Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 189 of 230
Found at i:56871761 original size:79 final size:80
Alignment explanation
Indices: 56871629--56871891 Score: 328
Period size: 79 Copynumber: 3.3 Consensus size: 80
56871619 TTGAATGATG
* *
56871629 TCCGGGCTATGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AATATCCGGACCAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAA-ATCCGGACCAAGATCCGAAGGCA
56871691 TTTGTGCGAGATACTAAT
63 TTTGTGCGAGATACTAAT
*
56871709 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAATTCGGACCAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAATCCGGACCAAGATCCGAAGGCATTT
56871773 GTGCGAGATACTAAT
66 GTGCGAGATACTAAT
* ***
56871788 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA-T
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAATCCGGACCAAGAT-CCGAAGGCATT
56871850 TGTGCGA-ATTACT-AT
65 TGTGCGAGA-TACTAAT
* *
56871865 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
56871892 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
77 3 0.02
78 22 0.13
79 119 0.72
80 21 0.13
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAATCCGGACCAAGATCCGAAGGCATTT
GTGCGAGATACTAAT
Found at i:56871922 original size:78 final size:79
Alignment explanation
Indices: 56871681--56871923 Score: 248
Period size: 79 Copynumber: 3.1 Consensus size: 79
56871671 CGGACCAAGA
* **
56871681 TCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGAT-ACT
1 TCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAG-TGACT
* ***
56871745 AAATTCGGACCAAGA-
65 AAATCCGGGTTAA-AT
* ** *
56871760 TCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTA
*
56871825 AATCCGGGTTAAGT
66 AATCCGGGTTAAAT
* *
56871839 CCCGAAGGCA-TTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GA
1 TCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA
*
56871900 GCTATATCC-GGTTAAAT
63 -CTAAATCCGGGTTAAAT
56871917 TCCGAAG
1 TCCGAAG
56871924 ATTTGGTTCT
Statistics
Matches: 144, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
77 3 0.02
78 36 0.25
79 105 0.73
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTA
AATCCGGGTTAAAT
Found at i:56871923 original size:118 final size:118
Alignment explanation
Indices: 56871681--56871897 Score: 280
Period size: 118 Copynumber: 1.8 Consensus size: 118
56871671 CGGACCAAGA
*
56871681 TCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTA
1 TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTA
* **
56871746 AATTCGGACCAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG
66 AATCCGGACCAAGATCCGAAGGCATTTGAACGAGATACTAATTCCGGGCTAAG
* * *
56871799 CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCA-TTGTGCGA-ATTAC
1 TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TAC
* * *
56871862 TATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAG
64 TA-AATCCGGACCAAGAT-CCGAAGGCATTTGAACGAG
56871898 GAGCTATATC
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
117 2 0.02
118 71 0.84
119 12 0.14
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (118 bp):
TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTA
AATCCGGACCAAGATCCGAAGGCATTTGAACGAGATACTAATTCCGGGCTAAG
Found at i:56873531 original size:19 final size:19
Alignment explanation
Indices: 56873507--56873557 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
56873497 CATATCTTCT
56873507 AAGATTGCATATCATATCA
1 AAGATTGCATATCATATCA
* *
56873526 AAGATTACATATCATATCT
1 AAGATTGCATATCATATCA
56873545 AAGATTGCATATC
1 AAGATTGCATATC
56873558 CTTGAAGATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (19 bp):
AAGATTGCATATCATATCA
Found at i:56880607 original size:19 final size:20
Alignment explanation
Indices: 56880565--56880607 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
56880555 AGGAAAATAA
*
56880565 TTTTTGTGGCGTTTTTTATC
1 TTTTTGCGGCGTTTTTTATC
56880585 -TTTTGCGGCG-TTTTTATC
1 TTTTTGCGGCGTTTTTTATC
56880603 TTTTT
1 TTTTT
56880608 TATCTTTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.05, C:0.12, G:0.19, T:0.65
Consensus pattern (20 bp):
TTTTTGCGGCGTTTTTTATC
Found at i:56880625 original size:18 final size:19
Alignment explanation
Indices: 56880566--56880606 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
56880556 GGAAAATAAT
*
56880566 TTTTGTGGCGTTTTTTATC
1 TTTTGCGGCGTTTTTTATC
56880585 TTTTGCGGCG-TTTTTATC
1 TTTTGCGGCGTTTTTTATC
56880603 TTTT
1 TTTT
56880607 TTATCTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.05, C:0.12, G:0.20, T:0.63
Consensus pattern (19 bp):
TTTTGCGGCGTTTTTTATC
Found at i:56880930 original size:87 final size:87
Alignment explanation
Indices: 56880767--56880930 Score: 267
Period size: 87 Copynumber: 1.9 Consensus size: 87
56880757 GCAAAAAATT
* *
56880767 TTTCATTTTGAACAAAATGACGCCATTTTGCTATTCATAAATTTTTATTTTGTTTTTTTATAAAT
1 TTTCATTTTGAACAAAATGACGCCATTTTGCTATTCAAAAATTTTTATTTTATTTTTTTATAAAT
56880832 TGATTTATTTTTTGCGCCGCTA
66 TGATTTATTTTTTGCGCCGCTA
* *
56880854 TTTCATTTTGAACAAAATGACGCCGTTTTGCTATGTTAAAAATTTTTTATTTTATTTTTTTATAA
1 TTTCATTTTGAACAAAATGACGCCATTTTGCTAT-TCAAAAA-TTTTTATTTTATTTTTTTATAA
56880919 ATTGATTT-TTTT
64 ATTGATTTATTTT
56880931 GCGGCATTTT
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
87 33 0.46
88 9 0.13
89 29 0.41
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.54
Consensus pattern (87 bp):
TTTCATTTTGAACAAAATGACGCCATTTTGCTATTCAAAAATTTTTATTTTATTTTTTTATAAAT
TGATTTATTTTTTGCGCCGCTA
Found at i:56881127 original size:106 final size:102
Alignment explanation
Indices: 56881004--56881203 Score: 260
Period size: 103 Copynumber: 1.9 Consensus size: 102
56880994 GCAAAATTTT
* * *
56881004 TTTCATTTTGAACAAAATGATGCCGTTTTGCTATTATAAAAATTTTTTATT-TTGTTTTTTATAA
1 TTTCATTTTGAACAAAATGACGCCGTTTTG-T-TCAGAAAAATTTTTT-TTATT-TTTTTTATAA
56881068 ATTGATTTATTTTTTGCGCCGT-TTTTTATAAAAACGCCGCTA
62 ATTGATTTATTTTTTGCG--GTGTTTTTATAAAAACGCCGCTA
* * ** *
56881110 TTTCATTTTGAACAAAATGACGCTGTTTTGTTCGGCTAAATTTTTTTTATTTTTTTTATATATTG
1 TTTCATTTTGAACAAAATGACGCCGTTTTGTTCAGAAAAATTTTTTTTATTTTTTTTATAAATTG
56881175 ATTTATTTTTTGCGGTGTTTTTATAAAAA
66 ATTTATTTTTTGCGGTGTTTTTATAAAAA
56881204 AATGCCCTAT
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
101 2 0.02
102 12 0.14
103 29 0.35
104 12 0.14
105 1 0.01
106 28 0.33
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.53
Consensus pattern (102 bp):
TTTCATTTTGAACAAAATGACGCCGTTTTGTTCAGAAAAATTTTTTTTATTTTTTTTATAAATTG
ATTTATTTTTTGCGGTGTTTTTATAAAAACGCCGCTA
Found at i:56881306 original size:254 final size:254
Alignment explanation
Indices: 56880846--56881329 Score: 631
Period size: 254 Copynumber: 1.9 Consensus size: 254
56880836 TTATTTTTTG
* * *
56880846 CGCCGCTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATGTTAAAAATTTTTTATTTTATTT
1 CGCCGCTATTTCATTTTGAACAAAATGACGCCGTTTTGCTAGGCT-AAAATTTTTTATTATATTT
* * *
56880911 TTTTATAAATTGATTTTTTTGCGGCATTTTTATGAAAAACGCCGCTATTGCTTACCTTTAGCGGC
65 TTTTATAAATTGATTTTTTTGCGGCATTTTTATAAAAAACGCCGCTATTGCTTACATTTAACGGC
* * * * *
56880976 GTTTTTATGAAAAACGCCGCAAAATTTTTTTCATTTTGAACAAAATGATGCCGTTTTGCTATTAT
130 GTTTTCATGAAAAAC-CCGCAAAAATTATTTCATTTTGAACAAAATGACGCCATTTTGCTATTAT
*
56881041 AAAAATTTTTTATTTTGTTTTTTATAAATTGATTTATTTTTTGCGCCGTTTTTTATAAAAA
194 AAAAATTTTTTATTTTATTTTTTATAAATTGATTTATTTTTTGCGCCGTTTTTTATAAAAA
* * *
56881102 CGCCGCTATTTCATTTTGAACAAAATGACGCTGTTTTGTTCGGCT-AAATTTTTT-TTAT-TTTT
1 CGCCGCTATTTCATTTTGAACAAAATGACGCCGTTTTGCTAGGCTAAAATTTTTTATTATATTTT
* ** * *
56881164 TTTATATATTGATTTATTTTTTGCGGTGTTTTTATAAAAAAATGCC-CTATTGCTTGCATTTAAC
66 TTTATAAATTGA--T-TTTTTTGCGGCATTTTTAT-AAAAAACGCCGCTATTGCTTACATTTAAC
* *
56881228 GGTGTTTGTCAT-AAAAA-CCGCAAAAAATTATTTCATTTTGAACAAAATGACGTCATTTTGCT-
127 GGCGTTT-TCATGAAAAACCCGC-AAAAATTATTTCATTTTGAACAAAATGACGCCATTTTGCTA
*
56881290 TTGCTAAAAATTTTTTATTTTATTTTTTATAAATTGATTT
190 TT-ATAAAAATTTTTTATTTTATTTTTTATAAATTGATTT
56881330 TTTATAAAAT
Statistics
Matches: 198, Mismatches: 23, Indels: 16
0.84 0.10 0.07
Matches are distributed among these distances:
252 15 0.08
253 9 0.05
254 80 0.40
255 43 0.22
256 51 0.26
ACGTcount: A:0.28, C:0.12, G:0.13, T:0.47
Consensus pattern (254 bp):
CGCCGCTATTTCATTTTGAACAAAATGACGCCGTTTTGCTAGGCTAAAATTTTTTATTATATTTT
TTTATAAATTGATTTTTTTGCGGCATTTTTATAAAAAACGCCGCTATTGCTTACATTTAACGGCG
TTTTCATGAAAAACCCGCAAAAATTATTTCATTTTGAACAAAATGACGCCATTTTGCTATTATAA
AAATTTTTTATTTTATTTTTTATAAATTGATTTATTTTTTGCGCCGTTTTTTATAAAAA
Found at i:56881910 original size:15 final size:14
Alignment explanation
Indices: 56881884--56881935 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
56881874 ATCCCTGAAT
*
56881884 CCCTAAACCTTAAAT
1 CCCT-AACCTTAAAC
56881899 CCCTAACTCTT-AAC
1 CCCTAAC-CTTAAAC
*
56881913 CCCTAACCCCTAAAC
1 CCCTAA-CCTTAAAC
56881928 CCCTAACC
1 CCCTAACC
56881936 CCTAAACATT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
14 15 0.47
15 17 0.53
ACGTcount: A:0.33, C:0.46, G:0.00, T:0.21
Consensus pattern (14 bp):
CCCTAACCTTAAAC
Found at i:56881930 original size:8 final size:7
Alignment explanation
Indices: 56881899--56881940 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
56881889 AACCTTAAAT
56881899 CCCTAAC
1 CCCTAAC
* *
56881906 TCTTAAC
1 CCCTAAC
56881913 CCCTAAC
1 CCCTAAC
56881920 CCCTAAAC
1 CCCT-AAC
56881928 CCCTAAC
1 CCCTAAC
56881935 CCCTAA
1 CCCTAA
56881941 ACATTAAATC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 23 0.77
8 7 0.23
ACGTcount: A:0.31, C:0.50, G:0.00, T:0.19
Consensus pattern (7 bp):
CCCTAAC
Found at i:56881936 original size:15 final size:15
Alignment explanation
Indices: 56881910--56881942 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
56881900 CCTAACTCTT
56881910 AACCCCTAACCCCTA
1 AACCCCTAACCCCTA
56881925 AACCCCTAACCCCTA
1 AACCCCTAACCCCTA
56881940 AAC
1 AAC
56881943 ATTAAATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.52, G:0.00, T:0.12
Consensus pattern (15 bp):
AACCCCTAACCCCTA
Found at i:56881962 original size:21 final size:22
Alignment explanation
Indices: 56881909--56881963 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
56881899 CCCTAACTCT
* **
56881909 TAACCCCTAACCCCTAAACCCC
1 TAACCCCTAAACATTAAACCCC
*
56881931 TAACCCCTAAACATTAAATCCC
1 TAACCCCTAAACATTAAACCCC
*
56881953 -AACCCTTAAAC
1 TAACCCCTAAAC
56881964 CATAATCCCT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 10 0.36
22 18 0.64
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.18
Consensus pattern (22 bp):
TAACCCCTAAACATTAAACCCC
Found at i:56881981 original size:15 final size:14
Alignment explanation
Indices: 56881959--56881993 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
56881949 TCCCAACCCT
56881959 TAAACCATAATCCC
1 TAAACCATAATCCC
*
56881973 TAAATCCATACTCCC
1 TAAA-CCATAATCCC
56881988 TAAACC
1 TAAACC
56881994 TTAAAATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:56882691 original size:73 final size:73
Alignment explanation
Indices: 56882538--56882692 Score: 190
Period size: 73 Copynumber: 2.1 Consensus size: 73
56882528 AGCATTTTTG
* * *
56882538 GCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGACTTAGAATTTTTTGCGGTGCTTTC
1 GCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTGGACTTAGAATTTTTTGCGGCGCTTTC
*
56882603 TTAAAAAT
66 TTAAAAAC
* * *
56882611 GCTGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTGGGCTTAG-GTTTTCTTGCGGCG-TTT
1 GCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTGGACTTAGAATTTT-TTGCGGCGCTTT
*
56882674 -TTGAGAAAGC
65 CTT-A-AAAAC
56882684 GCCGCTAAA
1 GCCGCTAAA
56882693 GCCCTGAGCA
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
71 2 0.03
72 8 0.11
73 60 0.86
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (73 bp):
GCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTGGACTTAGAATTTTTTGCGGCGCTTTC
TTAAAAAC
Found at i:56882801 original size:114 final size:114
Alignment explanation
Indices: 56882592--56883033 Score: 611
Period size: 114 Copynumber: 3.9 Consensus size: 114
56882582 AGAATTTTTT
* * * *
56882592 GCGGTGCTTTCTTAAAAATGCTGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAG
* * * *
56882657 GTTTTCTTGCGGCG-TTTTTGAGAAAGCGCCGCTAAAGCCCTGAGCATTA
66 GTTTTTTTGCGGCGCTTTCTCA-AAAACGCCGCTAAAGCCCTGAGCATTA
* * *
56882706 GCGGCGCTTTCTTAAAAAAGCCGCTAAATCCCCGAAAGCACACAAAACGGCGTCATTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAG
* *
56882771 GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGGCTTGAGCATTA
66 GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* *
56882820 GCAGCGCTTTCTTAAAAACGCCGCTAAA-CCCTCGAAAGCTCACAAAACGTCGTCGTTGGGCTTA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCC-CGAAAGCTCACAAAACGGCGTCGTTGGGCTTA
* * *
56882884 TGTTTTTTTGCGGCGCTTTCTCAAAAACGCCACTAAAGCCCTGAGCGTTA
65 GGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * * *
56882934 GCGGCGCTTTATTAAAAACGCCGCTAAATCCCCGAAAGCTTACAAAACGGCATTGTTGGGCTTAT
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAG
* * *
56882999 G-TTTTTTGCGGCGCTTTCTTAGAAATGCCGCTAAA
66 GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAA
56883034 TCCCCGAAAG
Statistics
Matches: 293, Mismatches: 32, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
113 33 0.11
114 252 0.86
115 8 0.03
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (114 bp):
GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAG
GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:56883029 original size:72 final size:72
Alignment explanation
Indices: 56882934--56883077 Score: 198
Period size: 72 Copynumber: 2.0 Consensus size: 72
56882924 CTGAGCGTTA
* * *
56882934 GCGGCGCTTTATTAAAAACGCCGCTAAATCCCCGAAAGCTTACAAAACGGCATTGTTGGGCTTAT
1 GCGGCGCTTTATTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCATCGTTGGGCTTAG
56882999 GTTTTTT
66 GTTTTTT
* * * *** *
56883006 GCGGCGCTTTCTTAGAAATGCCGCTAAATCCCCGAAAGCTCGGGAAACGGCGTCGTTGGGCTTAG
1 GCGGCGCTTTATTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCATCGTTGGGCTTAG
56883071 GTTTTTT
66 GTTTTTT
56883078 TGCAAAAACG
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (72 bp):
GCGGCGCTTTATTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCATCGTTGGGCTTAG
GTTTTTT
Found at i:56889723 original size:40 final size:40
Alignment explanation
Indices: 56889668--56889744 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
56889658 ACTACATTCG
*
56889668 TCTAAAAGCGAAGGTTTCCTAAGGACACGTGAACATAATC
1 TCTAAAAGCGAAGGTTTCATAAGGACACGTGAACATAATC
56889708 TCTAAAAGCGAAGGTTTCATAAGGACACGTGAACATA
1 TCTAAAAGCGAAGGTTTCATAAGGACACGTGAACATA
56889745 GTCTTTTCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (40 bp):
TCTAAAAGCGAAGGTTTCATAAGGACACGTGAACATAATC
Found at i:56921890 original size:18 final size:18
Alignment explanation
Indices: 56921863--56921904 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
56921853 CGCTATAATA
*
56921863 GGGTTTGCATAAACACAT
1 GGGTTCGCATAAACACAT
* *
56921881 GGGTTCGCATAAATATAT
1 GGGTTCGCATAAACACAT
56921899 GGGTTC
1 GGGTTC
56921905 ACACAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (18 bp):
GGGTTCGCATAAACACAT
Found at i:56922679 original size:49 final size:49
Alignment explanation
Indices: 56922605--56922767 Score: 211
Period size: 49 Copynumber: 3.3 Consensus size: 49
56922595 AACATGCTTA
* * * * *
56922605 CACACTTGTCCTATCAGAATGGTTGAGAAACATAAGATATGTTCTCGCC
1 CACACTTATCTTATCAAAATGGTTGAGGAACATAAAATATGTTCTCGCC
* *
56922654 CACACTTATCTTATCAAAATAGTTGAGGAACATAAAACT-TGTTCTCGCT
1 CACACTTATCTTATCAAAATGGTTGAGGAACATAAAA-TATGTTCTCGCC
* * * *
56922703 CACACTTATCTTATCACAATGGCTGAGGAACATAAAACATGTTCTCACC
1 CACACTTATCTTATCAAAATGGTTGAGGAACATAAAATATGTTCTCGCC
56922752 CACACTTATCTTATCA
1 CACACTTATCTTATCA
56922768 GAATCTGTTG
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
49 98 0.99
50 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (49 bp):
CACACTTATCTTATCAAAATGGTTGAGGAACATAAAATATGTTCTCGCC
Found at i:56924116 original size:134 final size:134
Alignment explanation
Indices: 56923947--56924578 Score: 659
Period size: 134 Copynumber: 4.7 Consensus size: 134
56923937 TGTCGACTTG
*
56923947 ACGATCATGAACAATTCATTAAGAGTTCATAGATTTACGATCGCAACTCCATTTAAATAGTTCTC
1 ACGATCATGAACAATTCATTAAGAGTTCATCGATTTACGATCGCAACTCCATTTAAATAGTTCTC
* * * * * * *
56924012 TAATTTATGACCACAACTGTCATTTTTCAAGCTCGTTGATTTACGACCACAACTTCAGTTCATTT
66 TGATTTATGATCACAACTATCATTTTTAAAGCTCGTTGATTTACGATCACAACTTCAGTTGATTG
56924077 ATTT
131 ATTT
* ** * * *
56924081 ACGATCATGAACAATTCATTAAGATTTCATCGATTTAAAATCGTAACT-TATTTAAATAATTCAT
1 ACGATCATGAACAATTCATTAAGAGTTCATCGATTTACGATCGCAACTCCATTTAAATAGTTC-T
* * * * *
56924145 -TGATTTACGATCACAATTGTCA-TTTTAAAGGCTCGTTGATTTATGATCACAGCTTCAGTTGAT
65 CTGATTTATGATCACAACTATCATTTTTAAA-GCTCGTTGATTTACGATCACAACTTCAGTTGAT
*
56924208 TGAGTT
129 TGATTT
* * * * * * * *
56924214 ACAATCATGAACAATTCATTAAGACTTCGTCGACTTAC-ATTGCAACTCGATTTAAATAGTACAC
1 ACGATCATGAACAATTCATTAAGAGTTCATCGATTTACGATCGCAACTCCATTTAAATAGTTCTC
* * *
56924278 TGATTTATGATTACAACTATCATTTTTAAAGCTTGTTGATTTACAATCA-AAGCTTCAGTTGATT
66 TGATTTATGATCACAACTATCATTTTTAAAGCTCGTTGATTTACGATCACAA-CTTCAGTTGATT
56924342 GATTT
130 GATTT
* * * * *
56924347 ATGATCATGAACAATTCATTAAGAGTTCACCGACTTACGATCGCAACTCCATTTAAACAGTTCAC
1 ACGATCATGAACAATTCATTAAGAGTTCATCGATTTACGATCGCAACTCCATTTAAATAGTTCTC
** * * ** ** * * * *
56924412 TGATTTATGATCACAGGTATCCTTTTCAAATATCACTAATTAATGAGCACAA-TCTCAGTTGATT
66 TGATTTATGATCACAACTATCATTTTTAAAGCTCGTTGATTTACGATCACAACT-TCAGTTGATT
56924476 GATTT
130 GATTT
* * * * * *
56924481 ACGATCAAGAACAATTCATTAAGAGTCCACCGATTTAAGATCGTAA-TACCATTTCAATAGTTCG
1 ACGATCATGAACAATTCATTAAGAGTTCATCGATTTACGATCGCAACT-CCATTTAAATAGTTC-
*
56924545 T-TGATTTATGATCACAACTATAATTTTTAAAGCT
64 TCTGATTTATGATCACAACTATCATTTTTAAAGCT
56924579 TGCCAATTTA
Statistics
Matches: 409, Mismatches: 78, Indels: 22
0.80 0.15 0.04
Matches are distributed among these distances:
132 14 0.03
133 192 0.47
134 201 0.49
135 2 0.00
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (134 bp):
ACGATCATGAACAATTCATTAAGAGTTCATCGATTTACGATCGCAACTCCATTTAAATAGTTCTC
TGATTTATGATCACAACTATCATTTTTAAAGCTCGTTGATTTACGATCACAACTTCAGTTGATTG
ATTT
Found at i:56924799 original size:134 final size:134
Alignment explanation
Indices: 56924661--56924904 Score: 323
Period size: 134 Copynumber: 1.8 Consensus size: 134
56924651 GCTTATTTGG
** **
56924661 AATCACA-ATTTGAGTTCATTGATTTACGATCATGA-ACAATTCATTAAGTA-TTTTCTGATTTA
1 AATCACAGATTT-AGTTCATTGATTTACGATCATGAGA-AATTCATTAAG-AGTTCGCCAATTTA
** *
56924723 TGATCACAACTCCATTTAAATAGTTTGTTGATTTACGACCACAACTTTAAGTTTAAAAGCTCATT
63 AAATCACAACTCCATTTAAATAGTTAGTTGATTTACGACCACAACTTTAAGTTTAAAAGCTCATT
56924788 GATTTAC
128 GATTTAC
* * * *
56924795 AATCATAGCTTTAGTTCATTGATTTACGATCATGAGAAATTTATTCAGAGTTCGCCAATTTAAAA
1 AATCACAGATTTAGTTCATTGATTTACGATCATGAGAAATTCATTAAGAGTTCGCCAATTTAAAA
* *
56924860 TCGCAACTCCATTTAAATAGTTAGTTGATTTACGATCACAACTTT
66 TCACAACTCCATTTAAATAGTTAGTTGATTTACGACCACAACTTT
56924905 CACTTTTAAA
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
133 1 0.01
134 89 0.95
135 4 0.04
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.39
Consensus pattern (134 bp):
AATCACAGATTTAGTTCATTGATTTACGATCATGAGAAATTCATTAAGAGTTCGCCAATTTAAAA
TCACAACTCCATTTAAATAGTTAGTTGATTTACGACCACAACTTTAAGTTTAAAAGCTCATTGAT
TTAC
Found at i:56925001 original size:243 final size:243
Alignment explanation
Indices: 56924700--56925154 Score: 578
Period size: 243 Copynumber: 1.9 Consensus size: 243
56924690 TCATGAACAA
* ***
56924700 TTCATTAAGTATTTTCTGATTTATGATCACAACTCCATTTAAATAGTTTGTTGATTTACGACCAC
1 TTCATTAAGTATTTTCTGATTTACGATCACAACTCCATTTAAATAGTTCACTGATTTACGACCAC
* * * * *
56924765 AACTT-TAAGTTTAAAAGCTCATTGATTTACAATCATAGCTTTAGTTCATTGATTTACGATCATG
66 -ACTTGTAAGTTTAAAAGCTCAGTGATTTACAATCACAACTTCAGATCATTGATTTACGATCATG
* * *
56924829 AGA-AATTTATTCAGAGTTCGCCAATTTAAAATCGCAACTCCATTTAAATAGTTAGTTGATTTAC
130 A-ACAATTCATTAAGAGTTCGCCAATTTAAAATCGCAACTCCATTTAAAAAGTTAGTTGATTTAC
* *
56924893 GATCACAACTTTCACTTTTAAAGTTCAGTAATTTACGATTACAACTTCAG
194 CATCACAACTGTCACTTTTAAAGTTCAGTAATTTACGATTACAACTTCAG
*
56924943 TTCATTAAG-AGTTTGT-TGATTTACGATC-CTAACTCCATTTAAATAGTTCACTGATTTACGAT
1 TTCATTAAGTA-TTT-TCTGATTTACGATCAC-AACTCCATTTAAATAGTTCACTGATTTACGAC
* * * * * * *
56925005 CACAGTTGTCATTTTTAAAGCTCGGTGATTTACAATCACAACTTCAGATCATTGATTTACTATTA
63 CACACTTGTAAGTTTAAAAGCTCAGTGATTTACAATCACAACTTCAGATCATTGATTTACGATCA
* * * * *
56925070 TGAACAATTCATTAAGAGTTTGTCGATTTATAATCGCAACTCCATTTAAAAAGTTTGTTGATTTA
128 TGAACAATTCATTAAGAGTTCGCCAATTTAAAATCGCAACTCCATTTAAAAAGTTAGTTGATTTA
*
56925135 CCATCACCACTGTCACTTTT
193 CCATCACAACTGTCACTTTT
56925155 CTTGCAAACT
Statistics
Matches: 179, Mismatches: 28, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
242 6 0.03
243 172 0.96
244 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (243 bp):
TTCATTAAGTATTTTCTGATTTACGATCACAACTCCATTTAAATAGTTCACTGATTTACGACCAC
ACTTGTAAGTTTAAAAGCTCAGTGATTTACAATCACAACTTCAGATCATTGATTTACGATCATGA
ACAATTCATTAAGAGTTCGCCAATTTAAAATCGCAACTCCATTTAAAAAGTTAGTTGATTTACCA
TCACAACTGTCACTTTTAAAGTTCAGTAATTTACGATTACAACTTCAG
Found at i:56925189 original size:54 final size:54
Alignment explanation
Indices: 56925107--56925210 Score: 199
Period size: 54 Copynumber: 1.9 Consensus size: 54
56925097 TTATAATCGC
56925107 AACTCCATTTAAAAAGTTTGTTGATTTACCATCACCACTGTCACTTTTCTTGCA
1 AACTCCATTTAAAAAGTTTGTTGATTTACCATCACCACTGTCACTTTTCTTGCA
*
56925161 AACTCCATTTAAACAGTTTGTTGATTTACCATCACCACTGTCACTTTTCT
1 AACTCCATTTAAAAAGTTTGTTGATTTACCATCACCACTGTCACTTTTCT
56925211 AGCTCATTAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.27, C:0.25, G:0.09, T:0.39
Consensus pattern (54 bp):
AACTCCATTTAAAAAGTTTGTTGATTTACCATCACCACTGTCACTTTTCTTGCA
Found at i:56927109 original size:71 final size:70
Alignment explanation
Indices: 56926984--56927157 Score: 192
Period size: 71 Copynumber: 2.5 Consensus size: 70
56926974 TCCAACATAA
* * *
56926984 GTTGGGGATTCTTGACAGCTTGAGTGAGCAGCATCGGATCGTTATTAAATGATGGATGAGATCCA
1 GTTGTGGATTCTTGACAGCTTGAGTGAGCAACATCGCATC-TTATTAAATGATGGATGAGATCCA
56927049 ACACGT
65 ACACGT
* *
56927055 GTTGTGGATTCTTGACAGCTTGAGTGAGCAACATCGCAT-TATACTT-TATCGATGGTTGAGATC
1 GTTGTGGATTCTTGACAGCTTGAGTGAGCAACATCGCATCT-TA-TTAAAT-GATGGATGAGATC
* *
56927118 TAGCACGT
63 CAACACGT
* * *
56927126 GTTACT-GATTCTCGACATCTTGAGTGAGCAAC
1 GTT-GTGGATTCTTGACAGCTTGAGTGAGCAAC
56927158 GTCAAATAAA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
69 1 0.01
70 4 0.04
71 83 0.93
72 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (70 bp):
GTTGTGGATTCTTGACAGCTTGAGTGAGCAACATCGCATCTTATTAAATGATGGATGAGATCCAA
CACGT
Found at i:56930741 original size:15 final size:15
Alignment explanation
Indices: 56930721--56930750 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56930711 AACTAAGAAT
56930721 GAATCAAAAACCTAA
1 GAATCAAAAACCTAA
*
56930736 GAATCAAAACCCTAA
1 GAATCAAAAACCTAA
56930751 AATTGTGTGT
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:0.57, C:0.23, G:0.07, T:0.13
Consensus pattern (15 bp):
GAATCAAAAACCTAA
Found at i:56935874 original size:70 final size:71
Alignment explanation
Indices: 56935718--56935885 Score: 180
Period size: 70 Copynumber: 2.4 Consensus size: 71
56935708 TAAGTTGGGG
* * * **
56935718 ATTCTCGACAGCTTGAGTGAGCAGCATCAGATCAGTATTTAGCGATGGCTGAGATACAACACGTG
1 ATTCTCGACAGCTTGAGCGAGCAACATCACATCAGTATTTAGCGAAAGCTGAGATACAACACGTG
*
56935783 CTGCGG
66 CTGCGA
* * * * * *
56935789 ATTCTTGACAACTTGAGGGAGCAACATCACCT-A-TACTTTATCGAAAGCTGAGAT-CTAACATG
1 ATTCTCGACAGCTTGAGCGAGCAACATCACATCAGTA-TTTAGCGAAAGCTGAGATAC-AACACG
*
56935851 TGGTGCGA
64 TGCTGCGA
56935859 ATTCTCGACAGCTTGAGCGAGCAACAT
1 ATTCTCGACAGCTTGAGCGAGCAACAT
56935886 TAAATAAAGT
Statistics
Matches: 80, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
69 3 0.04
70 51 0.64
71 26 0.32
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.25
Consensus pattern (71 bp):
ATTCTCGACAGCTTGAGCGAGCAACATCACATCAGTATTTAGCGAAAGCTGAGATACAACACGTG
CTGCGA
Found at i:56947578 original size:34 final size:36
Alignment explanation
Indices: 56947529--56947612 Score: 93
Period size: 36 Copynumber: 2.4 Consensus size: 36
56947519 GAATTTGTCA
* *
56947529 ATTTACGACCGCAACTCT-A-TTTAAACAGTT-CATG
1 ATTTACGATCACAACTCTCATTTTAAA-AGTTCCATG
* * *
56947563 ATTTACGATCACAACTGTCATTTTTAAAGTTCCCTG
1 ATTTACGATCACAACTCTCATTTTAAAAGTTCCATG
56947599 ATTTACGATCACAA
1 ATTTACGATCACAA
56947613 TTTCAATTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
34 15 0.36
35 5 0.12
36 22 0.52
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.35
Consensus pattern (36 bp):
ATTTACGATCACAACTCTCATTTTAAAAGTTCCATG
Found at i:56947758 original size:134 final size:134
Alignment explanation
Indices: 56947487--56948031 Score: 496
Period size: 133 Copynumber: 4.1 Consensus size: 134
56947477 GGGTATTTCA
* * * ** * * * * *
56947487 TCATTGATTTAAGGTCATAAACAATTCATTAAGAA-TTTGTCAATTTACGACCGCAACTCTATTT
1 TCATTGATTTACGATCATGAACAATTCATTAA-AAGTTCATCGATTTACTATCACAACTCCATTT
* ** * *
56947551 AAACAGTTCA-TGATTTACGATCACAACTGTCATTTTTAAAGTTCCCTGATTTACGATCACAATT
65 AAACAGTTCATTGATTTACGATCACAACTGTCACTTTTAAAACTCGCTGATTTACGATCACAACT
*
56947615 TCAAT
130 TCAGT
* * * * * *
56947620 TCATTTATTTACGATCATAAACAATTCATTAAAAGTTTACCGACTT-CTTATTACAACTCCATTT
1 TCATTGATTTACGATCATGAACAATTCATTAAAAGTTCATCGATTTAC-TATCACAACTCCATTT
* * * * *
56947684 AAACAGTTCACTGATTTATGATCACAACTCTCACTTTTAAAACTCGCTAATTTACGATCACAGCT
65 AAACAGTTCATTGATTTACGATCACAACTGTCACTTTTAAAACTCGCTGATTTACGATCACAACT
*
56947749 TGAGT
130 TCAGT
* *
56947754 TCATTGATTTACGATCATGACCAATTCATTAAGAA-TTCATCGATTTACTATCGCAACTCCA-TT
1 TCATTGATTTACGATCATGAACAATTCATTAA-AAGTTCATCGATTTACTATCACAACTCCATTT
* * * * * ** *
56947817 AAGCAGTTCATTGATATA-GAATCATAATTGTCATTTTTAAAACTCATTGGTTTACGA-C-CAAG
65 AAACAGTTCATTGATTTACG-ATCACAACTGTCACTTTTAAAACTCGCTGATTTACGATCACAA-
* *
56947879 GTTTAAGT
128 -CTTCAGT
* * * *
56947887 TCATTGATTTACGATCATGAGCAATTCATTAAGAGTTCATCAATTTACAATCGA-AACTCCATTT
1 TCATTGATTTACGATCATGAACAATTCATTAAAAGTTCATCGATTTACTATC-ACAACTCCATTT
* * * * * * * *
56947951 AAACAATTCGTTGATTTACAATCACAACAGTCACTTTTAAAGCTTGCTTATTTACTATCACAACT
65 AAACAGTTCATTGATTTACGATCACAACTGTCACTTTTAAAACTCGCTGATTTACGATCACAACT
56948016 TCAGT
130 TCAGT
56948021 TCATTGATTTA
1 TCATTGATTTA
56948032 TGATTGCATC
Statistics
Matches: 330, Mismatches: 68, Indels: 27
0.78 0.16 0.06
Matches are distributed among these distances:
131 2 0.01
132 6 0.02
133 161 0.49
134 154 0.47
135 4 0.01
136 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (134 bp):
TCATTGATTTACGATCATGAACAATTCATTAAAAGTTCATCGATTTACTATCACAACTCCATTTA
AACAGTTCATTGATTTACGATCACAACTGTCACTTTTAAAACTCGCTGATTTACGATCACAACTT
CAGT
Found at i:56947968 original size:267 final size:267
Alignment explanation
Indices: 56947487--56948031 Score: 600
Period size: 267 Copynumber: 2.0 Consensus size: 267
56947477 GGGTATTTCA
* ** *
56947487 TCATTGATTTAAGGTCATAAACAATTCATTAAGAATTTGTCAATTTACGACCGCAACTCTATTTA
1 TCATTGATTTAAGATCATAAACAATTCATTAAGAATTCATCAATTTACGACCGCAACTCCATTTA
* ** *
56947552 AACAGTTCATGATTTACGATCACAACTGTCATTTTTAAAGTTCCCTGATTTACGATCACAATTTC
66 AACAGTTCATGATATACGATCACAACTGTCATTTTTAAAACTCACTGATTTACGATCACAATTTC
* * * * *
56947617 AATTCATTTATTTACGATCATAAACAATTCATTAAAAGTTTACCGACTTCTTATTACAACTCCAT
131 AATTCATTGATTTACGATCATAAACAATTCATTAAAAGTTCACCAACTTCTAATGACAACTCCAT
* ** * *
56947682 TTAAACAGTTCACTGATTTATGATCACAACTCTCACTTTTAAAACTCGCTAATTTACGATCACAG
196 TTAAACAATTCACTGATTTACAATCACAACACTCACTTTTAAAACTCGCTAATTTACGATCACAA
*
56947747 CTTGAGT
261 CTTCAGT
* * * * * *
56947754 TCATTGATTTACGATCATGACCAATTCATTAAGAATTCATCGATTTACTATCGCAACTCCA-TTA
1 TCATTGATTTAAGATCATAAACAATTCATTAAGAATTCATCAATTTACGACCGCAACTCCATTTA
* * * * *
56947818 AGCAGTTCATTGATATA-GAATCATAATTGTCATTTTTAAAACTCATTGGTTTACGA-C-CAAGG
66 AACAGTTCA-TGATATACG-ATCACAACTGTCATTTTTAAAACTCACTGATTTACGATCACAA--
* * * * *
56947880 TTT-AAGTTCATTGATTTACGATCATGAGCAATTCATTAAGAGTTCATCAATTTAC-AATCGA-A
127 TTTCAA-TTCATTGATTTACGATCATAAACAATTCATTAAAAGTTCACCAACTT-CTAAT-GACA
** * * * * *
56947942 ACTCCATTTAAACAATTCGTTGATTTACAATCACAACAGTCACTTTTAAAGCTTGCTTATTTACT
189 ACTCCATTTAAACAATTCACTGATTTACAATCACAACACTCACTTTTAAAACTCGCTAATTTACG
56948007 ATCACAACTTCAGT
254 ATCACAACTTCAGT
56948021 TCATTGATTTA
1 TCATTGATTTA
56948032 TGATTGCATC
Statistics
Matches: 229, Mismatches: 42, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
265 3 0.01
266 15 0.07
267 209 0.91
268 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (267 bp):
TCATTGATTTAAGATCATAAACAATTCATTAAGAATTCATCAATTTACGACCGCAACTCCATTTA
AACAGTTCATGATATACGATCACAACTGTCATTTTTAAAACTCACTGATTTACGATCACAATTTC
AATTCATTGATTTACGATCATAAACAATTCATTAAAAGTTCACCAACTTCTAATGACAACTCCAT
TTAAACAATTCACTGATTTACAATCACAACACTCACTTTTAAAACTCGCTAATTTACGATCACAA
CTTCAGT
Found at i:56948223 original size:134 final size:134
Alignment explanation
Indices: 56948027--56948291 Score: 352
Period size: 134 Copynumber: 2.0 Consensus size: 134
56948017 CAGTTCATTG
* * * * * * * *
56948027 ATTTATGATTGCATCTCCATTTAAACAGTTTGCTAATTTATGATCACAATTTTTACTTTTAAAGC
1 ATTTATGATCGCAACTCCATTTAAAAAGCTTGCTAATTTACGATCACAAATGTCACTTTTAAAGC
56948092 TCGCTGATGTACGATCACAGCTTCAGTT-ATTTGATTTACAATCATGAACAATTCATTAAGAATT
66 TCGCTGATGTACGATCACAGCTTCAGTTCA-TTGATTTACAATCATGAACAATTCATTAAGAATT
56948156 CGCCA
130 CGCCA
* * * *
56948161 ATTTATGATCGCAACTTCATTTAAAAAGCTTGTTGATTTACGATCACAAATGTCATTTTTAAAGC
1 ATTTATGATCGCAACTCCATTTAAAAAGCTTGCTAATTTACGATCACAAATGTCACTTTTAAAGC
* * * * * *
56948226 TCGTTGATTTACGATCACAGCTTCTGTTCATTGATTTACGATTATGAACAATTCATTAAGAGTTC
66 TCGCTGATGTACGATCACAGCTTCAGTTCATTGATTTACAATCATGAACAATTCATTAAGAATTC
56948291 G
131 G
56948292 TAAATTTACA
Statistics
Matches: 112, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
134 111 0.99
135 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (134 bp):
ATTTATGATCGCAACTCCATTTAAAAAGCTTGCTAATTTACGATCACAAATGTCACTTTTAAAGC
TCGCTGATGTACGATCACAGCTTCAGTTCATTGATTTACAATCATGAACAATTCATTAAGAATTC
GCCA
Found at i:56954683 original size:26 final size:27
Alignment explanation
Indices: 56954649--56954706 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
56954639 ATGATTTGGC
* *
56954649 TTTTTATTAT-TTAAATTTTT-ATAAT
1 TTTTTATTATATAAAATTTTTAATAAG
56954674 TTTTTAATTATATAAAATTTTTAATAAG
1 TTTTT-ATTATATAAAATTTTTAATAAG
56954702 TTTTT
1 TTTTT
56954707 CTCGTCCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 5 0.18
26 5 0.18
27 9 0.32
28 9 0.32
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (27 bp):
TTTTTATTATATAAAATTTTTAATAAG
Found at i:56962146 original size:18 final size:18
Alignment explanation
Indices: 56962123--56962157 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56962113 CAAGAACAGG
56962123 AAGCACCAAAATAGTTTC
1 AAGCACCAAAATAGTTTC
* *
56962141 AAGCACTAAAGTAGTTT
1 AAGCACCAAAATAGTTT
56962158 GACACATCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (18 bp):
AAGCACCAAAATAGTTTC
Found at i:56971853 original size:6 final size:6
Alignment explanation
Indices: 56971842--56971874 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
56971832 ATAATGGCCA
56971842 TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTT
1 TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTT
56971875 TTTAACTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTGTT
Found at i:56982799 original size:153 final size:153
Alignment explanation
Indices: 56982521--56982826 Score: 544
Period size: 153 Copynumber: 2.0 Consensus size: 153
56982511 ATATTTCCGA
*
56982521 AGAAAGTTTGAACTGGTCATAGAGGGAGTTGAGAAGAAATCGGTGGAGTGATAATGGGAGAGATT
1 AGAAAGTTTGAACTAGTCATAGAGGGAGTTGAGAAGAAATCGGTGGAGTGATAATGGGAGAGATT
*
56982586 TGAGGAGAGAATATTGAGATTTGGTGAGGTTGTTGTTGTGGAGAGTTATATATATCACATCTCAT
66 TGAGGAGAGAATATTGAGATTTGGTGAGGTTCTTGTTGTGGAGAGTTATATATATCACATCTCAT
*
56982651 TTGTTCTTTGTTCTGAATGGGGG
131 TTGTTCCTTGTTCTGAATGGGGG
56982674 AGAAAGTTTGAACTAGTCATAGAGGGAGTTGAGAAGAAATCGGTGGAGTGATAA-GGCGAGAGAT
1 AGAAAGTTTGAACTAGTCATAGAGGGAGTTGAGAAGAAATCGGTGGAGTGATAATGG-GAGAGAT
*
56982738 TTGAGGAGAGAATATTTAGATTTTGG-GAGGTTCTTGTTGTGGAGAGTTATATATATCACATCTC
65 TTGAGGAGAGAATATTGAGA-TTTGGTGAGGTTCTTGTTGTGGAGAGTTATATATATCACATCTC
56982802 ATTTGTTCCTTGTTCTGAATGGGGG
129 ATTTGTTCCTTGTTCTGAATGGGGG
56982827 GAGATCGGCG
Statistics
Matches: 147, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
152 2 0.01
153 140 0.95
154 5 0.03
ACGTcount: A:0.28, C:0.07, G:0.32, T:0.32
Consensus pattern (153 bp):
AGAAAGTTTGAACTAGTCATAGAGGGAGTTGAGAAGAAATCGGTGGAGTGATAATGGGAGAGATT
TGAGGAGAGAATATTGAGATTTGGTGAGGTTCTTGTTGTGGAGAGTTATATATATCACATCTCAT
TTGTTCCTTGTTCTGAATGGGGG
Found at i:56983701 original size:27 final size:27
Alignment explanation
Indices: 56983408--56983715 Score: 334
Period size: 27 Copynumber: 11.5 Consensus size: 27
56983398 ATACCCCCGA
*
56983408 AGGGTAAAATGACCGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTAT
* **
56983435 AAGGTAAAATGGTCGTAATGCCCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTAT
* * * * *
56983462 AAGGTAAAATAACTGTAATACCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTAT
**
56983489 AGGGTAAAATGGTCGTAATGCCCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTAT
*
56983516 AGGGTAAAATGACCGTAATACCCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTAT
* *
56983543 AGGTTAGAATGACCGTAATGCCCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTAT
* * * * *
56983570 AGGGTAAAATAATCGTAAAGCACCTGT
1 AGGGTAAAATGACCGTAATGCCCCTAT
*
56983597 AGGGTAAAATGACCGTAATACCCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTAT
* * *
56983624 AGGATAAAATGACCGTAATGCCCTTGT
1 AGGGTAAAATGACCGTAATGCCCCTAT
* * * *
56983651 AGGGTAAAATGACTGTAATACCCTTGT
1 AGGGTAAAATGACCGTAATGCCCCTAT
*
56983678 AGGATAAAATGACCGTAATG-CCCTAGT
1 AGGGTAAAATGACCGTAATGCCCCTA-T
56983705 -GGG-AAAATGAC
1 AGGGTAAAATGAC
56983716 TATTTTGCCC
Statistics
Matches: 231, Mismatches: 49, Indels: 4
0.81 0.17 0.01
Matches are distributed among these distances:
25 8 0.03
26 5 0.02
27 218 0.94
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (27 bp):
AGGGTAAAATGACCGTAATGCCCCTAT
Found at i:56983787 original size:24 final size:24
Alignment explanation
Indices: 56983759--56983817 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
56983749 TCTGTGGTTA
56983759 AATGACTGATTTGTCTGTG-TTTGGT
1 AATGACTGATTTGTCTGTGATTT--T
56983784 -ATGACTGATTTGTCTGTGATTTT
1 AATGACTGATTTGTCTGTGATTTT
56983807 AATGACTGATT
1 AATGACTGATT
56983818 CTGAGCACGG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
23 1 0.03
24 28 0.88
25 3 0.09
ACGTcount: A:0.20, C:0.08, G:0.24, T:0.47
Consensus pattern (24 bp):
AATGACTGATTTGTCTGTGATTTT
Found at i:56984041 original size:32 final size:32
Alignment explanation
Indices: 56983989--56984299 Score: 152
Period size: 32 Copynumber: 9.7 Consensus size: 32
56983979 ACTGCGATGC
* *
56983989 TACTAATGGCTTTCTGCCGATCATAGTACCAT
1 TACTAATGGCTTTGTGCCGATCATAGTACCGT
* *
56984021 TACTGATGGCTTTGTACCGATCATAGTACCGT
1 TACTAATGGCTTTGTGCCGATCATAGTACCGT
* *
56984053 TACTAATGGCTTTGTGTCGATCATATTACCGT
1 TACTAATGGCTTTGTGCCGATCATAGTACCGT
** * * * * *
56984085 TACCGATGGCTATATGCTGATCAT-TTCACTGT
1 TACTAATGGCTTTGTGCCGATCATAGT-ACCGT
* * **
56984117 TACTGATGG-TTGTGTGCCGATCATATTACTAT
1 TACTAATGGCTT-TGTGCCGATCATAGTACCGT
* * * * *
56984149 TACCAATGGCTGTATGCTGATCAT--TTCGCTGT
1 TACTAATGGCTTTGTGCCGATCATAGTAC-C-GT
* * * * *
56984181 TACTGATGGCTATGTGTCGATCATA-TCACTGC
1 TACTAATGGCTTTGTGCCGATCATAGT-ACCGT
* * * *
56984213 CACTGATGGCTTTATGCTGATCAT-GTTACCGT
1 TACTAATGGCTTTGTGCCGATCATAG-TACCGT
* * * * *
56984245 TACTGATGG-TTGTGTGTCAATCATA-TCACTGC
1 TACTAATGGCTT-TGTGCCGATCATAGT-ACCGT
* *
56984277 TACTGATGGCTTTGTGCCAATCA
1 TACTAATGGCTTTGTGCCGATCA
56984300 CATTACTGTA
Statistics
Matches: 213, Mismatches: 52, Indels: 28
0.73 0.18 0.10
Matches are distributed among these distances:
30 2 0.01
31 6 0.03
32 197 0.92
33 7 0.03
34 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (32 bp):
TACTAATGGCTTTGTGCCGATCATAGTACCGT
Found at i:56984093 original size:64 final size:63
Alignment explanation
Indices: 56983989--56984289 Score: 266
Period size: 64 Copynumber: 4.7 Consensus size: 63
56983979 ACTGCGATGC
* * * * ** * * *
56983989 TACTAATGGCTTTCTGCCGATCATAGTACCATTACTGATGGCTTTGTACCGATCATAGTACCGT
1 TACTGATGGCTTTGTGTCGATCATATTACTGTTACTGATGGCTTTATGCTGATCAT-GTACCGT
* * * * * *
56984053 TACTAATGGCTTTGTGTCGATCATATTACCGTTACCGATGGCTATATGCTGATCATTTCACTGT
1 TACTGATGGCTTTGTGTCGATCATATTACTGTTACTGATGGCTTTATGCTGATCATGT-ACCGT
* * ** * *
56984117 TACTGATGG-TTGTGTGCCGATCATATTACTATTACCAATGGCTGTATGCTGATCAT-TTCGCTG
1 TACTGATGGCTT-TGTGTCGATCATATTACTGTTACTGATGGCTTTATGCTGATCATGTAC-C-G
56984180 T
63 T
* * **
56984181 TACTGATGGCTATGTGTCGATCATATCACTGCCACTGATGGCTTTATGCTGATCATGTTACCGT
1 TACTGATGGCTTTGTGTCGATCATATTACTGTTACTGATGGCTTTATGCTGATCATG-TACCGT
* * *
56984245 TACTGATGG-TTGTGTGTCAATCATATCACTGCTACTGATGGCTTT
1 TACTGATGGCTT-TGTGTCGATCATATTACTGTTACTGATGGCTTT
56984290 GTGCCAATCA
Statistics
Matches: 197, Mismatches: 32, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
62 1 0.01
63 5 0.03
64 187 0.95
65 2 0.01
66 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (63 bp):
TACTGATGGCTTTGTGTCGATCATATTACTGTTACTGATGGCTTTATGCTGATCATGTACCGT
Found at i:56984268 original size:96 final size:95
Alignment explanation
Indices: 56984022--56984293 Score: 250
Period size: 96 Copynumber: 2.8 Consensus size: 95
56984012 TAGTACCATT
*
56984022 ACTGATGGCTTTGTACCGATCATAG-TACCGTTACTAATGGCTT-TGTGTCGATCATATTACC-G
1 ACTGATGGCTTTGTGCCGATCAT-GTTACCGTTACTAATGG-TTGTGTGTCGATCAT-TT-CCTG
* * * **
56984084 TTACCGATGGCTATATGCTGATCATTTCACTGTT
62 TTACTGATGGCTATGTGCTGATCATATCACTGCC
* ** * * *
56984118 ACTGATGG-TTGTGTGCCGATCATATTACTATTACCAATGGCTGTATG-CTGATCATTTCGCTGT
1 ACTGATGGCTT-TGTGCCGATCATGTTACCGTTACTAATGGTTGTGTGTC-GATCATTTC-CTGT
56984181 TACTGATGGCTATGTG-TCGATCATATCACTGCC
63 TACTGATGGCTATGTGCT-GATCATATCACTGCC
* * * * * *
56984214 ACTGATGGCTTTATGCTGATCATGTTACCGTTACTGATGGTTGTGTGTCAATCATATCACTGCTA
1 ACTGATGGCTTTGTGCCGATCATGTTACCGTTACTAATGGTTGTGTGTCGATCATTTC-CTGTTA
*
56984279 CTGATGGCTTTGTGC
65 CTGATGGCTATGTGC
56984294 CAATCACATT
Statistics
Matches: 140, Mismatches: 26, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
94 1 0.01
95 8 0.06
96 128 0.91
97 3 0.02
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.38
Consensus pattern (95 bp):
ACTGATGGCTTTGTGCCGATCATGTTACCGTTACTAATGGTTGTGTGTCGATCATTTCCTGTTAC
TGATGGCTATGTGCTGATCATATCACTGCC
Found at i:56984318 original size:31 final size:32
Alignment explanation
Indices: 56984181--56984319 Score: 102
Period size: 32 Copynumber: 4.4 Consensus size: 32
56984171 ATTTCGCTGT
* * * *
56984181 TACTGATGGCTATGTGTCGATCATATCACTGC
1 TACTGATGGCTTTGTGCCAATCACATCACTGC
* * ** ** * * *
56984213 CACTGATGGCTTTATGCTGATCATGTTACCGT
1 TACTGATGGCTTTGTGCCAATCACATCACTGC
* *
56984245 TACTGATGG-TTGTGTGTCAATCATATCACTGC
1 TACTGATGGCTT-TGTGCCAATCACATCACTGC
*
56984277 TACTGATGGCTTTGTGCCAATCACATTACTG-
1 TACTGATGGCTTTGTGCCAATCACATCACTGC
*
56984308 TACTTATGGCTT
1 TACTGATGGCTT
56984320 GTAGCAATTC
Statistics
Matches: 83, Mismatches: 22, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
31 13 0.16
32 68 0.82
33 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCAATCACATCACTGC
Found at i:56986184 original size:23 final size:23
Alignment explanation
Indices: 56986158--56986207 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
56986148 ACAGGCTTTT
56986158 AAGTGTTTTAAAAACACACAAGA
1 AAGTGTTTTAAAAACACACAAGA
56986181 AAGTGTTTTAAAAACACACAAGA
1 AAGTGTTTTAAAAACACACAAGA
56986204 AAGT
1 AAGT
56986208 CATAGGATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.52, C:0.12, G:0.14, T:0.22
Consensus pattern (23 bp):
AAGTGTTTTAAAAACACACAAGA
Found at i:56992963 original size:17 final size:17
Alignment explanation
Indices: 56992941--56992975 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
56992931 ACTTGTCCCC
56992941 AGCCTCAAAACGTTACA
1 AGCCTCAAAACGTTACA
56992958 AGCCTCAAAACGTTACA
1 AGCCTCAAAACGTTACA
56992975 A
1 A
56992976 CTTGAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.29, G:0.11, T:0.17
Consensus pattern (17 bp):
AGCCTCAAAACGTTACA
Found at i:56993399 original size:47 final size:47
Alignment explanation
Indices: 56993333--56993428 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
56993323 TTAAACTAGT
56993333 TTTCGTACTTTAGGAGCTTGAATATAAGCACTTTGGTTAAGTTTTAG
1 TTTCGTACTTTAGGAGCTTGAATATAAGCACTTTGGTTAAGTTTTAG
56993380 TTTCGTACTTTAGGAGCTTGAATATAAGCACTTTGGTTAAGTTTTAG
1 TTTCGTACTTTAGGAGCTTGAATATAAGCACTTTGGTTAAGTTTTAG
56993427 TT
1 TT
56993429 AACTTTTTGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.25, C:0.10, G:0.21, T:0.44
Consensus pattern (47 bp):
TTTCGTACTTTAGGAGCTTGAATATAAGCACTTTGGTTAAGTTTTAG
Found at i:56996943 original size:24 final size:24
Alignment explanation
Indices: 56996916--56996962 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
56996906 TTCTATAATC
*
56996916 ATGAATTTGAATTTAATTTATTAT
1 ATGAATTTCAATTTAATTTATTAT
*
56996940 ATGAATTTCAATTTTATTTATTA
1 ATGAATTTCAATTTAATTTATTA
56996963 GGTAAATGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (24 bp):
ATGAATTTCAATTTAATTTATTAT
Found at i:56999650 original size:22 final size:22
Alignment explanation
Indices: 56999624--56999666 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
56999614 GGGTTAGGTT
*
56999624 AATTGGGTTTAGCGTTTGGGCC
1 AATTGGGTTTAGCATTTGGGCC
*
56999646 AATTGGGTTTAGTATTTGGGC
1 AATTGGGTTTAGCATTTGGGC
56999667 TTGGGGTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.16, C:0.09, G:0.35, T:0.40
Consensus pattern (22 bp):
AATTGGGTTTAGCATTTGGGCC
Found at i:57000010 original size:44 final size:44
Alignment explanation
Indices: 56999952--57000310 Score: 432
Period size: 44 Copynumber: 8.2 Consensus size: 44
56999942 TATAGAGACT
* * * * **
56999952 AATCTTCCACCTATTCCGCTGTTGGTCAGGGAGATAGGACTTGT
1 AATCTTCAACCTATTCCGCTGCTGGTCTGGGAAATAGGACTTAC
* * * * * *
56999996 AAGCTTCAACCTATTCTGCTGCTAGTCAGGGATATAGGACTTGC
1 AATCTTCAACCTATTCCGCTGCTGGTCTGGGAAATAGGACTTAC
* * *
57000040 AATCCTCAACCTATTCTGCTGCTGGTCTGGGAAATAGGACATAC
1 AATCTTCAACCTATTCCGCTGCTGGTCTGGGAAATAGGACTTAC
*
57000084 AATCTTCGACCTATTCCGCTGCTGGTCTGGGAAATAGGACATT-C
1 AATCTTCAACCTATTCCGCTGCTGGTCTGGGAAATAGGAC-TTAC
* * * *
57000128 AATCTTCAACCTATTTCGCTCCTGGTCTGGGAAATAGGGCATAC
1 AATCTTCAACCTATTCCGCTGCTGGTCTGGGAAATAGGACTTAC
* * *
57000172 AGTCTTCAACCTATTCCGCTGCTGGTCTGGGAAATAGGGCATAC
1 AATCTTCAACCTATTCCGCTGCTGGTCTGGGAAATAGGACTTAC
* ** *
57000216 AATCTTCAACCTATTCCACTATTGGTCTGGGAAATAGGACATAC
1 AATCTTCAACCTATTCCGCTGCTGGTCTGGGAAATAGGACTTAC
* * *
57000260 AATCTTCAACCTATCCCACTGCTGGTCTGGGAAATAGGACTTGC
1 AATCTTCAACCTATTCCGCTGCTGGTCTGGGAAATAGGACTTAC
57000304 AATCTTC
1 AATCTTC
57000311 TACCGGCTTC
Statistics
Matches: 277, Mismatches: 36, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
43 1 0.00
44 275 0.99
45 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCTTCAACCTATTCCGCTGCTGGTCTGGGAAATAGGACTTAC
Found at i:57014079 original size:22 final size:22
Alignment explanation
Indices: 57014053--57014095 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
57014043 GGGTTAGGTT
*
57014053 AATTGGGTTTAGCGTTTGGGCC
1 AATTGGGTTTAGCATTTGGGCC
*
57014075 AATTGGGTTTAGTATTTGGGC
1 AATTGGGTTTAGCATTTGGGC
57014096 TTAGGGTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.16, C:0.09, G:0.35, T:0.40
Consensus pattern (22 bp):
AATTGGGTTTAGCATTTGGGCC
Found at i:57020965 original size:18 final size:19
Alignment explanation
Indices: 57020942--57020977 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
57020932 AATTCTTTTA
57020942 AATTTTTTCAAA-AAAAAG
1 AATTTTTTCAAATAAAAAG
*
57020960 AATTTTTTTAAATAAAAA
1 AATTTTTTCAAATAAAAA
57020978 TCAGAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (19 bp):
AATTTTTTCAAATAAAAAG
Found at i:57029063 original size:22 final size:21
Alignment explanation
Indices: 57029038--57029081 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
57029028 ACTAAAACAG
*
57029038 AATGAGTAAAGGAAACAAAAAA
1 AATGAATAAA-GAAACAAAAAA
*
57029060 AATGAATAAATAAACAAAAAA
1 AATGAATAAAGAAACAAAAAA
57029081 A
1 A
57029082 CGAGATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.73, C:0.05, G:0.11, T:0.11
Consensus pattern (21 bp):
AATGAATAAAGAAACAAAAAA
Found at i:57030202 original size:15 final size:15
Alignment explanation
Indices: 57030182--57030210 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
57030172 ATCCTTAAGG
57030182 TTTTTTT-CTTTTAA
1 TTTTTTTCCTTTTAA
57030196 TTTTTTTCCTTTTAA
1 TTTTTTTCCTTTTAA
57030211 GTAGCGAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTTCCTTTTAA
Found at i:57033835 original size:14 final size:15
Alignment explanation
Indices: 57033803--57033837 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
57033793 GGGTTAGTTC
*
57033803 TTTATTTTTAAAGAT
1 TTTATTGTTAAAGAT
57033818 TTTATTGTTAAA-AT
1 TTTATTGTTAAAGAT
57033832 TTTATT
1 TTTATT
57033838 TAATTATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (15 bp):
TTTATTGTTAAAGAT
Found at i:57040758 original size:21 final size:19
Alignment explanation
Indices: 57040712--57040786 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
57040702 AATCTTCAAG
57040712 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
57040731 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
57040750 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
57040771 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
57040787 AGATATGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.65
21 18 0.35
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:57041387 original size:29 final size:27
Alignment explanation
Indices: 57041345--57041421 Score: 84
Period size: 29 Copynumber: 2.8 Consensus size: 27
57041335 CATACATACG
*
57041345 TTTTATAATATATATATTTTTAAATTAA
1 TTTTATAATATATATATTATTAAATT-A
* *
57041373 TTTTGATAATGTATATATTATTCAATTA
1 TTTT-ATAATATATATATTATTAAATTA
*
57041401 TTTT-TAATCTATATATATATT
1 TTTTATAATATATATAT-TATT
57041422 TCTTTTATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
26 11 0.26
27 4 0.09
28 9 0.21
29 19 0.44
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (27 bp):
TTTTATAATATATATATTATTAAATTA
Found at i:57045702 original size:46 final size:45
Alignment explanation
Indices: 57045635--57046077 Score: 442
Period size: 46 Copynumber: 10.6 Consensus size: 45
57045625 TTTGAGTACT
* *
57045635 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
57045681 TCTGATCGAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
57045717 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
57045763 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
57045799 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
57045845 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
57045881 TCTGATCAAGTG-AAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
57045916 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
57045962 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
57046008 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
57046053 TCTGATC-AG-GGACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
57046078 ATCATACGTA
Statistics
Matches: 345, Mismatches: 21, Indels: 65
0.80 0.05 0.15
Matches are distributed among these distances:
35 35 0.10
36 86 0.25
37 4 0.01
38 1 0.00
39 1 0.00
40 7 0.02
41 1 0.00
42 8 0.02
43 15 0.04
44 3 0.01
45 24 0.07
46 160 0.46
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:57045711 original size:36 final size:36
Alignment explanation
Indices: 57045671--57045942 Score: 285
Period size: 36 Copynumber: 7.0 Consensus size: 36
57045661 GGTAGCTTTA
*
57045671 GCTACACTTATCTGATCGAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
57045707 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
57045752 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
57045789 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
57045834 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
57045871 GCTATACTTATCTGATCAAGTG-AAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
57045906 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
57045942 G
1 G
57045943 TTAGCCTTAG
Statistics
Matches: 204, Mismatches: 11, Indels: 42
0.79 0.04 0.16
Matches are distributed among these distances:
35 35 0.17
36 93 0.46
37 4 0.02
40 4 0.02
42 4 0.02
45 4 0.02
46 60 0.29
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:57045775 original size:82 final size:82
Alignment explanation
Indices: 57045635--57046034 Score: 552
Period size: 82 Copynumber: 4.9 Consensus size: 82
57045625 TTTGAGTACT
* *
57045635 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCGAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
57045700 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
57045717 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
57045782 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
57045799 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
57045864 GATAAGTGCTATACTTA
66 GATAAGTGCTACACTTA
* *
57045881 TCTGATCAAGTGA-AAAGTGATAA---GT-GC--TA--T--ACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
57045935 GATAAGTGTTAGCCTTAGCTACACTTA
66 GAT-A-----AG---T-GCTACACTTA
* * * *
57045962 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
57046027 GATAAGTG
66 GATAAGTG
57046035 GTAGCCTAGC
Statistics
Matches: 291, Mismatches: 6, Indels: 42
0.86 0.02 0.12
Matches are distributed among these distances:
71 26 0.09
72 1 0.00
73 1 0.00
75 2 0.01
77 4 0.01
78 2 0.01
80 1 0.00
81 32 0.11
82 184 0.63
83 1 0.00
85 2 0.01
86 4 0.01
88 2 0.01
90 1 0.00
91 1 0.00
92 27 0.09
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:57045904 original size:35 final size:35
Alignment explanation
Indices: 57045835--57045942 Score: 189
Period size: 35 Copynumber: 3.0 Consensus size: 35
57045825 GGTAGCTTTA
*
57045835 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTG-AAAAGTGATAAGT
57045871 GCTATACTTATCTGATCAAGTGAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAGTGATAAGT
57045906 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGA-AAAGTGATAAGT
57045942 G
1 G
57045943 TTAGCCTTAG
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
35 36 0.51
36 34 0.49
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (35 bp):
GCTATACTTATCTGATCAAGTGAAAAGTGATAAGT
Found at i:57045931 original size:117 final size:118
Alignment explanation
Indices: 57045753--57045988 Score: 411
Period size: 117 Copynumber: 2.0 Consensus size: 118
57045743 GGTAGCTTTA
57045753 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
*
57045818 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
66 GATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
57045871 GCTATACTTATCTGATCAAGTG-AAAAGTGATAAGTGCTATACTTATCTGATCAAGTGACAAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
* *
57045935 GATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGTGATAAGT
66 GATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
57045988 G
1 G
57045989 GTAGCCTTAG
Statistics
Matches: 112, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
117 91 0.81
118 21 0.19
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (118 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
GATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:57050927 original size:44 final size:44
Alignment explanation
Indices: 57050703--57051110 Score: 146
Period size: 44 Copynumber: 9.3 Consensus size: 44
57050693 AATAGAAGAT
* *
57050703 CTTGCATTCCTACACCGACAGCGAAGCAGATCAAAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGC
* *** * * * * * * * *
57050747 CTTGCCTCCCTAG-GTTG-TAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTTCCT-GCACCGACAGCGAAGCAGATCAAAGACACCAG-C
*
57050791 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGC
**** * * * * * * *
57050835 CTTGCC-TCCTTGGGTTG-CAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTTCC-TGCACCGACAGCGAAGCAGATCAAAGACACCAG-C
* *
57050879 CTTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGC
**** * * * * * * * * *
57050923 CTTG-CTTCCCTGGGTTG-CAACGGAGCTGGTTAAAAATAGCAGAT
1 CTTGCCTT-CCTGCACCGACAGCGAAGCAGATCAAAGACACCAG-C
* * * * *
57050967 CTTACCTTCCTGCACCGGCATCGAAGTAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGC
* **** * * * * * * *
57051011 CTTGCCTCCCTG-GGTTACAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAG-C
* **
57051055 CTTGCCTTCCTGCACCGACAGTGAAGCAGATCGTAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGC
*
57051099 CTTGCCTCCCTG
1 CTTGCCTTCCTG
57051111 GGTTGCAGCG
Statistics
Matches: 234, Mismatches: 116, Indels: 28
0.62 0.31 0.07
Matches are distributed among these distances:
43 74 0.32
44 88 0.38
45 72 0.31
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.20
Consensus pattern (44 bp):
CTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGC
Found at i:57051187 original size:88 final size:88
Alignment explanation
Indices: 57050689--57051176 Score: 760
Period size: 88 Copynumber: 5.5 Consensus size: 88
57050679 AGCAGATTAG
* * * *
57050689 TAAAAATAGAAGATCTTGCATTCCTACACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
57050754 CCCTAGGTTGTAGCGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
57050777 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
57050842 CCTTGGGTTGCAGCGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* *
57050865 TAAAAATAGCAGATCTTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGCCTTGCTT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
57050930 CCCTGGGTTGCAACGGAGCTGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * * *
57050953 TAAAAATAGCAGATCTTACCTTCCTGCACCGGCATCGAAGTAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
57051018 CCCTGGGTTACAGCGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* *
57051041 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGTAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
57051106 CCCTGGGTTGCAGCGGAACAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * ** *
57051129 TAAAAATAGCATATATTGCCTTTTTGCACCGACAGCGAAGCATATCGA
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
57051177 TGAGCCCAGC
Statistics
Matches: 364, Mismatches: 36, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 364 1.00
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (88 bp):
TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
CCCTGGGTTGCAGCGGAGCAGGT
Found at i:57052087 original size:21 final size:19
Alignment explanation
Indices: 57052041--57052115 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
57052031 AATCTTCAAG
57052041 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
57052060 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
57052079 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
57052100 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
57052116 AGATATGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.65
21 18 0.35
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:57056917 original size:47 final size:47
Alignment explanation
Indices: 57056833--57056961 Score: 158
Period size: 47 Copynumber: 2.8 Consensus size: 47
57056823 GTTATTTGTA
* * *
57056833 ATATTGTTGTTTTTGTTTAAATGAAAAACCAGCTTATGTGATAGTTG
1 ATATTGTTGTTGTTGTTGAAATGGAAAACCAGCTTATGTGATAGTTG
* * * *
57056880 GTATTGTTGTTGTTGTTGAAATGGAAAATCAGTTTATGTGATTGTTG
1 ATATTGTTGTTGTTGTTGAAATGGAAAACCAGCTTATGTGATAGTTG
57056927 ATATTAG--G--GTTGTTGAAATGGAAAACCAGCTTATG
1 ATATT-GTTGTTGTTGTTGAAATGGAAAACCAGCTTATG
57056962 GTGTTGTTAT
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
44 25 0.35
46 1 0.01
47 44 0.62
48 1 0.01
ACGTcount: A:0.29, C:0.05, G:0.24, T:0.42
Consensus pattern (47 bp):
ATATTGTTGTTGTTGTTGAAATGGAAAACCAGCTTATGTGATAGTTG
Found at i:57061212 original size:81 final size:81
Alignment explanation
Indices: 57061118--57061311 Score: 257
Period size: 82 Copynumber: 2.4 Consensus size: 81
57061108 AAATTAATTA
* *
57061118 TACCCTGAATTACACATACGTGCCCCTATTTGTACTTC-GTACCATTGAATTACACATATATGCC
1 TACCCTGAATTACACATACGTGCCCCTATTTGTACTTCAATACCACTGAATTACACATATATGCC
*
57061182 CTTGTTTGTACTTCGG
66 CCTGTTTGTACTTCGG
* * * * *
57061198 TACCCTTGAATTACACATACGTGCCCCTGTTTGTACTTCAATACCCCTGAGTTGCATATATATGC
1 TACCC-TGAATTACACATACGTGCCCCTATTTGTACTTCAATACCACTGAATTACACATATATGC
57061263 CCCTGTTTGTACTTCGG
65 CCCTGTTTGTACTTCGG
* *
57061280 TACCCCT-AAATAGCACATACATGCCCCTATTT
1 TA-CCCTGAATTA-CACATACGTGCCCCTATTT
57061312 ACACTATGGT
Statistics
Matches: 99, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
80 5 0.05
81 36 0.36
82 55 0.56
83 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (81 bp):
TACCCTGAATTACACATACGTGCCCCTATTTGTACTTCAATACCACTGAATTACACATATATGCC
CCTGTTTGTACTTCGG
Found at i:57061213 original size:41 final size:41
Alignment explanation
Indices: 57061118--57061307 Score: 215
Period size: 41 Copynumber: 4.7 Consensus size: 41
57061108 AAATTAATTA
* *
57061118 TACCC-TGAATTACACATACGTGCCCCTATTTGTACTTC-G
1 TACCCTTGAATTACACATACATGCCCCTGTTTGTACTTCGG
* * *
57061157 TACCATTGAATTACACATATATGCCCTTGTTTGTACTTCGG
1 TACCCTTGAATTACACATACATGCCCCTGTTTGTACTTCGG
* **
57061198 TACCCTTGAATTACACATACGTGCCCCTGTTTGTACTTCAA
1 TACCCTTGAATTACACATACATGCCCCTGTTTGTACTTCGG
* * * * *
57061239 TACCCCTGAGTTGCATATATATGCCCCTGTTTGTACTTCGG
1 TACCCTTGAATTACACATACATGCCCCTGTTTGTACTTCGG
* *
57061280 TACCCCT-AAATAGCACATACATGCCCCT
1 TACCCTTGAATTA-CACATACATGCCCCT
57061308 ATTTACACTA
Statistics
Matches: 124, Mismatches: 24, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 4 0.03
40 31 0.25
41 89 0.72
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.34
Consensus pattern (41 bp):
TACCCTTGAATTACACATACATGCCCCTGTTTGTACTTCGG
Found at i:57064772 original size:10 final size:9
Alignment explanation
Indices: 57064744--57064810 Score: 59
Period size: 10 Copynumber: 7.4 Consensus size: 9
57064734 AAAATTGTTA
*
57064744 TTTTAAAAT
1 TTTTATAAT
57064753 TTTT-TAAT
1 TTTTATAAT
57064761 TTTTATATAT
1 TTTTATA-AT
*
57064771 TTTTAGAACT
1 TTTTATAA-T
57064781 TTTTATAA-
1 TTTTATAAT
57064789 -TTTATAAT
1 TTTTATAAT
*
57064797 TTATATAAT
1 TTTTATAAT
57064806 ATTTT
1 -TTTT
57064811 CTAAAATATA
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
7 7 0.15
8 7 0.15
9 14 0.30
10 19 0.40
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:57064840 original size:18 final size:19
Alignment explanation
Indices: 57064817--57064853 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
57064807 TTTTCTAAAA
57064817 TATAAAAT-TTGAATTTTT
1 TATAAAATATTGAATTTTT
*
57064835 TATAAAATATTTAATTTTT
1 TATAAAATATTGAATTTTT
57064854 GAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
TATAAAATATTGAATTTTT
Found at i:57064863 original size:18 final size:19
Alignment explanation
Indices: 57064818--57064865 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
57064808 TTTCTAAAAT
* *
57064818 ATAAAAT-TTGAATTTTTT
1 ATAAAATATTTAATTTTTG
57064836 ATAAAATATTTAATTTTTG
1 ATAAAATATTTAATTTTTG
*
57064855 A-AAATTATTTA
1 ATAAAATATTTA
57064866 CATTAATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (19 bp):
ATAAAATATTTAATTTTTG
Found at i:57075561 original size:25 final size:25
Alignment explanation
Indices: 57075531--57075581 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
57075521 TCGGAGTGTG
57075531 ATTCCTGACGAACCCCAGGTTTGAT
1 ATTCCTGACGAACCCCAGGTTTGAT
*
57075556 ATTCCTGAGGAACCCCAGGTTTGAT
1 ATTCCTGACGAACCCCAGGTTTGAT
57075581 A
1 A
57075582 CTTGGCTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (25 bp):
ATTCCTGACGAACCCCAGGTTTGAT
Found at i:57075865 original size:3 final size:3
Alignment explanation
Indices: 57075830--57075854 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
57075820 CTAATATTTG
57075830 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
57075855 CGTTTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:57081326 original size:21 final size:21
Alignment explanation
Indices: 57081302--57081342 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
57081292 CATGCTTAAA
57081302 CATTCATTAATC-TTTCCCAAT
1 CATTC-TTAATCATTTCCCAAT
*
57081323 CATTCTTAATCATTTTCCAA
1 CATTCTTAATCATTTCCCAA
57081343 ACTTAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (21 bp):
CATTCTTAATCATTTCCCAAT
Found at i:57083815 original size:26 final size:26
Alignment explanation
Indices: 57083775--57083825 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
57083765 TTCCTTTCTT
* *
57083775 TCCCTTTTTCTTTTCT-TTCTTTTTTC
1 TCCCTATTTCATTTCTATT-TTTTTTC
57083801 TCCCTATTTCATTTCTATTTTTTTT
1 TCCCTATTTCATTTCTATTTTTTTT
57083826 GTTTCTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.71
Consensus pattern (26 bp):
TCCCTATTTCATTTCTATTTTTTTTC
Found at i:57083866 original size:7 final size:7
Alignment explanation
Indices: 57083854--57083917 Score: 58
Period size: 7 Copynumber: 8.6 Consensus size: 7
57083844 ATTTACTTAT
57083854 TATAATA
1 TATAATA
57083861 TATAATA
1 TATAATA
57083868 TAATATATA
1 T-ATA-ATA
*
57083877 TTTAATA
1 TATAATA
*
57083884 -ATTAAGA
1 TA-TAATA
57083891 TATAATA
1 TATAATA
57083898 TTATAATA
1 -TATAATA
57083906 TTATAATA
1 -TATAATA
57083914 TATA
1 TATA
57083918 TTTTAACTTG
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
7 23 0.48
8 21 0.44
9 4 0.08
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (7 bp):
TATAATA
Found at i:57083904 original size:8 final size:8
Alignment explanation
Indices: 57083851--57083914 Score: 64
Period size: 8 Copynumber: 8.4 Consensus size: 8
57083841 TATATTTACT
57083851 TATTATAA
1 TATTATAA
57083859 TA-TATAA
1 TATTATAA
*
57083866 TATAATATA
1 TATTATA-A
57083875 TATT-TAA
1 TATTATAA
*
57083882 TAAT-TAA
1 TATTATAA
*
57083889 GA-TATAA
1 TATTATAA
57083896 TATTATAA
1 TATTATAA
57083904 TATTATAA
1 TATTATAA
57083912 TAT
1 TAT
57083915 ATATTTTAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
6 1 0.02
7 19 0.40
8 23 0.49
9 4 0.09
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (8 bp):
TATTATAA
Found at i:57102440 original size:44 final size:44
Alignment explanation
Indices: 57102378--57102487 Score: 159
Period size: 44 Copynumber: 2.5 Consensus size: 44
57102368 CATAGTATTG
* * *
57102378 CAACATCGGTACAAAGTACCTGCTGA-ATATAAATGGCACATAGC
1 CAACATCGGTACATAGTACCTAC-GAGATATAAATGACACATAGC
57102422 CAACATCGGTACATAGTACCTACGAGATATAAATGACACATAGC
1 CAACATCGGTACATAGTACCTACGAGATATAAATGACACATAGC
* *
57102466 CAGCACCGGTACATAGTACCTA
1 CAACATCGGTACATAGTACCTA
57102488 TTACATATAA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
43 2 0.03
44 58 0.97
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (44 bp):
CAACATCGGTACATAGTACCTACGAGATATAAATGACACATAGC
Found at i:57103524 original size:17 final size:17
Alignment explanation
Indices: 57103488--57103520 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
57103478 TTTTTATGTT
*
57103488 TTATTTAACTTATTTTA
1 TTATTTAACTAATTTTA
57103505 TTATTTAAC-AATTTTA
1 TTATTTAACTAATTTTA
57103521 ATTAATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATTTAACTAATTTTA
Found at i:57109461 original size:27 final size:27
Alignment explanation
Indices: 57109414--57109466 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
57109404 ATTGTTATTC
*
57109414 TTGTGAATTAGTAACTAGCTTTATATG
1 TTGTGAATTAGTAACTAGCTTAATATG
* *
57109441 TTGTGAATTGGTATAGT-GCTTAATAT
1 TTGTGAATTAGTA-ACTAGCTTAATAT
57109467 ATGGTAAGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (27 bp):
TTGTGAATTAGTAACTAGCTTAATATG
Found at i:57117210 original size:28 final size:28
Alignment explanation
Indices: 57117147--57117204 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
57117137 AATTAAACTG
* *
57117147 ATAAAATGAATTAAACTAAAATGACCTA
1 ATAAAATTAATTAAACTAAAATAACCTA
* *
57117175 ATAAAATTAATTAACCTAAAATAACGTA
1 ATAAAATTAATTAAACTAAAATAACCTA
57117203 AT
1 AT
57117205 GGAATTTCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.28
Consensus pattern (28 bp):
ATAAAATTAATTAAACTAAAATAACCTA
Found at i:57118228 original size:19 final size:19
Alignment explanation
Indices: 57118206--57118254 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
57118196 CAAAGTTACT
57118206 AAAAATAACAAATATAA-AA
1 AAAAATAACAAAT-TAATAA
*
57118225 AAAAATAA-AAATTAATTA
1 AAAAATAACAAATTAATAA
*
57118243 AAAATTAACAAA
1 AAAAATAACAAA
57118255 CAATCGAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 3 0.12
18 12 0.46
19 11 0.42
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (19 bp):
AAAAATAACAAATTAATAA
Found at i:57118245 original size:17 final size:19
Alignment explanation
Indices: 57118205--57118254 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
57118195 ACAAAGTTAC
57118205 TAAAAATAACAAATATAAA
1 TAAAAATAACAAATATAAA
* *
57118224 AAAAAATAA-AAAT-TAAT
1 TAAAAATAACAAATATAAA
57118241 TAAAAATTAACAAA
1 TAAAAA-TAACAAA
57118255 CAATCGAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 8 0.31
18 7 0.27
19 11 0.42
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (19 bp):
TAAAAATAACAAATATAAA
Found at i:57119165 original size:30 final size:30
Alignment explanation
Indices: 57119131--57119191 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
57119121 AAAGAGACTG
*
57119131 CTCATTCATAATTAAATTGGAGTGTAGTTT
1 CTCATTCATAATTAAATTGGAGTGCAGTTT
57119161 CTCATTCATAATTAAATTGGAGTGCAGTTT
1 CTCATTCATAATTAAATTGGAGTGCAGTTT
57119191 C
1 C
57119192 GAAACAATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (30 bp):
CTCATTCATAATTAAATTGGAGTGCAGTTT
Found at i:57120446 original size:26 final size:27
Alignment explanation
Indices: 57120400--57120466 Score: 84
Period size: 26 Copynumber: 2.5 Consensus size: 27
57120390 GCCTCGCAAG
* *
57120400 TGAGGGTTTGCCAAGATTTAGGTGAAC
1 TGAGGGTTCGCCAAGATTTAGGCGAAC
57120427 T-AGGGGTTCGCCAAGA-TTAGGCGAAC
1 TGA-GGGTTCGCCAAGATTTAGGCGAAC
*
57120453 TGAGGGTTCACCAA
1 TGAGGGTTCGCCAA
57120467 AAGAGTATCT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 21 0.60
27 14 0.40
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (27 bp):
TGAGGGTTCGCCAAGATTTAGGCGAAC
Found at i:57129359 original size:17 final size:17
Alignment explanation
Indices: 57129339--57129377 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
57129329 CTCTTTTAGC
*
57129339 ATATTGTAATTG-ACGAA
1 ATATTATAATTGAAC-AA
57129356 ATATTATAATTGAACAA
1 ATATTATAATTGAACAA
57129373 ATATT
1 ATATT
57129378 TATATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.38
Consensus pattern (17 bp):
ATATTATAATTGAACAA
Found at i:57142098 original size:17 final size:18
Alignment explanation
Indices: 57142064--57142109 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
57142054 CCGTTATGTC
57142064 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
57142079 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
57142096 CGCGACCGCGACCG
1 CGCGACCGCGACCG
57142110 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:57151309 original size:75 final size:75
Alignment explanation
Indices: 57151223--57151394 Score: 220
Period size: 75 Copynumber: 2.3 Consensus size: 75
57151213 GCGCCCAGCA
* * * * *
57151223 CTAGTCAGATAAACCGACGAAATAATTAGTGAGCCTAACTTTGGTTGGATAAACCAACAATATTT
1 CTAGTCGGATAAATCGACGAAATAATTAGTGAGCCCAACTCTAGTTGGATAAACCAACAATATTT
*
57151288 GCACCCAATG
66 GCACCCAACG
* * * * *
57151298 CTAGTCGGATAAATCAATGAAATAATTAGTGATCCCAGCTCTAGTTGGATAAACCAACGATATTT
1 CTAGTCGGATAAATCGACGAAATAATTAGTGAGCCCAACTCTAGTTGGATAAACCAACAATATTT
* *
57151363 GCACCTAGCG
66 GCACCCAACG
57151373 CTAGTCGGATAAATCGAC-AAAT
1 CTAGTCGGATAAATCGACGAAAT
57151395 GTGTGCCCAA
Statistics
Matches: 82, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
74 4 0.05
75 78 0.95
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.26
Consensus pattern (75 bp):
CTAGTCGGATAAATCGACGAAATAATTAGTGAGCCCAACTCTAGTTGGATAAACCAACAATATTT
GCACCCAACG
Found at i:57151384 original size:35 final size:35
Alignment explanation
Indices: 57151269--57151385 Score: 101
Period size: 35 Copynumber: 3.2 Consensus size: 35
57151259 AACTTTGGTT
* **
57151269 GGATAAACCAACAATATTTGCACCCAATGCTAGTC
1 GGATAAACCAACGATATTTGCACCCAGCGCTAGTC
* * * *
57151304 GGATAAATCAATGAAATAATTAGTG-ATCCCAGCTCTAGTT
1 GGATAAACCAACG--AT-ATT--TGCA-CCCAGCGCTAGTC
*
57151344 GGATAAACCAACGATATTTGCACCTAGCGCTAGTC
1 GGATAAACCAACGATATTTGCACCCAGCGCTAGTC
57151379 GGATAAA
1 GGATAAA
57151386 TCGACAAATG
Statistics
Matches: 63, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
35 29 0.46
36 1 0.02
37 5 0.08
38 5 0.08
39 1 0.02
40 22 0.35
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.25
Consensus pattern (35 bp):
GGATAAACCAACGATATTTGCACCCAGCGCTAGTC
Found at i:57153896 original size:25 final size:26
Alignment explanation
Indices: 57153868--57153927 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 26
57153858 CATAGCTCTT
57153868 ATGAGCTTCCCA-ATACTCAGCTCGC
1 ATGAGCTTCCCAGATACTCAGCTCGC
* *
57153893 ATGAGCTT-CTAGATACTCTGCTCGC
1 ATGAGCTTCCCAGATACTCAGCTCGC
57153918 ATGAGCTTCC
1 ATGAGCTTCC
57153928 TGTTATTCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 2 0.06
25 28 0.90
26 1 0.03
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.28
Consensus pattern (26 bp):
ATGAGCTTCCCAGATACTCAGCTCGC
Found at i:57155104 original size:21 final size:21
Alignment explanation
Indices: 57155078--57155117 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
57155068 ATTATATGAA
*
57155078 ATGTCTAATTAGTTGATCTGT
1 ATGTCTAATTAATTGATCTGT
*
57155099 ATGTCTGATTAATTGATCT
1 ATGTCTAATTAATTGATCT
57155118 ATAAACTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.10, G:0.17, T:0.47
Consensus pattern (21 bp):
ATGTCTAATTAATTGATCTGT
Found at i:57170565 original size:45 final size:45
Alignment explanation
Indices: 57170516--57170620 Score: 176
Period size: 45 Copynumber: 2.3 Consensus size: 45
57170506 TTCCATGACG
57170516 TCTTTCAGCCATGGTCTTAGTCC-TATTTATCATGATGCCATGGCT
1 TCTTTCAGCCATGGTCTTAG-CCTTATTTATCATGATGCCATGGCT
*
57170561 TCTTTCAGCCATGGTCTTAGCCTTGTTTATCATGATGCCATGGCT
1 TCTTTCAGCCATGGTCTTAGCCTTATTTATCATGATGCCATGGCT
*
57170606 TTTTTCAGCCATGGT
1 TCTTTCAGCCATGGT
57170621 TTTACTCATT
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
44 2 0.04
45 55 0.96
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.41
Consensus pattern (45 bp):
TCTTTCAGCCATGGTCTTAGCCTTATTTATCATGATGCCATGGCT
Found at i:57170637 original size:45 final size:43
Alignment explanation
Indices: 57170516--57170639 Score: 151
Period size: 45 Copynumber: 2.7 Consensus size: 43
57170506 TTCCATGACG
*
57170516 TCTTTCAGCCATGGTCTTAGTCCTATTTATCATGATGCCATGGCT
1 TCTTTCAGCCATGGTCTTACT-CT-TTTATCATGATGCCATGGCT
57170561 TCTTTCAGCCATGGTCTTAGC-CTTGTTTATCATGATGCCATGGCT
1 TCTTTCAGCCATGGTCTTA-CTC-T-TTTATCATGATGCCATGGCT
* *
57170606 TTTTTCAGCCATGGTTTTACTCATTTATATCATG
1 TCTTTCAGCCATGGTCTTACTC-TTT-TATCATG
57170640 GCGGTATAGC
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
44 4 0.06
45 66 0.94
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.43
Consensus pattern (43 bp):
TCTTTCAGCCATGGTCTTACTCTTTTATCATGATGCCATGGCT
Found at i:57174026 original size:39 final size:38
Alignment explanation
Indices: 57173977--57174073 Score: 131
Period size: 39 Copynumber: 2.5 Consensus size: 38
57173967 TAAATATAAT
** * *
57173977 AATTATAATTACCGTAATTATAATAATGTTTGATCGAAA
1 AATTATAATTACAATAATTATAATAATATTCGATCG-AA
* *
57174016 AATTACAATTACAATAATTATAATAATATTCGATCGTA
1 AATTATAATTACAATAATTATAATAATATTCGATCGAA
57174054 AATTATAATTACAATAATTA
1 AATTATAATTACAATAATTA
57174074 CAACAAGGAT
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 20 0.39
39 31 0.61
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.38
Consensus pattern (38 bp):
AATTATAATTACAATAATTATAATAATATTCGATCGAA
Found at i:57175196 original size:90 final size:90
Alignment explanation
Indices: 57175094--57175274 Score: 317
Period size: 90 Copynumber: 2.0 Consensus size: 90
57175084 GTAGAAAAGA
* * *
57175094 AACTGAAATAATAATGGCAATGCCTTATATTAAGAAACGGGGTAAAACAAGTATGTTATTACAAT
1 AACTGAAATAATAATCGCAATACCTTATATTAAGAAACGAGGTAAAACAAGTATGTTATTACAAT
57175159 CATCTCATGATTGGTCTTTGGGCAT
66 CATCTCATGATTGGTCTTTGGGCAT
*
57175184 AACTGAAATAATAATCGCAATACCTTATATTAAGAAATGAGGTAAAACAAGTATGTTATTACAAT
1 AACTGAAATAATAATCGCAATACCTTATATTAAGAAACGAGGTAAAACAAGTATGTTATTACAAT
*
57175249 CATCTTATGATTGGTCTTTGGGCAT
66 CATCTCATGATTGGTCTTTGGGCAT
57175274 A
1 A
57175275 CTCCAATAGT
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 86 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (90 bp):
AACTGAAATAATAATCGCAATACCTTATATTAAGAAACGAGGTAAAACAAGTATGTTATTACAAT
CATCTCATGATTGGTCTTTGGGCAT
Found at i:57178801 original size:21 final size:21
Alignment explanation
Indices: 57178776--57178819 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
57178766 ATCTTCGAGG
57178776 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
57178797 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
57178818 AT
1 AT
57178820 GTAATCTTAG
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:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:57178825 original size:19 final size:19
Alignment explanation
Indices: 57178775--57178830 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
57178765 AATCTTCGAG
57178775 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
57178794 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
57178815 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
57178831 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 15 0.44
21 19 0.56
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:57178837 original size:22 final size:23
Alignment explanation
Indices: 57178788--57178853 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
57178778 ATGCAATCTT
*
57178788 AGATATGATATATGCAATCTT---
1 AGATATGAT-TATGTAATCTTAGA
57178809 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
57178831 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
57178854 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 10 0.26
21 8 0.21
22 8 0.21
23 13 0.33
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:57178863 original size:22 final size:23
Alignment explanation
Indices: 57178819--57178863 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
57178809 AGATATGATA
*
57178819 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
57178842 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
57178864 GTAGATACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:57179053 original size:19 final size:21
Alignment explanation
Indices: 57179029--57179067 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
57179019 TGTTTTCTTT
*
57179029 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
57179048 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
57179068 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:57179290 original size:9 final size:9
Alignment explanation
Indices: 57179276--57179317 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
57179266 TTTTTAGTCT
57179276 ATTTTATTA
1 ATTTTATTA
57179285 ATTTTATTA
1 ATTTTATTA
*
57179294 ATTTTGTT-
1 ATTTTATTA
57179302 A--TTATTA
1 ATTTTATTA
57179309 ATTTTATTA
1 ATTTTATTA
57179318 TTATATTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
6 4 0.14
7 1 0.04
8 1 0.04
9 22 0.79
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (9 bp):
ATTTTATTA
Found at i:57179308 original size:15 final size:15
Alignment explanation
Indices: 57179288--57179341 Score: 63
Period size: 15 Copynumber: 3.4 Consensus size: 15
57179278 TTTATTAATT
57179288 TTATTAATTTTGTTA
1 TTATTAATTTTGTTA
*
57179303 TTATTAATTTTATTA
1 TTATTAATTTTGTTA
*
57179318 TTATATTATATATTGTTA
1 -T-TATTA-ATTTTGTTA
57179336 TTATTA
1 TTATTA
57179342 TACCTACATA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
15 14 0.42
16 6 0.18
17 6 0.18
18 7 0.21
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (15 bp):
TTATTAATTTTGTTA
Found at i:57179316 original size:33 final size:33
Alignment explanation
Indices: 57179276--57179341 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
57179266 TTTTTAGTCT
* *
57179276 ATTTTATTAATTTTATTA-ATTTTGTTATTATTA
1 ATTTTATT-ATTATATTATATATTGTTATTATTA
57179309 ATTTTATTATTATATTATATATTGTTATTATTA
1 ATTTTATTATTATATTATATATTGTTATTATTA
57179342 TACCTACATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 8 0.27
33 22 0.73
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (33 bp):
ATTTTATTATTATATTATATATTGTTATTATTA
Found at i:57179331 original size:24 final size:24
Alignment explanation
Indices: 57179275--57179331 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
57179265 GTTTTTAGTC
*
57179275 TATT-TTATTAATTTTATTAATTT
1 TATTATTATTAATTTTATTAATTA
*
57179298 TGTTATTATTAATTTTATT-ATTA
1 TATTATTATTAATTTTATTAATTA
57179321 TATTATATATT
1 TATTAT-TATT
57179332 GTTATTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 11 0.38
24 18 0.62
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TATTATTATTAATTTTATTAATTA
Found at i:57179589 original size:17 final size:16
Alignment explanation
Indices: 57179567--57179598 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
57179557 AATTTTTAGG
57179567 ATGTAATTATTATTTTT
1 ATGTAATTATT-TTTTT
57179584 ATGTAATTATTTTTT
1 ATGTAATTATTTTTT
57179599 AATTATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (16 bp):
ATGTAATTATTTTTTT
Found at i:57179680 original size:10 final size:10
Alignment explanation
Indices: 57179665--57179702 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
57179655 ATATTTTTTG
57179665 TATATTTATA
1 TATATTTATA
*
57179675 TATATTCATA
1 TATATTTATA
57179685 TATATTTAT-
1 TATATTTATA
*
57179694 TATTTTTAT
1 TATATTTAT
57179703 GTAGATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTATA
Found at i:57180135 original size:19 final size:20
Alignment explanation
Indices: 57180094--57180135 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
57180084 ATTTCCATGC
* *
57180094 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
57180114 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
57180133 CAT
1 CAT
57180136 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:57189533 original size:40 final size:39
Alignment explanation
Indices: 57189456--57189537 Score: 103
Period size: 40 Copynumber: 2.1 Consensus size: 39
57189446 CGCACCAGAA
* *
57189456 AGAAGCTCATAGAGCTAATACAACTGAAACACGCCAAAC
1 AGAAGCTCATAGAGCTAATACAACCGAAACACCCCAAAC
* *
57189495 AGAAGCTCATGAGAGCTGATCCAACCGCAAA-ACCCCAAAC
1 AGAAGCTCAT-AGAGCTAATACAACCG-AAACACCCCAAAC
57189535 AGA
1 AGA
57189538 GTATAACACG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
39 10 0.27
40 24 0.65
41 3 0.08
ACGTcount: A:0.44, C:0.28, G:0.17, T:0.11
Consensus pattern (39 bp):
AGAAGCTCATAGAGCTAATACAACCGAAACACCCCAAAC
Found at i:57190628 original size:17 final size:18
Alignment explanation
Indices: 57190596--57190629 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
57190586 TAAGGAAATC
57190596 CAATTATAATTCTTTAAT
1 CAATTATAATTCTTTAAT
*
57190614 CAATTATCA-TCTTTAA
1 CAATTATAATTCTTTAA
57190630 ATTAATAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (18 bp):
CAATTATAATTCTTTAAT
Found at i:57191442 original size:33 final size:33
Alignment explanation
Indices: 57191380--57191546 Score: 129
Period size: 33 Copynumber: 5.1 Consensus size: 33
57191370 GACTTACCTT
* * * **
57191380 TGTTCTATGTTTATTGTTCTAGCGGACTTTCTC
1 TGTTCTATGTTTATTGTCCCAACAAACTTTCTC
* * *
57191413 TGGTCTGTGTTTATTGTCCCAACAAACTTTATC
1 TGTTCTATGTTTATTGTCCCAACAAACTTTCTC
* **
57191446 TGTTCTATGTTTAGTGTCCCAACCGAC-TTCTC
1 TGTTCTATGTTTATTGTCCCAACAAACTTTCTC
* * * * * * *
57191478 TGTTTTGTGTTTACTATTCCAACAAACTATCTT
1 TGTTCTATGTTTATTGTCCCAACAAACTTTCTC
* ** *
57191511 TGTTTTATGTTTATTGTCTTAACGAACTTTCTC
1 TGTTCTATGTTTATTGTCCCAACAAACTTTCTC
57191544 TGT
1 TGT
57191547 GGATGCTATG
Statistics
Matches: 101, Mismatches: 32, Indels: 2
0.75 0.24 0.01
Matches are distributed among these distances:
32 24 0.24
33 77 0.76
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.48
Consensus pattern (33 bp):
TGTTCTATGTTTATTGTCCCAACAAACTTTCTC
Found at i:57191500 original size:65 final size:66
Alignment explanation
Indices: 57191380--57191545 Score: 165
Period size: 65 Copynumber: 2.5 Consensus size: 66
57191370 GACTTACCTT
* * * * * * *
57191380 TGTTCTATGTTTATTGTTCTAGCGGACTTTCTCTGGTCTGTGTTTATTGTCCCAACAAACTTTAT
1 TGTTCTATGTTTATTGTCCCAACCGACTTTCTCTGGTCTGTGTTTACTATCCCAACAAACTATAT
57191445 C
66 C
* * * * *
57191446 TGTTCTATGTTTAGTGTCCCAACCGAC-TTCTCTGTTTTGTGTTTACTATTCCAACAAACTATCT
1 TGTTCTATGTTTATTGTCCCAACCGACTTTCTCTGGTCTGTGTTTACTATCCCAACAAACTATAT
*
57191510 T
66 C
* **
57191511 TGTTTTATGTTTATTGTCTTAA-CGAACTTTCTCTG
1 TGTTCTATGTTTATTGTCCCAACCG-ACTTTCTCTG
57191546 TGGATGCTAT
Statistics
Matches: 81, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
64 2 0.02
65 50 0.62
66 29 0.36
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.48
Consensus pattern (66 bp):
TGTTCTATGTTTATTGTCCCAACCGACTTTCTCTGGTCTGTGTTTACTATCCCAACAAACTATAT
C
Found at i:57196793 original size:15 final size:15
Alignment explanation
Indices: 57196773--57196850 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
57196763 TTTATGGAAA
57196773 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
57196788 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
57196802 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
57196818 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
57196832 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
57196848 ATC
1 ATC
57196851 GAGATATTGG
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 8 0.17
15 31 0.66
16 8 0.17
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:57196801 original size:30 final size:30
Alignment explanation
Indices: 57196767--57196860 Score: 161
Period size: 30 Copynumber: 3.1 Consensus size: 30
57196757 TCCATATTTA
*
57196767 TGGAAAATCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
57196797 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
57196827 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
57196858 TGG
1 TGG
57196861 CATAATAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
30 53 0.87
31 8 0.13
ACGTcount: A:0.41, C:0.06, G:0.26, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:57197529 original size:30 final size:30
Alignment explanation
Indices: 57197485--57197577 Score: 159
Period size: 30 Copynumber: 3.1 Consensus size: 30
57197475 TTTATTATGT
*
57197485 CAATATCTCGATACCCATATCTTTGACTTTC
1 CAATAT-TTGATACCCATATCTTTGACTTTC
57197516 CAATATTTGATACCCATATCTTTGACTTTC
1 CAATATTTGATACCCATATCTTTGACTTTC
*
57197546 CAATATTTGATACCCATATCTTTGATTTTC
1 CAATATTTGATACCCATATCTTTGACTTTC
57197576 CA
1 CA
57197578 TAAATATGGA
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
30 54 0.90
31 6 0.10
ACGTcount: A:0.27, C:0.25, G:0.06, T:0.42
Consensus pattern (30 bp):
CAATATTTGATACCCATATCTTTGACTTTC
Found at i:57197539 original size:15 final size:15
Alignment explanation
Indices: 57197494--57197571 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
57197484 TCAATATCTC
57197494 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
57197509 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
57197524 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
57197539 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
57197554 GATACCCATATCTTT
1 GATACCCATATCTTT
57197569 GAT
1 GAT
57197572 TTTCCATAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 8 0.17
15 31 0.66
16 8 0.17
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:57199392 original size:137 final size:138
Alignment explanation
Indices: 57199195--57199472 Score: 504
Period size: 139 Copynumber: 2.0 Consensus size: 138
57199185 GTTTCAAATT
57199195 CACTCATTCACATAACACTATAACAATTTATTATGTAGGCACGGTACAAAACTCCATCACTCCAA
1 CACTCATTCACATAACACTATAACAATTTATTATGTAGGCACGGTACAAAACTCCATCACTCCAA
*
57199260 TTA-CTCTTTTGGAACTCATCACATTTCAATCACACATTCATATTTGCTTGCAATTTCTCATATC
66 TTATATCTTTTGGAACTCATCACATTTCAATCACACATTCATATTTGCTTGCAATTTCTCATATC
57199324 CCGTTGAA
131 CCGTTGAA
*
57199332 CACTCATTCACATAACACTATACCAATTTATTATGTAGGCACGGTACAAAACTCCATCACTCCAA
1 CACTCATTCACATAACACTATAACAATTTATTATGTAGGCACGGTACAAAACTCCATCACTCCAA
* *
57199397 TTATTATTTTTTTGAACTCATCACATTTCAATCACACATTCATATTTGCTTGCAATTTCTCATAT
66 TTA-TATCTTTTGGAACTCATCACATTTCAATCACACATTCATATTTGCTTGCAATTTCTCATAT
57199462 CCCGTTGAA
130 CCCGTTGAA
57199471 CA
1 CA
57199473 TGTTGGTATA
Statistics
Matches: 135, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
137 67 0.50
139 68 0.50
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.35
Consensus pattern (138 bp):
CACTCATTCACATAACACTATAACAATTTATTATGTAGGCACGGTACAAAACTCCATCACTCCAA
TTATATCTTTTGGAACTCATCACATTTCAATCACACATTCATATTTGCTTGCAATTTCTCATATC
CCGTTGAA
Found at i:57199754 original size:14 final size:14
Alignment explanation
Indices: 57199735--57199781 Score: 80
Period size: 14 Copynumber: 3.5 Consensus size: 14
57199725 GCCGGTTCGA
57199735 TACACATAGTAGCC
1 TACACATAGTAGCC
57199749 TACACATAGTAGCC
1 TACACATAGTAGCC
57199763 TACACATAGTA--C
1 TACACATAGTAGCC
57199775 TACACAT
1 TACACAT
57199782 GTGACCATCA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.24
14 25 0.76
ACGTcount: A:0.38, C:0.28, G:0.11, T:0.23
Consensus pattern (14 bp):
TACACATAGTAGCC
Found at i:57202545 original size:23 final size:22
Alignment explanation
Indices: 57202502--57202559 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
57202492 AAAGGGTATC
* *
57202502 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
57202523 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
57202546 TGCATATCATATCT
1 TACAAATCATATCT
57202560 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:57204213 original size:15 final size:15
Alignment explanation
Indices: 57204195--57204252 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
57204185 TCAATTTAAA
57204195 TTTATAATAATTTAT
1 TTTATAATAATTTAT
57204210 TTTA-AA-AATATT-T
1 TTTATAATAAT-TTAT
* * *
57204223 TTGATAATTATTAAT
1 TTTATAATAATTTAT
57204238 TTTATAATAGATTTA
1 TTTATAATA-ATTTA
57204253 ATCGATTAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 9
0.68 0.13 0.19
Matches are distributed among these distances:
13 7 0.22
14 7 0.22
15 14 0.44
16 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TTTATAATAATTTAT
Found at i:57215833 original size:30 final size:30
Alignment explanation
Indices: 57215778--57215834 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
57215768 AATGAGCATC
*
57215778 ACACATGGCCTAGACACACGGGTGTGTGTG
1 ACACATGGCCTAGACACACGAGTGTGTGTG
* * *
57215808 ACACATGGCCTGGAGACATGAGTGTGT
1 ACACATGGCCTAGACACACGAGTGTGT
57215835 TTTCAGCCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.25, C:0.21, G:0.33, T:0.21
Consensus pattern (30 bp):
ACACATGGCCTAGACACACGAGTGTGTGTG
Found at i:57216874 original size:6 final size:6
Alignment explanation
Indices: 57216860--57216913 Score: 56
Period size: 6 Copynumber: 8.7 Consensus size: 6
57216850 TCTTATTCTA
* *
57216860 AAAAGAG AAAAAG AAAAAG AAAGAA- AAAAAT AAAAAG AAAGAG AAAAGAG
1 AAAA-AG AAAAAG AAAAAG AAA-AAG AAAAAG AAAAAG AAAAAG AAAA-AG
57216910 AAAA
1 AAAA
57216914 TTAAAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
5 2 0.05
6 27 0.66
7 12 0.29
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:57216888 original size:18 final size:18
Alignment explanation
Indices: 57216861--57216913 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
57216851 CTTATTCTAA
*
57216861 AAAGAGAAAAAGAAAAAG
1 AAAGAAAAAAAGAAAAAG
*
57216879 AAAGAAAAAAATAAAAAG
1 AAAGAAAAAAAGAAAAAG
*
57216897 AAAGAGAAAAGAGAAAA
1 AAAGA-AAAAAAGAAAA
57216914 TTAAAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 21 0.70
19 9 0.30
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (18 bp):
AAAGAAAAAAAGAAAAAG
Found at i:57216894 original size:24 final size:25
Alignment explanation
Indices: 57216867--57216920 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
57216857 CTAAAAAGAG
57216867 AAAAAGAAAAAG-AAAGAAAAAAAT
1 AAAAAGAAAAAGAAAAGAAAAAAAT
* * *
57216891 AAAAAGAAAGAGAAAAGAGAAAATT
1 AAAAAGAAAAAGAAAAGAAAAAAAT
57216916 AAAAA
1 AAAAA
57216921 AAAGTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 11 0.42
25 15 0.58
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.06
Consensus pattern (25 bp):
AAAAAGAAAAAGAAAAGAAAAAAAT
Done.