Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 153 of 226
Found at i:47852456 original size:25 final size:25
Alignment explanation
Indices: 47852258--47852345 Score: 67
Period size: 23 Copynumber: 3.5 Consensus size: 25
47852248 TTTATATATA
* * *
47852258 AACTTACACAACACATAACTTATAT
1 AACTTACATAATACATAACTTACAT
47852283 AA--TACATAATACATAACTTACATAAT
1 AACTTACATAATACATAACTTAC---AT
* *
47852309 AACTTACATAATATC-TTACATA-AT
1 AACTTACATAATA-CATAACTTACAT
47852333 AACTTACATAATA
1 AACTTACATAATA
47852346 ATACATACCC
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
23 16 0.31
24 15 0.29
25 2 0.04
26 4 0.08
28 14 0.27
29 1 0.02
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (25 bp):
AACTTACATAATACATAACTTACAT
Found at i:47852500 original size:197 final size:195
Alignment explanation
Indices: 47852288--47852664 Score: 582
Period size: 197 Copynumber: 1.9 Consensus size: 195
47852278 TATATAATAC
* * *
47852288 ATAATACATAACTTACATAATAACTTACATA-ATATCTTACA-T-AATAACTTACATAATAATAC
1 ATAATACACAACTTAC---ATAACTTACATACATA-CATAAATTAAATAACTTACATAATAATAC
47852350 ATACCCTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTACATAACTTACATAA
62 ATACCCTACATAAATTAAATAAGTTACATAATACACAAAAAC-AAAACTTACATAACTTACATAA
* * *
47852415 TACATAACTTACATAACCTACT-TAATACATAACTTGCATAACTTACATAATACACAGCTTACAT
126 TACACAACTTACATAACCTA-TATAATACACAACTTACATAACTTACATAATACACAGCTTACAT
47852479 GTGTAA
190 GTGTAA
* *
47852485 ATAATACACAACTTACATAACTTACATACCCTACATAAATTAAATAAGTTACATAATAATACATA
1 ATAATACACAACTTACATAACTTACATA-CATACATAAATTAAATAACTTACATAATAATACATA
47852550 CCCTACATAAATTAAATAAGTTACATAATACACAAAAACAAAACTTACATAACTTACATAATACA
65 CCCTACATAAATTAAATAAGTTACATAATACACAAAAACAAAACTTACATAACTTACATAATACA
*
47852615 CAACTTACATAACTTATATAATACACAACTTACATAACTTACATAATACA
130 CAACTTACATAACCTATATAATACACAACTTACATAACTTACATAATACA
47852665 TAATTTACAT
Statistics
Matches: 166, Mismatches: 9, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
194 12 0.07
195 5 0.03
196 73 0.44
197 76 0.46
ACGTcount: A:0.50, C:0.19, G:0.02, T:0.29
Consensus pattern (195 bp):
ATAATACACAACTTACATAACTTACATACATACATAAATTAAATAACTTACATAATAATACATAC
CCTACATAAATTAAATAAGTTACATAATACACAAAAACAAAACTTACATAACTTACATAATACAC
AACTTACATAACCTATATAATACACAACTTACATAACTTACATAATACACAGCTTACATGTGTAA
Found at i:47852551 original size:37 final size:37
Alignment explanation
Indices: 47852507--47852579 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
47852497 TTACATAACT
47852507 TACATACCCTACATAAATTAAATAAGTTACATAATAA
1 TACATACCCTACATAAATTAAATAAGTTACATAATAA
47852544 TACATACCCTACATAAATTAAATAAGTTACATAATA
1 TACATACCCTACATAAATTAAATAAGTTACATAATA
47852580 CACAAAAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.51, C:0.16, G:0.03, T:0.30
Consensus pattern (37 bp):
TACATACCCTACATAAATTAAATAAGTTACATAATAA
Found at i:47852735 original size:25 final size:25
Alignment explanation
Indices: 47852395--47852512 Score: 141
Period size: 25 Copynumber: 4.8 Consensus size: 25
47852385 CAAAAACAAA
*
47852395 AACTTACATAACTTACATAATACAT
1 AACTTACATAACTTACATAATACAC
* * *
47852420 AACTTACATAACCTACTTAATACAT
1 AACTTACATAACTTACATAATACAC
*
47852445 AACTTGCATAACTTACATAATACAC
1 AACTTACATAACTTACATAATACAC
* * *
47852470 AGCTTACAT--GTGTAAATAATACAC
1 AACTTACATAACT-TACATAATACAC
47852494 AACTTACATAACTTACATA
1 AACTTACATAACTTACATA
47852513 CCCTACATAA
Statistics
Matches: 77, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
23 1 0.01
24 19 0.25
25 56 0.73
26 1 0.01
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.31
Consensus pattern (25 bp):
AACTTACATAACTTACATAATACAC
Found at i:47857678 original size:21 final size:21
Alignment explanation
Indices: 47857652--47857720 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
47857642 CAACTTAAAA
* * *
47857652 CAGAGGCGGCAGTGAGGGAAG
1 CAGAGGCCGCAGCGAGAGAAG
*
47857673 CAGAGGCTGCAGCGAGAGAAG
1 CAGAGGCCGCAGCGAGAGAAG
*
47857694 TAGAGGCCGCAGCGAGAGAAG
1 CAGAGGCCGCAGCGAGAGAAG
47857715 CAGAGG
1 CAGAGG
47857721 TTCAAAAGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.32, C:0.17, G:0.46, T:0.04
Consensus pattern (21 bp):
CAGAGGCCGCAGCGAGAGAAG
Found at i:47858187 original size:43 final size:42
Alignment explanation
Indices: 47858140--47858266 Score: 155
Period size: 43 Copynumber: 3.0 Consensus size: 42
47858130 ATCATATAGT
*
47858140 GGCGTTTGTGAAATAAGCGCCGCTAAAGAACACTACTTTTAGC
1 GGCGTTTGT-AAATAAGCGCCGCTAAAGAACATTACTTTTAGC
* * *
47858183 GGCGTTTGTAGATGAAGCGCCACTAAAGAATATTACTTTTAGC
1 GGCGTTTGTAAAT-AAGCGCCGCTAAAGAACATTACTTTTAGC
* * ** *
47858226 GGCGTTTTTTACCAAGCGCCGCTATAGAACATTACTTTTAG
1 GGCGTTTGTAAATAAGCGCCGCTAAAGAACATTACTTTTAG
47858267 TGGCATTTTT
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
42 28 0.39
43 43 0.61
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (42 bp):
GGCGTTTGTAAATAAGCGCCGCTAAAGAACATTACTTTTAGC
Found at i:47858260 original size:42 final size:42
Alignment explanation
Indices: 47858153--47858447 Score: 274
Period size: 42 Copynumber: 7.0 Consensus size: 42
47858143 GTTTGTGAAA
* * ***
47858153 TAAGCGCCGCTAAAGAACACTACTTTTAGCGGCGTTTGTAGA
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTCC
* *
47858195 TGAAGCGCCACTAAAGAATATTACTTTTAGCGGCGTTTTTTACC
1 T-AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTT-CC
* * *
47858239 -AAGCGCCGCTATAGAACATTACTTTTAGTGGCATTTTTTTCC
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGC-GTTTTTTCC
* * * *
47858281 TAAACGCCGCTAAAGATCATGTTC-TTTAGCGGCATTTTTTCC
1 TAAGCGCCGCTAAAGAACAT-TACTTTTAGCGGCGTTTTTTCC
* * ** *
47858323 AAAGTGCCGCTAAAGAACATTA-TCACTAGCAGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACATTACT-TTTAGCGGCGTTTTTTCC
* * *
47858365 TAAGCGCTGCTAAAGAACATGA-TCATTAGCGGCGTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATTACT-TTTAGCGGCG-TTTTTTCC
* * *
47858408 TAAGAGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTT
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTT
47858448 TCTGTAAGCG
Statistics
Matches: 207, Mismatches: 37, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.00
42 103 0.50
43 101 0.49
44 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTCC
Found at i:47858294 original size:85 final size:84
Alignment explanation
Indices: 47858158--47858449 Score: 234
Period size: 85 Copynumber: 3.4 Consensus size: 84
47858148 TGAAATAAGC
* * * *** * *
47858158 GCCGCTAAAGAACACTACTTTTAGCGGCGTTTGTAGATGAAGCGCCACTAAAGAATATTACTTTT
1 GCCGCTAAAGAACATTACTTTTAGCGGCTTTTTTTCCT-AAACGCCGCTAAAGAATATTACTTTT
*
47858223 AGCGGCGTTTTTTACC-AAGC
65 AGCGGCGTTTTTT-CCAAAGA
* * *
47858243 GCCGCTATAGAACATTACTTTTAGTGGCATTTTTTTCCTAAACGCCGCTAAAG-ATCATGTTC-T
1 GCCGCTAAAGAACATTACTTTTAGCGGC-TTTTTTTCCTAAACGCCGCTAAAGAAT-AT-TACTT
* *
47858306 TTAGCGGCATTTTTTCCAAAGT
63 TTAGCGGCGTTTTTTCCAAAGA
** * * * * * * *
47858328 GCCGCTAAAGAACATTA-TCACTAGCAGCGTTTTTTCCTAAGCGCTGCTAAAGAACATGA-TCAT
1 GCCGCTAAAGAACATTACT-TTTAGCGGCTTTTTTTCCTAAACGCCGCTAAAGAATATTACT-TT
*
47858391 TAGCGGCGTTTTTTTCCTAAGA
64 TAGCGGCG-TTTTTTCCAAAGA
* *
47858413 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTC
1 GCCGCTAAAGAACATTACTTTTAGCGGC-TTTTTTTC
47858450 TGTAAGCGCC
Statistics
Matches: 162, Mismatches: 34, Indels: 21
0.75 0.16 0.10
Matches are distributed among these distances:
84 36 0.22
85 112 0.69
86 14 0.09
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (84 bp):
GCCGCTAAAGAACATTACTTTTAGCGGCTTTTTTTCCTAAACGCCGCTAAAGAATATTACTTTTA
GCGGCGTTTTTTCCAAAGA
Found at i:47864934 original size:143 final size:141
Alignment explanation
Indices: 47864758--47865040 Score: 440
Period size: 143 Copynumber: 2.0 Consensus size: 141
47864748 CGGCGAGGTG
** *
47864758 GTAAGCCTTCAATTTTGTTTAATCATTTGGGTGCTTCTAATTGTTGGTTCTACAGTCGGGTTTTT
1 GTAAGCCTTCAATTTTGTTTAATCATTCAGGTGCTTCTAATTGTTGGTACTACAGTCGGGTTTTT
** *
47864823 GGTAAGTACCCTTTCTTTTTCGTTACGCATTAGGGTTTTTTCTGTTGTGAGTTTTAGGTTGCAAT
66 CATAAGTACCCTTT-TTTTTCGTTACGCATTAGGG-TTTTTCTGTTGTGAATTTTAGGTTGCAAT
47864888 TTTCATGAATGTT
129 TTTCATGAATGTT
* * * *
47864901 GTAAGTCTTCGATTTTGTTTAATCGTTCAGGTGCTTCTAATTGTTGGTACTGCAGTCGGGTTTTT
1 GTAAGCCTTCAATTTTGTTTAATCATTCAGGTGCTTCTAATTGTTGGTACTACAGTCGGGTTTTT
* *
47864966 CATAAGTACCCTTTTTTTTCGTTACGCGTTAGGGTTTTTCTGTTGTGAATTTTAGTTTGCAATTT
66 CATAAGTACCCTTTTTTTTCGTTACGCATTAGGGTTTTTCTGTTGTGAATTTTAGGTTGCAATTT
47865031 TCATGAATGT
131 TCATGAATGT
47865041 AAAGTTAAAT
Statistics
Matches: 128, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
141 39 0.30
142 19 0.15
143 70 0.55
ACGTcount: A:0.17, C:0.13, G:0.22, T:0.48
Consensus pattern (141 bp):
GTAAGCCTTCAATTTTGTTTAATCATTCAGGTGCTTCTAATTGTTGGTACTACAGTCGGGTTTTT
CATAAGTACCCTTTTTTTTCGTTACGCATTAGGGTTTTTCTGTTGTGAATTTTAGGTTGCAATTT
TCATGAATGTT
Found at i:47869423 original size:16 final size:16
Alignment explanation
Indices: 47869381--47869426 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
47869371 TATTTTTATT
47869381 TTTAA-ATTAAA-ATA
1 TTTAATATTAAATATA
* **
47869395 ATTAATAAGAAATATA
1 TTTAATATTAAATATA
47869411 TTTAATATTAAATATA
1 TTTAATATTAAATATA
47869427 ATTAGCCTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
14 4 0.17
15 4 0.17
16 16 0.67
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (16 bp):
TTTAATATTAAATATA
Found at i:47870741 original size:81 final size:81
Alignment explanation
Indices: 47870625--47870921 Score: 327
Period size: 81 Copynumber: 3.7 Consensus size: 81
47870615 TTATTCCTTT
* * * *
47870625 TTTTTATTTTGTTTCCGAATGAGAATTAATTGAATAATTCTATTTCGGGATTTATTCCCACCGTT
1 TTTTGATTTTGTTTCCAAACGAGAATTAATTAAATAATTCTATTTCGGGATTTATTCCCACCGTT
* *
47870690 CAATAGGTTTTATTTA
66 TAACAGGTTTTATTTA
* * *
47870706 TTTTGATTTTGTTTCCAAACGAGAATTAATTGAATAATTCTATTTCGGAATTTATTCCCGCCGTT
1 TTTTGATTTTGTTTCCAAACGAGAATTAATTAAATAATTCTATTTCGGGATTTATTCCCACCGTT
* * *
47870771 TAACCGATTTTATTCGA
66 TAACAGGTTTTATT-TA
* * * * * * *
47870788 TTTTGATTTTGTTTCTAAA-TAGGATTTAATTAAATAATTTTGTTTCGAGATTTATTCCCACCAT
1 TTTTGATTTTGTTTCCAAACGA-GAATTAATTAAATAATTCTATTTCGGGATTTATTCCCACCGT
*
47870852 TTAACA-G--AT-TTTA
65 TTAACAGGTTTTATTTA
* *
47870865 -TTCGATTTTGTTTCCAAACGAAGATTTAATTAAATAATTCTATTTCGGGATTTATTC
1 TTTTGATTTTGTTTCCAAACG-AGAATTAATTAAATAATTCTATTTCGGGATTTATTC
47870922 TTGTCGTTTA
Statistics
Matches: 182, Mismatches: 30, Indels: 12
0.81 0.13 0.05
Matches are distributed among these distances:
76 16 0.09
77 33 0.18
78 3 0.02
79 1 0.01
81 71 0.39
82 58 0.32
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.47
Consensus pattern (81 bp):
TTTTGATTTTGTTTCCAAACGAGAATTAATTAAATAATTCTATTTCGGGATTTATTCCCACCGTT
TAACAGGTTTTATTTA
Found at i:47870834 original size:82 final size:82
Alignment explanation
Indices: 47870625--47870958 Score: 317
Period size: 81 Copynumber: 4.1 Consensus size: 82
47870615 TTATTCCTTT
* * * *
47870625 TTTTTATTTTGTTTCCGAATGAGAATTAATTGAATAATTCTATTTCGGGATTTATTCCCACCGTT
1 TTTTGATTTTGTTTCCAAAAGAGAATTAATTGAATAATTCTATTTCGGAATTTATTCCCACCGTT
* * * *
47870690 CAATAGGTTTTATT-TA
66 TAACAGATTTTATTCGA
* *
47870706 TTTTGATTTTGTTTCCAAACGAGAATTAATTGAATAATTCTATTTCGGAATTTATTCCCGCCGTT
1 TTTTGATTTTGTTTCCAAAAGAGAATTAATTGAATAATTCTATTTCGGAATTTATTCCCACCGTT
*
47870771 TAACCGATTTTATTCGA
66 TAACAGATTTTATTCGA
* * * * * *
47870788 TTTTGATTTTGTTTCTAAATAG-GATTTAATTAAATAATTTTGTTTC-GAGATTTATTCCCACCA
1 TTTTGATTTTGTTTCCAAA-AGAGAATTAATTGAATAATTCTATTTCGGA-ATTTATTCCCACCG
47870851 TTTAACAGATTTTATTC--
64 TTTAACAGATTTTATTCGA
* * * * ****
47870868 ----GATTTTGTTTCCAAACGAAGATTTAATTAAATAATTCTATTTCGGGATTTATTCTTGTCGT
1 TTTTGATTTTGTTTCCAAAAG-AGAATTAATTGAATAATTCTATTTCGGAATTTATTCCCACCGT
* * *
47870929 TTAATAGATTTGATTTTGA
65 TTAACAGATTTTA-TTCGA
47870948 TTTTGATTTTG
1 TTTTGATTTTG
47870959 ATTTTGATTT
Statistics
Matches: 208, Mismatches: 32, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
75 1 0.00
76 14 0.07
77 43 0.21
78 3 0.01
81 72 0.35
82 67 0.32
83 1 0.00
84 7 0.03
ACGTcount: A:0.27, C:0.12, G:0.13, T:0.48
Consensus pattern (82 bp):
TTTTGATTTTGTTTCCAAAAGAGAATTAATTGAATAATTCTATTTCGGAATTTATTCCCACCGTT
TAACAGATTTTATTCGA
Found at i:47870948 original size:6 final size:6
Alignment explanation
Indices: 47870937--47870986 Score: 93
Period size: 6 Copynumber: 8.5 Consensus size: 6
47870927 GTTTAATAGA
47870937 TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTT-AT
1 TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT
47870984 TTT
1 TTT
47870987 CAAACAAGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 5 0.11
6 39 0.89
ACGTcount: A:0.16, C:0.00, G:0.14, T:0.70
Consensus pattern (6 bp):
TTTGAT
Found at i:47871104 original size:184 final size:183
Alignment explanation
Indices: 47870786--47871141 Score: 486
Period size: 184 Copynumber: 1.9 Consensus size: 183
47870776 GATTTTATTC
* * *
47870786 GATTTTGATTTTGTTTCTAAATAGGATTTAATTAAATAATTTTGTTTCGAGATTTATTCCCACCA
1 GATTTTGATTTTGTTTCTAAACAAGATTTAATTAAATAATTCTGTTTCGAGATTTATTCCCACCA
* * *
47870851 TTTAACAGATTTTATTCGATTTTGTTTCCAAACGAAGATTTAATTAAATAATTCTATTTCGGGAT
66 TTTAAAAGATTTTATTCGATTTTGTTTCCAAACGAAGATTTAATCAAATAATTCTATTTCGGAAT
* * * *
47870916 TTATTCTTGTCGTTTAATAGATTTGATTTTGATTTTGATTTTGATTTTGATTTT
131 TTATTCTCGCCGTTTAATAGATTTGA-TTCGATTTCGATTTTGATTTTGATTTT
* ***
47870970 GATTTTGATTTTATTT-TCAAACAAGATTTAATTAAATAATTCTGTTTCTG-GATTTATT-CTTG
1 GATTTTGATTTTGTTTCT-AAACAAGATTTAATTAAATAATTCTGTTTC-GAGATTTATTCCCAC
* *
47871032 CATTTAAAAGATTTTATTTTGATTTTGTTTCCAAAC-AAGATTTAATCAAATAAATTCTGTTTCG
64 CATTTAAAAGATTTTA-TTCGATTTTGTTTCCAAACGAAGATTTAATCAAAT-AATTCTATTTCG
*
47871096 GAATTTATTCTCGCCGTTTAATAGATTTTATTCGATTTCGATTTTG
127 GAATTTATTCTCGCCGTTTAATAGATTTGATTCGATTTCGATTTTG
47871142 TTGCTAAACA
Statistics
Matches: 151, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
183 45 0.30
184 105 0.70
185 1 0.01
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (183 bp):
GATTTTGATTTTGTTTCTAAACAAGATTTAATTAAATAATTCTGTTTCGAGATTTATTCCCACCA
TTTAAAAGATTTTATTCGATTTTGTTTCCAAACGAAGATTTAATCAAATAATTCTATTTCGGAAT
TTATTCTCGCCGTTTAATAGATTTGATTCGATTTCGATTTTGATTTTGATTTT
Found at i:47871166 original size:83 final size:75
Alignment explanation
Indices: 47870964--47871184 Score: 253
Period size: 76 Copynumber: 2.8 Consensus size: 75
47870954 TTTTGATTTT
* **
47870964 GATTTTGATTTTGATTTTATTTTCAAACAAGATTTAATTAAATAATTCTGTTTCTGGATTTATTC
1 GATTTT-ATTTTGATTTTGTTGCCAAACAAGATTTAATTAAATAATTCTGTTTC-GGATTTATTC
*
47871029 TTGCATTTAAAA
64 TCGCATTTAAAA
* *
47871041 GATTTTATTTTGATTTTGTTTCCAAACAAGATTTAATCAAATAAATTCTGTTTCGGAATTTATTC
1 GATTTTATTTTGATTTTGTTGCCAAACAAGATTTAATTAAAT-AATTCTGTTTCGG-ATTTATTC
* *
47871106 TCGCCGTTTAATA
64 TCG-CATTTAAAA
* *
47871119 GATTTTATTCGATTTCGATTTTGTTGCTAAACAAGATTTAATTAAATAATTTTGTTTCGGGATTT
1 GATTTTA-T---TTT-GATTTTGTTGCCAAACAAGATTTAATTAAATAATTCTGTTTC-GGATTT
47871184 A
60 A
47871185 ATCCTACTGT
Statistics
Matches: 125, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
76 35 0.28
77 27 0.22
78 14 0.11
79 1 0.01
82 18 0.14
83 30 0.24
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.48
Consensus pattern (75 bp):
GATTTTATTTTGATTTTGTTGCCAAACAAGATTTAATTAAATAATTCTGTTTCGGATTTATTCTC
GCATTTAAAA
Found at i:47871216 original size:83 final size:80
Alignment explanation
Indices: 47870962--47871221 Score: 223
Period size: 83 Copynumber: 3.2 Consensus size: 80
47870952 GATTTTGATT
* * * *
47870962 TTGATTTTGATTTTGATTTTATTTTCAAACAAGATTTAATTAAATAATTCTGTTTCTGGATTTAT
1 TTGATTTTGATTTTGATTTTGTTCT-AAACAAGATTTAATTAAATAATTCTGTTTCGGGATTTAA
*
47871027 TCTTGCAT-TT-AA-AA
65 TCCTGC-TGTTAAAGAA
* * *
47871041 --GATTTT-ATTTTGATTTTGTTTCCAAACAAGATTTAATCAAATAAATTCTGTTTCGGAATTT-
1 TTGATTTTGATTTTGATTTTG-TTCTAAACAAGATTTAATTAAAT-AATTCTGTTTCGGGATTTA
* * *
47871102 ATTCTCGCCGTTTAATAGAT
64 ATCCT-GCTG-TTAA-AGAA
* * * *
47871122 TTTA-TTCGATTTCGATTTTGTTGCTAAACAAGATTTAATTAAATAATTTTGTTTCGGGATTTAA
1 TTGATTTTGATTTTGATTTTGTT-CTAAACAAGATTTAATTAAATAATTCTGTTTCGGGATTTAA
*
47871186 TCCTACTGTTCAACAGAA
65 TCCTGCTGTT-AA-AGAA
47871204 TTGATTTTGATTTT-ATTT
1 TTGATTTTGATTTTGATTT
47871222 CAGAATTTTA
Statistics
Matches: 140, Mismatches: 26, Indels: 27
0.73 0.13 0.14
Matches are distributed among these distances:
76 31 0.22
77 26 0.19
78 2 0.01
79 1 0.01
80 1 0.01
81 3 0.02
82 34 0.24
83 42 0.30
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.49
Consensus pattern (80 bp):
TTGATTTTGATTTTGATTTTGTTCTAAACAAGATTTAATTAAATAATTCTGTTTCGGGATTTAAT
CCTGCTGTTAAAGAA
Found at i:47877601 original size:20 final size:20
Alignment explanation
Indices: 47877558--47877604 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
47877548 ATATCTTGAT
*
47877558 TTGATTTGATTCCAATCAAT
1 TTGATTTGATTCCAATCAAA
** *
47877578 TTGATTTGATTTTATTCAAA
1 TTGATTTGATTCCAATCAAA
47877598 TTGATTT
1 TTGATTT
47877605 ATTAATGTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.09, G:0.11, T:0.53
Consensus pattern (20 bp):
TTGATTTGATTCCAATCAAA
Found at i:47877730 original size:523 final size:531
Alignment explanation
Indices: 47876739--47877801 Score: 1511
Period size: 523 Copynumber: 2.0 Consensus size: 531
47876729 AGGAAAAGAA
* *
47876739 AAGCTTAGATCCCATATTGGTTAAATACCAAGTGTGAGATATGTATATATATGATAACCCACTTG
1 AAGCTTAGATCCCATATTGGTTAAATACCAAATGTGAGATATGTATATATATGAGAACCCACTTG
* * *
47876804 AGGATTATTAAATGACTAAGCTTGAAACCCTGTCTCATACGCAAAGGAGGGTACAGATCCAAACC
66 AGGATTATTAAATGACTAAGCTTGAAACCCTGCCTCACACACAAAGGAGGGTACAGATCCAAACC
* * * * * * * *
47876869 CGTCGGGGTTGGGGGCACACCTGCACGATGTGGGCGATGCAAAATGCCCAGATCGGTCAAGCCCA
131 CGCCAGGGTTGGGAGCACACCTGCACGACGTGGGCAACGCAAAATGCCCAGACCGATCAAGCCCA
* *
47876934 AAAAGGGCCTACGGATATTTTAACTCAATACAAAATTTATTTTTTTCCTCAACAGATATTATACA
196 AAAAGGGCCTACGAATATTTTAACCCAATACAAAATTTATTTTTTTCCTCAACAGATATTATACA
* * * *
47876999 TAGTCTATTTTAAAAGGTCAAATATGTTGATTTGATTTGATTCGATTCTAATCAATTTGATTTTA
261 GAATCTATTTTAAAAGGTCAAATATCTTGATTTGATTTGATTC---TCTAATCAATTTGATTTGA
* *
47877064 TTTTATTTAAATTGATTTATTAATGCATATTTGTATCTTTATTCATGGAAATTTCCAAAATTCCA
323 TTTTATTCAAATTGATTTATTAATGCAGATTTGTATCTTTATTCATGGAAATTTCCAAAATTCCA
* * * *
47877129 CCATATTAAATTCCTATAAAAGCCTAAAGAATACTGCATAGTTCTTTACAGCCATAGAGAAATAA
388 CCATATTAAATTCCTATAAAAGCCTAAAGAATACTGCAGAATTCTTTACAGCCAAAAAGAAATAA
*
47877194 CGAATTTTTTCACTCTAAAAAATTCTT-TTC-T-TTTT-CCTC-CCTAAATTTTCAAACTTTTCG
453 CGAATTTTTTCACTCTAAAAAATTCTTATTCTTCTTTTCCCTCTCC-AAATTTTCAAACTTTTCA
47877254 GTGATAGAAGAAGGC
517 GTGATAGAAGAAGGC
47877269 AAGCTTAGATCCCACT-TTGGTTTAAATACCAAATGTGAGATATGTATATATATGAGAACCCACT
1 AAGCTTAGATCCCA-TATTGG-TTAAATACCAAATGTGAGATATGTATATATATGAGAACCCACT
* * * ** * *
47877333 TGAGGGTTATTGAATGACTAAGCTTGAAACCCTGCCTCACGCACAAAGG-GGGTGTAGGTTCAAA
64 TGAGGATTATTAAATGACTAAGCTTGAAACCCTGCCTCACACACAAAGGAGGGTACAGATCCAAA
* * *
47877397 CCCGCCAGGGTTGGGAGCGCACCTGCACGACGTGGGCAACGCGAAATGCCCGGACCGATCAAGCC
129 CCCGCCAGGGTTGGGAGCACACCTGCACGACGTGGGCAACGCAAAATGCCCAGACCGATCAAGCC
* **
47877462 CAAAAA-GGCCTACGAATATTTTAGCCCAATACAAAATTTATTTTTTT-CTCAGTAGATATTATA
194 CAAAAAGGGCCTACGAATATTTTAACCCAATACAAAATTTATTTTTTTCCTCAACAGATATTATA
* * *
47877525 CAGAATTTTTTTTAAACGGTCAAATATCTTGATTTGATTTGATTC-C-AATCAATTTGATTTGAT
259 CAGAATCTATTTTAAAAGGTCAAATATCTTGATTTGATTTGATTCTCTAATCAATTTGATTTGAT
* *
47877588 TTTATTCAAATTGATTTATTAATGTAGATTTGTATCTTTATTCATGGAAATTTCCAAAATTCCTC
324 TTTATTCAAATTGATTTATTAATGCAGATTTGTATCTTTATTCATGGAAATTTCCAAAATTCCAC
* *
47877653 CATATTGAATGT-CTATAAAAGCCTAAAGAATACTGTAGAATTCTTTACAGCCAAAAAGAAATAA
389 CATATTAAAT-TCCTATAAAAGCCTAAAGAATACTGCAGAATTCTTTACAGCCAAAAAGAAATAA
*
47877717 CGAATTTTTTCACTCTAAAAAATTCTTAAATTCTTTTCTTTTCCCTCTCCAAATTTTCGAACTTT
453 CGAATTTTTTCACTCTAAAAAATTCTT--ATTC--TTCTTTTCCCTCTCCAAATTTTCAAACTTT
*
47877782 TCAGTGATAGAAGAATGC
514 TCAGTGATAGAAGAAGGC
47877800 AA
1 AA
47877802 AGTTTGCCTG
Statistics
Matches: 473, Mismatches: 48, Indels: 23
0.87 0.09 0.04
Matches are distributed among these distances:
523 160 0.34
524 2 0.00
526 3 0.01
528 53 0.11
529 39 0.08
530 93 0.20
531 121 0.26
532 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (531 bp):
AAGCTTAGATCCCATATTGGTTAAATACCAAATGTGAGATATGTATATATATGAGAACCCACTTG
AGGATTATTAAATGACTAAGCTTGAAACCCTGCCTCACACACAAAGGAGGGTACAGATCCAAACC
CGCCAGGGTTGGGAGCACACCTGCACGACGTGGGCAACGCAAAATGCCCAGACCGATCAAGCCCA
AAAAGGGCCTACGAATATTTTAACCCAATACAAAATTTATTTTTTTCCTCAACAGATATTATACA
GAATCTATTTTAAAAGGTCAAATATCTTGATTTGATTTGATTCTCTAATCAATTTGATTTGATTT
TATTCAAATTGATTTATTAATGCAGATTTGTATCTTTATTCATGGAAATTTCCAAAATTCCACCA
TATTAAATTCCTATAAAAGCCTAAAGAATACTGCAGAATTCTTTACAGCCAAAAAGAAATAACGA
ATTTTTTCACTCTAAAAAATTCTTATTCTTCTTTTCCCTCTCCAAATTTTCAAACTTTTCAGTGA
TAGAAGAAGGC
Found at i:47878106 original size:16 final size:16
Alignment explanation
Indices: 47878085--47878120 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
47878075 TTTTACATAA
*
47878085 ATATAAATATTTGTTT
1 ATATAAATATTTGCTT
47878101 ATATAAATATTTGCTT
1 ATATAAATATTTGCTT
47878117 ATAT
1 ATAT
47878121 TAATTTGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (16 bp):
ATATAAATATTTGCTT
Found at i:47887484 original size:20 final size:20
Alignment explanation
Indices: 47887459--47887499 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
47887449 GAATGTTACT
47887459 ATAATCCACAAAAGATTCAA
1 ATAATCCACAAAAGATTCAA
*
47887479 ATAATCCATAAAAGATTCAA
1 ATAATCCACAAAAGATTCAA
47887499 A
1 A
47887500 CTTAGCTAGA
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:0.56, C:0.17, G:0.05, T:0.22
Consensus pattern (20 bp):
ATAATCCACAAAAGATTCAA
Found at i:47888151 original size:7 final size:7
Alignment explanation
Indices: 47888128--47888161 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
47888118 ATAGTAAAAG
47888128 AAATATAT
1 AAATAT-T
*
47888136 AATTATT
1 AAATATT
47888143 AAATATT
1 AAATATT
47888150 AAATATT
1 AAATATT
47888157 AAATA
1 AAATA
47888162 AATATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 19 0.79
8 5 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
AAATATT
Found at i:47893015 original size:26 final size:26
Alignment explanation
Indices: 47892979--47893031 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
47892969 AGAGCGAAGT
47892979 TAGAAAATTC-TTTAACGGGGTTGAAA
1 TAGAAAATTCTTTTAA-GGGGTTGAAA
* *
47893005 TAGAAATTTCTTTTAAGTGGTTGAAA
1 TAGAAAATTCTTTTAAGGGGTTGAAA
47893031 T
1 T
47893032 TAAATTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.38
Consensus pattern (26 bp):
TAGAAAATTCTTTTAAGGGGTTGAAA
Found at i:47893151 original size:30 final size:30
Alignment explanation
Indices: 47893090--47893151 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
47893080 AGTCTCTATA
*
47893090 TTTATAATCTTTAAAAGATCAAATTAAAAT
1 TTTATAATCTTTAAAAGATCAAAGTAAAAT
* * *
47893120 TTTATCAT-TTTAAAAGAATTAAAGTACAAT
1 TTTATAATCTTTAAAAG-ATCAAAGTAAAAT
47893150 TT
1 TT
47893152 CATCTTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.42
Consensus pattern (30 bp):
TTTATAATCTTTAAAAGATCAAAGTAAAAT
Found at i:47896370 original size:24 final size:23
Alignment explanation
Indices: 47896343--47896440 Score: 92
Period size: 24 Copynumber: 4.2 Consensus size: 23
47896333 CTGTGAATTG
*
47896343 TATTTTTAGAAATGCTACGAACTA
1 TATTTATAGAAAT-CTACGAACTA
*
47896367 TATTTATAGAAATATCACGAACTA
1 TATTTATAGAAATCT-ACGAACTA
* *
47896391 TA-TCATAGAATAT-TACGAACTG
1 TATTTATAGAA-ATCTACGAACTA
* *
47896413 TATTTACAGAAATACTGCGAACTA
1 TATTTATAGAAAT-CTACGAACTA
47896437 TATT
1 TATT
47896441 GTAATCCATA
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
22 11 0.18
23 15 0.25
24 35 0.57
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (23 bp):
TATTTATAGAAATCTACGAACTA
Found at i:47896574 original size:54 final size:54
Alignment explanation
Indices: 47896516--47896618 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 54
47896506 AAATCAACGA
** *
47896516 ACCGCGAGATTTGTAAAAGCCCATAAGTAGAAGGTCATGATCGTAAATCGGTAG
1 ACCGCGAGATTCATAAAAGCCCATAAGTAAAAGGTCATGATCGTAAATCGGTAG
* * *
47896570 ACCGCGAGATTCATAAAATCCTATAAGTAAAAGGTCGTGATCGTAAATC
1 ACCGCGAGATTCATAAAAGCCCATAAGTAAAAGGTCATGATCGTAAATC
47896619 AACGGACCAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.23
Consensus pattern (54 bp):
ACCGCGAGATTCATAAAAGCCCATAAGTAAAAGGTCATGATCGTAAATCGGTAG
Found at i:47896650 original size:39 final size:39
Alignment explanation
Indices: 47896599--47896798 Score: 195
Period size: 39 Copynumber: 5.1 Consensus size: 39
47896589 CCTATAAGTA
* * * *
47896599 AAAGGTCGTGATCGTAAATCAACGGACCATAAGAAAACC
1 AAAGGTCATGATCGTAAATCAGCGGACCGTAAGAAAACT
* * * *
47896638 GAAGGCCATGATCGTAAATTAGCGAACCGTAAGAAAACT
1 AAAGGTCATGATCGTAAATCAGCGGACCGTAAGAAAACT
* * *
47896677 AAAGGTCATGATCGTAAATCCA-TGGACTGTAAGAAAGCT
1 AAAGGTCATGATCGTAAAT-CAGCGGACCGTAAGAAAACT
* * * *
47896716 AAAAGTCGTGATCGTAAATCAGCGGACCCCTAAGAAAGCT
1 AAAGGTCATGATCGTAAATCAGCGGA-CCGTAAGAAAACT
* * * * *
47896756 GAAGGTCATAACCGTAAATCAGTGGACCGTAAGAAAGCT
1 AAAGGTCATGATCGTAAATCAGCGGACCGTAAGAAAACT
47896795 AAAG
1 AAAG
47896799 ATCGCAATTG
Statistics
Matches: 130, Mismatches: 28, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
38 2 0.02
39 96 0.74
40 32 0.25
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (39 bp):
AAAGGTCATGATCGTAAATCAGCGGACCGTAAGAAAACT
Found at i:47896774 original size:79 final size:78
Alignment explanation
Indices: 47896646--47896797 Score: 207
Period size: 79 Copynumber: 1.9 Consensus size: 78
47896636 CCGAAGGCCA
* * * * *
47896646 TGATCGTAAATTAGCGAACCGTAAGAAAACTAAAGGTCATGATCGTAAATCCA-TGGACTGTAAG
1 TGATCGTAAATCAGCGAACCCTAAGAAAACTAAAGGTCATAACCGTAAAT-CAGTGGACCGTAAG
47896710 AAAGCTAAAAGTCG
65 AAAGCTAAAAGTCG
* * *
47896724 TGATCGTAAATCAGCGGACCCCTAAGAAAGCTGAAGGTCATAACCGTAAATCAGTGGACCGTAAG
1 TGATCGTAAATCAGC-GAACCCTAAGAAAACTAAAGGTCATAACCGTAAATCAGTGGACCGTAAG
47896789 AAAGCTAAA
65 AAAGCTAAA
47896798 GATCGCAATT
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
78 16 0.25
79 48 0.75
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.20
Consensus pattern (78 bp):
TGATCGTAAATCAGCGAACCCTAAGAAAACTAAAGGTCATAACCGTAAATCAGTGGACCGTAAGA
AAGCTAAAAGTCG
Found at i:47896812 original size:39 final size:39
Alignment explanation
Indices: 47896648--47896815 Score: 142
Period size: 39 Copynumber: 4.3 Consensus size: 39
47896638 GAAGGCCATG
* * * * * *
47896648 ATCGTAAATTAGCGAACCGTAAGAAAACTAAAGGTCATG
1 ATCGTAAATCAGTGGACCGTAAGAAAGCTAAAGATCATA
* * *
47896687 ATCGTAAATCCA-TGGACTGTAAGAAAGCTAAA-AGTCGTG
1 ATCGTAAAT-CAGTGGACCGTAAGAAAGCTAAAGA-TCATA
* * * *
47896726 ATCGTAAATCAGCGGACCCCTAAGAAAGCTGAAGGTCATA
1 ATCGTAAATCAGTGGA-CCGTAAGAAAGCTAAAGATCATA
* **
47896766 ACCGTAAATCAGTGGACCGTAAGAAAGCTAAAGATCGCA
1 ATCGTAAATCAGTGGACCGTAAGAAAGCTAAAGATCATA
*
47896805 ATTGTAAATCA
1 ATCGTAAATCA
47896816 ACAGATCGCG
Statistics
Matches: 101, Mismatches: 23, Indels: 10
0.75 0.17 0.07
Matches are distributed among these distances:
38 2 0.02
39 68 0.67
40 31 0.31
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.20
Consensus pattern (39 bp):
ATCGTAAATCAGTGGACCGTAAGAAAGCTAAAGATCATA
Found at i:47896812 original size:79 final size:79
Alignment explanation
Indices: 47896648--47896815 Score: 198
Period size: 79 Copynumber: 2.1 Consensus size: 79
47896638 GAAGGCCATG
* * * * * *
47896648 ATCGTAAATTAGC-GAACCGTAAGAAAACTAAAGGTCATGATCGTAAATCCATGGACTGTAAGAA
1 ATCGTAAATCAGCGGACCCCTAAGAAAACTAAAGGTCATAACCGTAAATCCATGGACCGTAAGAA
**
47896712 AGCTAAAAGTCGTG
66 AGCTAAAAGTCGCA
* *
47896726 ATCGTAAATCAGCGGACCCCTAAGAAAGCTGAAGGTCATAACCGTAAAT-CAGTGGACCGTAAGA
1 ATCGTAAATCAGCGGACCCCTAAGAAAACTAAAGGTCATAACCGTAAATCCA-TGGACCGTAAGA
47896790 AAGCT-AAAGATCGCA
65 AAGCTAAAAG-TCGCA
*
47896805 ATTGTAAATCA
1 ATCGTAAATCA
47896816 ACAGATCGCG
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 18 0.24
79 58 0.76
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.20
Consensus pattern (79 bp):
ATCGTAAATCAGCGGACCCCTAAGAAAACTAAAGGTCATAACCGTAAATCCATGGACCGTAAGAA
AGCTAAAAGTCGCA
Found at i:47896812 original size:118 final size:118
Alignment explanation
Indices: 47896597--47896814 Score: 276
Period size: 118 Copynumber: 1.8 Consensus size: 118
47896587 ATCCTATAAG
* * *
47896597 TAAAAGGTCGTGATCGTAAATCAACGGACCATAAGAAAACCGAAGGCCATGATCGTAAATTAGCG
1 TAAAAGGTCGTGATCGTAAATCAACGGACCATAAGAAAACCGAAGGCCATAACCGTAAATCAGCG
* **
47896662 AACCGTAAGAAAACTAAAGGTCATGATCGTAAATCCATGGACTGTAAGAAAGC
66 AACCGTAAGAAAACTAAAGATCACAATCGTAAATCCATGGACTGTAAGAAAGC
* * * * * *
47896715 TAAAA-GTCGTGATCGTAAATCAGCGGACCCCTAAGAAAGCTGAAGGTCATAACCGTAAATCAGT
1 TAAAAGGTCGTGATCGTAAATCAACGGA-CCATAAGAAAACCGAAGGCCATAACCGTAAATCAGC
* * * *
47896779 GGACCGTAAGAAAGCTAAAGATCGCAATTGTAAATC
65 GAACCGTAAGAAAACTAAAGATCACAATCGTAAATC
47896815 AACAGATCGC
Statistics
Matches: 83, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
117 21 0.25
118 62 0.75
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.19
Consensus pattern (118 bp):
TAAAAGGTCGTGATCGTAAATCAACGGACCATAAGAAAACCGAAGGCCATAACCGTAAATCAGCG
AACCGTAAGAAAACTAAAGATCACAATCGTAAATCCATGGACTGTAAGAAAGC
Found at i:47896891 original size:54 final size:54
Alignment explanation
Indices: 47896833--47897037 Score: 277
Period size: 54 Copynumber: 3.8 Consensus size: 54
47896823 GCGAGGTTCA
* * *
47896833 TAAAATCTCATAAGTAAAAGGTCGTGATCATAAATCACTGGACCGCGAGATTTG
1 TAAAATCTCATAAGTAAAAGGTCGTGATCATAAATCAGTGGACTGCAAGATTTG
*
47896887 TAAAATC-CTATAAGTAAAAGGTCGTGATCGTAAATCAGTGGACTGCAAGATTTG
1 TAAAATCTC-ATAAGTAAAAGGTCGTGATCATAAATCAGTGGACTGCAAGATTTG
* * * * * *
47896941 TAAAATCTCGTAAGTAAAAGGTCATGATCGTAAATCAGTAGACTGTAAGATTCG
1 TAAAATCTCATAAGTAAAAGGTCGTGATCATAAATCAGTGGACTGCAAGATTTG
* * *
47896995 TAAAATCTCGTAAGTAAAAGGTTGTGATCATAAATCAGCGGAC
1 TAAAATCTCATAAGTAAAAGGTCGTGATCATAAATCAGTGGAC
47897038 CATAAGAAGG
Statistics
Matches: 135, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
53 1 0.01
54 133 0.99
55 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (54 bp):
TAAAATCTCATAAGTAAAAGGTCGTGATCATAAATCAGTGGACTGCAAGATTTG
Found at i:47897068 original size:39 final size:38
Alignment explanation
Indices: 47897019--47897148 Score: 170
Period size: 39 Copynumber: 3.3 Consensus size: 38
47897009 TAAAAGGTTG
* *
47897019 TGATCATAAATCAGCGGACCATAAGAAGGCCGAAGGTCA
1 TGATCGTAAATCAG-GGACCATAAGAAAGCCGAAGGTCA
* * * *
47897058 TGATTGTAAATCAAGGGACCATAAGAAAACCAAAGGTAA
1 TGATCGTAAATC-AGGGACCATAAGAAAGCCGAAGGTCA
*
47897097 TGATCGTAAATCAGTGGATCATAAGAAAGCCGAAGGTCA
1 TGATCGTAAATCAG-GGACCATAAGAAAGCCGAAGGTCA
47897136 TGATCGTAAATCA
1 TGATCGTAAATCA
47897149 ACGGGCCGCG
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
38 2 0.03
39 74 0.95
40 2 0.03
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (38 bp):
TGATCGTAAATCAGGGACCATAAGAAAGCCGAAGGTCA
Found at i:47901633 original size:30 final size:30
Alignment explanation
Indices: 47901597--47901654 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
47901587 ATGTTTGAGT
47901597 TGGATAATTAACAAACCCCAAATTAATTAA
1 TGGATAATTAACAAACCCCAAATTAATTAA
* * *
47901627 TGGATAATTAATAGACTCCAAATTAATT
1 TGGATAATTAACAAACCCCAAATTAATT
47901655 GATAATGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.31
Consensus pattern (30 bp):
TGGATAATTAACAAACCCCAAATTAATTAA
Found at i:47904251 original size:2 final size:2
Alignment explanation
Indices: 47904246--47904275 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
47904236 GAACTATAGT
47904246 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
47904276 TTCTAACTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:47907529 original size:21 final size:21
Alignment explanation
Indices: 47907505--47907597 Score: 105
Period size: 21 Copynumber: 4.4 Consensus size: 21
47907495 TTCTTTTGAA
*
47907505 CCTCTGCTTCTCGCGCTGCAG
1 CCTCTGCTTCTCTCGCTGCAG
* *
47907526 CCTCTGCTTCTCTTGCTGTAG
1 CCTCTGCTTCTCTCGCTGCAG
*
47907547 CCTCTGCTTCCCTCGCTGCAG
1 CCTCTGCTTCTCTCGCTGCAG
* * * *
47907568 CCTATGCTTCCCTCGTTGCCG
1 CCTCTGCTTCTCTCGCTGCAG
*
47907589 CCTTTGCTT
1 CCTCTGCTT
47907598 TAAGTTGTAG
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.04, C:0.41, G:0.19, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCAG
Found at i:47909477 original size:9 final size:9
Alignment explanation
Indices: 47909460--47909884 Score: 331
Period size: 9 Copynumber: 48.8 Consensus size: 9
47909450 TCATAGATAA
*
47909460 GTAAATTAT
1 GTAAGTTAT
47909469 GTAAGTTAT
1 GTAAGTTAT
*
47909478 GTACGTGTA-
1 GTAAGT-TAT
47909487 -TAAGTTAT
1 GTAAGTTAT
47909495 GTAAGTTAT
1 GTAAGTTAT
*
47909504 GT-A-TTAA
1 GTAAGTTAT
*
47909511 GTAAGCTAT
1 GTAAGTTAT
*
47909520 GTAAGTTGT
1 GTAAGTTAT
47909529 GT-A-TTAT
1 GTAAGTTAT
47909536 GTAAGTTAT
1 GTAAGTTAT
47909545 GTAAGTTAT
1 GTAAGTTAT
** *
47909554 CAAAGTAAT
1 GTAAGTTAT
*
47909563 GTATGTTAT
1 GTAAGTTAT
*
47909572 GTGAG-T-T
1 GTAAGTTAT
47909579 GTAAGTTAT
1 GTAAGTTAT
*
47909588 -TATGTATTAT
1 GTAAG--TTAT
47909598 GTAAGTTAT
1 GTAAGTTAT
47909607 GTAAGTTAT
1 GTAAGTTAT
47909616 GTAAGTTAAAT
1 GTAAGTT--AT
47909627 GT-A-TTAT
1 GTAAGTTAT
*
47909634 GTAGGTTAT
1 GTAAGTTAT
*
47909643 GTAAGTTGT
1 GTAAGTTAT
*
47909652 GTAAGATAT
1 GTAAGTTAT
*
47909661 TTAAGTTAT
1 GTAAGTTAT
*
47909670 GTAAGTTTT
1 GTAAGTTAT
47909679 GT-A-TTAT
1 GTAAGTTAT
47909686 GTAAGTTAT
1 GTAAGTTAT
47909695 GTAAGTTAAAT
1 GTAAGTT--AT
47909706 GT-A-TTAT
1 GTAAGTTAT
*
47909713 GTAGGTTAT
1 GTAAGTTAT
*
47909722 GTAAGTTGT
1 GTAAGTTAT
*
47909731 GTAAGATAT
1 GTAAGTTAT
*
47909740 TTAAGTTAT
1 GTAAGTTAT
47909749 GTAAGCTT-T
1 GTAAG-TTAT
47909758 GT-A-TTAT
1 GTAAGTTAT
47909765 GTAAGTTAT
1 GTAAGTTAT
* *
47909774 GTATGCTAT
1 GTAAGTTAT
47909783 GTAAGTTAAAT
1 GTAAGTT--AT
47909794 GT-A-TTAT
1 GTAAGTTAT
*
47909801 GTAGGTTAT
1 GTAAGTTAT
*
47909810 GTAAGTTGT
1 GTAAGTTAT
*
47909819 GTAAGATAT
1 GTAAGTTAT
*
47909828 TTAAGTTAT
1 GTAAGTTAT
*
47909837 GTAAGTTTT
1 GTAAGTTAT
47909846 GT-A-TTAT
1 GTAAGTTAT
47909853 GTAAGTTAT
1 GTAAGTTAT
* *
47909862 GTATGCTAT
1 GTAAGTTAT
47909871 GT-A-TTAT
1 GTAAGTTAT
47909878 GTAAGTT
1 GTAAGTT
47909885 GTTATGTTAT
Statistics
Matches: 325, Mismatches: 57, Indels: 68
0.72 0.13 0.15
Matches are distributed among these distances:
6 2 0.01
7 47 0.14
8 20 0.06
9 230 0.71
10 11 0.03
11 15 0.05
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:47909691 original size:79 final size:79
Alignment explanation
Indices: 47909603--47909880 Score: 434
Period size: 79 Copynumber: 3.4 Consensus size: 79
47909593 ATTATGTAAG
47909603 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGATATTTAAGTT
1 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGATATTTAAGTT
47909668 ATGTAAGTTTTGTA
66 ATGTAAGTTTTGTA
47909682 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGATATTTAAGTT
1 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGATATTTAAGTT
*
47909747 ATGTAAGCTTTGTA
66 ATGTAAGTTTTGTA
47909761 TTATGTAAGTTATGTATGCTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGAT
1 TTATGT-A---A-G--T--TATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGAT
47909826 ATTTAAGTTATGTAAGTTTTGTA
57 ATTTAAGTTATGTAAGTTTTGTA
* *
47909849 TTATGTAAGTTATGTATGCT--ATGTATTATGTA
1 TTATGTAAGTTATGTAAGTTAAATGTATTATGTA
47909881 AGTTGTTATG
Statistics
Matches: 186, Mismatches: 4, Indels: 20
0.89 0.02 0.10
Matches are distributed among these distances:
77 12 0.06
79 92 0.49
80 1 0.01
81 1 0.01
83 2 0.01
84 2 0.01
86 1 0.01
87 1 0.01
88 74 0.40
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (79 bp):
TTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGATATTTAAGTT
ATGTAAGTTTTGTA
Found at i:47909694 original size:88 final size:88
Alignment explanation
Indices: 47909465--47909873 Score: 463
Period size: 88 Copynumber: 4.8 Consensus size: 88
47909455 GATAAGTAAA
* * * * * * * *
47909465 TTATGTAAGTTATGTACG-TGTATAAGTTATGTAAGTTATGTATTAAGTAAGCTATGTAAGTTGT
1 TTATGTAAGTTGTGTAAGATATTTAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTAT
*
47909529 GT-A-TT--ATGTAAGTTATGTAAG
66 GTAAGTTAAATGT-A-TTATGTAGG
** ** * * * *
47909550 TTATCAAAGTAATGTATGTTATGTGAG-T-TGTAAGTTATTATGTATTATGTAAGTTATGTAAGT
1 TTATGTAAGTTGTGTAAGATATTTAAGTTATGTAAG-T-TT-TGTATTATGTAAGTTATGTAAGT
47909613 TATGTAAGTTAAATGTATTATGTAGG
63 TATGTAAGTTAAATGTATTATGTAGG
47909639 TTATGTAAGTTGTGTAAGATATTTAAGTTATGTAA-----GT-TT-TGT-A-TTATGTAAGTTAT
1 TTATGTAAGTTGTGTAAGATATTTAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTAT
47909695 GTAAGTTAAATGTATTATGTAGG
66 GTAAGTTAAATGTATTATGTAGG
* * *
47909718 TTATGTAAGTTGTGTAAGATATTTAAGTTATGTAAGCTTTGTATTATGTAAGTTATGTATGCTAT
1 TTATGTAAGTTGTGTAAGATATTTAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTAT
47909783 GTAAGTTAAATGTATTATGTAGG
66 GTAAGTTAAATGTATTATGTAGG
* *
47909806 TTATGTAAGTTGTGTAAGATATTTAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTATGCTAT
1 TTATGTAAGTTGTGTAAGATATTTAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTAT
47909871 GTA
66 GTA
47909874 TTATGTAAGT
Statistics
Matches: 282, Mismatches: 23, Indels: 35
0.83 0.07 0.10
Matches are distributed among these distances:
79 71 0.25
80 1 0.00
81 3 0.01
82 2 0.01
83 2 0.01
84 8 0.03
85 18 0.06
86 9 0.03
87 26 0.09
88 102 0.36
89 29 0.10
90 2 0.01
91 9 0.03
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (88 bp):
TTATGTAAGTTGTGTAAGATATTTAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTAT
GTAAGTTAAATGTATTATGTAGG
Found at i:47909835 original size:27 final size:25
Alignment explanation
Indices: 47909793--47909884 Score: 85
Period size: 25 Copynumber: 3.6 Consensus size: 25
47909783 GTAAGTTAAA
* *
47909793 TGTATTATGTAGGTTATGTAAGTTG
1 TGTAATATGTAAGTTATGTAAGTTG
* *
47909818 TGTAAGATATTTAAGTTATGTAAGTTT
1 TGT-A-ATATGTAAGTTATGTAAGTTG
* * * *
47909845 TGTATTATGTAAGTTATGTATGCTA
1 TGTAATATGTAAGTTATGTAAGTTG
*
47909870 TGTATTATGTAAGTT
1 TGTAATATGTAAGTT
47909885 GTTATGTTAT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
25 34 0.61
26 2 0.04
27 20 0.36
ACGTcount: A:0.28, C:0.01, G:0.22, T:0.49
Consensus pattern (25 bp):
TGTAATATGTAAGTTATGTAAGTTG
Found at i:47910019 original size:23 final size:23
Alignment explanation
Indices: 47909993--47910036 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
47909983 AAAATTTTAT
*
47909993 AAGTTATGTATTATGTAAGTTAA
1 AAGTAATGTATTATGTAAGTTAA
47910016 AAGTAATGTATTATGTAAGTT
1 AAGTAATGTATTATGTAAGTT
47910037 TACATATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (23 bp):
AAGTAATGTATTATGTAAGTTAA
Found at i:47911167 original size:18 final size:18
Alignment explanation
Indices: 47911144--47911181 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
47911134 TTTCTTCAAA
*
47911144 AATATTAACACTGCAAGT
1 AATATTAACACTACAAGT
47911162 AATATTAACACTACAAGT
1 AATATTAACACTACAAGT
47911180 AA
1 AA
47911182 CTAACAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.16, G:0.08, T:0.26
Consensus pattern (18 bp):
AATATTAACACTACAAGT
Found at i:47912525 original size:365 final size:365
Alignment explanation
Indices: 47911850--47912556 Score: 1171
Period size: 365 Copynumber: 1.9 Consensus size: 365
47911840 ACATTTGTGG
* * *
47911850 CGTTTTAATTAAAAACACCACTAAAATTTCAAGTACAGAAAGAAATGGCGCCGTTTTATAAAAAT
1 CGTTCTAATTAAAAACACCACTAAAATTTCAAGTACAGAAAGAAACGGCGCCATTTTATAAAAAT
* * ** *
47911915 ATAAGGAAACATTCTGGCGTTTTCCCAAACACGCCACAATTAATATATTATCGAACCGGTGTCGT
66 ATAAAGAAACATTCTGGCGTTTTCCCAAAAACGCCACAATTAATATATTATCGAACCGACGCCGT
* * *
47911980 TTTCAGTAAATTTTATACATCTTTGCGGCGTTTTTAATAAAACGCCACTAAAAGATTCCATCATT
131 TTTCAGAAAATTTTATACATCCTTGCGGCGTTTATAATAAAACGCCACTAAAAGATTCCATCATT
* *
47912045 CAACTGAAACGGCGCCGTTTTCGCAAAGTTCAAATATTATTTACGGCGCTTTTAGGAAAAACGCC
196 CAACTGAAACGGCGCCGTTTTCGCAAAGTTCAAATATTATTTACGACGCTTTTAGGAAAAACACC
* *
47912110 ACAACTAAAATTTATTCCCTAAGCCGAAACGACGTCGTATCGGTAAATGCAATAAATATTTGTGG
261 ACAACTAAAACTTATTCCCTAAGCCGAAACGACGCCGTATCGGTAAATGCAATAAATATTTGTGG
47912175 CGTTTTTTATCAAAACGTCGGTAATGTCTACCTTTTGCGA
326 CGTTTTTTATCAAAACGTCGGTAATGTCTACCTTTTGCGA
**
47912215 CGTTCTAATTAAAAATGCCACTAAAATTTCAAGTACAGAAAGAAACGGCGCCATTTTATAAAAAT
1 CGTTCTAATTAAAAACACCACTAAAATTTCAAGTACAGAAAGAAACGGCGCCATTTTATAAAAAT
*
47912280 ATAAAGAAACATTCTGGCGTTTTCCCAAAAATGCCACAATTAATATATTATCGAACCGACGCCGT
66 ATAAAGAAACATTCTGGCGTTTTCCCAAAAACGCCACAATTAATATATTATCGAACCGACGCCGT
* * *
47912345 TTTCAGAAAATTTTATACATCCTTGCGGCGTTTATAATAAAACGGCACTAAAATATTCCATCCTT
131 TTTCAGAAAATTTTATACATCCTTGCGGCGTTTATAATAAAACGCCACTAAAAGATTCCATCATT
* * * * *
47912410 CAACTGAAACGGCGCCGTTTTGGTAAAGTTTAAATATTATTTACGATGCTTTTCGGAAAAACACC
196 CAACTGAAACGGCGCCGTTTTCGCAAAGTTCAAATATTATTTACGACGCTTTTAGGAAAAACACC
*
47912475 ACAACTAAAACTTATTCCCTAAGCCGAAACGACGCCGTATCGGTAAATGCAATAAATTTTTGTGG
261 ACAACTAAAACTTATTCCCTAAGCCGAAACGACGCCGTATCGGTAAATGCAATAAATATTTGTGG
47912540 CGTTTTTTATCAAAACG
326 CGTTTTTTATCAAAACG
47912557 CCGCTAAATC
Statistics
Matches: 315, Mismatches: 27, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
365 315 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (365 bp):
CGTTCTAATTAAAAACACCACTAAAATTTCAAGTACAGAAAGAAACGGCGCCATTTTATAAAAAT
ATAAAGAAACATTCTGGCGTTTTCCCAAAAACGCCACAATTAATATATTATCGAACCGACGCCGT
TTTCAGAAAATTTTATACATCCTTGCGGCGTTTATAATAAAACGCCACTAAAAGATTCCATCATT
CAACTGAAACGGCGCCGTTTTCGCAAAGTTCAAATATTATTTACGACGCTTTTAGGAAAAACACC
ACAACTAAAACTTATTCCCTAAGCCGAAACGACGCCGTATCGGTAAATGCAATAAATATTTGTGG
CGTTTTTTATCAAAACGTCGGTAATGTCTACCTTTTGCGA
Found at i:47912633 original size:24 final size:23
Alignment explanation
Indices: 47912606--47912684 Score: 95
Period size: 24 Copynumber: 3.2 Consensus size: 23
47912596 TGTATCATTC
47912606 ATTTAAATAATTAATTACCTATCT
1 ATTTAAATAATTAATTACCTAT-T
*
47912630 ATTTAAACAATTAATTACCTAAAATT
1 ATTTAAATAATTAATTACCT---ATT
47912656 AATTTAAATAATTAATTACCTATTT
1 -ATTTAAATAATTAATTACCTA-TT
47912681 ATTT
1 ATTT
47912685 GTTTGTTTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
24 24 0.50
25 2 0.04
26 1 0.02
27 21 0.44
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAAATAATTAATTACCTATT
Found at i:47912668 original size:27 final size:25
Alignment explanation
Indices: 47912606--47912677 Score: 94
Period size: 27 Copynumber: 2.8 Consensus size: 25
47912596 TGTATCATTC
47912606 ATTTAAATAATTAATTACCT-ATCT
1 ATTTAAATAATTAATTACCTAATCT
*
47912630 ATTTAAACAATTAATTACCTAAAAT-T
1 ATTTAAATAATTAATTACCT--AATCT
47912656 AATTTAAATAATTAATTACCTA
1 -ATTTAAATAATTAATTACCTA
47912678 TTTATTTGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
24 19 0.45
25 1 0.02
26 1 0.02
27 21 0.50
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTTAAATAATTAATTACCTAATCT
Found at i:47913135 original size:14 final size:14
Alignment explanation
Indices: 47913116--47913155 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
47913106 GATCCTAAAT
*
47913116 CCCTAACCCTTAAC
1 CCCTAAACCTTAAC
* *
47913130 CCCTAATCCATAAC
1 CCCTAAACCTTAAC
47913144 CCCTAAACCTTA
1 CCCTAAACCTTA
47913156 TTTAATATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.45, G:0.00, T:0.23
Consensus pattern (14 bp):
CCCTAAACCTTAAC
Found at i:47913331 original size:14 final size:14
Alignment explanation
Indices: 47913266--47913340 Score: 60
Period size: 14 Copynumber: 5.1 Consensus size: 14
47913256 CTAACCTAAC
* *
47913266 CCTTAACCCATAAA
1 CCTTAATCCATAAT
*
47913280 CCTTAAATCACATTAAC
1 CCTT-AATC-CA-TAAT
* *
47913297 CCTTAAACCAGAAT
1 CCTTAATCCATAAT
*
47913311 CCCTAATCCATAAT
1 CCTTAATCCATAAT
47913325 CCTTAATTCCATAAT
1 CCTTAA-TCCATAAT
47913340 C
1 C
47913341 TATAAAACTT
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
14 22 0.46
15 14 0.29
16 5 0.10
17 7 0.15
ACGTcount: A:0.39, C:0.32, G:0.01, T:0.28
Consensus pattern (14 bp):
CCTTAATCCATAAT
Found at i:47913959 original size:41 final size:41
Alignment explanation
Indices: 47913891--47913969 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
47913881 TTTTAAATCC
* *
47913891 CTGAGCATTAGCGGCACATCCTCAAAAACGCCGCTAAAGCA
1 CTGAGCATTAGCGGCACATCATCAAAAACGCCACTAAAGCA
* * * *
47913932 CTGAGCATTAGCGGCGCTTTATTAAAAACGCCACTAAA
1 CTGAGCATTAGCGGCACATCATCAAAAACGCCACTAAA
47913970 TCCACGAAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (41 bp):
CTGAGCATTAGCGGCACATCATCAAAAACGCCACTAAAGCA
Found at i:47914114 original size:115 final size:115
Alignment explanation
Indices: 47913913--47914157 Score: 318
Period size: 115 Copynumber: 2.1 Consensus size: 115
47913903 GGCACATCCT
47913913 CAAAAACGCCGCT-AAAGCACTGAGCATTAGCGGCGCTTTATTAAAAACGCCACTAAATCCACGA
1 CAAAAACGCCGCTAAAAGCACTGAGCATTAGCGGCGCTTTATTAAAAACGCCACTAAATCCACGA
* * *
47913977 AAGCTAAGAAAACATCGTCGTTGGGCTTAGGTTTCTTTGCGGTGCCTTCC
66 AAGCTAAGAAAACAGCGTCGTTGGGCTTAGGTTTCTTTGCGGCGCCTTAC
* **
47914027 CAAAAACGCCGCTAAAAGC-CTGAGCATTAGCGGTGC-TTACTTAAAAAACGCTGCTAAATCC-C
1 CAAAAACGCCGCTAAAAGCACTGAGCATTAGCGGCGCTTTA-TT-AAAAACGCCACTAAATCCAC
* * * * * *
47914089 TGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTAT
64 -GAAAGCTAAGAAAACAGCGTCGTTGGGCTTAGGTTTCTTTGCGGCGCCTTAC
*
47914142 AAAAAACGCCGCTAAA
1 CAAAAACGCCGCTAAA
47914158 TCCCCGAAAG
Statistics
Matches: 114, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
113 3 0.03
114 32 0.28
115 79 0.69
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (115 bp):
CAAAAACGCCGCTAAAAGCACTGAGCATTAGCGGCGCTTTATTAAAAACGCCACTAAATCCACGA
AAGCTAAGAAAACAGCGTCGTTGGGCTTAGGTTTCTTTGCGGCGCCTTAC
Found at i:47914149 original size:73 final size:73
Alignment explanation
Indices: 47914068--47914235 Score: 282
Period size: 73 Copynumber: 2.3 Consensus size: 73
47914058 GGTGCTTACT
*
47914068 TAAAAAACGCTGCTAAATCCCTGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTG
1 TAAAAAACGCCGCTAAATCCCTGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTG
47914133 GCGCTTTA
66 GCGCTTTA
* *
47914141 TAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCGTCGTTGGGCTTAGGTTTTTTTGTG
1 TAAAAAACGCCGCTAAATCCCTGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTG
47914206 GCGCTTTA
66 GCGCTTTA
** *
47914214 GCAAAAACGCCGCTAAAGCCCT
1 TAAAAAACGCCGCTAAATCCCT
47914236 TGAGCATTAG
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 88 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (73 bp):
TAAAAAACGCCGCTAAATCCCTGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTG
GCGCTTTA
Found at i:47914264 original size:188 final size:188
Alignment explanation
Indices: 47913944--47914328 Score: 576
Period size: 188 Copynumber: 2.0 Consensus size: 188
47913934 GAGCATTAGC
* *
47913944 GGCGCTTTATTAAAAACGCCACTAAATCCACGAAAGCTAAGAAAACATCGTCGTTGGGCTTAGGT
1 GGCGCTTTATAAAAAACGCCACTAAATCCACGAAAGCTAAGAAAACAGCGTCGTTGGGCTTAGGT
* * * *
47914009 TTCTTTGCGGTGCCTTCCCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGTGCTTACTTAAAAA
66 TTCTTTGCGGCGCCTTACCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTAATTAAAAA
* *
47914074 ACGCTGCTAAATCCCTGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGT
131 ACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGT
* * * **
47914132 GGCGCTTTATAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCGTCGTTGGGCTTAGGT
1 GGCGCTTTATAAAAAACGCCACTAAATCCACGAAAGCTAAGAAAACAGCGTCGTTGGGCTTAGGT
* * * *
47914197 TTTTTTGTGGCGCTTTAGCAAAAACGCCGCT-AAAGCCCTTGAGCATTAGCGGCGCTTAATT-AA
66 TTCTTTGCGGCGCCTTACCAAAAACGCCGCTAAAAG-CC-TGAGCATTAGCGGCGCTTAATTAAA
47914260 AAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGT
129 AAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGT
*
47914320 TGCGCTTTA
1 GGCGCTTTA
47914329 GCAAAAACAC
Statistics
Matches: 177, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
187 4 0.02
188 153 0.86
189 20 0.11
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (188 bp):
GGCGCTTTATAAAAAACGCCACTAAATCCACGAAAGCTAAGAAAACAGCGTCGTTGGGCTTAGGT
TTCTTTGCGGCGCCTTACCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTAATTAAAAA
ACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGT
Found at i:47914401 original size:114 final size:115
Alignment explanation
Indices: 47914132--47914459 Score: 496
Period size: 115 Copynumber: 2.9 Consensus size: 115
47914122 GTTTTTTTGT
* * *
47914132 GGCGCTTTATAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCGTCGTTGGGCTTAGGT
1 GGCGCTTAATGAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
*
47914197 TTTTTTGTGGCGCTTTAGCAAAAACGCCGCTAAAGCCCTTGAGCATTAGC
66 TTTTTTGTGGCGCTTTAGCAAAAACGCCGCTAAAGCCCTAGAGCATTAGC
*
47914247 GGCGCTTAATTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
1 GGCGCTTAATGAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
* * * *
47914312 TTTTTTGTTGCGCTTTAGCAAAAACACCCCTAAAGCCCTAG-GTATTAGC
66 TTTTTTGTGGCGCTTTAGCAAAAACGCCGCTAAAGCCCTAGAGCATTAGC
* ** * * * *
47914361 GTCGCTTCCTGAAAAATGCCGCTAAATCCTCGAAAGCTCAGAAAACGACGTCGTTGGGATTAGGT
1 GGCGCTTAATGAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
*
47914426 TTTTTTGTGGCGCTTTATCAAAAACGCCGCTAAA
66 TTTTTTGTGGCGCTTTAGCAAAAACGCCGCTAAA
47914460 TACCCGAAAG
Statistics
Matches: 193, Mismatches: 20, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
114 94 0.49
115 99 0.51
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (115 bp):
GGCGCTTAATGAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
TTTTTTGTGGCGCTTTAGCAAAAACGCCGCTAAAGCCCTAGAGCATTAGC
Found at i:47914455 original size:73 final size:73
Alignment explanation
Indices: 47914372--47914532 Score: 225
Period size: 73 Copynumber: 2.2 Consensus size: 73
47914362 TCGCTTCCTG
*
47914372 AAAAATGCCGCTAAAT-CCTCGAAAGCTCAGAAAACGACGTCGTTGGGATTAGGTTTTTTTGTGG
1 AAAAACGCCGCTAAATACC-CGAAAGCTCAGAAAACGACGTCGTTGGGATTAGGTTTTTTTGTGG
* *
47914436 CGCTTTATC
65 CACTTTAGC
* * *
47914445 AAAAACGCCGCTAAATACCCGAAAGCTCAGAAAGCGGCGTCGTTGGGCTTAGGTTTTTTTGTGGC
1 AAAAACGCCGCTAAATACCCGAAAGCTCAGAAAACGACGTCGTTGGGATTAGGTTTTTTTGTGGC
*
47914510 ACTTTCGC
66 ACTTTAGC
* *
47914518 AAAATCGCTGCTAAA
1 AAAAACGCCGCTAAA
47914533 GCCTTGGGAA
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
73 76 0.97
74 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (73 bp):
AAAAACGCCGCTAAATACCCGAAAGCTCAGAAAACGACGTCGTTGGGATTAGGTTTTTTTGTGGC
ACTTTAGC
Found at i:47914459 original size:302 final size:301
Alignment explanation
Indices: 47913913--47914759 Score: 1055
Period size: 302 Copynumber: 2.8 Consensus size: 301
47913903 GGCACATCCT
* * * *
47913913 CAAAAACGCCGCTAAAGCAC-TGAGCATTAGCGGCGCTTTATTAAAAACGCCACTAAATCCACGA
1 CAAAAACGCCGCTAAAGCCCTTGAGCATTAGCGGCGCTTAATTAAAAACGCCGCTAAATCCCCGA
* * * * * * * *
47913977 AAGCTAAGAAAACATCGTCGTTGGGCTTAGGTTTCTTTGCGGTGCCTTCCCAAAAACGCCGCTAA
66 AAGCTCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTCGCAAAAAC-CCACT-A
* * *
47914042 AAG-CCT-GAGCATTAGCGGT-GCTTACTTAAAAAACGCTGCTAAATCCCTGAAAGCTCAGAAAA
129 AAGCCCTAG-GCATTAGCAGTCGCTT-CCTAAAAAACGCCGCTAAATCCC-GAAAGCTCAGAAAA
* *
47914104 CGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTATAAAAAACGCCGCTAAATCCCCGAAAGC
191 CGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTATCAAAAACGCCGCTAAATACCCGAAAGC
* *
47914169 TCAGAAAATGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTAG
256 TCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCACTTTAG
47914215 CAAAAACGCCGCTAAAGCCCTTGAGCATTAGCGGCGCTTAATTAAAAACGCCGCTAAATCCCCGA
1 CAAAAACGCCGCTAAAGCCCTTGAGCATTAGCGGCGCTTAATTAAAAACGCCGCTAAATCCCCGA
* * * *
47914280 AAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTTGCGCTTTAGCAAAAACACCCCTAA
66 AAGCTCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTCGCAAAAAC-CCACTAA
* * * *
47914345 AGCCCTAGGTATTAGC-GTCGCTTCCTGAAAAATGCCGCTAAATCCTCGAAAGCTCAGAAAACGA
130 AGCCCTAGGCATTAGCAGTCGCTTCCTAAAAAACGCCGCTAAATCC-CGAAAGCTCAGAAAACGG
*
47914409 CGTCGTTGGGATTAGGTTTTTTTGTGGCGCTTTATCAAAAACGCCGCTAAATACCCGAAAGCTCA
194 CGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTATCAAAAACGCCGCTAAATACCCGAAAGCTCA
* *
47914474 GAAAGCGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCACTTTCG
259 GAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCACTTTAG
* * * * * **** *
47914517 CAAAATCGCTGCTAAAG-CCTTGGGAATTAGCAGCGCTTCCCCAAAAATGCCGCTAAATCCCCGA
1 CAAAAACGCCGCTAAAGCCCTTGAGCATTAGCGGCGCTTAATTAAAAACGCCGCTAAATCCCCGA
* * *
47914581 AAGCTCAGAAAATAGCATCGTTGGGCTTAGGTTTTTTTTGTGGCGCTTTCGCAAAAACGCACTAA
66 AAGCTCAGAAAACAGCGTCGTTGGGCTTAGG-TTTTTTTGTGGCGCTTTCGCAAAAACCCACTAA
* * * * *
47914646 ATCCCTAAGCATTAGCAG-CGCTTCCTTAAAAACGACGGTAAATCCCCCGAAAGCT-AGGAAAAC
130 AGCCCTAGGCATTAGCAGTCGCTTCCTAAAAAACGCCGCTAAAT--CCCGAAAGCTCA-GAAAAC
* * ** *
47914709 GGCGTCGTTGGGCTTAGG-TATTTTGCGGCGCTTTCGCAAAAACGCTGCTAA
192 GGCGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTATCAAAAACGCCGCTAA
47914760 TGCTTATTTT
Statistics
Matches: 475, Mismatches: 60, Indels: 21
0.85 0.11 0.04
Matches are distributed among these distances:
301 135 0.28
302 230 0.48
303 109 0.23
304 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (301 bp):
CAAAAACGCCGCTAAAGCCCTTGAGCATTAGCGGCGCTTAATTAAAAACGCCGCTAAATCCCCGA
AAGCTCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTCGCAAAAACCCACTAAA
GCCCTAGGCATTAGCAGTCGCTTCCTAAAAAACGCCGCTAAATCCCGAAAGCTCAGAAAACGGCG
TCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTATCAAAAACGCCGCTAAATACCCGAAAGCTCAGA
AAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCACTTTAG
Found at i:47914489 original size:187 final size:188
Alignment explanation
Indices: 47914247--47914640 Score: 551
Period size: 187 Copynumber: 2.1 Consensus size: 188
47914237 GAGCATTAGC
* * *
47914247 GGCGCTTAATTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
1 GGCGCTTTATCAAAAACGCCGCTAAATACCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
* * * **
47914312 TTTTTTGTTGCGCTTTAGCAAAAACACCCCTAAAGCCCTAGGTATTAGC-GTCGCTTCCTGAAAA
66 TTTTTTGTGGCACTTTAGCAAAAACACCCCTAAAGCCCTAGGAATTAGCAG-CGCTTCCCCAAAA
* *
47914376 ATGCCGCTAAATCCTCGAAAGCTCAGAAAACGA-CGTCGTTGGGATTAGG-TTTTTTTGT
130 ATGCCGCTAAATCCCCGAAAGCTCAGAAAA-GAGCATCGTTGGGATTAGGTTTTTTTTGT
*
47914434 GGCGCTTTATCAAAAACGCCGCTAAATACCCGAAAGCTCAGAAAGCGGCGTCGTTGGGCTTAGGT
1 GGCGCTTTATCAAAAACGCCGCTAAATACCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
* * * ** * *
47914499 TTTTTTGTGGCACTTTCGCAAAATCGCTGCTAAAGCCTTGGGAATTAGCAGCGCTTCCCCAAAAA
66 TTTTTTGTGGCACTTTAGCAAAAACACCCCTAAAGCCCTAGGAATTAGCAGCGCTTCCCCAAAAA
* *
47914564 TGCCGCTAAATCCCCGAAAGCTCAGAAAATAGCATCGTTGGGCTTAGGTTTTTTTTGT
131 TGCCGCTAAATCCCCGAAAGCTCAGAAAAGAGCATCGTTGGGATTAGGTTTTTTTTGT
**
47914622 GGCGCTTTCGCAAAAACGC
1 GGCGCTTTATCAAAAACGC
47914641 ACTAAATCCC
Statistics
Matches: 182, Mismatches: 22, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
186 1 0.01
187 154 0.85
188 27 0.15
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (188 bp):
GGCGCTTTATCAAAAACGCCGCTAAATACCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
TTTTTTGTGGCACTTTAGCAAAAACACCCCTAAAGCCCTAGGAATTAGCAGCGCTTCCCCAAAAA
TGCCGCTAAATCCCCGAAAGCTCAGAAAAGAGCATCGTTGGGATTAGGTTTTTTTTGT
Found at i:47914719 original size:115 final size:114
Alignment explanation
Indices: 47914444--47914759 Score: 395
Period size: 114 Copynumber: 2.8 Consensus size: 114
47914434 GGCGCTTTAT
* *
47914444 CAAAAACGCCGCTAAATACCCGAAAGCTCAGAAAGCGGCGTCGTTGGGCTTAGGTTTTTTTGTGG
1 CAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGG
* * * * **
47914509 CACTTTCGCAAAATCGCTGCTAAAGCCTTGGGAATTAGCAGCGCTTCCC
66 CGCTTTCGCAAAAACGCTACTAAAGCCCTAAGAATTAGCAGCGCTTCCC
* ** *
47914558 CAAAAATGCCGCTAAATCCCCGAAAGCTCAGAAAATAGCATCGTTGGGCTTAGGTTTTTTTTGTG
1 CAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGG-TTTTTTTGTG
* * *
47914623 GCGCTTTCGCAAAAACGC-ACTAAATCCCTAAGCATTAGCAGCGCTTCCT
65 GCGCTTTCGCAAAAACGCTACTAAAGCCCTAAGAATTAGCAGCGCTTCCC
* * * * *
47914672 TAAAAACGACGGTAAATCCCCCGAAAGCT-AGGAAAACGGCGTCGTTGGGCTTAGG-TATTTTGC
1 CAAAAACGCCGCTAAAT-CCCCGAAAGCTCA-GAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGT
*
47914735 GGCGCTTTCGCAAAAACGCTGCTAA
64 GGCGCTTTCGCAAAAACGCTACTAA
47914760 TGCTTATTTT
Statistics
Matches: 173, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
113 25 0.14
114 90 0.52
115 58 0.34
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (114 bp):
CAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGG
CGCTTTCGCAAAAACGCTACTAAAGCCCTAAGAATTAGCAGCGCTTCCC
Found at i:47915937 original size:19 final size:18
Alignment explanation
Indices: 47915893--47915937 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
47915883 TAGATTCGCT
*
47915893 ATAAAAAAAATCTAAAAA
1 ATAAAAAAAATCAAAAAA
*
47915911 GTATAAAAAAATCCAAAAAA
1 ATA-AAAAAAAT-CAAAAAA
47915931 ATAAAAA
1 ATAAAAA
47915938 TTTTCTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 2 0.09
19 12 0.55
20 8 0.36
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.16
Consensus pattern (18 bp):
ATAAAAAAAATCAAAAAA
Found at i:47923970 original size:21 final size:22
Alignment explanation
Indices: 47923941--47923987 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
47923931 CAGAAGGAGT
*
47923941 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
47923963 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
47923984 GAGT
1 GAGT
47923988 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:47941079 original size:135 final size:137
Alignment explanation
Indices: 47940930--47941186 Score: 349
Period size: 135 Copynumber: 1.9 Consensus size: 137
47940920 AGAACTAACA
** * *
47940930 AACAATTAATTAATAAATTAGTACTAACAATCCAACATGAATTACACTAATACAAGATTTAAAAC
1 AACAATTAATTAATAAATTAGTAAGAACAATCCAACATGAATAACACTAATACAAGATCTAAAAC
* * * * * * *
47940995 TCAGTTAATATA-GCAAACAGATTCAATGGAAATTAATAAGAACAA-AATATATGAACAAATTCA
66 TAAGTTAATATAGGAAAAAAAACTCAATGAAAATTAATAA-AAAAATAATATATGAACAAATTCA
47941058 ACAGGAAT
130 ACAGGAAT
* * * *
47941066 AACAA-TAATTAATAAATTAGTAAGAATAATCCAACATTAATAACACTAATACAAGATCTAGAAT
1 AACAATTAATTAATAAATTAGTAAGAACAATCCAACATGAATAACACTAATACAAGATCTAAAAC
47941130 TAAGTTAATATAGGAAAAAAAACTCAATGAAAATTAATAAAAAAATAATATATGAAC
66 TAAGTTAATATAGGAAAAAAAACTCAATGAAAATTAATAAAAAAATAATATATGAAC
47941187 CATGGAAGCA
Statistics
Matches: 104, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
135 66 0.63
136 38 0.37
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.26
Consensus pattern (137 bp):
AACAATTAATTAATAAATTAGTAAGAACAATCCAACATGAATAACACTAATACAAGATCTAAAAC
TAAGTTAATATAGGAAAAAAAACTCAATGAAAATTAATAAAAAAATAATATATGAACAAATTCAA
CAGGAAT
Found at i:47941280 original size:15 final size:15
Alignment explanation
Indices: 47941252--47941293 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
47941242 ATTCACCATG
47941252 AATAAA-AA-TAATT
1 AATAAATAAGTAATT
*
47941265 AATAAATCAGTAATT
1 AATAAATAAGTAATT
47941280 AATAAATAAGTAAT
1 AATAAATAAGTAAT
47941294 AACAATCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 6 0.24
14 1 0.04
15 18 0.72
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (15 bp):
AATAAATAAGTAATT
Found at i:47941428 original size:21 final size:21
Alignment explanation
Indices: 47941404--47941443 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
47941394 AAACTAGGAT
47941404 TTAACTAACAAATAGATAATA
1 TTAACTAACAAATAGATAATA
* * *
47941425 TTAATTAATAAATTGATAA
1 TTAACTAACAAATAGATAA
47941444 GAACAATCCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (21 bp):
TTAACTAACAAATAGATAATA
Found at i:47941988 original size:172 final size:170
Alignment explanation
Indices: 47941621--47942121 Score: 560
Period size: 172 Copynumber: 2.9 Consensus size: 170
47941611 CAATCCAATT
* * * * * * *
47941621 TGAATGACACTAATACAAGATTAATAACTCAACTAATA-CGACAAACAAATTCAAT-GAAAATTG
1 TGAATGACACTAATAAAAGATTTAGAATTCAATTAATATAG-CAAACAAATTCAATAG-AAATTA
* ** * * *
47941684 ATAAGCACAAGATTGAGATTTAATTAAACTGAAACTAACAAGCAAACAAATAAC-TATGTAAGAT
64 AAAAAAACAAGATTCAGAGTTAATTAAACTGGAACTAACAA-CAAACAAATAACATATGTAAGAT
* *
47941748 CCAACAAACCTCTTCAATGAGGTCCAGAACATCCATACCAACA
128 CCAACAAACCTTTTCAATAAGGTCCAGAACATCCATACCAACA
* * * * ** * *
47941791 TGAGTGACACTAATAAAAGATTTAGAATTTAGTTAATATAGCAATCAAATTTGATGGAAATTAAT
1 TGAATGACACTAATAAAAGATTTAGAATTCAATTAATATAGCAAACAAATTCAATAGAAATTAAA
* * *
47941856 AAAAACAAGATTCATAGTTAACTAAACTGGAACTAACTAACAAACAAATAACAGTTTGTAAGATC
66 AAAAACAAGATTCAGAGTTAATTAAACTGGAACTAAC-AACAAACAAATAACA-TATGTAAGATC
* **
47941921 CAACAAACCTTTTCAATAAGGTCTAGAACATCTTTACCAACA
129 CAACAAACCTTTTCAATAAGGTCCAGAACATCCATACCAACA
* * * * *
47941963 TTAATGACACTTATACAATATTTAGAATTCAATTAATATAGTAAACAAATTCAATAGAAATTAAA
1 TGAATGACACTAATAAAAGATTTAGAATTCAATTAATATAGCAAACAAATTCAATAGAAATTAAA
* * * *
47942028 AAAAACAAGATTGAGATTTAATTAAACTAGAAC-AACAAACAAACAAATAACAATCTGTAAGATC
66 AAAAACAAGATTCAGAGTTAATTAAACTGGAACTAAC-AACAAACAAATAAC-ATATGTAAGATC
*
47942092 CAACAGACCTTTTCAATAAGGTCCAGAACA
129 CAACAAACCTTTTCAATAAGGTCCAGAACA
47942122 CCTGATTATC
Statistics
Matches: 277, Mismatches: 48, Indels: 11
0.82 0.14 0.03
Matches are distributed among these distances:
170 90 0.32
171 59 0.21
172 128 0.46
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.25
Consensus pattern (170 bp):
TGAATGACACTAATAAAAGATTTAGAATTCAATTAATATAGCAAACAAATTCAATAGAAATTAAA
AAAAACAAGATTCAGAGTTAATTAAACTGGAACTAACAACAAACAAATAACATATGTAAGATCCA
ACAAACCTTTTCAATAAGGTCCAGAACATCCATACCAACA
Found at i:47943680 original size:16 final size:15
Alignment explanation
Indices: 47943659--47943689 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
47943649 GGAACAAGAT
47943659 TGAGATTTAACTAAAC
1 TGAGATTTAAC-AAAC
47943675 TGAGATTTAACAAAC
1 TGAGATTTAACAAAC
47943690 AAACAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (15 bp):
TGAGATTTAACAAAC
Found at i:47944205 original size:11 final size:11
Alignment explanation
Indices: 47944189--47944214 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
47944179 ACTAAACTGA
47944189 AACAAACAAAC
1 AACAAACAAAC
47944200 AACAAACAAAC
1 AACAAACAAAC
47944211 AACA
1 AACA
47944215 GTCTGTACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.27, G:0.00, T:0.00
Consensus pattern (11 bp):
AACAAACAAAC
Found at i:47944616 original size:135 final size:135
Alignment explanation
Indices: 47944448--47944696 Score: 383
Period size: 135 Copynumber: 1.8 Consensus size: 135
47944438 ATAAACAAAC
* *
47944448 AATTAATAAATCAATAAAAACAATCCAACATGAATGAAACTAATACAAGATTTAGTATTTAATTA
1 AATTAATAAATCAATAAAAACAATCCAACATGAATGAAACTAATACAAGATTTAGAATTCAATTA
* * * *
47944513 ATATAGCAAACAAATTCTATGGAAATTAATAAGAACAAAATATATGAACAAATTCAACATGAATG
66 ATATAACAAACAAATTCAATGAAAATTAATAAGAACAAAACATATGAACAAATTCAACATGAATG
47944578 ATAAT
131 ATAAT
* * * * *
47944583 AATTAATAAATTAGTAATAACTAAT-CAACATGAATGACACTAATACAAGGTTTAGAATTCAATT
1 AATTAATAAATCAATAAAAAC-AATCCAACATGAATGAAACTAATACAAGATTTAGAATTCAATT
47944647 AATATAACAAACAAATTCAATGAAAATTAATAAGAACAAAACATATGAAC
65 AATATAACAAACAAATTCAATGAAAATTAATAAGAACAAAACATATGAAC
47944697 TGTGGAAGCA
Statistics
Matches: 102, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
135 99 0.97
136 3 0.03
ACGTcount: A:0.54, C:0.11, G:0.08, T:0.27
Consensus pattern (135 bp):
AATTAATAAATCAATAAAAACAATCCAACATGAATGAAACTAATACAAGATTTAGAATTCAATTA
ATATAACAAACAAATTCAATGAAAATTAATAAGAACAAAACATATGAACAAATTCAACATGAATG
ATAAT
Found at i:47944897 original size:16 final size:16
Alignment explanation
Indices: 47944876--47944906 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
47944866 AAAACAAGAT
47944876 TGAGATTTAACTAAAA
1 TGAGATTTAACTAAAA
47944892 TGAGATTTAACTAAA
1 TGAGATTTAACTAAA
47944907 CTGGAACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.06, G:0.13, T:0.32
Consensus pattern (16 bp):
TGAGATTTAACTAAAA
Found at i:47950612 original size:21 final size:21
Alignment explanation
Indices: 47950588--47950631 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
47950578 TTTCTTCATT
47950588 TTTCATCAGCTTTGAAGCAAA
1 TTTCATCAGCTTTGAAGCAAA
*
47950609 TTTCATCAGCTTTGAAGTAAA
1 TTTCATCAGCTTTGAAGCAAA
47950630 TT
1 TT
47950632 ATCTTGCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (21 bp):
TTTCATCAGCTTTGAAGCAAA
Found at i:47951381 original size:10 final size:10
Alignment explanation
Indices: 47951368--47951392 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
47951358 ATGTGTATAC
47951368 ATAAAAATCG
1 ATAAAAATCG
47951378 ATAAAAATCG
1 ATAAAAATCG
47951388 ATAAA
1 ATAAA
47951393 CGAGGATATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.20
Consensus pattern (10 bp):
ATAAAAATCG
Found at i:47952920 original size:14 final size:15
Alignment explanation
Indices: 47952893--47952921 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
47952883 TCAAACCCCA
47952893 CTCTTTTCATTTTTC
1 CTCTTTTCATTTTTC
47952908 CTCTTTT-ATTTTTC
1 CTCTTTTCATTTTTC
47952922 AGCAATTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.07, C:0.24, G:0.00, T:0.69
Consensus pattern (15 bp):
CTCTTTTCATTTTTC
Found at i:47954554 original size:91 final size:91
Alignment explanation
Indices: 47954324--47954606 Score: 344
Period size: 91 Copynumber: 3.2 Consensus size: 91
47954314 TCTAAAAATC
*** *
47954324 TGGTGGTTCATCCAAATATTATCT-GCTAGCTTTTATCTGC----ATGTTGTGTATTCACAACCA
1 TGGTGGTTCATCCACCCATTATCTAGC-AGCTTTTATCTACAATTATGTTGTGTATTCACAACCA
* *
47954384 TCTGGTAGCATATTAACCTGCAAC-CT
65 TCTAGTAGCATATTAACCTGCAACATT
** * *
47954410 TGGTGGTTCGCCCACCCATTATCTAGCAGTTTTTATCTTCAATTATGTTGTGTATTCACAACCAT
1 TGGTGGTTCATCCACCCATTATCTAGCAGCTTTTATCTACAATTATGTTGTGTATTCACAACCAT
47954475 CTAGTAGCATATTAACCTGCAACATT
66 CTAGTAGCATATTAACCTGCAACATT
* * ***
47954501 TGGTGGCTCATCCACCCATTATCTGGCAGCTTTTATCTACAATTATGTTGTGTATTCACAATTGT
1 TGGTGGTTCATCCACCCATTATCTAGCAGCTTTTATCTACAATTATGTTGTGTATTCACAACCAT
* * *
47954566 CTAGTAACGTATTAACCTACAACATT
66 CTAGTAGCATATTAACCTGCAACATT
*
47954592 TGATGGTTCATCCAC
1 TGGTGGTTCATCCAC
47954607 AACCCGGTGT
Statistics
Matches: 168, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
86 30 0.18
87 2 0.01
90 43 0.26
91 93 0.55
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (91 bp):
TGGTGGTTCATCCACCCATTATCTAGCAGCTTTTATCTACAATTATGTTGTGTATTCACAACCAT
CTAGTAGCATATTAACCTGCAACATT
Found at i:47957167 original size:72 final size:72
Alignment explanation
Indices: 47957061--47957196 Score: 168
Period size: 73 Copynumber: 1.9 Consensus size: 72
47957051 TCCAACGACG
* * *
47957061 CCGTTTCCGAGCTTTTGTGGATTTAGCGGCGTTTTT-AAAAAGCGCCACTAATAATCCTAAGCCA
1 CCGTTTCCGAGCTTTTGTGGATTTAGCGACGTTTTTGAAAAAGCGCCACTAAAAAACCTAAGCCA
47957125 AACGGCA
66 AACGGCA
* * ** *
47957132 CCGTTTCCGTAG-TTTTTTGGGATTTAGCGATGTTTTTGAGGAAGCGCCGCTAAAAAACCTAAGC
1 CCGTTTCCG-AGCTTTTGT-GGATTTAGCGACGTTTTTGAAAAAGCGCCACTAAAAAACCTAAGC
47957196 C
64 C
47957197 CAACAGTGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
71 14 0.26
72 18 0.33
73 22 0.41
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (72 bp):
CCGTTTCCGAGCTTTTGTGGATTTAGCGACGTTTTTGAAAAAGCGCCACTAAAAAACCTAAGCCA
AACGGCA
Found at i:47957193 original size:73 final size:70
Alignment explanation
Indices: 47957030--47957196 Score: 169
Period size: 71 Copynumber: 2.4 Consensus size: 70
47957020 CGTTTTCCAG
* * *
47957030 AAAGCGCCGC--AAAAACCAAAGTCCAACGACGCCGTTTCCGAGCTTTTGTGGATTTAGCGGCGT
1 AAAGCGCCGCTAAAAAACCTAAG-CCAACGACACCGTTTCCGAGCTTTTGTGGATTTAGCGACGT
47957093 TTTTAA
65 TTTTAA
* * * * * *
47957099 AAAGCGCCACTAATAATCCTAAGCCAAACGGCACCGTTTCCGTAG-TTTTTTGGGATTTAGCGAT
1 AAAGCGCCGCTAAAAAACCTAAGCC-AACGACACCGTTTCCG-AGCTTTTGT-GGATTTAGCGAC
*
47957163 GTTTTTGAG
63 GTTTTT-AA
*
47957172 GAAGCGCCGCTAAAAAACCTAAGCC
1 AAAGCGCCGCTAAAAAACCTAAGCC
47957197 CAACAGTGTC
Statistics
Matches: 78, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
69 9 0.12
70 2 0.03
71 27 0.35
72 18 0.23
73 22 0.28
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (70 bp):
AAAGCGCCGCTAAAAAACCTAAGCCAACGACACCGTTTCCGAGCTTTTGTGGATTTAGCGACGTT
TTTAA
Found at i:47958004 original size:21 final size:21
Alignment explanation
Indices: 47957944--47958005 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
47957934 ATCGTTTTAT
* **
47957944 TTTAGGTTTTAGGGTTTAAAA
1 TTTAGGATTTAGGGTTTATGA
* **
47957965 TTTAAGATTTAATGTTTATGA
1 TTTAGGATTTAGGGTTTATGA
*
47957986 TTTAGGGTTTAGGGTTTATG
1 TTTAGGATTTAGGGTTTATG
47958006 GTATACTGTT
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (21 bp):
TTTAGGATTTAGGGTTTATGA
Found at i:47958071 original size:20 final size:20
Alignment explanation
Indices: 47958048--47958099 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
47958038 ATGTGTTAGA
47958048 GTTTGAGTTTGGGGTTTAAG
1 GTTTGAGTTTGGGGTTTAAG
* *
47958068 GTTTGAGTTTAGGGTTTTAGG
1 GTTTGAGTTT-GGGGTTTAAG
47958089 GTTT-AGTTTGG
1 GTTTGAGTTTGG
47958100 AAATTGAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 15 0.52
21 12 0.41
ACGTcount: A:0.13, C:0.00, G:0.38, T:0.48
Consensus pattern (20 bp):
GTTTGAGTTTGGGGTTTAAG
Found at i:47958259 original size:14 final size:14
Alignment explanation
Indices: 47958234--47958273 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
47958224 CAAAAAATAT
47958234 GGTTTA-GGTTTAC
1 GGTTTAGGGTTTAC
47958247 GGTTTAGGGTTTAC
1 GGTTTAGGGTTTAC
*
47958261 GGTTTAGAGTTTA
1 GGTTTAGGGTTTA
47958274 GAGTTTTAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 6 0.24
14 19 0.76
ACGTcount: A:0.17, C:0.05, G:0.33, T:0.45
Consensus pattern (14 bp):
GGTTTAGGGTTTAC
Found at i:47958272 original size:7 final size:6
Alignment explanation
Indices: 47958234--47958286 Score: 52
Period size: 7 Copynumber: 7.8 Consensus size: 6
47958224 CAAAAAATAT
47958234 GGTTTA GGTTTA CGGTTTA GGGTTTA CGGTTTA GAGTTTA GAGTTTTA
1 GGTTTA GGTTTA -GGTTTA -GGTTTA -GGTTTA G-GTTTA G-G-TTTA
47958282 GGTTT
1 GGTTT
47958287 GGGGTTTAGT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
6 10 0.24
7 27 0.64
8 5 0.12
ACGTcount: A:0.17, C:0.04, G:0.32, T:0.47
Consensus pattern (6 bp):
GGTTTA
Found at i:47958279 original size:14 final size:13
Alignment explanation
Indices: 47958234--47958286 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 13
47958224 CAAAAAATAT
47958234 GGTTTAGGTTTAC
1 GGTTTAGGTTTAC
47958247 GGTTTAGGGTTTAC
1 GGTTTA-GGTTTAC
47958261 GGTTTAGAGTTTA-
1 GGTTTAG-GTTTAC
47958274 GAGTTTTAGGTTT
1 G-G-TTTAGGTTT
47958287 GGGGTTTAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
13 8 0.22
14 23 0.64
15 5 0.14
ACGTcount: A:0.17, C:0.04, G:0.32, T:0.47
Consensus pattern (13 bp):
GGTTTAGGTTTAC
Found at i:47958293 original size:21 final size:20
Alignment explanation
Indices: 47958234--47958295 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
47958224 CAAAAAATAT
*
47958234 GGTTTAGGTTTACGGTTTAG
1 GGTTTAGGTTTAGGGTTTAG
*
47958254 GGTTTACGGTTTAGAGTTTAG
1 GGTTTA-GGTTTAGGGTTTAG
* *
47958275 AGTTTTAGGTTTGGGGTTTAG
1 -GGTTTAGGTTTAGGGTTTAG
47958296 TATTTAAGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 6 0.17
21 24 0.69
22 5 0.14
ACGTcount: A:0.16, C:0.03, G:0.35, T:0.45
Consensus pattern (20 bp):
GGTTTAGGTTTAGGGTTTAG
Found at i:47958301 original size:28 final size:28
Alignment explanation
Indices: 47958234--47958314 Score: 69
Period size: 28 Copynumber: 2.9 Consensus size: 28
47958224 CAAAAAATAT
* * * **
47958234 GGTTTAG-GTTTACGGTTTAGGGTTTAC
1 GGTTTAGAGTTTAAGATTTAAGGTTTGG
*
47958261 GGTTTAGAGTTT-AGAGTTTTAGGTTTGG
1 GGTTTAGAGTTTAAGA-TTTAAGGTTTGG
47958289 GGTTTAGTA-TTTAAGATTTAAGGTTT
1 GGTTTAG-AGTTTAAGATTTAAGGTTT
47958315 ATGGTATATT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
27 8 0.19
28 31 0.72
29 4 0.09
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.47
Consensus pattern (28 bp):
GGTTTAGAGTTTAAGATTTAAGGTTTGG
Found at i:47958896 original size:115 final size:115
Alignment explanation
Indices: 47958772--47959002 Score: 399
Period size: 115 Copynumber: 2.0 Consensus size: 115
47958762 GAAAAAACGT
* **
47958772 CGCTAAAGGTGATATATTACTGGCATTTTGTGAAGAAACGCCGCAAATTTCCTTTAACTGTAACA
1 CGCTAAAGGTGATATATTACCGGCATTTTACGAAGAAACGCCGCAAATTTCCTTTAACTGTAACA
*
47958837 AAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGAATTTGAAAAACAC
66 AAGACGGGGCCGTTTTGTTGTTTTCTTTTAGTGGCGAATTTGAAAAACAC
*
47958887 CGCTAAAGGTGATATATTACCGGCGTTTTACGAAGAAACGCCGCAAATTTCCTTTAACTGTAACA
1 CGCTAAAGGTGATATATTACCGGCATTTTACGAAGAAACGCCGCAAATTTCCTTTAACTGTAACA
* *
47958952 AAGACGGGGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTTTAAAAACAC
66 AAGACGGGGCCGTTTTGTTGTTTTCTTTTAGTGGCGAATTTGAAAAACAC
47959002 C
1 C
47959003 ACAAATATTT
Statistics
Matches: 109, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
115 109 1.00
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (115 bp):
CGCTAAAGGTGATATATTACCGGCATTTTACGAAGAAACGCCGCAAATTTCCTTTAACTGTAACA
AAGACGGGGCCGTTTTGTTGTTTTCTTTTAGTGGCGAATTTGAAAAACAC
Found at i:47960293 original size:21 final size:21
Alignment explanation
Indices: 47960267--47960337 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 21
47960257 CAACAACTTA
*
47960267 AAGCAGAGGCAGCAACGAGGG
1 AAGCAGAGGCTGCAACGAGGG
* *
47960288 AAGCAGCGGCTGTAACGAGGG
1 AAGCAGAGGCTGCAACGAGGG
* * *
47960309 AAGCAGAGGTTGCAGCGAGAG
1 AAGCAGAGGCTGCAACGAGGG
47960330 AAGCAGAG
1 AAGCAGAG
47960338 CAGAGCAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.35, C:0.17, G:0.42, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCTGCAACGAGGG
Found at i:47960762 original size:42 final size:42
Alignment explanation
Indices: 47960708--47960827 Score: 186
Period size: 42 Copynumber: 2.8 Consensus size: 42
47960698 ATAAAGCACT
* *
47960708 GCTAAAGAACATGATCTTTAGCGGCATTTTTTTTGAAGCGCC
1 GCTAAAGAACATGATCTTTAGCAGCGTTTTTTTTGAAGCGCC
* *
47960750 GCTAAAGAACATGACCTTTAGCAGCGTTTTTTTTCAAGCGCC
1 GCTAAAGAACATGATCTTTAGCAGCGTTTTTTTTGAAGCGCC
*
47960792 GCTAAAGAACATGATCTTTAGCTGCGTTTATTTTTG
1 GCTAAAGAACATGATCTTTAGCAGCGTTT-TTTTTG
47960828 TAAACGCTGC
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
42 65 0.93
43 5 0.07
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (42 bp):
GCTAAAGAACATGATCTTTAGCAGCGTTTTTTTTGAAGCGCC
Found at i:47960861 original size:15 final size:15
Alignment explanation
Indices: 47960841--47960870 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47960831 ACGCTGCAAA
*
47960841 CGTTAGCGACGTTTT
1 CGTTAGCGACCTTTT
47960856 CGTTAGCGACCTTTT
1 CGTTAGCGACCTTTT
47960871 TTGCGGCGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.23, G:0.23, T:0.40
Consensus pattern (15 bp):
CGTTAGCGACCTTTT
Found at i:47962425 original size:19 final size:19
Alignment explanation
Indices: 47962334--47962425 Score: 55
Period size: 19 Copynumber: 4.8 Consensus size: 19
47962324 TGAAAAACAT
*
47962334 TTTTATATATATTTTA-TA
1 TTTTATATATTTTTTATTA
* * *
47962352 TTTTCTAGA-TTTTTATATG
1 TTTTATATATTTTTTAT-TA
* ** *
47962371 TTTTATTGTACGTTTTATCA
1 TTTTA-TATATTTTTTATTA
*
47962391 TTTT-TATCATTATTTATTA
1 TTTTATAT-ATTTTTTATTA
47962410 TTTTATATATTTTTTA
1 TTTTATATATTTTTTA
47962426 ATTTCTTTTT
Statistics
Matches: 52, Mismatches: 16, Indels: 11
0.66 0.20 0.14
Matches are distributed among these distances:
17 5 0.10
18 9 0.17
19 23 0.44
20 9 0.17
21 6 0.12
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.66
Consensus pattern (19 bp):
TTTTATATATTTTTTATTA
Found at i:47962443 original size:19 final size:19
Alignment explanation
Indices: 47962421--47962472 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
47962411 TTTATATATT
47962421 TTTTAATTTCTTTTTACAA
1 TTTTAATTTCTTTTTACAA
* **
47962440 TTTTAAATAATTTTTACAA
1 TTTTAATTTCTTTTTACAA
* *
47962459 TTTTTATATCTTTT
1 TTTTAATTTCTTTT
47962473 ATGATTTATA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTAATTTCTTTTTACAA
Found at i:47962491 original size:19 final size:19
Alignment explanation
Indices: 47962464--47962511 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
47962454 TACAATTTTT
*
47962464 ATATCTTTTATGATTTAT-A
1 ATATTTTTTATGATTT-TCA
* *
47962483 ATTTTTTTTATTATTTTCA
1 ATATTTTTTATGATTTTCA
47962502 ATATTTTTTA
1 ATATTTTTTA
47962512 AAAAAATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 1 0.04
19 23 0.96
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (19 bp):
ATATTTTTTATGATTTTCA
Found at i:47966623 original size:35 final size:35
Alignment explanation
Indices: 47966556--47966623 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
47966546 TATAACTTAT
* * *
47966556 CATATCATAACAAAACGTAACATGTCACATCATGC
1 CATATCATAACAAAACATAACATATCAAATCATGC
* * *
47966591 CATATCGTAACATAACATAGCATATCAAATCAT
1 CATATCATAACAAAACATAACATATCAAATCAT
47966624 ATCATGACCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.44, C:0.24, G:0.07, T:0.25
Consensus pattern (35 bp):
CATATCATAACAAAACATAACATATCAAATCATGC
Found at i:47969138 original size:2 final size:2
Alignment explanation
Indices: 47969131--47969187 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
47969121 TTCTAAGCGT
47969131 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
47969173 TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC T
47969188 TTAAAAATTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:47973142 original size:35 final size:35
Alignment explanation
Indices: 47973089--47973207 Score: 134
Period size: 35 Copynumber: 3.4 Consensus size: 35
47973079 TACTATCTTT
*
47973089 TTGGTGTG-TTTCAGTTGGACTAGCTCTTATGAGCA
1 TTGGTGTGTTTTGA-TTGGACTAGCTCTTATGAGCA
47973124 TTGGTGTGTTTTGATTGGACTAGCTCTTATGAGCA
1 TTGGTGTGTTTTGATTGGACTAGCTCTTATGAGCA
* * * * * *
47973159 TTGTTGTGTTTTAGA-GGGATTAGCCCGTGTGAGCA
1 TTGGTGTGTTTT-GATTGGACTAGCTCTTATGAGCA
47973194 TCTGGTGTGTTTTG
1 T-TGGTGTGTTTTG
47973208 GTTTGACTGA
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
35 57 0.78
36 16 0.22
ACGTcount: A:0.15, C:0.12, G:0.31, T:0.42
Consensus pattern (35 bp):
TTGGTGTGTTTTGATTGGACTAGCTCTTATGAGCA
Found at i:47983843 original size:44 final size:43
Alignment explanation
Indices: 47983775--47983926 Score: 166
Period size: 43 Copynumber: 3.5 Consensus size: 43
47983765 AAGAATTCCG
*
47983775 ATATACGATTT-CGTGTAAGACCATGTATGGGACATTGGCATC
1 ATATATGATTTACGTGTAAGACCATGTATGGGACATTGGCATC
* *
47983817 A-ATTTGAGATTTACGTGTAAGACCATGTCTGGGACATTGGCATC
1 ATATAT--GATTTACGTGTAAGACCATGTATGGGACATTGGCATC
* * * **
47983861 GTATATGATTTACGTGTAAGACCCTGTGTGGGACAGCGGCATC
1 ATATATGATTTACGTGTAAGACCATGTATGGGACATTGGCATC
* *
47983904 TATATTTGA-TTACATGTAAGACC
1 -ATATATGATTTACGTGTAAGACC
47983927 TCGTCTGGAA
Statistics
Matches: 93, Mismatches: 12, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 51 0.55
44 36 0.39
45 3 0.03
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
ATATATGATTTACGTGTAAGACCATGTATGGGACATTGGCATC
Found at i:47983944 original size:86 final size:85
Alignment explanation
Indices: 47983776--47983945 Score: 195
Period size: 86 Copynumber: 2.0 Consensus size: 85
47983766 AGAATTCCGA
** *
47983776 TATACGATTTCGTGTAAGACCATGTATGGGACATTGGCATCAATTTGAGATTTACGTGTAAGACC
1 TATACGATTTCGTGTAAGACCATGTATGGGACAGCGGCATCAATTT-AGATTTACATGTAAGACC
*
47983841 ATGTCTGGGACATTGGCATCG
65 ATGTCTGGAACATTGGCATCG
* * *
47983862 TATATGATTTACGTGTAAGACCCTGTGTGGGACAGCGGCATCTATATTT-GA-TTACATGTAAGA
1 TATACGATTT-CGTGTAAGACCATGTATGGGACAGCGGCATC-A-ATTTAGATTTACATGTAAGA
47983925 CC-TCGTCTGGAACGA-TGGCAT
63 CCAT-GTCTGGAAC-ATTGGCAT
47983946 TGTACAAGCT
Statistics
Matches: 72, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
85 1 0.01
86 36 0.50
87 30 0.42
88 1 0.01
89 4 0.06
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (85 bp):
TATACGATTTCGTGTAAGACCATGTATGGGACAGCGGCATCAATTTAGATTTACATGTAAGACCA
TGTCTGGAACATTGGCATCG
Found at i:47991878 original size:43 final size:44
Alignment explanation
Indices: 47991781--47991897 Score: 141
Period size: 43 Copynumber: 2.7 Consensus size: 44
47991771 TTTGTGTAAG
* * * *
47991781 AGACCACGTCTAGGACATTGGCAACG-ATTTGAGATTTACGTGTA
1 AGACCATGTCTAGGACATTGGCATCGTATAT-ACATTTACGTGTA
47991825 AGACCATGTCTAGGACATTGGCATCGTATAT-CATTTACGTGTA
1 AGACCATGTCTAGGACATTGGCATCGTATATACATTTACGTGTA
* * *
47991868 AGACCTTGTCTGGGACAGTGGCATC-TATAT
1 AGACCATGTCTAGGACATTGGCATCGTATAT
47991898 TTGATTACAT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
42 5 0.08
43 33 0.51
44 24 0.37
45 3 0.05
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (44 bp):
AGACCATGTCTAGGACATTGGCATCGTATATACATTTACGTGTA
Found at i:47991911 original size:43 final size:43
Alignment explanation
Indices: 47991814--47991934 Score: 140
Period size: 43 Copynumber: 2.8 Consensus size: 43
47991804 ACGATTTGAG
* * *
47991814 ATTTACGTGTAAGACCATGTCTAGGACATTGGCATCGTATATC
1 ATTTACGTGTAAGACCTTGTCTGGGACAGTGGCATCGTATATC
47991857 ATTTACGTGTAAGACCTTGTCTGGGACAGTGGCATC-TATAT-
1 ATTTACGTGTAAGACCTTGTCTGGGACAGTGGCATCGTATATC
* * *
47991898 TTGATTACATGTAAGACCTCGTCTGGGAC-GATGGCAT
1 AT--TTACGTGTAAGACCTTGTCTGGGACAG-TGGCAT
47991935 TGTACGAGCT
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
41 1 0.01
42 6 0.09
43 62 0.90
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
ATTTACGTGTAAGACCTTGTCTGGGACAGTGGCATCGTATATC
Found at i:48000337 original size:49 final size:47
Alignment explanation
Indices: 48000069--48000428 Score: 585
Period size: 47 Copynumber: 7.6 Consensus size: 47
48000059 CCCTTCGGGA
* * * * * *
48000069 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48000116 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48000163 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48000210 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48000257 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48000304 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48000353 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48000402 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
48000429 TATTCAAATA
Statistics
Matches: 297, Mismatches: 14, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
47 203 0.68
49 94 0.32
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:48002135 original size:13 final size:13
Alignment explanation
Indices: 48002117--48002141 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48002107 TACTAAATTT
48002117 TCATGGATTCAAA
1 TCATGGATTCAAA
48002130 TCATGGATTCAA
1 TCATGGATTCAA
48002142 TATACCATTA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:48004673 original size:23 final size:23
Alignment explanation
Indices: 48004647--48004694 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
48004637 CCGAGAGCAA
48004647 AAAAAGCATGTCA-ACAGACAGAG
1 AAAAAGCATGTCATA-AGACAGAG
48004670 AAAAAGCATGTCATAAGACAGAG
1 AAAAAGCATGTCATAAGACAGAG
48004693 AA
1 AA
48004695 CATCATTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.54, C:0.15, G:0.21, T:0.10
Consensus pattern (23 bp):
AAAAAGCATGTCATAAGACAGAG
Found at i:48007546 original size:29 final size:30
Alignment explanation
Indices: 48007513--48007641 Score: 106
Period size: 29 Copynumber: 4.4 Consensus size: 30
48007503 GAAAAAATAT
48007513 AAATTACATTTT-AGCCCCTAAACTTTT-TA
1 AAATTACATTTTGA-CCCCTAAACTTTTCTA
* **
48007542 AAATTACATTTTGACCCCCAATTTTTTCTA
1 AAATTACATTTTGACCCCTAAACTTTTCTA
* * *
48007572 AATTTACATATTGACCCCTAATA-TTTTGT-
1 AAATTACATTTTGACCCCTAA-ACTTTTCTA
* * * *
48007601 AAATTACATTTAG-GCCCTAAACTTTCCAA
1 AAATTACATTTTGACCCCTAAACTTTTCTA
*
48007630 AAATTTCATTTT
1 AAATTACATTTT
48007642 TGCCCCATAT
Statistics
Matches: 78, Mismatches: 17, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
27 1 0.01
28 9 0.12
29 42 0.54
30 26 0.33
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.42
Consensus pattern (30 bp):
AAATTACATTTTGACCCCTAAACTTTTCTA
Found at i:48007586 original size:30 final size:28
Alignment explanation
Indices: 48007536--48007609 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 28
48007526 GCCCCTAAAC
* *
48007536 TTTTTAAAATTACATTTTGACCCCCAATT
1 TTTTT-AAATTACATATTGACCCCCAATA
*
48007565 TTTTCTAAATTTACATATTGACCCCTAATA
1 TTTT-TAAA-TTACATATTGACCCCCAATA
48007595 TTTTGTAAATTACAT
1 TTTT-TAAATTACAT
48007610 TTAGGCCCTA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 13 0.33
30 26 0.67
ACGTcount: A:0.32, C:0.18, G:0.04, T:0.46
Consensus pattern (28 bp):
TTTTTAAATTACATATTGACCCCCAATA
Found at i:48008009 original size:34 final size:34
Alignment explanation
Indices: 48007948--48008012 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
48007938 GCGAAAAGCC
48007948 CACCCCACCGTCGATCCCACAACCACCGTCGTCT
1 CACCCCACCGTCGATCCCACAACCACCGTCGTCT
*
48007982 CACCGCCACCGT-GA-CACCACCACCACCGTCG
1 CACC-CCACCGTCGATC-CCACAACCACCGTCG
48008013 CACCTACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 1 0.04
34 20 0.71
35 7 0.25
ACGTcount: A:0.22, C:0.54, G:0.14, T:0.11
Consensus pattern (34 bp):
CACCCCACCGTCGATCCCACAACCACCGTCGTCT
Found at i:48008016 original size:17 final size:18
Alignment explanation
Indices: 48007947--48008016 Score: 60
Period size: 17 Copynumber: 4.1 Consensus size: 18
48007937 AGCGAAAAGC
48007947 CCACC-CCACCGTCGATC-
1 CCACCACCACCGTCGA-CA
* *
48007964 CCACAACCACCGTCGTC-
1 CCACCACCACCGTCGACA
* *
48007981 TCACCGCCACCGT-GACA
1 CCACCACCACCGTCGACA
48007998 CCACCACCACCGTCG-CA
1 CCACCACCACCGTCGACA
48008015 CC
1 CC
48008017 TACACAAACA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
16 2 0.05
17 30 0.71
18 10 0.24
ACGTcount: A:0.21, C:0.56, G:0.13, T:0.10
Consensus pattern (18 bp):
CCACCACCACCGTCGACA
Found at i:48008228 original size:14 final size:15
Alignment explanation
Indices: 48008209--48008238 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48008199 AGAAGAAGAA
48008209 AAAGAA-AAAAAAAG
1 AAAGAAGAAAAAAAG
48008223 AAAGAAGAAAAAAAG
1 AAAGAAGAAAAAAAG
48008238 A
1 A
48008239 GAAAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAGAAGAAAAAAAG
Found at i:48008232 original size:17 final size:16
Alignment explanation
Indices: 48008204--48008244 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 16
48008194 CCCGAAGAAG
48008204 AAGAAAAAGAAAAAAA
1 AAGAAAAAGAAAAAAA
48008220 AAGAAAGAAGAAAAAAA
1 AAGAAA-AAGAAAAAAA
*
48008237 GAGAAAAA
1 AAGAAAAA
48008245 ATATATATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AAGAAAAAGAAAAAAA
Found at i:48008543 original size:17 final size:18
Alignment explanation
Indices: 48008507--48008545 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
48008497 AATCTGCAGA
*
48008507 AAAAAAAAGAAGAAAAAG
1 AAAAAAAACAAGAAAAAG
*
48008525 AAAAAAAACAA-AAACAG
1 AAAAAAAACAAGAAAAAG
48008542 AAAA
1 AAAA
48008546 GGCCCGAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.85, C:0.05, G:0.10, T:0.00
Consensus pattern (18 bp):
AAAAAAAACAAGAAAAAG
Found at i:48009088 original size:54 final size:53
Alignment explanation
Indices: 48009026--48009269 Score: 217
Period size: 54 Copynumber: 4.4 Consensus size: 53
48009016 ACGTCTTTTC
*
48009026 AAAAATTTTCGTGTTTCAAAAATTTCTCGTGTTTTCAAAAAAATTCTTGTATTT
1 AAAAATTTTCGTGTTTCAAAAATTT-TCGTGTTTTCAAAAAAATTCTCGTATTT
* * *
48009080 AAAAATTTTTGTATTTCAAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTGTTT
1 AAAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTC-AAAAAAATTCTCGTATTT
* ** * *
48009134 AAAAATTTTTCGCGTTTTCAAAAAAATTTTCGTG-TTTCAAAAATTTTCGCGT-TCTCAAA
1 AAAAA-TTTTCGTG-TTTC--AAAAATTTTCGTGTTTTCAAAAAAATTCTCGTAT-T---T
** *
48009193 AAAAAAATTCAG-GTTTCAAAGAA-TTTCGTGTTTTCAAAAAAACTTCTCGTGTTT
1 AAAAATTTTC-GTGTTTCAAA-AATTTTCGTGTTTTCAAAAAAA-TTCTCGTATTT
*
48009247 AAAAATTTTTGTGTTTTCAAAAA
1 AAAAATTTTCGTG-TTTCAAAAA
48009270 AAAAAGTTCT
Statistics
Matches: 154, Mismatches: 20, Indels: 32
0.75 0.10 0.16
Matches are distributed among these distances:
53 11 0.07
54 54 0.35
55 23 0.15
56 27 0.18
57 15 0.10
58 18 0.12
59 6 0.04
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.43
Consensus pattern (53 bp):
AAAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTCAAAAAAATTCTCGTATTT
Found at i:48009121 original size:37 final size:37
Alignment explanation
Indices: 48009022--48009365 Score: 248
Period size: 38 Copynumber: 9.2 Consensus size: 37
48009012 CGATACGTCT
48009022 TTTCAAAAATTTTCGTG-TTTC--AAAAATTTCTCGTG
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAATTT-TCGTG
** * * *
48009057 TTTTCAAAAAAATTCTTGTATTT---AAAAATTTTTGTA
1 -TTTCAAAAATTTTCGTGT-TTTCAAAAAAATTTTCGTG
*
48009093 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTG
1 TTTCAAAAATTTTCGTGTTTTC-AAAAAAATTTTCGTG
*
48009131 TTT-AAAAATTTTTCGCGTTTTCAAAAAAATTTTCGTG
1 TTTCAAAAA-TTTTCGTGTTTTCAAAAAAATTTTCGTG
* * **
48009168 TTTCAAAAATTTTCGCGTTCTCAAAAAAAAAATTCAG-G
1 TTTCAAAAATTTTCGTGTTTTC-AAAAAAATTTTC-GTG
*
48009206 TTTCAAAGAA-TTTCGTGTTTTCAAAAAAACTTCTCGTG
1 TTTCAAA-AATTTTCGTGTTTTCAAAAAAA-TTTTCGTG
* ** *
48009244 TTT-AAAAATTTTTGTGTTTTCAAAAAAAAAAGTTCTTG
1 TTTCAAAAATTTTCGTGTTTTC--AAAAAAATTTTCGTG
* * * *
48009282 TTTCAAAAGTTTTCGTGTTTT-TAAAAAAGTTCCGTG
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAATTTTCGTG
* *
48009318 TTTCCAAAAAAATTTCTCGTG-GTTC--AAAAATTTCCGTG
1 TTT-C--AAAAATTT-TCGTGTTTTCAAAAAAATTTTCGTG
48009356 TTTTCAAAAA
1 -TTTCAAAAA
48009366 ATTATTATGG
Statistics
Matches: 249, Mismatches: 36, Indels: 46
0.75 0.11 0.14
Matches are distributed among these distances:
34 3 0.01
35 15 0.06
36 37 0.15
37 65 0.26
38 87 0.35
39 37 0.15
40 5 0.02
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (37 bp):
TTTCAAAAATTTTCGTGTTTTCAAAAAAATTTTCGTG
Found at i:48009144 original size:38 final size:37
Alignment explanation
Indices: 48009097--48009309 Score: 213
Period size: 37 Copynumber: 5.6 Consensus size: 37
48009087 TTTGTATTTC
48009097 AAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTGTTT
1 AAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTGTTT
* *
48009134 AAAAATTTTTCGCGTTTTC-AAAAAAATTTTCGTGTTT
1 AAAAA-TTTTCGTGTTTTCAAAAAAAATTCTCGTGTTT
* * *
48009171 CAAAAATTTTCGCGTTCTCAAAAAAAAAATTC-AG-GTTT
1 -AAAAATTTTCGTGTTTTC--AAAAAAAATTCTCGTGTTT
*
48009209 CAAAGAA-TTTCGTGTTTTCAAAAAAACTTCTCGTGTTT
1 -AAA-AATTTTCGTGTTTTCAAAAAAAATTCTCGTGTTT
*
48009247 AAAAATTTTTGTGTTTTCAAAAAAAAAAGTTCT--TGTTT
1 AAAAATTTTCGTGTTTTC--AAAAAAAA-TTCTCGTGTTT
* *
48009285 CAAAAGTTTTCGTGTTTTTAAAAAA
1 -AAAAATTTTCGTGTTTTCAAAAAA
48009310 GTTCCGTGTT
Statistics
Matches: 149, Mismatches: 14, Indels: 26
0.79 0.07 0.14
Matches are distributed among these distances:
36 12 0.08
37 55 0.37
38 44 0.30
39 25 0.17
40 13 0.09
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (37 bp):
AAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTGTTT
Found at i:48009273 original size:75 final size:74
Alignment explanation
Indices: 48009093--48009327 Score: 255
Period size: 75 Copynumber: 3.1 Consensus size: 74
48009083 AATTTTTGTA
* *
48009093 TTTCAAAAATTTTCGTGTTTTC--AAAAAAAATTCTCGTGTTT-AAAAATTTTTCGCGTTTTCAA
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAAAATTC-AG-GTTTCAAAAA--TTTCGTGTTTTCAA
*
48009155 AAAAATTTTCGTG
62 AAAAATTCTCGTG
* *
48009168 TTTCAAAAATTTTCGCGTTCTCAAAAAAAAAATTCAGGTTTCAAAGAATTTCGTGTTTTCAAAAA
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAAAATTCAGGTTTCAAA-AATTTCGTGTTTTCAAAAA
48009233 AACTTCTCGTG
65 AA-TTCTCGTG
* ** * *
48009244 TTT-AAAAATTTTTGTGTTTTCAAAAAAAAAAGTTCTTGTTTCAAAAGTTTTCGTGTTTTTAAAA
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAAAA-TTCAGGTTTCAAAA-ATTTCGTGTTTTCAAAA
*
48009308 AAGTTC-CGTG
64 AAATTCTCGTG
48009318 TTTCCAAAAA
1 TTT-CAAAAA
48009328 AATTTCTCGT
Statistics
Matches: 138, Mismatches: 13, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
74 7 0.05
75 71 0.51
76 47 0.34
77 13 0.09
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.41
Consensus pattern (74 bp):
TTTCAAAAATTTTCGTGTTTTCAAAAAAAAAATTCAGGTTTCAAAAATTTCGTGTTTTCAAAAAA
ATTCTCGTG
Found at i:48009383 original size:39 final size:38
Alignment explanation
Indices: 48009305--48009387 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 38
48009295 CGTGTTTTTA
* *
48009305 AAAAAGTTCCGTGTTTCCAAAAAAATTTCTCGTGGTTC
1 AAAAATTTCCGTGTTTCCAAAAAAATTTATCGTGGTTC
* * * *
48009343 AAAAATTTCCGTGTTTTCAAAAAATTATTATGGTGTTTC
1 AAAAATTTCCGTGTTTCCAAAAAAAT-TTATCGTGGTTC
48009382 AAAAAT
1 AAAAAT
48009388 CTACTATTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
38 23 0.61
39 15 0.39
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.37
Consensus pattern (38 bp):
AAAAATTTCCGTGTTTCCAAAAAAATTTATCGTGGTTC
Found at i:48017771 original size:76 final size:76
Alignment explanation
Indices: 48017554--48018182 Score: 848
Period size: 75 Copynumber: 8.3 Consensus size: 76
48017544 AGAATTATAT
48017554 TTTTCAATTTCTATTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCA
1 TTTTC-ATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCA
*
48017618 CATCTTGAGGTA
65 CATCCTGAGGTA
* *
48017630 TTTTCATTTCTGTTTTTC-AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGGTCAC
1 TTTTCATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCAC
48017694 ATCCTGAGGTA
66 ATCCTGAGGTA
*
48017705 TTTTCATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTTGGGTCAC
1 TTTTCATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCAC
48017770 ATCCTGAGGTA
66 ATCCTGAGGTA
* *
48017781 TTTTCATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
1 TTTTCATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCAC
*
48017846 --GCTGAGGTA
66 ATCCTGAGGTA
* ** * *
48017855 TTTTCAATTTTTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCA
1 TTTTC-ATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCA
*
48017920 -A-GCTGAGGTA
65 CATCCTGAGGTA
*
48017930 TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTTG
1 TTTTC-ATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGG-T-
*
48017995 CAC-GCC-GAGGTA
63 CACATCCTGAGGTA
* * * *
48018007 TTTTTAATTTCT-TTTTTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTAGGGTCA
1 -TTTTCATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCA
*
48018071 CATGCTGAGGTATA
65 CATCCTGAGG--TA
* * * * * *
48018085 TTTTAATTTCTA-TTTTCCAAAAAATCAACTTATATTGCAAAAGGTGAGTTGAGCCTTGGGTCAT
1 TTTTCATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCAC
48018149 ATGCC-GAGGTA
66 AT-CCTGAGGTA
48018160 TTTTTCAATTTCTATTTTTCAAA
1 -TTTTC-ATTTCTATTTTTCAAA
48018183 GGTCAACTCA
Statistics
Matches: 501, Mismatches: 35, Indels: 32
0.88 0.06 0.06
Matches are distributed among these distances:
74 16 0.03
75 211 0.42
76 177 0.35
77 82 0.16
78 15 0.03
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (76 bp):
TTTTCATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCAC
ATCCTGAGGTA
Found at i:48017873 original size:151 final size:151
Alignment explanation
Indices: 48017554--48018182 Score: 885
Period size: 151 Copynumber: 4.1 Consensus size: 151
48017544 AGAATTATAT
48017554 TTTTCAATTTCTATTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCA
1 TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCA
* *
48017618 CATCTTGAGGTATTTTCATTTCTGTTTTTC-AAAAAATCAACTTATATTGCGAGAGGTGAGTTGA
66 CATCCTGAGGTATTTTCATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* *
48017682 GCCTTGGGTCACATCCTGAGGTA
131 GCCTCGGGTCAC-GCC-GAGGTA
*
48017705 TTTTC-ATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTTGGGTCA
1 TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCA
48017769 CATCCTGAGGTATTTTCATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
66 CATCCTGAGGTATTTTCATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
48017834 GCCTCGGGTCACGCTGAGGTA
131 GCCTCGGGTCACGCCGAGGTA
* ** * *
48017855 TTTTCAATTTTTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCA
1 TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCA
* *
48017920 -A-GCTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
66 CATCCTGAGGTATTTTC-ATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
48017983 AGCCTCGGGTTGCACGCCGAGGTA
130 AGCCTCGGG-T-CACGCCGAGGTA
* * * *
48018007 TTTTTAATTTCT-TTTTTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTAGGGTCA
1 TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCA
* * * * * * *
48018071 CATGCTGAGGTATATTTTAATTTCT-ATTTTCCAAAAAATCAACTTATATTGCAAAAGGTGAGTT
66 CATCCTGAGG--TATTTTCATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
* *
48018135 GAGCCTTGGGTCATATGCCGAGGTA
129 GAGCCTCGGGTC--ACGCCGAGGTA
48018160 TTTTTCAATTTCTATTTTTCAAA
1 -TTTTCAATTTCTATTTTTCAAA
48018183 GGTCAACTCA
Statistics
Matches: 432, Mismatches: 32, Indels: 24
0.89 0.07 0.05
Matches are distributed among these distances:
149 13 0.03
150 80 0.19
151 181 0.42
152 67 0.16
153 60 0.14
154 17 0.04
155 14 0.03
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (151 bp):
TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCA
CATCCTGAGGTATTTTCATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
GCCTCGGGTCACGCCGAGGTA
Found at i:48018563 original size:30 final size:30
Alignment explanation
Indices: 48018529--48018597 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
48018519 ACAAAAATAC
*
48018529 AAATTACATTTTAGCCACTAAATTTTTCAA
1 AAATTACATTTTAACCACTAAATTTTTCAA
* * *
48018559 AAATTACATTTTAACCCCTAACTTTTTCTA
1 AAATTACATTTTAACCACTAAATTTTTCAA
*
48018589 AATTTACAT
1 AAATTACAT
48018598 AGTGACCCCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.38, C:0.19, G:0.01, T:0.42
Consensus pattern (30 bp):
AAATTACATTTTAACCACTAAATTTTTCAA
Found at i:48019249 original size:22 final size:22
Alignment explanation
Indices: 48019223--48019276 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
48019213 CCCGAAGAAG
48019223 AAGAAGAAAA-AGAAAAAAAAGA
1 AAGAAGAAAAGAGAAAAAAAA-A
*
48019245 AAGAAGACAAAGAGAAAGAAAAA
1 AAGAAGA-AAAGAGAAAAAAAAA
48019268 AAG-AGAAAA
1 AAGAAGAAAA
48019277 TATATATCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 3 0.10
22 10 0.34
23 7 0.24
24 9 0.31
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (22 bp):
AAGAAGAAAAGAGAAAAAAAAA
Found at i:48019257 original size:28 final size:29
Alignment explanation
Indices: 48019217--48019275 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
48019207 GTTCGGCCCG
48019217 AAGAAGAAGAAGAAAAAGAAAAAAA-AGA
1 AAGAAGAAGAAGAAAAAGAAAAAAAGAGA
*
48019245 AAGAAGACA-AAGAGAAAGAAAAAAAGAGA
1 AAGAAGA-AGAAGAAAAAGAAAAAAAGAGA
48019274 AA
1 AA
48019276 ATATATATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 22 0.79
29 6 0.21
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (29 bp):
AAGAAGAAGAAGAAAAAGAAAAAAAGAGA
Found at i:48019582 original size:6 final size:6
Alignment explanation
Indices: 48019573--48019605 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
48019563 AAAAAAGAAA
48019573 AAAAAC -AAAAC -AAAAC AAAAAC AAAAAC AAAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
48019606 ATGCCCGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.38
6 16 0.62
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:48020141 original size:38 final size:38
Alignment explanation
Indices: 48020088--48020555 Score: 179
Period size: 37 Copynumber: 12.5 Consensus size: 38
48020078 ACATCTTTTC
* *
48020088 AAAAATTTTCATGTTTCAAAAATTTCTCGTGTTTTCAA
1 AAAAATTCTCGTGTTTCAAAAATTTCTCGTGTTTTCAA
* * *
48020126 AAAAATTCTTGTGTTT-AAAAATTT-TCCT-ATTTC--
1 AAAAATTCTCGTGTTTCAAAAATTTCTCGTGTTTTCAA
* * *
48020159 AAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTGTTTAC-A
1 AAAAATTCTCGTG-TTTC--AAAAATTTCTCGTGTTTTCAA
*** * *
48020199 AATTTTTCGCGT-TTTCAAAAAATTTTTCGTG-TTTCAA
1 AAAAATTCTCGTGTTTC-AAAAATTTCTCGTGTTTTCAA
** * *
48020236 AAATTTTCGCGT-TTTCAAAAAAAATT-TCGTG--TTC-A
1 AAAAATTCTCGTGTTTC--AAAAATTTCTCGTGTTTTCAA
* *
48020271 AAGAATT-TCGTGCTTTCAAAAAAAATTCTCGTG-TTT---
1 AAAAATTCTCGTG-TTTC--AAAAATTTCTCGTGTTTTCAA
* * *
48020307 AAAAATTTTCATGTTTTCAAAAAAAAAGTTCT--TGTTTT---
1 AAAAATTCTCGTG-TTTC----AAAAATTTCTCGTGTTTTCAA
* * * *
48020345 AAAAGTTTTCGTGTTTTCAAAAAAGTT-TCGTGTTTCCAAA
1 AAAAATTCTCGTG-TTTC-AAAAATTTCTCGTGTTTTC-AA
*
48020385 AAAAATTTCTCGTGTTTCAAAAATTTC-CATGTTTTCAA
1 AAAAA-TTCTCGTGTTTCAAAAATTTCTCGTGTTTTCAA
* * * *
48020423 AAAATTATTATGGTGTTTCAAAAA--TCTCGTGGTTTAAA
1 AAAA--ATTCTCGTGTTTCAAAAATTTCTCGTGTTTTCAA
*
48020461 AAAAATATATCGTGTTTCAAAAATTTC-CGTGTTTTCAA
1 AAAAAT-TCTCGTGTTTCAAAAATTTCTCGTGTTTTCAA
* * *
48020499 AAAATTATTATGGTGTTTCAAAAA--TCTCGTGGTTT-AA
1 AAAA--ATTCTCGTGTTTCAAAAATTTCTCGTGTTTTCAA
*
48020536 AAAAATATATCGTGTTTCAA
1 AAAAAT-TCTCGTGTTTCAA
48020556 TCGGATCACG
Statistics
Matches: 347, Mismatches: 48, Indels: 72
0.74 0.10 0.15
Matches are distributed among these distances:
33 11 0.03
34 7 0.02
35 20 0.06
36 48 0.14
37 89 0.26
38 87 0.25
39 60 0.17
40 18 0.05
41 7 0.02
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (38 bp):
AAAAATTCTCGTGTTTCAAAAATTTCTCGTGTTTTCAA
Found at i:48020150 original size:54 final size:54
Alignment explanation
Indices: 48020088--48020329 Score: 244
Period size: 54 Copynumber: 4.4 Consensus size: 54
48020078 ACATCTTTTC
*
48020088 AAAAATTTTCATGTTTCAAAAATTTCTCGTGTTTTC-AAAAAAATTCTTGTGTTT
1 AAAAATTTTCATGTTTCAAAAATTT-TCGTGTTTTCAAAAAAAATTCTCGTGTTT
* *
48020142 AAAAATTTTCCTATTTCAAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTGTTT
1 AAAAATTTTCATGTTTCAAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTGTTT
* ** ** *
48020196 ACAAATTTTTCGCGTTTTCAAAAAATTTTTCGTG-TTTC-AAAAATTTTCGCGT-TTT
1 A-AAAATTTTCATG-TTTC-AAAAA-TTTTCGTGTTTTCAAAAAAAATTCTCGTGTTT
* * *
48020251 CAAAAAAAATTTCGTG-TTCAAAGAA-TTTCGTGCTTTCAAAAAAAATTCTCGTGTTT
1 ---AAAAATTTTCATGTTTCAAA-AATTTTCGTGTTTTCAAAAAAAATTCTCGTGTTT
48020307 AAAAATTTTCATGTTTTCAAAAA
1 AAAAATTTTCATG-TTTCAAAAA
48020330 AAAAGTTCTT
Statistics
Matches: 156, Mismatches: 18, Indels: 28
0.77 0.09 0.14
Matches are distributed among these distances:
53 28 0.18
54 50 0.32
55 33 0.21
56 18 0.12
57 18 0.12
58 9 0.06
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.43
Consensus pattern (54 bp):
AAAAATTTTCATGTTTCAAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTGTTT
Found at i:48020183 original size:37 final size:38
Alignment explanation
Indices: 48020142--48020386 Score: 263
Period size: 37 Copynumber: 6.6 Consensus size: 38
48020132 TCTTGTGTTT
* *
48020142 AAAAATTTTCCTATTTCAAAAATTTTCGTGTTTTCAAA
1 AAAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTCAAA
* * *
48020180 AAAAATTCTCGTGTTT-ACAAATTTTTCGCGTTTTC-AA
1 AAAAATTTTCGTGTTTCA-AAAATTTTCGTGTTTTCAAA
* *
48020217 AAAATTTTTCGTGTTTCAAAAATTTTCGCGTTTTCAAA
1 AAAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTCAAA
*
48020255 AAAAA-TTTCGTG-TTCAAAGAA-TTTCGTGCTTTCAAA
1 AAAAATTTTCGTGTTTCAAA-AATTTTCGTGTTTTCAAA
* *
48020291 AAAAATTCTCGTGTTT-AAAAATTTTCATGTTTTCAAA
1 AAAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTCAAA
** * * *
48020328 AAAAAAGTTCTTGTTTTAAAAGTTTTCGTGTTTTC--A
1 AAAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTCAAA
*
48020364 AAAAAGTTTCGTGTTTCCAAAAA
1 AAAAATTTTCGTGTTT-CAAAAA
48020387 AAATTTCTCG
Statistics
Matches: 173, Mismatches: 25, Indels: 19
0.80 0.12 0.09
Matches are distributed among these distances:
36 40 0.23
37 80 0.46
38 53 0.31
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.42
Consensus pattern (38 bp):
AAAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTCAAA
Found at i:48020229 original size:111 final size:108
Alignment explanation
Indices: 48020088--48020330 Score: 278
Period size: 111 Copynumber: 2.2 Consensus size: 108
48020078 ACATCTTTTC
* ** *
48020088 AAAAATTTTCATG-TTTC-AAAAATTTCTCGTGTTTTCAAAAAAATTCTTGTGTTT-AAAAATTT
1 AAAAATTTTCACGTTTTCAAAAAATTTCTCGTG-TTTCAAAAAAATTCGCGT-TTTAAAAAAATT
* *
48020150 TCCTATTTCAAA-AATTTTCGTGTTTTCAAAAAAAATTCTCGTGTTT
64 TCCT-GTTCAAAGAA-TTTCGTGCTTTCAAAAAAAATTCTCGTGTTT
* * * **
48020196 ACAAATTTTTCGCGTTTTCAAAAAATTTTTCGTGTTTCAAAAATTTTCGCGTTTTCAAAAAAAAT
1 A-AAAATTTTCACGTTTTCAAAAAATTTCTCGTGTTTCAAAAAAATTCGCGTTTT--AAAAAAAT
*
48020261 TTCGTGTTCAAAGAATTTCGTGCTTTCAAAAAAAATTCTCGTGTTT
63 TTCCTGTTCAAAGAATTTCGTGCTTTCAAAAAAAATTCTCGTGTTT
*
48020307 AAAAATTTTCATGTTTTCAAAAAA
1 AAAAATTTTCACGTTTTCAAAAAA
48020331 AAAGTTCTTG
Statistics
Matches: 113, Mismatches: 15, Indels: 12
0.81 0.11 0.09
Matches are distributed among these distances:
108 1 0.01
109 12 0.11
110 38 0.34
111 50 0.44
112 12 0.11
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (108 bp):
AAAAATTTTCACGTTTTCAAAAAATTTCTCGTGTTTCAAAAAAATTCGCGTTTTAAAAAAATTTC
CTGTTCAAAGAATTTCGTGCTTTCAAAAAAAATTCTCGTGTTT
Found at i:48020242 original size:75 final size:74
Alignment explanation
Indices: 48020084--48020386 Score: 286
Period size: 75 Copynumber: 4.1 Consensus size: 74
48020074 CAATACATCT
* * * ** *
48020084 TTTCAAAAATTTTCATG-TTTC--AAAAATTTCTCGTGTTTTCAAAAAAATTCTTGTGTTT--AA
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTGTTTAC-AAAATTTTCGTGT-TTTCAAA
* *
48020144 AAATTTTCCTA
64 AAATTTTCGTG
* *
48020155 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTGTTTACAAATTTTTCGCGTTTTCAAAAA
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTGTTTACAAAATTTTCGTGTTTTCAAAAA
48020220 ATTTTTCGTG
66 A-TTTTCGTG
* * *
48020230 TTTCAAAAATTTTCGCGTTTTCAAAAAAAATT-TCGTG-TT-CAAAGAATTTCGTGCTTTCAAAA
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTGTTTACAAA-ATTTTCGTGTTTTC--AA
*
48020292 AAAATTCTCGTG
63 AAAATTTTCGTG
* * *
48020304 TTT-AAAAATTTTCATGTTTTCAAAAAAAAAGTTCTTGT-TTTA-AAAGTTTTCGTGTTTTCAAA
1 TTTCAAAAATTTTCGTGTTTTC-AAAAAAAA-TTCTCGTGTTTACAAAATTTTCGTGTTTTCAAA
*
48020366 AAAGTTTCGTG
64 AAATTTTCGTG
48020377 TTTCCAAAAA
1 TTT-CAAAAA
48020387 AAATTTCTCG
Statistics
Matches: 192, Mismatches: 24, Indels: 28
0.79 0.10 0.11
Matches are distributed among these distances:
71 16 0.08
72 11 0.06
73 51 0.27
74 45 0.23
75 61 0.32
76 8 0.04
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (74 bp):
TTTCAAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTGTTTACAAAATTTTCGTGTTTTCAAAAA
ATTTTCGTG
Found at i:48020331 original size:111 final size:110
Alignment explanation
Indices: 48020156--48020378 Score: 297
Period size: 111 Copynumber: 2.0 Consensus size: 110
48020146 ATTTTCCTAT
* * *
48020156 TTCAAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTGTTTACAAATTTTTCGCGTTTTCAAAAAA
1 TTCAAAAATTTTCGTGCTTTCAAAAAAAATTCTCGTGTTTACAAAATTTTCACGTTTTCAAAAAA
***
48020221 TTTTTCGTGTTTCAAAAATTTTCGCGTTTTCAAAAAAAATTTCGTG
66 AAGTTCGTGTTTCAAAAATTTTCGCGTTTTC-AAAAAAATTTCGTG
*
48020267 TTCAAAGAA-TTTCGTGCTTTCAAAAAAAATTCTCGTGTTTA-AAAATTTTCATGTTTTCAAAAA
1 TTCAAA-AATTTTCGTGCTTTCAAAAAAAATTCTCGTGTTTACAAAATTTTCACGTTTTC-AAAA
* * * * *
48020330 AAAAGTTCTTGTTTTAAAAGTTTTCGTGTTTTCAAAAAAGTTTCGTG
64 AAAAGTTCGTGTTTCAAAAATTTTCGCGTTTTCAAAAAAATTTCGTG
48020377 TT
1 TT
48020379 TCCAAAAAAA
Statistics
Matches: 98, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
110 29 0.30
111 67 0.68
112 2 0.02
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (110 bp):
TTCAAAAATTTTCGTGCTTTCAAAAAAAATTCTCGTGTTTACAAAATTTTCACGTTTTCAAAAAA
AAGTTCGTGTTTCAAAAATTTTCGCGTTTTCAAAAAAATTTCGTG
Found at i:48020397 original size:22 final size:20
Alignment explanation
Indices: 48020159--48020407 Score: 80
Period size: 20 Copynumber: 13.1 Consensus size: 20
48020149 TTCCTATTTC
*
48020159 AAAAATTTTCGTGTTTTCAAA
1 AAAAAGTTTCGTG-TTTCAAA
48020180 AAAAA-TTCTCGTGTTT---A
1 AAAAAGTT-TCGTGTTTCAAA
* ** *
48020197 CAAATTTTTCGCGTTTTC-AA
1 AAAAAGTTTCGTG-TTTCAAA
**
48020217 AAAATTTTTCGTGTTTC---
1 AAAAAGTTTCGTGTTTCAAA
* *
48020234 AAAAATTTTCGCGTTTTCAAA
1 AAAAAGTTTCGTG-TTTCAAA
48020255 AAAAA-TTTCGTG-TTC--A
1 AAAAAGTTTCGTGTTTCAAA
*
48020271 AAGAA-TTTCGTGCTTTCAAA
1 AAAAAGTTTCGTG-TTTCAAA
48020291 AAAAA-TTCTCGTGTTT----
1 AAAAAGTT-TCGTGTTTCAAA
* *
48020307 AAAAATTTTCATGTTTTCAAAA
1 AAAAAGTTTCGTG-TTTC-AAA
*
48020329 AAAAAG-TTCTTGTTT----
1 AAAAAGTTTCGTGTTTCAAA
*
48020344 TAAAAGTTTTCGTGTTTTC--A
1 AAAAAG-TTTCGTG-TTTCAAA
48020364 AAAAAGTTTCGTGTTTCCAAA
1 AAAAAGTTTCGTGTTT-CAAA
*
48020385 AAAAATTTCTCGTGTTTCAAA
1 AAAAAGTT-TCGTGTTTCAAA
48020406 AA
1 AA
48020408 TTTCCATGTT
Statistics
Matches: 181, Mismatches: 17, Indels: 60
0.70 0.07 0.23
Matches are distributed among these distances:
15 5 0.03
16 21 0.12
17 29 0.16
18 21 0.12
19 12 0.07
20 41 0.23
21 39 0.22
22 13 0.07
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.41
Consensus pattern (20 bp):
AAAAAGTTTCGTGTTTCAAA
Done.