Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 186 of 325
Found at i:57262341 original size:42 final size:42
Alignment explanation
Indices: 57262238--57262386 Score: 158
Period size: 42 Copynumber: 3.5 Consensus size: 42
57262228 TGTGATTTCG
* * * * *
57262238 TGTAAGACCATGTCTGGGACTTTGGCATCGATTTGTGATTTGCA
1 TGTAAGACCATGTCTGGGAC-ATGGCATCG-TATATGAGTTACA
*
57262282 TGTAAGACCATGTCTGGGACATCGGCATCGTATATGAGTT-CG
1 TGTAAGACCATGTCTGGGACAT-GGCATCGTATATGAGTTACA
* *
57262324 TGTAAGACCCTGTCTGGGACAATGGCATCG-ATATGTGATTACA
1 TGTAAGACCATGTCTGGGAC-ATGGCATCGTATATGAG-TTACA
*
57262367 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
57262387 GTTGGTATTG
Statistics
Matches: 91, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
41 6 0.07
42 29 0.32
43 29 0.32
44 27 0.30
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATGGCATCGTATATGAGTTACA
Found at i:57265290 original size:24 final size:24
Alignment explanation
Indices: 57265254--57265323 Score: 113
Period size: 24 Copynumber: 2.9 Consensus size: 24
57265244 CTGTCAGGAG
*
57265254 AGGATTTAAGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
57265278 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
*
57265302 AGGATTTAGGAGCTGATCAAGG
1 AGGATTTAGGAGTTGAT-AAGG
57265324 AACAAGAGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
24 39 0.91
25 4 0.09
ACGTcount: A:0.34, C:0.03, G:0.36, T:0.27
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:57266751 original size:27 final size:27
Alignment explanation
Indices: 57266721--57266828 Score: 112
Period size: 27 Copynumber: 4.0 Consensus size: 27
57266711 AGCGTCCTGA
*
57266721 TGGCTATGCCACAATTATCTGATCTGG
1 TGGCTCTGCCACAATTATCTGATCTGG
*
57266748 TGGCTCTGCCACATATT-TCTGTTCTGG
1 TGGCTCTGCCACA-ATTATCTGATCTGG
* * *
57266775 TGGCTCTACCACGATTATCTGTATCTGT
1 TGGCTCTGCCACAATTATCTG-ATCTGG
* * *
57266803 TGACTCTGTCAC-ATTATCTGTTCTGG
1 TGGCTCTGCCACAATTATCTGATCTGG
57266829 CAGCCATGCT
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
26 7 0.10
27 44 0.66
28 16 0.24
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39
Consensus pattern (27 bp):
TGGCTCTGCCACAATTATCTGATCTGG
Found at i:57271198 original size:28 final size:28
Alignment explanation
Indices: 57271166--57271230 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
57271156 ATTTACTAGA
*
57271166 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
57271194 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
57271222 ATACCCCTA
1 ATACCCCTA
57271231 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:57271377 original size:28 final size:28
Alignment explanation
Indices: 57271336--57271425 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
57271326 AGGAAGCGTC
57271336 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
* **
57271364 CTGGTGGCCCTGCCACGTATT-TCTGTT
1 CTGGTGGCACTGCCACAAATTATCTGTT
*
57271391 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
57271420 CTGGTG
1 CTGGTG
57271426 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.33
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:57271442 original size:55 final size:56
Alignment explanation
Indices: 57271336--57271450 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
57271326 AGGAAGCGTC
* * *
57271336 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATTTCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATTTCTGTAT
* *
57271391 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATTTCTGTAT
57271447 CTGG
1 CTGG
57271451 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 31 0.60
56 20 0.38
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATTTCTGTAT
Found at i:57282807 original size:47 final size:47
Alignment explanation
Indices: 57282753--57282849 Score: 176
Period size: 47 Copynumber: 2.1 Consensus size: 47
57282743 CCTAGCCTCT
57282753 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
* *
57282800 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
57282847 TTT
1 TTT
57282850 TGCACTTCCT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:57282851 original size:24 final size:24
Alignment explanation
Indices: 57282732--57282850 Score: 179
Period size: 24 Copynumber: 5.0 Consensus size: 24
57282722 GCTTTATCAT
*
57282732 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
57282757 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
57282781 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
57282804 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
57282828 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
57282851 GCACTTCCTC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
23 23 0.26
24 53 0.60
25 12 0.14
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:57282922 original size:9 final size:9
Alignment explanation
Indices: 57282908--57282964 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
57282898 ATCTCATGTG
57282908 CATATCATA
1 CATATCATA
*
57282917 CATATCATGTG
1 CATATCA--TA
57282928 CATATCATA
1 CATATCATA
* *
57282937 CATGTCATGTG
1 CATATCA--TA
57282948 CATATCATA
1 CATATCATA
57282957 CATATCAT
1 CATATCAT
57282965 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:57282924 original size:20 final size:20
Alignment explanation
Indices: 57282896--57282966 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
57282886 GCATTTATGA
*
57282896 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
57282916 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
57282936 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
57282956 ACATATCATGT
1 ACATATCATGT
57282967 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:57282931 original size:11 final size:11
Alignment explanation
Indices: 57282901--57282955 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
57282891 TATGAACATC
57282901 TCATGTGCATA
1 TCATGTGCATA
*
57282912 TCA--TACATA
1 TCATGTGCATA
57282921 TCATGTGCATA
1 TCATGTGCATA
* *
57282932 TCA--TACATG
1 TCATGTGCATA
57282941 TCATGTGCATA
1 TCATGTGCATA
57282952 TCAT
1 TCAT
57282956 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:57284247 original size:27 final size:27
Alignment explanation
Indices: 57284185--57284262 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
57284175 GGGCATATTC
* *
57284185 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
*
57284212 GTCACTTTACCCTATAGGGGCT-TTACG
1 GTCATTTTACCCTATAGGGG-TATTACG
*
57284239 GTCTTTTTA-CCTAATAGGGGTATT
1 GTCATTTTACCCT-ATAGGGGTATT
57284263 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 4 0.09
27 38 0.88
28 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTACG
Found at i:57284333 original size:27 final size:27
Alignment explanation
Indices: 57284300--57284518 Score: 163
Period size: 27 Copynumber: 8.0 Consensus size: 27
57284290 TTGGTAAATC
57284300 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
** *
57284327 TGTAAACCAATGGTATTTCTA-TAATTTT
1 TACAAACCAAGGGTATTTC-AGTAA-TTT
* * * *
57284355 TAGAAAGTCAAGGGTATTTCTGTAACTT
1 TACAAA-CCAAGGGTATTTCAGTAATTT
** * * **
57284383 TGTAAATCAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
*** *
57284410 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* *
57284437 CACAAACCAAGGGTATTT-TGATAATTT
1 TACAAACCAAGGGTATTTCAG-TAATTT
* * **
57284464 TACAAACTAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* *
57284491 TACAAACTAAGGGTATTTTAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
57284518 T
1 T
57284519 GTAATTCGAG
Statistics
Matches: 154, Mismatches: 32, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
26 1 0.01
27 124 0.81
28 15 0.10
29 14 0.09
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
TACAAACCAAGGGTATTTCAGTAATTT
Found at i:57284451 original size:54 final size:54
Alignment explanation
Indices: 57284393--57284518 Score: 182
Period size: 54 Copynumber: 2.3 Consensus size: 54
57284383 TGTAAATCAG
*
57284393 GGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGGTAATTTCACAAACCAA
* * * *
57284447 GGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACCAA
*
57284501 GGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
57284519 GTAATTCGAG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
54 62 0.97
55 2 0.03
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACCAA
Found at i:57284539 original size:27 final size:27
Alignment explanation
Indices: 57284509--57284694 Score: 155
Period size: 27 Copynumber: 6.9 Consensus size: 27
57284499 AAGGGTATTT
* * *
57284509 TAGTAATTTTGTAATTCGAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
*
57284536 TAGTAATTCTATAAATCAAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
57284563 TAGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
* * *
57284590 CAGTAATTCTGTAAGTCGAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
* * *
57284617 -CGATAATTATGTAAATC-AGGGGTAAAA
1 TAG-TAATTCTATAAATCGA-GGGTAAAA
* * * *
57284644 -CGATAATTATGTAAATCGGGGGTAAAA
1 TAG-TAATTCTATAAATCGAGGGTAAAA
* * *
57284671 -CGATAATTCTGTAAATCGGGGGTA
1 TAG-TAATTCTATAAATCGAGGGTA
57284695 CTTTGTAATT
Statistics
Matches: 143, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
26 2 0.01
27 141 0.99
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
TAGTAATTCTATAAATCGAGGGTAAAA
Found at i:57284612 original size:54 final size:54
Alignment explanation
Indices: 57284512--57284694 Score: 201
Period size: 54 Copynumber: 3.4 Consensus size: 54
57284502 GGTATTTTAG
* * * * *
57284512 TAATTTTGTAATTCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAATAG-
1 TAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAA-AGA
* * *
57284566 TAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAGTCGAGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAAGA
* * * *
57284620 TAATTATGTAAATC-AGGGGTAAAAC-GATAATTATGTAAATCGGGGGTAAAACGA
1 TAATTCTGTAAATCGA-GGGTAAAACAG-TAATTCTGTAAATCGAGGGTAAAAAGA
*
57284674 TAATTCTGTAAATCGGGGGTA
1 TAATTCTGTAAATCGAGGGTA
57284695 CTTTGTAATT
Statistics
Matches: 110, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
53 3 0.03
54 107 0.97
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.29
Consensus pattern (54 bp):
TAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAAGA
Found at i:57284651 original size:81 final size:81
Alignment explanation
Indices: 57284510--57284694 Score: 214
Period size: 81 Copynumber: 2.3 Consensus size: 81
57284500 AGGGTATTTT
* * * * * *
57284510 AGTAATTTTGTAATTCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAATAGTAATTCTAT
1 AGTAATTCTGTAAATCGAGGGTAAAAGAGTAATTATATAAATCAAGGGTAAAAGAGTAATTATAT
57284575 AAATCGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
* * *
57284591 AGTAATTCTGTAAGTCGAGGGTAAAACGA-TAATTATGTAAATCAGGGGTAAAACGA-TAATTAT
1 AGTAATTCTGTAAATCGAGGGTAAAA-GAGTAATTATATAAATCAAGGGTAAAA-GAGTAATTAT
* *
57284654 GTAAATCGGGGGTAAAAC
64 ATAAATCGAGGGTAAAAC
*
57284672 -GATAATTCTGTAAATCGGGGGTA
1 AG-TAATTCTGTAAATCGAGGGTA
57284695 CTTTGTAATT
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
80 1 0.01
81 86 0.97
82 2 0.02
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.29
Consensus pattern (81 bp):
AGTAATTCTGTAAATCGAGGGTAAAAGAGTAATTATATAAATCAAGGGTAAAAGAGTAATTATAT
AAATCGAGGGTAAAAC
Found at i:57284704 original size:26 final size:27
Alignment explanation
Indices: 57284574--57284694 Score: 172
Period size: 27 Copynumber: 4.5 Consensus size: 27
57284564 AGTAATTCTA
* *
57284574 TAAATCGAGGGTAAAAC-AGTAATTCTG
1 TAAATCGGGGGTAAAACGA-TAATTATG
* *
57284601 TAAGTCGAGGGTAAAACGATAATTATG
1 TAAATCGGGGGTAAAACGATAATTATG
*
57284628 TAAATCAGGGGTAAAACGATAATTATG
1 TAAATCGGGGGTAAAACGATAATTATG
*
57284655 TAAATCGGGGGTAAAACGATAATTCTG
1 TAAATCGGGGGTAAAACGATAATTATG
57284682 TAAATCGGGGGTA
1 TAAATCGGGGGTA
57284695 CTTTGTAATT
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 85 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.26
Consensus pattern (27 bp):
TAAATCGGGGGTAAAACGATAATTATG
Found at i:57284730 original size:27 final size:26
Alignment explanation
Indices: 57284699--57284788 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 26
57284689 GGGGTACTTT
57284699 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAA-TCGAAGGTATTTCA
*
57284726 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTAC-AATCGAAGGTATTTCA
* * * *
57284753 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAATCGAA-GGTATTTCA
57284780 GTAATTTTA
1 GTAATTTTA
57284789 GTAAACTAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.07
27 48 0.89
28 2 0.04
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (26 bp):
GTAATTTTACAATCGAAGGTATTTCA
Found at i:57284740 original size:53 final size:53
Alignment explanation
Indices: 57284683--57284788 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 53
57284673 ATAATTCTGT
* *
57284683 AAATCGGGGGTACTTT-GTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTAGTAATTTTACAA-ACGAAGGGTATTTCAGTAATTTTAC
* * *
57284736 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTT-AGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTA
57284789 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
52 3 0.07
53 14 0.31
54 28 0.62
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (53 bp):
AAATCGAGGGTATTTAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTAC
Found at i:57284802 original size:27 final size:27
Alignment explanation
Indices: 57284699--57284803 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
57284689 GGGGTACTTT
* *
57284699 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
57284726 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
57284753 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
57284780 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
57284804 CTAAACATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:57293155 original size:16 final size:16
Alignment explanation
Indices: 57293136--57293170 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
57293126 GGAAAGGCCA
* *
57293136 AAATGCTGAAAAGTCG
1 AAATGCCGAAAAGCCG
57293152 AAATGCCGAAAAGCCG
1 AAATGCCGAAAAGCCG
57293168 AAA
1 AAA
57293171 GTTTGGCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.17, G:0.23, T:0.11
Consensus pattern (16 bp):
AAATGCCGAAAAGCCG
Found at i:57294609 original size:49 final size:48
Alignment explanation
Indices: 57294398--57294751 Score: 574
Period size: 47 Copynumber: 7.4 Consensus size: 48
57294388 TATCACAGTT
* * * *
57294398 ATACACTTCCAC-TTCCATCACATTGACCATTCGGCCTTATCATAT-AT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATAAC
* *
57294445 ATATACTTTCAAATTCATCACATTGGCCATTCGGCCTTATCACAT-AC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAAC
57294492 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACAT-AC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAAC
57294539 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATA-AC
57294588 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATA-AC
*
57294637 ATACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACAT-AC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAAC
57294684 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATA-AC
57294733 ATACACTTTCACATTCATC
1 ATACACTTTCACATTCATC
57294752 GTAACAAAAT
Statistics
Matches: 291, Mismatches: 11, Indels: 8
0.94 0.04 0.03
Matches are distributed among these distances:
47 174 0.60
48 2 0.01
49 115 0.40
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (48 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAAC
Found at i:57294628 original size:96 final size:95
Alignment explanation
Indices: 57294398--57294751 Score: 579
Period size: 96 Copynumber: 3.7 Consensus size: 95
57294388 TATCACAGTT
* * * * * *
57294398 ATACACTTCCAC-TTCCATCACATTGACCATTCGGCCTTATCA-TATATATATACTTTCAAATTC
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACAATACATACACTTTCACATTC
57294461 ATCACATTGGCCATTCGGCCTTATCACATAC
65 ATCACATTGGCCATTCGGCCTTATCACATAC
57294492 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-ATACATACACTTTCACATTCA
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACAATACATACACTTTCACATTCA
57294556 TCACATTGGCCATTCGGCCTTATCACATACAC
66 TCACATTGGCCATTCGGCCTTATCACAT--AC
57294588 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACA-ATACATACACTTTCACATTC
*
57294653 ATCACATTGGCCATTCAGCCTTATCACATAC
65 ATCACATTGGCCATTCGGCCTTATCACATAC
57294684 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACA-ATACATACACTTTCACATTC
57294749 ATC
65 ATC
57294752 GTAACAAAAT
Statistics
Matches: 248, Mismatches: 6, Indels: 10
0.94 0.02 0.04
Matches are distributed among these distances:
94 83 0.33
95 2 0.01
96 115 0.46
98 48 0.19
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (95 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACAATACATACACTTTCACATTCA
TCACATTGGCCATTCGGCCTTATCACATAC
Found at i:57300053 original size:255 final size:256
Alignment explanation
Indices: 57299567--57300067 Score: 851
Period size: 255 Copynumber: 2.0 Consensus size: 256
57299557 GTCGTTGGGC
*
57299567 CCAATAATGGCACGGGAAATTGGGGGTCCATTCTAGAGCGACTTCGATCAAATGGGGCTGAGATT
1 CCAATAATGGCACGGGAAATTGGGGGTCCATTCCAGAGCGACTTCGATCAAATGGGGCTGAGATT
* *
57299632 TTTAAGGGCGTGGCTAGTGTGGCTTCTAACGTGGCTGAATATTGGTTGGAGGCCACGGAAAGGAT
66 TTTAAGGGCGTGGCTAGTGTGGCTCCTAACGTGGCTGAATATTGGTTGGAGGCCACGGAAAGGAC
* * * *
57299697 AATGGAGGATCTGGACTGTTCACCTAAACAAAAACTGAAATGGGCAGTGTCACGGCTAAGGGAAA
131 AATGGAGGATCTAGACTATTCACCTAAACAAAAACTAAAATGAGCAGTGTCACGGCTAAGGGAAA
*
57299762 AAGCTTACCAGTGGTGGCTGACAGTGAAAGAGGGCACTCAACCTGAGCAGGATTTTGGAGG
196 AAGCTTACCAGTGGTGGCTGACAATGAAAGAGGGCACTCAACCTGAGCAGGATTTTGGAGG
* *
57299823 CCAATAATGGCACGGGAAATT-GGGGTCTATTCCGGAGCGACTTCGATCAAATGGGGCTGAGATT
1 CCAATAATGGCACGGGAAATTGGGGGTCCATTCCAGAGCGACTTCGATCAAATGGGGCTGAGATT
*
57299887 TTTAAGGGCGTGGCTAGTGTGGCTCCTAATGTGGCTGAATATTGGTTGGAGGCCACGGAAAGGAC
66 TTTAAGGGCGTGGCTAGTGTGGCTCCTAACGTGGCTGAATATTGGTTGGAGGCCACGGAAAGGAC
* * ** *
57299952 AATGGAGGATCTAGACTATTCACCTGAACAAAAAGTAAAATGAGCAGTGTCATTGCTAAGGGAAG
131 AATGGAGGATCTAGACTATTCACCTAAACAAAAACTAAAATGAGCAGTGTCACGGCTAAGGGAAA
57300017 AAGCTTACCAGTGGTGGCTGACAATGAAAGAGGGCACTCAACCTGAGCAGG
196 AAGCTTACCAGTGGTGGCTGACAATGAAAGAGGGCACTCAACCTGAGCAGG
57300068 TCACTTGGGA
Statistics
Matches: 229, Mismatches: 16, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
255 208 0.91
256 21 0.09
ACGTcount: A:0.29, C:0.17, G:0.32, T:0.22
Consensus pattern (256 bp):
CCAATAATGGCACGGGAAATTGGGGGTCCATTCCAGAGCGACTTCGATCAAATGGGGCTGAGATT
TTTAAGGGCGTGGCTAGTGTGGCTCCTAACGTGGCTGAATATTGGTTGGAGGCCACGGAAAGGAC
AATGGAGGATCTAGACTATTCACCTAAACAAAAACTAAAATGAGCAGTGTCACGGCTAAGGGAAA
AAGCTTACCAGTGGTGGCTGACAATGAAAGAGGGCACTCAACCTGAGCAGGATTTTGGAGG
Found at i:57305120 original size:24 final size:24
Alignment explanation
Indices: 57305090--57305379 Score: 519
Period size: 24 Copynumber: 12.1 Consensus size: 24
57305080 GAATGTGACT
* *
57305090 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
57305114 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
57305138 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
57305162 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
57305186 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
57305210 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
57305234 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
57305258 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
57305282 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
57305306 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
57305330 ATAGT-AATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
57305353 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
57305377 ATA
1 ATA
57305380 TGGTCTTTGC
Statistics
Matches: 259, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
23 23 0.09
24 236 0.91
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:57313172 original size:24 final size:24
Alignment explanation
Indices: 57313142--57313427 Score: 483
Period size: 24 Copynumber: 12.1 Consensus size: 24
57313132 GAATGTGACT
* *
57313142 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
57313166 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
57313190 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
57313214 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
57313238 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
57313262 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
57313286 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
57313310 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
57313334 ATAGTAAATCGCACACATAGTG-C
1 ATAGTAAATCGCACACATAGTGCC
57313357 ATAGT---TCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
57313378 ATAGT-AATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
57313401 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
57313425 ATA
1 ATA
57313428 TGGTCTTTGC
Statistics
Matches: 252, Mismatches: 6, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
20 14 0.06
21 6 0.02
23 27 0.11
24 205 0.81
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:57315433 original size:23 final size:23
Alignment explanation
Indices: 57315407--57315454 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
57315397 AAGTGTATAT
57315407 AAGCCATTTTCGCATGGCTATCC
1 AAGCCATTTTCGCATGGCTATCC
57315430 AAGCCATTTTCGCATGGCTATCC
1 AAGCCATTTTCGCATGGCTATCC
57315453 AA
1 AA
57315455 ATTTATACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (23 bp):
AAGCCATTTTCGCATGGCTATCC
Found at i:57316322 original size:47 final size:47
Alignment explanation
Indices: 57316250--57316619 Score: 607
Period size: 47 Copynumber: 7.7 Consensus size: 47
57316240 CCCTTCGGAA
* * *
57316250 CTTATCACATTTATACAC-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
57316296 CCTATCACATATATACACTTTCACATTCATCACGTTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57316343 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57316390 CTTATCACATATATATCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATA-CACTTTCACATTCATCACATCGGCCATTAGGC
57316438 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
57316487 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57316534 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57316583 CTTATCACATATATATACACTTTCACATTCATCACAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACAT
57316620 ATATATACTC
Statistics
Matches: 311, Mismatches: 7, Indels: 9
0.95 0.02 0.03
Matches are distributed among these distances:
46 16 0.05
47 126 0.41
48 46 0.15
49 122 0.39
50 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57316554 original size:96 final size:96
Alignment explanation
Indices: 57316250--57316619 Score: 615
Period size: 96 Copynumber: 3.9 Consensus size: 96
57316240 CCCTTCGGAA
* * *
57316250 CTTATCACAT-T-TATACAC-TTCACATTCATCACATTGGCCATTCGGCCCTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* * *
57316312 ACTTTCACATTCATCACGTTGGCCATTCGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
57316343 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA-
57316406 CACTTTCACATTCATCACATCGGCCATTAGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
*
57316438 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
57316503 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
57316534 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
57316599 ACACTTTCACATTCATCACAT
64 ACACTTTCACATTCATCACAT
57316620 ATATATACTC
Statistics
Matches: 261, Mismatches: 8, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
92 1 0.00
93 15 0.06
94 40 0.15
95 37 0.14
96 88 0.34
97 53 0.20
98 27 0.10
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57319964 original size:40 final size:40
Alignment explanation
Indices: 57319907--57320067 Score: 252
Period size: 40 Copynumber: 4.0 Consensus size: 40
57319897 CGAATACACG
* * * *
57319907 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
57319947 ACACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
57319987 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
57320027 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
57320066 TC
1 TC
57320068 GTCGAGACCT
Statistics
Matches: 111, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 4 0.04
40 107 0.96
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:57320163 original size:38 final size:38
Alignment explanation
Indices: 57320121--57320195 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
57320111 GAATTTTAAT
*
57320121 CCGGACATAATCTCTGT-ACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCT-TCACATAGCCAGCGGGTCTTTAC
* * *
57320159 CCGGACATAATTTCTTCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTA
57320196 AACTCGGATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 1 0.03
38 31 0.97
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (38 bp):
CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTAC
Found at i:57322649 original size:49 final size:48
Alignment explanation
Indices: 57322422--57322886 Score: 764
Period size: 48 Copynumber: 9.8 Consensus size: 48
57322412 CCCTTCGGAA
* * *
57322422 CTTATCACATTTAT-ACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATAACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
57322469 C-TATCACATATAT-ACACTTTCACATTCATCACGTTGGCCATTCGGC
1 CTTATCACATATATAACACTTTCACATTCATCACATCGGCCATTAGGC
57322515 CTTATCACATATAT-ACAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATAACACTTTCACATTCATCACATCGGCCATTAGGC
*
57322561 CTTATCACATATATATCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATAACACTTTCACATTCATCACATCGGCCATTAGGC
57322609 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATA-ACACTTTCACATTCATCACATCGGCCATTAGGC
*
57322658 CTTATCACATATATAACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATAACACTTTCACATTCATCACATCGGCCATTAGGC
57322706 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATA-ACACTTTCACATTCATCACATCGGCCATTAGGC
*
57322755 CTTATCACATATAT-ACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATAACACTTTCACATTCATCACATCGGCCATTAGGC
57322802 CTTATCACATATATATACACTTTCACATTC-TCACATCGGCCATTAGGC
1 CTTATCACATATATA-ACACTTTCACATTCATCACATCGGCCATTAGGC
57322850 CTTATCACATATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATA-ACACTTTCACATTCATCACAT
57322887 ATATATACTC
Statistics
Matches: 399, Mismatches: 11, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
46 83 0.21
47 66 0.17
48 137 0.34
49 113 0.28
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (48 bp):
CTTATCACATATATAACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57322678 original size:97 final size:97
Alignment explanation
Indices: 57322422--57322886 Score: 777
Period size: 97 Copynumber: 4.9 Consensus size: 97
57322412 CCCTTCGGAA
* * *
57322422 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTCGGCC-TATCACATATAT-A
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAA
* * *
57322483 CACTTTCACATTCATCACGTTGGCCATTCGGC
66 CACTTTCACATTCATCACATCGGCCATTTGGC
*
57322515 CTTATCACATATAT--ACAC-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAA
*
57322577 CACTTTCACATTCATCACATCGGCCATTAGGC
66 CACTTTCACATTCATCACATCGGCCATTTGGC
57322609 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAA
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAA
57322674 CACTTTCACATTCATCACATCGGCCATTTGGC
66 CACTTTCACATTCATCACATCGGCCATTTGGC
57322706 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT-A
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAA
57322770 CACTTTCACATTCATCACATCGGCCATTTGGC
66 CACTTTCACATTCATCACATCGGCCATTTGGC
*
57322802 CTTATCACATATATATACACTTTCACATTC-TCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA-
57322866 ACACTTTCACATTCATCACAT
65 ACACTTTCACATTCATCACAT
57322887 ATATATACTC
Statistics
Matches: 354, Mismatches: 9, Indels: 14
0.94 0.02 0.04
Matches are distributed among these distances:
92 27 0.08
93 26 0.07
94 44 0.12
95 33 0.09
96 66 0.19
97 158 0.45
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (97 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAA
CACTTTCACATTCATCACATCGGCCATTTGGC
Found at i:57326259 original size:39 final size:40
Alignment explanation
Indices: 57326178--57326323 Score: 258
Period size: 40 Copynumber: 3.7 Consensus size: 40
57326168 CGAATACACG
* * *
57326178 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
57326218 TCACTAGCATGAATGCTCTTC-GGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
57326257 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
57326297 TCACTAGCATGAATGCTCTTCGGGACT
1 TCACTAGCATGAATGCTCTTCGGGACT
57326324 GTAACACCCC
Statistics
Matches: 102, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
39 38 0.37
40 64 0.63
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:57327828 original size:29 final size:28
Alignment explanation
Indices: 57327741--57327841 Score: 87
Period size: 29 Copynumber: 3.5 Consensus size: 28
57327731 ACTCAATCAT
* *
57327741 GCACACTTAGTGCCACGT-GATTCAAGCCC
1 GCACACTTAGTG-C-CGTACATTCAAGCTC
* * * * *
57327770 GCACACATAGTGCCATATAGTCCAAACTC
1 GCACACTTAGTGCCGTACA-TTCAAGCTC
57327799 GCACACTTAGTGCCGTACATTACAAGCTC
1 GCACACTTAGTGCCGTACATT-CAAGCTC
*
57327828 GCACACTCAGTGCC
1 GCACACTTAGTGCC
57327842 AATCTCGTCA
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
27 2 0.04
28 3 0.05
29 52 0.91
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.21
Consensus pattern (28 bp):
GCACACTTAGTGCCGTACATTCAAGCTC
Found at i:57329600 original size:38 final size:38
Alignment explanation
Indices: 57329558--57329632 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
57329548 GAATTTTAAT
*
57329558 CCGGACATAATCTCTGT-ACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCT-TCACATAGCCAGCGGGTCTTTAC
* * *
57329596 CCGGACATAATTTCTTCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTA
57329633 AACTCGGATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 1 0.03
38 31 0.97
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (38 bp):
CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTAC
Found at i:57337650 original size:21 final size:22
Alignment explanation
Indices: 57337607--57337657 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
57337597 GATATGTGAA
*
57337607 TTTATATTTGTACAGTTTTTGTG
1 TTTA-ATTTGTACAGTTTCTGTG
*
57337630 TTTAATTTGT-CTGTTTCTGTG
1 TTTAATTTGTACAGTTTCTGTG
*
57337651 CTTAATT
1 TTTAATT
57337658 ATGAAAAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 15 0.60
22 6 0.24
23 4 0.16
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.61
Consensus pattern (22 bp):
TTTAATTTGTACAGTTTCTGTG
Found at i:57339318 original size:21 final size:21
Alignment explanation
Indices: 57339308--57339349 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
57339298 CAGCGAAGCT
*
57339308 GCCAGATATTGTGACGAAGTC
1 GCCAGATATTGAGACGAAGTC
*
57339329 GCCAGATATTGTGACGAAGTC
1 GCCAGATATTGAGACGAAGTC
57339350 ACCATATAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (21 bp):
GCCAGATATTGAGACGAAGTC
Found at i:57340159 original size:27 final size:27
Alignment explanation
Indices: 57340127--57340272 Score: 202
Period size: 27 Copynumber: 5.4 Consensus size: 27
57340117 AGGGCAAAAT
* * * *
57340127 GGTAATTTTACCTTACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
57340154 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
57340181 GGTATTTCTACCTTACATGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
57340208 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
57340235 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
57340262 GGTAATTCTAC
1 GGTAATTCTAC
57340273 AACTTATCCA
Statistics
Matches: 103, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 103 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:57347849 original size:27 final size:28
Alignment explanation
Indices: 57347819--57347875 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
57347809 ATTTTTGATG
57347819 AAATGAGCTATTTG-GG-CTAATTTGTGA
1 AAATGAGCT-TTTGAGGACTAATTTGTGA
*
57347846 AAATGAGGTTTTGAAGGACTAATTTGTGA
1 AAATGAGCTTTTG-AGGACTAATTTGTGA
57347875 A
1 A
57347876 TTTAACATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.15
27 8 0.31
28 2 0.08
29 12 0.46
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.35
Consensus pattern (28 bp):
AAATGAGCTTTTGAGGACTAATTTGTGA
Found at i:57348353 original size:44 final size:42
Alignment explanation
Indices: 57348295--57348443 Score: 142
Period size: 42 Copynumber: 3.5 Consensus size: 42
57348285 TAAATTATCG
** *
57348295 TGTAAGACTGTGTCTGGGACACAGGCATCGATTTGAAATTTAA
1 TGTAAGACCATGTCTGGGACACAGGCATCGATCTG-AATTTAA
* * *
57348338 GTGTAAGACCATGTCTGGGACATC-GGTATCGTATCT-ATTTTCA
1 -TGTAAGACCATGTCTGGGACA-CAGGCATCG-ATCTGAATTTAA
* * *
57348381 TATAAGACCCTGTCTGGGACAGAGGCATCGATACTGAA-TTACA
1 TGTAAGACCATGTCTGGGACACAGGCATCGAT-CTGAATTTA-A
57348424 TGTAAGACCATGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
57348444 GTCGGCATTG
Statistics
Matches: 85, Mismatches: 14, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
41 2 0.02
42 29 0.34
43 25 0.29
44 25 0.29
45 4 0.05
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACACAGGCATCGATCTGAATTTAA
Found at i:57348451 original size:43 final size:42
Alignment explanation
Indices: 57348339--57348451 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 42
57348329 GAAATTTAAG
* * * *
57348339 TGTAAGACCATGTCTGGGACATCGGTATCGTATCTATTTTCA
1 TGTAAGACCATGTCTGGGACGTCGGCATCGTATCTAATTACA
* * *
57348381 TATAAGACCCTGTCTGGGACAG-AGGCATCG-ATACTGAATTACA
1 TGTAAGACCATGTCTGGGAC-GTCGGCATCGTAT-CT-AATTACA
57348424 TGTAAGACCATGTCTGGGACGTCGGCAT
1 TGTAAGACCATGTCTGGGACGTCGGCAT
57348452 TGTACTTGTC
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
41 2 0.04
42 27 0.47
43 28 0.49
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACGTCGGCATCGTATCTAATTACA
Found at i:57368083 original size:52 final size:50
Alignment explanation
Indices: 57368003--57368187 Score: 165
Period size: 50 Copynumber: 3.6 Consensus size: 50
57367993 TGAGAACATT
** * ** *
57368003 TGTGTAGTACTATCTGCAGGCTATTATGTGTTTAAAATGGTTTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAAATGG--TTAGGTCACA
* * **
57368055 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTAGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAAATGGTTAGGTCACA
* * * * * *
57368105 TGTGTAGTACTAAGTGCAGGCTACTATGAGTACTCGATAT-CTTTGATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTA--CAAAATGGTTAGGTCACA
* *
57368156 TGTGTGGTACTAAGTGCAGGCCACTATGTGTA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTA
57368188 AAAGATAGCT
Statistics
Matches: 110, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
50 38 0.35
51 35 0.32
52 37 0.34
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAAATGGTTAGGTCACA
Found at i:57368182 original size:51 final size:51
Alignment explanation
Indices: 57368050--57368217 Score: 149
Period size: 51 Copynumber: 3.3 Consensus size: 51
57368040 TGGTTTTAGG
* * * * ** * * *
57368050 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT-GGTTAGG
1 TCACATGTGTGGTACTAAGTGCAGGCCACTATGAGTAAAAGATAGCTTTGA
** * * *** *
57368100 TTGCATGTGTAGTACTAAGTGCAGGCTACTATGAGTACTCGATATCTTTGA
1 TCACATGTGTGGTACTAAGTGCAGGCCACTATGAGTAAAAGATAGCTTTGA
* *
57368151 TCACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGG
1 TCACATGTGTGGTACTAAGTGCAGGCCACTATGAGTAAAAGATAGCTTTGA
*
57368202 TCACAAGTGTGGTACT
1 TCACATGTGTGGTACT
57368218 GTGTGAATGC
Statistics
Matches: 96, Mismatches: 21, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
50 37 0.39
51 59 0.61
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (51 bp):
TCACATGTGTGGTACTAAGTGCAGGCCACTATGAGTAAAAGATAGCTTTGA
Found at i:57368230 original size:51 final size:51
Alignment explanation
Indices: 57368140--57368269 Score: 127
Period size: 51 Copynumber: 2.5 Consensus size: 51
57368130 ATGAGTACTC
* * * * *
57368140 GATATCTTTGATCACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAAA
1 GATAGCTTTGGTCACAAGTGTGGTACTAAGTGAAGGCCACTATGTGCAAAA
** * * *
57368191 GATAGCTTTGGTCACAAGTGTGGTACTGTGTGAATGCCACTTTGTGCAGAA
1 GATAGCTTTGGTCACAAGTGTGGTACTAAGTGAAGGCCACTATGTGCAAAA
* * *
57368242 GGTAGCTTT-GACTACAAGGGTGGTACTA
1 GATAGCTTTGGTC-ACAAGTGTGGTACTA
57368270 TGCACAAGCC
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
50 2 0.03
51 62 0.97
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (51 bp):
GATAGCTTTGGTCACAAGTGTGGTACTAAGTGAAGGCCACTATGTGCAAAA
Found at i:57371708 original size:49 final size:48
Alignment explanation
Indices: 57371635--57371829 Score: 221
Period size: 49 Copynumber: 4.0 Consensus size: 48
57371625 TAGCTGAAGC
* *
57371635 TATCTGGTACTCATAGTAGCCTGCACTTAGTACTGCACATGCGACCAA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
* * * *
57371683 TAATCTGGTACACGTAGTAGCCTGCACTTAGTGCTACACACGTGATCACAA
1 T-ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAA
* *
57371734 TTTTTGGGTACGA-ATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 TATCT-GGTAC-ACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
* * * *
57371783 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACATATGTGACC
1 -TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
57371830 TCACAATAGT
Statistics
Matches: 122, Mismatches: 18, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
48 2 0.02
49 76 0.62
50 6 0.05
51 37 0.30
52 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (48 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
Found at i:57378251 original size:20 final size:20
Alignment explanation
Indices: 57378226--57378270 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
57378216 TCAGTCTAAG
*
57378226 AGAATAATTTAGATTCTCAA
1 AGAATAATTCAGATTCTCAA
57378246 AGAATAATTCAGATTCTCAA
1 AGAATAATTCAGATTCTCAA
57378266 A-AATA
1 AGAATA
57378271 TGCTTCGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.31
Consensus pattern (20 bp):
AGAATAATTCAGATTCTCAA
Found at i:57383019 original size:10 final size:10
Alignment explanation
Indices: 57383006--57383064 Score: 64
Period size: 10 Copynumber: 5.8 Consensus size: 10
57382996 AGCTCTAATC
*
57383006 AGCTCACTTG
1 AGCTCATTTG
*
57383016 AGCTCATTTC
1 AGCTCATTTG
57383026 AGCTCATTTG
1 AGCTCATTTG
* *
57383036 AGCTTAATTTT
1 AGC-TCATTTG
*
57383047 AGCTCATTTC
1 AGCTCATTTG
57383057 AGCTCATT
1 AGCTCATT
57383065 CCTTTTTCTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
10 33 0.80
11 8 0.20
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (10 bp):
AGCTCATTTG
Found at i:57383027 original size:20 final size:20
Alignment explanation
Indices: 57383004--57383064 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
57382994 TCAGCTCTAA
*
57383004 TCAGCTCACTTGAGCTCATT
1 TCAGCTCATTTGAGCTCATT
*
57383024 TCAGCTCATTTGAGCTTAATT
1 TCAGCTCATTTGAGC-TCATT
* *
57383045 TTAGCTCATTTCAGCTCATT
1 TCAGCTCATTTGAGCTCATT
57383065 CCTTTTTCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 18 0.51
21 17 0.49
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.41
Consensus pattern (20 bp):
TCAGCTCATTTGAGCTCATT
Found at i:57383050 original size:21 final size:21
Alignment explanation
Indices: 57383004--57383060 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
57382994 TCAGCTCTAA
* *
57383004 TCAGCTCACTTGAGC-TCATT
1 TCAGCTCATTTGAGCTTAATT
57383024 TCAGCTCATTTGAGCTTAATT
1 TCAGCTCATTTGAGCTTAATT
* *
57383045 TTAGCTCATTTCAGCT
1 TCAGCTCATTTGAGCT
57383061 CATTCCTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 14 0.44
21 18 0.56
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.40
Consensus pattern (21 bp):
TCAGCTCATTTGAGCTTAATT
Found at i:57386618 original size:28 final size:27
Alignment explanation
Indices: 57386555--57386624 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
57386545 ATAGTGAGTC
57386555 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
57386582 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
57386610 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
57386625 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:57394362 original size:28 final size:27
Alignment explanation
Indices: 57394299--57394368 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
57394289 ATAGTGAGTC
57394299 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
57394326 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
57394354 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
57394369 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:57397647 original size:28 final size:27
Alignment explanation
Indices: 57397584--57397653 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
57397574 ATAGTGAGTC
57397584 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
57397611 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
57397639 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
57397654 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:57400795 original size:24 final size:24
Alignment explanation
Indices: 57400768--57400858 Score: 164
Period size: 24 Copynumber: 3.8 Consensus size: 24
57400758 GCTGGAAATA
57400768 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
57400792 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
57400816 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
57400840 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
57400859 ACATAATAAG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:57400872 original size:48 final size:48
Alignment explanation
Indices: 57400767--57400880 Score: 149
Period size: 48 Copynumber: 2.4 Consensus size: 48
57400757 TGCTGGAAAT
* * **
57400767 ATATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTA
1 ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATA
* * *
57400815 CTATGGCACTATGTGTGCGATTCGCTATGGCACTATGTGTGCGAACATA
1 ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCG-ACATA
57400864 ATA-AGCACTATGTGTGC
1 ATATAGCACTATGTGTGC
57400881 CACATTCGGT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 53 0.91
49 5 0.09
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (48 bp):
ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATA
Found at i:57401611 original size:21 final size:21
Alignment explanation
Indices: 57401585--57401628 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
57401575 AAGTCTATCC
57401585 TAATGAAAAAATCACTAAAAA
1 TAATGAAAAAATCACTAAAAA
57401606 TAATGAAAAAATCACTAAAAA
1 TAATGAAAAAATCACTAAAAA
57401627 TA
1 TA
57401629 GTAGAATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.66, C:0.09, G:0.05, T:0.20
Consensus pattern (21 bp):
TAATGAAAAAATCACTAAAAA
Found at i:57401647 original size:18 final size:16
Alignment explanation
Indices: 57401624--57401658 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
57401614 AAATCACTAA
57401624 AAATAGTAGAATAGAATT
1 AAATAGT-GAATA-AATT
57401642 AAATAGTGAATAAATT
1 AAATAGTGAATAAATT
57401658 A
1 A
57401659 TGTAAATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 5 0.29
18 7 0.41
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (16 bp):
AAATAGTGAATAAATT
Found at i:57408610 original size:29 final size:29
Alignment explanation
Indices: 57408577--57408650 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
57408567 GTGACGAGAT
57408577 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
57408606 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
57408635 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
57408651 ATTTACTATG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:57408660 original size:24 final size:24
Alignment explanation
Indices: 57408633--57408720 Score: 158
Period size: 24 Copynumber: 3.7 Consensus size: 24
57408623 GCTGGAAATA
57408633 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
57408657 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
57408681 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
57408705 TATGGCACTATGTGTG
1 TATGGCACTATGTGTG
57408721 TGAACATAAT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 62 1.00
ACGTcount: A:0.19, C:0.17, G:0.27, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:57408737 original size:48 final size:48
Alignment explanation
Indices: 57408632--57408745 Score: 140
Period size: 48 Copynumber: 2.4 Consensus size: 48
57408622 TGCTGGAAAT
* * **
57408632 ATATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTA
1 ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATA
* * * *
57408680 CTATGGCACTATGTGTGCGATTCGCTATGGCACTATGTGTGTGAACATA
1 ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCG-ACATA
57408729 ATA-AGCACTATGTGTGC
1 ATATAGCACTATGTGTGC
57408746 CACATTCGGT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
48 52 0.91
49 5 0.09
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (48 bp):
ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATA
Found at i:57410530 original size:2 final size:2
Alignment explanation
Indices: 57410523--57410556 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
57410513 GGCCATTTGC
57410523 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57410557 CCAAAACAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57413771 original size:11 final size:11
Alignment explanation
Indices: 57413755--57413779 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
57413745 ACAAATGATG
57413755 TCACCAAATTT
1 TCACCAAATTT
57413766 TCACCAAATTT
1 TCACCAAATTT
57413777 TCA
1 TCA
57413780 ATGCGAACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.28, G:0.00, T:0.36
Consensus pattern (11 bp):
TCACCAAATTT
Found at i:57415489 original size:18 final size:20
Alignment explanation
Indices: 57415458--57415495 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
57415448 ATTAAATATG
*
57415458 ATAATATAATAAAACATGAC
1 ATAATATAATAAAAAATGAC
57415478 ATAA-ATAA-AAAAAATGAC
1 ATAATATAATAAAAAATGAC
57415496 CTTGTTCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 4 0.24
20 4 0.24
ACGTcount: A:0.66, C:0.08, G:0.05, T:0.21
Consensus pattern (20 bp):
ATAATATAATAAAAAATGAC
Found at i:57416469 original size:43 final size:44
Alignment explanation
Indices: 57416346--57416469 Score: 146
Period size: 44 Copynumber: 2.8 Consensus size: 44
57416336 ACATAGGATT
* * * *
57416346 CCGATATGTGATTTCGTGTAAGACCACATCTGGGA-TGTTGGCA
1 CCGATATGTGATTACATGTAAGACCACGTCTGGGACAGTTGGCA
* *
57416389 GCGATTTGTGATTCACATGTAAGACC-CTGTCTGGGACAG-TGGCA
1 CCGATATGTGATT-ACATGTAAGACCAC-GTCTGGGACAGTTGGCA
*
57416433 CCGATATGTGATTACATGTAAGACCACGTCTAGGACA
1 CCGATATGTGATTACATGTAAGACCACGTCTGGGACA
57416470 TTAGCATTGT
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
43 33 0.49
44 34 0.50
45 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (44 bp):
CCGATATGTGATTACATGTAAGACCACGTCTGGGACAGTTGGCA
Found at i:57418900 original size:21 final size:22
Alignment explanation
Indices: 57418874--57418914 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
57418864 CATTTGATAC
57418874 AGGGGC-ACACGCCCGTGTGGA
1 AGGGGCAACACGCCCGTGTGGA
57418895 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
57418915 ATCAATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.20, C:0.29, G:0.41, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGA
Found at i:57421647 original size:40 final size:40
Alignment explanation
Indices: 57421567--57421785 Score: 336
Period size: 40 Copynumber: 5.5 Consensus size: 40
57421557 TTCGGATGAC
*
57421567 ATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
57421606 ATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
* * *
57421646 ATACGGGCTATGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
57421686 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
* *
57421726 ATCCGGGCTAAGTACCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
*
57421766 ATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
57421786 TACTTGGGTT
Statistics
Matches: 166, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 37 0.22
40 127 0.77
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:57426523 original size:39 final size:39
Alignment explanation
Indices: 57426462--57426571 Score: 150
Period size: 39 Copynumber: 2.8 Consensus size: 39
57426452 ACTGGAAATG
* *
57426462 TATCTGGGCTAAAGTCCCGCAGGCTTCGTGCTAGAAACA
1 TATCCGGGCTAAAGTCCTGCAGGCTTCGTGCTAGAAACA
**
57426501 TATCCGGGCTAAAGTCCTGCAGGCTTCGTGCTAGAAATG
1 TATCCGGGCTAAAGTCCTGCAGGCTTCGTGCTAGAAACA
* *
57426540 TATCCAGGCTAAAGT-CTCGCAGGCTTTGTGCT
1 TATCCGGGCTAAAGTCCT-GCAGGCTTCGTGCT
57426572 GGTAATATAA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 2 0.03
39 62 0.97
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.26
Consensus pattern (39 bp):
TATCCGGGCTAAAGTCCTGCAGGCTTCGTGCTAGAAACA
Found at i:57428559 original size:46 final size:48
Alignment explanation
Indices: 57428509--57428599 Score: 123
Period size: 46 Copynumber: 1.9 Consensus size: 48
57428499 CATTGACTTA
* * *
57428509 CGTCTCGAGGCCGATG-CATGTCCCAAAC-ATGTCTTACATTAGCACT
1 CGTCTCAAGGCCGATGCCATGTCCCAAACAAGGTCTTACACTAGCACT
* *
57428555 CGTCTCAATGCCGATGCCATGTCCCAGACAAGGTCTTACACTAGC
1 CGTCTCAAGGCCGATGCCATGTCCCAAACAAGGTCTTACACTAGC
57428600 TCACACAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
46 14 0.37
47 11 0.29
48 13 0.34
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (48 bp):
CGTCTCAAGGCCGATGCCATGTCCCAAACAAGGTCTTACACTAGCACT
Found at i:57436140 original size:46 final size:49
Alignment explanation
Indices: 57436057--57436180 Score: 141
Period size: 47 Copynumber: 2.6 Consensus size: 49
57436047 TCAAGTCCAA
* * *
57436057 GCCATGTCCCAGACACGGTCTTTCACTA--ACTTACGTCTCGAGGCCGAT
1 GCCATGTCCCAGACA-TGTCTTACACTAGCACTTACGTCTCAAGGCCGAT
* *
57436105 G-CATGTCCCAGACATGTCTTACACTAGCAC-T-CGTCTCAATGTCGAT
1 GCCATGTCCCAGACATGTCTTACACTAGCACTTACGTCTCAAGGCCGAT
*
57436151 GCCATGTCCTAGACATGGTCTTACACTAGC
1 GCCATGTCCCAGACAT-GTCTTACACTAGC
57436181 TCACACAAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
46 23 0.35
47 27 0.41
48 16 0.24
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACATGTCTTACACTAGCACTTACGTCTCAAGGCCGAT
Found at i:57436606 original size:37 final size:38
Alignment explanation
Indices: 57436564--57436641 Score: 113
Period size: 38 Copynumber: 2.1 Consensus size: 38
57436554 TTTGACAAAA
* *
57436564 TGACCATTTTACCCCTA-GCCTAAAAATTGATTTTTAT
1 TGACCATTTTACCCCTAGGCCCAAAAATTAATTTTTAT
* *
57436601 TGACCATTTTGCCCCTAGGCCCGAAAATTAATTTTTAT
1 TGACCATTTTACCCCTAGGCCCAAAAATTAATTTTTAT
57436639 TGA
1 TGA
57436642 ATTTTTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 16 0.44
38 20 0.56
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (38 bp):
TGACCATTTTACCCCTAGGCCCAAAAATTAATTTTTAT
Found at i:57447781 original size:40 final size:40
Alignment explanation
Indices: 57447700--57447881 Score: 287
Period size: 40 Copynumber: 4.6 Consensus size: 40
57447690 CAACCAAGTA
* ** *
57447700 CCTTCGGGATTTAG-CCGGACATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
57447739 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
57447779 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
57447819 CCTTCGGGATTTAGCTCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
57447859 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
57447882 CATCCGAATA
Statistics
Matches: 133, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 14 0.11
40 119 0.89
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:57449664 original size:39 final size:39
Alignment explanation
Indices: 57449624--57449817 Score: 343
Period size: 39 Copynumber: 5.0 Consensus size: 39
57449614 CAAGATACTG
*
57449624 GAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTGCTA
*
57449663 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTA
1 GAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTGCTA
*
57449702 GAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTGCAA
1 GAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTGCTA
*
57449741 GAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTGCAA
1 GAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTGCTA
*
57449780 GAAATGTATCCGGGCTAAAGTCCCGTAGGCTTTGTGCT
1 GAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTGCT
57449818 GGTAATATAA
Statistics
Matches: 149, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 149 1.00
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTGCTA
Found at i:57458307 original size:2 final size:2
Alignment explanation
Indices: 57458300--57458324 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
57458290 GAGACTAGTC
57458300 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
57458325 CATGTCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:57459616 original size:67 final size:65
Alignment explanation
Indices: 57459414--57459592 Score: 181
Period size: 63 Copynumber: 2.8 Consensus size: 65
57459404 TAGTTCGGCT
* * * * * *
57459414 TCTTGTAC-ACATGGTG-AACACTTAGTACCACCCATGTGACCTAGC--CAGTTTATCTCGTAGC
1 TCTTGT-CTACATGGTGCTACACATAGAACCACCCATGCGACCTAGCTACA-TATATCCCGTAGC
57459475 TC
64 TC
* * * *
57459477 TCTTGTCTACATGGTGTCCTTCACTTGGAACCACGCATGCGACCTAGCTACATATATCCCGTAGC
1 TCTTGTCTACATGGTG--CTACACATAGAACCACCCATGCGACCTAGCTACATATATCCCGTAGC
57459542 TC
64 TC
*
57459544 TCTTGTCTACATGGTG-TACACATAGTA-CACCCATGCGACCTAGCTACAT
1 TCTTGTCTACATGGTGCTACACATAGAACCACCCATGCGACCTAGCTACAT
57459593 CATAATGTCT
Statistics
Matches: 97, Mismatches: 13, Indels: 12
0.80 0.11 0.10
Matches are distributed among these distances:
62 1 0.01
63 35 0.36
64 7 0.07
66 23 0.24
67 29 0.30
68 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (65 bp):
TCTTGTCTACATGGTGCTACACATAGAACCACCCATGCGACCTAGCTACATATATCCCGTAGCTC
Found at i:57460358 original size:30 final size:30
Alignment explanation
Indices: 57460324--57460384 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
57460314 TCCTTAACTC
57460324 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
57460354 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
57460384 A
1 A
57460385 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:57462243 original size:38 final size:35
Alignment explanation
Indices: 57462185--57462302 Score: 128
Period size: 31 Copynumber: 3.5 Consensus size: 35
57462175 TCAATCATGC
57462185 ACTGGGCC-ATAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGA-AG-CCTTTTCATATTTCATATTT-AT--T
57462224 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
57462255 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
57462286 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
57462303 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 0, Indels: 10
0.89 0.00 0.11
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 10 0.13
40 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:57462246 original size:31 final size:31
Alignment explanation
Indices: 57462208--57462302 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
57462198 CCTTTTCATA
*
57462208 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
57462239 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
57462270 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
57462301 TT
1 TT
57462303 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:57462545 original size:24 final size:24
Alignment explanation
Indices: 57462493--57462659 Score: 259
Period size: 24 Copynumber: 7.0 Consensus size: 24
57462483 GCTTTATCAT
* *
57462493 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
*
57462518 ATAACTGGGGCAAAAGCCCTTTCT-
1 ATAACTGGGGCATAAGCCCTTT-TG
57462542 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
57462565 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
57462589 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
57462613 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
57462637 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
57462660 TCACTTCCTC
Statistics
Matches: 136, Mismatches: 3, Indels: 7
0.93 0.02 0.05
Matches are distributed among these distances:
23 24 0.18
24 99 0.73
25 13 0.10
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:57462735 original size:20 final size:20
Alignment explanation
Indices: 57462710--57462769 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
57462700 TATGATTACC
57462710 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
57462730 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
57462750 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
57462770 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:57462844 original size:25 final size:25
Alignment explanation
Indices: 57462812--57462859 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
57462802 ATACATAAAC
* * *
57462812 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
57462837 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
57462860 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:57464119 original size:54 final size:54
Alignment explanation
Indices: 57464071--57464238 Score: 149
Period size: 54 Copynumber: 3.1 Consensus size: 54
57464061 GGGTATTGCG
57464071 GTAATTTCACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTTCACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACA
*** * *** * *
57464125 GTAATTTTGTAAATCAAGGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAATA
1 GTAATTTCACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACA
* * * *** * * * *
57464179 GTAA-TTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTTC-ACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACA
57464233 GTAATT
1 GTAATT
57464239 CTGTAAATGA
Statistics
Matches: 94, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
53 2 0.02
54 91 0.97
55 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.32
Consensus pattern (54 bp):
GTAATTTCACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACA
Found at i:57464453 original size:27 final size:27
Alignment explanation
Indices: 57464098--57464442 Score: 383
Period size: 27 Copynumber: 12.8 Consensus size: 27
57464088 GGGTATTTTA
* * *
57464098 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * **
57464125 GTAATTTTGTAAATCAAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * **
57464152 GTAATTTTGTAAATCAAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
57464179 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
57464206 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
57464233 GTAATTCTGTAAAT-GAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
57464259 ATAATTATGTAAATCTG-GGGTAAAATG
1 GTAATTCTATAAATC-GAGGGTAAAACG
* * *
57464286 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTATAAATCGA-GGGTAAAACG
**
57464313 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
57464340 GTAATTCTGTAAA-CTGAGGGTAAAACA
1 GTAATTCTATAAATC-GAGGGTAAAACG
57464367 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
57464394 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
57464421 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
57464443 CTTTGGTAAT
Statistics
Matches: 284, Mismatches: 27, Indels: 14
0.87 0.08 0.04
Matches are distributed among these distances:
26 25 0.09
27 256 0.90
28 3 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:57464464 original size:27 final size:27
Alignment explanation
Indices: 57464393--57464589 Score: 166
Period size: 27 Copynumber: 7.3 Consensus size: 27
57464383 AGGGTAAAAC
****
57464393 GGTAATTTTACAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
57464420 GGTAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
57464447 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
** ** *
57464474 AATAATTTTACAGGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
57464501 AGTAATTTCACAAAT-TAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
57464528 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* *
57464555 GATAATTTTACAAA-CTAGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
*
57464581 CGTAATTTT
1 GGTAATTTT
57464590 GTAAACCAAA
Statistics
Matches: 143, Mismatches: 25, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
26 17 0.12
27 126 0.88
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTATTTT
Found at i:57467021 original size:38 final size:35
Alignment explanation
Indices: 57466963--57467080 Score: 128
Period size: 31 Copynumber: 3.5 Consensus size: 35
57466953 TCAATCATGC
57466963 ACTGGGCC-ATAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGA-AG-CCTTTTCATATTTCATATTT-AT--T
57467002 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
57467033 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
57467064 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
57467081 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 0, Indels: 10
0.89 0.00 0.11
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 10 0.13
40 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:57467024 original size:31 final size:31
Alignment explanation
Indices: 57466986--57467080 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
57466976 CCTTTTCATA
*
57466986 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
57467017 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
57467048 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
57467079 TT
1 TT
57467081 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:57467324 original size:24 final size:24
Alignment explanation
Indices: 57467272--57467414 Score: 211
Period size: 24 Copynumber: 6.0 Consensus size: 24
57467262 GCTTTATCAT
* *
57467272 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
*
57467297 ATAACTGGGGCAAAAGCCCTTTCT-
1 ATAACTGGGGCATAAGCCCTTT-TG
57467321 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
57467344 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
57467368 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
57467392 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
57467415 TCACTTCCTC
Statistics
Matches: 112, Mismatches: 3, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
23 24 0.21
24 75 0.67
25 13 0.12
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:57467352 original size:47 final size:47
Alignment explanation
Indices: 57467271--57467414 Score: 211
Period size: 47 Copynumber: 3.0 Consensus size: 47
57467261 TGCTTTATCA
* *
57467271 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTT
57467319 CTATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTT
1 -TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
*
57467366 TGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
57467414 T
1 T
57467415 TCACTTCCTC
Statistics
Matches: 90, Mismatches: 2, Indels: 7
0.91 0.02 0.07
Matches are distributed among these distances:
46 1 0.01
47 44 0.49
48 32 0.36
49 13 0.14
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (47 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
Found at i:57467372 original size:71 final size:72
Alignment explanation
Indices: 57467271--57467414 Score: 222
Period size: 71 Copynumber: 2.0 Consensus size: 72
57467261 TGCTTTATCA
*
57467271 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCT-ATAACTGGGGCATA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTT-TGATAACTGGGGCATA
57467335 AGCCCTTT
65 AGCCCTTT
* *
57467343 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATA
57467406 AGCCCTTT
65 AGCCCTTT
57467414 T
1 T
57467415 TCACTTCCTC
Statistics
Matches: 67, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
70 1 0.01
71 53 0.79
72 13 0.19
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAA
GCCCTTT
Found at i:57467490 original size:20 final size:20
Alignment explanation
Indices: 57467465--57467524 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
57467455 TATGATTACC
57467465 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
57467485 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
57467505 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
57467525 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:57467599 original size:25 final size:25
Alignment explanation
Indices: 57467567--57467614 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
57467557 ATACATAAAC
* * *
57467567 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
57467592 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
57467615 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:57469206 original size:27 final size:27
Alignment explanation
Indices: 57468850--57469195 Score: 401
Period size: 27 Copynumber: 12.8 Consensus size: 27
57468840 GGGTATTTTA
* * *
57468850 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
57468877 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * **
57468904 GTAATTTTGTAAATCAAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
57468931 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
57468958 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
57468985 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
57469012 ATAATTATGTAAATCTG-GGGTAAAATG
1 GTAATTCTATAAATC-GAGGGTAAAACG
* * *
57469039 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTATAAATCGA-GGGTAAAACG
**
57469066 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
57469093 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTATAAATC-GAGGGTAAAACG
57469120 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
57469147 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
57469174 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
57469196 CTTTGGTAAT
Statistics
Matches: 286, Mismatches: 27, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
26 1 0.00
27 282 0.99
28 3 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:57469217 original size:27 final size:27
Alignment explanation
Indices: 57469119--57469342 Score: 184
Period size: 27 Copynumber: 8.3 Consensus size: 27
57469109 AGGGTAAAAC
* * ****
57469119 GGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
****
57469146 GGTAATTTTACAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
57469173 GGTAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
*
57469200 GGTAATTTTACAAGTCGAGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
** ** *
57469227 AATAATTTTACAGGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
57469254 AGTAATTTCACAAAT-TAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
57469281 GGTAATTTTACAAA-CTATGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* *
57469308 GATAATTTTACAAA-CTAGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
57469334 GGTAATTTT
1 GGTAATTTT
57469343 GTAAACCAAA
Statistics
Matches: 168, Mismatches: 27, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
26 18 0.11
27 150 0.89
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTATTTT
Found at i:57472267 original size:40 final size:40
Alignment explanation
Indices: 57472210--57472315 Score: 167
Period size: 40 Copynumber: 2.6 Consensus size: 40
57472200 CCGGGTTTGG
* *
57472210 AACTTGCACAAATGCCTTCGGGTCTTAGCCCAGATATAAC
1 AACTCGCACGAATGCCTTCGGGTCTTAGCCCAGATATAAC
* *
57472250 AATTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAC
1 AACTCGCACGAATGCCTTCGGGTCTTAGCCCAGATATAAC
*
57472290 AACTCGCACGAATGCCTTTGGGTCTT
1 AACTCGCACGAATGCCTTCGGGTCTT
57472316 TACAGCGTAG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
AACTCGCACGAATGCCTTCGGGTCTTAGCCCAGATATAAC
Found at i:57482485 original size:17 final size:17
Alignment explanation
Indices: 57482463--57482500 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
57482453 GAGCATTCAT
57482463 GCTAGTGATGTATCCGG
1 GCTAGTGATGTATCCGG
57482480 GCTAGTGATGTATCCGG
1 GCTAGTGATGTATCCGG
57482497 GCTA
1 GCTA
57482501 AGTTCCGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.29
Consensus pattern (17 bp):
GCTAGTGATGTATCCGG
Found at i:57482503 original size:57 final size:56
Alignment explanation
Indices: 57482430--57482541 Score: 179
Period size: 57 Copynumber: 2.0 Consensus size: 56
57482420 AGGTCTCGAC
*
57482430 GATGATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAGT
1 GATGATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAGT
* * *
57482486 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGTTATATCCGGGCTAG
1 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAG
57482542 GTCCCGAAGA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
56 4 0.08
57 47 0.92
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (56 bp):
GATGATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAGT
Found at i:57485934 original size:49 final size:49
Alignment explanation
Indices: 57485878--57486251 Score: 598
Period size: 49 Copynumber: 7.8 Consensus size: 49
57485868 AGTTATATAT
57485878 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
57485927 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* *
57485976 ATGTGAAGAATGTGAAAGTGTATATATATGTGATAAGGCCAAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
57486025 ATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* *
57486074 ATGTGAAGAATGTGAAAGTGCATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* * *
57486123 ACGTGATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* * * *
57486170 ACGTGATGAATGTGAAAGTG--TATATATGTGATAGGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
57486217 ATGTGATGAATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
57486252 TTCCGAAGGG
Statistics
Matches: 304, Mismatches: 17, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
47 94 0.31
48 7 0.02
49 203 0.67
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (49 bp):
ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
Found at i:57488338 original size:384 final size:384
Alignment explanation
Indices: 57487629--57488399 Score: 1416
Period size: 384 Copynumber: 2.0 Consensus size: 384
57487619 GTAGTCGATC
*
57487629 CCTGTAACATGGGAGACTTTAACTAATAAACTGTACTAATTGGCTGGACCAAAAATTCTAGAAAA
1 CCTGTAACATGGGAGACTTTAACTAATAAACTGTACTAATTGGCTAGACCAAAAATTCTAGAAAA
* *
57487694 AAATATGTAGATGGGAATATGAGTCTAGTTTTAGGGAAAAATTTCAAAACTAATTTTCGAGTTTT
66 AAATATGTAGATGGGAATATGAGTCTAGTTTCAGGGAAAAATTACAAAACTAATTTTCGAGTTTT
* * *
57487759 GAAACTCAAGATATGATTTTTAAGGCGACCGTGATGCAGTAACCAGCTTGTCTGGAAATTTTTTT
131 GAAACTCAAGATATGATTTTTAAGGAGACCGTGACGCAGTAACCAACTTGTCTGGAAATTTTTTT
57487824 TTATGGACTGTGAGAACAATTAAGTTAAGTCTATGTGCACCTTGTGTTCGACTCCGGTAACGGAC
196 TTATGGACTGTGAGAACAATTAAGTTAAGTCTATGTGCACCTTGTGTTCGACTCCGGTAACGGAC
57487889 TCGGGTACGGGGTGTTACAATATCGAATTCATCAAATTGCAGCAACATCAAATCAGCCGGAAAGC
261 TCGGGTACGGGGTGTTACAATATCGAATTCATCAAATTGCAGCAACATCAAATCAGCCGGAAAGC
*
57487954 ACAGATATCGAACCATCAAGGGACAATTCTTACACACTTTATCAACCATAACACACCGG
326 ACAGATATCAAACCATCAAGGGACAATTCTTACACACTTTATCAACCATAACACACCGG
*
57488013 CCTGTAACATGGGAGACTTTATCTAATAAACTGTACTAATTGGCTAGACCAAAAATTCTAGAAAA
1 CCTGTAACATGGGAGACTTTAACTAATAAACTGTACTAATTGGCTAGACCAAAAATTCTAGAAAA
* * * *
57488078 AAATCTGTAGATGGGCATATGAGTCTAGTTTCAGGGAAAAATTACGAAACTGATTTTCGAGTTTT
66 AAATATGTAGATGGGAATATGAGTCTAGTTTCAGGGAAAAATTACAAAACTAATTTTCGAGTTTT
*
57488143 GAAACTCAAGGTATGATTTTTAAGGAGACCGTGACGCAGTAACCAACTTGTCTGGAAATTTTTTT
131 GAAACTCAAGATATGATTTTTAAGGAGACCGTGACGCAGTAACCAACTTGTCTGGAAATTTTTTT
*
57488208 TTATGGACTGTGAGAACAATTAAGTTAAGTCTGTGTGCACCTTGTGTTCGACTCCGGTAACGGAC
196 TTATGGACTGTGAGAACAATTAAGTTAAGTCTATGTGCACCTTGTGTTCGACTCCGGTAACGGAC
57488273 TCGGGTACGGGGTGTTACAATATCGAATTCATCAAATTGCAGCAACATCAAATCAGCCGGAAAGC
261 TCGGGTACGGGGTGTTACAATATCGAATTCATCAAATTGCAGCAACATCAAATCAGCCGGAAAGC
57488338 ACAGATATCAAACCATCAAGGGACAATTCTTACACACTTTATCAACCATAACACACCGG
326 ACAGATATCAAACCATCAAGGGACAATTCTTACACACTTTATCAACCATAACACACCGG
57488397 CCT
1 CCT
57488400 AAGGGGTTTG
Statistics
Matches: 373, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
384 373 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (384 bp):
CCTGTAACATGGGAGACTTTAACTAATAAACTGTACTAATTGGCTAGACCAAAAATTCTAGAAAA
AAATATGTAGATGGGAATATGAGTCTAGTTTCAGGGAAAAATTACAAAACTAATTTTCGAGTTTT
GAAACTCAAGATATGATTTTTAAGGAGACCGTGACGCAGTAACCAACTTGTCTGGAAATTTTTTT
TTATGGACTGTGAGAACAATTAAGTTAAGTCTATGTGCACCTTGTGTTCGACTCCGGTAACGGAC
TCGGGTACGGGGTGTTACAATATCGAATTCATCAAATTGCAGCAACATCAAATCAGCCGGAAAGC
ACAGATATCAAACCATCAAGGGACAATTCTTACACACTTTATCAACCATAACACACCGG
Found at i:57491939 original size:32 final size:31
Alignment explanation
Indices: 57491896--57492003 Score: 85
Period size: 32 Copynumber: 3.4 Consensus size: 31
57491886 GTCAACCTCA
*
57491896 CACACTCAGTGCCATATATCAGTAACGTATCG
1 CACACTTAGTGCCATATATCA-TAACGTATCG
* **
57491928 CACACTTAGTGCCGT-TA-CATTAATATTATCG
1 CACACTTAGTGCCATATATCA-TAA-CGTATCG
* * * *
57491959 CACACTTAGTGCTAAAGTCTCATGACGTATCG
1 CACACTTAGTGCCATA-TATCATAACGTATCG
*
57491991 CATACTTAGTGCC
1 CACACTTAGTGCC
57492004 GTCACTTTAT
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
30 5 0.09
31 19 0.33
32 29 0.50
33 3 0.05
34 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (31 bp):
CACACTTAGTGCCATATATCATAACGTATCG
Found at i:57495614 original size:49 final size:49
Alignment explanation
Indices: 57495478--57495782 Score: 474
Period size: 49 Copynumber: 6.3 Consensus size: 49
57495468 CCCTTCGGGA
* * * * *
57495478 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
57495525 CCTATCAC--AGATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57495572 CTTATCACATATATATACACTTTCACATTCATTACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57495621 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57495672 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57495721 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57495770 CTTATCACATATA
1 CTTATCACATATA
57495783 CTATCATGTA
Statistics
Matches: 241, Mismatches: 11, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
47 47 0.20
49 146 0.61
51 48 0.20
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57495667 original size:100 final size:98
Alignment explanation
Indices: 57495478--57495782 Score: 474
Period size: 100 Copynumber: 3.1 Consensus size: 98
57495468 CCCTTCGGGA
* * * * * * *
57495478 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCAC--AGATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
* *
57495539 ACACTTTCACATTCATCACATTGGCCATTCGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
57495572 CTTATCACATATATATACACTTTCACATTCATTACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
57495637 ATACACTTTCACATTCATCACATCGGCCATTAGGC
64 ATACACTTTCACATTCATCACATCGGCCATTAGGC
57495672 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
57495737 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
57495770 CTTATCACATATA
1 CTTATCACATATA
57495783 CTATCATGTA
Statistics
Matches: 194, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
94 10 0.05
95 1 0.01
96 37 0.19
98 54 0.28
100 92 0.47
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (98 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
ACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57495758 original size:149 final size:147
Alignment explanation
Indices: 57495489--57495782 Score: 480
Period size: 149 Copynumber: 2.0 Consensus size: 147
57495479 TTATCACATT
* * *
57495489 TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACAGATATACACTTTCACATTCA
1 TATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACAGATATACACTTTCACATTCA
* * *
57495554 TCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATTACATCGGCCATTAG
66 TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAG
57495619 GCCTTATCACATATATA
131 GCCTTATCACATATATA
* * * *
57495636 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
1 TATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCAC--AGATATACACTTTCACATT
57495701 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
64 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
57495766 AGGCCTTATCACATATA
129 AGGCCTTATCACATATA
57495783 CTATCATGTA
Statistics
Matches: 135, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
147 38 0.28
149 97 0.72
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (147 bp):
TATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACAGATATACACTTTCACATTCA
TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAG
GCCTTATCACATATATA
Found at i:57497383 original size:2 final size:2
Alignment explanation
Indices: 57497376--57497419 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
57497366 ATAAGTATGC
*
57497376 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57497418 AT
1 AT
57497420 TCCACGACAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:57503699 original size:40 final size:40
Alignment explanation
Indices: 57503620--57503777 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
57503610 TTCGAATGAT
* * * *
57503620 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
57503660 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
57503700 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
57503740 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
57503778 GTAACCGGGC
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:57503798 original size:80 final size:80
Alignment explanation
Indices: 57503620--57503807 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
57503610 TTCGAATGAT
* *
57503620 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
57503685 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
57503700 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
57503761 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
57503781 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
57503808 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:57508924 original size:48 final size:48
Alignment explanation
Indices: 57508869--57509048 Score: 204
Period size: 48 Copynumber: 3.8 Consensus size: 48
57508859 ACCGTGCTAA
* * *
57508869 ATGTGCCTATGTAAGACCATGTTTGGGACATGGCATCGGCGATGATAT
1 ATGTGCCTATGTAAGACCATGTCTGGGACATGGCATCAGCAATGATAT
* * *
57508917 ATGTGCCTGTGTAAGACCATATTTGGGACATGGCATCAGCAATGATAT
1 ATGTGCCTATGTAAGACCATGTCTGGGACATGGCATCAGCAATGATAT
**
57508965 GCGTGCC-AGTGTAAGACCATGTCTGGGACAT-GCAATCAGCAATGATAT
1 ATGTGCCTA-TGTAAGACCATGTCTGGGACATGGC-ATCAGCAATGATAT
* ** *
57509013 GTG-GATTCATGTAAGACCATGTCGGGGACATGGCAT
1 ATGTGCCT-ATGTAAGACCATGTCTGGGACATGGCAT
57509049 TGGTACTTTA
Statistics
Matches: 114, Mismatches: 13, Indels: 10
0.83 0.09 0.07
Matches are distributed among these distances:
47 3 0.03
48 108 0.95
49 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (48 bp):
ATGTGCCTATGTAAGACCATGTCTGGGACATGGCATCAGCAATGATAT
Found at i:57514589 original size:48 final size:47
Alignment explanation
Indices: 57514527--57514655 Score: 152
Period size: 48 Copynumber: 2.7 Consensus size: 47
57514517 CCTGTGAAAA
* *
57514527 ACCATATCTAGGACATGGCATCAGCGATGATATATGAGCATGTGTAAG
1 ACCATATCTAGGACATGGCATCGGTGATGATATATG-GCATGTGTAAG
* * * * *
57514575 ACCATGTCTGGGACATGGAATCGGTGATGATATCCGTGCCA-GTGTAAG
1 ACCATATCTAGGACATGGCATCGGTGATGATAT--ATGGCATGTGTAAG
*
57514623 ACCATATCTAAGACATGGCATCGGTGATGATAT
1 ACCATATCTAGGACATGGCATCGGTGATGATAT
57514656 GTGGATTCAT
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
48 64 0.94
49 2 0.03
50 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (47 bp):
ACCATATCTAGGACATGGCATCGGTGATGATATATGGCATGTGTAAG
Found at i:57514669 original size:48 final size:47
Alignment explanation
Indices: 57514527--57514675 Score: 142
Period size: 48 Copynumber: 3.1 Consensus size: 47
57514517 CCTGTGAAAA
* * * *
57514527 ACCATATCTAGGACATGGCATCAGCGATGATATATGAGCAT-GTGTAAG
1 ACCATATCTAGGACATGGCATCGGTGATGATATGTG-G-ATCATGTAAG
* * * *
57514575 ACCATGTCTGGGACATGGAATCGGTGATGATATCCGT-G-CCAGTGTAAG
1 ACCATATCTAGGACATGGCATCGGTGATGATAT--GTGGATCA-TGTAAG
*
57514623 ACCATATCTAAGACATGGCATCGGTGATGATATGTGGATTCATGTAAG
1 ACCATATCTAGGACATGGCATCGGTGATGATATGTGGA-TCATGTAAG
57514671 ACCAT
1 ACCAT
57514676 GTCGGGTACA
Statistics
Matches: 81, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
46 2 0.02
47 1 0.01
48 75 0.93
49 2 0.02
50 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (47 bp):
ACCATATCTAGGACATGGCATCGGTGATGATATGTGGATCATGTAAG
Found at i:57516129 original size:93 final size:93
Alignment explanation
Indices: 57516022--57516192 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
57516012 GCCCCTAAGT
* *
57516022 GAACTCGGACTCAACTCAACGAGCTCGGGCTTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57516087 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
57516115 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
57516180 CGAGTTCGGATGC
66 CGAGCTCGGATGC
57516193 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:57516189 original size:46 final size:46
Alignment explanation
Indices: 57516017--57516189 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
57516007 AACCCGCCCC
* *
57516017 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCA
*
57516063 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCATCCA
* * *
57516111 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCA
*
57516156 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
57516190 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCA
Found at i:57523671 original size:93 final size:93
Alignment explanation
Indices: 57523564--57523734 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
57523554 GCCCCTAAGT
* *
57523564 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57523629 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
57523657 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57523722 CGAGTTCGGATGC
66 CGAGTTCGGATGC
57523735 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:57523731 original size:46 final size:46
Alignment explanation
Indices: 57523559--57523731 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
57523549 AACCCGCCCC
* * *
57523559 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
57523605 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
57523653 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
57523698 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
57523732 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:57529685 original size:42 final size:42
Alignment explanation
Indices: 57529638--57529744 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
57529628 TATTGGTCTC
57529638 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
57529680 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
57529722 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
57529745 ATTGTACAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:57529809 original size:27 final size:28
Alignment explanation
Indices: 57529752--57529821 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
57529742 AAAATTGTAC
**
57529752 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
57529780 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
57529807 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
57529822 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:57536897 original size:42 final size:42
Alignment explanation
Indices: 57536850--57536956 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
57536840 TATTGGTCTC
57536850 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
57536892 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
57536934 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
57536957 ATTGTACAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:57537021 original size:27 final size:28
Alignment explanation
Indices: 57536964--57537033 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
57536954 AAAATTGTAC
**
57536964 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
57536992 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
57537019 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
57537034 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:57540773 original size:46 final size:46
Alignment explanation
Indices: 57540629--57540845 Score: 203
Period size: 46 Copynumber: 4.7 Consensus size: 46
57540619 TTTGTGTGCT
* * **
57540629 AGTGTAAGACATGCCTGGGACATGCATCGGCCAC-ATTG-TGGGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA--GATGTAAGCC
* * * * * *
57540675 AGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAAACG-AGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTA-AGCC
*
57540723 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGGGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
* *
57540769 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACAAGATGT--GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAAGCC
57540813 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
57540846 ACGGATATGC
Statistics
Matches: 142, Mismatches: 19, Indels: 19
0.79 0.11 0.11
Matches are distributed among these distances:
44 11 0.08
45 16 0.11
46 67 0.47
47 26 0.18
48 21 0.15
49 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
Found at i:57540881 original size:50 final size:49
Alignment explanation
Indices: 57540628--57540942 Score: 200
Period size: 46 Copynumber: 6.7 Consensus size: 49
57540618 ATTTGTGTGC
* * * * *
57540628 TAGTGTAAGA-CATGCCTGGGACAT-GCATCGGCCAC--ATTGTGGGAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGGAATGCGAGAGG
* * ** * *
57540674 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAA-ACGAGAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGAATGCGAGAGG
* * * *
57540722 TAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGGGATG-TA-AGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGGAATGCGAGAGG
* *
57540768 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAC--AA---GATG-TG
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGGAATGCGA-GAGG
57540811 TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGCGAGAGG
1 T-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGA-ATGCGAGAGG
* * * * * *
57540862 TAGTGTAAGACCATTTCTGGGACATGGCGTCGGC-CTTGATTTCGATA-G
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGAATGCGAGAGG
* *
57540910 TCAGTGTAAGGCCATGTCTGGGACATGGAATCG
1 T-AGTGTAAGACCATGTCTGGGACATGGCATCG
57540943 ACTTGATGGA
Statistics
Matches: 214, Mismatches: 34, Indels: 39
0.75 0.12 0.14
Matches are distributed among these distances:
42 1 0.00
44 10 0.05
45 17 0.08
46 58 0.27
47 32 0.15
48 24 0.11
49 34 0.16
50 34 0.16
51 4 0.02
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (49 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGAATGCGAGAGG
Found at i:57542747 original size:40 final size:39
Alignment explanation
Indices: 57542703--57542831 Score: 111
Period size: 40 Copynumber: 3.3 Consensus size: 39
57542693 GACTCGCTCA
*
57542703 AATGCCTTCGGGAC-GAAGCCC-GGTTATAGCGACTTGCAC
1 AATGCCTTCGGGACTGAA-CCCGGGTT-TAGCAACTTGCAC
* *
57542742 GAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCAC
1 -AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
* * * * ** *
57542782 AAAGCCTTCGGGA-TTAGCCCGGATTTATTAACTCGCAC
1 AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
57542820 GAATGCCTTCGG
1 -AATGCCTTCGG
57542832 ATCCTAGTCC
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
38 21 0.27
39 22 0.29
40 28 0.36
41 6 0.08
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
Found at i:57542831 original size:78 final size:80
Alignment explanation
Indices: 57542738--57542884 Score: 210
Period size: 78 Copynumber: 1.9 Consensus size: 80
57542728 ATAGCGACTT
* * *
57542738 GCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAAAGCCTTCGGGA-TTAGC
1 GCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGC
57542800 CCGGATTTATTAACTC
65 CCGGATTTATTAACTC
** *
57542816 GCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCC
1 GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
57542881 CGGA
66 CGGA
57542885 CATCATTCGA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
77 3 0.05
78 30 0.50
79 17 0.28
80 10 0.17
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
CGGATTTATTAACTC
Done.