Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 138 of 141
Found at i:44896085 original size:13 final size:13
Alignment explanation
Indices: 44896069--44896095 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
44896059 GACAAGAAGA
44896069 ATTTGATGACTCC
1 ATTTGATGACTCC
44896082 ATTTGATGACTCC
1 ATTTGATGACTCC
44896095 A
1 A
44896096 ATAGAGGATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (13 bp):
ATTTGATGACTCC
Found at i:44896836 original size:16 final size:16
Alignment explanation
Indices: 44896815--44896867 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
44896805 AGGATTACCT
44896815 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
44896831 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
44896847 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
44896863 ATTAC
1 ATTAC
44896868 AACGAACCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.23, C:0.36, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:44909313 original size:22 final size:23
Alignment explanation
Indices: 44909272--44909315 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
44909262 CAACTTAGTA
44909272 AGTCATAAGCAATGAAAACATTT
1 AGTCATAAGCAATGAAAACATTT
44909295 AGTCATATA-CAA-GAAAACATT
1 AGTCATA-AGCAATGAAAACATT
44909316 AATCTATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
23 10 0.50
24 1 0.05
ACGTcount: A:0.50, C:0.14, G:0.11, T:0.25
Consensus pattern (23 bp):
AGTCATAAGCAATGAAAACATTT
Found at i:44910378 original size:29 final size:28
Alignment explanation
Indices: 44910327--44910386 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
44910317 AAGTCCATAT
* *
44910327 ATTTCATTTATTTCACATTTTAGTCCCTCA
1 ATTTAATTTATTTCACAATTTAG-CCCT-A
*
44910357 ATTTAATTT-TTTTACAATTTAGCCCTA
1 ATTTAATTTATTTCACAATTTAGCCCTA
44910384 ATT
1 ATT
44910387 ACCCAAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 4 0.15
28 4 0.15
29 11 0.41
30 8 0.30
ACGTcount: A:0.27, C:0.18, G:0.03, T:0.52
Consensus pattern (28 bp):
ATTTAATTTATTTCACAATTTAGCCCTA
Found at i:44911387 original size:20 final size:20
Alignment explanation
Indices: 44911362--44911399 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
44911352 AATGCATAAC
*
44911362 AGAGGCTCCAAAGTGCAACT
1 AGAGGCACCAAAGTGCAACT
*
44911382 AGAGGCACCAAATTGCAA
1 AGAGGCACCAAAGTGCAA
44911400 TCTCATACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.13
Consensus pattern (20 bp):
AGAGGCACCAAAGTGCAACT
Found at i:44912187 original size:19 final size:20
Alignment explanation
Indices: 44912146--44912187 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
44912136 AGTCCTATTT
*
44912146 ATCTATCAAACTTATAAATC
1 ATCTATCAAACTTATAAAAC
44912166 ATCT-TCAAACTT-TGAAAAC
1 ATCTATCAAACTTAT-AAAAC
44912185 ATC
1 ATC
44912188 ACAAATTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 15 0.75
20 4 0.20
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.33
Consensus pattern (20 bp):
ATCTATCAAACTTATAAAAC
Found at i:44915215 original size:171 final size:171
Alignment explanation
Indices: 44914924--44915267 Score: 643
Period size: 171 Copynumber: 2.0 Consensus size: 171
44914914 AAGAGATGAT
*
44914924 GGTAACAAAAAACAAGACATTGAATAGGTAGGTCTTGCTTGCAAAACACTTTTAATAAAAACTTC
1 GGTAACAAAAAACAAGACATTGAATAGGTAGGTATTGCTTGCAAAACACTTTTAATAAAAACTTC
*
44914989 TTTCCCTCCTTGGAAGAGTGGTTTAATACACCAAATATCTATTCGGCTATTCATACGATCTTTTA
66 TTTCCCGCCTTGGAAGAGTGGTTTAATACACCAAATATCTATTCGGCTATTCATACGATCTTTTA
44915054 ATAATTGGAAAGCCTACCTTTTGTTTTGACCCACAAAATAA
131 ATAATTGGAAAGCCTACCTTTTGTTTTGACCCACAAAATAA
*
44915095 GGTAGCAAAAAACAAGACATTGAATAGGTAGGTATTGCTTGCAAAACACTTTTAATAAAAACTTC
1 GGTAACAAAAAACAAGACATTGAATAGGTAGGTATTGCTTGCAAAACACTTTTAATAAAAACTTC
* *
44915160 TTTCCCGCCTTGGAAGAGTGGTTTAATACACGAAATATCTATTCGGCTGTTCATACGATCTTTTA
66 TTTCCCGCCTTGGAAGAGTGGTTTAATACACCAAATATCTATTCGGCTATTCATACGATCTTTTA
44915225 ATAATTGGAAAGCCTACCTTTTGTTTTGACCCACAAAATAA
131 ATAATTGGAAAGCCTACCTTTTGTTTTGACCCACAAAATAA
44915266 GG
1 GG
44915268 GAGCCCCAAA
Statistics
Matches: 168, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
171 168 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (171 bp):
GGTAACAAAAAACAAGACATTGAATAGGTAGGTATTGCTTGCAAAACACTTTTAATAAAAACTTC
TTTCCCGCCTTGGAAGAGTGGTTTAATACACCAAATATCTATTCGGCTATTCATACGATCTTTTA
ATAATTGGAAAGCCTACCTTTTGTTTTGACCCACAAAATAA
Found at i:44917278 original size:14 final size:14
Alignment explanation
Indices: 44917259--44917311 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
44917249 AAGTTATTAT
44917259 CCCAAAATTTTCTC
1 CCCAAAATTTTCTC
* * *
44917273 CCCAAAAATTACTT
1 CCCAAAATTTTCTC
44917287 CCCAAAA-TTTCTGC
1 CCCAAAATTTTCT-C
*
44917301 CCTAAAATTTT
1 CCCAAAATTTT
44917312 GTCTCCCTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 4 0.13
14 24 0.77
15 3 0.10
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.34
Consensus pattern (14 bp):
CCCAAAATTTTCTC
Found at i:44917985 original size:24 final size:24
Alignment explanation
Indices: 44917958--44918011 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
44917948 AAATAAAATA
44917958 CAAAAAAA-AGGAAAACATCATATT
1 CAAAAAAATAGG-AAACATCATATT
* **
44917982 CAAAAAAATAGGTAATTTCATATT
1 CAAAAAAATAGGAAACATCATATT
44918006 CAAAAA
1 CAAAAA
44918012 TAAATAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (24 bp):
CAAAAAAATAGGAAACATCATATT
Found at i:44921598 original size:26 final size:26
Alignment explanation
Indices: 44921568--44921642 Score: 114
Period size: 26 Copynumber: 2.9 Consensus size: 26
44921558 TGGAGGAAGT
* *
44921568 ATACTGTTACTGGCAACTTTGTTGCG
1 ATACTGCTACTGGCAACTTTGCTGCG
*
44921594 ATACTGCTACTGGCAACTTTGCTGTG
1 ATACTGCTACTGGCAACTTTGCTGCG
*
44921620 ATACTGCTACTGGCAGCTTTGCT
1 ATACTGCTACTGGCAACTTTGCT
44921643 ACGGTATTGG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
ATACTGCTACTGGCAACTTTGCTGCG
Found at i:44921818 original size:33 final size:33
Alignment explanation
Indices: 44921745--44921836 Score: 104
Period size: 28 Copynumber: 2.9 Consensus size: 33
44921735 TGTATTATTG
* *
44921745 CACTGTACTGATATTGTATTGGGCTAAGGCCCA
1 CACTGTACTGTTACTGTATTGGGCTAAGGCCCA
44921778 CA---T--TGTTACTGTATTGGGCTAAGGCCCA
1 CACTGTACTGTTACTGTATTGGGCTAAGGCCCA
* * *
44921806 CACTGTACTGTTACTGAATAGGGCTCAGGCC
1 CACTGTACTGTTACTGTATTGGGCTAAGGCC
44921837 TAAACTGTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
28 25 0.51
30 1 0.02
31 1 0.02
33 22 0.45
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (33 bp):
CACTGTACTGTTACTGTATTGGGCTAAGGCCCA
Found at i:44921844 original size:33 final size:34
Alignment explanation
Indices: 44921781--44921849 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 34
44921771 AGGCCCACAT
* * *
44921781 TGTTACTGTATTGGGCTAAGGCCCACACTG-TAC
1 TGTTACTGAATAGGGCTAAGGCCCAAACTGTTAC
* *
44921814 TGTTACTGAATAGGGCTCAGGCCTAAACTGTTAC
1 TGTTACTGAATAGGGCTAAGGCCCAAACTGTTAC
44921848 TG
1 TG
44921850 CATGTTGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 25 0.83
34 5 0.17
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (34 bp):
TGTTACTGAATAGGGCTAAGGCCCAAACTGTTAC
Found at i:44930250 original size:26 final size:26
Alignment explanation
Indices: 44930216--44930322 Score: 106
Period size: 26 Copynumber: 4.1 Consensus size: 26
44930206 TGGAGGAAGT
* * *
44930216 ATACTGTTACTGGCAACTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTACTGCA
* * * * * **
44930242 ATATTGTTATTGCCAGCTCTACCGTG
1 ATACTGTTACTGGCAGCTTTACTGCA
*
44930268 ATACTGTTACTGGCAGCTTTGCTGCA
1 ATACTGTTACTGGCAGCTTTACTGCA
*
44930294 ATACTATTACTGGCAGCTTTACTGCA
1 ATACTGTTACTGGCAGCTTTACTGCA
44930320 ATA
1 ATA
44930323 TTGGTGTGTT
Statistics
Matches: 63, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 63 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTACTGCA
Found at i:44944088 original size:31 final size:31
Alignment explanation
Indices: 44944043--44944101 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
44944033 CAATCACATT
44944043 TTAACCATTTATCCTTTTCCAATCACATAAA
1 TTAACCATTTATCCTTTTCCAATCACATAAA
44944074 TTAACC-TTTCATCCTTTTCCAATCACAT
1 TTAACCATTT-ATCCTTTTCCAATCACAT
44944102 CAATGTCGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 3 0.11
31 24 0.89
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.41
Consensus pattern (31 bp):
TTAACCATTTATCCTTTTCCAATCACATAAA
Found at i:44961286 original size:94 final size:94
Alignment explanation
Indices: 44961124--44961303 Score: 288
Period size: 94 Copynumber: 1.9 Consensus size: 94
44961114 TTTAATTAGA
** * *
44961124 ACTTGAACTCGAACCTGAATAATCAGGTTTAAAATTGAGCATGATTATTTTTACGGGATATGACG
1 ACTTGAACTCGAACCTGAATAATCACATTTAAAATCGAGCATGATTATTTTTACGGCATATGACG
*
44961189 TATTAGATCCTCCGGATACATGAAACTTG
66 TATTAGATCCTCCGAATACATGAAACTTG
* **
44961218 ACTTGAACTCGAACTTGAATAATCACATTTAAAATCGAGCATGATTATTTTTACGGCATATGGTG
1 ACTTGAACTCGAACCTGAATAATCACATTTAAAATCGAGCATGATTATTTTTACGGCATATGACG
44961283 TATTAGATCCTCCGAATACAT
66 TATTAGATCCTCCGAATACAT
44961304 TATATATGTT
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 78 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (94 bp):
ACTTGAACTCGAACCTGAATAATCACATTTAAAATCGAGCATGATTATTTTTACGGCATATGACG
TATTAGATCCTCCGAATACATGAAACTTG
Found at i:44969848 original size:7 final size:7
Alignment explanation
Indices: 44969833--44969871 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
44969823 GAGTCTTGAT
44969833 TTTAGGG
1 TTTAGGG
*
44969840 TTTATGG
1 TTTAGGG
*
44969847 TTTAGAG
1 TTTAGGG
44969854 TTTAGGG
1 TTTAGGG
*
44969861 TTTGGGG
1 TTTAGGG
44969868 TTTA
1 TTTA
44969872 TTATTTTATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.15, C:0.00, G:0.36, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:44970050 original size:7 final size:7
Alignment explanation
Indices: 44970038--44970222 Score: 131
Period size: 7 Copynumber: 26.6 Consensus size: 7
44970028 AATATATATA
44970038 TTTAGGG
1 TTTAGGG
44970045 TTTAGGG
1 TTTAGGG
*
44970052 TGTA-GG
1 TTTAGGG
*
44970058 TTTATGG
1 TTTAGGG
44970065 TTTAGGG
1 TTTAGGG
*
44970072 TTTAAGG
1 TTTAGGG
44970079 TTTAGGG
1 TTTAGGG
* *
44970086 TTTATGA
1 TTTAGGG
*
44970093 TTTAGTG
1 TTTAGGG
* **
44970100 TTAACAG
1 TTTAGGG
*
44970107 TTTAGTG
1 TTTAGGG
*
44970114 TTTACGG
1 TTTAGGG
44970121 TTTAGGG
1 TTTAGGG
* *
44970128 TGTA-TG
1 TTTAGGG
*
44970134 TTTATGG
1 TTTAGGG
*
44970141 TTTAGTG
1 TTTAGGG
* *
44970148 TTTATGA
1 TTTAGGG
44970155 TTTAGGG
1 TTTAGGG
*
44970162 TTTAGGC
1 TTTAGGG
*
44970169 TTTAGTG
1 TTTAGGG
*
44970176 TTTATGG
1 TTTAGGG
44970183 TTTAGGGG
1 TTTA-GGG
*
44970191 TTAAGGG
1 TTTAGGG
* *
44970198 ATTATGG
1 TTTAGGG
*
44970205 TTTAGGA
1 TTTAGGG
44970212 TTTAGGG
1 TTTAGGG
44970219 TTTA
1 TTTA
44970223 AGGTGTAACA
Statistics
Matches: 131, Mismatches: 44, Indels: 6
0.72 0.24 0.03
Matches are distributed among these distances:
6 9 0.07
7 117 0.89
8 5 0.04
ACGTcount: A:0.19, C:0.02, G:0.32, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:44970137 original size:62 final size:62
Alignment explanation
Indices: 44970071--44970189 Score: 168
Period size: 62 Copynumber: 1.9 Consensus size: 62
44970061 ATGGTTTAGG
*
44970071 GTTTAAGGTTTAGGGTTTATGATTTAGTGTTAACAG-TTTAGTGTTTACGGTTTAGGGTGTAT
1 GTTTAAGGTTTAGGGTTTATGATTTAGGGTTAA-AGCTTTAGTGTTTACGGTTTAGGGTGTAT
* * * * *
44970133 GTTTATGGTTTAGTGTTTATGATTTAGGGTTTAGGCTTTAGTGTTTATGGTTTAGGG
1 GTTTAAGGTTTAGGGTTTATGATTTAGGGTTAAAGCTTTAGTGTTTACGGTTTAGGG
44970190 GTTAAGGGAT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
61 1 0.02
62 49 0.98
ACGTcount: A:0.18, C:0.03, G:0.30, T:0.49
Consensus pattern (62 bp):
GTTTAAGGTTTAGGGTTTATGATTTAGGGTTAAAGCTTTAGTGTTTACGGTTTAGGGTGTAT
Found at i:44971280 original size:18 final size:18
Alignment explanation
Indices: 44971257--44971303 Score: 78
Period size: 18 Copynumber: 2.6 Consensus size: 18
44971247 ATAGTGTGAA
44971257 ACGATCTCC-GACATCCTT
1 ACGATC-CCTGACATCCTT
44971275 ACGATCCCTGACATCCTT
1 ACGATCCCTGACATCCTT
44971293 ACGATCCCTGA
1 ACGATCCCTGA
44971304 ATTTGCTTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 2 0.07
18 26 0.93
ACGTcount: A:0.23, C:0.38, G:0.13, T:0.26
Consensus pattern (18 bp):
ACGATCCCTGACATCCTT
Found at i:44971473 original size:20 final size:20
Alignment explanation
Indices: 44971448--44971486 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
44971438 TCGCTTCTTT
44971448 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
44971468 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
44971487 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:44975685 original size:161 final size:159
Alignment explanation
Indices: 44975484--44975807 Score: 567
Period size: 161 Copynumber: 2.0 Consensus size: 159
44975474 AAGGTAGTGT
*
44975484 AGAGGATTTTTATAGAAAGTTTGCGGCTTTTGAGAAGCAATATGGAGAAAAGGAAGGGATTGAGG
1 AGAGGATTGTTATAGAAAGTTTGCGGCTTTTGAGAAGCAATATGGAGAAAAGGAAGGGATTGAGG
* *
44975549 ATGCCATTGTGGGGAAGAGGAGGTTTCAGTATGAGGATGAAGTCAGGAAGAATCCATTGAATTAT
66 ATGCCATTGTAGGGAAGAAGAGGTTTCAGTATGAGGATGAAGTCAGGAAGAATCCATTGAATTAT
44975614 GATGCTTGGTTTGATTATATAAGGTTGGA
131 GATGCTTGGTTTGATTATATAAGGTTGGA
* * *
44975643 AGAGGATTGTTATAGAAACTTTTTGTGGCTTTTGAGAAGCAATATGGAGATAAGGAAGGGATTGA
1 AGAGGATTGTTATAGAAA--GTTTGCGGCTTTTGAGAAGCAATATGGAGAAAAGGAAGGGATTGA
*
44975708 GGATGCCATTGTAGGGAAGAAGAGGTTTTAGTATGAGGATGAAGTCAGGAAGAATCCATTGAATT
64 GGATGCCATTGTAGGGAAGAAGAGGTTTCAGTATGAGGATGAAGTCAGGAAGAATCCATTGAATT
44975773 ATGATGCTTGGTTTGATTATATAAGGTTGGA
129 ATGATGCTTGGTTTGATTATATAAGGTTGGA
44975804 AGAG
1 AGAG
44975808 AGTGTAGGCA
Statistics
Matches: 156, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
159 17 0.11
161 139 0.89
ACGTcount: A:0.32, C:0.06, G:0.32, T:0.30
Consensus pattern (159 bp):
AGAGGATTGTTATAGAAAGTTTGCGGCTTTTGAGAAGCAATATGGAGAAAAGGAAGGGATTGAGG
ATGCCATTGTAGGGAAGAAGAGGTTTCAGTATGAGGATGAAGTCAGGAAGAATCCATTGAATTAT
GATGCTTGGTTTGATTATATAAGGTTGGA
Found at i:44977445 original size:34 final size:34
Alignment explanation
Indices: 44977385--44977449 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
44977375 TCTACCAAAG
* * *
44977385 TTAGTGGCGTTTTCCCATAAATGCCACTAAAGAA
1 TTAGTGGCGTTTTCCAAAAAAAGCCACTAAAGAA
44977419 TTAGTGGCGTTTGT-CAAAAAAAGCCACTAAA
1 TTAGTGGCGTTT-TCCAAAAAAAGCCACTAAA
44977450 AGTCATTCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 26 0.96
35 1 0.04
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (34 bp):
TTAGTGGCGTTTTCCAAAAAAAGCCACTAAAGAA
Found at i:44977515 original size:43 final size:43
Alignment explanation
Indices: 44977462--44977551 Score: 110
Period size: 43 Copynumber: 2.1 Consensus size: 43
44977452 TCATTCTCTA
* * *
44977462 TAGCGACATTTGT-GATAAAAGCGCCAGTAAAGATCATGTTCTT
1 TAGCAACATTTGTGGAT-AAAGCACCACTAAAGATCATGTTCTT
* * *
44977505 TAGCAACATTTGTGGGTAAAGCACCCCTAAAGGTCATGTTCTT
1 TAGCAACATTTGTGGATAAAGCACCACTAAAGATCATGTTCTT
44977548 TAGC
1 TAGC
44977552 GATGTTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
43 38 0.95
44 2 0.05
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (43 bp):
TAGCAACATTTGTGGATAAAGCACCACTAAAGATCATGTTCTT
Found at i:44982398 original size:1 final size:1
Alignment explanation
Indices: 44982394--44982418 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
44982384 TTCTCTTTTC
44982394 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
44982419 GGTTTGCAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:44986613 original size:56 final size:51
Alignment explanation
Indices: 44986442--44986697 Score: 309
Period size: 56 Copynumber: 4.8 Consensus size: 51
44986432 NNNNNNNNNN
* **
44986442 GCCAAAGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTC-ATCTCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGATCTCGGT
* * *
44986492 GCCAACGCAATGTCTCAGACATGGTCTTATGACATGGGACCTCTCG-TCTCGGT
1 GCCAATGCCATGTCCCAGACATGGTC-T-T-ACATGGGACCTCTCGATCTCGGT
44986545 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGGAT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--GATCTC--GG-T
44986601 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGGAT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--GATCTC--GG-T
* *
44986657 GCCAATGCCATGTCCCAGACAGGGTCTTACATGGGATCTCT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
44986698 TTACGAAAAT
Statistics
Matches: 186, Mismatches: 10, Indels: 14
0.89 0.05 0.07
Matches are distributed among these distances:
50 37 0.20
51 2 0.01
52 3 0.02
53 46 0.25
55 2 0.01
56 96 0.52
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (51 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGATCTCGGT
Found at i:44990378 original size:17 final size:17
Alignment explanation
Indices: 44990356--44990390 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
44990346 TCTTTTACCA
44990356 GTAACTAGTAATAACCC
1 GTAACTAGTAATAACCC
*
44990373 GTAACTGGTAATAACCC
1 GTAACTAGTAATAACCC
44990390 G
1 G
44990391 ATCGGAGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (17 bp):
GTAACTAGTAATAACCC
Found at i:44994126 original size:56 final size:53
Alignment explanation
Indices: 44994065--44994316 Score: 300
Period size: 50 Copynumber: 4.8 Consensus size: 53
44994055 TCGTGTACTT
* * *
44994065 CCAATGCCATATCCAAGATATGGTCTTACATGGGACCTCTCATGATCTCAAGGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC-TGATCTC-AGG-TG
**
44994121 CCAATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTC--ATCTC-GGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCTGATCTCAGGTG
* ** * *
44994171 CCAACGCCATGTCTTAGATATGGTCTTACATGGGACCTCT-TG-TCT-TGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCTGATCTCAGGTG
*
44994221 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC-TGATCTC-AGG-TG
*
44994277 CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
44994317 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 17, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
50 80 0.47
51 2 0.01
52 2 0.01
53 8 0.05
55 2 0.01
56 76 0.45
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (53 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCTGATCTCAGGTG
Found at i:45007581 original size:33 final size:33
Alignment explanation
Indices: 45007406--45007581 Score: 142
Period size: 33 Copynumber: 5.3 Consensus size: 33
45007396 TGTATAAATG
* *
45007406 TAAGACCATAGCTAGGCTATGGCATACTGATGA
1 TAAGACCATAGCTGGGCTATGGCATTCTGATGA
*
45007439 TAAGACCATAGCTGGTCTATGGCATTCTGATGA
1 TAAGACCATAGCTGGGCTATGGCATTCTGATGA
* * ** * * * *
45007472 TAAGACCGTAAC-AAGTTACGGCATTATGGACG-
1 TAAGACCATAGCTGGGCTATGGCATTCT-GATGA
* * * * *
45007504 TAAGACCATGGTTGGGCCATGGCAGTGTATACATG-
1 TAAGACCATAGCTGGGCTATGGCA-T-TCT-GATGA
*
45007539 TAAGACCATAGCTGGGCTATGGCGTTCTGATGA
1 TAAGACCATAGCTGGGCTATGGCATTCTGATGA
45007572 TAAGACCATA
1 TAAGACCATA
45007582 AATGGGTTAT
Statistics
Matches: 108, Mismatches: 30, Indels: 10
0.73 0.20 0.07
Matches are distributed among these distances:
32 20 0.19
33 61 0.56
34 2 0.02
35 25 0.23
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (33 bp):
TAAGACCATAGCTGGGCTATGGCATTCTGATGA
Found at i:45007609 original size:133 final size:133
Alignment explanation
Indices: 45007367--45007611 Score: 350
Period size: 133 Copynumber: 1.8 Consensus size: 133
45007357 CAACTATTCA
45007367 GACGTAAGACCATAGTTGGACCATGGCAGTGTATAAATGTAAGACCATAGCTAGGCTATGGCATA
1 GACGTAAGACCATAGTTGGACCATGGCAGTGTATAAATGTAAGACCATAGCTAGGCTATGGCATA
** * * *
45007432 CTGATGATAAGACCATAGCTGGTCTATGGCATTCTGATGATAAGACCGTAACAAGTTACGGCATT
66 CTGATGATAAGACCATAAATGGTCTATGACATTCTAACGATAAGACCGTAACAAGTTACGGCATT
45007497 ATG
131 ATG
* * * * * *
45007500 GACGTAAGACCATGGTTGGGCCATGGCAGTGTATACATGTAAGACCATAGCTGGGCTATGGCGTT
1 GACGTAAGACCATAGTTGGACCATGGCAGTGTATAAATGTAAGACCATAGCTAGGCTATGGCATA
*
45007565 CTGATGATAAGACCATAAATGGGT-TATGACATTATTAACG-TAAGACC
66 CTGATGATAAGACCATAAAT-GGTCTATGACATT-CTAACGATAAGACC
45007612 ATGGCAGAGC
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
133 92 0.94
134 6 0.06
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (133 bp):
GACGTAAGACCATAGTTGGACCATGGCAGTGTATAAATGTAAGACCATAGCTAGGCTATGGCATA
CTGATGATAAGACCATAAATGGTCTATGACATTCTAACGATAAGACCGTAACAAGTTACGGCATT
ATG
Found at i:45022988 original size:58 final size:57
Alignment explanation
Indices: 45022926--45023048 Score: 167
Period size: 57 Copynumber: 2.1 Consensus size: 57
45022916 ATAGAAATGG
* * *
45022926 TGAAAATGGAGAAATGAGAAA-CATTTGGAAATGATTATGATTTTTTTCAAAATGAAAA
1 TGAAAATGGAGAAA--AGAAATCATTTGGAAATGAATATGATTTTCTCCAAAATGAAAA
** *
45022984 TGAAAATATAGAAAAGAAATCATTTGGAAATGAATGTGATTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAAAGAAATCATTTGGAAATGAATATGATTTTCTCCAAAATGAAAA
45023041 TGAAAATG
1 TGAAAATG
45023049 ACCTAAAAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
56 5 0.09
57 40 0.70
58 12 0.21
ACGTcount: A:0.48, C:0.05, G:0.18, T:0.29
Consensus pattern (57 bp):
TGAAAATGGAGAAAAGAAATCATTTGGAAATGAATATGATTTTCTCCAAAATGAAAA
Found at i:45027383 original size:18 final size:19
Alignment explanation
Indices: 45027346--45027383 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
45027336 GACTCTCATG
*
45027346 GAGTAAGTTTCTTTTAAACT
1 GAGTAAGTTTC-TATAAACT
45027366 GAGTAAGTTTC-ATAAACT
1 GAGTAAGTTTCTATAAACT
45027384 ACTCCTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (19 bp):
GAGTAAGTTTCTATAAACT
Found at i:45046809 original size:27 final size:27
Alignment explanation
Indices: 45046779--45046832 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
45046769 CTAATAAACC
* * * *
45046779 ATAAAATAGATTAATGAGATAAATAAA
1 ATAAAATAAATAAATAAGAAAAATAAA
45046806 ATAAAATAAATAAATAAGAAAAATAAA
1 ATAAAATAAATAAATAAGAAAAATAAA
45046833 CAAAGAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (27 bp):
ATAAAATAAATAAATAAGAAAAATAAA
Found at i:45046830 original size:17 final size:17
Alignment explanation
Indices: 45046797--45046853 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
45046787 GATTAATGAG
45046797 ATAAATAAAATAAAATAA
1 ATAAATAAAA-AAAATAA
*
45046815 ATAAATAAGAAAAATAA
1 ATAAATAAAAAAAATAA
* * * *
45046832 ACAAAGAATAAAAATTA
1 ATAAATAAAAAAAATAA
45046849 ATAAA
1 ATAAA
45046854 CTAATCAAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 24 0.73
18 9 0.27
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (17 bp):
ATAAATAAAAAAAATAA
Found at i:45049269 original size:32 final size:34
Alignment explanation
Indices: 45049206--45049269 Score: 78
Period size: 32 Copynumber: 1.9 Consensus size: 34
45049196 TTGTAAAGAC
*
45049206 ATAACTTTTGTATGTAAAGTTGTCTTATAAAAAT
1 ATAACTTTTGTATGTAAAGTTATCTTATAAAAAT
* * *
45049240 ATAAC-TTT-TATGTAAGGTTATTTTTTAAAA
1 ATAACTTTTGTATGTAAAGTTATCTTATAAAA
45049270 TAACACAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
32 18 0.69
33 3 0.12
34 5 0.19
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.47
Consensus pattern (34 bp):
ATAACTTTTGTATGTAAAGTTATCTTATAAAAAT
Found at i:45053739 original size:25 final size:25
Alignment explanation
Indices: 45053711--45053758 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
45053701 CAAATGTTTC
*
45053711 ATTTGAAAATTTTAAAACTTTTCTT
1 ATTTGAAAATTATAAAACTTTTCTT
* *
45053736 ATTTGATAATTATAATACTTTTC
1 ATTTGAAAATTATAAAACTTTTC
45053759 AGAAATCGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.52
Consensus pattern (25 bp):
ATTTGAAAATTATAAAACTTTTCTT
Found at i:45054360 original size:122 final size:123
Alignment explanation
Indices: 45054210--45054454 Score: 483
Period size: 122 Copynumber: 2.0 Consensus size: 123
45054200 TCGTATCCCT
45054210 ATCTCTATTTCTAAAATCCTATTTTAGAAATTCAAATTATAGAATTAAAATAATAAATAGGATTT
1 ATCTCTATTTCTAAAATCCTATTTTAGAAATTCAAATTATAGAATTAAAATAATAAATAGGATTT
45054275 GGTTTGCTTATTTTATTATTTATCATTTAAATATATATAAATTTAAA-ACGTTAATAA
66 GGTTTGCTTATTTTATTATTTATCATTTAAATATATATAAATTTAAATACGTTAATAA
45054332 ATCTCTATTTCTAAAATCCTATTTTAGAAATTCAAATTATAGAATTAAAATAATAAATAGGATTT
1 ATCTCTATTTCTAAAATCCTATTTTAGAAATTCAAATTATAGAATTAAAATAATAAATAGGATTT
45054397 GGTTTGCTTATTTTATTATTTATCATTTAAATATATATAAATTTAAATACGTTAATAA
66 GGTTTGCTTATTTTATTATTTATCATTTAAATATATATAAATTTAAATACGTTAATAA
45054455 TATAAAATTA
Statistics
Matches: 122, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
122 112 0.92
123 10 0.08
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (123 bp):
ATCTCTATTTCTAAAATCCTATTTTAGAAATTCAAATTATAGAATTAAAATAATAAATAGGATTT
GGTTTGCTTATTTTATTATTTATCATTTAAATATATATAAATTTAAATACGTTAATAA
Found at i:45057492 original size:24 final size:24
Alignment explanation
Indices: 45057434--45057498 Score: 71
Period size: 26 Copynumber: 2.7 Consensus size: 24
45057424 NNNNNNNTAT
* *
45057434 GAAATAGAATGAAAATAGTATATG
1 GAAATAAAATGAAAATAATATATG
45057458 GAAAATCAAAATGAAAAGTAATA-ATG
1 G-AAAT-AAAATGAAAA-TAATATATG
45057484 GAAATAAAAT-AAAAT
1 GAAATAAAATGAAAAT
45057499 TTTAAAGGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
22 1 0.03
23 4 0.11
24 6 0.17
25 8 0.22
26 13 0.36
27 4 0.11
ACGTcount: A:0.62, C:0.02, G:0.15, T:0.22
Consensus pattern (24 bp):
GAAATAAAATGAAAATAATATATG
Found at i:45058286 original size:19 final size:21
Alignment explanation
Indices: 45058264--45058312 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 21
45058254 ATTATATAAA
45058264 TGTTTATATTTTA-ATTT-AT
1 TGTTTATATTTTAGATTTGAT
* *
45058283 TGTTAATA-GTTAGATTTGAT
1 TGTTTATATTTTAGATTTGAT
45058303 T-TTTATATTT
1 TGTTTATATTT
45058313 AATATTTAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 5
0.72 0.12 0.16
Matches are distributed among these distances:
18 3 0.13
19 16 0.70
20 4 0.17
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (21 bp):
TGTTTATATTTTAGATTTGAT
Found at i:45058404 original size:70 final size:70
Alignment explanation
Indices: 45058330--45058481 Score: 279
Period size: 70 Copynumber: 2.2 Consensus size: 70
45058320 AAGATTATAA
45058330 TTTTGTTTGTAAAGATTATATTTGCGTTTAAGTTATAAGGATAGATCAAGATAGCTTTAA-GTAT
1 TTTTGTTTGTAAAGATTATATTTGCGTTTAAGTTATAAGGATAGATCAAGATAGCTTTAATGTAT
45058394 ATTTTT
66 A-TTTT
45058400 TTTTGTTTGTAAAGATTATATTTGCGTTTAAGTTATAAGGATAGATCAAGATAGCTTTAATGTAT
1 TTTTGTTTGTAAAGATTATATTTGCGTTTAAGTTATAAGGATAGATCAAGATAGCTTTAATGTAT
45058465 ATTTT
66 ATTTT
*
45058470 TTTAGTTTGTAA
1 TTTTGTTTGTAA
45058482 TAATAATTTA
Statistics
Matches: 80, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
70 75 0.94
71 5 0.06
ACGTcount: A:0.31, C:0.04, G:0.17, T:0.48
Consensus pattern (70 bp):
TTTTGTTTGTAAAGATTATATTTGCGTTTAAGTTATAAGGATAGATCAAGATAGCTTTAATGTAT
ATTTT
Found at i:45060999 original size:2 final size:2
Alignment explanation
Indices: 45060986--45061016 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
45060976 CGCATTGAAG
45060986 AT AT ACT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
45061017 TAAAATGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45067359 original size:26 final size:26
Alignment explanation
Indices: 45067328--45067391 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
45067318 TGACCTGCAA
*
45067328 CTCGTGTGAGCAG-GCTCATTTCACAG
1 CTCGTGTGAGCAGACCT-ATTTCACAG
*
45067354 CTCGTGTGAGCATACCTATTTCACAG
1 CTCGTGTGAGCAGACCTATTTCACAG
*
45067380 CTCGTATGAGCA
1 CTCGTGTGAGCA
45067392 ACTATGTGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 32 0.94
27 2 0.06
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (26 bp):
CTCGTGTGAGCAGACCTATTTCACAG
Found at i:45078184 original size:20 final size:20
Alignment explanation
Indices: 45078159--45078197 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
45078149 TACTTTCTTC
45078159 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
45078179 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
45078198 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:45079994 original size:51 final size:50
Alignment explanation
Indices: 45079936--45080160 Score: 249
Period size: 51 Copynumber: 4.4 Consensus size: 50
45079926 TTTGGGGGTT
* * * * * *
45079936 TTCACATAGTACCACCCATGTTACTATTATCATTCGATACACGTAGTAGCC
1 TTCACATAGTACTACACACGTGACCATTAT-TTTCGATACACGTAGTAGCC
* * *
45079987 TTCACATAGTACTACACACGTTACCA--AGTTTTACGGTTCACGTAGTAGCC
1 TTCACATAGTACTACACACGTGACCATTA-TTTT-CGATACACGTAGTAGCC
* * *
45080037 TCCACATAGTACTACACACGTGACCA-GAGCTTTTCGATACACATAGTAGCC
1 TTCACATAGTACTACACACGTGACCATTA--TTTTCGATACACGTAGTAGCC
* *
45080088 TTCACTTAGTACTACACATGTGACCATTATTTATCGATACACGTAGTAGCC
1 TTCACATAGTACTACACACGTGACCATTATTT-TCGATACACGTAGTAGCC
45080139 TTCACATAGTACTACACACGTG
1 TTCACATAGTACTACACACGTG
45080161 TTCATCAATA
Statistics
Matches: 148, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
49 3 0.02
50 43 0.29
51 97 0.66
52 5 0.03
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (50 bp):
TTCACATAGTACTACACACGTGACCATTATTTTCGATACACGTAGTAGCC
Found at i:45081984 original size:5 final size:5
Alignment explanation
Indices: 45081976--45082001 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
45081966 GAGATGGAAT
45081976 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
45082002 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:45082001 original size:26 final size:26
Alignment explanation
Indices: 45081950--45082001 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
45081940 TGAAGTTTTC
* * *
45081950 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
45081976 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
45082002 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:45082839 original size:9 final size:9
Alignment explanation
Indices: 45082822--45082852 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
45082812 TCAGGTTGAT
45082822 TCGAATAAC
1 TCGAATAAC
*
45082831 TCGATTAAC
1 TCGAATAAC
45082840 TCGAATAAC
1 TCGAATAAC
45082849 TCGA
1 TCGA
45082853 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:45085950 original size:26 final size:26
Alignment explanation
Indices: 45085921--45085991 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
45085911 ATAAAATGAC
45085921 GCTTTTGTGGCTACCTC-GAAAAGGAT
1 GCTTTTGTGGCTACCTCTG-AAAGGAT
* * *
45085947 GCTTTTATGGTTATCTCTGAAAGGAT
1 GCTTTTGTGGCTACCTCTGAAAGGAT
* *
45085973 GCATTTGTGGCTATCTCTG
1 GCTTTTGTGGCTACCTCTG
45085992 TTAAAAATGA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 37 0.97
27 1 0.03
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (26 bp):
GCTTTTGTGGCTACCTCTGAAAGGAT
Found at i:45086173 original size:29 final size:28
Alignment explanation
Indices: 45086137--45086257 Score: 93
Period size: 28 Copynumber: 4.3 Consensus size: 28
45086127 TTCCATAAGA
*
45086137 AAGCCTTTGTGGCGATCTCTGTTAAAAGG
1 AAGCCTTTGTGGCAATCTCTG-TAAAAGG
* * * *
45086166 AAGCCTTTATAGCAATCTCTGTCAAATG
1 AAGCCTTTGTGGCAATCTCTGTAAAAGG
* ** *
45086194 ATGCCTTTGTGGCAATCTCCATCAAAGG
1 AAGCCTTTGTGGCAATCTCTGTAAAAGG
* * *
45086222 ACGCTTTTGTGGCAAGACTC--TAAAAGG
1 AAGCCTTTGTGGCAA-TCTCTGTAAAAGG
45086249 AAAGCCTTT
1 -AAGCCTTT
45086258 TTGCTATCTT
Statistics
Matches: 73, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
27 6 0.08
28 46 0.63
29 21 0.29
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (28 bp):
AAGCCTTTGTGGCAATCTCTGTAAAAGG
Found at i:45086208 original size:28 final size:28
Alignment explanation
Indices: 45086137--45086236 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 28
45086127 TTCCATAAGA
* *
45086137 AAGCCTTTGTGGCGATCTCTGTTAAAAGG
1 AAGCCTTTGTGGCAATCTCTG-TCAAAGG
* * *
45086166 AAGCCTTTATAGCAATCTCTGTCAAATG
1 AAGCCTTTGTGGCAATCTCTGTCAAAGG
* **
45086194 ATGCCTTTGTGGCAATCTCCATCAAAGG
1 AAGCCTTTGTGGCAATCTCTGTCAAAGG
* *
45086222 ACGCTTTTGTGGCAA
1 AAGCCTTTGTGGCAA
45086237 GACTCTAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
28 40 0.69
29 18 0.31
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (28 bp):
AAGCCTTTGTGGCAATCTCTGTCAAAGG
Found at i:45088150 original size:23 final size:24
Alignment explanation
Indices: 45088124--45088169 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
45088114 GGGTGGAAAT
45088124 AAGGAGGGTTTAAG-GGTAAAAAC
1 AAGGAGGGTTTAAGAGGTAAAAAC
** *
45088147 AAGGATTGTTTAAGAGGTTAAAA
1 AAGGAGGGTTTAAGAGGTAAAAA
45088170 TGCTCAGGGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.43, C:0.02, G:0.30, T:0.24
Consensus pattern (24 bp):
AAGGAGGGTTTAAGAGGTAAAAAC
Found at i:45093612 original size:12 final size:12
Alignment explanation
Indices: 45093595--45093621 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
45093585 AAATTGAATC
45093595 TAGATAAATGTA
1 TAGATAAATGTA
45093607 TAGATAAATGTA
1 TAGATAAATGTA
45093619 TAG
1 TAG
45093622 GAGTGAGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (12 bp):
TAGATAAATGTA
Found at i:45097057 original size:97 final size:91
Alignment explanation
Indices: 45096943--45097125 Score: 235
Period size: 92 Copynumber: 1.9 Consensus size: 91
45096933 TTCCAGAAAT
* *
45096943 CGCCGCAAAAAACCTAAGCCCAATGACGCCGTTTTCCT-AGCTTTCGGGGATTTAGCGACG-TTT
1 CGCCGCAAAAAACCTAAGCCCAACGACG-C----T-CTGAGCTTTAGGGGATTTAGCGACGCTTT
45097006 TTAAGAAAGCGCCGCTAATGCTCAGGGCAAAAA
60 TTAA-AAAGCGCCGCTAATGCTCAGGGCAAAAA
* *
45097039 CGCCGCAAAAAAACCTAAGCCCAACGACGCTCTGAGCTTTAGGGGATTTAGCGGCGCTTTTTTAA
1 CGCCGC-AAAAAACCTAAGCCCAACGACGCTCTGAGCTTTAGGGGATTTAGCGACGCTTTTTAAA
*
45097104 AAGTGCCGCTAATGCTCAGGGC
65 AAGCGCCGCTAATGCTCAGGGC
45097126 TTTAGCGGCG
Statistics
Matches: 79, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
91 2 0.03
92 43 0.54
93 6 0.08
96 7 0.09
97 21 0.27
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (91 bp):
CGCCGCAAAAAACCTAAGCCCAACGACGCTCTGAGCTTTAGGGGATTTAGCGACGCTTTTTAAAA
AGCGCCGCTAATGCTCAGGGCAAAAA
Found at i:45097233 original size:113 final size:113
Alignment explanation
Indices: 45097039--45097339 Score: 423
Period size: 113 Copynumber: 2.7 Consensus size: 113
45097029 AGGGCAAAAA
* *
45097039 CGCCGCAAAAAAACCTAAGCCCAACG-A-CG--CTCTGAGCTTTAGGGGATTTAGCGGCGCTTTT
1 CGCCGCAAAAAAACCTAAGCCCAACGAACCGTTTTCTGAGCTTTAGGGGATTTAGCGGC-ATTTT
* * * * *
45097100 TTA-AAAGTGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAG
65 TAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCATTTTTAAGAAAG
45097148 CGCCGCAAAAAAACCTAAGCCCAACGAACCGTTTTCTGAGCTTTAGGGGATTTAGCGGCATTTTT
1 CGCCGCAAAAAAACCTAAGCCCAACGAACCGTTTTCTGAGCTTTAGGGGATTTAGCGGCATTTTT
*
45097213 AAGAAAGCACCGCTAATGCTCAGGGATTTAGCGGCATTTTTAAGAAAG
66 AAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCATTTTTAAGAAAG
* * ** * *
45097261 CGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCCGGGATTTAGCGACGTTTT
1 CGCCGCAAAAAAACCTAAGCCCAACGA-ACCGTTTTCTGAGCTTTAGGGGATTTAGCGGCATTTT
45097326 TAAGAAAGCGCCGC
65 TAAGAAAGCGCCGC
45097340 AAACAAAATC
Statistics
Matches: 171, Mismatches: 15, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
109 26 0.15
110 1 0.01
111 2 0.01
112 6 0.04
113 91 0.53
114 45 0.26
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (113 bp):
CGCCGCAAAAAAACCTAAGCCCAACGAACCGTTTTCTGAGCTTTAGGGGATTTAGCGGCATTTTT
AAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCATTTTTAAGAAAG
Found at i:45097500 original size:106 final size:105
Alignment explanation
Indices: 45097308--45097556 Score: 367
Period size: 106 Copynumber: 2.4 Consensus size: 105
45097298 TGAGCTTTCC
* * * *
45097308 GGGATTTAGCGACGTTTTTAAGAAAGCGCCGC-AAACAAAATCAAAGCCCAACTGAGCTTTCAGG
1 GGGATTTAGCGACGTTTTTGAGAAAGCGCCGCAAAAAAAAAACAAAGCCCAACTAAGCTTTCAGG
45097372 GGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCA
66 GGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCA
* * *
45097412 GGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAAAACTTAAGCCCAATTAATGCTTTC-
1 GGGATTTAGCGACGTTTTTGAGAAAGCGCCGCAAAAAAAAAAC-AAAGCCCAACTAA-GCTTTCA
*
45097476 GGGGATTTAGCGGCATTTTTAAGAAAGCGTCGCTAATGCTCA
64 GGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCA
* * *
45097518 AGGCTTTAGCGACGTTTTTGGGAAAGCGCCGCAAAAAAA
1 GGGATTTAGCGACGTTTTTGAGAAAGCGCCGCAAAAAAA
45097557 CCTAAGCCCA
Statistics
Matches: 130, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
104 30 0.23
105 8 0.06
106 86 0.66
107 6 0.05
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (105 bp):
GGGATTTAGCGACGTTTTTGAGAAAGCGCCGCAAAAAAAAAACAAAGCCCAACTAAGCTTTCAGG
GGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCA
Found at i:45097640 original size:283 final size:286
Alignment explanation
Indices: 45097070--45097642 Score: 798
Period size: 283 Copynumber: 2.0 Consensus size: 286
45097060 CAACGACGCT
* * * *
45097070 CTGAGCTTTAGGGGATTTAGCGGCGCTTTTTTAAAAGTGCCGCTAATGCTCAGGGCTTTAGCGGC
1 CTGAGCTTTAGGGGATTTAGCGGCGATTTTTAAAAAGCGCCGCTAATGCTCAGGGATTTAGCGGC
* ** **
45097135 GTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGAACCGTTTTCTGAGCTTTAGGGGATT
66 GTTTTTGAGAAAGCGCCGCAAAAAAA-C-AAACCCAACGAACCAATTAAT-AGCTTTAGGGGATT
* *
45097200 TAGCGGCATTTTTAAGAAAGCACCGCTAATGCTCAGGGATTTAGCGGCATTTTTAAGAAAGCGCC
128 TAGCGGCATTTTTAAGAAAGCACCGCTAATGCTCAAGGATTTAGCGACATTTTTAAGAAAGCGCC
*
45097265 GCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCCGGGATTTAGCGACGTTTTTAAG
193 GCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCCGGGATTTAGCGACGTTTTTAAG
*
45097330 AAAGCGCCGCAAACAAAATCAAAGCCCAA
258 AAAGCGCCGCAAACAAAACCAAAGCCCAA
45097359 CTGAGCTTTCAGGGGATTTAGCGGC-ATTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCG
1 CTGAGCTTT-AGGGGATTTAGCGGCGATTTTTAA-AAAGCGCCGCTAATGCTCAGGGATTTAGCG
** * *
45097423 GCGTTTTTGAGAAAGCGCCGCAAAAAAA-AAACTTAA-G-CCCAATTAAT-GCTTTCGGGGATTT
64 GCGTTTTTGAGAAAGCGCCGCAAAAAAACAAACCCAACGAACCAATTAATAGCTTTAGGGGATTT
** * * **
45097484 AGCGGCATTTTTAAGAAAGCGTCGCTAATGCTCAAGGCTTTAGCGACGTTTTTGGGAAAGCGCCG
129 AGCGGCATTTTTAAGAAAGCACCGCTAATGCTCAAGGATTTAGCGACATTTTTAAGAAAGCGCCG
* * *
45097549 CAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTTTCGGGCGATTTAGCGGCGTTTTTAAG
194 CAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCCGG-GATTTAGCGACGTTTTTAAG
* *
45097614 AAAGCGCCGCAAA-ATAACCTAAGCCCAA
258 AAAGCGCCGCAAACAAAACCAAAGCCCAA
45097642 C
1 C
45097643 GACGCCGTTT
Statistics
Matches: 253, Mismatches: 28, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
283 124 0.49
284 32 0.13
285 5 0.02
286 1 0.00
287 5 0.02
289 15 0.06
290 71 0.28
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (286 bp):
CTGAGCTTTAGGGGATTTAGCGGCGATTTTTAAAAAGCGCCGCTAATGCTCAGGGATTTAGCGGC
GTTTTTGAGAAAGCGCCGCAAAAAAACAAACCCAACGAACCAATTAATAGCTTTAGGGGATTTAG
CGGCATTTTTAAGAAAGCACCGCTAATGCTCAAGGATTTAGCGACATTTTTAAGAAAGCGCCGCA
AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCCGGGATTTAGCGACGTTTTTAAGAAA
GCGCCGCAAACAAAACCAAAGCCCAA
Found at i:45097643 original size:74 final size:73
Alignment explanation
Indices: 45097522--45097685 Score: 274
Period size: 74 Copynumber: 2.2 Consensus size: 73
45097512 TGCTCAAGGC
* ** *
45097522 TTTAGCGACGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
45097587 TTCGGGCGA
66 TTCGGG-GA
*
45097596 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAATAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
45097661 TTCGGGGA
66 TTCGGGGA
45097669 TTTAGCGGCGTTTTTAA
1 TTTAGCGGCGTTTTTAA
45097686 TAATTTGTCT
Statistics
Matches: 85, Mismatches: 5, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
73 19 0.22
74 66 0.78
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
TTCGGGGA
Found at i:45097704 original size:13 final size:13
Alignment explanation
Indices: 45097686--45097753 Score: 65
Period size: 13 Copynumber: 5.5 Consensus size: 13
45097676 GCGTTTTTAA
45097686 TAATTTGTCTATT
1 TAATTTGTCTATT
45097699 TAA--T-T-TATT
1 TAATTTGTCTATT
*
45097708 TAATTTGTTTATT
1 TAATTTGTCTATT
* *
45097721 T-ATTTAATTTATT
1 TAATTT-GTCTATT
45097734 TAATTTGTCTATT
1 TAATTTGTCTATT
45097747 TAATTTG
1 TAATTTG
45097754 AACATAGAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
9 7 0.15
10 1 0.02
11 2 0.04
12 5 0.11
13 27 0.59
14 4 0.09
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (13 bp):
TAATTTGTCTATT
Found at i:45097709 original size:9 final size:9
Alignment explanation
Indices: 45097695--45097739 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
45097685 ATAATTTGTC
45097695 TATTTAATT
1 TATTTAATT
45097704 TATTTAATT
1 TATTTAATT
*
45097713 TGTTT-ATT
1 TATTTAATT
45097721 TATTTAATT
1 TATTTAATT
45097730 TATTTAATT
1 TATTTAATT
45097739 T
1 T
45097740 GTCTATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
8 7 0.21
9 26 0.79
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (9 bp):
TATTTAATT
Found at i:45097713 original size:22 final size:22
Alignment explanation
Indices: 45097686--45097752 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 22
45097676 GCGTTTTTAA
45097686 TAATTTGTCTATTTAATTTATT
1 TAATTTGTCTATTTAATTTATT
*
45097708 TAATTTGTTTATTTATTTAATTTATT
1 TAATTTG----TCTATTTAATTTATT
45097734 TAATTTGTCTATTTAATTT
1 TAATTTGTCTATTTAATTT
45097753 GAACATAGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
22 18 0.46
26 21 0.54
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.66
Consensus pattern (22 bp):
TAATTTGTCTATTTAATTTATT
Found at i:45097721 original size:17 final size:17
Alignment explanation
Indices: 45097695--45097735 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
45097685 ATAATTTGTC
45097695 TATTTAATTTATTTAATT
1 TATTT-ATTTATTTAATT
*
45097713 TGTTTATTTATTTAATT
1 TATTTATTTATTTAATT
45097730 TATTTA
1 TATTTA
45097736 ATTTGTCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (17 bp):
TATTTATTTATTTAATT
Found at i:45097726 original size:26 final size:26
Alignment explanation
Indices: 45097695--45097748 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
45097685 ATAATTTGTC
*
45097695 TATTTAATTTATTTAATTTGTTTATT
1 TATTTAATTTATTTAATTTGTCTATT
45097721 TATTTAATTTATTTAATTTGTCTATT
1 TATTTAATTTATTTAATTTGTCTATT
45097747 TA
1 TA
45097749 ATTTGAACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (26 bp):
TATTTAATTTATTTAATTTGTCTATT
Found at i:45098018 original size:14 final size:15
Alignment explanation
Indices: 45097989--45098022 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
45097979 TAAGGTTTAT
45097989 AGATTATGGAATTAG
1 AGATTATGGAATTAG
45098004 AGATTATGG-ATTAG
1 AGATTATGGAATTAG
45098018 AGATT
1 AGATT
45098023 CTGGTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.35
Consensus pattern (15 bp):
AGATTATGGAATTAG
Found at i:45102398 original size:43 final size:43
Alignment explanation
Indices: 45102337--45102472 Score: 130
Period size: 43 Copynumber: 3.2 Consensus size: 43
45102327 TGTTTTTAGT
* * * * * *
45102337 GGCGTTTTTGCGAGAAGCGTCGCTAAAGGTCTTGATCTTTAGT
1 GGCGTTTGTGAGAAAAGCGTCGCTAAAGGTCATGATCTATAGC
* * *** *
45102380 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCCAACCTATAGC
1 GGCGTTTGTGAGAAAAGCGTCGCTAAAGGTCATGATCTATAGC
* *
45102423 GGCGTTTGTGAAAAAAGCAAT-GCTAAAGGTCATGATCTATAGC
1 GGCGTTTGTGAGAAAAGC-GTCGCTAAAGGTCATGATCTATAGC
45102466 GGCGTTT
1 GGCGTTT
45102473 ATTTCTAAAA
Statistics
Matches: 74, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
43 74 1.00
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.27
Consensus pattern (43 bp):
GGCGTTTGTGAGAAAAGCGTCGCTAAAGGTCATGATCTATAGC
Found at i:45103181 original size:19 final size:20
Alignment explanation
Indices: 45103136--45103181 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
45103126 CTGAAAACTC
45103136 ATATTTAATAATAAGTTTTA
1 ATATTTAATAATAAGTTTTA
* *
45103156 ACA-TTAATAAT-ATTTTTA
1 ATATTTAATAATAAGTTTTA
45103174 ATATTTAA
1 ATATTTAA
45103182 AAAATAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 8 0.36
19 12 0.55
20 2 0.09
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (20 bp):
ATATTTAATAATAAGTTTTA
Found at i:45104218 original size:23 final size:23
Alignment explanation
Indices: 45104192--45104240 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
45104182 ATTCAGATAC
45104192 AATAAAATACCATCT-TTTCTAAA
1 AATAAAAT-CCATCTATTTCTAAA
* *
45104215 AATAAAATTCATCTATTTTTAAA
1 AATAAAATCCATCTATTTCTAAA
45104238 AAT
1 AAT
45104241 TCTTTTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (23 bp):
AATAAAATCCATCTATTTCTAAA
Found at i:45106301 original size:29 final size:30
Alignment explanation
Indices: 45106269--45106455 Score: 114
Period size: 30 Copynumber: 6.3 Consensus size: 30
45106259 TCGATTATGG
*
45106269 AAAGGGATGGTGACTACCATC-AACAATGA
1 AAAGGGATGGTGACGACCATCAAACAATGA
*
45106298 AAAGGGATAGTGACGACCATCAAACAATGA
1 AAAGGGATGGTGACGACCATCAAACAATGA
* * * * ***
45106328 AAAGAGATGGCT-TC-AGCTATCGATTTATGA
1 AAAGGGATGG-TGACGA-CCATCAAACAATGA
* * * ** **
45106358 AAAGGGATAGCT-TCGACTATCAAATTACAA
1 AAAGGGAT-GGTGACGACCATCAAACAATGA
* *
45106388 AAAGGGATGGTGACGACCACCGAACAATGA
1 AAAGGGATGGTGACGACCATCAAACAATGA
* * *
45106418 AAAGGGTTGGTGATGACCATC-AACTTATGA
1 AAAGGGATGGTGACGACCATCAAAC-AATGA
45106448 AAAGGGAT
1 AAAGGGAT
45106456 AGTTTCGGCT
Statistics
Matches: 121, Mismatches: 30, Indels: 13
0.74 0.18 0.08
Matches are distributed among these distances:
29 25 0.21
30 93 0.77
31 3 0.02
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.20
Consensus pattern (30 bp):
AAAGGGATGGTGACGACCATCAAACAATGA
Found at i:45106418 original size:60 final size:59
Alignment explanation
Indices: 45106236--45106423 Score: 168
Period size: 60 Copynumber: 3.2 Consensus size: 59
45106226 GCTAACGAAT
* *
45106236 ATGAAAAGGGATAGCTTCGACTATC-GATTATGGAAAGGGATGGTGACTACCATC-AACA
1 ATGAAAAGGGATAGCTTCGACTATCAAATTATGAAAAGGGATGGTGAC-ACCATCGAACA
* * ** * * * ***
45106294 ATGAAAAGGGATAG-TGACGACCATCAAACAATGAAAAGAGATGGCT-TCAGCTATCGATTT
1 ATGAAAAGGGATAGCT-TCGACTATCAAATTATGAAAAGGGATGG-TGACA-CCATCGAACA
** *
45106354 ATGAAAAGGGATAGCTTCGACTATCAAATTACAAAAAGGGATGGTGACGACCACCGAACA
1 ATGAAAAGGGATAGCTTCGACTATCAAATTATGAAAAGGGATGGTGAC-ACCATCGAACA
45106414 ATGAAAAGGG
1 ATGAAAAGGG
45106424 TTGGTGATGA
Statistics
Matches: 97, Mismatches: 25, Indels: 14
0.71 0.18 0.10
Matches are distributed among these distances:
57 1 0.01
58 22 0.23
59 19 0.20
60 53 0.55
61 2 0.02
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (59 bp):
ATGAAAAGGGATAGCTTCGACTATCAAATTATGAAAAGGGATGGTGACACCATCGAACA
Found at i:45107546 original size:12 final size:12
Alignment explanation
Indices: 45107529--45107558 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
45107519 TCAAGCAATT
45107529 ACACGGCCTAGC
1 ACACGGCCTAGC
*
45107541 ACACGGCCTGGC
1 ACACGGCCTAGC
45107553 ACACGG
1 ACACGG
45107559 GTGTGTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:45113988 original size:30 final size:29
Alignment explanation
Indices: 45113915--45113989 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
45113905 GGCTATCGAT
*
45113915 TATGAAAAGGGATGGTGATGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* *
45113944 AAAGAAAAGGGATGGTGACGACCATCAAAC
1 TATGAAAAGGGATGGTGACGACCATC-AAC
*
45113974 TATGAAAAGAGATGGT
1 TATGAAAAGGGATGGT
45113990 TTCGGCTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 23 0.59
30 16 0.41
ACGTcount: A:0.43, C:0.12, G:0.28, T:0.17
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCATCAAC
Found at i:45114076 original size:31 final size:30
Alignment explanation
Indices: 45113962--45114077 Score: 90
Period size: 30 Copynumber: 3.8 Consensus size: 30
45113952 GGGATGGTGA
* * * * *
45113962 CGACCATCAAACTATGAAAAGAGATGGTTT
1 CGACTATCGAACTATGAAAAGGGATAGCTT
* * ** *
45113992 CGGCTATTGATTTATTAAAAGGGATAGCTT
1 CGACTATCGAACTATGAAAAGGGATAGCTT
* *
45114022 CGACTATCGAATTTTGAAAAGGGATAGCTT
1 CGACTATCGAACTATGAAAAGGGATAGCTT
*
45114052 C-ATCTGTCGAACTATGAAAAAGGGAT
1 CGA-CTATCGAACTATG-AAAAGGGAT
45114078 TATGATCTTG
Statistics
Matches: 66, Mismatches: 18, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 56 0.85
31 9 0.14
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (30 bp):
CGACTATCGAACTATGAAAAGGGATAGCTT
Found at i:45122146 original size:7 final size:7
Alignment explanation
Indices: 45122134--45122164 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
45122124 TTTGGTTGTA
45122134 ATTGGAC
1 ATTGGAC
45122141 ATTGGAC
1 ATTGGAC
45122148 ATTGGAC
1 ATTGGAC
45122155 ATTGGAC
1 ATTGGAC
45122162 ATT
1 ATT
45122165 TTATTTGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (7 bp):
ATTGGAC
Found at i:45124694 original size:25 final size:26
Alignment explanation
Indices: 45124644--45124696 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
45124634 AAAAGACACT
45124644 GTCTCACTTAAATACTAAAACGCATC
1 GTCTCACTTAAATACTAAAACGCATC
* * *
45124670 GTCTTACTTAAGTA-TAAAACTCATC
1 GTCTCACTTAAATACTAAAACGCATC
45124695 GT
1 GT
45124697 TTTAATAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (26 bp):
GTCTCACTTAAATACTAAAACGCATC
Found at i:45128820 original size:18 final size:19
Alignment explanation
Indices: 45128783--45128825 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
45128773 AAGTTCCATA
* *
45128783 TCTCAATTCATATTTCATT
1 TCTCATTTCATATATCATT
45128802 TCTCATTTCATA-ATCATT
1 TCTCATTTCATATATCATT
45128820 TCTCAT
1 TCTCAT
45128826 GTTTTCCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.51
Consensus pattern (19 bp):
TCTCATTTCATATATCATT
Found at i:45128856 original size:43 final size:43
Alignment explanation
Indices: 45128800--45128885 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
45128790 TCATATTTCA
* * * *
45128800 TTTCTCATTTCATAATCATTTCTCATGTTTTCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTATCATCTTTGCCATTTCAATAT
*
45128843 TTTCTCATCTCATATTCATTTATCATCTTTGCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTATCATCTTTGCCATTTCAATAT
45128886 CAATCACATA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.23, C:0.22, G:0.02, T:0.52
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTATCATCTTTGCCATTTCAATAT
Found at i:45129317 original size:25 final size:27
Alignment explanation
Indices: 45129279--45129329 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
45129269 CTCAATACAC
*
45129279 ATATATACATAATCAATATATTTCATA
1 ATATATACATAATCAATACATTTCATA
*
45129306 ATATATA-A-AATCAATCCATTTCAT
1 ATATATACATAATCAATACATTTCAT
45129330 TTCAATTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 14 0.64
26 1 0.05
27 7 0.32
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (27 bp):
ATATATACATAATCAATACATTTCATA
Found at i:45130310 original size:214 final size:215
Alignment explanation
Indices: 45129941--45130370 Score: 844
Period size: 214 Copynumber: 2.0 Consensus size: 215
45129931 TAAAAATTAC
45129941 AAGGGTAAGGACTAAATTACACTAGTCAAATTAGATTTCAACTTTAAACCCCAAAATGCCATGAG
1 AAGGGTAAGGACTAAATTACACTAGTCAAATTAGATTTCAACTTTAAACCCCAAAATGCCATGAG
45130006 CTTCCTCTCCCTTTCTTTCTTTCTTTTCTTTTTATTTCTTTTCTAATTCGCATGGATCCACTTTC
66 CTTCCTCTCCCTTTCTTTCTTTCTTTTCTTTTTATTTCTTTTCTAATTCGCATGGATCCACTTTC
45130071 ATCTCTTTTTTTTATTATACATTCATTTAATTATATTATATATATACATTAAAGTTAATATATAT
131 ATCTCTTTTTTTTATTATACATTCATTTAATTATATTATATATATACATTAAAGTTAATATATAT
45130136 AAC-ATATATTTATTTTAAA
196 AACAATATATTTATTTTAAA
45130155 AAGGGTAAGGACTAAATTACACTAGTCAAATTAGATTTCAACTTTAAACCCCAAAATGCCATGAG
1 AAGGGTAAGGACTAAATTACACTAGTCAAATTAGATTTCAACTTTAAACCCCAAAATGCCATGAG
45130220 CTTCCTCTCCCTTTCTTTCTTTCTTTTCTTTTTATTTCTTTTCTAATTCGCATGGATCCACTTTC
66 CTTCCTCTCCCTTTCTTTCTTTCTTTTCTTTTTATTTCTTTTCTAATTCGCATGGATCCACTTTC
45130285 ATCTCTTTTTTTTATTATACATTCATTTAATTATATTATATATATACATTAAAGTTAATATATAT
131 ATCTCTTTTTTTTATTATACATTCATTTAATTATATTATATATATACATTAAAGTTAATATATAT
45130350 AACATATATATTTATTTTAAA
196 AACA-ATATATTTATTTTAAA
45130371 CACATGCATT
Statistics
Matches: 214, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
214 198 0.93
216 16 0.07
ACGTcount: A:0.31, C:0.17, G:0.07, T:0.45
Consensus pattern (215 bp):
AAGGGTAAGGACTAAATTACACTAGTCAAATTAGATTTCAACTTTAAACCCCAAAATGCCATGAG
CTTCCTCTCCCTTTCTTTCTTTCTTTTCTTTTTATTTCTTTTCTAATTCGCATGGATCCACTTTC
ATCTCTTTTTTTTATTATACATTCATTTAATTATATTATATATATACATTAAAGTTAATATATAT
AACAATATATTTATTTTAAA
Found at i:45132850 original size:17 final size:18
Alignment explanation
Indices: 45132824--45132874 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 18
45132814 CTTCCATATC
45132824 AAAAAA-GAAAAAGAAAT
1 AAAAAAGGAAAAAGAAAT
45132841 -AAAAAGG-AAAAGAAAAT
1 AAAAAAGGAAAAAG-AAAT
*
45132858 AAAGAAAGTAAAAAGAA
1 AAA-AAAGGAAAAAGAA
45132875 CAAAGAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
16 10 0.36
17 5 0.18
18 2 0.07
19 6 0.21
20 5 0.18
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (18 bp):
AAAAAAGGAAAAAGAAAT
Found at i:45132879 original size:7 final size:6
Alignment explanation
Indices: 45132825--45132889 Score: 55
Period size: 6 Copynumber: 10.7 Consensus size: 6
45132815 TTCCATATCA
* *
45132825 AAAAAG AAAAAG --AAAT AAAAAG GAAAAG AAAATA- AAGAAAG TAAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA-AG AA-AAAG -AAAAAG
45132873 AACAAAG AAAAAG AAAA
1 AA-AAAG AAAAAG AAAA
45132890 TAAAGAAAGT
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
4 3 0.06
6 30 0.62
7 13 0.27
8 2 0.04
ACGTcount: A:0.78, C:0.02, G:0.15, T:0.05
Consensus pattern (6 bp):
AAAAAG
Found at i:45132905 original size:18 final size:17
Alignment explanation
Indices: 45132850--45132905 Score: 62
Period size: 18 Copynumber: 3.3 Consensus size: 17
45132840 TAAAAAGGAA
45132850 AAGAAAATAAAGAAAGT
1 AAGAAAATAAAGAAAGT
* *
45132867 AAAAAGAACAAAGAAA--
1 AAGAA-AATAAAGAAAGT
45132883 AAGAAAATAAAGAAAGT
1 AAGAAAATAAAGAAAGT
45132900 ATAGAA
1 A-AGAA
45132906 GGAAAATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
15 9 0.29
16 4 0.13
17 5 0.16
18 13 0.42
ACGTcount: A:0.73, C:0.02, G:0.16, T:0.09
Consensus pattern (17 bp):
AAGAAAATAAAGAAAGT
Found at i:45133316 original size:9 final size:9
Alignment explanation
Indices: 45133282--45133312 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
45133272 AATTCTGCCT
45133282 TTTTTATAA
1 TTTTTATAA
45133291 TTTTTATAA
1 TTTTTATAA
45133300 TTTTTA-AA
1 TTTTTATAA
45133308 TTTTT
1 TTTTT
45133313 TAAAAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (9 bp):
TTTTTATAA
Found at i:45133342 original size:19 final size:19
Alignment explanation
Indices: 45133291--45133342 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
45133281 TTTTTTATAA
*
45133291 TTTTTATAATT-TTTAAAT
1 TTTTTAAAATTATTTAAAT
**
45133309 TTTTTAAAAAAATTT-AAT
1 TTTTTAAAATTATTTAAAT
45133327 TGTTTTAAAATTATTT
1 T-TTTTAAAATTATTT
45133343 TCATTATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTTTAAAATTATTTAAAT
Found at i:45133472 original size:61 final size:61
Alignment explanation
Indices: 45133377--45133503 Score: 173
Period size: 61 Copynumber: 2.1 Consensus size: 61
45133367 TTAAAAAAAC
* * * *
45133377 TAATTAATTGCTAAAGTGGCAATCCACATGTATGACACAGTTCAACAAAGTTAATAAAAGT
1 TAATTAATTGCTAAAGTGACAATCCACATATATGACACACTTAAACAAAGTTAATAAAAGT
* * ** *
45133438 TAATTAATTGCTTACGTGACAATCCATGTATATGACACACTTAAACATAGTTAATAAAAGT
1 TAATTAATTGCTAAAGTGACAATCCACATATATGACACACTTAAACAAAGTTAATAAAAGT
45133499 TAATT
1 TAATT
45133504 TTTTCCATCT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (61 bp):
TAATTAATTGCTAAAGTGACAATCCACATATATGACACACTTAAACAAAGTTAATAAAAGT
Found at i:45135125 original size:63 final size:61
Alignment explanation
Indices: 45135058--45135219 Score: 143
Period size: 62 Copynumber: 2.6 Consensus size: 61
45135048 TAATTTTTTG
* *
45135058 AAAATTTTAATTAGGTTCCTCCAAAATTTTTAAAAATTATT-ATTAAACCTTTGAGAAAAT-TTA
1 AAAATTTTAATTAGG-TCCTCCAAAATTTTTAAAAATT-TTCATAAAACCTCT-A-AAAATATTA
* * * ** *
45135121 AAAATTTCAATTA-GACTCTTCAATTTTTGTTAAAAATTTTCATAAAACCTCTAAAATTATTA
1 AAAATTTTAATTAGGTC-CTCCAAAATTT-TTAAAAATTTTCATAAAACCTCTAAAAATATTA
* *
45135183 AAAGTTTTAATTA-GACCTACCAAAATTTTTAAAAATT
1 AAAATTTTAATTAGGTCCT-CCAAAATTTTTAAAAATT
45135220 CCGACTAAAA
Statistics
Matches: 81, Mismatches: 13, Indels: 12
0.76 0.12 0.11
Matches are distributed among these distances:
61 16 0.20
62 35 0.43
63 30 0.37
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (61 bp):
AAAATTTTAATTAGGTCCTCCAAAATTTTTAAAAATTTTCATAAAACCTCTAAAAATATTA
Found at i:45135585 original size:61 final size:60
Alignment explanation
Indices: 45135520--45135639 Score: 150
Period size: 61 Copynumber: 2.0 Consensus size: 60
45135510 TTTTTTTATC
* * * * * *
45135520 ACCTAATTATGAAAAGTTATAAAAAGATCACTTAATTATGTTTTTTTTTTCTTTTTTGGTT
1 ACCTAATTACGAAAAGTAACAAAAAGACCACTCAACTATG-TTTTTTTTTCTTTTTTGGTT
* * *
45135581 ACCTAATTACGAAAAGTAACCAAATGGCCACTCAACTATGTTTTTTTTTCTTTTTTGGT
1 ACCTAATTACGAAAAGTAACAAAAAGACCACTCAACTATGTTTTTTTTTCTTTTTTGGT
45135640 CACTAGCTAG
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
60 19 0.38
61 31 0.62
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (60 bp):
ACCTAATTACGAAAAGTAACAAAAAGACCACTCAACTATGTTTTTTTTTCTTTTTTGGTT
Found at i:45136121 original size:63 final size:62
Alignment explanation
Indices: 45136053--45136177 Score: 162
Period size: 62 Copynumber: 2.0 Consensus size: 62
45136043 GTTGGTGACC
* * * * *
45136053 AAAAAAGAA-AAACCATAAATAAGTGGCTATTTTATAACTTTTCATAGTTGGGTGACAAAAAA
1 AAAAAAAAACAAACCAT-AATAAGTGACCATTTTAGAACTTTTCATAGTTGAGTGACAAAAAA
* * *
45136115 AAAAAAAAACAGACCATAATGAGTGACCATTTTAGAACTTTTCATAGTTGAGTGACCAAAAA
1 AAAAAAAAACAAACCATAATAAGTGACCATTTTAGAACTTTTCATAGTTGAGTGACAAAAAA
45136177 A
1 A
45136178 TTTCATAGTT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
62 48 0.89
63 6 0.11
ACGTcount: A:0.48, C:0.12, G:0.14, T:0.26
Consensus pattern (62 bp):
AAAAAAAAACAAACCATAATAAGTGACCATTTTAGAACTTTTCATAGTTGAGTGACAAAAAA
Found at i:45136186 original size:24 final size:24
Alignment explanation
Indices: 45136154--45136201 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
45136144 TTTTAGAACT
*
45136154 TTTCATAGTTGAGTGACCAAAAAA
1 TTTCATAGTTGAGTGACAAAAAAA
*
45136178 TTTCATAGTTGGGTGACAAAAAAA
1 TTTCATAGTTGAGTGACAAAAAAA
45136202 AAAAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (24 bp):
TTTCATAGTTGAGTGACAAAAAAA
Found at i:45136199 original size:86 final size:87
Alignment explanation
Indices: 45136092--45136265 Score: 332
Period size: 88 Copynumber: 2.0 Consensus size: 87
45136082 TTTTATAACT
45136092 TTTCATAGTTGGGTGAC-AAAAAAAAAAAAAAACAGACCATAATGAGTGACCATTTTAGAACTTT
1 TTTCATAGTTGGGTGACAAAAAAAAAAAAAAAACAGACCATAATGAGTGACCATTTTAGAACTTT
45136156 TCATAGTTGAGTGACCAAAAAA
66 TCATAGTTGAGTGACCAAAAAA
45136178 TTTCATAGTTGGGTGACAAAAAAAAAAAAAAAAACAGACCATAATGAGTGACCATTTTAGAACTT
1 TTTCATAGTTGGGTGAC-AAAAAAAAAAAAAAAACAGACCATAATGAGTGACCATTTTAGAACTT
45136243 TTCATAGTTGAGTGACCAAAAAA
65 TTCATAGTTGAGTGACCAAAAAA
45136266 GAAAATCATA
Statistics
Matches: 86, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
86 17 0.20
88 69 0.80
ACGTcount: A:0.46, C:0.13, G:0.16, T:0.25
Consensus pattern (87 bp):
TTTCATAGTTGGGTGACAAAAAAAAAAAAAAAACAGACCATAATGAGTGACCATTTTAGAACTTT
TCATAGTTGAGTGACCAAAAAA
Found at i:45141801 original size:16 final size:16
Alignment explanation
Indices: 45141780--45141821 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
45141770 AATAATTTGA
* *
45141780 TAATTTTACTAACAAT
1 TAATTTTAATAAAAAT
45141796 TAATTTTAATAAAAAT
1 TAATTTTAATAAAAAT
*
45141812 TAGTTTTAAT
1 TAATTTTAAT
45141822 TTTATTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAAAAAT
Found at i:45141841 original size:23 final size:23
Alignment explanation
Indices: 45141795--45141856 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
45141785 TTACTAACAA
* * *
45141795 TTAATTTTAAT-AAAAATTAGTT
1 TTAATTTTATTAAAAAAATAATT
45141817 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTATTAAAAAAATAATT
45141840 TTAATTTTAATTAAAAA
1 TTAATTTT-ATTAAAAA
45141857 CAGGTCGGGC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
22 10 0.29
23 17 0.49
24 8 0.23
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTATTAAAAAAATAATT
Found at i:45146872 original size:6 final size:6
Alignment explanation
Indices: 45146863--45146890 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
45146853 CCAAATTCGT
45146863 ACCAAA ACCAAA ACCAAA ACCAAA ACCA
1 ACCAAA ACCAAA ACCAAA ACCAAA ACCA
45146891 TTTCCTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.64, C:0.36, G:0.00, T:0.00
Consensus pattern (6 bp):
ACCAAA
Found at i:45153571 original size:24 final size:24
Alignment explanation
Indices: 45153537--45153598 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
45153527 CCTTTTTGAG
* *
45153537 CCATTTCGTACCGAAAATCCCATT
1 CCATTTCGTACCAAAAATCCCATA
* *
45153561 CCATTTTGTACCAAAAATCCGATA
1 CCATTTCGTACCAAAAATCCCATA
45153585 CCATTTCGTACCAA
1 CCATTTCGTACCAA
45153599 TACCCAATTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.32, C:0.31, G:0.08, T:0.29
Consensus pattern (24 bp):
CCATTTCGTACCAAAAATCCCATA
Found at i:45155395 original size:26 final size:26
Alignment explanation
Indices: 45155359--45155420 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
45155349 ACATATTTTC
45155359 TCAAAATTTTACCAAGGGCAAAATCA
1 TCAAAATTTTACCAAGGGCAAAATCA
* * *
45155385 TCAAAATTTTACTATGGGTAAAATCA
1 TCAAAATTTTACCAAGGGCAAAATCA
45155411 TCAAAATTTT
1 TCAAAATTTT
45155421 GTTTGGGGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.32
Consensus pattern (26 bp):
TCAAAATTTTACCAAGGGCAAAATCA
Found at i:45161045 original size:20 final size:20
Alignment explanation
Indices: 45161002--45161043 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
45160992 TAAAGAAAGT
45161002 AAATGCAATGGAAAGTAATG
1 AAATGCAATGGAAAGTAATG
45161022 AAATGCAAAT-GAAAGTAA-G
1 AAATGC-AATGGAAAGTAATG
45161041 AAA
1 AAA
45161044 ATTTGGAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 14 0.67
21 3 0.14
ACGTcount: A:0.57, C:0.05, G:0.21, T:0.17
Consensus pattern (20 bp):
AAATGCAATGGAAAGTAATG
Found at i:45161512 original size:15 final size:16
Alignment explanation
Indices: 45161492--45161521 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45161482 TGGTGCCTTG
45161492 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
45161507 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
45161522 AGCATGTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:45164387 original size:15 final size:15
Alignment explanation
Indices: 45164363--45164393 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
45164353 TACGGTGTAT
*
45164363 TGGTGCTTGATAACA
1 TGGTGATTGATAACA
45164378 TGGTGATTGATAACA
1 TGGTGATTGATAACA
45164393 T
1 T
45164394 AGTGTCTGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.35
Consensus pattern (15 bp):
TGGTGATTGATAACA
Found at i:45190679 original size:21 final size:20
Alignment explanation
Indices: 45190641--45190703 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
45190631 ATTCAATTTC
45190641 TCAATCC-AAT-ATA-CATT
1 TCAATCCAAATAATATCATT
45190658 TCAATACCACAATAAT-TCATT
1 TCAAT-CCA-AATAATATCATT
*
45190679 T-AATTCAAATAATATCATT
1 TCAATCCAAATAATATCATT
45190698 TGCAAT
1 T-CAAT
45190704 TTCCATTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
17 5 0.14
18 8 0.22
19 8 0.22
20 6 0.16
21 10 0.27
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TCAATCCAAATAATATCATT
Found at i:45195127 original size:25 final size:25
Alignment explanation
Indices: 45195065--45195171 Score: 114
Period size: 25 Copynumber: 4.3 Consensus size: 25
45195055 GTACATATAT
*
45195065 GCTCATACGAGCT-ATGAATCGGTAT
1 GCTCATACGAGCTGA-GAATCGGTAA
45195090 GCTCTCATA--AGCT-ATGAATCGGTAA
1 G--CTCATACGAGCTGA-GAATCGGTAA
* *
45195115 GCTCATACGAGCTGAAAATCTGTAA
1 GCTCATACGAGCTGAGAATCGGTAA
*
45195140 GCTCATACAAGCTGAGAATCGGTAA
1 GCTCATACGAGCTGAGAATCGGTAA
45195165 GCTCATA
1 GCTCATA
45195172 AGAGTTGTGG
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
23 6 0.08
25 58 0.82
26 1 0.01
27 6 0.08
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (25 bp):
GCTCATACGAGCTGAGAATCGGTAA
Found at i:45211261 original size:25 final size:25
Alignment explanation
Indices: 45211233--45211308 Score: 125
Period size: 25 Copynumber: 3.0 Consensus size: 25
45211223 TTAGGGTTAT
45211233 TGATTTATAGCTCATGAGAGCATAC
1 TGATTTATAGCTCATGAGAGCATAC
*
45211258 TGATTTATAGCACATGAGAGCATAC
1 TGATTTATAGCTCATGAGAGCATAC
* *
45211283 CGATTTATAGCTCGTGAGAGCATAC
1 TGATTTATAGCTCATGAGAGCATAC
45211308 T
1 T
45211309 AATCTTTAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (25 bp):
TGATTTATAGCTCATGAGAGCATAC
Found at i:45211329 original size:50 final size:50
Alignment explanation
Indices: 45211234--45211357 Score: 139
Period size: 50 Copynumber: 2.5 Consensus size: 50
45211224 TAGGGTTATT
* *
45211234 GATTTATAGCTCATGAGAGCATACTGATTTATAGCACATGAGAGCATACC
1 GATTTATAGCTCGTGAGAGCATACTAATTTATAGCACATGAGAGCATACC
*
45211284 GATTTATAGCTCGTGAGAGCATACTAATCTT-TAGTTCA-AT-TGAGCATACC
1 GATTTATAGCTCGTGAGAGCATACTAAT-TTATAG--CACATGAGAGCATACC
* *
45211334 GATTCACAGCTCGT-ATGAGCATAC
1 GATTTATAGCTCGTGA-GAGCATAC
45211358 ACGTACATGA
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
49 1 0.02
50 58 0.89
51 4 0.06
52 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (50 bp):
GATTTATAGCTCGTGAGAGCATACTAATTTATAGCACATGAGAGCATACC
Found at i:45215374 original size:50 final size:49
Alignment explanation
Indices: 45215280--45215375 Score: 140
Period size: 50 Copynumber: 1.9 Consensus size: 49
45215270 TATTGAGGTT
* *
45215280 ATGAGAGGTCCCATGTAGACCATGTCTGGGACATGGAGTTGGCACCAAG
1 ATGAGAGGTCCCACGTAGACCATGTCTGGGACATGGAGTGGGCACCAAG
*
45215329 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGTA-TGGGCACC
1 ATGAGAGGTCCCACGT-AGACCATGTCTGGGACATGG-AGTGGGCACC
45215376 GATATGAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
49 14 0.33
50 27 0.64
51 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.32, T:0.20
Consensus pattern (49 bp):
ATGAGAGGTCCCACGTAGACCATGTCTGGGACATGGAGTGGGCACCAAG
Found at i:45215397 original size:50 final size:50
Alignment explanation
Indices: 45215288--45215402 Score: 126
Period size: 50 Copynumber: 2.3 Consensus size: 50
45215278 TTATGAGAGG
* * **
45215288 TCCCATGT-AGACCATGTCTGGGACATGGAGTTGGCACCAAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGAGTGGGCACCAAGATGAAAAC
** * *
45215337 TCCCCCGTAAGACCATGTCTGGGACATGGTA-TGGGCACCGATATGAAAAC
1 TCCCATGTAAGACCATGTCTGGGACATGG-AGTGGGCACCAAGATGAAAAC
*
45215387 TCCCGTGTAAGACCAT
1 TCCCATGTAAGACCAT
45215403 ATCTAGGATA
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
49 6 0.11
50 47 0.87
51 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGAGTGGGCACCAAGATGAAAAC
Found at i:45215701 original size:20 final size:20
Alignment explanation
Indices: 45215676--45215724 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
45215666 TGAGTTATTT
45215676 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
45215696 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
45215716 AAG-AAGCAA
1 AAGTAAGCAA
45215725 AGACCACGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:45226795 original size:21 final size:23
Alignment explanation
Indices: 45226769--45226810 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
45226759 GGTAGGAATG
45226769 TTTTTGAAAAA-CT-TGCATTGA
1 TTTTTGAAAAAGCTCTGCATTGA
45226790 TTTTTGAAAAAGCTCTGCATT
1 TTTTTGAAAAAGCTCTGCATT
45226811 AACATCCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.58
22 2 0.11
23 6 0.32
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (23 bp):
TTTTTGAAAAAGCTCTGCATTGA
Found at i:45227309 original size:47 final size:47
Alignment explanation
Indices: 45227255--45227349 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
45227245 AATTAGTATT
45227255 TGATAAGATTATGCATGAAGCTTGGTTTTTATTAAAACCTGACAAAA
1 TGATAAGATTATGCATGAAGCTTGGTTTTTATTAAAACCTGACAAAA
45227302 TGATAAGATTATGCATGAAGCTTGGTTTTTATTAAAACCTGACAAAA
1 TGATAAGATTATGCATGAAGCTTGGTTTTTATTAAAACCTGACAAAA
45227349 T
1 T
45227350 CACTCTTTTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.35
Consensus pattern (47 bp):
TGATAAGATTATGCATGAAGCTTGGTTTTTATTAAAACCTGACAAAA
Found at i:45236803 original size:20 final size:22
Alignment explanation
Indices: 45236751--45236818 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 22
45236741 TGTCACTCAG
*
45236751 TCACACTGGCGTGTGCCTCCTT
1 TCACACAGGCGTGTGCCTCCTT
* *
45236773 TTACACAGGCGTGTG-CTTC-T
1 TCACACAGGCGTGTGCCTCCTT
* *
45236793 TCACACGGGCGTGTTCCT-CTT
1 TCACACAGGCGTGTGCCTCCTT
45236814 TCACA
1 TCACA
45236819 TGGGTGTGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 14 0.37
21 11 0.29
22 13 0.34
ACGTcount: A:0.13, C:0.32, G:0.22, T:0.32
Consensus pattern (22 bp):
TCACACAGGCGTGTGCCTCCTT
Found at i:45246685 original size:21 final size:20
Alignment explanation
Indices: 45246659--45246705 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
45246649 CATGAGGGAA
45246659 ATGTATCGA-TACATCCCTTAG
1 ATGTATC-ACTACAT-CCTTAG
*
45246680 ATGTATCACTACATCTTTAG
1 ATGTATCACTACATCCTTAG
45246700 ATGTAT
1 ATGTAT
45246706 TGGTACAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCACTACATCCTTAG
Found at i:45247422 original size:13 final size:13
Alignment explanation
Indices: 45247404--45247428 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45247394 TATTTTATTT
45247404 TAGAAAATTTTTG
1 TAGAAAATTTTTG
45247417 TAGAAAATTTTT
1 TAGAAAATTTTT
45247429 AAAATACCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TAGAAAATTTTTG
Found at i:45247587 original size:18 final size:17
Alignment explanation
Indices: 45247564--45247597 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
45247554 CCCAAATATA
*
45247564 GAAATATATATATATAAG
1 GAAATAAATATA-ATAAG
45247582 GAAATAAATATAATAA
1 GAAATAAATATAATAA
45247598 AAGTCTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (17 bp):
GAAATAAATATAATAAG
Found at i:45248774 original size:6 final size:6
Alignment explanation
Indices: 45248755--45248817 Score: 72
Period size: 6 Copynumber: 10.2 Consensus size: 6
45248745 ACCAATTTAG
* * * *
45248755 TTTATC TTTATT TTTCTT TTTATT TTTATT TGTAGTGT TTTTTT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTA-T-T TTTATT TTTATT
45248805 TTTATT TTTATT T
1 TTTATT TTTATT T
45248818 GAATTCCAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
6 43 0.90
7 2 0.04
8 3 0.06
ACGTcount: A:0.13, C:0.03, G:0.05, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:45248850 original size:3 final size:3
Alignment explanation
Indices: 45248842--45248887 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
45248832 TTTTTAATCC
45248842 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
45248888 TCTTCTTTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:45249003 original size:23 final size:22
Alignment explanation
Indices: 45248976--45249035 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
45248966 TGACATTACC
*
45248976 TTTAAACTTATTATTATTATAAT
1 TTTAAA-TTATTATTACTATAAT
* *
45248999 TTTAAAATGTAATA-TACTATTAT
1 TTT-AAAT-TATTATTACTATAAT
45249022 TTTAAATTATTATT
1 TTTAAATTATTATT
45249036 GACATGTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
21 4 0.13
22 5 0.17
23 14 0.47
24 7 0.23
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTAAATTATTATTACTATAAT
Found at i:45249066 original size:21 final size:21
Alignment explanation
Indices: 45249042--45249085 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
45249032 TATTGACATG
*
45249042 TTTTAAATTTATCATACATTT
1 TTTTAAATCTATCATACATTT
* * *
45249063 TTTTATATCTATTATATATTT
1 TTTTAAATCTATCATACATTT
45249084 TT
1 TT
45249086 ATCTTCAAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTAAATCTATCATACATTT
Found at i:45253915 original size:18 final size:19
Alignment explanation
Indices: 45253873--45253916 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
45253863 AATTTTAAAC
45253873 TATTTTAGGAAAATTTTTA
1 TATTTTAGGAAAATTTTTA
*
45253892 TATTTTA-GAAAGTTTATTA
1 TATTTTAGGAAAATTT-TTA
45253911 T-TTTTA
1 TATTTTA
45253917 AAATTTTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (19 bp):
TATTTTAGGAAAATTTTTA
Found at i:45254458 original size:20 final size:20
Alignment explanation
Indices: 45254413--45254465 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
45254403 CAAAGATTAC
45254413 AAAATAATTCAAAATAATTTT
1 AAAA-AATTCAAAATAATTTT
* *
45254434 CAAAAATTCAAAAT-GTTTAT
1 AAAAAATTCAAAATAATTT-T
*
45254454 AAAAATTTCAAA
1 AAAAAATTCAAA
45254466 TTTTTATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 3 0.11
20 21 0.78
21 3 0.11
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAAAATTCAAAATAATTTT
Found at i:45255405 original size:44 final size:45
Alignment explanation
Indices: 45255355--45255444 Score: 173
Period size: 44 Copynumber: 2.0 Consensus size: 45
45255345 AATTTAAAAA
45255355 TCCCTTCACTAAATTAAGTATTTATATTTTTTTT-CATACATACT
1 TCCCTTCACTAAATTAAGTATTTATATTTTTTTTACATACATACT
45255399 TCCCTTCACTAAATTAAGTATTTATATTTTTTTTACATACATACT
1 TCCCTTCACTAAATTAAGTATTTATATTTTTTTTACATACATACT
45255444 T
1 T
45255445 ATATTAAACA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 34 0.76
45 11 0.24
ACGTcount: A:0.30, C:0.18, G:0.02, T:0.50
Consensus pattern (45 bp):
TCCCTTCACTAAATTAAGTATTTATATTTTTTTTACATACATACT
Found at i:45262760 original size:8 final size:8
Alignment explanation
Indices: 45262747--45262805 Score: 55
Period size: 8 Copynumber: 7.1 Consensus size: 8
45262737 CCATGACTTG
45262747 TTTTTATT
1 TTTTTATT
45262755 TTTTTATT
1 TTTTTATT
* *
45262763 TTTATCTT
1 TTTTTATT
**
45262771 TTTCCATT
1 TTTTTATT
45262779 TTGTTTATT
1 TT-TTTATT
45262788 TTTTTATT
1 TTTTTATT
*
45262796 ATTTCTATT
1 -TTTTTATT
45262805 T
1 T
45262806 CTATTTTTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
8 28 0.68
9 13 0.32
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.78
Consensus pattern (8 bp):
TTTTTATT
Found at i:45262812 original size:32 final size:33
Alignment explanation
Indices: 45262749--45262817 Score: 95
Period size: 32 Copynumber: 2.1 Consensus size: 33
45262739 ATGACTTGTT
* *
45262749 TTTATTTTTTTATTTTTATCTTTTTCCATTTTG
1 TTTATTTTTTTATTATTATCTATTTCCATTTTG
* *
45262782 TTTATTTTTTTATTATT-TCTATTTCTATTTTT
1 TTTATTTTTTTATTATTATCTATTTCCATTTTG
45262814 TTTA
1 TTTA
45262818 AAAAAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 16 0.50
33 16 0.50
ACGTcount: A:0.14, C:0.07, G:0.01, T:0.77
Consensus pattern (33 bp):
TTTATTTTTTTATTATTATCTATTTCCATTTTG
Found at i:45269556 original size:25 final size:25
Alignment explanation
Indices: 45269528--45269599 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 25
45269518 AATTTTCTTG
45269528 AAATTTTATTGGGGTAAAATCGTCA
1 AAATTTTATTGGGGTAAAATCGTCA
* *
45269553 AAATTTTAGTGGGGGTAAAATTGTCA
1 AAATTTTA-TTGGGGTAAAATCGTCA
*
45269579 AAGATTTTACTGGGGTAAAAT
1 AA-ATTTTATTGGGGTAAAAT
45269600 TTGGGTGAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
25 8 0.20
26 27 0.66
27 6 0.15
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.35
Consensus pattern (25 bp):
AAATTTTATTGGGGTAAAATCGTCA
Found at i:45270182 original size:37 final size:37
Alignment explanation
Indices: 45270132--45270203 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
45270122 AAGAGAATAA
*
45270132 TGGAAAATATCGTTTGGTTGAAAGCTAGAAAATATAG
1 TGGAAAATATCGTTTGGTTGAAAGCCAGAAAATATAG
45270169 TGGAAAATATCGTTTGGTTGAAAGCCAGAAAATAT
1 TGGAAAATATCGTTTGGTTGAAAGCCAGAAAATAT
45270204 CAAGGATTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (37 bp):
TGGAAAATATCGTTTGGTTGAAAGCCAGAAAATATAG
Found at i:45278587 original size:26 final size:26
Alignment explanation
Indices: 45278553--45278616 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
45278543 TGAATGAATT
*
45278553 TTGTCAAAATTTTAGCAGGGGCAAAA
1 TTGTAAAAATTTTAGCAGGGGCAAAA
* * *
45278579 TTGTAAAAATTTTATCGGGGGTAAAA
1 TTGTAAAAATTTTAGCAGGGGCAAAA
*
45278605 TTGTTAAAATTT
1 TTGTAAAAATTT
45278617 ACGGGTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.38, C:0.06, G:0.20, T:0.36
Consensus pattern (26 bp):
TTGTAAAAATTTTAGCAGGGGCAAAA
Done.