Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 74 of 362
Found at i:23062601 original size:82 final size:81
Alignment explanation
Indices: 23062488--23062643 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
23062478 AAATTGTACA
* *
23062488 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
23062552 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
23062569 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
23062634 TGCGAGTTGA
65 TGCGAATTGA
23062644 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:23062655 original size:82 final size:81
Alignment explanation
Indices: 23062484--23062664 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
23062474 GATTAAATTG
* *
23062484 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
23062549 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
23062565 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
23062629 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
23062647 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
23062665 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:23070704 original size:27 final size:27
Alignment explanation
Indices: 23070673--23070850 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
23070663 TAAATTGTAC
23070673 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
23070700 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
23070726 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
23070754 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
23070782 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
23070809 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
23070836 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
23070851 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:23070787 original size:82 final size:81
Alignment explanation
Indices: 23070674--23070829 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
23070664 AAATTGTACA
* *
23070674 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
23070738 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
23070755 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
23070820 TGCGAGTTGA
65 TGCGAATTGA
23070830 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:23070841 original size:82 final size:81
Alignment explanation
Indices: 23070670--23070850 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
23070660 GATTAAATTG
* *
23070670 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
23070735 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
23070751 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
23070815 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
23070833 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
23070851 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:23093145 original size:21 final size:21
Alignment explanation
Indices: 23093114--23093189 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
23093104 CCTTTAAAAC
23093114 AGGGT-ACACGCCCATGTGGA
1 AGGGTAACACGCCCATGTGGA
*
23093134 AGGGTAACACGCCCACGTGGA
1 AGGGTAACACGCCCATGTGGA
*
23093155 AGGGTAACACGCCCATGTGAA
1 AGGGTAACACGCCCATGTGGA
* *
23093176 AAGGTGACACGCCC
1 AGGGTAACACGCCC
23093190 GTGTTCCACA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 5 0.10
21 45 0.90
ACGTcount: A:0.29, C:0.28, G:0.32, T:0.12
Consensus pattern (21 bp):
AGGGTAACACGCCCATGTGGA
Found at i:23094411 original size:50 final size:49
Alignment explanation
Indices: 23094300--23094613 Score: 161
Period size: 46 Copynumber: 6.6 Consensus size: 49
23094290 CCATCAAGTT
*
23094300 GATGCCATGTCCCAGACATGGTCTTACACTAACTGTCAAAATTGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAACTCTCAAAATTGAGGCC
* * * *
23094349 GACGCCATGTCCC-GAGCATGGTCTTACACTAGCTCTCACATATTCG-TGCC
1 GATGCCATGTCCCAGA-CATGGTCTTACACTAACTCTCA-AAATT-GAGGCC
* ** * *
23094399 GATGCCATGTCCCAAACATAATCTTACACTGATACATCTC----GT-A-GCT
1 GATGCCATGTCCCAGACATGGTCTTACACT-A-AC-TCTCAAAATTGAGGCC
* ** *
23094445 GATG-CATGTCCCAAACAT-GTCTTACACTGGCT-T--ATATCTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAACTCTCAAAAT-T-GAGGCC
* **
23094491 GAAG-CATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTCAA-T---GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTA--ACTC-TCAAAATTGAGGCC
* ** **
23094537 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCCTAA-T-ATGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAACTCTCAAAATTGA-GGCC
23094585 GATG-CATGTCCCAGACAT-GTCTTACACTA
1 GATGCCATGTCCCAGACATGGTCTTACACTA
23094614 GCTCACACAA
Statistics
Matches: 208, Mismatches: 31, Indels: 55
0.71 0.11 0.19
Matches are distributed among these distances:
40 1 0.00
41 1 0.00
42 1 0.00
43 1 0.00
44 9 0.04
45 20 0.10
46 53 0.25
47 26 0.12
48 22 0.11
49 32 0.15
50 33 0.16
51 3 0.01
52 2 0.01
53 4 0.02
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAACTCTCAAAATTGAGGCC
Found at i:23094538 original size:46 final size:45
Alignment explanation
Indices: 23094445--23094615 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 45
23094435 TCTCGTAGCT
* * * * *
23094445 GATGCATGTCCCAAACATGTCTTACACTGGCTTA-TATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGC--ACTCTCTCAATGCC
*
23094491 GAAGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTC-TCTCAATGCC
* * * *
23094537 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTC-CTAATATGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCTCTCA-AT-GCC
23094585 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
23094616 TCACACAAAT
Statistics
Matches: 106, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 54 0.51
47 28 0.26
48 22 0.21
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACTCTCTCAATGCC
Found at i:23094561 original size:94 final size:92
Alignment explanation
Indices: 23094445--23094615 Score: 231
Period size: 94 Copynumber: 1.8 Consensus size: 92
23094435 TCTCGTAGCT
*
23094445 GATGCATGTCCCAAACATGTCTTACACTGGCT-T-AT-ATCTCGAGGCCGAAGCATGTCCCAGAC
1 GATGCATGTCCCAAACATGTCTTACACTGGCTCTCATAATAT---GGCCGAAGCATGTCCCAGAC
23094507 ATGTCTTACACTAGCACTCGTCTCAATGCC
63 ATGTCTTACACTAGCACTCGTCTCAATGCC
* * * *
23094537 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCCTAATATGGCCGATGCATGTCCCAGACA
1 GATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTCATAATATGGCCGAAGCATGTCCCAGACA
23094602 TGTCTTACACTAGC
64 TGTCTTACACTAGC
23094616 TCACACAAAT
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
92 4 0.06
93 12 0.17
94 48 0.70
95 1 0.01
96 1 0.01
97 3 0.04
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (92 bp):
GATGCATGTCCCAAACATGTCTTACACTGGCTCTCATAATATGGCCGAAGCATGTCCCAGACATG
TCTTACACTAGCACTCGTCTCAATGCC
Found at i:23094705 original size:12 final size:12
Alignment explanation
Indices: 23094688--23094712 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23094678 ATTTCCGCTA
23094688 TCACAATTATTG
1 TCACAATTATTG
23094700 TCACAATTATTG
1 TCACAATTATTG
23094712 T
1 T
23094713 TTATGTATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (12 bp):
TCACAATTATTG
Found at i:23099587 original size:56 final size:56
Alignment explanation
Indices: 23099521--23099792 Score: 393
Period size: 56 Copynumber: 4.9 Consensus size: 56
23099511 CCCCAGACAA
* * * *
23099521 GGTCTCACTCGTACACATATATCGGAGTCATATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATTAAACGT
* *
23099577 GGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACATATTAAATGT
1 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATTAAACGT
* *
23099633 GGTCTTACTCGCACACTTATATCGGAGTCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATTAAACGT
* * * * *
23099689 GGACTTACTCGTACACATATATCAGAGTCACATATCGATACCAGCATATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATTAAACGT
* * *
23099745 GGACTTACTCGCACATAAATATCGGAGTCACATATCGATGCC-ACATAT
1 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATAT
23099793 ACTTCCAGGT
Statistics
Matches: 193, Mismatches: 23, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
55 5 0.03
56 188 0.97
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATTAAACGT
Found at i:23103297 original size:24 final size:24
Alignment explanation
Indices: 23103230--23103299 Score: 95
Period size: 24 Copynumber: 2.9 Consensus size: 24
23103220 ATGACTTTCG
** * * *
23103230 ATTGCATCTGATAAAAGCCAATGA
1 ATTGCATCTGGCAGAAGCCGATAA
23103254 ATTGCATCTGGCAGAAGCCGATAA
1 ATTGCATCTGGCAGAAGCCGATAA
23103278 ATTGCATCTGGCAGAAGCCGAT
1 ATTGCATCTGGCAGAAGCCGAT
23103300 GACTGCCAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (24 bp):
ATTGCATCTGGCAGAAGCCGATAA
Found at i:23115006 original size:40 final size:40
Alignment explanation
Indices: 23114912--23115056 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
23114902 TACTTGAATG
*
23114912 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
23114953 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
23114993 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
23115033 ATATCTGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
23115057 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:23122493 original size:21 final size:20
Alignment explanation
Indices: 23122447--23122493 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
23122437 CGTCCTTCTC
23122447 TTCTTCTCATCTTCACTACT
1 TTCTTCTCATCTTCACTACT
*
23122467 TCTCTTCTCTATGCTTGACTA-T
1 T-TCTTCTC-AT-CTTCACTACT
23122489 TTCTT
1 TTCTT
23122494 GCTGTGGGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 11 0.48
22 4 0.17
23 7 0.30
ACGTcount: A:0.13, C:0.30, G:0.04, T:0.53
Consensus pattern (20 bp):
TTCTTCTCATCTTCACTACT
Found at i:23131661 original size:34 final size:33
Alignment explanation
Indices: 23131605--23131678 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 33
23131595 TATGTGCATT
23131605 ACTGATACTGTACTGAAATGGGCTAAGGCCCAC
1 ACTGATACTGTACTGAAATGGGCTAAGGCCCAC
* * *
23131638 ATTGATACTGTTACTGTATTGGGCTAAGGCCCAC
1 ACTGATACTG-TACTGAAATGGGCTAAGGCCCAC
23131672 ACTGATA
1 ACTGATA
23131679 TTGCGACTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 9 0.25
34 27 0.75
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (33 bp):
ACTGATACTGTACTGAAATGGGCTAAGGCCCAC
Found at i:23131696 original size:34 final size:34
Alignment explanation
Indices: 23131624--23131709 Score: 93
Period size: 34 Copynumber: 2.5 Consensus size: 34
23131614 GTACTGAAAT
* ** *
23131624 GGGCTAAGGCCCACATTGATACTGTTACTGTATT
1 GGGCTAAGGCCCACACTGATACTGCGACTGTATC
*
23131658 GGGCTAAGGCCCACACTGATATTGCGACTG-ATAC
1 GGGCTAAGGCCCACACTGATACTGCGACTGTAT-C
* *
23131692 GGGCTTAGGCCCAGACTG
1 GGGCTAAGGCCCACACTG
23131710 TTCAACATTG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 2 0.05
34 42 0.95
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.24
Consensus pattern (34 bp):
GGGCTAAGGCCCACACTGATACTGCGACTGTATC
Found at i:23139856 original size:41 final size:41
Alignment explanation
Indices: 23139811--23139966 Score: 269
Period size: 41 Copynumber: 3.8 Consensus size: 41
23139801 TGATTCAGTA
23139811 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCA-TTAAGCCTGCTAGACATATAGTCTGAAATGTAT
*
23139852 CACCGACATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
23139893 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
* *
23139934 CACCGGCATTAAGCCTGCTAGACTTAAAGTCTG
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTG
23139967 TATTACATTC
Statistics
Matches: 110, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
40 2 0.02
41 108 0.98
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
Found at i:23141761 original size:19 final size:19
Alignment explanation
Indices: 23141748--23141786 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
23141738 GAATTTATAC
23141748 TTAAAAAATAAATTCTGAA
1 TTAAAAAATAAATTCTGAA
23141767 TTAAAAAATAAATTCTGAA
1 TTAAAAAATAAATTCTGAA
23141786 T
1 T
23141787 ACTTTCGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (19 bp):
TTAAAAAATAAATTCTGAA
Found at i:23145193 original size:21 final size:21
Alignment explanation
Indices: 23145161--23145200 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
23145151 TTGAAAATGG
23145161 TTGGTGATTTTGGATATGTGT
1 TTGGTGATTTTGGATATGTGT
*
23145182 TTGGTTGA-TTTGGTTATGT
1 TTGG-TGATTTTGGATATGT
23145201 TTGTATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.12, C:0.00, G:0.33, T:0.55
Consensus pattern (21 bp):
TTGGTGATTTTGGATATGTGT
Found at i:23153099 original size:40 final size:40
Alignment explanation
Indices: 23153022--23153099 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
23153012 CCAACACACC
* * * *
23153022 ATATGGGGATAAAATCGACCCGCCCATCCTTGTACACCGT
1 ATATGGGGATAAAATCGACCCACCCAACCCTGCACACCGT
*
23153062 ATATGGGGATATAATCGACCCACCCAACCCTGCACACC
1 ATATGGGGATAAAATCGACCCACCCAACCCTGCACACC
23153100 ATAAAGTACT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.19
Consensus pattern (40 bp):
ATATGGGGATAAAATCGACCCACCCAACCCTGCACACCGT
Found at i:23156052 original size:17 final size:18
Alignment explanation
Indices: 23156032--23156065 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23156022 ATGGTAAATT
*
23156032 TTAAA-AAATAAAAAAAA
1 TTAAATAAAGAAAAAAAA
23156049 TTAAATAAAGAAAAAAA
1 TTAAATAAAGAAAAAAA
23156066 GACATTCCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (18 bp):
TTAAATAAAGAAAAAAAA
Found at i:23157124 original size:36 final size:36
Alignment explanation
Indices: 23156973--23157124 Score: 173
Period size: 35 Copynumber: 4.3 Consensus size: 36
23156963 CTCTTTGTTT
* *
23156973 TGGTGTGTTTCAGTTGAACTAGCTCTTATGAGCAT-
1 TGGTGTGTTTCAGATGGACTAGCTCTTATGAGCATC
* * * *
23157008 TAGTGTGTTTCGGAGGGATTAGCTCTTATGAGCA-C
1 TGGTGTGTTTCAGATGGACTAGCTCTTATGAGCATC
* * * *
23157043 TGGTGTGTTTCGGATGGATTAGCTCTTATGACCATT
1 TGGTGTGTTTCAGATGGACTAGCTCTTATGAGCATC
* *
23157079 TGGTATGTTTCAGATGGACTAGATCTTATGAGCATC
1 TGGTGTGTTTCAGATGGACTAGCTCTTATGAGCATC
*
23157115 CGGTGTGTTT
1 TGGTGTGTTT
23157125 TGGTGGAATT
Statistics
Matches: 97, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
35 59 0.61
36 38 0.39
ACGTcount: A:0.19, C:0.14, G:0.28, T:0.39
Consensus pattern (36 bp):
TGGTGTGTTTCAGATGGACTAGCTCTTATGAGCATC
Found at i:23159165 original size:46 final size:46
Alignment explanation
Indices: 23159038--23159249 Score: 164
Period size: 46 Copynumber: 4.6 Consensus size: 46
23159028 GTGCCAATGC
* * * * *
23159038 CATGTCCCAGTCATGGTCTTACACT-G-ACACATCTCGTA-GCCAATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTC-AAGGCCGATG
* * *
23159083 CATGTTCCAGACATGTCCTACACTGGCT-TACATCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCAAGGCCGATG
* * *
23159129 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCCGATG
* * * * **
23159175 CCATGTCCTAGACATGGTCTTACATTGGCTCTCATGAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCAAGGCCGATG
* *
23159223 CATGTCCCAAACATGTTTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
23159250 ACACAAATAA
Statistics
Matches: 132, Mismatches: 27, Indels: 15
0.76 0.16 0.09
Matches are distributed among these distances:
44 9 0.07
45 14 0.11
46 60 0.45
47 26 0.20
48 22 0.17
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCCGATG
Found at i:23165235 original size:42 final size:42
Alignment explanation
Indices: 23165086--23165261 Score: 145
Period size: 42 Copynumber: 3.9 Consensus size: 42
23165076 CAAGGTTAAT
* *
23165086 GAGATCCCGTGTAAGACCATGTCTGGGACATGGCATCAACGTCAA
1 GAGATCCCGTATAAGACCATGTCTGGGACATGGCATCGA--T-AA
* * * * *
23165131 GATGTGATCTCGTATAAGACCATATCAGGGATATGGCTTCGGCATCGTTAA
1 GA---GATCCCGTATAAGACCATGTCTGGG--A---CAT-GGCATCGATAA
* ** *
23165182 GTGATTTCGTATAAGACGATGTCTGGGACATGGCATCGATAA
1 GAGATCCCGTATAAGACCATGTCTGGGACATGGCATCGATAA
23165224 GAGATCCCGTATAAGACCATGTCTGGGACATGGCATCG
1 GAGATCCCGTATAAGACCATGTCTGGGACATGGCATCG
23165262 GCATTAGTAT
Statistics
Matches: 104, Mismatches: 18, Indels: 21
0.73 0.13 0.15
Matches are distributed among these distances:
42 44 0.42
43 2 0.02
45 2 0.02
46 1 0.01
48 42 0.40
50 1 0.01
51 3 0.03
52 1 0.01
53 2 0.02
54 6 0.06
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (42 bp):
GAGATCCCGTATAAGACCATGTCTGGGACATGGCATCGATAA
Found at i:23165287 original size:48 final size:47
Alignment explanation
Indices: 23165084--23165441 Score: 222
Period size: 48 Copynumber: 7.7 Consensus size: 47
23165074 ACCAAGGTTA
* *
23165084 ATGAGATCCCGTGTAAGACCATGTCTGGGACATGGCATCAACGTCA-AG-
1 ATGAGATCCCGTATAAGACCATGTCTGGGACATGGCAT---CGGCATAGT
* * * * * * *
23165132 ATGTGATCTCGTATAAGACCATATCAGGGATATGGCTTCGGCATCGTT
1 ATGAGATCCCGTATAAGACCATGTCTGGGACATGGCATCGGCATAG-T
* * ** *
23165180 AAGTGATTTCGTATAAGACGATGTCTGGGACATGGCATC-G-ATA--
1 ATGAGATCCCGTATAAGACCATGTCTGGGACATGGCATCGGCATAGT
23165223 A-GAGATCCCGTATAAGACCATGTCTGGGACATGGCATCGGCATTAGT
1 ATGAGATCCCGTATAAGACCATGTCTGGGACATGGCATCGGCA-TAGT
* * * * * * *
23165270 ATGAGATCCCATGTAAGACCATATCTGGGATATGGTATTGGCATCGGT
1 ATGAGATCCCGTATAAGACCATGTCTGGGACATGGCATCGGCAT-AGT
* ** * *
23165318 GTGAGGCCCCGTATAAGACCATGTCTGGGAAATGGCATAGGCACT-GAT
1 ATGAGATCCCGTATAAGACCATGTCTGGGACATGGCATCGGCA-TAG-T
** * * *
23165366 ATGAGA-CTTTGTATAAGACCATATCTGGGATATGGTATC-G---A-T
1 ATGAGATC-CCGTATAAGACCATGTCTGGGACATGGCATCGGCATAGT
* * * *
23165408 ATGCGGTCCCATGTAAGACCATGTCTGGGACATG
1 ATGAGATCCCGTATAAGACCATGTCTGGGACATG
23165442 ACTTTGGCAC
Statistics
Matches: 242, Mismatches: 53, Indels: 36
0.73 0.16 0.11
Matches are distributed among these distances:
42 58 0.24
43 3 0.01
44 1 0.00
45 6 0.02
46 3 0.01
47 6 0.02
48 164 0.68
49 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (47 bp):
ATGAGATCCCGTATAAGACCATGTCTGGGACATGGCATCGGCATAGT
Found at i:23165334 original size:138 final size:138
Alignment explanation
Indices: 23165086--23165355 Score: 323
Period size: 138 Copynumber: 2.0 Consensus size: 138
23165076 CAAGGTTAAT
* * * * *
23165086 GAGATCCCGTGTAAGACCATGTCTGGGACATGGCATCAACGTCAAGATGTGATCTCGTATAAGAC
1 GAGATCCCGTATAAGACCATGTCTGGGACATGGCATCAACATCAAGATGAGATCCCATATAAGAC
*** * *
23165151 CATATCAGGGATATGGCTTCGGCATCGTTAAGTGATTTCGTATAAGACGATGTCTGGGACATGGC
66 CATATCAGGGATATGGCTTCGGCATCGTTAAGTGACCCCGTATAAGACCATGTCTGGGAAATGGC
23165216 ATCGATAA
131 ATCGATAA
** * *
23165224 GAGATCCCGTATAAGACCATGTCTGGGACATGGCATCGGCAT-TAGTATGAGATCCCATGTAAGA
1 GAGATCCCGTATAAGACCATGTCTGGGACATGGCATCAACATCAAG-ATGAGATCCCATATAAGA
* * *
23165288 CCATATCTGGGATATGG-TATTGGCATCGGT--GTGAGGCCCCGTATAAGACCATGTCTGGGAAA
65 CCATATCAGGGATATGGCT-TCGGCATCGTTAAGTGA--CCCCGTATAAGACCATGTCTGGGAAA
23165350 TGGCAT
127 TGGCAT
23165356 AGGCACTGAT
Statistics
Matches: 111, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
136 4 0.04
137 3 0.03
138 104 0.94
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (138 bp):
GAGATCCCGTATAAGACCATGTCTGGGACATGGCATCAACATCAAGATGAGATCCCATATAAGAC
CATATCAGGGATATGGCTTCGGCATCGTTAAGTGACCCCGTATAAGACCATGTCTGGGAAATGGC
ATCGATAA
Found at i:23165341 original size:96 final size:95
Alignment explanation
Indices: 23165229--23165403 Score: 255
Period size: 96 Copynumber: 1.8 Consensus size: 95
23165219 GATAAGAGAT
* * *
23165229 CCCGTATAAGACCATGTCTGGGACATGGCATCGGCA-TTAGTATGAGATCCCATG-TAAGACCAT
1 CCCGTATAAGACCATGTCTGGGAAATGGCATAGGCACTGA-TATGAGA--CCATGATAAGACCAT
23165292 ATCTGGGATATGGTATTGGCATCGGTGTGAGGC
63 ATCTGGGATATGGTATTGGCATCGGTGTGAGGC
**
23165325 CCCGTATAAGACCATGTCTGGGAAATGGCATAGGCACTGATATGAGACTTTGTATAAGACCATAT
1 CCCGTATAAGACCATGTCTGGGAAATGGCATAGGCACTGATATGAGACCATG-ATAAGACCATAT
23165390 CTGGGATATGGTAT
65 CTGGGATATGGTAT
23165404 CGATATGCGG
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
94 3 0.04
96 66 0.93
97 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (95 bp):
CCCGTATAAGACCATGTCTGGGAAATGGCATAGGCACTGATATGAGACCATGATAAGACCATATC
TGGGATATGGTATTGGCATCGGTGTGAGGC
Found at i:23168811 original size:54 final size:54
Alignment explanation
Indices: 23168738--23168884 Score: 197
Period size: 54 Copynumber: 2.7 Consensus size: 54
23168728 TTTTCACATT
* * *
23168738 ATGCCATAGTCCCAAACTAGGTCTTACACTATGTGGTTCTCT-TATCCTCATATG
1 ATGCCATAGTCCCAGACTAGGTCTTACACTATGTGG-TCTCTGTATCCCCATACG
* * *
23168792 ATGCCATAATCCCAGACTAGGTCTTACACTATATGGTCTTTGTATCCCCATACG
1 ATGCCATAGTCCCAGACTAGGTCTTACACTATGTGGTCTCTGTATCCCCATACG
* * *
23168846 ATTCCATAGTCCTAGACTAGGTCTTACACTATGAGGTCT
1 ATGCCATAGTCCCAGACTAGGTCTTACACTATGTGGTCT
23168885 TCTTGTCGTG
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
53 4 0.05
54 77 0.95
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (54 bp):
ATGCCATAGTCCCAGACTAGGTCTTACACTATGTGGTCTCTGTATCCCCATACG
Found at i:23170875 original size:7 final size:7
Alignment explanation
Indices: 23170859--23170899 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
23170849 TGAATGAGGA
*
23170859 ATGAGGG
1 ATGAGTG
23170866 ATGAGTG
1 ATGAGTG
23170873 ATGAGTG
1 ATGAGTG
23170880 ATGAGTG
1 ATGAGTG
*
23170887 ATGAGGG
1 ATGAGTG
23170894 ATGAGT
1 ATGAGT
23170900 AGAAATGTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.29, C:0.00, G:0.46, T:0.24
Consensus pattern (7 bp):
ATGAGTG
Found at i:23170876 original size:14 final size:14
Alignment explanation
Indices: 23170859--23170899 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
23170849 TGAATGAGGA
23170859 ATGAGGGATGAGTG
1 ATGAGGGATGAGTG
*
23170873 ATGAGTGATGAGTG
1 ATGAGGGATGAGTG
23170887 ATGAGGGATGAGT
1 ATGAGGGATGAGT
23170900 AGAAATGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.46, T:0.24
Consensus pattern (14 bp):
ATGAGGGATGAGTG
Found at i:23172793 original size:15 final size:15
Alignment explanation
Indices: 23172770--23172799 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23172760 AAATTTAAAA
*
23172770 GTTTGAGCAATTTAT
1 GTTTAAGCAATTTAT
23172785 GTTTAAGCAATTTAT
1 GTTTAAGCAATTTAT
23172800 TTGCCTTACC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.47
Consensus pattern (15 bp):
GTTTAAGCAATTTAT
Found at i:23200057 original size:16 final size:16
Alignment explanation
Indices: 23200026--23200067 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
23200016 ATGTGAATAA
23200026 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
23200042 TATT-TTTAAAA-T-T
1 TATTATTTAAAATTAT
*
23200055 TATTAATTAAAAT
1 TATTATTTAAAAT
23200068 AAAATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 5 0.22
14 7 0.30
15 7 0.30
16 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:23200130 original size:16 final size:15
Alignment explanation
Indices: 23200105--23200134 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
23200095 AATAATAAAC
23200105 TATATTTATTATATT
1 TATATTTATTATATT
23200120 TATATTTTATTATAT
1 TATA-TTTATTATAT
23200135 GACTAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TATATTTATTATATT
Found at i:23203136 original size:9 final size:9
Alignment explanation
Indices: 23203122--23203175 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
23203112 CCACATAATT
23203122 TAACTAAAG
1 TAACTAAAG
*
23203131 TAACTAAAT
1 TAACTAAAG
*
23203140 TAGCTAAAG
1 TAACTAAAG
*
23203149 TAACTAAAAT
1 TAACT-AAAG
* *
23203159 TAGCTATAG
1 TAACTAAAG
23203168 TAACTAAA
1 TAACTAAA
23203176 TTTGAGCAAA
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
9 27 0.79
10 7 0.21
ACGTcount: A:0.52, C:0.11, G:0.09, T:0.28
Consensus pattern (9 bp):
TAACTAAAG
Found at i:23203148 original size:18 final size:18
Alignment explanation
Indices: 23203125--23203177 Score: 88
Period size: 19 Copynumber: 2.9 Consensus size: 18
23203115 CATAATTTAA
23203125 CTAAAGTAACTAAATTAG
1 CTAAAGTAACTAAATTAG
23203143 CTAAAGTAACTAAAATTAG
1 CTAAAGTAACT-AAATTAG
*
23203162 CTATAGTAACTAAATT
1 CTAAAGTAACTAAATT
23203178 TGAGCAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
18 16 0.48
19 17 0.52
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.30
Consensus pattern (18 bp):
CTAAAGTAACTAAATTAG
Found at i:23210786 original size:23 final size:23
Alignment explanation
Indices: 23210752--23210864 Score: 111
Period size: 23 Copynumber: 4.7 Consensus size: 23
23210742 TCCTCCTTAA
23210752 CTGATAACAGTAAGCTCTAATGAG
1 CTGA-AACAGTAAGCTCTAATGAG
23210776 CTGAAACAGTAAGCTCT-ATCGAG
1 CTGAAACAGTAAGCTCTAAT-GAG
* * *
23210799 TTGAAACGGTAAGCTCCAATGAG
1 CTGAAACAGTAAGCTCTAATGAG
* * *
23210822 CGGAAAACAGTAAGCTCTTACGAG
1 CTG-AAACAGTAAGCTCTAATGAG
23210846 CTGATATATCAGTAAGCTC
1 CTGA-A-A-CAGTAAGCTC
23210865 ATACGAGCTG
Statistics
Matches: 73, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
22 2 0.03
23 35 0.48
24 25 0.34
25 1 0.01
26 10 0.14
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.23
Consensus pattern (23 bp):
CTGAAACAGTAAGCTCTAATGAG
Found at i:23215987 original size:27 final size:27
Alignment explanation
Indices: 23215957--23216059 Score: 82
Period size: 27 Copynumber: 3.8 Consensus size: 27
23215947 CAGCGACGAT
*
23215957 AATATAATCGGCACACAGCCATGAGTA
1 AATATGATCGGCACACAGCCATGAGTA
* * * * *
23215984 AATATGATCGACACAGAGTCATCAATA
1 AATATGATCGGCACACAGCCATGAGTA
* *
23216011 AATATGATAGGCACATAGCCACTG-GTA
1 AATATGATCGGCACACAGCCA-TGAGTA
* ** *
23216038 AATACGATTTGCACAAAGCCAT
1 AATATGATCGGCACACAGCCAT
23216060 AATCAACATA
Statistics
Matches: 59, Mismatches: 16, Indels: 3
0.76 0.21 0.04
Matches are distributed among these distances:
26 1 0.02
27 57 0.97
28 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.21
Consensus pattern (27 bp):
AATATGATCGGCACACAGCCATGAGTA
Found at i:23217843 original size:12 final size:12
Alignment explanation
Indices: 23217823--23217875 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
23217813 CTATATTTTC
* *
23217823 CTCCTTAAATCT
1 CTCCATAAATCA
23217835 CTCCATAAATCA
1 CTCCATAAATCA
**
23217847 CTCC-TTGATACA
1 CTCCATAAAT-CA
23217859 CTCCATAAATCA
1 CTCCATAAATCA
23217871 CTCCA
1 CTCCA
23217876 ACCTCCCATG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
11 3 0.09
12 27 0.82
13 3 0.09
ACGTcount: A:0.32, C:0.36, G:0.02, T:0.30
Consensus pattern (12 bp):
CTCCATAAATCA
Found at i:23220349 original size:30 final size:30
Alignment explanation
Indices: 23220315--23220376 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
23220305 AACACCAAAT
*
23220315 CCACCACCTGAAG-CAACCCCAGAAAACCCA
1 CCACCACCTGAAGCCAA-ACCAGAAAACCCA
*
23220345 CCACCACCTGAAGCCAAACCAGCAAACCCA
1 CCACCACCTGAAGCCAAACCAGAAAACCCA
23220375 CC
1 CC
23220377 TCCTGTCGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 26 0.90
31 3 0.10
ACGTcount: A:0.39, C:0.48, G:0.10, T:0.03
Consensus pattern (30 bp):
CCACCACCTGAAGCCAAACCAGAAAACCCA
Found at i:23220375 original size:27 final size:27
Alignment explanation
Indices: 23220287--23220381 Score: 68
Period size: 27 Copynumber: 3.4 Consensus size: 27
23220277 TACCAAATCC
* * *
23220287 CCCACCGCCTGAAGCCGGAA-CACCAAA
1 CCCACCACCTGAAGCC-AAACCAGCAAA
* * *
23220314 TCCACCACCTGAAG-CAACCCCAGAAAA
1 CCCACCACCTGAAGCCAA-ACCAGCAAA
23220341 CCCACCACCACCTGAAGCCAAACCAGCAAA
1 --C-CCACCACCTGAAGCCAAACCAGCAAA
*
23220371 CCCACCTCCTG
1 CCCACCACCTG
23220382 TCGCAGCATT
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
25 1 0.02
26 1 0.02
27 26 0.50
28 1 0.02
30 20 0.38
31 3 0.06
ACGTcount: A:0.35, C:0.46, G:0.13, T:0.06
Consensus pattern (27 bp):
CCCACCACCTGAAGCCAAACCAGCAAA
Found at i:23234592 original size:9 final size:9
Alignment explanation
Indices: 23234573--23234601 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
23234563 CCATTCTCTT
23234573 TTATT-TAA
1 TTATTATAA
23234581 TTATTATAA
1 TTATTATAA
23234590 TTATTATAA
1 TTATTATAA
23234599 TTA
1 TTA
23234602 CTATTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.25
9 15 0.75
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TTATTATAA
Found at i:23234682 original size:29 final size:29
Alignment explanation
Indices: 23234643--23234702 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
23234633 ATTATTATTA
* * *
23234643 TTTTTGTTTCTAATTCTTTTTACTTGTTT
1 TTTTTGCTTCTAATTCCTGTTACTTGTTT
* *
23234672 TTTTTGCTTCTTATTCCTGTTATTTGTTT
1 TTTTTGCTTCTAATTCCTGTTACTTGTTT
23234701 TT
1 TT
23234703 ACTTTACTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.08, C:0.12, G:0.08, T:0.72
Consensus pattern (29 bp):
TTTTTGCTTCTAATTCCTGTTACTTGTTT
Found at i:23236362 original size:6 final size:6
Alignment explanation
Indices: 23236351--23236390 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
23236341 ATTTATTCTA
* *
23236351 TTTTAT TTTTAT TTTTAT TTTTAG TTTTAT TTATAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
23236391 TGTTATTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:23236437 original size:24 final size:25
Alignment explanation
Indices: 23236382--23236444 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
23236372 TAGTTTTATT
* *
23236382 TATATTTTTTGTTATTTTCTTAAAC
1 TATATTTTTTTTTATATTCTTAAAC
* *
23236407 T-TCTTTTTTTTTATATT-TTGAAC
1 TATATTTTTTTTTATATTCTTAAAC
*
23236430 TATATTTTTATTTAT
1 TATATTTTTTTTTAT
23236445 TATGGTTGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
23 6 0.19
24 24 0.77
25 1 0.03
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.68
Consensus pattern (25 bp):
TATATTTTTTTTTATATTCTTAAAC
Found at i:23241346 original size:15 final size:15
Alignment explanation
Indices: 23241328--23241360 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
23241318 TAGATTCTCG
23241328 TATCATGGATTTCTT
1 TATCATGGATTTCTT
*
23241343 TATCTTGGATTTCTT
1 TATCATGGATTTCTT
23241358 TAT
1 TAT
23241361 TCTGGGCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.58
Consensus pattern (15 bp):
TATCATGGATTTCTT
Found at i:23251296 original size:46 final size:46
Alignment explanation
Indices: 23251226--23251398 Score: 147
Period size: 46 Copynumber: 3.7 Consensus size: 46
23251216 TTGGGCATCT
* *
23251226 GAGCTCATTGAGTCGAGTCTGAGTTCACTTATGGATGAGAATGTCC
1 GAGCTCATTGAGTCGAGTCCGAGTTCACTTATGGATGAGAACGTCC
* * * * * *
23251272 GAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTA-ACTAGGCATCT
1 GAGCTCATTGAGTCGAGTCCGAGTTCACTTATGGATG-AGA--A--CGTCC
* * * *
23251319 GAACTCGTTGAGTCGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAGCTCATTGAGTCGAGTCCGAGTTCACTTATGGATGAGAACGTCC
* *
23251365 GAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAGCTCATTGAGTCGAGTCCGAGTTCACTTATGG
23251399 GTGGGTTACA
Statistics
Matches: 98, Mismatches: 20, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 3 0.03
46 55 0.56
47 26 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
GAGCTCATTGAGTCGAGTCCGAGTTCACTTATGGATGAGAACGTCC
Found at i:23251378 original size:93 final size:93
Alignment explanation
Indices: 23251219--23251391 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
23251209 ACGATATTTG
* * * * *
23251219 GGCATCTGAGCTCATTGAGTCGAGTCTGAGTTCACTTATGGATGAGAATGTCCGAGCTCGTTGAG
1 GGCATCTGAACTCATTGAGTCGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAGCTCATTGAG
23251284 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
23251312 GGCATCTGAACTCGTTGAGTCGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCTGAACTCATTGAGTCGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAGCTCATTGAG
23251377 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
23251392 CTTATGGGTG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCTGAACTCATTGAGTCGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAGCTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:23252132 original size:19 final size:19
Alignment explanation
Indices: 23252108--23252147 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
23252098 TAGAGATAGA
23252108 ATTAGATGATGAATAAAAT
1 ATTAGATGATGAATAAAAT
23252127 ATTAGATGATGAATAAAAT
1 ATTAGATGATGAATAAAAT
23252146 AT
1 AT
23252148 GTAATTGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.33
Consensus pattern (19 bp):
ATTAGATGATGAATAAAAT
Found at i:23256366 original size:40 final size:40
Alignment explanation
Indices: 23256272--23256416 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
23256262 TACTCGAATG
*
23256272 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
23256313 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
23256353 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
23256393 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
23256417 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:23257889 original size:19 final size:19
Alignment explanation
Indices: 23257840--23257894 Score: 76
Period size: 18 Copynumber: 2.9 Consensus size: 19
23257830 AGTATCAGTC
*
23257840 AATTATTCAGTAAAAATCA
1 AATTATTCAGTAACAATCA
* *
23257859 AA-TATACAGTAACAATTA
1 AATTATTCAGTAACAATCA
23257877 AATTATTCAGTAACAATC
1 AATTATTCAGTAACAATC
23257895 GATCTTTCCA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 15 0.50
19 15 0.50
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (19 bp):
AATTATTCAGTAACAATCA
Found at i:23258016 original size:6 final size:6
Alignment explanation
Indices: 23258007--23258037 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
23257997 TCGAAGTCGG
*
23258007 AACAGT AACAGT AACAGC AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
23258038 CGATACACAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.19, G:0.16, T:0.13
Consensus pattern (6 bp):
AACAGT
Found at i:23258094 original size:47 final size:47
Alignment explanation
Indices: 23258025--23258183 Score: 241
Period size: 47 Copynumber: 3.4 Consensus size: 47
23258015 CAGTAACAGC
* *
23258025 AACAGTAACAGTACGATACACAGAGTACCTCATCGGAACAAATCTAA
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCAA
*
23258072 AACAGTAACAGTACGGTACACAGAGTACCTCATCAGG-ACAAATCCAG
1 AACAGTAACAGTACGGTACACAGAGTACCTCATC-GGAACAAATCCAA
* *
23258119 AACAGGAACAGTACGGTACACAGAGTACCTCATC-GAACAAATCCGA
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCAA
23258165 AACAGTAACAGTAACGGTA
1 AACAGTAACAGT-ACGGTA
23258184 ATAGTAACAA
Statistics
Matches: 102, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
45 1 0.01
46 19 0.19
47 80 0.78
48 2 0.02
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.15
Consensus pattern (47 bp):
AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCAA
Found at i:23259130 original size:28 final size:28
Alignment explanation
Indices: 23259098--23259153 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
23259088 TCTAACCCCT
23259098 AATTCATCTTTTTATTCAACATGAACAA
1 AATTCATCTTTTTATTCAACATGAACAA
23259126 AATTCATCTTTTTATTCAACATGAACAA
1 AATTCATCTTTTTATTCAACATGAACAA
23259154 TATTTAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.39
Consensus pattern (28 bp):
AATTCATCTTTTTATTCAACATGAACAA
Found at i:23259257 original size:15 final size:15
Alignment explanation
Indices: 23259237--23259276 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
23259227 CAATTTTTCC
*
23259237 CTTTTTTCCTTCTTT
1 CTTTTTTCCTTCCTT
23259252 CTTTTTTCCTTCCTT
1 CTTTTTTCCTTCCTT
23259267 CTTTCTTTCC
1 CTTT-TTTCC
23259277 CCTGCTCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (15 bp):
CTTTTTTCCTTCCTT
Found at i:23261064 original size:21 final size:20
Alignment explanation
Indices: 23261040--23261083 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
23261030 GCTTTTATTC
*
23261040 AAAACATGCGATTTAAAGGCT
1 AAAACATG-GATTTAAAGACT
* *
23261061 AAAACTTGGTTTTAAAGACT
1 AAAACATGGATTTAAAGACT
23261081 AAA
1 AAA
23261084 TGACATTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.27
Consensus pattern (20 bp):
AAAACATGGATTTAAAGACT
Found at i:23261539 original size:17 final size:17
Alignment explanation
Indices: 23261517--23261559 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
23261507 TCCATTGTTG
*
23261517 AAAACATTATCGGTTAC
1 AAAACATTATCGGCTAC
23261534 AAAACATTATCGGCTAC
1 AAAACATTATCGGCTAC
*
23261551 CAAAC-TTAT
1 AAAACATTAT
23261560 GAAATTTCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (17 bp):
AAAACATTATCGGCTAC
Found at i:23265695 original size:21 final size:20
Alignment explanation
Indices: 23265667--23265705 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
23265657 GCATGATTTT
*
23265667 TGAAGTTTTTTGATATATTA
1 TGAAGTTTGTTGATATATTA
23265687 TGAATGTTTGTTGATATAT
1 TGAA-GTTTGTTGATATAT
23265706 ATACAAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.00, G:0.18, T:0.54
Consensus pattern (20 bp):
TGAAGTTTGTTGATATATTA
Found at i:23265717 original size:21 final size:21
Alignment explanation
Indices: 23265669--23265719 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
23265659 ATGATTTTTG
*
23265669 AAGTTTT-TTGATATATTATG
1 AAGTTTTGTTGATATATTATC
23265689 AA-TGTTTGTTGATATA-TATAC
1 AAGT-TTTGTTGATATATTAT-C
23265710 AAGTTTTGTT
1 AAGTTTTGTT
23265720 AAGTGATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 1 0.04
20 8 0.31
21 16 0.62
22 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.16, T:0.53
Consensus pattern (21 bp):
AAGTTTTGTTGATATATTATC
Found at i:23266348 original size:25 final size:25
Alignment explanation
Indices: 23266317--23266374 Score: 64
Period size: 29 Copynumber: 2.2 Consensus size: 25
23266307 GGTGCGAGTT
23266317 ATATC-GATTTGGCTTCGGGCCATG
1 ATATCTGATTTGGCTTCGGGCCATG
*
23266341 CATATCGACTGATTTTGCTTCGGGCCATG
1 -ATAT---CTGATTTGGCTTCGGGCCATG
23266370 ATATC
1 ATATC
23266375 AGCACTTTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
25 5 0.18
28 5 0.18
29 18 0.64
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.34
Consensus pattern (25 bp):
ATATCTGATTTGGCTTCGGGCCATG
Found at i:23279757 original size:45 final size:45
Alignment explanation
Indices: 23279657--23279747 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
23279647 AATCTATGAG
23279657 AAAATATATTTAATATTTCTGCATTCAACGGTTCATTATGATCAA
1 AAAATATATTTAATATTTCTGCATTCAACGGTTCATTATGATCAA
*
23279702 AAAATATATTTAATATTTTTGCATTCAACGGTTCATTATGATCAA
1 AAAATATATTTAATATTTCTGCATTCAACGGTTCATTATGATCAA
23279747 A
1 A
23279748 TGATTTATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (45 bp):
AAAATATATTTAATATTTCTGCATTCAACGGTTCATTATGATCAA
Found at i:23279930 original size:57 final size:58
Alignment explanation
Indices: 23279810--23279928 Score: 170
Period size: 57 Copynumber: 2.1 Consensus size: 58
23279800 TTTTGAGTCT
* *
23279810 TTTTCATTTTTCACTTTGGAGAAAACCACATTCATTTCCAAATGGTTTTATTTCTCCA
1 TTTTCATTTTTCACTTTGGAGAAAACCACAATCATTTCCAAATGGTTTTACTTCTCCA
* *
23279868 TTTTCA-TTTTCATTTTGGAGAAAACCATAATCATTTCCAAAT-GTTTCCTACTTCTCCA
1 TTTTCATTTTTCACTTTGGAGAAAACCACAATCATTTCCAAATGGTTT--TACTTCTCCA
23279926 TTT
1 TTT
23279929 CACCATATCT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
56 4 0.07
57 33 0.60
58 18 0.33
ACGTcount: A:0.26, C:0.21, G:0.08, T:0.45
Consensus pattern (58 bp):
TTTTCATTTTTCACTTTGGAGAAAACCACAATCATTTCCAAATGGTTTTACTTCTCCA
Found at i:23282098 original size:18 final size:18
Alignment explanation
Indices: 23282077--23282144 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
23282067 AGGTACAGAT
23282077 GAGGAAGAAGATGCGACC
1 GAGGAAGAAGATGCGACC
* *
23282095 GAGGAAGAAGATG-TACAT
1 GAGGAAGAAGATGCGAC-C
* **
23282113 GAGGAAGAAGATGTGGTC
1 GAGGAAGAAGATGCGACC
*
23282131 GAGGAAGGAGATGC
1 GAGGAAGAAGATGC
23282145 AGCTAAGGAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
17 2 0.05
18 38 0.95
ACGTcount: A:0.38, C:0.09, G:0.41, T:0.12
Consensus pattern (18 bp):
GAGGAAGAAGATGCGACC
Found at i:23282118 original size:36 final size:36
Alignment explanation
Indices: 23282075--23282143 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
23282065 GAAGGTACAG
23282075 ATGAGGAAGAAGATGCGACCGAGGAAGAAGATGTAC
1 ATGAGGAAGAAGATGCGACCGAGGAAGAAGATGTAC
* ** *
23282111 ATGAGGAAGAAGATGTGGTCGAGGAAGGAGATG
1 ATGAGGAAGAAGATGCGACCGAGGAAGAAGATG
23282144 CAGCTAAGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.39, C:0.07, G:0.41, T:0.13
Consensus pattern (36 bp):
ATGAGGAAGAAGATGCGACCGAGGAAGAAGATGTAC
Found at i:23282154 original size:36 final size:36
Alignment explanation
Indices: 23282078--23282159 Score: 85
Period size: 36 Copynumber: 2.3 Consensus size: 36
23282068 GGTACAGATG
* *
23282078 AGGAAGAAGATGCGACCGAGGAAGAAGATGTACATG
1 AGGAAGAAGATGCGACCGAGGAAGAAGATGCACATA
* ** *
23282114 AGGAAGAAGATGTGGTCGAGGAAGGAGATGCAGC-TA
1 AGGAAGAAGATGCGACCGAGGAAGAAGATGCA-CATA
*
23282150 AGGAACAAGA
1 AGGAAGAAGA
23282160 GATATAGAGG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
36 37 0.97
37 1 0.03
ACGTcount: A:0.41, C:0.10, G:0.38, T:0.11
Consensus pattern (36 bp):
AGGAAGAAGATGCGACCGAGGAAGAAGATGCACATA
Found at i:23283879 original size:31 final size:30
Alignment explanation
Indices: 23283844--23283906 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
23283834 AAGAAAACTT
23283844 AATAAAAATTGATTTAC-AAGCCTAAGGGAAA
1 AATAAAAATT--TTTACAAAGCCTAAGGGAAA
* * *
23283875 AATAATAATTTTTACAAAGTCTAAGGGCAA
1 AATAAAAATTTTTACAAAGCCTAAGGGAAA
23283905 AA
1 AA
23283907 CGATCATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.18
30 14 0.50
31 9 0.32
ACGTcount: A:0.51, C:0.10, G:0.14, T:0.25
Consensus pattern (30 bp):
AATAAAAATTTTTACAAAGCCTAAGGGAAA
Found at i:23283916 original size:30 final size:29
Alignment explanation
Indices: 23283856--23283916 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
23283846 TAAAAATTGA
*
23283856 TTTACAAGCCTAAGGGAAAAATAATAATT
1 TTTACAAGCCTAAGGGAAAAACAATAATT
* * * *
23283885 TTTACAAAGTCTAAGGGCAAAACGATCATT
1 TTTAC-AAGCCTAAGGGAAAAACAATAATT
23283915 TT
1 TT
23283917 GCCGAATTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (29 bp):
TTTACAAGCCTAAGGGAAAAACAATAATT
Found at i:23284097 original size:16 final size:16
Alignment explanation
Indices: 23284076--23284107 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23284066 TATACCGAGG
23284076 TAAGTTATACGTAAAT
1 TAAGTTATACGTAAAT
*
23284092 TAAGTTGTACGTAAAT
1 TAAGTTATACGTAAAT
23284108 AATATAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.38
Consensus pattern (16 bp):
TAAGTTATACGTAAAT
Found at i:23284374 original size:49 final size:47
Alignment explanation
Indices: 23284268--23284421 Score: 163
Period size: 49 Copynumber: 3.3 Consensus size: 47
23284258 TGACGTGTGT
* * * *
23284268 GCTAGTGTAAGACCTGTCT-GGAACATGGCATCGAC-TTGAGGTG-TA
1 GCTAGTGTAAGACCTATCTAGG-ACATGGCATCGACATAGATGTGAGA
* * *
23284313 -TTAGTGTAAGACCTGTCTAGGACATGGCATTGACATAGATAAGTGAGA
1 GCTAGTGTAAGACCTATCTAGGACATGGCATCGACATAGAT--GTGAGA
* *
23284361 GCTAGTGTAAGACCTATCTGGGACATGGCATCGACTTAGATGTGAGA
1 GCTAGTGTAAGACCTATCTAGGACATGGCATCGACATAGATGTGAGA
*
23284408 GCCAGTGTAAGACC
1 GCTAGTGTAAGACC
23284422 ATGTTTGGAA
Statistics
Matches: 92, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
44 29 0.32
45 5 0.05
47 22 0.24
48 1 0.01
49 35 0.38
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACCTATCTAGGACATGGCATCGACATAGATGTGAGA
Found at i:23286266 original size:35 final size:34
Alignment explanation
Indices: 23286195--23286276 Score: 94
Period size: 35 Copynumber: 2.4 Consensus size: 34
23286185 ATTTGTTTTA
* * *
23286195 ATTATATAATTAATGATATTTAAATATAATTTAT
1 ATTATATAATTAATGATAATTAAATATAACTGAT
*
23286229 ATTATATGAATTTATGATAATTAAAT-TATACTGAT
1 ATTATAT-AATTAATGATAATTAAATATA-ACTGAT
*
23286264 ATTATATTATTAA
1 ATTATATAATTAA
23286277 ATAAATCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
34 13 0.32
35 27 0.68
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (34 bp):
ATTATATAATTAATGATAATTAAATATAACTGAT
Found at i:23287656 original size:6 final size:6
Alignment explanation
Indices: 23287645--23287683 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
23287635 ATATGCCAAC
* *
23287645 TACTGT TACTGT TACCGT TACTGT TACCGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TAC
23287684 CGATTCGACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.44
Consensus pattern (6 bp):
TACTGT
Found at i:23287666 original size:12 final size:12
Alignment explanation
Indices: 23287649--23287685 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
23287639 GCCAACTACT
23287649 GTTACTGTTACC
1 GTTACTGTTACC
23287661 GTTACTGTTACC
1 GTTACTGTTACC
23287673 GTTACTGTTACC
1 GTTACTGTTACC
23287685 G
1 G
23287686 ATTCGACACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.41
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:23287727 original size:45 final size:45
Alignment explanation
Indices: 23287663--23287775 Score: 145
Period size: 45 Copynumber: 2.5 Consensus size: 45
23287653 CTGTTACCGT
** *
23287663 TACTGTTACCGTTACTGTTACCGATTCGACACTTTGTGTGTCGAA
1 TACTGTTATAGTTACTGTTACCGATTCAACACTTTGTGTGTCGAA
** * *
23287708 TACTGTTATAGTTACTGTTACAAATTTAACACTTTGTGTGTTGAA
1 TACTGTTATAGTTACTGTTACCGATTCAACACTTTGTGTGTCGAA
* *
23287753 TACTGTTATTGTTACTGCTACCG
1 TACTGTTATAGTTACTGTTACCG
23287776 TTACTGATTA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.42
Consensus pattern (45 bp):
TACTGTTATAGTTACTGTTACCGATTCAACACTTTGTGTGTCGAA
Found at i:23291116 original size:40 final size:40
Alignment explanation
Indices: 23291066--23291450 Score: 562
Period size: 40 Copynumber: 9.6 Consensus size: 40
23291056 GCTACTCGCT
* * * *
23291066 CAAATGCCTTCGAGACTTAGCCCAG-ATATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTCACTAGCA
* * *
23291106 CAAATGCCTTCGGAACTTAGCCCGGAGA-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCA
* *
23291146 CAAATGCCTTCGGGACTTAGCCCGGAGA-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCA
23291186 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
* *
23291226 CAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTCACTAGCA
*
23291266 CAAATGCTTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
23291306 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
*
23291346 CAAATGCCTTCGGGACTTAGCCCGAAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
** *
23291386 CAAATGCCTTCGAAACTTAGCCCGAAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
23291426 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
23291451 TTACCATCCG
Statistics
Matches: 321, Mismatches: 19, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
39 3 0.01
40 315 0.98
41 2 0.01
42 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
Found at i:23299600 original size:40 final size:40
Alignment explanation
Indices: 23299556--23299818 Score: 401
Period size: 40 Copynumber: 6.6 Consensus size: 40
23299546 GCTACTCACT
*
23299556 CAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTAGCA
*
23299596 CAAATGCCTTCGGGACTTAGCCCGGAGA-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTAACTAGCA
*
23299636 CAAATGCCTTC-GGACTTAGCCC-GAGA-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTAACTAGCA
*
23299674 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCA
*
23299714 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCA
* *
23299754 CAAATGCCTTCGGGACTTAGCCCGAAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCA
23299794 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
23299819 TTACCATCTG
Statistics
Matches: 213, Mismatches: 5, Indels: 10
0.93 0.02 0.04
Matches are distributed among these distances:
38 27 0.13
39 23 0.11
40 162 0.76
42 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCA
Found at i:23299755 original size:118 final size:120
Alignment explanation
Indices: 23299556--23299818 Score: 417
Period size: 118 Copynumber: 2.2 Consensus size: 120
23299546 GCTACTCACT
*
23299556 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
* * *
23299621 AGATAGTAACTCGCACAAATGCCTTC-GGACTTAGCCCGAGA-TAGTAACTCGCA
66 AGATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGAAATTAGTAACTAGCA
*
23299674 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCG
* *
23299738 GA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGAAATTAGTCACTAGCA
65 GAGA-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGAAATTAGTAACTAGCA
23299794 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
23299819 TTACCATCTG
Statistics
Matches: 134, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
117 2 0.01
118 83 0.62
119 14 0.10
120 35 0.26
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (120 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
AGATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGAAATTAGTAACTAGCA
Found at i:23304763 original size:19 final size:19
Alignment explanation
Indices: 23304725--23304762 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
23304715 GACATAACAT
23304725 ATTTTAAATAAATTTTAAA
1 ATTTTAAATAAATTTTAAA
*
23304744 ATTTTATAT-AATTTTAAA
1 ATTTTAAATAAATTTTAAA
23304762 A
1 A
23304763 AACGCCGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTTAAATAAATTTTAAA
Found at i:23315468 original size:36 final size:36
Alignment explanation
Indices: 23315427--23315499 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
23315417 CAACTAAACA
23315427 TAAACTTCAAAGACATAATCACTCTAAATCAACCAT
1 TAAACTTCAAAGACATAATCACTCTAAATCAACCAT
23315463 TAAACTTCAAAGACATAATCACTCTAAATCAACCAT
1 TAAACTTCAAAGACATAATCACTCTAAATCAACCAT
23315499 T
1 T
23315500 TTATACATGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.26
Consensus pattern (36 bp):
TAAACTTCAAAGACATAATCACTCTAAATCAACCAT
Found at i:23316390 original size:42 final size:42
Alignment explanation
Indices: 23316356--23316489 Score: 259
Period size: 42 Copynumber: 3.2 Consensus size: 42
23316346 CATAGGGCAG
23316356 ACCGTGTGTCACACACAGCCTAGACACATGCCCATGTGTCCA
1 ACCGTGTGTCACACACAGCCTAGACACATGCCCATGTGTCCA
23316398 ACCGTGTGTCACACACAGCCTAGACACATGCCCATGTGTCCA
1 ACCGTGTGTCACACACAGCCTAGACACATGCCCATGTGTCCA
*
23316440 ACCGTGTGTCACACACAGCCTAGATACATGCCCATGTGTCCA
1 ACCGTGTGTCACACACAGCCTAGACACATGCCCATGTGTCCA
23316482 ACCGTGTG
1 ACCGTGTG
23316490 GACAATTTCT
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.25, C:0.34, G:0.20, T:0.20
Consensus pattern (42 bp):
ACCGTGTGTCACACACAGCCTAGACACATGCCCATGTGTCCA
Found at i:23319309 original size:26 final size:26
Alignment explanation
Indices: 23319279--23319339 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
23319269 ACACATAATG
23319279 TGCTTTTACATATAACCATAAACTTT
1 TGCTTTTACATATAACCATAAACTTT
23319305 TGCTTTTACATATAACCATAAACTTT
1 TGCTTTTACATATAACCATAAACTTT
23319331 T-C-TTTACAT
1 TGCTTTTACAT
23319340 CAATGCTCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
24 7 0.20
25 1 0.03
26 27 0.77
ACGTcount: A:0.33, C:0.20, G:0.03, T:0.44
Consensus pattern (26 bp):
TGCTTTTACATATAACCATAAACTTT
Found at i:23327822 original size:14 final size:14
Alignment explanation
Indices: 23327803--23327830 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23327793 TTTTAAAAAC
23327803 ATAAATCAAATATA
1 ATAAATCAAATATA
23327817 ATAAATCAAATATA
1 ATAAATCAAATATA
23327831 TTTAAAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAAATCAAATATA
Found at i:23327844 original size:37 final size:36
Alignment explanation
Indices: 23327794--23327865 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
23327784 ATATTAAATT
* *
23327794 TTTAAAAACAT-AAATCAAATATAATAAATCAAATATA
1 TTTAAAAACATAAAAACAAATAT--TAAAACAAATATA
23327831 TTTAAAAACATAAAAACAAATATTAAAACAAATAT
1 TTTAAAAACATAAAAACAAATATTAAAACAAATAT
23327866 TAAAACAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 11 0.34
37 11 0.34
38 10 0.31
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (36 bp):
TTTAAAAACATAAAAACAAATATTAAAACAAATATA
Found at i:23327860 original size:12 final size:12
Alignment explanation
Indices: 23327843--23327876 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
23327833 TAAAAACATA
23327843 AAAACAAATATT
1 AAAACAAATATT
23327855 AAAACAAATATT
1 AAAACAAATATT
23327867 AAAACAAATA
1 AAAACAAATA
23327877 AAAATAATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAACAAATATT
Found at i:23327878 original size:21 final size:21
Alignment explanation
Indices: 23327843--23327894 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 21
23327833 TAAAAACATA
* *
23327843 AAAACAAATATTAAAACAAATATT
1 AAAACAAATA--AAAA-TAATACT
23327867 AAAACAAATAAAAATAATACT
1 AAAACAAATAAAAATAATACT
23327888 AAAACAA
1 AAAACAA
23327895 TTCTTAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 12 0.46
22 4 0.15
24 10 0.38
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (21 bp):
AAAACAAATAAAAATAATACT
Found at i:23327891 original size:33 final size:33
Alignment explanation
Indices: 23327832--23327908 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 33
23327822 TCAAATATAT
* *
23327832 TTAAAAACATAAAAACAAATATTAAAACAAATA
1 TTAAAAAAATAAAAACAAATACTAAAACAAATA
* * *
23327865 TTAAAACAAATAAAAA-TAATACTAAAACAATTC
1 TTAAAA-AAATAAAAACAAATACTAAAACAAATA
*
23327898 TTAAAATAATA
1 TTAAAAAAATA
23327909 CACAAATTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
32 4 0.11
33 25 0.68
34 8 0.22
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (33 bp):
TTAAAAAAATAAAAACAAATACTAAAACAAATA
Found at i:23327971 original size:15 final size:16
Alignment explanation
Indices: 23327941--23327973 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
23327931 AAATGGTTAT
23327941 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
23327958 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
23327973 A
1 A
23327974 AAAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:23344924 original size:64 final size:64
Alignment explanation
Indices: 23344843--23345027 Score: 205
Period size: 67 Copynumber: 2.9 Consensus size: 64
23344833 AGACATTATG
* * *
23344843 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
23344907 ATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
23344972 AA
63 AA
* * *
23344974 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGCT
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGCT
23345028 GAACTATATG
Statistics
Matches: 100, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 20 0.20
64 25 0.25
66 21 0.21
67 31 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:23348816 original size:14 final size:14
Alignment explanation
Indices: 23348797--23348830 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
23348787 ACATTTTTTT
23348797 TTCTAATGATACTA
1 TTCTAATGATACTA
23348811 TTCTAATGATACTA
1 TTCTAATGATACTA
23348825 TTCTAA
1 TTCTAA
23348831 CATGTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (14 bp):
TTCTAATGATACTA
Found at i:23349452 original size:14 final size:14
Alignment explanation
Indices: 23349433--23349462 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
23349423 ACAAACTTAG
23349433 TTTTGTAATATAAA
1 TTTTGTAATATAAA
23349447 TTTTGTAATATAAA
1 TTTTGTAATATAAA
23349461 TT
1 TT
23349463 AAATAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (14 bp):
TTTTGTAATATAAA
Found at i:23349517 original size:14 final size:14
Alignment explanation
Indices: 23349498--23349526 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
23349488 TGGAGCAAAC
23349498 TTTGTAATATAAAT
1 TTTGTAATATAAAT
23349512 TTTGTAATATAAAT
1 TTTGTAATATAAAT
23349526 T
1 T
23349527 AAATACATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TTTGTAATATAAAT
Found at i:23349596 original size:64 final size:64
Alignment explanation
Indices: 23349434--23349598 Score: 285
Period size: 64 Copynumber: 2.6 Consensus size: 64
23349424 CAAACTTAGT
*
23349434 TTTGTAATATAAATTTTGTAATATAAATTAAATAAATTATAACATTAATCTAATTGGAGCAAAC
1 TTTGTAATATAAATTTTGTAATATAAATTAAATACATTATAACATTAATCTAATTGGAGCAAAC
*
23349498 TTTGTAATATAAATTTTGTAATATAAATTAAATACATTATAACATTAATTTAATTGGAGCAAAC
1 TTTGTAATATAAATTTTGTAATATAAATTAAATACATTATAACATTAATCTAATTGGAGCAAAC
* * *
23349562 TTTGTTATATAAAATTTGTAATATAAAATAAATACAT
1 TTTGTAATATAAATTTTGTAATATAAATTAAATACAT
23349599 AGTTAAAACA
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 96 1.00
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.41
Consensus pattern (64 bp):
TTTGTAATATAAATTTTGTAATATAAATTAAATACATTATAACATTAATCTAATTGGAGCAAAC
Found at i:23349613 original size:114 final size:113
Alignment explanation
Indices: 23349493--23349701 Score: 346
Period size: 114 Copynumber: 1.8 Consensus size: 113
23349483 CTAATTGGAG
* * *
23349493 CAAACTTTGTAATATAAATTTTGTAATATAAATTAAATACATTATAACATTAATTTAATTGGAGC
1 CAAACTTTGTAATATAAATTTTGTAATATAAATTAAATACATTACAACATTAATCTAATTGGAAC
*
23349558 AAACTTTGTTATATAAAATTTGTAATATAAAATAAATACATAGTTAAAA
66 AAACTTTG-AATATAAAATTTGTAATATAAAATAAATACATAGTTAAAA
23349607 CAAACTTTGTAATATAAATTTTGTAATATAAATTAAATACATTACAACATTAATCTAATTGGAAC
1 CAAACTTTGTAATATAAATTTTGTAATATAAATTAAATACATTACAACATTAATCTAATTGGAAC
* * *
23349672 AAGCTTTGAATATAAATTTTGTTATATAAA
66 AAACTTTGAATATAAAATTTGTAATATAAA
23349702 TTACATAAGC
Statistics
Matches: 88, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
113 19 0.22
114 69 0.78
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (113 bp):
CAAACTTTGTAATATAAATTTTGTAATATAAATTAAATACATTACAACATTAATCTAATTGGAAC
AAACTTTGAATATAAAATTTGTAATATAAAATAAATACATAGTTAAAA
Found at i:23349631 original size:14 final size:14
Alignment explanation
Indices: 23349612--23349640 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
23349602 TAAAACAAAC
23349612 TTTGTAATATAAAT
1 TTTGTAATATAAAT
23349626 TTTGTAATATAAAT
1 TTTGTAATATAAAT
23349640 T
1 T
23349641 AAATACATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TTTGTAATATAAAT
Found at i:23349831 original size:27 final size:27
Alignment explanation
Indices: 23349793--23349856 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
23349783 TATACTGGGT
*
23349793 GTGCCGCCTATCAGATAGGCTCAACTA
1 GTGCCGCCTATCAGATAGGCACAACTA
*
23349820 GTGCCGCCTATCAGGTAGGCACAACTA
1 GTGCCGCCTATCAGATAGGCACAACTA
*
23349847 GTGCTGCCTA
1 GTGCCGCCTA
23349857 CCTAAAACCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (27 bp):
GTGCCGCCTATCAGATAGGCACAACTA
Found at i:23351945 original size:25 final size:25
Alignment explanation
Indices: 23351894--23351959 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
23351884 AGAGTTGCTC
**
23351894 ACACGAGTTGTGAATATAAATGTTT
1 ACACGAGTTGTGAATATAAATACTT
*
23351919 ACACGAGTTGTGAATATAATTACTT
1 ACACGAGTTGTGAATATAAATACTT
**
23351944 ACACGAACTGTGAATA
1 ACACGAGTTGTGAATA
23351960 CGGCTCTGCT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (25 bp):
ACACGAGTTGTGAATATAAATACTT
Found at i:23357615 original size:39 final size:41
Alignment explanation
Indices: 23357555--23357707 Score: 215
Period size: 40 Copynumber: 3.8 Consensus size: 41
23357545 ATTTCCAAAC
* *
23357555 CAAAGTGCCTTCGGGATTTAG-CCGGATATAG-CAACTCGCA
1 CAAA-TGCCTTCGGGACTTAGCCCGGATATAGTCAACTAGCA
*
23357595 CAAATGCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTCAACTAGCA
* *
23357635 CAAAAGCCTTCGGGACTTAGCCCGAATATAGTCAA-TAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTCAACTAGCA
*
23357675 CAACTGCCTTCGGGACTTAGCCCGGATATAGTC
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTC
23357708 CGAATAATCA
Statistics
Matches: 101, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
39 14 0.14
40 85 0.84
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTCAACTAGCA
Found at i:23367515 original size:17 final size:18
Alignment explanation
Indices: 23367493--23367531 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
23367483 AGGCCAATCT
23367493 GGGCGTGTGGG-CCACAC
1 GGGCGTGTGGGTCCACAC
23367510 GGGCGTGTGGGTCCACAC
1 GGGCGTGTGGGTCCACAC
23367528 GGGC
1 GGGC
23367532 AAGCCATATG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.10, C:0.28, G:0.49, T:0.13
Consensus pattern (18 bp):
GGGCGTGTGGGTCCACAC
Found at i:23376401 original size:41 final size:41
Alignment explanation
Indices: 23376344--23376425 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
23376334 TGAGTTTCTC
23376344 TTGTTGTTCTTATTACTATTATGATCTTCTGTTAATACCTT
1 TTGTTGTTCTTATTACTATTATGATCTTCTGTTAATACCTT
23376385 TTGTTGTTCTTATTACTATTATGATCTTCTGTTAATACCTT
1 TTGTTGTTCTTATTACTATTATGATCTTCTGTTAATACCTT
23376426 CTCTCTCTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (41 bp):
TTGTTGTTCTTATTACTATTATGATCTTCTGTTAATACCTT
Found at i:23376437 original size:41 final size:41
Alignment explanation
Indices: 23376351--23376438 Score: 133
Period size: 41 Copynumber: 2.1 Consensus size: 41
23376341 CTCTTGTTGT
* * *
23376351 TCTTATTACTATTATGATCTTCTGTTAATACCTTTTGTTGT
1 TCTTATTACTATTATGATCTTCTGTTAATACCTTCTCTTGC
23376392 TCTTATTACTATTATGATCTTCTGTTAATACCTTCTCTCT-C
1 TCTTATTACTATTATGATCTTCTGTTAATACCTTCTCT-TGC
23376433 TCTTAT
1 TCTTAT
23376439 ATTATGCTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 42 0.98
42 1 0.02
ACGTcount: A:0.19, C:0.19, G:0.07, T:0.55
Consensus pattern (41 bp):
TCTTATTACTATTATGATCTTCTGTTAATACCTTCTCTTGC
Found at i:23378694 original size:34 final size:33
Alignment explanation
Indices: 23378651--23378714 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
23378641 TTGAGTTGTA
*
23378651 ATTATAGCCATG-AGATTTGGCTTGTAATTATTGG
1 ATTATAGCCATGTA-AGTTGGCTTG-AATTATTGG
23378685 ATTATAGCCATGTAAGTTGGCTTGAATTAT
1 ATTATAGCCATGTAAGTTGGCTTGAATTAT
23378715 ATGTTTGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 6 0.21
34 21 0.75
35 1 0.04
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (33 bp):
ATTATAGCCATGTAAGTTGGCTTGAATTATTGG
Found at i:23386857 original size:67 final size:65
Alignment explanation
Indices: 23386717--23386869 Score: 175
Period size: 67 Copynumber: 2.3 Consensus size: 65
23386707 CTAGCCAGTT
* * * *
23386717 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTG--CTACACATAGAACCACACACGCGACCTAGCTACA
23386782 TA
64 TA
* * *
23386784 TATCTCGTAGCTCTCTTGTCTACATGGTG-TACACATAGTATCACCCACGCGACCTAGC-ACATC
1 TATCTCGTAGCTCTCTTGTCTACATGGTGCTACACATAGAACCACACACGCGACCTAGCTACAT-
23386847 A
65 A
23386848 TAATGTCTCGTAGCTCTCTTGT
1 T-A--TCTCGTAGCTCTCTTGT
23386870 ACACGTGATG
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
63 4 0.05
64 24 0.32
65 1 0.01
67 46 0.61
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.31
Consensus pattern (65 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGCTACACATAGAACCACACACGCGACCTAGCTACATA
Found at i:23388541 original size:43 final size:43
Alignment explanation
Indices: 23388447--23388550 Score: 120
Period size: 43 Copynumber: 2.4 Consensus size: 43
23388437 AGGTTACCTA
* * ** *
23388447 AATGTGATTACATGTATGACCATGTCTGGGACATTGGCATTGT
1 AATGCGATTACATGTAAGACTGTGTCTGGGACATTGGCATCGT
* *
23388490 ATTGCGATTTCATGTAAGACTGTGTCTGGGACATTGGCATCGTT
1 AATGCGATTACATGTAAGACTGTGTCTGGGACATTGGCATCG-T
*
23388534 AAT-CGATTACGTGTAAG
1 AATGCGATTACATGTAAG
23388551 TCCCTACCCA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 47 0.94
44 3 0.06
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (43 bp):
AATGCGATTACATGTAAGACTGTGTCTGGGACATTGGCATCGT
Found at i:23407555 original size:32 final size:32
Alignment explanation
Indices: 23407517--23407577 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
23407507 ATGTGATTAC
23407517 ATGTAAGACCATGTCT-GGTACATTGGCATTGT
1 ATGTAAGACCATGTCTAGG-ACATTGGCATTGT
23407549 ATGTAAGACCATGTCTAGGACATTGGCAT
1 ATGTAAGACCATGTCTAGGACATTGGCAT
23407578 CGTTATATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
32 26 0.93
33 2 0.07
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (32 bp):
ATGTAAGACCATGTCTAGGACATTGGCATTGT
Found at i:23409181 original size:42 final size:43
Alignment explanation
Indices: 23409130--23409224 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 43
23409120 AAGTAAGGTG
* *
23409130 TTACACGAAATCA-AA-TACAATCCCGATGTCCCAAACATGGTC
1 TTACACGAAATCATAAGT-CAATCCCAACGTCCCAAACATGGTC
* * * *
23409172 TTACCCGAAATCATAAGTCGATGCCAACGTCCCAAACGTGGTC
1 TTACACGAAATCATAAGTCAATCCCAACGTCCCAAACATGGTC
23409215 TTACACGAAA
1 TTACACGAAA
23409225 ACACATATCG
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
42 12 0.27
43 31 0.70
44 1 0.02
ACGTcount: A:0.36, C:0.28, G:0.15, T:0.21
Consensus pattern (43 bp):
TTACACGAAATCATAAGTCAATCCCAACGTCCCAAACATGGTC
Found at i:23425792 original size:48 final size:48
Alignment explanation
Indices: 23425737--23425922 Score: 212
Period size: 48 Copynumber: 3.9 Consensus size: 48
23425727 CATATCGACC
* **
23425737 CCAATGCCATGTCCCAGACATGGTCTTACACTAGCGCACCT-ATCAACG
1 CCAATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATAAT-ATGG
* * * * * * *
23425785 CCGATGCCATGTCCTAGACATGGTCTTATACTGGCTCTCATAATGTGG
1 CCAATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATAATATGG
** * * * *
23425833 CCAATGCCATGTCTGAGACATGGTCTTACACTGGCTCTCATAATGTGG
1 CCAATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATAATATGG
23425881 CCAATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATA
1 CCAATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATA
23425923 TCACCAAAAT
Statistics
Matches: 118, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
48 116 0.98
49 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.26
Consensus pattern (48 bp):
CCAATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATAATATGG
Found at i:23431005 original size:46 final size:46
Alignment explanation
Indices: 23430818--23430995 Score: 266
Period size: 46 Copynumber: 3.9 Consensus size: 46
23430808 CACAATATAT
* * * * *
23430818 ATATACATCTCATACATATCTCACATTAGCCATTTGGCTTTACCTC
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTC
* * *
23430864 ATATCCATCTCATACACGTTTCGCATTAGCCATTTGGCTTTAACTC
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTC
* *
23430910 ATATCCATCTCATACACGTTTCGCATTAGCCATTCGACTTTACCTC
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTC
23430956 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTT
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTT
23430996 CGCCACATAT
Statistics
Matches: 121, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 121 1.00
ACGTcount: A:0.25, C:0.30, G:0.09, T:0.36
Consensus pattern (46 bp):
ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTC
Found at i:23431050 original size:47 final size:47
Alignment explanation
Indices: 23431019--23431353 Score: 544
Period size: 47 Copynumber: 7.1 Consensus size: 47
23431009 CACTTCCACG
** *
23431019 TTCATCACATTGGCCATTCTACCTTATCACATATACGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
23431066 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * * *
23431113 TTCATCACATTGGTCATTCGGCCTTATCACACATATACAAGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
23431160 TTCATCACATTGGCCATTCGGCCTTATCACGTATATGAATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
23431207 TTCATCACATTGACCATTCGGCCTTATCACGTATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
23431254 TTCATCACATTGGCCATTCGGCCTTATCACGTATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
23431301 TTCATCACATTGGTCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
23431348 TCCATC
1 TTCATC
23431354 TCATAAAATC
Statistics
Matches: 269, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 269 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:23434918 original size:40 final size:40
Alignment explanation
Indices: 23434853--23435129 Score: 383
Period size: 40 Copynumber: 6.9 Consensus size: 40
23434843 GATTACACAT
* * * **
23434853 CACCGGCACGAATGCCCTTCAGGACTTAGCCCGGATGTAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAA
*
23434893 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAA
* * *
23434933 CACTAGCACAAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAA
* *
23434973 CACCAGCACGAATTCTCTTCGGGACTTAGCCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAA
* * * * *
23435013 CACTAGCATGAATGCTCTTCGAGACTTTGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAA
*
23435053 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAA
* *
23435093 CACTAGCGCGAATGCTCTTCGGGACTTAGCCCGGATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
23435130 TATATAACTC
Statistics
Matches: 207, Mismatches: 30, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 207 1.00
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAA
Found at i:23434958 original size:80 final size:80
Alignment explanation
Indices: 23434849--23435131 Score: 467
Period size: 80 Copynumber: 3.5 Consensus size: 80
23434839 GCCTGATTAC
** * * *
23434849 ACATCACCGGCACGAATGCCCTTCAGGACTTAGCCCGGATGTAACACCAGCACGAATGCTCTTCG
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCG
23434914 GGACTTAGCCCGGAT
66 GGACTTAGCCCGGAT
* *
23434929 ACATCACTAGCACAAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATTCTCTTCG
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCG
23434994 GGACTTAGCCCGGAT
66 GGACTTAGCCCGGAT
* * *
23435009 ACATCACTAGCATGAATGCTCTTCGAGACTTTGCCCGGATATAACACCAGCACGAATGCTCTTCG
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCG
23435074 GGACTTAGCCCGGAT
66 GGACTTAGCCCGGAT
*
23435089 ACATCACTAGCGCGAATGCTCTTCGGGACTTAGCCCGGATATA
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
23435132 TATAACTCTC
Statistics
Matches: 187, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 187 1.00
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (80 bp):
ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCG
GGACTTAGCCCGGAT
Found at i:23436659 original size:46 final size:46
Alignment explanation
Indices: 23436601--23436778 Score: 266
Period size: 46 Copynumber: 3.9 Consensus size: 46
23436591 CACAAGATAT
* * * *
23436601 ATATACATCTCATACATATCTCACATTAGCCATTTGGCTTTACCTC
1 ATATCCATCTCATACACATTTCACATTAGCCATTCGGCTTTACCTC
**
23436647 ATATCCATCTCATACATGTTTCACATTAGCCATTCGGCTTTACCTC
1 ATATCCATCTCATACACATTTCACATTAGCCATTCGGCTTTACCTC
* * *
23436693 ATATCCATCTCATACACGTTTCGCATTAGCCATTCGACTTTACCTC
1 ATATCCATCTCATACACATTTCACATTAGCCATTCGGCTTTACCTC
*
23436739 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTT
1 ATATCCATCTCATACACATTTCACATTAGCCATTCGGCTT
23436779 CGCCATATAT
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 123 1.00
ACGTcount: A:0.25, C:0.30, G:0.08, T:0.36
Consensus pattern (46 bp):
ATATCCATCTCATACACATTTCACATTAGCCATTCGGCTTTACCTC
Found at i:23436833 original size:22 final size:21
Alignment explanation
Indices: 23436805--23437068 Score: 68
Period size: 22 Copynumber: 11.3 Consensus size: 21
23436795 TTCCACGCTC
23436805 ATCACATTGGCCATTCTACCTT
1 ATCACATTGGCCATTC-ACCTT
* * *
23436827 ATCACATATATGCAAGTTCACATT
1 ATCACAT-T-GGCCA-TTCACCTT
*
23436851 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTC-ACCTT
* *** *
23436874 ATCACACATATACATGTTCACATT
1 ATCACA-TTGGCCA--TTCACCTT
*
23436898 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTC-ACCTT
* *
23436921 ATCACACATAT-GCAAGTTCACATT
1 AT--CACAT-TGGCCA-TTCACCTT
*
23436945 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTC-ACCTT
* *
23436968 ATCACGTATAT-GCAAGTTCACATT
1 ATCAC--AT-TGGCCA-TTCACCTT
*
23436992 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTC-ACCTT
*
23437015 ATCACGTATAT-G-CATTTTCACATT
1 ATCAC--AT-TGGCCA--TTCACCTT
*
23437039 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTC-ACCTT
23437062 ATCACAT
1 ATCACAT
23437069 ATATGCATGT
Statistics
Matches: 174, Mismatches: 35, Indels: 66
0.63 0.13 0.24
Matches are distributed among these distances:
22 50 0.29
23 40 0.23
24 41 0.24
25 43 0.25
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.33
Consensus pattern (21 bp):
ATCACATTGGCCATTCACCTT
Found at i:23436836 original size:47 final size:47
Alignment explanation
Indices: 23436803--23437089 Score: 475
Period size: 47 Copynumber: 6.1 Consensus size: 47
23436793 ACTTCCACGC
**
23436803 TCATCACATTGGCCATTCTACCTTATCACATATATGCAAGTTCACAT
1 TCATCACATTGGCCATTCGGCCTTATCACATATATGCAAGTTCACAT
* * *
23436850 TCATCACATTGGCCATTCGGCCTTATCACACATATACATGTTCACAT
1 TCATCACATTGGCCATTCGGCCTTATCACATATATGCAAGTTCACAT
*
23436897 TCATCACATTGGCCATTCGGCCTTATCACACATATGCAAGTTCACAT
1 TCATCACATTGGCCATTCGGCCTTATCACATATATGCAAGTTCACAT
*
23436944 TCATCACATTGGCCATTCGGCCTTATCACGTATATGCAAGTTCACAT
1 TCATCACATTGGCCATTCGGCCTTATCACATATATGCAAGTTCACAT
* **
23436991 TCATCACATTGGCCATTCGGCCTTATCACGTATATGCATTTTCACAT
1 TCATCACATTGGCCATTCGGCCTTATCACATATATGCAAGTTCACAT
*
23437038 TCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
1 TCATCACATTGGCCATTCGGCCTTATCACATATATGCAAGTTCACAT
23437085 TCATC
1 TCATC
23437090 TCATAAAATC
Statistics
Matches: 227, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 227 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
TCATCACATTGGCCATTCGGCCTTATCACATATATGCAAGTTCACAT
Found at i:23436950 original size:25 final size:25
Alignment explanation
Indices: 23436827--23436951 Score: 63
Period size: 24 Copynumber: 5.2 Consensus size: 25
23436817 ATTCTACCTT
*
23436827 ATCACATATATGCAAGTTCACATTC
1 ATCACACATATGCAAGTTCACATTC
* * *
23436852 AT--CACAT-TGGCCA-TTCGGCCTT-
1 ATCACACATAT-GCAAGTTC-ACATTC
* *
23436874 ATCACACATATACATGTTCACATTC
1 ATCACACATATGCAAGTTCACATTC
* * *
23436899 AT--CACAT-TGGCCA-TTCGGCCTT-
1 ATCACACATAT-GCAAGTTC-ACATTC
23436921 ATCACACATATGCAAGTTCACATTC
1 ATCACACATATGCAAGTTCACATTC
23436946 ATCACA
1 ATCACA
23436952 TTGGCCATTC
Statistics
Matches: 69, Mismatches: 17, Indels: 28
0.61 0.15 0.25
Matches are distributed among these distances:
22 12 0.17
23 19 0.28
24 20 0.29
25 18 0.26
ACGTcount: A:0.30, C:0.29, G:0.10, T:0.30
Consensus pattern (25 bp):
ATCACACATATGCAAGTTCACATTC
Found at i:23440648 original size:40 final size:40
Alignment explanation
Indices: 23440583--23440859 Score: 392
Period size: 40 Copynumber: 6.9 Consensus size: 40
23440573 GATTACACAT
* * * **
23440583 CACCGGCACGAATGCCCTTCAGGACTTAGCCCGGATGTAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAA
*
23440623 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAA
* * *
23440663 CACTAGCACAAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAA
* *
23440703 CACCAGCACGAATGCTCTTCGGGACTTAGCCCAGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAA
* * * *
23440743 CACTAGCACGAATGCTCTTCGAGACTTTGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAA
*
23440783 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAA
* *
23440823 CACTAGCGCGAATGCTCTTCGGGACTTAGCCCGGATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
23440860 TATATAACTC
Statistics
Matches: 209, Mismatches: 28, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 209 1.00
ACGTcount: A:0.26, C:0.31, G:0.22, T:0.21
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAA
Found at i:23440688 original size:80 final size:80
Alignment explanation
Indices: 23440579--23440861 Score: 476
Period size: 80 Copynumber: 3.5 Consensus size: 80
23440569 GCCTGATTAC
** * * *
23440579 ACATCACCGGCACGAATGCCCTTCAGGACTTAGCCCGGATGTAACACCAGCACGAATGCTCTTCG
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCG
23440644 GGACTTAGCCCGGAT
66 GGACTTAGCCCGGAT
*
23440659 ACATCACTAGCACAAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCG
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCG
*
23440724 GGACTTAGCCCAGAT
66 GGACTTAGCCCGGAT
* *
23440739 ACATCACTAGCACGAATGCTCTTCGAGACTTTGCCCGGATATAACACCAGCACGAATGCTCTTCG
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCG
23440804 GGACTTAGCCCGGAT
66 GGACTTAGCCCGGAT
*
23440819 ACATCACTAGCGCGAATGCTCTTCGGGACTTAGCCCGGATATA
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
23440862 TATAACTCTC
Statistics
Matches: 189, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 189 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (80 bp):
ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCG
GGACTTAGCCCGGAT
Found at i:23442386 original size:46 final size:46
Alignment explanation
Indices: 23442328--23442505 Score: 275
Period size: 46 Copynumber: 3.9 Consensus size: 46
23442318 CACAATATAT
* * * *
23442328 ATATACATCTCATACATATCTCACATTAGCCATTTGGCTTTACCTC
1 ATATCCATCTCATACACATTTCACATTAGCCATTCGGCTTTACCTC
*
23442374 ATATCCATCTCATACACGTTTCACATTAGCCATTCGGCTTTACCTC
1 ATATCCATCTCATACACATTTCACATTAGCCATTCGGCTTTACCTC
* * *
23442420 ATATCCATCTCATACACGTTTCGCATTAGCCATTCGACTTTACCTC
1 ATATCCATCTCATACACATTTCACATTAGCCATTCGGCTTTACCTC
*
23442466 ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTT
1 ATATCCATCTCATACACATTTCACATTAGCCATTCGGCTT
23442506 CGCCATATAT
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 123 1.00
ACGTcount: A:0.25, C:0.31, G:0.08, T:0.35
Consensus pattern (46 bp):
ATATCCATCTCATACACATTTCACATTAGCCATTCGGCTTTACCTC
Found at i:23442557 original size:22 final size:21
Alignment explanation
Indices: 23442529--23442839 Score: 71
Period size: 22 Copynumber: 13.3 Consensus size: 21
23442519 CTTCCACGTC
23442529 ATCACATTGGCCATTCTACCTT
1 ATCACATTGGCCATTC-ACCTT
* * *
23442551 ATCACATATATGCAAGTTCACATT
1 ATCACAT-T-GGCCA-TTCACCTT
*
23442575 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTC-ACCTT
*
23442598 ATCACACATAT-G-CATGTTCACATT
1 AT--CACAT-TGGCCA--TTCACCTT
*
23442622 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTC-ACCTT
* *
23442645 ATCACACATAT-GCAAGTTCACATT
1 AT--CACAT-TGGCCA-TTCACCTT
*
23442669 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTC-ACCTT
* *
23442692 ATCACGTATAT-GCAAGTTCACATT
1 ATCAC--AT-TGGCCA-TTCACCTT
*
23442716 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTC-ACCTT
*
23442739 ATCACGTATAT-G-CATGTTCACATT
1 ATCAC--AT-TGGCCA--TTCACCTT
*
23442763 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTC-ACCTT
*
23442786 ATCACGTATAT-G-CATGTTCACATT
1 ATCAC--AT-TGGCCA--TTCACCTT
*
23442810 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTC-ACCTT
23442833 ATCACAT
1 ATCACAT
23442840 ATATGCATGT
Statistics
Matches: 212, Mismatches: 31, Indels: 92
0.63 0.09 0.27
Matches are distributed among these distances:
22 56 0.26
23 53 0.25
24 54 0.25
25 49 0.23
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.32
Consensus pattern (21 bp):
ATCACATTGGCCATTCACCTT
Found at i:23442585 original size:47 final size:47
Alignment explanation
Indices: 23442527--23442857 Score: 572
Period size: 47 Copynumber: 7.0 Consensus size: 47
23442517 CACTTCCACG
** *
23442527 TCATCACATTGGCCATTCTACCTTATCACATATATGCAAGTTCACAT
1 TCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
*
23442574 TCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACAT
1 TCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
* *
23442621 TCATCACATTGGCCATTCGGCCTTATCACACATATGCAAGTTCACAT
1 TCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
* *
23442668 TCATCACATTGGCCATTCGGCCTTATCACGTATATGCAAGTTCACAT
1 TCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
*
23442715 TCATCACATTGGCCATTCGGCCTTATCACGTATATGCATGTTCACAT
1 TCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
*
23442762 TCATCACATTGGCCATTCGGCCTTATCACGTATATGCATGTTCACAT
1 TCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
23442809 TCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
1 TCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
23442856 TC
1 TC
23442858 TTCTCATAAA
Statistics
Matches: 275, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 275 1.00
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (47 bp):
TCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
Found at i:23442674 original size:25 final size:25
Alignment explanation
Indices: 23442551--23442675 Score: 72
Period size: 24 Copynumber: 5.2 Consensus size: 25
23442541 ATTCTACCTT
*
23442551 ATCACATATATGCAAGTTCACATTC
1 ATCACACATATGCAAGTTCACATTC
* * *
23442576 AT--CACAT-TGGCCA-TTCGGCCTT-
1 ATCACACATAT-GCAAGTTC-ACATTC
*
23442598 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCAAGTTCACATTC
* * *
23442623 AT--CACAT-TGGCCA-TTCGGCCTT-
1 ATCACACATAT-GCAAGTTC-ACATTC
23442645 ATCACACATATGCAAGTTCACATTC
1 ATCACACATATGCAAGTTCACATTC
23442670 ATCACA
1 ATCACA
23442676 TTGGCCATTC
Statistics
Matches: 71, Mismatches: 15, Indels: 28
0.62 0.13 0.25
Matches are distributed among these distances:
22 12 0.17
23 20 0.28
24 21 0.30
25 18 0.25
ACGTcount: A:0.30, C:0.29, G:0.11, T:0.30
Consensus pattern (25 bp):
ATCACACATATGCAAGTTCACATTC
Found at i:23449401 original size:96 final size:96
Alignment explanation
Indices: 23449237--23449471 Score: 316
Period size: 96 Copynumber: 2.4 Consensus size: 96
23449227 GGTGAATTGT
* * *
23449237 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCCATGTCCCAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACAT-ATCGTGGCCGATGCCATGTCCCAA
* * *
23449301 ACATGGTCTTACACTAGCT-CTA-GTCTCAATGC
65 ACATGGTCTTACACTAG-TAC-ACCTATCAACGC
* * *
23449333 CGATGCCATATCCCAGACATGGCCTTACACTAGCGCACATATCGAT-GCCGATGCCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCG-TGGCCGATGCCATGTCCCAA
*
23449397 ACATGGTCTTACACTAGTACACCTATCAACGT
65 ACATGGTCTTACACTAGTACACCTATCAACGC
23449429 CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATC
23449472 ACCCAAATGT
Statistics
Matches: 123, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
95 4 0.03
96 118 0.96
97 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (96 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCGTGGCCGATGCCATGTCCCAAA
CATGGTCTTACACTAGTACACCTATCAACGC
Found at i:23449472 original size:48 final size:48
Alignment explanation
Indices: 23449237--23449472 Score: 280
Period size: 48 Copynumber: 4.9 Consensus size: 48
23449227 GGTGAATTGT
* * * *
23449237 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA--ATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCA-AT-GC
* * * *
23449285 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTA-GTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCGC-ACATATCAATGC
* * *
23449333 CGATGCCATATCCCAGACATGGCCTTACACTAGCGCACATATCGATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATGC
** * * *
23449381 CGATGCCATGTCCCAGACATGGTCTTACACTAGTACACCTATCAACGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATGC
23449429 CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCA
23449473 CCCAAATGTT
Statistics
Matches: 160, Mismatches: 24, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
47 1 0.01
48 157 0.98
49 1 0.01
50 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATGC
Done.