Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 154 of 335
Found at i:45231903 original size:14 final size:14
Alignment explanation
Indices: 45231880--45231909 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
45231870 TTGAAAATAT
45231880 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
45231894 GTTGATTTGGATTG
1 GTTGAATTGGATTG
45231908 GT
1 GT
45231910 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:45238526 original size:40 final size:40
Alignment explanation
Indices: 45238481--45238610 Score: 147
Period size: 40 Copynumber: 3.2 Consensus size: 40
45238471 CGGAATACAA
45238481 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** * *
45238521 CCGGATAGAATGACTCGCACGAATGCCTTTGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
45238561 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*
45238601 CCAGATATAA
1 CCGGATATAA
45238611 TTTCCAGCAT
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
39 3 0.04
40 70 0.96
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:45240658 original size:27 final size:27
Alignment explanation
Indices: 45240628--45240719 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
45240618 ATTACCAAAG
* * * *
45240628 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
45240655 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
45240682 TACCCTC-AGTTTACAAAATTACCATTT
1 TACCCTCGA-TTTACAAAATTACCATTT
45240709 TACCCTCGATT
1 TACCCTCGATT
45240720 GTGAAATTAC
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.02
27 57 0.97
28 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:45240762 original size:27 final size:27
Alignment explanation
Indices: 45240723--45240873 Score: 114
Period size: 27 Copynumber: 5.7 Consensus size: 27
45240713 CTCGATTGTG
* *
45240723 AAATTACTAAAATACTCCT-GTAGGATA
1 AAATTACCAAAATACCCCTAGTAGG-TA
* **
45240750 GAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTAGGTA
**
45240777 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTAGGTA
* * * * ** *
45240804 AAATTATCGAAATACCACTGGTTTGTG
1 AAATTACCAAAATACCCCTAGTAGGTA
* *
45240831 AAATTACCGAAATA-CCCT--T-TGTA
1 AAATTACCAAAATACCCCTAGTAGGTA
45240854 AAATTACCAAAATACCCCTA
1 AAATTACCAAAATACCCCTA
45240874 ATTTATAAAA
Statistics
Matches: 106, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
23 16 0.15
24 5 0.05
26 3 0.03
27 79 0.75
28 3 0.03
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTAGGTA
Found at i:45240790 original size:54 final size:51
Alignment explanation
Indices: 45240718--45240898 Score: 177
Period size: 54 Copynumber: 3.5 Consensus size: 51
45240708 TTACCCTCGA
* * * *
45240718 TTGTGAAATTACTAAAATACTCCTGTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATAC-CCTGT-TG-TAAAATTACCAAAATACCCCTAGT
* * * *
45240772 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCGAAATACCACTGGT
1 TTGTAAAATTACCAAAATA-CCCT-G-TTGTAAAATTACCAAAATACCCCTAGT
* * *
45240826 TTGTGAAATTACCGAAATACCCT-TTGTAAAATTACCAAAATACCCCTAAT
1 TTGTAAAATTACCAAAATACCCTGTTGTAAAATTACCAAAATACCCCTAGT
*
45240876 TTATAAAATTA-CAGAAATACCCT
1 TTGTAAAATTACCA-AAATACCCT
45240899 TGACTTTTTA
Statistics
Matches: 105, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
49 1 0.01
50 40 0.38
53 4 0.04
54 56 0.53
55 3 0.03
56 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.30
Consensus pattern (51 bp):
TTGTAAAATTACCAAAATACCCTGTTGTAAAATTACCAAAATACCCCTAGT
Found at i:45240882 original size:27 final size:27
Alignment explanation
Indices: 45240751--45240897 Score: 178
Period size: 27 Copynumber: 5.6 Consensus size: 27
45240741 TGTAGGATAG
45240751 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
45240778 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * * *
45240805 AATTATCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
45240832 AATTACCGAAATA-CCC---TTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
45240855 AATTACCAAAATACCCCTAATTTATAA
1 AATTACCAAAATACCCCTAGTTTGTAA
45240882 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
45240898 TTGACTTTTT
Statistics
Matches: 105, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.17
24 3 0.03
26 4 0.04
27 80 0.76
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:45240920 original size:29 final size:28
Alignment explanation
Indices: 45240875--45240956 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 28
45240865 ATACCCCTAA
*
45240875 TTTATAAAATTACAGAAATACCCTTGACTT
1 TTTA-AAAATTATAGAAATACCCTTG-CTT
* *
45240905 TTTAAAAATTATAGAAATACCATTGGTT
1 TTTAAAAATTATAGAAATACCCTTGCTT
*
45240933 TAT-AAAATTACT-GAAATACCCTTG
1 TTTAAAAATTA-TAGAAATACCCTTG
45240957 GTTTGTAGAT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
27 18 0.39
28 5 0.11
29 19 0.41
30 4 0.09
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (28 bp):
TTTAAAAATTATAGAAATACCCTTGCTT
Found at i:45240948 original size:27 final size:27
Alignment explanation
Indices: 45240759--45240960 Score: 121
Period size: 27 Copynumber: 7.6 Consensus size: 27
45240749 AGAATTACCA
* * * **
45240759 AAATACCCCTAGTTTGTAAAATTACCA
1 AAATACCCTTGGTTTATAAAATTACTG
* * *
45240786 AAATACCCCTAGTTTGTAAAATTA-TCG
1 AAATACCCTTGGTTTATAAAATTACT-G
* * *
45240813 AAATACCAC-TGGTTTGTGAAATTACCG
1 AAATACC-CTTGGTTTATAAAATTACTG
* **
45240840 AAATACCC----TTTGTAAAATTACCA
1 AAATACCCTTGGTTTATAAAATTACTG
* ** *
45240863 AAATACCCCTAATTTATAAAATTACAG
1 AAATACCCTTGGTTTATAAAATTACTG
* *
45240890 AAATACCCTTGACTTTTTAAAAATTA-TAG
1 AAATACCCTTG-GTTTAT-AAAATTACT-G
*
45240919 AAATACCATTGGTTTATAAAATTACTG
1 AAATACCCTTGGTTTATAAAATTACTG
45240946 AAATACCCTTGGTTT
1 AAATACCCTTGGTTT
45240961 GTAGATTTAC
Statistics
Matches: 145, Mismatches: 19, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
23 21 0.14
26 1 0.01
27 95 0.66
28 10 0.07
29 18 0.12
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATACCCTTGGTTTATAAAATTACTG
Found at i:45240950 original size:106 final size:104
Alignment explanation
Indices: 45240751--45240955 Score: 286
Period size: 106 Copynumber: 2.0 Consensus size: 104
45240741 TGTAGGATAG
* * * *
45240751 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCGAAA
1 AATTACCAAAATACCCCTAATTTATAAAATTACCAAAATACCCCTACTTTGTAAAATTATAGAAA
* *
45240816 TACCACTGGTTTGTGAAATTACCGAAATACCCTTTGTAA
66 TACCACTGGTTTATAAAATTACCGAAATACCCTTTGTAA
* *
45240855 AATTACCAAAATACCCCTAATTTATAAAATTA-CAGAAATACCCTTGACTTTTTAAAAATTATAG
1 AATTACCAAAATACCCCTAATTTATAAAATTACCA-AAATACCCCT-ACTTTGT-AAAATTATAG
* *
45240919 AAATACCATTGGTTTATAAAATTACTGAAATACCCTT
63 AAATACCACTGGTTTATAAAATTACCGAAATACCCTT
45240956 GGTTTGTAGA
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
103 2 0.02
104 39 0.44
105 5 0.06
106 42 0.48
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (104 bp):
AATTACCAAAATACCCCTAATTTATAAAATTACCAAAATACCCCTACTTTGTAAAATTATAGAAA
TACCACTGGTTTATAAAATTACCGAAATACCCTTTGTAA
Found at i:45241044 original size:27 final size:27
Alignment explanation
Indices: 45241001--45241074 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
45240991 AAATGACTAA
*
45241001 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
45241028 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
45241055 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
45241075 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:45241078 original size:27 final size:27
Alignment explanation
Indices: 45241014--45241078 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
45241004 ACCCCTAATA
*
45241014 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
45241041 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
45241068 GGTAAAATGAC
1 GGTAAAATGAC
45241079 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:45241926 original size:25 final size:24
Alignment explanation
Indices: 45241888--45241957 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
45241878 AGGAAGTGCT
*
45241888 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
* *
45241912 GAAAATGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
45241937 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
45241958 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 1 0.03
25 39 0.98
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:45242164 original size:42 final size:42
Alignment explanation
Indices: 45242105--45242196 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
45242095 TAGTCTTCCC
* *
45242105 AAATGGGCTTGCATACATTCATTGATATT-ACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTCA-ATGTGATATTG
45242147 AAATGGGCTTGCATACATCCATTGACATTCAATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTCAATGTGATATTG
45242189 AAATGGGC
1 AAATGGGC
45242197 CTAAGGGCCA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
42 46 0.98
43 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTCAATGTGATATTG
Found at i:45242255 original size:31 final size:31
Alignment explanation
Indices: 45242220--45242329 Score: 202
Period size: 31 Copynumber: 3.5 Consensus size: 31
45242210 CGTTTACAGT
45242220 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
45242251 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
45242282 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
45242313 AAAGGCTTCGGTCCAGT
1 AAAGGCTTCGGCCCAGT
45242330 ACATGTCAAG
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 77 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:45249236 original size:24 final size:24
Alignment explanation
Indices: 45249203--45249273 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
45249193 TTACTTGGGT
* *
45249203 AATTTGCCATCAATTCATCATTTG
1 AATTTACCATCAATTCATCCTTTG
*
45249227 AATTTACCATCAATTCATCCTTTT
1 AATTTACCATCAATTCATCCTTTG
* *
45249251 CATTTACCA-AAATTCATCCTTTG
1 AATTTACCATCAATTCATCCTTTG
45249274 CCACATAACG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
23 12 0.29
24 29 0.71
ACGTcount: A:0.30, C:0.24, G:0.04, T:0.42
Consensus pattern (24 bp):
AATTTACCATCAATTCATCCTTTG
Found at i:45258486 original size:18 final size:18
Alignment explanation
Indices: 45258448--45258487 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
45258438 CACGTACAGC
* *
45258448 GGTGGTCCGTAGTACGGT
1 GGTGGTCCATAGTACGAT
*
45258466 GGTGGTCCATAGTGCGAT
1 GGTGGTCCATAGTACGAT
45258484 GGTG
1 GGTG
45258488 CTTGTAACAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.12, C:0.15, G:0.45, T:0.28
Consensus pattern (18 bp):
GGTGGTCCATAGTACGAT
Found at i:45260487 original size:11 final size:11
Alignment explanation
Indices: 45260471--45260514 Score: 79
Period size: 11 Copynumber: 4.0 Consensus size: 11
45260461 ACCCTAGTTT
45260471 TTTTCTTTCTC
1 TTTTCTTTCTC
45260482 TTTTCTTTCTC
1 TTTTCTTTCTC
45260493 TTTTCTTTCTC
1 TTTTCTTTCTC
*
45260504 CTTTCTTTCTC
1 TTTTCTTTCTC
45260515 CCTTTTCGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTCTTTCTC
Found at i:45260497 original size:7 final size:6
Alignment explanation
Indices: 45260474--45260514 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
45260464 CTAGTTTTTT
*
45260474 TCTTTC TCTTT- TCTTTC TCTTT- TCTTTC TCCTT- TCTTTC TC
1 TCTTTC TCTTTC TCTTTC TCTTTC TCTTTC TCTTTC TCTTTC TC
45260515 CCTTTTCGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
5 14 0.47
6 16 0.53
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TCTTTC
Found at i:45260544 original size:18 final size:16
Alignment explanation
Indices: 45260518--45260571 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
45260508 CTTTCTCCCT
*
45260518 TTTCGTTTAAGCTTTCTG
1 TTTCTTTTAAGC-TT-TG
*
45260536 TTTCTTTTATGCTTTG
1 TTTCTTTTAAGCTTTG
*
45260552 TTTCTTTTTAACCTTTG
1 TTTC-TTTTAAGCTTTG
45260569 TTT
1 TTT
45260572 TATTTACTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 6 0.19
17 15 0.48
18 10 0.32
ACGTcount: A:0.09, C:0.15, G:0.11, T:0.65
Consensus pattern (16 bp):
TTTCTTTTAAGCTTTG
Found at i:45260854 original size:18 final size:18
Alignment explanation
Indices: 45260828--45260892 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 18
45260818 ATTACAAGTG
*
45260828 TATTTTCATGCGCATGTT
1 TATTATCATGCGCATGTT
* * * *
45260846 TATTATCATTACCACAAGTG
1 TATTATCA-T-GCGCATGTT
*
45260866 TATTTTCATGCGCATGTT
1 TATTATCATGCGCATGTT
45260884 TATTATCAT
1 TATTATCAT
45260893 TACCATACAC
Statistics
Matches: 34, Mismatches: 11, Indels: 4
0.69 0.22 0.08
Matches are distributed among these distances:
18 20 0.59
19 2 0.06
20 12 0.35
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.46
Consensus pattern (18 bp):
TATTATCATGCGCATGTT
Found at i:45260866 original size:38 final size:38
Alignment explanation
Indices: 45260821--45260897 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
45260811 CAAATATATT
45260821 ACAAGTGTATTTTCATGCGCATGTTTATTATCATTACC
1 ACAAGTGTATTTTCATGCGCATGTTTATTATCATTACC
45260859 ACAAGTGTATTTTCATGCGCATGTTTATTATCATTACC
1 ACAAGTGTATTTTCATGCGCATGTTTATTATCATTACC
45260897 A
1 A
45260898 TACACCTATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (38 bp):
ACAAGTGTATTTTCATGCGCATGTTTATTATCATTACC
Found at i:45267112 original size:23 final size:23
Alignment explanation
Indices: 45267086--45267131 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
45267076 GTACACGAAT
45267086 TCCAACCAAATACACCAGAATAA
1 TCCAACCAAATACACCAGAATAA
*
45267109 TCCAACCAAATGCACCAGAATAA
1 TCCAACCAAATACACCAGAATAA
45267132 ATAATCCTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.50, C:0.30, G:0.07, T:0.13
Consensus pattern (23 bp):
TCCAACCAAATACACCAGAATAA
Found at i:45267144 original size:27 final size:27
Alignment explanation
Indices: 45267104--45267155 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
45267094 AATACACCAG
**
45267104 AATAATCCAACCAAATGCACCAGAATA
1 AATAATCCAACCAAACACACCAGAATA
**
45267131 AATAATCCTCCCAAACACACCAGAA
1 AATAATCCAACCAAACACACCAGAA
45267156 AGGCATTAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.50, C:0.31, G:0.06, T:0.13
Consensus pattern (27 bp):
AATAATCCAACCAAACACACCAGAATA
Found at i:45272578 original size:4 final size:4
Alignment explanation
Indices: 45272569--45272691 Score: 56
Period size: 4 Copynumber: 30.8 Consensus size: 4
45272559 TTTTAATTCT
* * * *
45272569 TTTA TTTA TTCA -TTA TTTA TTTA CTTG TTTA TTTA TTCA -TTA TTCCT-
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA
* * * * * * * *
45272616 TTTA TTCTA ATCA TTTG TTTG TTCA TTTA CTTA TCTA TTTA TCTA -TTA
1 TTTA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* *
45272664 TTCA TTTA CTTA TTTA TTTA TTTTA TTT
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTT
45272692 TAATCCTTGT
Statistics
Matches: 85, Mismatches: 26, Indels: 16
0.67 0.20 0.13
Matches are distributed among these distances:
3 7 0.08
4 68 0.80
5 9 0.11
6 1 0.01
ACGTcount: A:0.22, C:0.11, G:0.02, T:0.65
Consensus pattern (4 bp):
TTTA
Found at i:45272806 original size:21 final size:21
Alignment explanation
Indices: 45272777--45272818 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
45272767 ATGCCTTCAT
*
45272777 TATTGTTACTATTTTATTATC
1 TATTATTACTATTTTATTATC
45272798 TATTATTACTATTTTATTATC
1 TATTATTACTATTTTATTATC
45272819 ATCTTATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.02, T:0.62
Consensus pattern (21 bp):
TATTATTACTATTTTATTATC
Found at i:45272822 original size:24 final size:22
Alignment explanation
Indices: 45272772--45272815 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
45272762 TATTCATGCC
*
45272772 TTCAT-TATTGTTACTATTTTA
1 TTCATCTATTATTACTATTTTA
45272793 TT-ATCTATTATTACTATTTTA
1 TTCATCTATTATTACTATTTTA
45272814 TT
1 TT
45272816 ATCATCTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (22 bp):
TTCATCTATTATTACTATTTTA
Found at i:45272911 original size:3 final size:3
Alignment explanation
Indices: 45272903--45272932 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
45272893 TTTTTCTTGC
*
45272903 TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
45272933 CACTTACCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:45272920 original size:15 final size:15
Alignment explanation
Indices: 45272902--45272931 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
45272892 ATTTTTCTTG
45272902 CTATTATTATTATTA
1 CTATTATTATTATTA
45272917 CTATTATTATTATTA
1 CTATTATTATTATTA
45272932 TCACTTACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (15 bp):
CTATTATTATTATTA
Found at i:45273540 original size:26 final size:26
Alignment explanation
Indices: 45273511--45273618 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
45273501 TGGTACAAAT
*
45273511 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
45273537 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
45273563 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
45273589 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
45273615 TGAT
1 TGAT
45273619 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:45274901 original size:40 final size:40
Alignment explanation
Indices: 45274872--45275017 Score: 213
Period size: 40 Copynumber: 3.6 Consensus size: 40
45274862 GGATATGGTC
* *
45274872 ACTAGCGCAAATGCCTTCGGGACTTAGCCCG-GATATAGTA
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGAAAT-TAGTA
*
45274912 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAAATTAGTA
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGAAATTAGTA
* * *
45274952 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAAATTAATC
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGAAATTAGTA
*
45274992 ACTAGCACAAATGTCTTCGGGACTTA
1 ACTAGCACAAATGCCTTCGGGACTTA
45275018 ACCCCGTTAG
Statistics
Matches: 98, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
40 96 0.98
41 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
ACTAGCACAAATGCCTTCGGGACTTAGCCCGAAATTAGTA
Found at i:45280294 original size:22 final size:20
Alignment explanation
Indices: 45280257--45280297 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
45280247 ATTAAAGTAA
*
45280257 TAAAATGTAAATAATTAAAT
1 TAAAATGTAAAAAATTAAAT
45280277 TAAAATGGATAAAAAATTAAA
1 TAAAAT-G-TAAAAAATTAAA
45280298 ACAAAACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 1 0.06
22 11 0.61
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.29
Consensus pattern (20 bp):
TAAAATGTAAAAAATTAAAT
Found at i:45284602 original size:28 final size:28
Alignment explanation
Indices: 45284549--45284603 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
45284539 TGCAGCATCG
** *
45284549 GCGTGTCTTAGGGTCACATGGGTGTATA
1 GCGTGTCTTAGGGTCACACAGATGTATA
45284577 GCGTGTCTTAGGGTCACACAGATGTAT
1 GCGTGTCTTAGGGTCACACAGATGTAT
45284604 CCCTTGACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.20, C:0.16, G:0.33, T:0.31
Consensus pattern (28 bp):
GCGTGTCTTAGGGTCACACAGATGTATA
Found at i:45286381 original size:15 final size:15
Alignment explanation
Indices: 45286361--45286392 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
45286351 TATGAAAATT
*
45286361 GCATGTGAATTTATG
1 GCATGTAAATTTATG
45286376 GCATGTAAATTTATG
1 GCATGTAAATTTATG
45286391 GC
1 GC
45286393 TTTTATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.09, G:0.25, T:0.38
Consensus pattern (15 bp):
GCATGTAAATTTATG
Found at i:45287300 original size:19 final size:20
Alignment explanation
Indices: 45287261--45287310 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
45287251 TGAATAAAAA
45287261 AAAGGAAGAAA-AAAAATATT
1 AAAGGAA-AAATAAAAATATT
45287281 AAAGGAAAAATAAAAA-ATT
1 AAAGGAAAAATAAAAATATT
45287300 AACA-GAAAAAT
1 AA-AGGAAAAAT
45287311 TGGGAGTGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.72, C:0.02, G:0.12, T:0.14
Consensus pattern (20 bp):
AAAGGAAAAATAAAAATATT
Found at i:45288329 original size:21 final size:20
Alignment explanation
Indices: 45288301--45288345 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
45288291 TTTACTTCCG
*
45288301 TTTTATTTATTAAGTTATGT
1 TTTTATTTATTAAATTATGT
* *
45288321 TTTTAATTTGTTAAATTTTGT
1 TTTT-ATTTATTAAATTATGT
45288342 TTTT
1 TTTT
45288346 TTTTCCAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.69
Consensus pattern (20 bp):
TTTTATTTATTAAATTATGT
Found at i:45292087 original size:2 final size:2
Alignment explanation
Indices: 45292080--45292117 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
45292070 TTGAGTTTAT
* *
45292080 TA TA TA TA TA TA TA TA TA TA TA TA -A TA AA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45292118 TTCTTGCCTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:45298358 original size:70 final size:70
Alignment explanation
Indices: 45297955--45298425 Score: 437
Period size: 70 Copynumber: 6.7 Consensus size: 70
45297945 TTTTCATATT
* * * * * * *
45297955 AGTTGGGAGCTTTGGCTCGTGCTTACTATGTTGGAAGCCGCGATATTGAATCAACAAGCCTTTGG
1 AGTTGGGAGCTTTGGCTCGCGCTTACTATTTTGGAGGTCGCGATATTAAATCAGCGAGCCTTTGG
45298020 ATTAC
66 ATTAC
** * * * * * * * *
45298025 AACTAGGAGC-TTGAGCTCGCACTGACTATTTTGGAGGTCACAATATTAAATCAACAAGCATTTG
1 AGTTGGGAGCTTTG-GCTCGCGCTTACTATTTTGGAGGTCGCGATATTAAATCAGCGAGCCTTTG
45298089 GATTAC
65 GATTAC
* * * * * *
45298095 AATTGGGTGCTTTGGCTCGCACTAACTATTTTGGAGGTTGCGATATTAAATCAGCGAGCTTTTGG
1 AGTTGGGAGCTTTGGCTCGCGCTTACTATTTTGGAGGTCGCGATATTAAATCAGCGAGCCTTTGG
45298160 ATTAC
66 ATTAC
* * * * * * *
45298165 AGCTGGGAGCTTTGGCTCACACTAACTATTTTGGAGGTCGCGATATTAAATCAGTGAGCTTTTGC
1 AGTTGGGAGCTTTGGCTCGCGCTTACTATTTTGGAGGTCGCGATATTAAATCAGCGAGCCTTTGG
45298230 A-TATC
66 ATTA-C
** * * * *
45298235 AGTTGGGAGCTTTGGCTTACGCTTATTGTTTTGGAGGTTAG-GATATTGAATCAGCGAGCCTTTG
1 AGTTGGGAGCTTTGGCTCGCGCTTACTATTTTGGAGG-TCGCGATATTAAATCAGCGAGCCTTTG
45298299 GATTAC
65 GATTAC
* * * ** * **
45298305 AGTTGAGAGCTTTGGCTCGCGCTTACTGTTTTGAAGGTCGTAATATTAAATCAGTGAGCCTTTTC
1 AGTTGGGAGCTTTGGCTCGCGCTTACTATTTTGGAGGTCGCGATATTAAATCAGCGAGCCTTTGG
45298370 A-TATC
66 ATTA-C
* * * **
45298375 AGTTGGGAGCTTTGGCTCTCGCTGACTATTTTAGAGGTCATGATATTAAAT
1 AGTTGGGAGCTTTGGCTCGCGCTTACTATTTTGGAGGTCGCGATATTAAAT
45298426 TGGTTGGGAA
Statistics
Matches: 334, Mismatches: 60, Indels: 14
0.82 0.15 0.03
Matches are distributed among these distances:
69 9 0.03
70 318 0.95
71 7 0.02
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (70 bp):
AGTTGGGAGCTTTGGCTCGCGCTTACTATTTTGGAGGTCGCGATATTAAATCAGCGAGCCTTTGG
ATTAC
Found at i:45298420 original size:140 final size:140
Alignment explanation
Indices: 45297927--45298421 Score: 498
Period size: 140 Copynumber: 3.5 Consensus size: 140
45297917 AGAGGCTTTG
* * * *
45297927 ATATTAAATAAATAAGCCTTTTCATATTAGTTGGGAGCTTTGGCTCGT-GCTTACTATGTTGGAA
1 ATATTAAATCAATAAGCCTTTTCATATCAGTTGGGAGCTTTGGCTC-TCGCTTACTATTTTGGAG
* * * * * *
45297991 GCCGCGATATTGAATCAACAAGCCTTTGGATTACAACT-AGGAGC-TTGAGCTCGCACTGACTAT
65 GTCACGATATTGAATCAGCGAGCCTTTGGATTACAGCTGA-GAGCTTTG-GCTCGCACTAACTAT
*
45298054 TTTGGAGGTCACA
128 TTTGGAGGTCGCA
* * ** * * * * *
45298067 ATATTAAATCAACAAGCATTTGGAT-TACAATTGGGTGCTTTGGCTCGCACTAACTATTTTGGAG
1 ATATTAAATCAATAAGCCTTTTCATAT-CAGTTGGGAGCTTTGGCTCTCGCTTACTATTTTGGAG
** * * * *
45298131 GTTGCGATATTAAATCAGCGAGCTTTTGGATTACAGCTGGGAGCTTTGGCTCACACTAACTATTT
65 GTCACGATATTGAATCAGCGAGCCTTTGGATTACAGCTGAGAGCTTTGGCTCGCACTAACTATTT
*
45298196 TGGAGGTCGCG
130 TGGAGGTCGCA
* * * *
45298207 ATATTAAATCAGTGAG-CTTTTGCATATCAGTTGGGAGCTTTGGCT-TACGCTTATTGTTTTGGA
1 ATATTAAATCAATAAGCCTTTT-CATATCAGTTGGGAGCTTTGGCTCT-CGCTTACTATTTTGGA
* * * * * *
45298270 GGTTAGGATATTGAATCAGCGAGCCTTTGGATTACAGTTGAGAGCTTTGGCTCGCGCTTACTGTT
64 GGTCACGATATTGAATCAGCGAGCCTTTGGATTACAGCTGAGAGCTTTGGCTCGCACTAACTATT
* *
45298335 TTGAAGGTCGTA
129 TTGGAGGTCGCA
* * * *
45298347 ATATTAAATCAGTGAGCCTTTTCATATCAGTTGGGAGCTTTGGCTCTCGCTGACTATTTTAGAGG
1 ATATTAAATCAATAAGCCTTTTCATATCAGTTGGGAGCTTTGGCTCTCGCTTACTATTTTGGAGG
*
45298412 TCATGATATT
66 TCACGATATT
45298422 AAATTGGTTG
Statistics
Matches: 289, Mismatches: 57, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
139 4 0.01
140 275 0.95
141 10 0.03
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (140 bp):
ATATTAAATCAATAAGCCTTTTCATATCAGTTGGGAGCTTTGGCTCTCGCTTACTATTTTGGAGG
TCACGATATTGAATCAGCGAGCCTTTGGATTACAGCTGAGAGCTTTGGCTCGCACTAACTATTTT
GGAGGTCGCA
Found at i:45302626 original size:35 final size:35
Alignment explanation
Indices: 45302582--45302748 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
45302572 TCCTCATTGA
** *
45302582 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
45302617 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
45302657 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
45302692 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
45302727 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
45302749 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:45302665 original size:75 final size:73
Alignment explanation
Indices: 45302577--45302748 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
45302567 GGTTTTCCTC
** * * **
45302577 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
45302641 TCAGTATGG
65 TCAGTATGG
*
45302650 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
45302715 CTCAGTATGG
64 CTCAGTATGG
45302725 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
45302749 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:45308857 original size:2 final size:2
Alignment explanation
Indices: 45308852--45308886 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
45308842 AATTTTTTTA
45308852 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
45308887 GTCCTGTAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:45311788 original size:2 final size:2
Alignment explanation
Indices: 45311781--45311805 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
45311771 TGTTAGTGCT
45311781 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
45311806 AAAAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:45315293 original size:21 final size:22
Alignment explanation
Indices: 45315267--45315307 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
45315257 ATAATTATAT
45315267 TAATTATA-TTATGTTAAATAA
1 TAATTATATTTATGTTAAATAA
*
45315288 TAATTATATTTATTTTAAAT
1 TAATTATATTTATGTTAAAT
45315308 CATTAACCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TAATTATATTTATGTTAAATAA
Found at i:45315455 original size:38 final size:40
Alignment explanation
Indices: 45315411--45315491 Score: 112
Period size: 38 Copynumber: 2.0 Consensus size: 40
45315401 TATTTAGTAC
* *
45315411 AATAAAATATTTATTATATTCAT-TTGTGT-TTTTAATAT
1 AATAAAAAATTTATTATATTCATGTAGTGTCTTTTAATAT
*
45315449 AATAAAAAATTTATTATATTTATGGTAGTGTCTTTTAATAT
1 AATAAAAAATTTATTATATTCAT-GTAGTGTCTTTTAATAT
45315490 AA
1 AA
45315492 ATATTTTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
38 21 0.57
40 5 0.14
41 11 0.30
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (40 bp):
AATAAAAAATTTATTATATTCATGTAGTGTCTTTTAATAT
Found at i:45315555 original size:2 final size:2
Alignment explanation
Indices: 45315548--45315586 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
45315538 TTAGTGTATT
45315548 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45315587 TTAAAATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:45316282 original size:30 final size:30
Alignment explanation
Indices: 45316248--45316307 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
45316238 ACTTAACAAG
45316248 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* * *
45316278 CAAATATCTTTAAAATAATTACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
45316308 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.28
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:45316681 original size:24 final size:24
Alignment explanation
Indices: 45316635--45316681 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
45316625 GATTATTGAA
*
45316635 TTTTCATAAAATAGTAATAAAAAG
1 TTTTCATAAAATAATAATAAAAAG
*
45316659 TTTTCATAAATTTAATAATAAAA
1 TTTTCATAAA-ATAATAATAAAA
45316682 TAAAAATATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.38
Consensus pattern (24 bp):
TTTTCATAAAATAATAATAAAAAG
Found at i:45318710 original size:18 final size:17
Alignment explanation
Indices: 45318684--45318717 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
45318674 TTCCCCCCAA
*
45318684 ATTTTGGTTTATATTTTT
1 ATTTGGGTTTAT-TTTTT
45318702 ATTTGGGTTTATTTTT
1 ATTTGGGTTTATTTTT
45318718 AGTTTATACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.71
Consensus pattern (17 bp):
ATTTGGGTTTATTTTTT
Found at i:45326800 original size:188 final size:189
Alignment explanation
Indices: 45326430--45326840 Score: 646
Period size: 188 Copynumber: 2.2 Consensus size: 189
45326420 GCAGCAACCT
* *
45326430 TCACAATTCTATCTCAATGCCTAATCATATAATGCAAGTTCAAGAATCTAGAGCTTAATTCAGTC
1 TCACAATTCTATCTCAATGCCTAATCAGATAATGCAAGTTCAAGAACCTAGAGCTTAATTCAGTC
* ** * *
45326495 GGTTCATGCAATCTTCCTTTAAAGATGGTATTTTGATACATCTCAAGTTAGATTCTCAACATTGC
66 AGTTCATGCAATCACCCTTTAAAGATGGTATTTTGAAACATCTCAAGTTAGAGTCTCAACATTGC
45326560 AATCCTTCCCCTATCCCCATACTAAGGCCTCCTATACACAAAATAATGCAAGTTCAACA
131 AATCCTTCCCCTATCCCCATACTAAGGCCTCCTATACACAAAATAATGCAAGTTCAACA
* *
45326619 TCACAATTCTACCTCAATGCCTAATCAGATGATGCAAGTTCAAGAACCTAGAGCTTAATTCAGTC
1 TCACAATTCTATCTCAATGCCTAATCAGATAATGCAAGTTCAAGAACCTAGAGCTTAATTCAGTC
* *
45326684 AGTTCATGCAATCACCC-TT-ATGAGTGGTATTTTGAAACGTCTCAAGTTAGAGTCTCAACATTG
66 AGTTCATGCAATCACCCTTTAAAGA-TGGTATTTTGAAACATCTCAAGTTAGAGTCTCAACATTG
* * * *
45326747 CAATCGTTCCCCTATCCCCATACTAAGGCCTCCTTTACACGAAATATTGCAAGTTCAACA
130 CAATCCTTCCCCTATCCCCATACTAAGGCCTCCTATACACAAAATAATGCAAGTTCAACA
* *
45326807 TCACAATTCTATCTCAATGCCTAACCAAATAATG
1 TCACAATTCTATCTCAATGCCTAATCAGATAATG
45326841 TGCTTAGTTG
Statistics
Matches: 202, Mismatches: 19, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
187 3 0.01
188 124 0.61
189 75 0.37
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.30
Consensus pattern (189 bp):
TCACAATTCTATCTCAATGCCTAATCAGATAATGCAAGTTCAAGAACCTAGAGCTTAATTCAGTC
AGTTCATGCAATCACCCTTTAAAGATGGTATTTTGAAACATCTCAAGTTAGAGTCTCAACATTGC
AATCCTTCCCCTATCCCCATACTAAGGCCTCCTATACACAAAATAATGCAAGTTCAACA
Found at i:45327692 original size:7 final size:8
Alignment explanation
Indices: 45327669--45327708 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
45327659 ACAAAATCCT
*
45327669 AAAATGAA
1 AAAAGGAA
45327677 AAAA--AA
1 AAAAGGAA
45327683 AAAAGGAA
1 AAAAGGAA
45327691 AAAAGGAA
1 AAAAGGAA
45327699 AAAAGGAA
1 AAAAGGAA
45327707 AA
1 AA
45327709 GAAGAAGCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 6 0.20
8 24 0.80
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (8 bp):
AAAAGGAA
Found at i:45327907 original size:3 final size:3
Alignment explanation
Indices: 45327899--45327928 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
45327889 GGTAAATAAC
45327899 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
45327929 TTTTCAAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:45329133 original size:22 final size:23
Alignment explanation
Indices: 45329109--45329153 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
45329099 TTTGCTATCA
45329109 TTTTGTTATTATATT-TATATTATT
1 TTTTGTTATTAT-TTGTATATTA-T
45329133 TTTTGTTATTATTTGTATATT
1 TTTTGTTATTATTTGTATATT
45329154 GTATCACTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (23 bp):
TTTTGTTATTATTTGTATATTAT
Found at i:45340680 original size:48 final size:48
Alignment explanation
Indices: 45340613--45340846 Score: 246
Period size: 48 Copynumber: 5.0 Consensus size: 48
45340603 CACATGGTAG
* * *
45340613 GATGCCAATGCCATATCCCAGATATGGTTTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * * *
45340661 GATGCCAATGCTATGTCCCAGAAATGGTCTTACATGGGATCATAGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* *
45340709 GATGCCAATGCCATGTCCAAGGCATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
** * ** * *
45340757 GATGCC---GTTA-G-CCCAG-CTATCGTCTTACATGAAATTATATATC
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATC
* * *
45340800 GATGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATCGCATAT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAT
45340847 AACCCTAACA
Statistics
Matches: 150, Mismatches: 29, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
42 1 0.01
43 30 0.20
44 1 0.01
45 2 0.01
46 2 0.01
47 1 0.01
48 112 0.75
49 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:45340826 original size:91 final size:94
Alignment explanation
Indices: 45340613--45340846 Score: 285
Period size: 91 Copynumber: 2.5 Consensus size: 94
45340603 CACATGGTAG
* * * *
45340613 GATGCCAATGCCATATCCCAGATATGGTTTTACATGGGATCACATATCGATGCCAATGCTATGTC
1 GATGCCAATGCCATGTCCAAGACATGGTCTTACATGGGATCACATATCGATGCC-A-GCTATGTC
* **
45340678 CCAGAAATGGTCTTACATGGGATCATAGATC
64 CCAGAAATCGTCTTACATGAAATCATAGATC
* *
45340709 GATGCCAATGCCATGTCCAAGGCATGGTCTTACATGGGATCACATATCGATGCC-GTTA-G-CCC
1 GATGCCAATGCCATGTCCAAGACATGGTCTTACATGGGATCACATATCGATGCCAGCTATGTCCC
** * *
45340771 AGCTATCGTCTTACATGAAATTATATATC
66 AGAAATCGTCTTACATGAAATCATAGATC
* * *
45340800 GATGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATCGCATAT
1 GATGCCAATGCCATGTCCAAGACATGGTCTTACATGGGATCACATAT
45340847 AACCCTAACA
Statistics
Matches: 121, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
91 68 0.56
92 1 0.01
93 3 0.02
96 49 0.40
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (94 bp):
GATGCCAATGCCATGTCCAAGACATGGTCTTACATGGGATCACATATCGATGCCAGCTATGTCCC
AGAAATCGTCTTACATGAAATCATAGATC
Found at i:45341219 original size:30 final size:30
Alignment explanation
Indices: 45341185--45341243 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
45341175 CATAAATCAT
* *
45341185 ACTTTAAAAAAATTACAACTTTGCCCCTAA
1 ACTTTAAAAAAATTACAAATTAGCCCCTAA
* * *
45341215 ACTTTCACATAATTACAAATTAGCCCCTA
1 ACTTTAAAAAAATTACAAATTAGCCCCTA
45341244 GGCTCGTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.25, G:0.03, T:0.31
Consensus pattern (30 bp):
ACTTTAAAAAAATTACAAATTAGCCCCTAA
Found at i:45342868 original size:22 final size:21
Alignment explanation
Indices: 45342837--45342878 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
45342827 TAAATTATAT
* *
45342837 ATGTTAATTTTTTTGAATTGA
1 ATGTTAATTTGTGTGAATTGA
45342858 ATGTTGAATTTGTGTGAATTG
1 ATGTT-AATTTGTGTGAATTG
45342879 TATAAATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.52
Consensus pattern (21 bp):
ATGTTAATTTGTGTGAATTGA
Found at i:45343372 original size:23 final size:24
Alignment explanation
Indices: 45343321--45343373 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
45343311 TCTTTGTGAA
* * *
45343321 CTTCCTATTTATAGCTCTGATGAG
1 CTTCCTAATTATAGCTCGGATAAG
*
45343345 ATTCCTAATT-TAGCTCGGATAAG
1 CTTCCTAATTATAGCTCGGATAAG
45343368 CTTCCT
1 CTTCCT
45343374 GGTATATGGC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (24 bp):
CTTCCTAATTATAGCTCGGATAAG
Found at i:45348874 original size:40 final size:40
Alignment explanation
Indices: 45348830--45348939 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
45348820 TTCACAATTT
* *
45348830 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
45348870 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
45348910 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
45348940 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:45356928 original size:40 final size:40
Alignment explanation
Indices: 45356884--45356993 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
45356874 TTCACAATTT
* *
45356884 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
45356924 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
45356964 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
45356994 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:45359592 original size:12 final size:12
Alignment explanation
Indices: 45359575--45359600 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45359565 TTCATTTATG
45359575 TATATCCCATGT
1 TATATCCCATGT
45359587 TATATCCCATGT
1 TATATCCCATGT
45359599 TA
1 TA
45359601 ATCTCATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (12 bp):
TATATCCCATGT
Found at i:45367282 original size:12 final size:12
Alignment explanation
Indices: 45367265--45367290 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45367255 TTCATTTATG
45367265 TATATCCCATGT
1 TATATCCCATGT
45367277 TATATCCCATGT
1 TATATCCCATGT
45367289 TA
1 TA
45367291 ATCTCATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (12 bp):
TATATCCCATGT
Found at i:45370028 original size:43 final size:42
Alignment explanation
Indices: 45369972--45370119 Score: 138
Period size: 43 Copynumber: 3.5 Consensus size: 42
45369962 TACCGAGCTG
*
45369972 TGATTACATGTAAGACCATGTCTGGGACATTGGCAT-TGTATTA
1 TGATTACGTGTAAGACCATGTCTGGGACATTGGCATAT-TA-TA
* **
45370015 TGCTTACGTGTAAGACCATGTCTAAGACATTGGCATCATTATA
1 TGATTACGTGTAAGACCATGTCTGGGACATTGGCAT-ATTATA
* * * * *
45370058 TGATTTCGTGTAAGACCCTATCTGGGACAGTGGCATCGA-TATG
1 TGATTACGTGTAAGACCATGTCTGGGACATTGGCAT--ATTATA
* *
45370101 TGATAACATGTAAGACCAT
1 TGATTACGTGTAAGACCAT
45370120 ATTTGGGATA
Statistics
Matches: 85, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
43 81 0.95
44 3 0.04
45 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (42 bp):
TGATTACGTGTAAGACCATGTCTGGGACATTGGCATATTATA
Found at i:45372716 original size:27 final size:27
Alignment explanation
Indices: 45372673--45372770 Score: 133
Period size: 27 Copynumber: 3.6 Consensus size: 27
45372663 CGTACCTGAA
* *
45372673 CCCTCATGTGATAAAATGATGATTTTG
1 CCCTTATGTGACAAAATGATGATTTTG
* **
45372700 CCCTTATGTGACGAAATGACAATTTTG
1 CCCTTATGTGACAAAATGATGATTTTG
*
45372727 CCCTTATGTGATAAAATGATGATTTTG
1 CCCTTATGTGACAAAATGATGATTTTG
*
45372754 CCCTTATGTGATAAAAT
1 CCCTTATGTGACAAAAT
45372771 AACCGATATT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (27 bp):
CCCTTATGTGACAAAATGATGATTTTG
Found at i:45372784 original size:27 final size:27
Alignment explanation
Indices: 45372673--45372784 Score: 100
Period size: 27 Copynumber: 4.1 Consensus size: 27
45372663 CGTACCTGAA
* * * *
45372673 CCCTCATGTGATAAAATGATGATTTTG
1 CCCTTATGTGATAAAATAACGATATTG
** * * *
45372700 CCCTTATGTGACGAAATGACAATTTTG
1 CCCTTATGTGATAAAATAACGATATTG
* * *
45372727 CCCTTATGTGATAAAATGATGATTTTG
1 CCCTTATGTGATAAAATAACGATATTG
45372754 CCCTTATGTGATAAAATAACCGATATT-
1 CCCTTATGTGATAAAATAA-CGATATTG
45372781 CCCT
1 CCCT
45372785 CATAAGGTAA
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 67 0.93
28 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (27 bp):
CCCTTATGTGATAAAATAACGATATTG
Found at i:45372796 original size:54 final size:54
Alignment explanation
Indices: 45372673--45372800 Score: 141
Period size: 54 Copynumber: 2.4 Consensus size: 54
45372663 CGTACCTGAA
** * * *
45372673 CCCTCATGTGATAAAATGATGATTTTGCCCTTATGTGACGAAATGACAATTTTG
1 CCCTCATAAGATAAAATGATGATTTTGCCCTTATGTGACAAAATAACAATATTG
* ** * *
45372727 CCCTTATGTGATAAAATGATGATTTTGCCCTTATGTGATAAAATAACCGATATT-
1 CCCTCATAAGATAAAATGATGATTTTGCCCTTATGTGACAAAATAA-CAATATTG
*
45372781 CCCTCATAAGGTAAAATGAT
1 CCCTCATAAGATAAAATGAT
45372801 CCAAATACCC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 58 0.92
55 5 0.08
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Consensus pattern (54 bp):
CCCTCATAAGATAAAATGATGATTTTGCCCTTATGTGACAAAATAACAATATTG
Found at i:45372959 original size:23 final size:23
Alignment explanation
Indices: 45372916--45372965 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
45372906 CTGTATTTGA
45372916 GCATGCCATGTTATATGTATGTT
1 GCATGCCATGTTATATGTATGTT
45372939 GCAT-CCATGTATAATAT-TATGTT
1 GCATGCCATGT-T-ATATGTATGTT
45372962 GCAT
1 GCAT
45372966 TGCATGGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 15 0.60
24 4 0.16
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (23 bp):
GCATGCCATGTTATATGTATGTT
Found at i:45373629 original size:33 final size:33
Alignment explanation
Indices: 45373592--45373681 Score: 137
Period size: 33 Copynumber: 2.7 Consensus size: 33
45373582 ATAATCACTG
*
45373592 ATGCCATAACATAGCTATGGTCTTTTCACTAGA
1 ATGCCATAGCATAGCTATGGTCTTTTCACTAGA
*
45373625 ATGCCATAGCATAGCTATGTTCTTTTCACTAGA
1 ATGCCATAGCATAGCTATGGTCTTTTCACTAGA
*
45373658 ATGTCATAGC-TCAGCTATGGTCTT
1 ATGCCATAGCAT-AGCTATGGTCTT
45373682 ACCTCTTCTC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 1 0.02
33 51 0.98
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.36
Consensus pattern (33 bp):
ATGCCATAGCATAGCTATGGTCTTTTCACTAGA
Found at i:45373975 original size:31 final size:31
Alignment explanation
Indices: 45373892--45374071 Score: 243
Period size: 31 Copynumber: 5.8 Consensus size: 31
45373882 CTTGTCACTT
*
45373892 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
** * * * **
45373923 ACAGCCAAAGCAAACGTTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
45373954 GTAGTTGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
45373985 GTAGCCGAAGCTACCACTTTTCACTAATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
45374016 GTAGCCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
45374047 GTACCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
45374072 TGTCATTTGT
Statistics
Matches: 125, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 125 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:45374136 original size:50 final size:50
Alignment explanation
Indices: 45374051--45374220 Score: 214
Period size: 50 Copynumber: 3.4 Consensus size: 50
45374041 GATCAGGTAC
* * * *
45374051 CCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAA
1 CCGAAGCTATCACTTATCACTT-TCAATTGTCCTTGATCAGATAAGTGTAG
* * ** *
45374102 CCGAAGCTATCACGTATCGCTTTCGCTTGTCCTTGATCAGATAAGTATAG
1 CCGAAGCTATCACTTATCACTTTCAATTGTCCTTGATCAGATAAGTGTAG
* * * *
45374152 CTGAAACTATCACTTATCACTTTCAATTGTTCTTGATCAGATAAATGTAG
1 CCGAAGCTATCACTTATCACTTTCAATTGTCCTTGATCAGATAAGTGTAG
45374202 CCGAAGCTATCACTTATCA
1 CCGAAGCTATCACTTATCA
45374221 TTTGTTGTCA
Statistics
Matches: 100, Mismatches: 19, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
50 82 0.82
51 18 0.18
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (50 bp):
CCGAAGCTATCACTTATCACTTTCAATTGTCCTTGATCAGATAAGTGTAG
Found at i:45380793 original size:21 final size:21
Alignment explanation
Indices: 45380746--45380793 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
45380736 GTCTAGAATG
* * *
45380746 TGAATTGAATTGAATTGAGCA
1 TGAAATGAATTAAATTGAGAA
*
45380767 TGAAATGAATTAAATTGATAA
1 TGAAATGAATTAAATTGAGAA
*
45380788 TTAAAT
1 TGAAAT
45380794 TCATTTATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.46, C:0.02, G:0.17, T:0.35
Consensus pattern (21 bp):
TGAAATGAATTAAATTGAGAA
Found at i:45380946 original size:22 final size:21
Alignment explanation
Indices: 45380915--45380956 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
45380905 TAGATTATAT
*
45380915 ATGTTAATTTGTTTGAATTGA
1 ATGTTAATTTGTGTGAATTGA
45380936 ATGTTGAATTTGTGTGAATTG
1 ATGTT-AATTTGTGTGAATTG
45380957 CATAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (21 bp):
ATGTTAATTTGTGTGAATTGA
Found at i:45386282 original size:44 final size:43
Alignment explanation
Indices: 45386219--45386377 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 43
45386209 TATGTGTTAT
* *
45386219 CGTGTAAGACCACATCTGGGACGTTGGCATCA-ACTTATGATTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATCATA-TT-TGATTTA
* * *
45386263 CGTGTAAGACTATGTCTGGGACGTTGGCATCATATTTGATTT-
1 CGTGTAAGACCACGTCTAGGACGTTGGCATCATATTTGATTTA
* ** *
45386305 CGTGTTAGACCTTGTCTAGGATAG-TGGCATCGATATTTGA-TTA
1 CGTGTAAGACCACGTCTAGGA-CGTTGGCATC-ATATTTGATTTA
*
45386348 CATGTAAGACCACGTCTAGGACGTTGGCAT
1 CGTGTAAGACCACGTCTAGGACGTTGGCAT
45386378 TGTACGAGAT
Statistics
Matches: 97, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
42 27 0.28
43 38 0.39
44 31 0.32
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTAGGACGTTGGCATCATATTTGATTTA
Found at i:45388953 original size:40 final size:39
Alignment explanation
Indices: 45388908--45389037 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
45388898 CGGAATATAA
*
45388908 CCGGATATAACCATGTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
45388948 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * *
45388988 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
45389028 CCGGATATAA
1 CCGGATATAA
45389038 TTTCCAGCAT
Statistics
Matches: 73, Mismatches: 13, Indels: 8
0.78 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
40 70 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:45389052 original size:40 final size:40
Alignment explanation
Indices: 45388924--45389075 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
45388914 ATAACCATGT
* * * *
45388924 GCACAAATGCCTTCGGGTATTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
** * *
45388964 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
45389004 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
45389044 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
45389076 CATTCAATTT
Statistics
Matches: 92, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
39 2 0.02
40 87 0.95
41 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:45389058 original size:80 final size:80
Alignment explanation
Indices: 45388924--45389075 Score: 193
Period size: 80 Copynumber: 1.9 Consensus size: 80
45388914 ATAACCATGT
*
45388924 GCACAAATGCCTTCGGGTATTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTATTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
45388988 CCGGATATAGCCACTA
65 CCGGATATAGCCACTA
* * * * * *
45389004 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTATTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
45389067 CCCGGATAT
64 CCCGGATAT
45389076 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
79 3 0.05
80 58 0.94
81 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.28
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTATTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATATAGCCACTA
Found at i:45396311 original size:16 final size:19
Alignment explanation
Indices: 45396290--45396330 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
45396280 TAATAGGACC
45396290 ATTTTGT-AAA-AA-GGAA
1 ATTTTGTAAAATAATGGAA
45396306 ATTTTGTAAAATAATGGAA
1 ATTTTGTAAAATAATGGAA
45396325 ATTTTG
1 ATTTTG
45396331 GGTTGCTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.32
17 3 0.14
18 2 0.09
19 10 0.45
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.39
Consensus pattern (19 bp):
ATTTTGTAAAATAATGGAA
Found at i:45397009 original size:49 final size:49
Alignment explanation
Indices: 45396956--45397064 Score: 132
Period size: 49 Copynumber: 2.2 Consensus size: 49
45396946 TGTCTCAGAC
*
45396956 ATGGCATCGACATCGATA-GATGAGAGCCAGTGTAAGACCTA-CTTGGGAA
1 ATGGCATCGACATCGATATG-TGAAAGCCAGTGTAAGACCTATC-TGGGAA
* * ** *
45397005 ATGGCATCGGCCTCGATATGTGAAAGTTAGTGTAAGACCTATCTGGGAC
1 ATGGCATCGACATCGATATGTGAAAGCCAGTGTAAGACCTATCTGGGAA
45397054 ATGGCATCGAC
1 ATGGCATCGAC
45397065 TTTGATGTGC
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
49 49 0.96
50 2 0.04
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (49 bp):
ATGGCATCGACATCGATATGTGAAAGCCAGTGTAAGACCTATCTGGGAA
Found at i:45399564 original size:19 final size:19
Alignment explanation
Indices: 45399521--45399566 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
45399511 TTTTGTCTTT
*
45399521 GAAATTTTGATAAATTTGA
1 GAAATTTGGATAAATTTGA
*
45399540 GTAATTTGGACTAAATTT-A
1 GAAATTTGGA-TAAATTTGA
45399559 GAAATTTG
1 GAAATTTG
45399567 TAAATTGAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.39, C:0.02, G:0.17, T:0.41
Consensus pattern (19 bp):
GAAATTTGGATAAATTTGA
Found at i:45400140 original size:44 final size:42
Alignment explanation
Indices: 45400092--45400248 Score: 151
Period size: 44 Copynumber: 3.7 Consensus size: 42
45400082 TATGTTATCG
*
45400092 TGTAAGACCACGTCTGGGACATTGGCATCGACTTATAATTTACG
1 TGTAAGACCACGTCTGGGACATTGGCATCGA-TTAT-ATTTACA
*
45400136 TGTAAGACCATGTCTGGGACATTGGCATCGTATT-TGATTT-CA
1 TGTAAGACCACGTCTGGGACATTGGCATCG-ATTAT-ATTTACA
* * * *
45400178 TGTAAGACC-CTGTCTGGGATAGTGGCATC-AATATTTGGTTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGATTATAT--TTACA
* *
45400221 TGTAAGACCACGTCTAGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
45400249 TGTATGAGAC
Statistics
Matches: 94, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
40 3 0.03
41 1 0.01
42 28 0.30
43 29 0.31
44 32 0.34
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATTATATTTACA
Found at i:45400227 original size:43 final size:42
Alignment explanation
Indices: 45400092--45400248 Score: 138
Period size: 43 Copynumber: 3.7 Consensus size: 42
45400082 TATGTTATCG
* * * * *
45400092 TGTAAGACCACGTCTGGGACATTGGCATCGACT-TATAATTTACG
1 TGTAAGACCATGTCTGGGACAGTGGCATC-A-TATTTGA-TTACA
* * *
45400136 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTCA
1 TGTAAGACCATGTCTGGGACAGTGGCATCATATTTGATTACA
* * *
45400178 TGTAAGACCCTGTCTGGGATAGTGGCATCAATATTTGGTTACA
1 TGTAAGACCATGTCTGGGACAGTGGCATC-ATATTTGATTACA
* *
45400221 TGTAAGACCACGTCTAGGAC-GTTGGCAT
1 TGTAAGACCATGTCTGGGACAG-TGGCAT
45400249 TGTATGAGAC
Statistics
Matches: 94, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
42 31 0.33
43 35 0.37
44 28 0.30
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCATATTTGATTACA
Found at i:45400474 original size:21 final size:17
Alignment explanation
Indices: 45400431--45400463 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
45400421 AAATAAAATA
45400431 CAAATAAACTTATCATT
1 CAAATAAACTTATCATT
45400448 CAAATAAACTTATCAT
1 CAAATAAACTTATCAT
45400464 GTAATCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.33
Consensus pattern (17 bp):
CAAATAAACTTATCATT
Found at i:45402051 original size:47 final size:45
Alignment explanation
Indices: 45401986--45402106 Score: 147
Period size: 47 Copynumber: 2.6 Consensus size: 45
45401976 TTTGTGTGCT
*
45401986 AGTGTAAGACATGTCTGGGACATGCATTGGCCACATT-ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCA-T-ACCACATTGATGAGAGCC
* *
45402032 AGTGTAAGACCATGTCTGGGACATGGCA-ACGACATTGAGATGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATACCACATT--GATGAGAGCC
45402080 AGTGTAAGACATGTCTGGGACATGCAT
1 AGTGTAAGACATGTCTGGGACATGCAT
45402107 CGACCTAGAG
Statistics
Matches: 66, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
45 6 0.09
46 12 0.18
47 28 0.42
48 20 0.30
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATACCACATTGATGAGAGCC
Found at i:45402134 original size:46 final size:46
Alignment explanation
Indices: 45401986--45402140 Score: 179
Period size: 46 Copynumber: 3.3 Consensus size: 46
45401976 TTTGTGTGCT
* * * *
45401986 AGTGTAAGACATGTCTGGGACATGCATTGGCC-ACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCTAGA-GATGAGAGCC
* * * *
45402032 AGTGTAAGACCATGTCTGGGACATGGCAACGACATTGAGATGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTAGAGATGAGAGCC
*
45402080 AGTGTAAGACATGTCTGGGACATGCATCGACCTAGAGATGTA-AACC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCTAGAGATG-AGAGCC
45402126 AGTGTAAGACATGTC
1 AGTGTAAGACATGTC
45402141 AGCTACAAAA
Statistics
Matches: 92, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
46 40 0.43
47 29 0.32
48 22 0.24
49 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCTAGAGATGAGAGCC
Found at i:45407547 original size:25 final size:25
Alignment explanation
Indices: 45407519--45407566 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
45407509 TTATACCATG
* * *
45407519 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
45407544 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
45407567 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:45407635 original size:20 final size:20
Alignment explanation
Indices: 45407610--45407673 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
45407600 TAAATATGGT
45407610 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
45407630 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
*
45407650 ATGTATGATATGCACATGAG
1 ATGTATGATATGCACATGAC
45407670 ATGT
1 ATGT
45407674 TCATAAATGC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:45407650 original size:11 final size:11
Alignment explanation
Indices: 45407614--45407668 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
45407604 TATGGTATGT
45407614 ATGATATGCAC
1 ATGATATGCAC
* *
45407625 ATGACATG--T
1 ATGATATGCAC
45407634 ATGATATGCAC
1 ATGATATGCAC
*
45407645 ATGATATG--T
1 ATGATATGCAC
45407654 ATGATATGCAC
1 ATGATATGCAC
45407665 ATGA
1 ATGA
45407669 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:45407751 original size:23 final size:23
Alignment explanation
Indices: 45407720--45407885 Score: 269
Period size: 23 Copynumber: 7.1 Consensus size: 23
45407710 AGGAAGTGCA
*
45407720 AAAGAGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
45407743 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
45407766 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
45407790 AAAGGGCTTATGCCCCAGTTATC
1 AAAGGGCTTATGCCCCAGTTATT
*
45407813 AAAGGGCTTATGCCCCAGTTATA
1 AAAGGGCTTATGCCCCAGTTATT
45407836 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
45407859 GAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
45407883 AAA
1 AAA
45407886 AGAGGCTAGG
Statistics
Matches: 135, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
23 91 0.67
24 44 0.33
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:45407806 original size:47 final size:46
Alignment explanation
Indices: 45407720--45407906 Score: 277
Period size: 47 Copynumber: 4.0 Consensus size: 46
45407710 AGGAAGTGCA
* *
45407720 AAAGAGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
*
45407766 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
45407813 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
* *
45407859 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 -AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
45407907 ATGATAAAGC
Statistics
Matches: 130, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
46 44 0.34
47 64 0.49
48 11 0.08
49 11 0.08
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
Found at i:45407831 original size:70 final size:70
Alignment explanation
Indices: 45407718--45407907 Score: 274
Period size: 70 Copynumber: 2.7 Consensus size: 70
45407708 GGAGGAAGTG
* * *
45407718 CAAAAGAGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCA
1 CAAAAGGGCTTATGCCCCAGTTATCAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCA
45407783 GTTAT
66 GTTAT
45407788 CAAAAGGGCTTATGCCCCAGTTATCAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCA
1 CAAAAGGGCTTATGCCCCAGTTATCAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCA
45407853 GTTAT
66 GTTAT
** * * *
45407858 TGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATA
1 CAAAAGGGCTTATGCCCCAGTTA-TCAAAG-GGCTTATGCC-CCAGTTATA
45407908 TGATAAAGCA
Statistics
Matches: 109, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
70 87 0.80
71 10 0.09
72 12 0.11
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (70 bp):
CAAAAGGGCTTATGCCCCAGTTATCAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCA
GTTAT
Found at i:45408133 original size:31 final size:31
Alignment explanation
Indices: 45408098--45408161 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
45408088 CATTTACAGT
45408098 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
45408129 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
45408160 AA
1 AA
45408162 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:45414361 original size:25 final size:25
Alignment explanation
Indices: 45414333--45414380 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
45414323 CCCTTATATG
* * *
45414333 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
45414358 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
45414381 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:45414435 original size:5 final size:5
Alignment explanation
Indices: 45414417--45414491 Score: 50
Period size: 5 Copynumber: 15.0 Consensus size: 5
45414407 ATTTTGATAA
* * *
45414417 ATATG GTATG -TATG ATATG ATGAATG -TATG ATATG CACATG ACATG
1 ATATG ATATG ATATG ATATG AT--ATG ATATG ATATG -ATATG ATATG
*
45414463 -TATG ATATG CACATG ATATG -TATG ATATG
1 ATATG ATATG -ATATG ATATG ATATG ATATG
45414492 CACATGAGAT
Statistics
Matches: 57, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
4 14 0.25
5 31 0.54
6 9 0.16
7 3 0.05
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.36
Consensus pattern (5 bp):
ATATG
Found at i:45414447 original size:8 final size:9
Alignment explanation
Indices: 45414418--45414491 Score: 62
Period size: 9 Copynumber: 8.0 Consensus size: 9
45414408 TTTTGATAAA
*
45414418 TATGGTATG
1 TATGATATG
45414427 TATGATATG
1 TATGATATG
45414436 -ATGA-ATG
1 TATGATATG
45414443 TATGATATG
1 TATGATATG
* *
45414452 CACATGACATG
1 --TATGATATG
45414463 TATGATATG
1 TATGATATG
*
45414472 CACATGATATG
1 --TATGATATG
45414483 TATGATATG
1 TATGATATG
45414492 CACATGAGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
7 3 0.06
8 8 0.15
9 26 0.50
11 15 0.29
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (9 bp):
TATGATATG
Found at i:45414458 original size:11 final size:11
Alignment explanation
Indices: 45414444--45414498 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
45414434 TGATGAATGT
45414444 ATGATATGCAC
1 ATGATATGCAC
* *
45414455 ATGACATG--T
1 ATGATATGCAC
45414464 ATGATATGCAC
1 ATGATATGCAC
*
45414475 ATGATATG--T
1 ATGATATGCAC
45414484 ATGATATGCAC
1 ATGATATGCAC
45414495 ATGA
1 ATGA
45414499 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:45414463 original size:20 final size:19
Alignment explanation
Indices: 45414424--45414503 Score: 112
Period size: 20 Copynumber: 4.2 Consensus size: 19
45414414 TAAATATGGT
45414424 ATGTATGATATG---ATGA
1 ATGTATGATATGCACATGA
45414440 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
45414459 CATGTATGATATGCACATGA
1 -ATGTATGATATGCACATGA
45414479 TATGTATGATATGCACATGA
1 -ATGTATGATATGCACATGA
45414499 GATGT
1 -ATGT
45414504 TCATAAATGC
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
16 12 0.21
19 4 0.07
20 42 0.72
ACGTcount: A:0.35, C:0.09, G:0.23, T:0.34
Consensus pattern (19 bp):
ATGTATGATATGCACATGA
Found at i:45414575 original size:23 final size:23
Alignment explanation
Indices: 45414549--45414709 Score: 258
Period size: 23 Copynumber: 7.1 Consensus size: 23
45414539 GAGGAAGTGA
45414549 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
45414572 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
45414595 AAAGGGCTTATG-CCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
45414618 AAAGGGCTTATGCCCCAGTTATA
1 AAAGGGCTTATGCCCCAGTTATT
45414641 AAAGGGCTTATGCCCCAG-TA-T
1 AAAGGGCTTATGCCCCAGTTATT
45414662 -AAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
45414684 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
45414707 AAA
1 AAA
45414710 AGAGGCTAGG
Statistics
Matches: 130, Mismatches: 3, Indels: 10
0.91 0.02 0.07
Matches are distributed among these distances:
20 17 0.13
21 2 0.02
22 12 0.09
23 90 0.69
24 9 0.07
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:45414622 original size:46 final size:46
Alignment explanation
Indices: 45414549--45414730 Score: 257
Period size: 46 Copynumber: 4.0 Consensus size: 46
45414539 GAGGAAGTGA
*
45414549 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
*
45414595 AAAGGGCTTATG-CCCAGTTATCAAAAGGGCTTATGCCCCAGTTATA
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
45414641 AAAGGGCTTATGCCCCAG-TAT--AAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
* *
45414684 AAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
45414731 ATGATAAAGC
Statistics
Matches: 123, Mismatches: 5, Indels: 14
0.87 0.04 0.10
Matches are distributed among these distances:
43 38 0.31
44 2 0.02
45 10 0.08
46 49 0.40
47 13 0.11
48 11 0.09
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
Found at i:45414982 original size:30 final size:31
Alignment explanation
Indices: 45414922--45414984 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
45414912 CGTTTACAGT
45414922 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
45414953 AAAGGCTTCGGCCCAGTATTATG-AATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
45414983 AA
1 AA
45414985 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 9 0.29
31 22 0.71
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:45416965 original size:40 final size:40
Alignment explanation
Indices: 45416920--45417086 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
45416910 CGGAATATAA
45416920 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
45416960 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
45417000 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
45417040 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
45417079 CCGGATAT
1 CCGGATAT
45417087 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:45417070 original size:80 final size:79
Alignment explanation
Indices: 45416936--45417086 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
45416926 ATAATCACGT
*
45416936 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
45417001 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
45417016 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
45417079 CCGGATAT
64 CCGGATAT
45417087 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:45424966 original size:40 final size:40
Alignment explanation
Indices: 45424921--45425087 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
45424911 CGGAATATAA
*
45424921 CCGGATTTAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
45424961 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
45425001 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * ** *
45425041 CCGGATATAATTTCCAGCATAGTTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
45425080 CCGGATAT
1 CCGGATAT
45425088 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 14 0.14
40 89 0.86
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:45432980 original size:33 final size:33
Alignment explanation
Indices: 45432943--45433011 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
45432933 GAAAAATATC
45432943 TCAATTCACATCACTTGCTATGTAAATAGCTTT
1 TCAATTCACATCACTTGCTATGTAAATAGCTTT
*
45432976 TCAATTCACATCACTTGCTATGTAATTAGCTTT
1 TCAATTCACATCACTTGCTATGTAAATAGCTTT
45433009 TCA
1 TCA
45433012 CATATCAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.41
Consensus pattern (33 bp):
TCAATTCACATCACTTGCTATGTAAATAGCTTT
Found at i:45434285 original size:17 final size:18
Alignment explanation
Indices: 45434246--45434290 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
45434236 TATTTTATTA
45434246 ATTATA-ATA-TATAACT
1 ATTATATATATTATAACT
45434262 ATATATATATATTA-AACT
1 AT-TATATATATTATAACT
45434280 ATTATATATAT
1 ATTATATATAT
45434291 ACATATATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 2 0.08
17 13 0.50
18 9 0.35
19 2 0.08
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTATATATATTATAACT
Found at i:45434285 original size:19 final size:17
Alignment explanation
Indices: 45434246--45434291 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 17
45434236 TATTTTATTA
45434246 ATTATA-ATATATAACT
1 ATTATATATATATAACT
45434262 A-TATATATATATTAAACT
1 ATTATATATATA-T-AACT
45434280 ATTATATATATA
1 ATTATATATATA
45434292 CATATATGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 4 0.15
16 6 0.23
17 1 0.04
18 5 0.19
19 10 0.38
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTATATATATATAACT
Found at i:45435221 original size:29 final size:29
Alignment explanation
Indices: 45435180--45435339 Score: 133
Period size: 30 Copynumber: 5.4 Consensus size: 29
45435170 TCATTAACGA
* *
45435180 ATGAAAAGTGATAGTTTTGGCTATCGAAT
1 ATGAAAAGGGATAGCTTTGGCTATCGAAT
* * *
45435209 ATGAAAAGGGATAGCTTCGACTATCGATT
1 ATGAAAAGGGATAGCTTTGGCTATCGAAT
* * * *
45435238 ATGAAAAGGGAT-GGTGATGACCATCGAACT
1 ATGAAAAGGGATAGCT-TTGGCTATCGAA-T
* * *
45435268 ATGAAAAGAGATGGCTTTGGCTATCTAAT
1 ATGAAAAGGGATAGCTTTGGCTATCGAAT
* * *
45435297 CTTGAAAAGGGATAGCTTCGGCTATCAAATT
1 -ATGAAAAGGGATAGCTTTGGCTATCGAA-T
*
45435328 ATGTAAAGGGAT
1 ATGAAAAGGGAT
45435340 GGTGACGACC
Statistics
Matches: 103, Mismatches: 23, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
28 2 0.02
29 45 0.44
30 53 0.51
31 3 0.03
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTTGGCTATCGAAT
Found at i:45435273 original size:30 final size:30
Alignment explanation
Indices: 45435237--45435399 Score: 111
Period size: 30 Copynumber: 5.4 Consensus size: 30
45435227 GACTATCGAT
* *
45435237 TATGAAAAGGGATGGTGATGACCATCGAAC
1 TATGAAAAGGGATGGTGATGACTATCAAAC
* * * *
45435267 TATGAAAAGAGATGGCT-TTGGCTATCTAATC
1 TATGAAAAGGGATGG-TGATGACTATC-AAAC
* * *
45435298 T-TGAAAAGGGATAGCT--TCGGCTATCAAAT
1 TATGAAAAGGGAT-GGTGAT-GACTATCAAAC
* * *
45435327 TATGTAAAGGGATGGTGACGACCATC-AAC
1 TATGAAAAGGGATGGTGATGACTATCAAAC
* * *
45435356 AATGAAAAGGGATGGTGACGACTATCAAAAT
1 TATGAAAAGGGATGGTGATGACTATC-AAAC
45435387 TATGAAAAGGGAT
1 TATGAAAAGGGAT
45435400 AGCTCTGGCT
Statistics
Matches: 103, Mismatches: 21, Indels: 17
0.73 0.15 0.12
Matches are distributed among these distances:
29 31 0.30
30 53 0.51
31 19 0.18
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.24
Consensus pattern (30 bp):
TATGAAAAGGGATGGTGATGACTATCAAAC
Found at i:45435316 original size:89 final size:88
Alignment explanation
Indices: 45435179--45435443 Score: 268
Period size: 90 Copynumber: 3.0 Consensus size: 88
45435169 ATCATTAACG
* * * *
45435179 AATGAAAAGTGATAGTTTTGGCTATCGAATATGAAAAGGGATAGCTTCGACTATC-GATTATGAA
1 AATGAAAAGAGATGGCTTTGGCTATCGAATATGAAAAGGGATAGCTTCGACTATCAAATTATGAA
*
45435243 AAGGGATGGTGATGACCATCGAAC
66 AAGGGATGGTGACGACCATC-AAC
* * * * *
45435267 TATGAAAAGAGATGGCTTTGGCTATCTAATCTTGAAAAGGGATAGCTTCGGCTATCAAATTATGT
1 AATGAAAAGAGATGGCTTTGGCTATCGAAT-ATGAAAAGGGATAGCTTCGACTATCAAATTATGA
45435332 AAAGGGATGGTGACGACCATCAAC
65 AAAGGGATGGTGACGACCATCAAC
* ** * * * *
45435356 AATGAAAAGGGATGG-TGACGACTATCAAAATTATGAAAAGGGATAGC-TCTGGCTATCGAATTA
1 AATGAAAAGAGATGGCT-TTGGCTATC-GAA-TATGAAAAGGGATAGCTTC-GACTATCAAATTA
* *
45435419 TGGAAAAGGG-TGGTGCCAACCATCA
62 T-GAAAAGGGATGGTGACGACCATCA
45435444 TGTTAGTACT
Statistics
Matches: 149, Mismatches: 21, Indels: 12
0.82 0.12 0.07
Matches are distributed among these distances:
88 26 0.17
89 47 0.32
90 68 0.46
91 8 0.05
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.25
Consensus pattern (88 bp):
AATGAAAAGAGATGGCTTTGGCTATCGAATATGAAAAGGGATAGCTTCGACTATCAAATTATGAA
AAGGGATGGTGACGACCATCAAC
Found at i:45435420 original size:30 final size:30
Alignment explanation
Indices: 45435180--45435428 Score: 124
Period size: 29 Copynumber: 8.3 Consensus size: 30
45435170 TCATTAACGA
* * * *
45435180 ATGAAAAGTGATAGTTTTGGCTATCGAA-T
1 ATGAAAAGGGATAGCTCTGACTATCGAATT
45435209 ATGAAAAGGGATAGCT-TCGACTATCG-ATT
1 ATGAAAAGGGATAGCTCT-GACTATCGAATT
* * * *
45435238 ATGAAAAGGGAT-GGTGATGACCATCGAACT
1 ATGAAAAGGGATAGCT-CTGACTATCGAATT
* * * * *
45435268 ATGAAAAGAGATGGCTTTGGCTATCTAATCT
1 ATGAAAAGGGATAGCTCTGACTATCGAAT-T
* *
45435299 -TGAAAAGGGATAGCT-TCGGCTATCAAATT
1 ATGAAAAGGGATAGCTCT-GACTATCGAATT
* * * **
45435328 ATGTAAAGGGAT-GGTGAC-GACCATC-AACA
1 ATGAAAAGGGATAGCT--CTGACTATCGAATT
* *
45435357 ATGAAAAGGGAT-GGTGAC-GACTATCAAAATT
1 ATGAAAAGGGATAGCT--CTGACTATC-GAATT
*
45435388 ATGAAAAGGGATAGCTCTGGCTATCGAATT
1 ATGAAAAGGGATAGCTCTGACTATCGAATT
45435418 ATGGAAAAGGG
1 AT-GAAAAGGG
45435429 TGGTGCCAAC
Statistics
Matches: 174, Mismatches: 29, Indels: 32
0.74 0.12 0.14
Matches are distributed among these distances:
28 4 0.02
29 70 0.40
30 67 0.39
31 31 0.18
32 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.25
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTCTGACTATCGAATT
Found at i:45436981 original size:92 final size:91
Alignment explanation
Indices: 45436802--45436968 Score: 203
Period size: 92 Copynumber: 1.8 Consensus size: 91
45436792 ATGGATGCGA
* * ** * *
45436802 GTTAGGGGTGTTACATTTTTTGTTACACCATGTAAACCATCTTGTTAATGTCACCATTGAGAAAC
1 GTTAGGGGTGTTACATTTCTAGTTACACCACATAAACCATATTGTCAATGTCACCATTGAGAAA-
* *
45436867 TTCATAACCCTATTTCGGTGATGGATAT
65 -TCATAACCCTAATTCGATGATGGATAT
* * *
45436895 GTTA-GGGTGTTACATTTCTAGTTGCACTACATAAACCTTATTGTCAATGTCACCATTGAGAAA-
1 GTTAGGGGTGTTACATTTCTAGTTACACCACATAAACCATATTGTCAATGTCACCATTGAGAAAT
45436958 CATAACCCTAA
66 CATAACCCTAA
45436969 CATTCATATG
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
89 10 0.16
92 50 0.78
93 4 0.06
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (91 bp):
GTTAGGGGTGTTACATTTCTAGTTACACCACATAAACCATATTGTCAATGTCACCATTGAGAAAT
CATAACCCTAATTCGATGATGGATAT
Found at i:45442594 original size:21 final size:20
Alignment explanation
Indices: 45442564--45442605 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
45442554 ATCTTTCCAT
45442564 ACATATATAATAATAAA-AAC
1 ACATATATAATAA-AAACAAC
45442584 ACATATAATAATAAAAACAAC
1 ACATAT-ATAATAAAAACAAC
45442605 A
1 A
45442606 ATTTAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.67, C:0.12, G:0.00, T:0.21
Consensus pattern (20 bp):
ACATATATAATAAAAACAAC
Found at i:45442614 original size:21 final size:18
Alignment explanation
Indices: 45442568--45442602 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
45442558 TTCCATACAT
45442568 ATATAATAATAAAAACAC
1 ATATAATAATAAAAACAC
45442586 ATATAATAATAAAAACA
1 ATATAATAATAAAAACA
45442603 ACAATTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.23
Consensus pattern (18 bp):
ATATAATAATAAAAACAC
Found at i:45449087 original size:27 final size:26
Alignment explanation
Indices: 45449044--45449158 Score: 142
Period size: 27 Copynumber: 4.3 Consensus size: 26
45449034 AGCAGAGTTG
* * *
45449044 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
45449070 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
45449097 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
*
45449124 CCAGAACAGATATT-TACGGCATAGCCA
1 CCAGAACAGATATTGT--GGCAGAGCCA
45449151 CCAGAACA
1 CCAGAACA
45449159 CTTCCTCCAT
Statistics
Matches: 81, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
25 1 0.01
26 14 0.17
27 66 0.81
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:45449298 original size:26 final size:27
Alignment explanation
Indices: 45449262--45449349 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
45449252 AATTAACCCA
*
45449262 AGGGGTATAATAGTCATTTT-ACACCT
1 AGGGGTATAATAGTAATTTTCACACCT
* * *
45449288 AGGGGTATAATGGTAATTTTCAGACTT
1 AGGGGTATAATAGTAATTTTCACACCT
*
45449315 AGGGGTAAAATAGTAATTTCTCAC-CCT
1 AGGGGTATAATAGTAATTT-TCACACCT
*
45449342 AAGGGTAT
1 AGGGGTAT
45449350 TTCAGTAATT
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
26 18 0.36
27 29 0.58
28 3 0.06
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (27 bp):
AGGGGTATAATAGTAATTTTCACACCT
Found at i:45455385 original size:23 final size:23
Alignment explanation
Indices: 45455358--45455404 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
45455348 GTTTTGTATG
45455358 AATTGACTGGTCCTTGTAATGAA
1 AATTGACTGGTCCTTGTAATGAA
* **
45455381 AATTGATTGGTTTTTGTAATGAA
1 AATTGACTGGTCCTTGTAATGAA
45455404 A
1 A
45455405 TATGATGCTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.40
Consensus pattern (23 bp):
AATTGACTGGTCCTTGTAATGAA
Found at i:45455785 original size:13 final size:13
Alignment explanation
Indices: 45455767--45455791 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45455757 AAAAATTAAA
45455767 AAAAATATTTTTT
1 AAAAATATTTTTT
45455780 AAAAATATTTTT
1 AAAAATATTTTT
45455792 GTATACTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AAAAATATTTTTT
Found at i:45458310 original size:43 final size:43
Alignment explanation
Indices: 45458261--45458417 Score: 183
Period size: 43 Copynumber: 3.7 Consensus size: 43
45458251 TATCCTAGAT
* * *
45458261 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCTAGAC
1 ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGAC
* * * * *
45458304 AGGGTCTTACATGAAATCAAATAAT-GAAGCCAATGTCCCAAAC
1 ATGGTCTTACATGTAATCACAT-ATCGATGCCAATGTCCCAGAC
* *
45458347 ATGGTCTTACACGTAATCACA-ATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACATAT-CGATGCCAATGTCCCAGAC
*
45458390 ATGGTCTTACATGTAATCACATCTCGAT
1 ATGGTCTTACATGTAATCACATATCGAT
45458418 AACCTAATGT
Statistics
Matches: 92, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
41 2 0.02
43 87 0.95
44 3 0.03
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGAC
Found at i:45460076 original size:15 final size:15
Alignment explanation
Indices: 45459991--45460078 Score: 63
Period size: 15 Copynumber: 6.0 Consensus size: 15
45459981 CATATGTAGC
*
45459991 GTTCACACATATAAG
1 GTTCACACATATAGG
45460006 GTTCACACATAT-GG
1 GTTCACACATATAGG
* * *
45460020 GTT-GCACATCTAAG
1 GTTCACACATATAGG
* ** * *
45460034 GTTTACGTATCTAGA
1 GTTCACACATATAGG
**
45460049 GTTCACATGTATAGG
1 GTTCACACATATAGG
45460064 GTTCACACATATAGG
1 GTTCACACATATAGG
45460079 ATCTGCACAT
Statistics
Matches: 55, Mismatches: 16, Indels: 4
0.73 0.21 0.05
Matches are distributed among these distances:
13 6 0.11
14 8 0.15
15 41 0.75
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (15 bp):
GTTCACACATATAGG
Found at i:45460174 original size:33 final size:34
Alignment explanation
Indices: 45460113--45460176 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 34
45460103 TATTAAATCA
*
45460113 CATACTATATAACATCGGGGTTCGCATACTACGT
1 CATACTATATAACATCGGGGTTCACATACTACGT
*
45460147 CATACTATATAATAT-GGGGTTCACATACTA
1 CATACTATATAACATCGGGGTTCACATACTA
45460177 AAACTTTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 14 0.50
34 14 0.50
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (34 bp):
CATACTATATAACATCGGGGTTCACATACTACGT
Found at i:45463296 original size:22 final size:22
Alignment explanation
Indices: 45463264--45463308 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
45463254 TTTTAGTAAT
* *
45463264 TTTTATTTTTTTTAGATCAGGA
1 TTTTATCTTTTTAAGATCAGGA
*
45463286 TTTTATCTTTTTAAGATCGGGA
1 TTTTATCTTTTTAAGATCAGGA
45463308 T
1 T
45463309 AGCTTAATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.22, C:0.07, G:0.16, T:0.56
Consensus pattern (22 bp):
TTTTATCTTTTTAAGATCAGGA
Found at i:45466163 original size:49 final size:49
Alignment explanation
Indices: 45466094--45466276 Score: 242
Period size: 49 Copynumber: 3.7 Consensus size: 49
45466084 ATCTATTGTG
* *
45466094 TGGTCACCTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATTAT
1 TGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAAT
* * * * **
45466143 TGGTCGCATGTGCAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACT
1 TGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAA-T
* *
45466193 TCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCGGATAAT
1 T-GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-GGATAAT
45466243 TGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
1 TGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
45466277 TAGGTACCAG
Statistics
Matches: 113, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
49 71 0.63
50 4 0.04
51 38 0.34
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAAT
Done.