Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 36 of 85
Found at i:11915107 original size:17 final size:17
Alignment explanation
Indices: 11915085--11915118 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
11915075 TAAATTTAAA
11915085 CGGTAATAACATCAAAT
1 CGGTAATAACATCAAAT
11915102 CGGTAATAACATCAAAT
1 CGGTAATAACATCAAAT
11915119 TAGCCGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.24
Consensus pattern (17 bp):
CGGTAATAACATCAAAT
Found at i:11918507 original size:64 final size:64
Alignment explanation
Indices: 11918255--11919676 Score: 2483
Period size: 64 Copynumber: 22.6 Consensus size: 64
11918245 NTAACTTACA
* * ** * *
11918255 TAAATTAAATAACTTACATAACTTACATAACCTACACAAATTAAAT-AACTTACATAACTTACA
1 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
* * * * * * * * *
11918318 TAACTTACATAAATTAAATAACTTACATAAATTAAATAACTTACAT-AACTTACATAACCTACA
1 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
* * *
11918381 TAAATTAAATAACTTACATAACTAACATAA---A-TTAAA-T--A---ACTTACATAACTTACA
1 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
11918435 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
1 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
11918499 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
1 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
11918563 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
1 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
11918627 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
1 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
11918691 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
1 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
11918755 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
1 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
11918819 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
1 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
11918883 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
1 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
11918947 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
1 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
11919011 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
1 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
11919075 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
1 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
11919139 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
1 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
11919203 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
1 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
11919267 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
1 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
11919331 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
1 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
11919395 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
1 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
11919459 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
1 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
11919523 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
1 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
* * *
11919587 TAAATTAAATAACTTACATAACTTACATAA---A-TTAAA-T--AT---CTTACGTAACTTACA
1 TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
* *
11919641 TAAATTAAGTAACTTACATAACTTACATTACTTACA
1 TAAATTAAATAACTTACATAACTTACATAACTTACA
11919677 GTACTTACAG
Statistics
Matches: 1317, Mismatches: 28, Indels: 33
0.96 0.02 0.02
Matches are distributed among these distances:
54 85 0.06
56 1 0.00
57 4 0.00
58 5 0.00
59 5 0.00
60 5 0.00
61 2 0.00
63 77 0.06
64 1133 0.86
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.32
Consensus pattern (64 bp):
TAAATTAAATAACTTACATAACTTACATAACTTACATAAATTCCATGGACTTACATAACCTACA
Found at i:11919682 original size:18 final size:18
Alignment explanation
Indices: 11918248--11919697 Score: 455
Period size: 18 Copynumber: 79.6 Consensus size: 18
11918238 NNNNNNNNTA
* *
11918248 ACTTACATAAATTA-AAT
1 ACTTACATAACTTACAGT
11918265 AACTTACATAACTTACA-T
1 -ACTTACATAACTTACAGT
* * * *
11918283 AACCTACACAAATTA-AAT
1 -ACTTACATAACTTACAGT
11918301 AACTTACATAACTTACA-T
1 -ACTTACATAACTTACAGT
* *
11918319 AACTTACATAAATTA-AAT
1 -ACTTACATAACTTACAGT
* *
11918337 AACTTACATAAATTA-AAT
1 -ACTTACATAACTTACAGT
11918355 AACTTACATAACTTACA-T
1 -ACTTACATAACTTACAGT
* * *
11918373 AACCTACATAAATTA-AAT
1 -ACTTACATAACTTACAGT
*
11918391 AACTTACATAACTAACA-T
1 -ACTTACATAACTTACAGT
* *
11918409 AAATTAAATAACTTACA-T
1 -ACTTACATAACTTACAGT
* *
11918427 AACTTACATAAATTA-AAT
1 -ACTTACATAACTTACAGT
11918445 AACTTACATAACTTACA-T
1 -ACTTACATAACTTACAGT
* * *
11918463 AACTTACATAAATTCCATGG
1 -ACTTACATAACTTACA-GT
*
11918483 ACTTACATAACCTACA-T
1 ACTTACATAACTTACAGT
* *
11918500 AAATTAAATAACTTACA-T
1 -ACTTACATAACTTACAGT
11918518 AACTTACATAACTTACA-T
1 -ACTTACATAACTTACAGT
* * *
11918536 AAATTCCATGGACTTACA-T
1 -ACTTACAT-AACTTACAGT
* * *
11918555 AACCTACATAAATTA-AAT
1 -ACTTACATAACTTACAGT
11918573 AACTTACATAACTTACA-T
1 -ACTTACATAACTTACAGT
* * *
11918591 AACTTACATAAATTCCATGG
1 -ACTTACATAACTTACA-GT
*
11918611 ACTTACATAACCTACA-T
1 ACTTACATAACTTACAGT
* *
11918628 AAATTAAATAACTTACA-T
1 -ACTTACATAACTTACAGT
11918646 AACTTACATAACTTACA-T
1 -ACTTACATAACTTACAGT
* * *
11918664 AAATTCCATGGACTTACA-T
1 -ACTTACAT-AACTTACAGT
* * *
11918683 AACCTACATAAATTA-AAT
1 -ACTTACATAACTTACAGT
11918701 AACTTACATAACTTACA-T
1 -ACTTACATAACTTACAGT
* * *
11918719 AACTTACATAAATTCCATGG
1 -ACTTACATAACTTACA-GT
*
11918739 ACTTACATAACCTACA-T
1 ACTTACATAACTTACAGT
* *
11918756 AAATTAAATAACTTACA-T
1 -ACTTACATAACTTACAGT
11918774 AACTTACATAACTTACA-T
1 -ACTTACATAACTTACAGT
* * *
11918792 AAATTCCATGGACTTACA-T
1 -ACTTACAT-AACTTACAGT
* * *
11918811 AACCTACATAAATTA-AAT
1 -ACTTACATAACTTACAGT
11918829 AACTTACATAACTTACA-T
1 -ACTTACATAACTTACAGT
* * *
11918847 AACTTACATAAATTCCATGG
1 -ACTTACATAACTTACA-GT
*
11918867 ACTTACATAACCTACA-T
1 ACTTACATAACTTACAGT
* *
11918884 AAATTAAATAACTTACA-T
1 -ACTTACATAACTTACAGT
11918902 AACTTACATAACTTACA-T
1 -ACTTACATAACTTACAGT
* * *
11918920 AAATTCCATGGACTTACA-T
1 -ACTTACAT-AACTTACAGT
* * *
11918939 AACCTACATAAATTA-AAT
1 -ACTTACATAACTTACAGT
11918957 AACTTACATAACTTACA-T
1 -ACTTACATAACTTACAGT
* * *
11918975 AACTTACATAAATTCCATGG
1 -ACTTACATAACTTACA-GT
*
11918995 ACTTACATAACCTACA-T
1 ACTTACATAACTTACAGT
* *
11919012 AAATTAAATAACTTACA-T
1 -ACTTACATAACTTACAGT
11919030 AACTTACATAACTTACA-T
1 -ACTTACATAACTTACAGT
* * *
11919048 AAATTCCATGGACTTACA-T
1 -ACTTACAT-AACTTACAGT
* * *
11919067 AACCTACATAAATTA-AAT
1 -ACTTACATAACTTACAGT
11919085 AACTTACATAACTTACA-T
1 -ACTTACATAACTTACAGT
* * *
11919103 AACTTACATAAATTCCATGG
1 -ACTTACATAACTTACA-GT
*
11919123 ACTTACATAACCTACA-T
1 ACTTACATAACTTACAGT
* *
11919140 AAATTAAATAACTTACA-T
1 -ACTTACATAACTTACAGT
11919158 AACTTACATAACTTACA-T
1 -ACTTACATAACTTACAGT
* * *
11919176 AAATTCCATGGACTTACA-T
1 -ACTTACAT-AACTTACAGT
* * *
11919195 AACCTACATAAATTA-AAT
1 -ACTTACATAACTTACAGT
11919213 AACTTACATAACTTACA-T
1 -ACTTACATAACTTACAGT
* * *
11919231 AACTTACATAAATTCCATGG
1 -ACTTACATAACTTACA-GT
*
11919251 ACTTACATAACCTACA-T
1 ACTTACATAACTTACAGT
* *
11919268 AAATTAAATAACTTACA-T
1 -ACTTACATAACTTACAGT
11919286 AACTTACATAACTTACA-T
1 -ACTTACATAACTTACAGT
* * *
11919304 AAATTCCATGGACTTACA-T
1 -ACTTACAT-AACTTACAGT
* * *
11919323 AACCTACATAAATTA-AAT
1 -ACTTACATAACTTACAGT
11919341 AACTTACATAACTTACA-T
1 -ACTTACATAACTTACAGT
* * *
11919359 AACTTACATAAATTCCATGG
1 -ACTTACATAACTTACA-GT
*
11919379 ACTTACATAACCTACA-T
1 ACTTACATAACTTACAGT
* *
11919396 AAATTAAATAACTTACA-T
1 -ACTTACATAACTTACAGT
11919414 AACTTACATAACTTACA-T
1 -ACTTACATAACTTACAGT
* * *
11919432 AAATTCCATGGACTTACA-T
1 -ACTTACAT-AACTTACAGT
* * *
11919451 AACCTACATAAATTA-AAT
1 -ACTTACATAACTTACAGT
11919469 AACTTACATAACTTACA-T
1 -ACTTACATAACTTACAGT
* * *
11919487 AACTTACATAAATTCCATGG
1 -ACTTACATAACTTACA-GT
*
11919507 ACTTACATAACCTACA-T
1 ACTTACATAACTTACAGT
* *
11919524 AAATTAAATAACTTACA-T
1 -ACTTACATAACTTACAGT
11919542 AACTTACATAACTTACA-T
1 -ACTTACATAACTTACAGT
* * *
11919560 AAATTCCATGGACTTACA-T
1 -ACTTACAT-AACTTACAGT
* * *
11919579 AACCTACATAAATTA-AAT
1 -ACTTACATAACTTACAGT
11919597 AACTTACATAACTTACA-T
1 -ACTTACATAACTTACAGT
* * *
11919615 AAATTAAATATCTTAC-GT
1 -ACTTACATAACTTACAGT
*
11919633 AACTTACATAAATTA-AGT
1 -ACTTACATAACTTACAGT
*
11919651 AACTTACATAACTTACATT
1 -ACTTACATAACTTACAGT
11919670 ACTTACAGT-ACTTACAGT
1 ACTTACA-TAACTTACAGT
11919688 ACTTACATAA
1 ACTTACATAA
11919698 TACATAATAC
Statistics
Matches: 1135, Mismatches: 229, Indels: 136
0.76 0.15 0.09
Matches are distributed among these distances:
17 14 0.01
18 861 0.76
19 260 0.23
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.32
Consensus pattern (18 bp):
ACTTACATAACTTACAGT
Found at i:11921775 original size:21 final size:21
Alignment explanation
Indices: 11921749--11921789 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
11921739 TGCCTTTAGT
11921749 TACAACTTTTGATAATGTTGA
1 TACAACTTTTGATAATGTTGA
11921770 TACAACTTTTGATAATGTTG
1 TACAACTTTTGATAATGTTG
11921790 TATATTGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.44
Consensus pattern (21 bp):
TACAACTTTTGATAATGTTGA
Found at i:11925084 original size:42 final size:42
Alignment explanation
Indices: 11925036--11925127 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
11925026 GTAAAAAAGT
*
11925036 GCCGCTAAAGAACATGTTCTTTAGTGGCGCTT-AGAAAAAAAC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAG-AAAAAAC
*
11925078 GCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAAGAAAAAAC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGAAAAAAC
*
11925120 GCCTCTAA
1 GCCGCTAA
11925128 GCGCCCTAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 44 0.96
43 2 0.04
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.23
Consensus pattern (42 bp):
GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGAAAAAAC
Found at i:11925187 original size:42 final size:42
Alignment explanation
Indices: 11925123--11925205 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 42
11925113 AAAAAACGCC
11925123 TCTAAGCGCCCTAAAGAACATGGTC-TTTAGCGGCGTTTTTT
1 TCTAAGCGCCCTAAAGAACATGGTCTTTTAGCGGCGTTTTTT
*
11925164 TCTAAGCGCCGCTAAAGATCATGGTCTTTTAGCGGCGTTTTT
1 TCTAAGCGCC-CTAAAGAACATGGTCTTTTAGCGGCGTTTTT
11925206 GTTTGTAAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 10 0.26
42 14 0.36
43 15 0.38
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (42 bp):
TCTAAGCGCCCTAAAGAACATGGTCTTTTAGCGGCGTTTTTT
Found at i:11925205 original size:41 final size:40
Alignment explanation
Indices: 11925123--11925205 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 40
11925113 AAAAAACGCC
11925123 TCTAAGCGCCCTAAAGAACATGGTCTTTAGCGGCGTTTTTT
1 TCTAAGCGCCCTAAAGAACATGGTCTTTAGCGGCG-TTTTT
*
11925164 TCTAAGCGCCGCTAAAGATCATGGTCTTTTAGCGGCGTTTTT
1 TCTAAGCGCC-CTAAAGAACATGGTC-TTTAGCGGCGTTTTT
11925206 GTTTGTAAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
41 10 0.26
42 19 0.49
43 10 0.26
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (40 bp):
TCTAAGCGCCCTAAAGAACATGGTCTTTAGCGGCGTTTTT
Found at i:11925817 original size:14 final size:14
Alignment explanation
Indices: 11925798--11925827 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
11925788 GATGATGACC
11925798 AATATCATTTTGAA
1 AATATCATTTTGAA
11925812 AATATCATTTTGAA
1 AATATCATTTTGAA
11925826 AA
1 AA
11925828 GAAAATCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (14 bp):
AATATCATTTTGAA
Found at i:11926039 original size:17 final size:18
Alignment explanation
Indices: 11926006--11926040 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11925996 TTGAATTCTA
11926006 TTTGAAAAGAAACATCAT
1 TTTGAAAAGAAACATCAT
*
11926024 TTTGAATAGAAA-ATCAT
1 TTTGAAAAGAAACATCAT
11926041 GAGGTTGAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (18 bp):
TTTGAAAAGAAACATCAT
Found at i:11927157 original size:21 final size:19
Alignment explanation
Indices: 11927133--11927200 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 19
11927123 AAATAGTATC
*
11927133 AAAAATTTTGAGGGAATAGA
1 AAAAATTATGAGGGAATA-A
*
11927153 AAAAATTATGAAGGGTATCAA
1 AAAAATTATG-AGGGAAT-AA
11927174 AAAAATTATG-GGGAAGTACA
1 AAAAATTATGAGGGAA-TA-A
11927194 AAAAATT
1 AAAAATT
11927201 TTCGAGGAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
19 5 0.12
20 18 0.44
21 17 0.41
22 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.21, T:0.24
Consensus pattern (19 bp):
AAAAATTATGAGGGAATAA
Found at i:11927217 original size:21 final size:21
Alignment explanation
Indices: 11927152--11927218 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
11927142 GAGGGAATAG
11927152 AAAAAATTATGAAGG--GTATCA
1 AAAAAATTATG-AGGAAGTA-CA
*
11927173 AAAAAATTATGGGGAAGTAC-
1 AAAAAATTATGAGGAAGTACA
*
11927193 AAAAAATTTTCGAGG-AGTACA
1 AAAAAATTAT-GAGGAAGTACA
11927214 AAAAA
1 AAAAA
11927219 TCATAAGATA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 16 0.41
21 20 0.51
22 3 0.08
ACGTcount: A:0.54, C:0.06, G:0.19, T:0.21
Consensus pattern (21 bp):
AAAAAATTATGAGGAAGTACA
Found at i:11931288 original size:21 final size:21
Alignment explanation
Indices: 11931262--11931357 Score: 86
Period size: 21 Copynumber: 4.4 Consensus size: 21
11931252 CAACAACTTA
*
11931262 AAGCAGAGGCGGCAGCGAG-G
1 AAGCAGAGGCCGCAGCGAGAG
***
11931282 TAAGCAGAGGCTATAGCGAGAG
1 -AAGCAGAGGCCGCAGCGAGAG
11931304 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
** *
11931325 AAGCAGTAAGAGAAGCAGTGAGAG
1 AAGCAG--AG-GCCGCAGCGAGAG
11931349 AAGCAGAGG
1 AAGCAGAGG
11931358 TTCAAAAGAA
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
21 41 0.66
22 3 0.05
23 2 0.03
24 16 0.26
ACGTcount: A:0.38, C:0.16, G:0.42, T:0.05
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:11931336 original size:12 final size:12
Alignment explanation
Indices: 11931321--11931354 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
11931311 GGCCGCAGCG
11931321 AGAGAAGCAGTA
1 AGAGAAGCAGTA
*
11931333 AGAGAAGCAGTG
1 AGAGAAGCAGTA
11931345 AGAGAAGCAG
1 AGAGAAGCAG
11931355 AGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.38, T:0.06
Consensus pattern (12 bp):
AGAGAAGCAGTA
Found at i:11931893 original size:43 final size:42
Alignment explanation
Indices: 11931792--11931913 Score: 131
Period size: 42 Copynumber: 2.9 Consensus size: 42
11931782 TTTGTGAAAT
* * * *
11931792 AAGCACCGCTAAAGAACACTACTTTTAGCGGCATTTTCGAAC
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTCCAAC
* * *
11931834 AAGCGCCGCTATAGAACATTACTTTTAGAGGCGTTTTCTTCTA-
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTC--CAAC
*
11931877 AAGCGCCGCTAAAGAACATGA-TCTTTAGCGGCGTTTT
1 AAGCGCCGCTAAAGAACATTACT-TTTAGCGGCGTTTT
11931914 TTTTCTTTAG
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
42 34 0.51
43 32 0.48
44 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTCCAAC
Found at i:11931941 original size:18 final size:19
Alignment explanation
Indices: 11931901--11931943 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
11931891 AACATGATCT
* * *
11931901 TTAGCGGCGTTTTTTTTCT
1 TTAGCGACGTTTTATTTCC
11931920 TTAGCGACG-TTTATTTCC
1 TTAGCGACGTTTTATTTCC
11931938 TTAGCG
1 TTAGCG
11931944 CCGCTAAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.12, C:0.19, G:0.21, T:0.49
Consensus pattern (19 bp):
TTAGCGACGTTTTATTTCC
Found at i:11931995 original size:42 final size:42
Alignment explanation
Indices: 11931917--11932165 Score: 372
Period size: 42 Copynumber: 5.8 Consensus size: 42
11931907 GCGTTTTTTT
* * *
11931917 TCTTTAGCGACGTTTATTTCCTTAGCGCCGCTAAAGAACAGGA
1 TCTTTAGCGGCGTTT-TTTCATAAGCGCCGCTAAAGAACAGGA
11931960 TCTTTAGCGGCGTTTTTTCATAAGCGCCGCTAAAGAACAGGA
1 TCTTTAGCGGCGTTTTTTCATAAGCGCCGCTAAAGAACAGGA
11932002 TCTTTAGCGGCGTTTTTTCATAAGCGCCGCTAAAGAACAGGA
1 TCTTTAGCGGCGTTTTTTCATAAGCGCCGCTAAAGAACAGGA
* *
11932044 TCTTTAGCGGCATTTTTTCATAAGCGCCGCTAAAGAACATGA
1 TCTTTAGCGGCGTTTTTTCATAAGCGCCGCTAAAGAACAGGA
* * *
11932086 TCTTTAGCGGCGTTTATTTCCTTAGCGCCGCTAAAGAACATGA
1 TCTTTAGCGGCGTTT-TTTCATAAGCGCCGCTAAAGAACAGGA
* *
11932129 TCTTTAGCGGCGTTTTTTCCTGTAAGCGCCGCAAAAG
1 TCTTTAGCGGCGTTTTTT-C-ATAAGCGCCGCTAAAG
11932166 TTAGCGACGT
Statistics
Matches: 192, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
42 124 0.65
43 55 0.29
44 13 0.07
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (42 bp):
TCTTTAGCGGCGTTTTTTCATAAGCGCCGCTAAAGAACAGGA
Found at i:11934991 original size:38 final size:40
Alignment explanation
Indices: 11934931--11935011 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 40
11934921 TATTTAATAC
* *
11934931 AATAAAATATTTATTATATTTAT-TTGTGTTTTTTAACAT
1 AATAAAATAATTATTATATTTATGTTGTGCTTTTTAACAT
* *
11934970 AATAAAA-AATTATTCTATTTATGGTTGTGCTTTTTAATAT
1 AATAAAATAATTATTATATTTAT-GTTGTGCTTTTTAACAT
11935010 AA
1 AA
11935012 ATATTTTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 13 0.36
39 7 0.19
40 16 0.44
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (40 bp):
AATAAAATAATTATTATATTTATGTTGTGCTTTTTAACAT
Found at i:11936401 original size:31 final size:29
Alignment explanation
Indices: 11936363--11936439 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
11936353 CTAACGGCTC
* *
11936363 AGTGACTAAAATGTTACAACGTGATAACATA
1 AGTGACTAAAATGTAAC-ACGTCA-AACATA
* **
11936394 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACACGTCAAACATA
11936423 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
11936440 TTGAGCCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 22 0.55
30 3 0.08
31 15 0.38
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (29 bp):
AGTGACTAAAATGTAACACGTCAAACATA
Found at i:11938421 original size:11 final size:11
Alignment explanation
Indices: 11938405--11938462 Score: 57
Period size: 11 Copynumber: 5.4 Consensus size: 11
11938395 ATTTTTTTAA
11938405 TTTTAAAATAC
1 TTTTAAAATAC
11938416 TTTTAAAATAC
1 TTTTAAAATAC
**
11938427 TTTTTTTAA-A-
1 -TTTTAAAATAC
**
11938437 TTTTAAAATTT
1 TTTTAAAATAC
11938448 TTTTAAAATAC
1 TTTTAAAATAC
11938459 TTTT
1 TTTT
11938463 TTAATTTTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
9 6 0.16
11 25 0.68
12 6 0.16
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:11938439 original size:32 final size:31
Alignment explanation
Indices: 11938396--11938470 Score: 116
Period size: 32 Copynumber: 2.4 Consensus size: 31
11938386 AATATTTTTA
11938396 TTTTTTTAATTTTAAAATACTTTTAAAATAC
1 TTTTTTTAATTTTAAAATACTTTTAAAATAC
**
11938427 TTTTTTTAAATTTTAAAATTTTTTTAAAATAC
1 TTTTTTT-AATTTTAAAATACTTTTAAAATAC
11938459 -TTTTTTAATTTT
1 TTTTTTTAATTTT
11938471 TGTTTTAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
30 6 0.15
31 13 0.32
32 22 0.54
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (31 bp):
TTTTTTTAATTTTAAAATACTTTTAAAATAC
Found at i:11938457 original size:43 final size:43
Alignment explanation
Indices: 11938405--11938488 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 43
11938395 ATTTTTTTAA
11938405 TTTTAAAATACTTTTAAAATACTTT-TTTTAAATTTTAAAATTT
1 TTTTAAAATACTTTTAAAAT-CTTTGTTTTAAATTTTAAAATTT
** * *
11938448 TTTTAAAATACTTTTTTAATTTTTGTTTTAATTTTTAAAAT
1 TTTTAAAATACTTTTAAAATCTTTGTTTTAAATTTTAAAAT
11938489 AAATTTTTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 3 0.08
43 33 0.92
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.60
Consensus pattern (43 bp):
TTTTAAAATACTTTTAAAATCTTTGTTTTAAATTTTAAAATTT
Found at i:11938723 original size:49 final size:49
Alignment explanation
Indices: 11938670--11938764 Score: 115
Period size: 49 Copynumber: 1.9 Consensus size: 49
11938660 TGAAAAGGAT
11938670 TAAAA-ACA-TAAATAACCCATAAAT-AAAACCCCATTTCATTTGCAGCCAA
1 TAAAACACATTAAA-AACCC-T-AATCAAAACCCCATTTCATTTGCAGCCAA
* **
11938719 TAAAACCCATTTCAAACCCTAATCAAAACCCCATTTCATTTGCAGC
1 TAAAACACATTAAAAACCCTAATCAAAACCCCATTTCATTTGCAGC
11938765 AACAGCAGCC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
48 3 0.08
49 28 0.70
50 7 0.17
51 2 0.05
ACGTcount: A:0.43, C:0.28, G:0.04, T:0.24
Consensus pattern (49 bp):
TAAAACACATTAAAAACCCTAATCAAAACCCCATTTCATTTGCAGCCAA
Found at i:11939646 original size:44 final size:43
Alignment explanation
Indices: 11939586--11939828 Score: 208
Period size: 44 Copynumber: 5.7 Consensus size: 43
11939576 GATGCGATCT
* * *
11939586 GCTCTACTGTAACTTCAGAGAAATAAGATCCATGGTTTTAATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGAT-CATGGTTTTAATCC
* * * * ** **
11939630 GCTCCACTGCAACTTCAGGGAGATAGGATTA-GTTTCTTCTGTTT
1 GCTCCACTGCAACTTCAGAGAGATAAGATCATGGTT-TT-AATCC
* * * *
11939674 GCTCCACTGCAACTTCAGAGAGATAAGA-C-TGGATGTGATCT
1 GCTCCACTGCAACTTCAGAGAGATAAGATCATGGTTTTAATCC
* * * *
11939715 GCTCTATTGCAACTTCGGAGAGATAAGATC-TGATTTTAATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGATCATGGTTTTAATCC
* *
11939757 GCTCCACTGCAACTTCAGAGAGATAAGATTATTGGCTTTAATCTC
1 GCTCCACTGCAACTTCAGAGAGATAAGATCA-TGGTTTTAATC-C
*
11939802 -CTCCACTGCAACTTCAGGGAGATAAGA
1 GCTCCACTGCAACTTCAGAGAGATAAGA
11939829 CTTGCCATCT
Statistics
Matches: 157, Mismatches: 35, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
41 27 0.17
42 38 0.24
43 5 0.03
44 86 0.55
45 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (43 bp):
GCTCCACTGCAACTTCAGAGAGATAAGATCATGGTTTTAATCC
Found at i:11939730 original size:41 final size:42
Alignment explanation
Indices: 11939674--11939828 Score: 158
Period size: 42 Copynumber: 3.7 Consensus size: 42
11939664 TCTTCTGTTT
* *
11939674 GCTCCACTGCAACTTCAGAGAGATAAGA-CTGGA-TGTGATCT
1 GCTCCACTGCAACTTCAGAGAGATAAGATCT-GATTGTAATCC
* * * *
11939715 GCTCTATTGCAACTTCGGAGAGATAAGATCTGATTTTAATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTGATTGTAATCC
11939757 GCTCCACTGCAACTTCAGAGAGATAAGAT-T-ATTGGCTTTAATCTC
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTGATT-G---TAATC-C
*
11939802 -CTCCACTGCAACTTCAGGGAGATAAGA
1 GCTCCACTGCAACTTCAGAGAGATAAGA
11939829 CTTGCCATCT
Statistics
Matches: 96, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
40 3 0.03
41 28 0.29
42 33 0.34
44 31 0.32
45 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (42 bp):
GCTCCACTGCAACTTCAGAGAGATAAGATCTGATTGTAATCC
Found at i:11939807 original size:127 final size:129
Alignment explanation
Indices: 11939546--11939830 Score: 380
Period size: 127 Copynumber: 2.2 Consensus size: 129
11939536 CTTCGATCCA
* * * *
11939546 CTCCACTGCAACGTCAGAGAGATAAAACTTGATGCGATCTGCTCTACTGTAACTTCAGAGAAATA
1 CTCCACTGCAACTTCAGAGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAAATA
* * * * * * *
11939611 AGATCCATGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTCTGTTTG
66 AGATCCATGATTTTAATCCGCTCCACTGCAACTTCAGAGAGATAAGATTAGTTGCTTCTATCTC
* * * *
11939675 CTCCACTGCAACTTCAGAGAGATAAGACTGGATGTGATCTGCTCTATTGCAACTTCGGAGAGATA
1 CTCCACTGCAACTTCAGAGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAAATA
11939740 AGAT-C-TGATTTTAATCCGCTCCACTGCAACTTCAGAGAGATAAGATTA-TTGGCTT-TAATCT
66 AGATCCATGATTTTAATCCGCTCCACTGCAACTTCAGAGAGATAAGATTAGTT-GCTTCT-ATCT
11939801 C
129 C
*
11939802 CTCCACTGCAACTTCAGGGAGATAAGACT
1 CTCCACTGCAACTTCAGAGAGATAAGACT
11939831 TGCCATCTTC
Statistics
Matches: 138, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
126 3 0.02
127 73 0.53
128 1 0.01
129 61 0.44
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (129 bp):
CTCCACTGCAACTTCAGAGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAAATA
AGATCCATGATTTTAATCCGCTCCACTGCAACTTCAGAGAGATAAGATTAGTTGCTTCTATCTC
Found at i:11939905 original size:50 final size:50
Alignment explanation
Indices: 11939837--11940106 Score: 220
Period size: 50 Copynumber: 5.4 Consensus size: 50
11939827 GACTTGCCAT
* * * *
11939837 CTTCAATCTGTTTAACTACAATGTCGGGGAAATAAGATTCACCATCGTAG
1 CTTCAATCTGTTCAACTACAATGTCAGGGAAATAAGATTCGCCGTCGTAG
* * ** * * *
11939887 CTTCAATCTATTCCACTACACCGTCAGGGAAGTAAGATTCGCCGTTGTGG
1 CTTCAATCTGTTCAACTACAATGTCAGGGAAATAAGATTCGCCGTCGTAG
* * * * *
11939937 CTTCAATCTTTTTAATTATAATGTCAGGGAAACAAGATTCGCCGTCGT-G
1 CTTCAATCTGTTCAACTACAATGTCAGGGAAATAAGATTCGCCGTCGTAG
** ** * * * *
11939986 ACTTCAATCTGTTCCCCTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
1 -CTTCAATCTGTTCAACTACAATGTCAGGGAAATAAGATTCGCCGTCGTAG
* * * * * * *
11940037 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATCCGCCGTCGTCA-
1 CTTCAATCTGTTCAACTACAATGTCAGGGAAATAAGATTCGCCGTCGT-AG
*
11940087 CTTCAATCTGTTCCACTACA
1 CTTCAATCTGTTCAACTACA
11940107 CCGCCAAGGG
Statistics
Matches: 164, Mismatches: 53, Indels: 6
0.74 0.24 0.03
Matches are distributed among these distances:
49 1 0.01
50 162 0.99
51 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.30
Consensus pattern (50 bp):
CTTCAATCTGTTCAACTACAATGTCAGGGAAATAAGATTCGCCGTCGTAG
Found at i:11939967 original size:100 final size:100
Alignment explanation
Indices: 11939837--11940145 Score: 453
Period size: 100 Copynumber: 3.1 Consensus size: 100
11939827 GACTTGCCAT
* * * * * *
11939837 CTTCAATCTGTTTAACTACAATGTCGGGGAAATAAGATTCACCATCGTAGCTTCAATCTATTCCA
1 CTTCAATCTTTTTAATTACAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
*
11939902 CTACACCGTCAGGGAAGTAAGATTCGCCGTTGTGG
66 CTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
* *
11939937 CTTCAATCTTTTTAATTATAATGTCAGGGAAACAAGATTCGCCGTCGT-GACTTCAATCTGTTCC
1 CTTCAATCTTTTTAATTACAATGTCGGGGAAACAAGATTCGCCGTCGTAG-CTTCAATCTGTTCC
*
11940001 CCTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
65 ACTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
* *
11940037 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATCCGCCGTCGTCA-CTTCAATCTGTTCC
1 CTTCAATCTTTTTAATTACAATGTCGGGGAAACAAGATTCGCCGTCGT-AGCTTCAATCTGTTCC
11940101 ACTACACCGCCAAGGG-AGTAAGATTCGCCGTTGTGG
65 ACTACACCGCC-AGGGAAGTAAGATTCGCCGTTGTGG
*
11940137 CTTTAATCT
1 CTTCAATCT
11940146 ATTCCACTGT
Statistics
Matches: 189, Mismatches: 16, Indels: 8
0.89 0.08 0.04
Matches are distributed among these distances:
99 1 0.01
100 184 0.97
101 4 0.02
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (100 bp):
CTTCAATCTTTTTAATTACAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
CTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
Found at i:11940124 original size:50 final size:50
Alignment explanation
Indices: 11939863--11940153 Score: 217
Period size: 50 Copynumber: 5.8 Consensus size: 50
11939853 TACAATGTCG
* * * * *
11939863 GGGAAATAAGATTCACCATCGT-AGCTTCAATCTATTCCACTACACCGTCA
1 GGGAAGTAAGATTCGCCGTCGTGA-CTTCAATCTGTTCCACTACACCGCCA
* * * ** * * ** *
11939913 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTATAATGTCA
1 GGGAAGTAAGATTCGCCGTCGTGACTTCAATCTGTTCCACTACACCGCCA
** *
11939963 GGGAAACAAGATTCGCCGTCGTGACTTCAATCTGTTCCCCTACACCGCCA
1 GGGAAGTAAGATTCGCCGTCGTGACTTCAATCTGTTCCACTACACCGCCA
* * * ** * * ** * *
11940013 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCG
1 GGGAAGTAAGATTCGCCGTCGTGACTTCAATCTGTTCCACTACACCGCCA
** * *
11940063 GGGAAACAAGATCCGCCGTCGTCACTTCAATCTGTTCCACTACACCGCCAA
1 GGGAAGTAAGATTCGCCGTCGTGACTTCAATCTGTTCCACTACACCGCC-A
* * * *
11940114 GGG-AGTAAGATTCGCCGTTGTGGCTTTAATCTATTCCACT
1 GGGAAGTAAGATTCGCCGTCGTGACTTCAATCTGTTCCACT
11940154 GTAATGCCCA
Statistics
Matches: 177, Mismatches: 62, Indels: 4
0.73 0.26 0.02
Matches are distributed among these distances:
50 174 0.98
51 3 0.02
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (50 bp):
GGGAAGTAAGATTCGCCGTCGTGACTTCAATCTGTTCCACTACACCGCCA
Found at i:11940327 original size:50 final size:50
Alignment explanation
Indices: 11940224--11940330 Score: 119
Period size: 50 Copynumber: 2.1 Consensus size: 50
11940214 TCCAAGCATT
* * *
11940224 AACGCCAGGGAGATAAGATTCGCCATTGTGGCTTCAATCTGCTCCGCTAC
1 AACGCCAGGGAGATAAGATTCGCCATTGTGCCTTCAATCTACTCCACTAC
* * * *
11940274 AACGCCAGGGA-AGTAAGATTC-TCAGTTGTGCCTTCAATCTATTCCATTGC
1 AACGCCAGGGAGA-TAAGATTCGCCA-TTGTGCCTTCAATCTACTCCACTAC
11940324 AACGCCA
1 AACGCCA
11940331 AGACGATAAG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
49 3 0.06
50 45 0.94
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (50 bp):
AACGCCAGGGAGATAAGATTCGCCATTGTGCCTTCAATCTACTCCACTAC
Found at i:11940442 original size:88 final size:88
Alignment explanation
Indices: 11940342--11940520 Score: 261
Period size: 88 Copynumber: 2.0 Consensus size: 88
11940332 GACGATAAGA
* * * *
11940342 CTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAAGAAG-GCAAGATCTGCCATTTTCAACCTACT
1 CTGGTATCTTCGATCTACTTCACTGCCAATACAAGAAGAG-AAGATCTGCCATTTTCAACCTACT
*
11940406 CCACCGCTGCTCAGGGAGACAAGG
65 CCACCGCTGCTCAGGGAGAAAAGG
* *
11940430 CTGGTATCTTCGATCTACTTCACTGCCAATACAGGAAGAGAAGATCTGCTATTTTCAACCTACTC
1 CTGGTATCTTCGATCTACTTCACTGCCAATACAAGAAGAGAAGATCTGCCATTTTCAACCTACTC
* *
11940495 TACTGCTGCTCAGGGAGAAAAGG
66 CACCGCTGCTCAGGGAGAAAAGG
11940518 CTG
1 CTG
11940521 AAGATTCACC
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
88 80 0.99
89 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (88 bp):
CTGGTATCTTCGATCTACTTCACTGCCAATACAAGAAGAGAAGATCTGCCATTTTCAACCTACTC
CACCGCTGCTCAGGGAGAAAAGG
Found at i:11941791 original size:13 final size:13
Alignment explanation
Indices: 11941763--11941805 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
11941753 CCTTAGCCTC
11941763 TCCATTTTTACTTTT
1 TCCA-TTTT-CTTTT
11941778 TCCATTTTCTTTT
1 TCCATTTTCTTTT
*
11941791 TTCATTTTCATTTT
1 TCCATTTTC-TTTT
11941805 T
1 T
11941806 TTGACAACTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 13 0.50
14 9 0.35
15 4 0.15
ACGTcount: A:0.12, C:0.19, G:0.00, T:0.70
Consensus pattern (13 bp):
TCCATTTTCTTTT
Found at i:11942310 original size:17 final size:16
Alignment explanation
Indices: 11942276--11942312 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
11942266 CTGATAGAGG
11942276 TTTTGTTTCTTTTTCT
1 TTTTGTTTCTTTTTCT
*
11942292 TTTTGTTTTTTTGTTCT
1 TTTTGTTTCTTT-TTCT
11942309 TTTT
1 TTTT
11942313 TCTTTTCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (16 bp):
TTTTGTTTCTTTTTCT
Found at i:11942340 original size:22 final size:22
Alignment explanation
Indices: 11942308--11942360 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
11942298 TTTTTTGTTC
*
11942308 TTTTTTC--TTTTC-TTCCTTT
1 TTTTTTCTTTTTTCTTTCCTCT
11942327 ATTTTTTCTTTTTTCTTTCCTCT
1 -TTTTTTCTTTTTTCTTTCCTCT
*
11942350 TTTTTTGTTTT
1 TTTTTTCTTTT
11942361 GTTTTTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 7 0.25
22 15 0.54
23 6 0.21
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (22 bp):
TTTTTTCTTTTTTCTTTCCTCT
Found at i:11942360 original size:27 final size:26
Alignment explanation
Indices: 11942276--11942359 Score: 95
Period size: 27 Copynumber: 3.3 Consensus size: 26
11942266 CTGATAGAGG
*
11942276 TTTTGTTTC-TTTTTCTTT-TTGTTT
1 TTTTGTTTCTTTTTTCTTTCTTCTTT
11942300 TTTTG-TTCTTTTTTCTTTTCTTCCTTT
1 TTTTGTTTCTTTTTTC-TTTCTT-CTTT
* *
11942327 ATTT-TTTCTTTTTTCTTTCCTCTTT
1 TTTTGTTTCTTTTTTCTTTCTTCTTT
11942352 TTTTGTTT
1 TTTTGTTT
11942360 TGTTTTTTTG
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
23 3 0.06
24 11 0.22
25 10 0.20
26 10 0.20
27 16 0.32
ACGTcount: A:0.01, C:0.14, G:0.05, T:0.80
Consensus pattern (26 bp):
TTTTGTTTCTTTTTTCTTTCTTCTTT
Found at i:11942365 original size:27 final size:27
Alignment explanation
Indices: 11942300--11942367 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
11942290 CTTTTTGTTT
*
11942300 TTTTGTTCTTTTTTCTTTTCTTCCTTTA
1 TTTT-TTCTTTTTTCTTTTCCTCCTTTA
* *
11942328 TTTTTTCTTTTTTC-TTTCCTCTTTTT
1 TTTTTTCTTTTTTCTTTTCCTCCTTTA
*
11942354 TTGTTTTGTTTTTT
1 TT-TTTTCTTTTTT
11942368 TGAATCTGCA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 11 0.31
27 20 0.57
28 4 0.11
ACGTcount: A:0.01, C:0.15, G:0.04, T:0.79
Consensus pattern (27 bp):
TTTTTTCTTTTTTCTTTTCCTCCTTTA
Found at i:11942453 original size:14 final size:14
Alignment explanation
Indices: 11942430--11942463 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
11942420 ATCAATATTG
* *
11942430 TTCCAGATAAGGTC
1 TTCCACATAAGATC
11942444 TTCCACATAAGATC
1 TTCCACATAAGATC
11942458 TTCCAC
1 TTCCAC
11942464 TTTCATTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (14 bp):
TTCCACATAAGATC
Found at i:11944797 original size:25 final size:25
Alignment explanation
Indices: 11944718--11944797 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
11944708 ATGCTCATAT
*
11944718 GAGCATGTA-AACGAGAAGCTCTTTC
1 GAGC-TGTATAACGAGAAGCTCTTGC
** * * * *
11944743 GAGCCATATAACGGGAAACTCATGT
1 GAGCTGTATAACGAGAAGCTCTTGC
11944768 GAGCTGTATAACGAGAAGCTCTTGC
1 GAGCTGTATAACGAGAAGCTCTTGC
*
11944793 AAGCT
1 GAGCT
11944798 ATTTATTGCG
Statistics
Matches: 40, Mismatches: 14, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
24 2 0.05
25 38 0.95
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (25 bp):
GAGCTGTATAACGAGAAGCTCTTGC
Found at i:11944835 original size:25 final size:25
Alignment explanation
Indices: 11944807--11944877 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
11944797 TATTTATTGC
*
11944807 GAAGCTCAAAAGAGCCAAATATCAG
1 GAAGCTCATAAGAGCCAAATATCAG
* * * *
11944832 GAAGCTCGTGAGAGACAAATATCGG
1 GAAGCTCATAAGAGCCAAATATCAG
* *
11944857 GATGCTCATAAGAGCTAAATA
1 GAAGCTCATAAGAGCCAAATA
11944878 ACGAGAAGCT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.42, C:0.17, G:0.24, T:0.17
Consensus pattern (25 bp):
GAAGCTCATAAGAGCCAAATATCAG
Found at i:11944888 original size:25 final size:25
Alignment explanation
Indices: 11944807--11944897 Score: 69
Period size: 25 Copynumber: 3.6 Consensus size: 25
11944797 TATTTATTGC
* *
11944807 GAAGCTCAAAAGAGCCAAATATC-A
1 GAAGCTCATAAGAGCTAAATATCGA
* * *
11944831 GGAAGCTCGTGAGAGAC-AAATATCGG
1 -GAAGCTCATAAGAG-CTAAATATCGA
* *
11944857 GATGCTCATAAGAGCTAAATAACGA
1 GAAGCTCATAAGAGCTAAATATCGA
* *
11944882 GAAGCTCGTGAGAGCT
1 GAAGCTCATAAGAGCT
11944898 TTAGTGTATC
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
24 1 0.02
25 49 0.96
26 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.26, T:0.16
Consensus pattern (25 bp):
GAAGCTCATAAGAGCTAAATATCGA
Found at i:11945088 original size:22 final size:23
Alignment explanation
Indices: 11945039--11945089 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
11945029 TGAAAATTAC
11945039 ACAATTCAAACACATAACAATAT
1 ACAATTCAAACACATAACAATAT
* *
11945062 TCAATTCAAA-ACA-CACAAATAT
1 ACAATTCAAACACATAAC-AATAT
11945084 ACAATT
1 ACAATT
11945090 TAGTTACACG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 13 0.54
23 9 0.38
ACGTcount: A:0.55, C:0.22, G:0.00, T:0.24
Consensus pattern (23 bp):
ACAATTCAAACACATAACAATAT
Found at i:11946470 original size:24 final size:25
Alignment explanation
Indices: 11946423--11946470 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
11946413 TGAGTATATA
11946423 AACATAAAAAATTAATAATGTTAAC
1 AACATAAAAAATTAATAATGTTAAC
*
11946448 AACAT-AATAATTAACTAAT-TTAA
1 AACATAAAAAATTAA-TAATGTTAA
11946471 TAATATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.31
Consensus pattern (25 bp):
AACATAAAAAATTAATAATGTTAAC
Found at i:11950175 original size:106 final size:106
Alignment explanation
Indices: 11949990--11950201 Score: 388
Period size: 106 Copynumber: 2.0 Consensus size: 106
11949980 ATCAGTCTTT
*
11949990 CCATCCTGTCTCTACATCAATGGCTGACAGGAATTCCTTTTTTGACTAATACAGCAGTACAGCTT
1 CCATCCTGTCCCTACATCAATGGCTGACAGGAATTCCTTTTTTGACTAATACAGCAGTACAGCTT
*
11950055 TTTACCTAAAATCTGAACAAGCATAAGTTCTATGTTTTAGC
66 TTTACCTAAAATCTGAACAAGCATAAGTTCTATGGTTTAGC
*
11950096 CCATCCTGTCCCTACATCAATGGCTTACAGGAATTCCTTTTTTGACTAATACAGCAGTACAGCTT
1 CCATCCTGTCCCTACATCAATGGCTGACAGGAATTCCTTTTTTGACTAATACAGCAGTACAGCTT
*
11950161 TTTACTTAAAATCTGAACAAGCATAAGTTCTATGGTTTAGC
66 TTTACCTAAAATCTGAACAAGCATAAGTTCTATGGTTTAGC
11950202 TTTTAGATTA
Statistics
Matches: 102, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 102 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (106 bp):
CCATCCTGTCCCTACATCAATGGCTGACAGGAATTCCTTTTTTGACTAATACAGCAGTACAGCTT
TTTACCTAAAATCTGAACAAGCATAAGTTCTATGGTTTAGC
Found at i:11950927 original size:18 final size:18
Alignment explanation
Indices: 11950906--11950950 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
11950896 TTTTAACTGA
*
11950906 TTTACCTTTTAATTTAAT
1 TTTACATTTTAATTTAAT
11950924 TTTACATTTTAATTTAAT
1 TTTACATTTTAATTTAAT
11950942 ATTT-CATTT
1 -TTTACATTT
11950951 ACTATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 22 0.88
19 3 0.12
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTACATTTTAATTTAAT
Found at i:11962337 original size:44 final size:44
Alignment explanation
Indices: 11962269--11962363 Score: 145
Period size: 44 Copynumber: 2.1 Consensus size: 44
11962259 TCAGATGTAT
* *
11962269 TTTTATTCTATTCAAGTCAGTTTTTTCATGCACCCAATACAAGG
1 TTTTATTCTATTAAAGTCAATTTTTTCATGCACCCAATACAAGG
* *
11962313 TTTTATTCTATTAAAGTCAATTTTTTCATTCACCCAATACACGG
1 TTTTATTCTATTAAAGTCAATTTTTTCATGCACCCAATACAAGG
11962357 TATTTAT
1 T-TTTAT
11962364 ATACTTTTCA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
44 41 0.89
45 5 0.11
ACGTcount: A:0.28, C:0.19, G:0.08, T:0.44
Consensus pattern (44 bp):
TTTTATTCTATTAAAGTCAATTTTTTCATGCACCCAATACAAGG
Found at i:11967469 original size:3 final size:3
Alignment explanation
Indices: 11967461--11967505 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
11967451 TTGAGAGTAA
* * *
11967461 AAG AAG AAG ATG TAG AAG AAG AAA AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
11967506 GGTTCATAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.64, C:0.00, G:0.31, T:0.04
Consensus pattern (3 bp):
AAG
Found at i:11968273 original size:19 final size:20
Alignment explanation
Indices: 11968234--11968273 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11968224 TTCTCGCTAC
*
11968234 TAGATTTTCGCTACTAAAAA
1 TAGATTTTCGCTACGAAAAA
*
11968254 TAGATTTTCG-TCCGAAAAA
1 TAGATTTTCGCTACGAAAAA
11968273 T
1 T
11968274 CATCATTCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (20 bp):
TAGATTTTCGCTACGAAAAA
Found at i:11972900 original size:20 final size:20
Alignment explanation
Indices: 11972870--11972915 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
11972860 TCGCCTATGA
* *
11972870 ATAACTTTATAATTCATATAT
1 ATAA-TTTATAAATAATATAT
11972891 ATAATTTATAAATAATATAT
1 ATAATTTATAAATAATATAT
*
11972911 GTAAT
1 ATAAT
11972916 CCAAAGGGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (20 bp):
ATAATTTATAAATAATATAT
Found at i:11979332 original size:17 final size:17
Alignment explanation
Indices: 11979273--11979386 Score: 90
Period size: 17 Copynumber: 6.6 Consensus size: 17
11979263 AGCTCTCATG
*
11979273 TTTGGTGAGCTCGCAGT
1 TTTGGTGAGCTAGCAGT
* *
11979290 CTTTGGTGAGCTTTGCACT
1 -TTTGGTGAGC-TAGCAGT
11979309 TTT-GTGAGCTAGCAGT
1 TTTGGTGAGCTAGCAGT
* *
11979325 TTTGGTGAGCTCGTAGT
1 TTTGGTGAGCTAGCAGT
* *
11979342 TCTGGTGAGCTCA-TAGT
1 TTTGGTGAGCT-AGCAGT
* *
11979359 TCTGGTGAGCT-GACAAT
1 TTTGGTGAGCTAG-CAGT
11979376 TTTGGTGAGCT
1 TTTGGTGAGCT
11979387 CGTAGTTCGC
Statistics
Matches: 80, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
16 8 0.10
17 54 0.68
18 13 0.16
19 5 0.06
ACGTcount: A:0.15, C:0.16, G:0.32, T:0.38
Consensus pattern (17 bp):
TTTGGTGAGCTAGCAGT
Found at i:11988621 original size:56 final size:51
Alignment explanation
Indices: 11988527--11988773 Score: 225
Period size: 50 Copynumber: 4.8 Consensus size: 51
11988517 ATTTGGGTAA
* *** *
11988527 AGAGATCTCATGTAAGACCATGTCTGGGACACAACATTGGCATCATTGAGGTTATG
1 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA-G-TATG
*
11988583 AGAGGTCTCATGTAAGACCATGTCTGGGATATGGCATTGGCACCGAG-ATG
1 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGTATG
* ** *
11988633 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-TATG
1 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGTATG
** * * * * *
11988683 AGAACTCTCATGTAAGACCATATTTGGGATATGGCATTGGCA--GTA-CAAG
1 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGTATG
* **
11988732 AAACATCTCATGTAAGACCATGTCTGGGACATGGCATTGGCA
1 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCA
11988774 TGTTATTATC
Statistics
Matches: 161, Mismatches: 28, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
48 1 0.01
49 39 0.24
50 80 0.50
52 1 0.01
53 2 0.01
55 1 0.01
56 37 0.23
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (51 bp):
AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGTATG
Found at i:11990388 original size:6 final size:6
Alignment explanation
Indices: 11990377--11990411 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
11990367 ATGTAGATGA
11990377 TTATTG TTATTG TTATTG TTATTG TTATTG TTATT
1 TTATTG TTATTG TTATTG TTATTG TTATTG TTATT
11990412 AAATATTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (6 bp):
TTATTG
Found at i:11992389 original size:972 final size:974
Alignment explanation
Indices: 11990491--11992441 Score: 3879
Period size: 972 Copynumber: 2.0 Consensus size: 974
11990481 ATTTCAAATA
11990491 TTTTATTTTTATATTTTAAGTCTAGATTTTAAAGGATTAGTTTGAAAATTAATTTTGTTTTGTGA
1 TTTTATTTTTATA-TTTAAGTCTAGATTTTAAAGGATTAGTTTGAAAATTAATTTTGTTTTGTGA
11990556 TTAAAAGTTGCATGAAATAACTGTAACGAGAAGGTAAGTAATAGGGAAGTAATAAACATTCCTTA
65 TTAAAAGTTGCATGAAATAACTGTAACGAGAAGGTAAGTAATAGGGAAGTAATAAACATTCCTTA
11990621 AATGAGTATTACGTTCAACCAAACAAATGAATGGTTTACCATTCAATGAATAAATAGAGAATGCT
130 AATGAGTATTACGTTCAACCAAACAAATGAATGGTTTACCATTCAATGAATAAATAGAGAATGCT
11990686 ATTCCATTCCCCCAACCAAACATGTTGCGAAGGTTTAGCAATATACAAGCTTGAAAATTTTGAAT
195 ATTCCATTCCCCCAACCAAACATGTTGCGAAGGTTTAGCAATATACAAGCTTGAAAATTTTGAAT
11990751 TCTTATTAGGCATGATTATTTCATATGAAATATTATTTGCTATGAACTTGGTTAGCAAAAATTTA
260 TCTTATTAGGCATGATTATTTCATATGAAATATTATTTGCTATGAACTTGGTTAGCAAAAATTTA
11990816 TAATCAAAAGGTATGTGAATTGATATAGCTATAGAATAATGAAAAGTTCTTCTTTCAGTTTCTTT
325 TAATCAAAAGGTATGTGAATTGATATAGCTATAGAATAATGAAAAGTTCTTCTTTCAGTTTCTTT
11990881 TTTTTTTTTTTGAAAAATACAGGAAGGTTGGAGTCCAAAATACTATAACATTGAAATGCAAATAG
390 TTTTTTTTTTTGAAAAATACAGGAAGGTTGGAGTCCAAAATACTATAACATTGAAATGCAAATAG
11990946 AATCTAAATTTAATGAAAAACATATGATTGAAATATTTGATTTGACGAGAATGTTGATAATGAAA
455 AATCTAAATTTAATGAAAAACATATGATTGAAATATTTGATTTGACGAGAATGTTGATAATGAAA
11991011 CAATAAAAACTCCTTAAAAATCTTTTAGAATCGATTTTTTTTATACATAATAGATTTCTCTTATT
520 CAATAAAAACTCCTTAAAAATCTTTTAGAATCGATTTTTTTTATACATAATAGATTTCTCTTATT
11991076 TCAAATAATTATTTAATTAATTTAAAAGGTCTCATTTTACAAATTCACTTTAAGCTTGCACTTGG
585 TCAAATAATTATTTAATTAATTTAAAAGGTCTCATTTTACAAATTCACTTTAAGCTTGCACTTGG
11991141 AATAAAATTAAGTTAAATAAATTTATTTGAATTAAAGAAAATATTTAATTATATTTGAGCATGAT
650 AATAAAATTAAGTTAAATAAATTTATTTGAATTAAAGAAAATATTTAATTATATTTGAGCATGAT
11991206 AAATTAAGTTGGATAAAAATTAAATCATTTAAAATAAATTTGATGCTCACAAAGTTAATATACAA
715 AAATTAAGTTGGATAAAAATTAAATCATTTAAAATAAATTTGATGCTCACAAAGTTAATATACAA
11991271 CATCCCTTTTTGCACTGCAAAGCAATGAACACAAAGGTGCACGCTAAGAAACAAACAACATCATG
780 CATCCCTTTTTGCACTGCAAAGCAATGAACACAAAGGTGCACGCTAAGAAACAAACAACATCATG
11991336 AAAAAGATGGAAACAATCAATGCTAACTAATAGGCGCATTCAAATGATGCAAAAGCTTGCCGTTT
845 AAAAAGATGGAAACAATCAATGCTAACTAATAGGCGCATTCAAATGATGCAAAAGCTTGCCGTTT
11991401 CTTCAAGAATCTTGGCATGACCGCGTAGCTTCATCTTGAAATTGTGGGAGCGCATTGCGTATCAC
910 CTTCAAGAATCTTGGCATGACCGCGTAGCTTCATCTTGAAATTGTGGGAGCGCATTGCGTATCAC
11991466 TTTT-TTTTTATA-TTAAGTCTAGATTTTAAAGGATTAGTTTGAAAATTAATTTTGTTTTGTGAT
1 TTTTATTTTTATATTTAAGTCTAGATTTTAAAGGATTAGTTTGAAAATTAATTTTGTTTTGTGAT
11991529 TAAAAGTTGCATGAAATAACTGTAACGAGAAGGTAAGTAATAGGGAAGTAATAAACATTCCTTAA
66 TAAAAGTTGCATGAAATAACTGTAACGAGAAGGTAAGTAATAGGGAAGTAATAAACATTCCTTAA
11991594 ATGAGTATTACGTTCAACCAAACAAATGAATGGTTTACCATTCAATGAATAAATAGAGAATGCTA
131 ATGAGTATTACGTTCAACCAAACAAATGAATGGTTTACCATTCAATGAATAAATAGAGAATGCTA
11991659 TTCCATTCCCCCAACCAAACATGTTGCGAAGGTTTAGCAATATACAAGCTTGAAAATTTTGAATT
196 TTCCATTCCCCCAACCAAACATGTTGCGAAGGTTTAGCAATATACAAGCTTGAAAATTTTGAATT
11991724 CTTATTAGGCATGATTATTTCATATGAAATATTATTTGCTATGAACTTGGTTAGCAAAAATTTAT
261 CTTATTAGGCATGATTATTTCATATGAAATATTATTTGCTATGAACTTGGTTAGCAAAAATTTAT
11991789 AATCAAAAGGTATGTGAATTGATATAGCTATAGAATAATGAAAAGTTCTTCTTTCAGTTTCTTTT
326 AATCAAAAGGTATGTGAATTGATATAGCTATAGAATAATGAAAAGTTCTTCTTTCAGTTTCTTTT
11991854 TTTTTTTTTTGAAAAATACAGGAAGGTTGGAGTCCAAAATACTATAACATTGAAATGCAAATAGA
391 TTTTTTTTTTGAAAAATACAGGAAGGTTGGAGTCCAAAATACTATAACATTGAAATGCAAATAGA
11991919 ATCTAAATTTAATGAAAAACATATGATTGAAATATTTGATTTGACGAGAATGTTGATAATGAAAC
456 ATCTAAATTTAATGAAAAACATATGATTGAAATATTTGATTTGACGAGAATGTTGATAATGAAAC
11991984 AATAAAAACTCCTTAAAAATCTTTTAGAATCGATTTTTTTTATACATAATAGATTTCTCTTATTT
521 AATAAAAACTCCTTAAAAATCTTTTAGAATCGATTTTTTTTATACATAATAGATTTCTCTTATTT
11992049 CAAATAATTATTTAATTAATTTAAAAGGTCTCATTTTACAAATTCACTTTAAGCTTGCACTTGGA
586 CAAATAATTATTTAATTAATTTAAAAGGTCTCATTTTACAAATTCACTTTAAGCTTGCACTTGGA
11992114 ATAAAATTAAGTTAAATAAATTTATTTGAATTAAAGAAAATATTTAATTATATTTGAGCATGATA
651 ATAAAATTAAGTTAAATAAATTTATTTGAATTAAAGAAAATATTTAATTATATTTGAGCATGATA
11992179 AATTAAGTTGGATAAAAATTAAATCATTTAAAATAAATTTGATGCTCACAAAGTTAATATACAAC
716 AATTAAGTTGGATAAAAATTAAATCATTTAAAATAAATTTGATGCTCACAAAGTTAATATACAAC
11992244 ATCCCTTTTTGCACTGCAAAGCAATGAACACAAAGGTGCACGCTAAGAAACAAACAACATCATGA
781 ATCCCTTTTTGCACTGCAAAGCAATGAACACAAAGGTGCACGCTAAGAAACAAACAACATCATGA
11992309 AAAAGATGGAAACAATCAATGCTAACTAATAGGCGCATTCAAATGATGCAAAAGCTTGCCGTTTC
846 AAAAGATGGAAACAATCAATGCTAACTAATAGGCGCATTCAAATGATGCAAAAGCTTGCCGTTTC
11992374 TTCAAGAATCTTGGCATGACCGCGTAGCTTCATCTTGAAATTGTGGGAGCGCATTGCGTATCAC
911 TTCAAGAATCTTGGCATGACCGCGTAGCTTCATCTTGAAATTGTGGGAGCGCATTGCGTATCAC
11992438 TTTT
1 TTTT
11992442 GCTTGGCCAA
Statistics
Matches: 976, Mismatches: 0, Indels: 3
1.00 0.00 0.00
Matches are distributed among these distances:
972 964 0.99
974 8 0.01
975 4 0.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (974 bp):
TTTTATTTTTATATTTAAGTCTAGATTTTAAAGGATTAGTTTGAAAATTAATTTTGTTTTGTGAT
TAAAAGTTGCATGAAATAACTGTAACGAGAAGGTAAGTAATAGGGAAGTAATAAACATTCCTTAA
ATGAGTATTACGTTCAACCAAACAAATGAATGGTTTACCATTCAATGAATAAATAGAGAATGCTA
TTCCATTCCCCCAACCAAACATGTTGCGAAGGTTTAGCAATATACAAGCTTGAAAATTTTGAATT
CTTATTAGGCATGATTATTTCATATGAAATATTATTTGCTATGAACTTGGTTAGCAAAAATTTAT
AATCAAAAGGTATGTGAATTGATATAGCTATAGAATAATGAAAAGTTCTTCTTTCAGTTTCTTTT
TTTTTTTTTTGAAAAATACAGGAAGGTTGGAGTCCAAAATACTATAACATTGAAATGCAAATAGA
ATCTAAATTTAATGAAAAACATATGATTGAAATATTTGATTTGACGAGAATGTTGATAATGAAAC
AATAAAAACTCCTTAAAAATCTTTTAGAATCGATTTTTTTTATACATAATAGATTTCTCTTATTT
CAAATAATTATTTAATTAATTTAAAAGGTCTCATTTTACAAATTCACTTTAAGCTTGCACTTGGA
ATAAAATTAAGTTAAATAAATTTATTTGAATTAAAGAAAATATTTAATTATATTTGAGCATGATA
AATTAAGTTGGATAAAAATTAAATCATTTAAAATAAATTTGATGCTCACAAAGTTAATATACAAC
ATCCCTTTTTGCACTGCAAAGCAATGAACACAAAGGTGCACGCTAAGAAACAAACAACATCATGA
AAAAGATGGAAACAATCAATGCTAACTAATAGGCGCATTCAAATGATGCAAAAGCTTGCCGTTTC
TTCAAGAATCTTGGCATGACCGCGTAGCTTCATCTTGAAATTGTGGGAGCGCATTGCGTATCAC
Found at i:11996920 original size:16 final size:16
Alignment explanation
Indices: 11996883--11996922 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
11996873 TTAATAAAAT
* *
11996883 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
11996899 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
11996915 TAAAATTA
1 TAAAATTA
11996923 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:11996922 original size:22 final size:22
Alignment explanation
Indices: 11996855--11996907 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
11996845 TAATTAAAAT
* * *
11996855 TAAAATTAAAATTATTTTTTAA
1 TAAAATTAAAACTAATTGTTAA
*
11996877 TAAAATTAAAACTAATTGTTAT
1 TAAAATTAAAACTAATTGTTAA
11996899 TAAAATTAA
1 TAAAATTAA
11996908 TTGTTAGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
TAAAATTAAAACTAATTGTTAA
Found at i:11996981 original size:66 final size:59
Alignment explanation
Indices: 11996925--11997044 Score: 197
Period size: 59 Copynumber: 2.1 Consensus size: 59
11996915 TAAAATTATC
* * *
11996925 AAATTAT-TAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
*
11996983 AATTTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
11997042 AAA
1 AAA
11997045 CAAACTTGAT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 6 0.11
59 50 0.89
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (59 bp):
AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
Found at i:11998276 original size:22 final size:22
Alignment explanation
Indices: 11998248--11998299 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
11998238 AGCCTTAATA
11998248 ATAAAACCCTAATTAATAAACC
1 ATAAAACCCTAATTAATAAACC
*
11998270 ATAAAACACTAATTAATAAACC
1 ATAAAACCCTAATTAATAAACC
*
11998292 CTAAAACC
1 ATAAAACC
11998300 TTAAAAATCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.56, C:0.23, G:0.00, T:0.21
Consensus pattern (22 bp):
ATAAAACCCTAATTAATAAACC
Found at i:11998472 original size:26 final size:27
Alignment explanation
Indices: 11998416--11998482 Score: 66
Period size: 29 Copynumber: 2.5 Consensus size: 27
11998406 AAAACGGCCC
* * *
11998416 ATTTCCGTTATTTTTAAAAAAATTGACTT
1 ATTTCCGTAATTTTGAAAAAAA-T-AATT
11998445 ATTTCCGTAATTTTGAAAAAAA-AATT
1 ATTTCCGTAATTTTGAAAAAAATAATT
*
11998471 ATTT-GGTAATTT
1 ATTTCCGTAATTT
11998483 AGTCAAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
25 7 0.21
26 7 0.21
29 20 0.59
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.46
Consensus pattern (27 bp):
ATTTCCGTAATTTTGAAAAAAATAATT
Found at i:12004020 original size:20 final size:20
Alignment explanation
Indices: 12003995--12004035 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
12003985 CGCGGGATTG
*
12003995 AGTACAATTGTTCTGTGCCA
1 AGTACAATCGTTCTGTGCCA
12004015 AGTACAATCGTTCTGTGCCA
1 AGTACAATCGTTCTGTGCCA
12004035 A
1 A
12004036 AGGATGAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (20 bp):
AGTACAATCGTTCTGTGCCA
Found at i:12007626 original size:2 final size:2
Alignment explanation
Indices: 12007619--12007650 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
12007609 ATAATCTAGA
12007619 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12007651 GCACACACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12014142 original size:23 final size:23
Alignment explanation
Indices: 12014116--12014161 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
12014106 ATTTCCCAAT
12014116 ATTGTTTTTGGAGCAAACTCCAG
1 ATTGTTTTTGGAGCAAACTCCAG
12014139 ATTGTTTTTGGAGCAAACTCCAG
1 ATTGTTTTTGGAGCAAACTCCAG
12014162 CAACTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (23 bp):
ATTGTTTTTGGAGCAAACTCCAG
Found at i:12016274 original size:21 final size:20
Alignment explanation
Indices: 12016222--12016282 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
12016212 TGTAATACAG
12016222 TTTATAATAATTAAAATATT
1 TTTATAATAATTAAAATATT
12016242 TTTATAACTAATTAAAAT-TT
1 TTTATAA-TAATTAAAATATT
* *
12016262 TATTATTTATAATTGAAATAT
1 T-TTA-TAATAATTAAAATAT
12016283 ATTAAGTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 10 0.29
21 22 0.63
22 3 0.09
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTATAATAATTAAAATATT
Found at i:12026855 original size:22 final size:22
Alignment explanation
Indices: 12026827--12026868 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
12026817 TTTGATTAAC
12026827 TAAAGATTTATTAACCACTAAT
1 TAAAGATTTATTAACCACTAAT
*
12026849 TAAAGATTTGTTAACCACTA
1 TAAAGATTTATTAACCACTA
12026869 CACCACTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (22 bp):
TAAAGATTTATTAACCACTAAT
Found at i:12027011 original size:17 final size:17
Alignment explanation
Indices: 12026981--12027013 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
12026971 TTAGTTGATT
12026981 TTAGATTTAATAATTAG
1 TTAGATTTAATAATTAG
12026998 TTAG-TTTAATTAATTA
1 TTAGATTTAA-TAATTA
12027014 AGTTGAGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (17 bp):
TTAGATTTAATAATTAG
Found at i:12029760 original size:21 final size:21
Alignment explanation
Indices: 12029735--12029777 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
12029725 AGATCAAGGT
*
12029735 TGGGTGAAAATTTGAGGAAAA
1 TGGGTGAAAATTCGAGGAAAA
*
12029756 TGGGTGAAAATTCGATGAAAA
1 TGGGTGAAAATTCGAGGAAAA
12029777 T
1 T
12029778 AGAAAATTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.42, C:0.02, G:0.30, T:0.26
Consensus pattern (21 bp):
TGGGTGAAAATTCGAGGAAAA
Found at i:12031563 original size:23 final size:21
Alignment explanation
Indices: 12031537--12031588 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 21
12031527 CTAATAATAT
12031537 ATATTTTATCTTAAAAATATTAA
1 ATATTTTAT-TTAAAAAT-TTAA
*
12031560 ATATTAAATATTTAAAAATTTAA
1 ATATT--TTATTTAAAAATTTAA
12031583 A-ATTTT
1 ATATTTT
12031589 CTAATATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
20 1 0.04
22 3 0.12
23 10 0.40
24 8 0.32
25 3 0.12
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
ATATTTTATTTAAAAATTTAA
Found at i:12041338 original size:16 final size:16
Alignment explanation
Indices: 12041317--12041357 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
12041307 ACCATGAACG
*
12041317 TCACAAGTGAATTAAT
1 TCACAAATGAATTAAT
12041333 TCACAAATGAATTAAT
1 TCACAAATGAATTAAT
12041349 TCACAAATG
1 TCACAAATG
12041358 GATTTAGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (16 bp):
TCACAAATGAATTAAT
Found at i:12041717 original size:16 final size:16
Alignment explanation
Indices: 12041696--12041726 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12041686 CTATGTATGC
*
12041696 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
12041712 AAAATACAAAAGACA
1 AAAATACAAAAGACA
12041727 TAATAGTAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:12047396 original size:50 final size:49
Alignment explanation
Indices: 12047310--12047497 Score: 200
Period size: 50 Copynumber: 3.8 Consensus size: 49
12047300 AAAGTGAAAG
*
12047310 TGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAA
1 TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAA
* * * * *
12047359 TGATAGGTCGCATGTGTAGTACTATGTGTAGGTTACTATGCGTACCAG-A
1 TGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAA
* * * * * *
12047408 TAGCTTCGATCACGTGTGTAGTACTATGTGCAGGCTAATACGTG-ATCGGATAA
1 T-G-AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-C-CAGAA
12047461 TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
12047498 TGTGAACTAG
Statistics
Matches: 111, Mismatches: 22, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
49 6 0.05
50 69 0.62
51 32 0.29
52 2 0.02
53 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (49 bp):
TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAA
Found at i:12047431 original size:101 final size:101
Alignment explanation
Indices: 12047316--12047499 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
12047306 AAAGTGATGG
* *
12047316 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTG-TAC-CAGAATGATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTAATACGTGAT-CGCAGAATGAT-GGTCACATGTGTAGT
* *
12047379 ACTATGTGTAGGTTACTATGCGTACCAGATAGCTTCGA
64 ACTATGTGCAGGCTACTATGCGTACCAGATAGCTTCGA
* *
12047417 TCACGTGTGTAGTACTATGTGCAGGCTAATACGTGATCGGATAATGATGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGCAGGCTAATACGTGATCGCAGAATGATGGTCACATGTGTAGTAC
12047482 TATGTGCAGGCTACTATG
66 TATGTGCAGGCTACTATG
12047500 TGAACTAGTA
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
101 67 0.89
102 8 0.11
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGCAGGCTAATACGTGATCGCAGAATGATGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCAGATAGCTTCGA
Found at i:12047746 original size:16 final size:16
Alignment explanation
Indices: 12047725--12047756 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12047715 TGATTGAAAG
*
12047725 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
12047741 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
12047757 GCAACAAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:12050967 original size:72 final size:72
Alignment explanation
Indices: 12050838--12050990 Score: 216
Period size: 72 Copynumber: 2.1 Consensus size: 72
12050828 TTTGTGATGG
* * *
12050838 TTGAATGTGCCAATAGCATGTTTTTGATCTATTAAACTATATCTGCAATTAGTATGTTCTGATAA
1 TTGAATATGCCAATAGCATGTTTTTGATCTATTAAACTATATCTGCAACTAGCATGTTCTGATAA
12050903 GTTTTAT
66 GTTTTAT
* * * **
12050910 TTGAATATGTCAATAGCATGTTTTTGATCTATTAAACTATATGTGTAACTAGCATGTTCTGATTT
1 TTGAATATGCCAATAGCATGTTTTTGATCTATTAAACTATATCTGCAACTAGCATGTTCTGATAA
12050975 GTTTTAT
66 GTTTTAT
* *
12050982 CTGCATATG
1 TTGAATATG
12050991 GGAATGTCTA
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.45
Consensus pattern (72 bp):
TTGAATATGCCAATAGCATGTTTTTGATCTATTAAACTATATCTGCAACTAGCATGTTCTGATAA
GTTTTAT
Found at i:12060042 original size:14 final size:14
Alignment explanation
Indices: 12060023--12060049 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12060013 CTAAATTACC
12060023 AATTGGACCACACA
1 AATTGGACCACACA
12060037 AATTGGACCACAC
1 AATTGGACCACAC
12060050 CCACCAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.30, G:0.15, T:0.15
Consensus pattern (14 bp):
AATTGGACCACACA
Found at i:12061046 original size:20 final size:19
Alignment explanation
Indices: 12061008--12061052 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
12060998 TTATATATTT
*
12061008 TTAAAAAATATATATAATA
1 TTAAAAAATATATAAAATA
12061027 TATAAAAAATACTA-AAAATA
1 T-TAAAAAATA-TATAAAATA
12061047 TTAAAA
1 TTAAAA
12061053 TAAATATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 6 0.26
20 15 0.65
21 2 0.09
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (19 bp):
TTAAAAAATATATAAAATA
Found at i:12063528 original size:49 final size:49
Alignment explanation
Indices: 12063432--12063523 Score: 134
Period size: 47 Copynumber: 1.9 Consensus size: 49
12063422 ATGGTTATGA
* * *
12063432 GATTGTCAATTATTTATTTTTCCTTTTTTGGTTGAATCTCTGTGTTTTC
1 GATTGACAATTATTTATTTTCCCGTTTTTGGTTGAATCTCTGTGTTTTC
*
12063481 GATTGACAATT-TTT-TTTTCCCGTTTTTGGTTGAATCTTTGTGT
1 GATTGACAATTATTTATTTTCCCGTTTTTGGTTGAATCTCTGTGT
12063524 GTTTTAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 26 0.67
48 3 0.08
49 10 0.26
ACGTcount: A:0.14, C:0.12, G:0.16, T:0.58
Consensus pattern (49 bp):
GATTGACAATTATTTATTTTCCCGTTTTTGGTTGAATCTCTGTGTTTTC
Found at i:12072854 original size:45 final size:45
Alignment explanation
Indices: 12072790--12072933 Score: 279
Period size: 45 Copynumber: 3.2 Consensus size: 45
12072780 TCCATCAGGT
12072790 CGAAAGGTAAATGGACTAAATTGATTAATTGATAGAATTATAGGC
1 CGAAAGGTAAATGGACTAAATTGATTAATTGATAGAATTATAGGC
12072835 CGAAAGGTAAATGGACTAAATTGATTAATTGATAGAATTATAGGC
1 CGAAAGGTAAATGGACTAAATTGATTAATTGATAGAATTATAGGC
12072880 CGAAAGGTAAATGGACTAAATTGATTAATTGATAGAATTATAGGC
1 CGAAAGGTAAATGGACTAAATTGATTAATTGATAGAATTATAGGC
*
12072925 CAAAAGGTA
1 CGAAAGGTA
12072934 TTAATTAGGT
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
45 98 1.00
ACGTcount: A:0.43, C:0.07, G:0.22, T:0.28
Consensus pattern (45 bp):
CGAAAGGTAAATGGACTAAATTGATTAATTGATAGAATTATAGGC
Found at i:12073990 original size:22 final size:21
Alignment explanation
Indices: 12073965--12074022 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
12073955 AAGTTGTATT
12073965 GTCTCGAGACAAATGAGTG-TAC
1 GTCTCGAGACAAA-GAG-GCTAC
*
12073987 GTCTCGAGACAAAGAGGCTTAT
1 GTCTCGAGACAAAGAGGC-TAC
12074009 GTCTCGAGACAAAG
1 GTCTCGAGACAAAG
12074023 TCCAATATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 1 0.03
21 3 0.09
22 29 0.88
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.21
Consensus pattern (21 bp):
GTCTCGAGACAAAGAGGCTAC
Found at i:12077905 original size:21 final size:22
Alignment explanation
Indices: 12077881--12077923 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
12077871 CAATTCTAAT
12077881 ATTATAA-TAGAAA-ATTTTTAA
1 ATTATAATTA-AAATATTTTTAA
12077902 ATTATAATTAAAATATTTTTAA
1 ATTATAATTAAAATATTTTTAA
12077924 CATCTTCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
ATTATAATTAAAATATTTTTAA
Found at i:12082668 original size:3 final size:3
Alignment explanation
Indices: 12082662--12082695 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
12082652 AGAAAAAGAA
* *
12082662 GAT GAT GAT GAT GAT GAT GAA GAT GAT GAA GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
12082696 GTGAAAATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.35, T:0.26
Consensus pattern (3 bp):
GAT
Found at i:12082676 original size:9 final size:9
Alignment explanation
Indices: 12082665--12082706 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
12082655 AAAAGAAGAT
*
12082665 GATGATGAT
1 GATGATGAA
12082674 GATGATGAA
1 GATGATGAA
12082683 GATGATGAA
1 GATGATGAA
*
12082692 GATGGTGAA
1 GATGATGAA
*
12082701 AATGAT
1 GATGAT
12082707 CAAGCGTTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.40, C:0.00, G:0.33, T:0.26
Consensus pattern (9 bp):
GATGATGAA
Found at i:12083882 original size:4 final size:4
Alignment explanation
Indices: 12083873--12083920 Score: 69
Period size: 4 Copynumber: 12.0 Consensus size: 4
12083863 GGATAGTTTA
* * *
12083873 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACGT ACGT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
12083921 TTCCGTAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:12084201 original size:3 final size:3
Alignment explanation
Indices: 12084193--12084237 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
12084183 CTCCTCTGGT
*
12084193 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC GTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
12084238 ATTTGTGTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:12098373 original size:45 final size:46
Alignment explanation
Indices: 12098316--12098476 Score: 177
Period size: 45 Copynumber: 3.6 Consensus size: 46
12098306 TGCCATAGTT
* * *
12098316 TCTTTCAACTATGGTCTTA-TTCGTTTGATTCGTGATGCGATAACA
1 TCTTTCAGCTATGGTCTTACTTCGTTTGAATCGTGATGCCATAACA
* * *
12098361 TCTTTCAGCTATGGTCTTACTCCG-TAGAATCGTGATGCCATAACG
1 TCTTTCAGCTATGGTCTTACTTCGTTTGAATCGTGATGCCATAACA
* * * * *
12098406 TCTTTCAGTTATGGTCATACTT-GATGGAGTCGTGATGCCATAACA
1 TCTTTCAGCTATGGTCTTACTTCGTTTGAATCGTGATGCCATAACA
* *
12098451 TCTTTCGGCTATTGTCTTAC-TCGTTT
1 TCTTTCAGCTATGGTCTTACTTCGTTT
12098477 CTAGTATGGT
Statistics
Matches: 95, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
44 2 0.02
45 90 0.95
46 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.40
Consensus pattern (46 bp):
TCTTTCAGCTATGGTCTTACTTCGTTTGAATCGTGATGCCATAACA
Found at i:12101870 original size:12 final size:12
Alignment explanation
Indices: 12101852--12101881 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
12101842 TAGGTTTCCA
12101852 AAAATGGAAATG
1 AAAATGGAAATG
*
12101864 GAAATGGAAATG
1 AAAATGGAAATG
12101876 AAAATG
1 AAAATG
12101882 AAGGAAATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.27, T:0.17
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:12110655 original size:37 final size:36
Alignment explanation
Indices: 12110605--12110680 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
12110595 ATTCTAAAAA
*
12110605 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTACTTTAATAGTATT-ATATT-AATTTAATAT
*
12110641 TAATACTTACTTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTACTTTAATAGTATTATATTAATTTAATAT
12110678 TAA
1 TAA
12110681 AATGATTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (36 bp):
TAATATTACTTTAATAGTATTATATTAATTTAATAT
Found at i:12110701 original size:68 final size:71
Alignment explanation
Indices: 12110623--12110760 Score: 185
Period size: 72 Copynumber: 2.0 Consensus size: 71
12110613 TTTTAATAGT
*
12110623 TTAATATTAAATTTAATTTAATACTTA-CTT-TA-AT-AGTATTTTATTAATTTAATATTAAAAT
1 TTAATATTAAATTTAATTTAATACTTATCTTGTAGATAAG-ATTCTATTAATTTAATATTAAAAT
12110684 GATTATC
65 GATTATC
* ** *
12110691 TTAATGTTAAATTTAATTTAATGTTTATCTTGTAGATAAAGATTCTATTAATTTAATATTAAAGT
1 TTAATATTAAATTTAATTTAATACTTATCTTGTAGAT-AAGATTCTATTAATTTAATATTAAAAT
12110756 GATTA
65 GATTA
12110761 AGTTTAATCA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
68 24 0.40
69 3 0.05
70 2 0.03
71 2 0.03
72 27 0.45
73 2 0.03
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.50
Consensus pattern (71 bp):
TTAATATTAAATTTAATTTAATACTTATCTTGTAGATAAGATTCTATTAATTTAATATTAAAATG
ATTATC
Found at i:12118071 original size:17 final size:16
Alignment explanation
Indices: 12118045--12118076 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
12118035 TGATAAATCT
12118045 TCGACGAGCTTCCAAA
1 TCGACGAGCTTCCAAA
12118061 TCGATCGAGCTTCCAA
1 TCGA-CGAGCTTCCAA
12118077 TAATCTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (16 bp):
TCGACGAGCTTCCAAA
Found at i:12119325 original size:138 final size:137
Alignment explanation
Indices: 12119069--12119341 Score: 327
Period size: 138 Copynumber: 2.0 Consensus size: 137
12119059 GCCATAAATG
*
12119069 GGTCTGCTCACACAAGCTAACGGTCGGAATGTAACTACACAATGCCACTCATACAAGATGACGAG
1 GGTCTGCTCACACAAGCTAACGGTCGGAATGTAACTACACAATGCCACTCACACAAGATGACGAG
*** * *
12119134 TATCTGTAAAAAATGTCAGAACTCAACCATAGGTAGGACATTCAGGACTAGCACCCTG-AACATG
66 TATCCACAAAAAATGTCAGAACTCAACCATAGGTAGGACATTCAAGACCAGCACCC-GAAACATG
12119198 GTAACCTA
130 GTAACCTA
* * ** * *
12119206 GGTCTGCTCACACAAGCTGATGGTCGGAATGTAAGCTACACAATGCTGCTCACACAAGCTGATGA
1 GGTCTGCTCACACAAGCTAACGGTCGGAATGTAA-CTACACAATGCCACTCACACAAGATGACGA
* * ** * *
12119271 GTATCCACAACAAATGTCGGGCCT-AAGCCATCA-GTAGGGCATTTAAGACCAGCACCCGAAACA
65 GTATCCACAAAAAATGTCAGAACTCAA-CCAT-AGGTAGGACATTCAAGACCAGCACCCGAAACA
12119334 TGGTAACC
128 TGGTAACC
12119342 CTAATGACTT
Statistics
Matches: 114, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
137 35 0.31
138 78 0.68
139 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (137 bp):
GGTCTGCTCACACAAGCTAACGGTCGGAATGTAACTACACAATGCCACTCACACAAGATGACGAG
TATCCACAAAAAATGTCAGAACTCAACCATAGGTAGGACATTCAAGACCAGCACCCGAAACATGG
TAACCTA
Found at i:12119431 original size:38 final size:38
Alignment explanation
Indices: 12119380--12119458 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
12119370 ATTCCTAAGG
*
12119380 TTCAAACGGGGCTCGATAGTCATCGTACGTCCTTGGAT
1 TTCAAACGGGGCTCGATACTCATCGTACGTCCTTGGAT
12119418 TTCAAACGGGGCTCGATACTCATCGTACGTCCTTGGAT
1 TTCAAACGGGGCTCGATACTCATCGTACGTCCTTGGAT
12119456 TTC
1 TTC
12119459 CATCATTTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.30
Consensus pattern (38 bp):
TTCAAACGGGGCTCGATACTCATCGTACGTCCTTGGAT
Found at i:12122408 original size:22 final size:22
Alignment explanation
Indices: 12122383--12122425 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
12122373 AAATGCTAAT
* *
12122383 AGAGGCACCGTAGTGCAAATAC
1 AGAGGAACCGAAGTGCAAATAC
*
12122405 AGAGGAACTGAAGTGCAAATA
1 AGAGGAACCGAAGTGCAAATA
12122426 GTGGCACTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.42, C:0.16, G:0.28, T:0.14
Consensus pattern (22 bp):
AGAGGAACCGAAGTGCAAATAC
Found at i:12144171 original size:40 final size:40
Alignment explanation
Indices: 12144113--12144195 Score: 130
Period size: 40 Copynumber: 2.1 Consensus size: 40
12144103 AAGATAATGT
*
12144113 TTAAACTTCGAACATTAAAATTTTACACTGAAATCTCACA
1 TTAAACTTCAAACATTAAAATTTTACACTGAAATCTCACA
* * *
12144153 TTAAACTTCAAACGTTAAAATTTTACATTGAAGTCTCACA
1 TTAAACTTCAAACATTAAAATTTTACACTGAAATCTCACA
12144193 TTA
1 TTA
12144196 CCCGAGAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (40 bp):
TTAAACTTCAAACATTAAAATTTTACACTGAAATCTCACA
Found at i:12166556 original size:26 final size:26
Alignment explanation
Indices: 12166525--12166574 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
12166515 AATAAAGTGC
12166525 AGAAAATCAGAA-AGGATGAGAGAAAA
1 AGAAAAT-AGAAGAGGATGAGAGAAAA
*
12166551 AGAAAATAGAAGGGGATGAGAGAA
1 AGAAAATAGAAGAGGATGAGAGAA
12166575 TTGAAAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.58, C:0.02, G:0.32, T:0.08
Consensus pattern (26 bp):
AGAAAATAGAAGAGGATGAGAGAAAA
Found at i:12173857 original size:32 final size:30
Alignment explanation
Indices: 12173788--12174154 Score: 249
Period size: 32 Copynumber: 11.6 Consensus size: 30
12173778 TAAATTTAAA
* *
12173788 TGTATATGTTTTATATATTGACGAATTTG-AT
1 TGTATAT-ATTTATATATTGCCGAA-TTGAAT
*
12173819 T-CATATATGGTTATATATTGCCGAATTGAAT
1 TGTATATAT--TTATATATTGCCGAATTGAAT
*
12173850 TGTATATATATACTTATATTGCCG-ATTGAAT
1 TGTATATATTTA--TATATTGCCGAATTGAAT
*
12173881 TGTATATATATACTTATATTGCCGAATTGAAT
1 TGTATATATTTA--TATATTGCCGAATTGAAT
** ** *
12173913 TGTATAGGTATACACCTATTGTCGAA-TGAAT
1 TGTATA--TATTTATATATTGCCGAATTGAAT
*
12173944 TGTATATATATACTTATATTGCCGAATTGAAT
1 TGTATATATTTA--TATATTGCCGAATTGAAT
** **
12173976 TGTATAGGTATACACCTATTGCCGAATTGAAT
1 TGTATA--TATTTATATATTGCCGAATTGAAT
*
12174008 TGTATATATATATTTATATTGCCGAATTGAAT
1 TGTATATAT-T-TATATATTGCCGAATTGAAT
**
12174040 TGTATAGGTATACACT-TATTGCCGAATTGAAT
1 TGTATA--TATTTA-TATATTGCCGAATTGAAT
* *
12174072 TGTGTATATATACTTATATTGCCGAATTGAAT
1 TGTATATATTTA--TATATTGCCGAATTGAAT
* ** ** *
12174104 TGTATGGTATACACCTATTGCCAAATTGAAT
1 TGTAT-ATATTTATATATTGCCGAATTGAAT
12174135 TGTATATGTATTTATATATT
1 TGTATA--TATTTATATATT
12174155 TTTGATTTGA
Statistics
Matches: 274, Mismatches: 38, Indels: 47
0.76 0.11 0.13
Matches are distributed among these distances:
29 6 0.02
30 17 0.06
31 90 0.33
32 142 0.52
33 6 0.02
34 13 0.05
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (30 bp):
TGTATATATTTATATATTGCCGAATTGAAT
Found at i:12174060 original size:127 final size:128
Alignment explanation
Indices: 12173832--12174154 Score: 510
Period size: 127 Copynumber: 2.5 Consensus size: 128
12173822 TATATGGTTA
** *** *
12173832 TATATTGCCGAATTGAATTGTATATATATACTTATATTGCCG-ATTGAATTGTATATATATACTT
1 TATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATATATATTT
*
12173896 ATATTGCCGAATTGAATTGTATAGGTATACACCTATTGTCGAA-TGAATTGTATATATATACT
66 ATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATATATACT
12173958 TATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATATATATTT
1 TATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATATATATTT
* *
12174023 ATATTGCCGAATTGAATTGTATAGGTATACACTTATTGCCGAATTGAATTGTGTATATATACT
66 ATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATATATACT
* *
12174086 TATATTGCCGAATTGAATTGTAT-GGTATACACCTATTGCCAAATTGAATTGTATATGTAT-TTA
1 TATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATATATATT-
12174149 TATATT
65 TATATT
12174155 TTTGATTTGA
Statistics
Matches: 183, Mismatches: 11, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
126 39 0.21
127 103 0.56
128 41 0.22
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (128 bp):
TATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATATATATTT
ATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATATATACT
Found at i:12174154 original size:63 final size:64
Alignment explanation
Indices: 12173832--12174141 Score: 509
Period size: 63 Copynumber: 4.9 Consensus size: 64
12173822 TATATGGTTA
** ***
12173832 TATATTGCCGAATTGAATTGTATATATATACTTATATTGCCG-ATTGAATTGTATATATATACT
1 TATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATATATACT
*
12173895 TATATTGCCGAATTGAATTGTATAGGTATACACCTATTGTCGAA-TGAATTGTATATATATACT
1 TATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATATATACT
*
12173958 TATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATATATATT
1 TATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATATATACT
* *
12174022 TATATTGCCGAATTGAATTGTATAGGTATACACTTATTGCCGAATTGAATTGTGTATATATACT
1 TATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATATATACT
*
12174086 TATATTGCCGAATTGAATTGTAT-GGTATACACCTATTGCCAAATTGAATTGTATAT
1 TATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATAT
12174142 GTATTTATAT
Statistics
Matches: 231, Mismatches: 14, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
63 128 0.55
64 103 0.45
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (64 bp):
TATATTGCCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATATATACT
Found at i:12174339 original size:43 final size:43
Alignment explanation
Indices: 12174291--12174407 Score: 132
Period size: 41 Copynumber: 2.8 Consensus size: 43
12174281 GGTGTAATTT
12174291 CGTGTAAGACCATGTCTGGGACATTGGCATCAAAGTG-AGGAAA
1 CGTGTAAGACCATGTCTGGGACATTGGCATC-AAGTGTAGGAAA
* * * **
12174334 CGTGTAAGACTATGTCTGGGACATTAGCATC--GTGTATGATT
1 CGTGTAAGACCATGTCTGGGACATTGGCATCAAGTGTAGGAAA
* * *
12174375 CGTATAATACCATGTCTGGGACAGTGGCATCAA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCAA
12174408 TATGTGTTAA
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
40 3 0.05
41 29 0.48
43 29 0.48
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.26
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCAAGTGTAGGAAA
Found at i:12177149 original size:57 final size:57
Alignment explanation
Indices: 12177042--12177185 Score: 211
Period size: 57 Copynumber: 2.5 Consensus size: 57
12177032 CAAACTACAT
* * *
12177042 AGAATATTTACTGTTCA-TGCGTC-TTTCTTGCAGGGAATATTTACTGTTTACGCCAA
1 AGAATATTTCCTGTTCACT-TGTCTTTTCTTGCAGGGAATATTTACTATTTACGCCAA
* *
12177098 AGAATATTTCCTGTTCACTTGTCTTTTCTTGCAGGGAATGTTTACTATTTACGCCAG
1 AGAATATTTCCTGTTCACTTGTCTTTTCTTGCAGGGAATATTTACTATTTACGCCAA
*
12177155 AGAATATTTCCTATTCACTTGTCTTTTCTTG
1 AGAATATTTCCTGTTCACTTGTCTTTTCTTG
12177186 TATCATCTTT
Statistics
Matches: 80, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
56 19 0.24
57 61 0.76
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.43
Consensus pattern (57 bp):
AGAATATTTCCTGTTCACTTGTCTTTTCTTGCAGGGAATATTTACTATTTACGCCAA
Found at i:12183716 original size:44 final size:44
Alignment explanation
Indices: 12183668--12183756 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
12183658 AAAATTGATC
12183668 AATTGAAATACGCAAGTCTAATTGGTTGTCTTATGTACATAATG
1 AATTGAAATACGCAAGTCTAATTGGTTGTCTTATGTACATAATG
12183712 AATTGAAATACGCAAGTCTAATTGGTTGTCTTATGTACATAATG
1 AATTGAAATACGCAAGTCTAATTGGTTGTCTTATGTACATAATG
12183756 A
1 A
12183757 CTTGTACAAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (44 bp):
AATTGAAATACGCAAGTCTAATTGGTTGTCTTATGTACATAATG
Found at i:12187182 original size:3 final size:3
Alignment explanation
Indices: 12187174--12187223 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
12187164 CTTAACAGAG
12187174 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
12187222 AA
1 AA
12187224 AAGAGACTGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:12187311 original size:3 final size:3
Alignment explanation
Indices: 12187303--12187330 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
12187293 ATGTCTTTGC
12187303 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
12187331 GGCTCTCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:12193368 original size:34 final size:34
Alignment explanation
Indices: 12193310--12193375 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 34
12193300 CAAACACTAG
12193310 AAAATATTTTCCAGTAAATTATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATTATTTTAC-GAAAAGT
12193345 AAAATATTTTCTC-G-AAATTATTTTACGAAAA
1 AAAATATTTTC-CAGTAAATTATTTTACGAAAA
12193376 ATATTTTACT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 5 0.17
34 12 0.40
35 12 0.40
36 1 0.03
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (34 bp):
AAAATATTTTCCAGTAAATTATTTTACGAAAAGT
Found at i:12197221 original size:49 final size:49
Alignment explanation
Indices: 12197149--12197256 Score: 189
Period size: 49 Copynumber: 2.2 Consensus size: 49
12197139 GATTGGTGTT
* *
12197149 CCTTTCCAGTATACGTTGAGCAAGTGAGTGAAATCGAACCGTTTAATTA
1 CCTTTCCAGTATACGTTGAGCAAGTGAGTGAAATCAAACCATTTAATTA
*
12197198 CCTTTCCAGTATACGTTGAGCAAGTGAGTGAAATCAAATCATTTAATTA
1 CCTTTCCAGTATACGTTGAGCAAGTGAGTGAAATCAAACCATTTAATTA
12197247 CCTTTCCAGT
1 CCTTTCCAGT
12197257 TTCCATTTTG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 56 1.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (49 bp):
CCTTTCCAGTATACGTTGAGCAAGTGAGTGAAATCAAACCATTTAATTA
Found at i:12205150 original size:10 final size:10
Alignment explanation
Indices: 12205131--12205162 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
12205121 ATTCTAAATT
*
12205131 TTTTAAATAA
1 TTTTATATAA
12205141 TTTTATATAA
1 TTTTATATAA
12205151 TTTTATATAA
1 TTTTATATAA
12205161 TT
1 TT
12205163 AAATAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTTATATAA
Found at i:12205935 original size:22 final size:22
Alignment explanation
Indices: 12205902--12205947 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
12205892 CAACTGTTAA
*
12205902 ATATATACAATATTTTAGATTG
1 ATATATACAATATATTAGATTG
*
12205924 ATATGATA-AATATATTGGATTG
1 ATAT-ATACAATATATTAGATTG
12205946 AT
1 AT
12205948 TCAAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.41, C:0.02, G:0.13, T:0.43
Consensus pattern (22 bp):
ATATATACAATATATTAGATTG
Found at i:12207122 original size:39 final size:37
Alignment explanation
Indices: 12207079--12207157 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 37
12207069 AAAAATTATA
* *
12207079 TTTAATACAATAAAAATATTTATTATATTTATTTGTGTT
1 TTTAATACAAT-AAAACATTTATTATATTTA-TGGTGTT
* *
12207118 TTTAATATAATAAGACATTTATTATATTTATGGTGTT
1 TTTAATACAATAAAACATTTATTATATTTATGGTGTT
12207155 TTT
1 TTT
12207158 TTAATGTGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
37 9 0.25
38 17 0.47
39 10 0.28
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.54
Consensus pattern (37 bp):
TTTAATACAATAAAACATTTATTATATTTATGGTGTT
Found at i:12209759 original size:21 final size:20
Alignment explanation
Indices: 12209729--12209771 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
12209719 TTTTTTATGT
12209729 TTTAAATATATAAATATATTA
1 TTTAAATATA-AAATATATTA
* *
12209750 TTTAATTATAAAGTATATTA
1 TTTAAATATAAAATATATTA
12209770 TT
1 TT
12209772 ATATTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTAAATATAAAATATATTA
Found at i:12212655 original size:9 final size:9
Alignment explanation
Indices: 12212641--12212680 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
12212631 GTAGTGATTC
12212641 AATTCGGTT
1 AATTCGGTT
*
12212650 AATTCGGGT
1 AATTCGGTT
12212659 AATTCGGTT
1 AATTCGGTT
12212668 AATTCGGTT
1 AATTCGGTT
12212677 AATT
1 AATT
12212681 TTTAACTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.25, C:0.10, G:0.23, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:12219216 original size:17 final size:17
Alignment explanation
Indices: 12219194--12219227 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
12219184 CCTTAGAAGA
12219194 ATGTATTTAAGATCAAT
1 ATGTATTTAAGATCAAT
12219211 ATGTATTTAAGATCAAT
1 ATGTATTTAAGATCAAT
12219228 TTTGAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (17 bp):
ATGTATTTAAGATCAAT
Found at i:12220895 original size:22 final size:22
Alignment explanation
Indices: 12220870--12220915 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
12220860 GATAGATAAT
12220870 GAATGTTTGAAGTGCTAATTAC
1 GAATGTTTGAAGTGCTAATTAC
12220892 GAATGTTTGAAGTGCTAATTAC
1 GAATGTTTGAAGTGCTAATTAC
12220914 GA
1 GA
12220916 GTTTTACTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.35
Consensus pattern (22 bp):
GAATGTTTGAAGTGCTAATTAC
Found at i:12226077 original size:23 final size:22
Alignment explanation
Indices: 12226034--12226129 Score: 71
Period size: 19 Copynumber: 4.6 Consensus size: 22
12226024 AAAAAGTATC
* *
12226034 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
12226055 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
12226078 TGCATATCATA---TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
* *
12226097 TGCATATCATA---TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
*
12226116 TACATATCATATCT
1 TACAAATCATATCT
12226130 AAGATTGCAT
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
19 37 0.57
21 3 0.05
22 15 0.23
23 10 0.15
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:12226094 original size:19 final size:19
Alignment explanation
Indices: 12226070--12226142 Score: 137
Period size: 19 Copynumber: 3.8 Consensus size: 19
12226060 AATCATATCT
12226070 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
12226089 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
12226108 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
12226127 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
12226143 CTGGAAGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 52 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:12229899 original size:45 final size:45
Alignment explanation
Indices: 12229850--12230020 Score: 184
Period size: 45 Copynumber: 3.8 Consensus size: 45
12229840 ACCAGAAATA
* * *
12229850 AGTAAGACCATAACTGAAAGACGTTATGGCATCATGATTTTAAT-G
1 AGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCT-ATCG
12229895 AGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTATCG
1 AGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTATCG
* * * * * *
12229940 AGTAAGAACATAGCT-AAACGACGCTATGACATCACGAATCAAACG
1 AGTAAGACCATAGCTGAAA-GACGTTATGGCATCACGATTCTATCG
* * ** *
12229985 AATAAGACCATAGTTGAAAGACACTATGGCAACACG
1 AGTAAGACCATAGCTGAAAGACGTTATGGCATCACG
12230021 GCAAAAAATG
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
44 5 0.05
45 100 0.93
46 3 0.03
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTATCG
Found at i:12230095 original size:45 final size:46
Alignment explanation
Indices: 12229985--12230106 Score: 156
Period size: 46 Copynumber: 2.7 Consensus size: 46
12229975 GAATCAAACG
* *
12229985 AATAAGACCATAGTTGAAAGACACTATGGCAACACGGCAAAAAATG
1 AATAAGACCATAGTTGAAAGACACTATGGCAACAAGGCAAAAAATA
* * * *
12230031 AATAAGACCATGGTTGAAAGACACTATGGCATCAAGTC-AAGAATA
1 AATAAGACCATAGTTGAAAGACACTATGGCAACAAGGCAAAAAATA
* * *
12230076 AATAAGGCCACAGTTGAAAGACACCATGGCA
1 AATAAGACCATAGTTGAAAGACACTATGGCA
12230107 CCCTCCGATC
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
45 32 0.48
46 34 0.52
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.16
Consensus pattern (46 bp):
AATAAGACCATAGTTGAAAGACACTATGGCAACAAGGCAAAAAATA
Found at i:12231740 original size:20 final size:20
Alignment explanation
Indices: 12231701--12231740 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
12231691 GCATAATTGT
*
12231701 TTCTGTTTTGATGTTGAATG
1 TTCTGTTTTGATGGTGAATG
12231721 TTCTGTTTTGTATGGT-AATG
1 TTCTGTTTTG-ATGGTGAATG
12231741 CTCCATAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.15, C:0.05, G:0.25, T:0.55
Consensus pattern (20 bp):
TTCTGTTTTGATGGTGAATG
Found at i:12245442 original size:20 final size:20
Alignment explanation
Indices: 12245417--12245456 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
12245407 AATCCCTATC
12245417 AGCGTCTCTTTCTCTCCTTA
1 AGCGTCTCTTTCTCTCCTTA
12245437 AGCGTCTCTTTCTCTCCTTA
1 AGCGTCTCTTTCTCTCCTTA
12245457 GGTTTCATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.35, G:0.10, T:0.45
Consensus pattern (20 bp):
AGCGTCTCTTTCTCTCCTTA
Found at i:12252937 original size:27 final size:26
Alignment explanation
Indices: 12252907--12252980 Score: 69
Period size: 27 Copynumber: 2.8 Consensus size: 26
12252897 GTGTCCCAAC
12252907 GGACTACCCTACTTTTAATGTCACGT
1 GGACTACCCTACTTTTAATGTCACGT
* * *
12252933 AGGACTATCCC-GCTTTTAATATCCCGT
1 -GGACTA-CCCTACTTTTAATGTCACGT
** *
12252960 GGACTATTCTTCTTTTAATGT
1 GGACTACCCTACTTTTAATGT
12252981 TCCGATAGAC
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
25 1 0.03
26 15 0.39
27 19 0.50
28 3 0.08
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (26 bp):
GGACTACCCTACTTTTAATGTCACGT
Found at i:12260949 original size:57 final size:60
Alignment explanation
Indices: 12260875--12261024 Score: 191
Period size: 57 Copynumber: 2.5 Consensus size: 60
12260865 ACCCTAATTC
* * *
12260875 GGATTACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCAGGAGGGCTATATC-A-A
1 GGATCACCCGTCCGGGCTAAATCCTTTTTACACATATTCTTCAGGAGGGCTATATCGATA
* *
12260933 -GATCACCCGTCCGGGCTAAGAT-CTTTTTACACATATTCTTCGGGAGGGCTCTATCAGGATA
1 GGATCACCCGTCCGGGCTAA-ATCCTTTTTACACATATTCTTCAGGAGGGCTATATC--GATA
*
12260994 GGATCACCCGTCCGGGCTAGATCCTTTTTAC
1 GGATCACCCGTCCGGGCTAAATCCTTTTTAC
12261025 CGTCAATTCA
Statistics
Matches: 79, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
57 47 0.59
58 2 0.03
60 1 0.01
61 3 0.04
62 26 0.33
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (60 bp):
GGATCACCCGTCCGGGCTAAATCCTTTTTACACATATTCTTCAGGAGGGCTATATCGATA
Found at i:12264586 original size:49 final size:49
Alignment explanation
Indices: 12264530--12264676 Score: 215
Period size: 49 Copynumber: 3.0 Consensus size: 49
12264520 TTTATTTTCT
*
12264530 CGATGCCATAGTCCAACTATGGTCTTACAC-GTAATCACATATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACAG-AATCACATATCACATAC
*
12264579 CGATGCCATAGCCCAACTATGGTCTTACACAGAATCACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACAGAATCACATATCACATAC
* * *
12264628 TGATGCCATAGCCCAGCTATGGTCTTACACGGAAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACAG-AATCACAT-ATCACAT
12264677 TTTCACATGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
49 74 0.83
50 9 0.10
51 6 0.07
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.25
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGTCTTACACAGAATCACATATCACATAC
Found at i:12266497 original size:56 final size:57
Alignment explanation
Indices: 12266432--12266539 Score: 182
Period size: 57 Copynumber: 1.9 Consensus size: 57
12266422 CGAATTACCT
12266432 ATCCGGGCTAAACCATTTTC-CACATATTCTTCGGGAGGGCTATATCAAGATCACCC
1 ATCCGGGCTAAACCATTTTCACACATATTCTTCGGGAGGGCTATATCAAGATCACCC
* * *
12266488 ATCCGGGCTAGATCTTTTTCACACATATTCTTCGGGAGGGCTATATCAAGAT
1 ATCCGGGCTAAACCATTTTCACACATATTCTTCGGGAGGGCTATATCAAGAT
12266540 AGGATCACCC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
56 17 0.35
57 31 0.65
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (57 bp):
ATCCGGGCTAAACCATTTTCACACATATTCTTCGGGAGGGCTATATCAAGATCACCC
Found at i:12274970 original size:23 final size:23
Alignment explanation
Indices: 12274942--12274985 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
12274932 TAATACCGTT
12274942 TAATAA-TGGTAACAATAGTAAAA
1 TAATAAGTGG-AACAATAGTAAAA
*
12274965 TAATAAGTGGAACATTAGTAA
1 TAATAAGTGGAACAATAGTAA
12274986 TAACCAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.52, C:0.05, G:0.16, T:0.27
Consensus pattern (23 bp):
TAATAAGTGGAACAATAGTAAAA
Found at i:12285801 original size:20 final size:20
Alignment explanation
Indices: 12285763--12285811 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
12285753 TATCATTTCT
* *
12285763 TTGCTT-CTTCTTTAGTTAC
1 TTGCTTACTTGTTTACTTAC
12285782 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
12285802 TTGCTTACTT
1 TTGCTTACTT
12285812 AAATAACTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.12, C:0.22, G:0.08, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:12286137 original size:50 final size:50
Alignment explanation
Indices: 12286013--12286254 Score: 188
Period size: 50 Copynumber: 4.7 Consensus size: 50
12286003 GAAAAAAACT
* * *
12286013 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTC-TGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACG-TTTCATAT-CGG
* * * *
12286062 CGCTAATGCCATATCCCAGATATGGTCTTACATGGGA-GTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACGTT-TCATATCGG
* * * *
12286112 TGCCCATGCCATGTCCCAGACATGGTCTTAC-GGGGAACCTTTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGG-ACGTTTCATATCGG
* * * * * **
12286162 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGAACCTCTCATAACCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACGTTTCAT-A--TC---GG
*
12286218 TGCCAATGCCATGTCCCAGACATGATCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
12286255 TCTCATTCCC
Statistics
Matches: 153, Mismatches: 27, Indels: 19
0.77 0.14 0.10
Matches are distributed among these distances:
47 2 0.01
48 4 0.03
49 37 0.24
50 71 0.46
51 4 0.03
53 2 0.01
56 33 0.22
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACGTTTCATATCGG
Done.