATTTAGTGTAAGACCACGTCTGGGACGTTGGCATCAATT
1 TGTGATTTAGTGTAAAACCACGTCTGGGACATTGGCATCAATT
*
20365714 TGTGATTTACGTGTAAAACCATGTCTGGGACATTGGCATC
1 TGTGATTTA-GTGTAAAACCACGTCTGGGACATTGGCATC
20365754 GTATATGATT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
43 9 0.25
44 27 0.75
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (43 bp):
TGTGATTTAGTGTAAAACCACGTCTGGGACATTGGCATCAATT
Done.