Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 195 of 344
Found at i:65061501 original size:62 final size:59
Alignment explanation
Indices: 65061412--65061529 Score: 157
Period size: 62 Copynumber: 1.9 Consensus size: 59
65061402 AGATTTAATA
* *
65061412 TTAAATTAGATTTAATTTAGTATTTATCTTTTAGGTAAATATT-CTATGAATTTAATAAAAT
1 TTAAATTAAATTTAATCTAGTATTTATC-TTTA--TAAATATTACTATGAATTTAATAAAAT
* *
65061473 TTAATATTAAATTTAATCTATTATTTATCTTTATAAATATTACTATTAATTTAATAA
1 TTAA-ATTAAATTTAATCTAGTATTTATCTTTATAAATATTACTATGAATTTAATAA
65061530 TAAAGTGATT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
59 8 0.16
60 14 0.27
61 8 0.16
62 21 0.41
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (59 bp):
TTAAATTAAATTTAATCTAGTATTTATCTTTATAAATATTACTATGAATTTAATAAAAT
Found at i:65064329 original size:39 final size:38
Alignment explanation
Indices: 65064227--65064349 Score: 129
Period size: 39 Copynumber: 3.1 Consensus size: 38
65064217 CACACCAGAT
* * * *
65064227 AGAAGCTCATAAGAGATGATCCAACCAAAATACACCAAA
1 AGAAGCTCATAAGAGCTGATCC-ACCGAAACACGCCAAA
* *
65064266 ATGAAGCTCATAAGAGCTGGTCCACCTGAAACACGCCAAC
1 A-GAAGCTCATAAGAGCTGATCCACC-GAAACACGCCAAA
* *
65064306 AGAAGGTCATAAGAGCTGATCCACCCGAATCACGCCAAA
1 AGAAGCTCATAAGAGCTGATCCA-CCGAAACACGCCAAA
65064345 TAGAA
1 -AGAA
65064350 AGTATAACAC
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
39 35 0.50
40 35 0.50
ACGTcount: A:0.42, C:0.26, G:0.18, T:0.14
Consensus pattern (38 bp):
AGAAGCTCATAAGAGCTGATCCACCGAAACACGCCAAA
Found at i:65065008 original size:13 final size:14
Alignment explanation
Indices: 65064976--65065007 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
65064966 AAAATTCATC
65064976 AAAAATCACTTAAT
1 AAAAATCACTTAAT
*
65064990 AAAAATCACTTAAG
1 AAAAATCACTTAAT
65065004 AAAA
1 AAAA
65065008 TTCATCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.22
Consensus pattern (14 bp):
AAAAATCACTTAAT
Found at i:65065804 original size:12 final size:12
Alignment explanation
Indices: 65065787--65065811 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65065777 GACCTGTTAC
65065787 ATTTCCTTTTAG
1 ATTTCCTTTTAG
65065799 ATTTCCTTTTAG
1 ATTTCCTTTTAG
65065811 A
1 A
65065812 CTAAGGACGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (12 bp):
ATTTCCTTTTAG
Found at i:65075055 original size:37 final size:37
Alignment explanation
Indices: 65074991--65075129 Score: 233
Period size: 37 Copynumber: 3.8 Consensus size: 37
65074981 AGCTCAGACG
* *
65074991 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
65075028 AAATCTCCACACGTAGTCATCGAGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
65075065 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
65075102 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
65075130 TAGAGCTCGG
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:65075335 original size:47 final size:47
Alignment explanation
Indices: 65075248--65075746 Score: 800
Period size: 47 Copynumber: 10.6 Consensus size: 47
65075238 CCCTTCGGGA
* * * * * * *
65075248 CTTATCACATTTATACACTTTCACATCCTTCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65075295 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65075342 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65075389 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65075438 CTTATCACGTATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65075485 CTTATCACATATATACACTTTCACAATCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
65075532 CTTATCACGTATATACGCTTTCACATTCATCACATCGGCGATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65075579 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65075626 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65075673 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65075720 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
65075747 TATTCAAATA
Statistics
Matches: 420, Mismatches: 30, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
47 374 0.89
49 46 0.11
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65079967 original size:40 final size:40
Alignment explanation
Indices: 65079776--65079945 Score: 268
Period size: 40 Copynumber: 4.2 Consensus size: 40
65079766 CCAGCATGAT
* * * * * * *
65079776 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
65079816 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
65079856 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
65079896 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
65079936 TGCTCTTCGG
1 TGCTCTTCGG
65079946 GATTTAGCCC
Statistics
Matches: 121, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 121 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:65079967 original size:80 final size:80
Alignment explanation
Indices: 65079776--65079967 Score: 285
Period size: 80 Copynumber: 2.4 Consensus size: 80
65079766 CCAGCATGAT
* * *
65079776 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACAAATGCTCTTCGGAACTTAGTCCGGATA
*
65079841 CATCACTAGCATGAA
66 CATCACTAGCACGAA
* * * *
65079856 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACAAATGCTCTTCGGAACTTAGTCCGGATA
65079921 CATCACTAGCACGAA
66 CATCACTAGCACGAA
* * *
65079936 TGCTCTTCGGGATTTAGCCCGGACATTTCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
65079968 CTCAATTCTC
Statistics
Matches: 98, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
80 98 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (80 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACAAATGCTCTTCGGAACTTAGTCCGGATA
CATCACTAGCACGAA
Found at i:65081282 original size:37 final size:37
Alignment explanation
Indices: 65081230--65081372 Score: 241
Period size: 37 Copynumber: 3.9 Consensus size: 37
65081220 CTTTAGCTCA
* *
65081230 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
65081267 GGCAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
65081304 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
65081341 GACATAATCTCCACACGTAGTCATCGGGTCTT
1 GACAAAATCTCCACACGTAGTCATCGGGTCTT
65081373 TAGAGCTCGG
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.24
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:65081578 original size:47 final size:47
Alignment explanation
Indices: 65081491--65082006 Score: 663
Period size: 47 Copynumber: 10.6 Consensus size: 47
65081481 CCCTTCGGGA
* * * * * * *
65081491 CTTATCACATTTATACACTTTCACATCCTTCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65081538 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** **
65081585 CTTATCACATATATACACTTTCCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTT-CAC--AT-T-CA---TCACA-TCGGC-CATTAG-------GC
*
65081649 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65081698 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65081745 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65081792 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65081839 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65081886 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
65081933 CTTATCACGTATATACACTTTCACATTCATCACATCGACTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65081980 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
65082007 TATTCAAATA
Statistics
Matches: 419, Mismatches: 31, Indels: 38
0.86 0.06 0.08
Matches are distributed among these distances:
47 347 0.83
48 3 0.01
49 10 0.02
50 2 0.00
51 1 0.00
52 2 0.00
55 5 0.01
56 6 0.01
57 7 0.02
58 5 0.01
61 2 0.00
62 1 0.00
63 2 0.00
64 10 0.02
65 3 0.01
66 13 0.03
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65081612 original size:17 final size:16
Alignment explanation
Indices: 65081589--65081627 Score: 69
Period size: 17 Copynumber: 2.4 Consensus size: 16
65081579 TTAGGCCTTA
65081589 TCACATATATACACTT
1 TCACATATATACACTT
65081605 TCCACATATATACACTT
1 T-CACATATATACACTT
65081622 TCACAT
1 TCACAT
65081628 TCATCACATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.36, C:0.28, G:0.00, T:0.36
Consensus pattern (16 bp):
TCACATATATACACTT
Found at i:65081615 original size:64 final size:64
Alignment explanation
Indices: 65081542--65081676 Score: 245
Period size: 64 Copynumber: 2.1 Consensus size: 64
65081532 CTCGGCCCTG
65081542 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTT
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTT
65081605 TCCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
1 T-CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACT
65081670 T
64 T
65081671 TCACAT
1 TCACAT
65081677 TCATCACATC
Statistics
Matches: 69, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
63 1 0.01
64 50 0.72
65 5 0.07
66 13 0.19
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (64 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTT
Found at i:65081658 original size:31 final size:31
Alignment explanation
Indices: 65081558--65081658 Score: 93
Period size: 31 Copynumber: 3.2 Consensus size: 31
65081548 ATATACACTT
65081558 TCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATTCATCACATCGGCCATTAGGCCTTA
* **
65081589 TCACATAT-ATACACTTTC--CACATATATACACTT-
1 TCACAT-TCAT-CAC-ATCGGC-CAT-TAGGC-CTTA
65081622 TCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATTCATCACATCGGCCATTAGGCCTTA
65081653 TCACAT
1 TCACAT
65081659 ATATATACAC
Statistics
Matches: 54, Mismatches: 6, Indels: 20
0.68 0.08 0.25
Matches are distributed among these distances:
30 3 0.06
31 20 0.37
32 14 0.26
33 14 0.26
34 3 0.06
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.32
Consensus pattern (31 bp):
TCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:65081695 original size:113 final size:110
Alignment explanation
Indices: 65081490--65081723 Score: 333
Period size: 113 Copynumber: 2.1 Consensus size: 110
65081480 GCCCTTCGGG
* * * * * *
65081490 ACTTATCACATTTATACACTTTCACATCCTTCACGTTGGCCACTCGGCCCTGTCACATATATACA
1 ACTT-TCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACA
65081555 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
65 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* * *
65081601 ACTTTCCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 ACTTT-CACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCAC--ATATATA
* *
65081666 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACGTATATAC
63 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
65081714 ACTTTCACAT
1 ACTTTCACAT
65081724 TCATCACATC
Statistics
Matches: 109, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
110 1 0.01
111 45 0.41
112 5 0.05
113 58 0.53
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (110 bp):
ACTTTCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:65081867 original size:141 final size:141
Alignment explanation
Indices: 65081607--65082006 Score: 737
Period size: 141 Copynumber: 2.8 Consensus size: 141
65081597 ATACACTTTC
65081607 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTT
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTT
65081672 CACATTCATCACATCGGCTATTAGGCCTTATCACGTATATACACTTTCACATTCATCACATCGGC
64 CACATTCATCACATCGGCTATTAGGCCTTATCACGTATATACACTTTCACATTCATCACATCGGC
65081737 CATTAGGCCTTAT
129 CATTAGGCCTTAT
*
65081750 CACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
65081815 CATTCATCACATCGGCTATTAGGCCTTATCACGTATATACACTTTCACATTCATCACATCGGCCA
66 CATTCATCACATCGGCTATTAGGCCTTATCACGTATATACACTTTCACATTCATCACATCGGCCA
65081880 TTAGGCCTTAT
131 TTAGGCCTTAT
* *
65081891 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACGTATATACACTTTCA
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
* *
65081956 CATTCATCACATCGACTATTAGGCCTTATCACATATATACACTTTCACATT
66 CATTCATCACATCGGCTATTAGGCCTTATCACGTATATACACTTTCACATT
65082007 TATTCAAATA
Statistics
Matches: 251, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
141 202 0.80
143 49 0.20
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.33
Consensus pattern (141 bp):
CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
CATTCATCACATCGGCTATTAGGCCTTATCACGTATATACACTTTCACATTCATCACATCGGCCA
TTAGGCCTTAT
Found at i:65087900 original size:41 final size:41
Alignment explanation
Indices: 65087838--65087987 Score: 194
Period size: 41 Copynumber: 3.7 Consensus size: 41
65087828 TTGGGGTTTA
65087838 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* *
65087879 AATCTGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGACAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
65087920 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
65087960 AATTCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
65087988 TGAGTCAGCG
Statistics
Matches: 89, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 30 0.34
41 59 0.66
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:65091128 original size:54 final size:55
Alignment explanation
Indices: 65091045--65091155 Score: 197
Period size: 54 Copynumber: 2.0 Consensus size: 55
65091035 ATTGTATGGC
*
65091045 AGCCTTGTATTTGAAATTTGAAATTCAAACACAAACTACTTGATCTTATCCTTGA
1 AGCCTTGTATTTGAAATTTGAAATCCAAACACAAACTACTTGATCTTATCCTTGA
*
65091100 AGCC-TGTATTTGAAATTTGAAATCCAAACACAAACTAGTTGATCTTATCCTTGA
1 AGCCTTGTATTTGAAATTTGAAATCCAAACACAAACTACTTGATCTTATCCTTGA
65091154 AG
1 AG
65091156 TTGATGCCAA
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
54 50 0.93
55 4 0.07
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (55 bp):
AGCCTTGTATTTGAAATTTGAAATCCAAACACAAACTACTTGATCTTATCCTTGA
Found at i:65096671 original size:31 final size:30
Alignment explanation
Indices: 65096614--65096672 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
65096604 GTAAATACTC
* *
65096614 AAAATTTAAGGGATTAAAGTGTAAATATGA
1 AAAATTTAAGGGACTAAAGTGAAAATATGA
65096644 AAAATTTGAAGGG-CTAATAGTGAAAATAT
1 AAAATTT-AAGGGACTAA-AGTGAAAATAT
65096673 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.49, C:0.02, G:0.20, T:0.29
Consensus pattern (30 bp):
AAAATTTAAGGGACTAAAGTGAAAATATGA
Found at i:65096679 original size:24 final size:22
Alignment explanation
Indices: 65096637--65096680 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
65096627 TTAAAGTGTA
65096637 AATATGAAAAATTTGAAGGGCT
1 AATATGAAAAATTTGAAGGGCT
*
65096659 AATAGTGAAAATATTTTAAGGG
1 AATA-TGAAAA-ATTTGAAGGG
65096681 TGGAAGGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 6 0.32
24 9 0.47
ACGTcount: A:0.45, C:0.02, G:0.23, T:0.30
Consensus pattern (22 bp):
AATATGAAAAATTTGAAGGGCT
Found at i:65104600 original size:43 final size:43
Alignment explanation
Indices: 65104539--65104661 Score: 185
Period size: 43 Copynumber: 2.9 Consensus size: 43
65104529 GTTGTCGAGG
* *
65104539 TGTGATTACATGTAAGACCATTTCTGGGACATTGGCATTGTAT
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAT
65104582 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * *
65104625 TATGATT-CGTGTAAGACCCTGTCTAGGACAGTGGCAT
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCAT
65104662 CAATATGTGA
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
42 27 0.36
43 47 0.64
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.34
Consensus pattern (43 bp):
TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:65112819 original size:49 final size:49
Alignment explanation
Indices: 65112743--65112866 Score: 153
Period size: 49 Copynumber: 2.5 Consensus size: 49
65112733 GATGCCAACG
65112743 CCATGTCCCAGACATGGTCTTACACTGGCT-TCCATATAGCGAG-GTCGATA
1 CCATGTCCCAGACA-GGTCTTACACTGGCTCT-CATATAGCG-GTGTCGATA
* * * *
65112793 CCATGTCCTAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCGATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCGGTGTCGATA
* *
65112842 CCATGTCCCAAACAGGTGTTACACT
1 CCATGTCCCAGACAGGTCTTACACT
65112867 AACACACAAC
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
48 1 0.02
49 50 0.77
50 14 0.22
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (49 bp):
CCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCGGTGTCGATA
Found at i:65112996 original size:46 final size:46
Alignment explanation
Indices: 65112887--65113100 Score: 139
Period size: 48 Copynumber: 4.6 Consensus size: 46
65112877 AAGCTGACGC
* * * *
65112887 CATGTCCCAGACAGGTCTTACACTAGCT-T-GTATATGGCAAGGCAGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCG--TCT--CAATGCCGATG
*
65112935 CATGTCCCAGGCATGTCTTACACTAGCTCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATG
* * * ** * * *
65112981 CATGTCTCAGACATGTCTTACACTGGAT-TAAATATCTCGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT---CGTCTCAATGCCGATG
** * * * * **
65113029 CATGTCTTAGACATTTCTTACGCTGGCTCTCGTAT-TGTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT-GCCGATG
65113075 CATGTCCCAGACATGTCTTACACTAG
1 CATGTCCCAGACATGTCTTACACTAG
65113101 TACACATATC
Statistics
Matches: 129, Mismatches: 30, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
45 1 0.01
46 62 0.48
48 63 0.49
49 2 0.02
50 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATG
Found at i:65113003 original size:94 final size:94
Alignment explanation
Indices: 65112887--65113100 Score: 234
Period size: 94 Copynumber: 2.3 Consensus size: 94
65112877 AAGCTGACGC
* * ** * *
65112887 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATGGCAAGG-CAGATGCATGTCCCAGGCATGT
1 CATGTCCCAGACATGTCTTACACTAGATTAAATATCGCAAGGCCA-ATGCATGTCCCAGACATGT
*
65112951 CTTACACTAGCTCTCGTCTCAAT-GCCGATG
65 CTTACACTAGCTCTCGTAT-AATGGCCGATG
* * * * ** *
65112981 CATGTCTCAGACATGTCTTACACTGGATTAAATATCTCGAGGCCAATGCATGTCTTAGACATTTC
1 CATGTCCCAGACATGTCTTACACTAGATTAAATATCGCAAGGCCAATGCATGTCCCAGACATGTC
* * **
65113046 TTACGCTGGCTCTCGTATTGTGGCCGATG
66 TTACACTAGCTCTCGTATAATGGCCGATG
65113075 CATGTCCCAGACATGTCTTACACTAG
1 CATGTCCCAGACATGTCTTACACTAG
65113101 TACACATATC
Statistics
Matches: 98, Mismatches: 20, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
93 1 0.01
94 95 0.97
95 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.29
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGATTAAATATCGCAAGGCCAATGCATGTCCCAGACATGTC
TTACACTAGCTCTCGTATAATGGCCGATG
Found at i:65122047 original size:48 final size:47
Alignment explanation
Indices: 65121981--65122195 Score: 184
Period size: 48 Copynumber: 4.6 Consensus size: 47
65121971 AAGTTGACCC
* * *
65121981 CATGTCTCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-TATATCTCGAGGCCGATG
** * * * ***
65122029 CATGTCTTAGACATGTCTTACACTAGCTCT-CATCTCAATATCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTTATATCTCGAGGCCGATG
* * * * *
65122075 CATGTCCCAGACATGTCTTACATTGGCTTAAATATCTTGAAGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-TATATCTCGAGGCCGATG
* * *
65122123 CATGTCCCAGACATGTCTTACACTGGCTCTCATAT-T-GTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TTATATCTCGAGGCCGATG
* * *
65122169 GATGTCCTAGACATGTCTTGCACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
65122196 ATACATATCA
Statistics
Matches: 135, Mismatches: 29, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
46 65 0.48
47 2 0.01
48 67 0.50
49 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.31
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTTATATCTCGAGGCCGATG
Found at i:65122110 original size:94 final size:94
Alignment explanation
Indices: 65121887--65122155 Score: 242
Period size: 94 Copynumber: 2.9 Consensus size: 94
65121877 ATGTTGACGC
* ** * * * *
65121887 CATGTCCCAGACATGGTCTTACACTGGCTTTTATATAGCGAGGCTGATGCCATGTCCCAGACAGG
1 CATGTCCCAGACA-GGTCTTACACTAGCTTAAATATCGCGAAGCCGATG-CATGTCCCAGACATG
* * * **
65121952 TCTTACACT-G-ACACA-CGACAAGT-T-GACCC
64 TCTTACACTAGCTCTCATC-TCAA-TATCGA-TG
* ** * **
65121981 CATGTCTCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCCGATGCATGTCTTAGACATGTC
1 CATGTCCCAGACAGGTCTTACACTAGCTTAAATATCGCGAAGCCGATGCATGTCCCAGACATGTC
65122046 TTACACTAGCTCTCATCTCAATATCGATG
66 TTACACTAGCTCTCATCTCAATATCGATG
* * * **
65122075 CATGTCCCAGACATGTCTTACATTGGCTTAAATATCTTGAAGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACAGGTCTTACACTAGCTTAAATATCGCGAAGCCGATGCATGTCCCAGACATGTC
*
65122140 TTACACTGGCTCTCAT
66 TTACACTAGCTCTCAT
65122156 ATTGTGGCCG
Statistics
Matches: 145, Mismatches: 25, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
92 21 0.14
93 33 0.23
94 88 0.61
95 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (94 bp):
CATGTCCCAGACAGGTCTTACACTAGCTTAAATATCGCGAAGCCGATGCATGTCCCAGACATGTC
TTACACTAGCTCTCATCTCAATATCGATG
Found at i:65122168 original size:94 final size:94
Alignment explanation
Indices: 65121981--65122204 Score: 234
Period size: 94 Copynumber: 2.4 Consensus size: 94
65121971 AAGTTGACCC
* * ** * **
65121981 CATGTCTCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCCGATGCATGTCTTAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAAGCCGATGCATGTCCCAGACATGTC
* *
65122046 TTACACTAGCTCTCATCTCAATATCGATG
66 TTACACTAGCTCTCATATCAATACCGATG
* * **
65122075 CATGTCCCAGACATGTCTTACATTGGCTTAAATATCTTGAAGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAAGCCGATGCATGTCCCAGACATGTC
* ** *
65122140 TTACACTGGCTCTCATAT-TGTGGCCGATG
66 TTACACTAGCTCTCATATCAAT-ACCGATG
* * * * *
65122169 GATGTCCTAGACATGTCTTGCACTAGCATACATATC
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATC
65122205 ACCCAATGTC
Statistics
Matches: 105, Mismatches: 24, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
93 1 0.01
94 104 0.99
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAAGCCGATGCATGTCCCAGACATGTC
TTACACTAGCTCTCATATCAATACCGATG
Found at i:65122203 original size:46 final size:46
Alignment explanation
Indices: 65122021--65122203 Score: 147
Period size: 46 Copynumber: 3.9 Consensus size: 46
65122011 TATATCGCGA
** * * **
65122021 GGCCGATGCATGTCTTAGACATGTCTTACACTAGCTCTCATCTCAAT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCACATAT-TGT
** * * * *
65122068 -ATCGATGCATGTCCCAGACATGTCTTACATTGGCTTAAATATCT-T
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCACATAT-TGT
* *
65122113 GAAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATTGT
1 G--GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCACATATTGT
* * *
65122161 GGCCGATGGATGTCCTAGACATGTCTTGCACTAGCAT-ACATAT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGC-TCACATAT
65122204 CACCCAATGT
Statistics
Matches: 109, Mismatches: 22, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
45 1 0.01
46 68 0.62
47 2 0.02
48 38 0.35
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (46 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCACATATTGT
Found at i:65124395 original size:14 final size:14
Alignment explanation
Indices: 65124378--65124412 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
65124368 TTTAGATAAG
*
65124378 TTTTCAAGTTATGT
1 TTTTAAAGTTATGT
65124392 TTTTAAAGTTATG-
1 TTTTAAAGTTATGT
65124405 TTTTAAAG
1 TTTTAAAG
65124413 AAAAGTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.29, C:0.03, G:0.14, T:0.54
Consensus pattern (14 bp):
TTTTAAAGTTATGT
Found at i:65126719 original size:40 final size:40
Alignment explanation
Indices: 65126663--65126745 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
65126653 ATCTCCATCT
*
65126663 CATTGCCTTGTATCTTAAACTATATAT-ATAACCCTATGGC
1 CATTGCCATGTATCTTAAACTATAT-TCATAACCCTATGGC
*
65126703 CATTGCCATGTTTCTTAAACTATATTCATAACCCTATGGC
1 CATTGCCATGTATCTTAAACTATATTCATAACCCTATGGC
65126743 CAT
1 CAT
65126746 GTGGAAAGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
39 1 0.03
40 39 0.98
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (40 bp):
CATTGCCATGTATCTTAAACTATATTCATAACCCTATGGC
Found at i:65130414 original size:5 final size:5
Alignment explanation
Indices: 65130400--65130432 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
65130390 TTGTGTGTGT
65130400 TTTTA TTTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TT
65130433 CTCAAATTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:65134862 original size:5 final size:5
Alignment explanation
Indices: 65134848--65134877 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
65134838 TTGTGTGTGT
65134848 TTTTA TTTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTT
65134878 CTCACTTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:65141689 original size:10 final size:10
Alignment explanation
Indices: 65141672--65141719 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
65141662 AAATTCTAAC
65141672 AGATAAATACA
1 AGATAAATA-A
65141683 A-ATAAATAA
1 AGATAAATAA
*
65141692 AGATAATTAA
1 AGATAAATAA
65141702 AGATAAATGAA
1 AGATAAAT-AA
65141713 A-ATAAAT
1 AGATAAAT
65141720 CCTAAAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 2 0.06
10 27 0.82
11 4 0.12
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (10 bp):
AGATAAATAA
Found at i:65143603 original size:55 final size:54
Alignment explanation
Indices: 65143516--65143770 Score: 251
Period size: 55 Copynumber: 4.8 Consensus size: 54
65143506 ATTAGGGTTT
*
65143516 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * ** *
65143571 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTTATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * * *
65143626 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTAGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* *
65143679 AAGGATACCATGTAAGACCATGTCAAGACATGTCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
65143728 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
65143771 GTACTCGTGT
Statistics
Matches: 167, Mismatches: 26, Indels: 20
0.78 0.12 0.09
Matches are distributed among these distances:
49 39 0.23
52 7 0.04
53 39 0.23
54 11 0.07
55 67 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:65143722 original size:108 final size:110
Alignment explanation
Indices: 65143523--65143723 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
65143513 TTTAAGGATA
* *
65143523 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
* *
65143588 CCATGTCAAGACATGGCATTTATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
65143633 CCATGTAAGACCATGCCAAGGCATGGC-ATTAGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
* *
65143695 ACCATGTCAAGACATGTCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
65143724 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.56
109 6 0.07
110 27 0.33
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:65148075 original size:15 final size:14
Alignment explanation
Indices: 65148027--65148089 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
65148017 TTAATATCTA
65148027 AAAAT-AATAA-AT
1 AAAATAAATAAGAT
*
65148039 AAGAT-AATAAGAT
1 AAAATAAATAAGAT
65148052 AAAATAAATAAGA-
1 AAAATAAATAAGAT
*
65148065 ATAAATGAAATAAAATT
1 A-AAAT-AAATAAGA-T
65148082 AAAATAAA
1 AAAATAAA
65148090 AATTAGGTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
12 9 0.21
13 7 0.17
14 11 0.26
15 10 0.24
16 4 0.10
17 1 0.02
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.22
Consensus pattern (14 bp):
AAAATAAATAAGAT
Found at i:65159867 original size:20 final size:19
Alignment explanation
Indices: 65159822--65159870 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
65159812 AATTTATCTG
* *
65159822 TATTAATAGTTTTATGTAT
1 TATTAACAGTTTTATATAT
*
65159841 TAGTTAACAGTTTTGATATTT
1 TA-TTAACAGTTTT-ATATAT
65159862 TATTAACAG
1 TATTAACAG
65159871 ATATTTTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 2 0.08
20 17 0.68
21 6 0.24
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.51
Consensus pattern (19 bp):
TATTAACAGTTTTATATAT
Found at i:65168162 original size:26 final size:25
Alignment explanation
Indices: 65168117--65168264 Score: 158
Period size: 26 Copynumber: 5.8 Consensus size: 25
65168107 TTCAAATTAT
* * *
65168117 TTTATGTATTATTTATTTTAAACTG
1 TTTATATACTATTTATTTTAAATTG
65168142 TTTCATATACTATTTATTTTAAATCAT-
1 TTT-ATATACTATTTATTTTAAAT--TG
65168169 TTTATATACTATTTATTTTAAATTG
1 TTTATATACTATTTATTTTAAATTG
** *
65168194 TCTTATATGTTATTTATTTCAAATTG
1 T-TTATATACTATTTATTTTAAATTG
*
65168220 ATTTATATATTATTTATTTTAAATTG
1 -TTTATATACTATTTATTTTAAATTG
65168246 TTT-TATA-TATTTTATTTTA
1 TTTATATACTA-TTTATTTTA
65168265 TTTTATTTTA
Statistics
Matches: 108, Mismatches: 8, Indels: 15
0.82 0.06 0.11
Matches are distributed among these distances:
23 2 0.02
24 14 0.13
25 7 0.06
26 80 0.74
27 4 0.04
28 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (25 bp):
TTTATATACTATTTATTTTAAATTG
Found at i:65168182 original size:52 final size:50
Alignment explanation
Indices: 65168110--65168283 Score: 181
Period size: 52 Copynumber: 3.4 Consensus size: 50
65168100 TTTCAGCTTC
* * *
65168110 AAATTATTTTATGTATTATTTATTTTAAACTGTTTCATATACTATTTATTTT
1 AAATCATTTTATATATTATTTATTTTAAATTGTTT-ATATA-TATTTATTTT
* * *
65168162 AAATCATTTTATATACTATTTATTTTAAATTGTCTTATATGTTATTTATTTC
1 AAATCATTTTATATATTATTTATTTTAAATTGT-TTATAT-ATATTTATTTT
*
65168214 AAATTGA-TTTATATATTATTTATTTTAAATTGTTT-TATATATTTTATTTT
1 AAA-TCATTTTATATATTATTTATTTTAAATTGTTTATATATA-TTTATTTT
** * *
65168264 ATTTTATTTTAAATATTATT
1 AAATCATTTTATATATTATT
65168284 CAATTGGTAA
Statistics
Matches: 103, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
49 4 0.04
50 23 0.22
51 2 0.02
52 70 0.68
53 4 0.04
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (50 bp):
AAATCATTTTATATATTATTTATTTTAAATTGTTTATATATATTTATTTT
Found at i:65168192 original size:78 final size:76
Alignment explanation
Indices: 65168110--65168283 Score: 206
Period size: 78 Copynumber: 2.3 Consensus size: 76
65168100 TTTCAGCTTC
* *
65168110 AAATTATTTTATGTATTATTTATTTTAAACTG-TTTCATATACTATTTATTTTAAATCATTTTAT
1 AAATTATTTTATATATTATTTATTTCAAACTGATTT-ATATACTATTTATTTTAAATCATTTTAT
65168174 ATACTATTTATTTT
65 ATA-T-TTTATTTT
* * * * * **
65168188 AAATTGTCTTATATGTTATTTATTTCAAATTGATTTATATATTATTTATTTTAAATTGTTTTATA
1 AAATTATTTTATATATTATTTATTTCAAACTGATTTATATACTATTTATTTTAAATCATTTTATA
65168253 TATTTTATTTT
66 TATTTTATTTT
** *
65168264 ATTTTATTTTAAATATTATT
1 AAATTATTTTATATATTATT
65168284 CAATTGGTAA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
76 22 0.28
77 1 0.01
78 54 0.68
79 3 0.04
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (76 bp):
AAATTATTTTATATATTATTTATTTCAAACTGATTTATATACTATTTATTTTAAATCATTTTATA
TATTTTATTTT
Found at i:65168273 original size:24 final size:24
Alignment explanation
Indices: 65168110--65168280 Score: 119
Period size: 26 Copynumber: 6.7 Consensus size: 24
65168100 TTTCAGCTTC
*
65168110 AAATTATTTTATGTATTATTTATTTT
1 AAATTATTTTATATA-T-TTTATTTT
* * *
65168136 AAACTGTTTCATATACTATTTATTTT
1 AAATTATTTTATATA-T-TTTATTTT
*
65168162 AAATCATTTTATATACTATTTATTTT
1 AAATTATTTTATATA-T-TTTATTTT
* * * *
65168188 AAATTGTCTTATATGTTATTTATTTC
1 AAATTATTTTATAT-AT-TTTATTTT
65168214 AAATTGA-TTTATATATTATTTATTTT
1 AAATT-ATTTTATATA-T-TTTATTTT
*
65168240 AAATTGTTTTATATATTTTATTTT
1 AAATTATTTTATATATTTTATTTT
** *
65168264 ATTTTATTTTAAATATT
1 AAATTATTTTATATATT
65168281 ATTCAATTGG
Statistics
Matches: 118, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
24 21 0.18
25 1 0.01
26 96 0.81
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (24 bp):
AAATTATTTTATATATTTTATTTT
Found at i:65172875 original size:26 final size:27
Alignment explanation
Indices: 65172846--65172898 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
65172836 TAATTTTTCA
65172846 TATT-TTATAAATACTTTAATTA-CTTT
1 TATTATTA-AAATACTTTAATTATCTTT
*
65172872 TATTATTAAAATATTTTAATTATCTTT
1 TATTATTAAAATACTTTAATTATCTTT
65172899 AAAATAACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (27 bp):
TATTATTAAAATACTTTAATTATCTTT
Found at i:65177266 original size:43 final size:43
Alignment explanation
Indices: 65177205--65177291 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
65177195 ATCGTAAAAT
* *
65177205 TATTTTAATATTATTTTAAGTGTCTACAGTATCATAATATGTA
1 TATTTTAATATTATTTTAAGTGTCTACAGCATCAGAATATGTA
* *
65177248 TATTTTAATATTATTTTAAGTGTTTACAGCATGAGAATATGTA
1 TATTTTAATATTATTTTAAGTGTCTACAGCATCAGAATATGTA
65177291 T
1 T
65177292 GTGTGAAAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.48
Consensus pattern (43 bp):
TATTTTAATATTATTTTAAGTGTCTACAGCATCAGAATATGTA
Found at i:65178382 original size:40 final size:40
Alignment explanation
Indices: 65178309--65178492 Score: 183
Period size: 40 Copynumber: 4.6 Consensus size: 40
65178299 TGACAAATCA
** * *
65178309 ACTATA-AGTGGCACTTAGTGTGTGATTCAACATAGTTTCG
1 ACTATATA-TGGCACTTAGTGTGCAATTCGACATAGCTTCG
* *
65178349 ACTATATGTGGCACTTAGTGTGCAATTTGACATAGCTTC-
1 ACTATATATGGCACTTAGTGTGCAATTCGACATAGCTTCG
* * *
65178388 AGCTATATATGGAACTTAGTGTGCAAGATCGAGATAGCTTCG
1 A-CTATATATGGCACTTAGTGTGCAA-TTCGACATAGCTTCG
* * * * *
65178430 ACTATATATGGCACTTAGTGTACGATTTGAGATAGATTCG
1 ACTATATATGGCACTTAGTGTGCAATTCGACATAGCTTCG
* *
65178470 GCTATGTATGGCACTTAGTGTGC
1 ACTATATATGGCACTTAGTGTGC
65178493 GAGATATCGA
Statistics
Matches: 120, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.01
40 86 0.72
41 32 0.27
42 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (40 bp):
ACTATATATGGCACTTAGTGTGCAATTCGACATAGCTTCG
Found at i:65178442 original size:81 final size:81
Alignment explanation
Indices: 65178340--65178497 Score: 226
Period size: 81 Copynumber: 2.0 Consensus size: 81
65178330 GTGATTCAAC
* * * *
65178340 ATAGTTTCGACTATATGTGGCACTTAGTGTGCAATTTGACATAGCTTCAGCTATATATGGAACTT
1 ATAGCTTCGACTATATATGGCACTTAGTGTACAATTTGACATAGATTCAGCTATATATGGAACTT
65178405 AGTGTGCAAGATCGAG
66 AGTGTGCAAGATCGAG
* * * * *
65178421 ATAGCTTCGACTATATATGGCACTTAGTGTACGATTTGAGATAGATTCGGCTATGTATGGCACTT
1 ATAGCTTCGACTATATATGGCACTTAGTGTACAATTTGACATAGATTCAGCTATATATGGAACTT
*
65178486 AGTGTGCGAGAT
66 AGTGTGCAAGAT
65178498 ATCGAGCACT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 67 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.34
Consensus pattern (81 bp):
ATAGCTTCGACTATATATGGCACTTAGTGTACAATTTGACATAGATTCAGCTATATATGGAACTT
AGTGTGCAAGATCGAG
Found at i:65180222 original size:16 final size:17
Alignment explanation
Indices: 65180194--65180237 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 17
65180184 ACGAATGAGC
65180194 AGGGAAAGAAAGAAGGAAAA
1 AGGGAAAGAAA-AA-G-AAA
65180214 AGGGAAAGAAAAAGAAA
1 AGGGAAAGAAAAAGAAA
65180231 AGGGAAA
1 AGGGAAA
65180238 ATTAGGGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.42
18 1 0.04
19 2 0.08
20 11 0.46
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (17 bp):
AGGGAAAGAAAAAGAAA
Found at i:65181083 original size:6 final size:6
Alignment explanation
Indices: 65181072--65181103 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
65181062 TCTGTACCTG
*
65181072 ACTGTT ACTGTT ACTATT ACTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
65181104 CCTTACGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.47
Consensus pattern (6 bp):
ACTGTT
Found at i:65181109 original size:18 final size:18
Alignment explanation
Indices: 65181072--65181109 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
65181062 TCTGTACCTG
*
65181072 ACTGTTACTGTTACTATT
1 ACTGTTACTGTTACCATT
*
65181090 ACTGTTACTGTTACCCTT
1 ACTGTTACTGTTACCATT
65181108 AC
1 AC
65181110 GGTGTATTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.45
Consensus pattern (18 bp):
ACTGTTACTGTTACCATT
Found at i:65183848 original size:20 final size:20
Alignment explanation
Indices: 65183779--65183848 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
65183769 CGCTTGTACT
* *
65183779 TGTTTGCACTTTGGTGCCTC
1 TGTTTGCACTTCGATGCCTC
* *
65183799 TATTTGCA-TTCCAGTGCCTC
1 TGTTTGCACTTCGA-TGCCTC
* * *
65183819 TTTTTACACTTCGATGTCTC
1 TGTTTGCACTTCGATGCCTC
65183839 TGTTTGCACT
1 TGTTTGCACT
65183849 CTGGTACGAT
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
19 2 0.05
20 32 0.84
21 4 0.11
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (20 bp):
TGTTTGCACTTCGATGCCTC
Found at i:65186078 original size:47 final size:48
Alignment explanation
Indices: 65186007--65186278 Score: 233
Period size: 46 Copynumber: 5.8 Consensus size: 48
65185997 GGGGTAAGGT
65186007 GCCGATGACATGTCCTAGACATGGTCTTACACTGGCCCAT-ATCTC-AA
1 GCCGATG-CATGTCCTAGACATGGTCTTACACTGGCCCATCATCTCGAA
** * * * *
65186054 TTCGATGCCATGTCCCAGACATGGTCTTACACT-GACTATCATCTCGTA
1 GCCGATG-CATGTCCTAGACATGGTCTTACACTGGCCCATCATCTCGAA
** *
65186102 GCCGATGCATGTCCTAGACAT-GTCTTACACTGGCTTA-CATCTCGAG
1 GCCGATGCATGTCCTAGACATGGTCTTACACTGGCCCATCATCTCGAA
* * * * *
65186148 GCCGATGCATGTCCTAGACAT-GTCTTACACTAGCAC-TCGTCTTGAT
1 GCCGATGCATGTCCTAGACATGGTCTTACACTGGCCCATCATCTCGAA
* * * *
65186194 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGT-G--
1 GCCGATG-CATGTCCTAGACATGGTCTTACACTGGC-C-CATCATCTCGAA
* * *
65186242 GCTGATGCATGTCCCAGACAT-GTCTTACACTAGCCCA
1 GCCGATGCATGTCCTAGACATGGTCTTACACTGGCCCA
65186279 CAATGACCCA
Statistics
Matches: 186, Mismatches: 30, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
44 2 0.01
45 1 0.01
46 79 0.42
47 75 0.40
48 24 0.13
50 2 0.01
51 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCGATGCATGTCCTAGACATGGTCTTACACTGGCCCATCATCTCGAA
Found at i:65186144 original size:46 final size:47
Alignment explanation
Indices: 65186007--65186272 Score: 221
Period size: 47 Copynumber: 5.7 Consensus size: 47
65185997 GGGGTAAGGT
* * * * *
65186007 GCCGATGACATGTCCTAGACATGGTCTTACACTGGCCCATATCTC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGG-CTACATCTCGTA
** *
65186054 TTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTA-CATCTCGTA
*
65186102 GCCGATG-CATGTCCTAGACAT-GTCTTACACTGGCTTACATCTCG-A
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TACATCTCGTA
* * *
65186147 GGCCGATG-CATGTCCTAGACAT-GTCTTACACTAGC-AC-TCGTCTTGA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACATC-TCGT-A
* * * *
65186193 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-ACAT-CTCGTA
*
65186242 GCTGATG-CATGTCCCAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
65186273 AGCCCACAAT
Statistics
Matches: 182, Mismatches: 24, Indels: 27
0.78 0.10 0.12
Matches are distributed among these distances:
43 2 0.01
44 4 0.02
45 1 0.01
46 72 0.40
47 75 0.41
48 24 0.13
50 2 0.01
51 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACATCTCGTA
Found at i:65186254 original size:94 final size:92
Alignment explanation
Indices: 65186056--65186275 Score: 252
Period size: 94 Copynumber: 2.3 Consensus size: 92
65186046 TATCTCAATT
* * *
65186056 CGATGCCATGTCCCAGACATGGTCTTACACT-G-ACTATCATCTCG-TAGCCGATGCATGTCCTA
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCAC--TCGTCTTGAT-GCCGATGCATGTCCCA
* *
65186118 GACATGTCTTACACTGGCTTACATCTCGAGGC
61 AACATGTCTTACACTGGCTTACATATCGAGGC
*
65186150 CGATGCATGTCCTAGACATGTCTTACACTAGCACTCGTCTTGATGCCGATGCCATGTCCCAAACA
1 CGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTGATGCCGATG-CATGTCCCAAACA
*
65186215 TGGTCTTACACTGGCTCT-CATAAT-GTGGC
65 T-GTCTTACACTGGCT-TACAT-ATCGAGGC
*
65186244 TGATGCATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
65186276 CCACAATGAC
Statistics
Matches: 110, Mismatches: 9, Indels: 14
0.83 0.07 0.11
Matches are distributed among these distances:
92 23 0.21
93 27 0.25
94 58 0.53
95 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (92 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTGATGCCGATGCATGTCCCAAACAT
GTCTTACACTGGCTTACATATCGAGGC
Found at i:65186267 original size:140 final size:141
Alignment explanation
Indices: 65186007--65186272 Score: 360
Period size: 140 Copynumber: 1.9 Consensus size: 141
65185997 GGGGTAAGGT
* * * *
65186007 GCCGATGACATGTCCTAGACATGGTCTTACACTGGCCCATATCTCAATTCGATGCCATGTCCCAG
1 GCCGATGACATGTCCTAGACATGGTCTTACACTAGCACATATCTCAATCCGATGCCATGTCCCAA
* *
65186072 ACATGGTCTTACACTGACTATCATCTCGTAGCCGATGCATGTCCTAGACATGTCTTACACTGGCT
66 ACATGGTCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCT
65186137 TACATCTCGAG
131 TACATCTCGAG
* **
65186148 GCCGATG-CATGTCCTAGACAT-GTCTTACACTAGCAC-TCGTCTTGATGCCGATGCCATGTCCC
1 GCCGATGACATGTCCTAGACATGGTCTTACACTAGCACAT-ATCTCAAT-CCGATGCCATGTCCC
* * * *
65186210 AAACATGGTCTTACACTGGCTCTCATAAT-GTGGCTGATGCATGTCCCAGACATGTCTTACACT
64 AAACATGGTCTTACACTGACTATCAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTTACACT
65186273 AGCCCACAAT
Statistics
Matches: 109, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
138 1 0.01
139 18 0.17
140 82 0.75
141 8 0.07
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (141 bp):
GCCGATGACATGTCCTAGACATGGTCTTACACTAGCACATATCTCAATCCGATGCCATGTCCCAA
ACATGGTCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCT
TACATCTCGAG
Found at i:65198067 original size:3 final size:3
Alignment explanation
Indices: 65197992--65198049 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
65197982 TTTTAAATCG
65197992 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
65198040 TTA TTA TTA T
1 TTA TTA TTA T
65198050 CATCATCATT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:65198779 original size:21 final size:21
Alignment explanation
Indices: 65198739--65198779 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
65198729 TTTTCTTGAA
*
65198739 TTTTGTAGATCAAAATCATTG
1 TTTTGTAAATCAAAATCATTG
65198760 TTTTAGTAAATCAAAA-CATT
1 TTTT-GTAAATCAAAATCATT
65198780 TTATTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (21 bp):
TTTTGTAAATCAAAATCATTG
Found at i:65201576 original size:23 final size:23
Alignment explanation
Indices: 65201549--65201593 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
65201539 CTTGATACAT
*
65201549 GGCTCTTTGTGAGCTTTCTGATA
1 GGCTCTTCGTGAGCTTTCTGATA
*
65201572 GGCTCTTCGTGAGTTTTCTGAT
1 GGCTCTTCGTGAGCTTTCTGAT
65201594 TAAAAGTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.11, C:0.18, G:0.27, T:0.44
Consensus pattern (23 bp):
GGCTCTTCGTGAGCTTTCTGATA
Found at i:65205643 original size:29 final size:29
Alignment explanation
Indices: 65205610--65205669 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
65205600 TTTAATTCAC
*
65205610 AATTTAACCCCTCAATTTACATTTTT-CTA
1 AATTTAACCCCT-AATATACATTTTTACTA
* *
65205639 AATTTAATCCCTAATATGCATTTTTACTA
1 AATTTAACCCCTAATATACATTTTTACTA
65205668 AA
1 AA
65205670 AATCACTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.35, C:0.20, G:0.02, T:0.43
Consensus pattern (29 bp):
AATTTAACCCCTAATATACATTTTTACTA
Found at i:65208878 original size:50 final size:51
Alignment explanation
Indices: 65208815--65208941 Score: 148
Period size: 50 Copynumber: 2.5 Consensus size: 51
65208805 TTAGGTAACG
* * * * *
65208815 TGTGTAGTACTAAGTGCAGGCTCCTACATGTACCAGAT-GGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACACGTACCAGATAGCTTAGATCACA
** * *
65208865 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACACGTACCAGATAGCTTAGATCACA
* *
65208916 TGTGTGGTACTAAGTGCAGGCCACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
65208942 TGTGTAAAAG
Statistics
Matches: 65, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
50 33 0.51
51 32 0.49
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTACACGTACCAGATAGCTTAGATCACA
Found at i:65208936 original size:51 final size:51
Alignment explanation
Indices: 65208863--65208978 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 51
65208853 GGTTAGGTCG
* * ***
65208863 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGATCA
1 CATGTGTGGTACTAAGTGCAGGCCACTATGCGTAAAAGATAGCTTCGATCA
* * *
65208914 CATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGTCA
1 CATGTGTGGTACTAAGTGCAGGCCACTATGCGTAAAAGATAGCTTCGATCA
*
65208965 CAGGTGTGGTACTA
1 CATGTGTGGTACTA
65208979 TGTAAAGGCC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (51 bp):
CATGTGTGGTACTAAGTGCAGGCCACTATGCGTAAAAGATAGCTTCGATCA
Found at i:65208988 original size:51 final size:51
Alignment explanation
Indices: 65208900--65208996 Score: 131
Period size: 51 Copynumber: 1.9 Consensus size: 51
65208890 ATGCGTACCC
* **
65208900 GATAGCTTCGATCACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAAA
1 GATAGCTTCGATCACAGGTGTGGTACTAAGTAAAGGCCACTATGTGTAAAA
* * * *
65208951 GATAGCTTTGGTCACAGGTGTGGTACTATGTAAAGGCCACTTTGTG
1 GATAGCTTCGATCACAGGTGTGGTACTAAGTAAAGGCCACTATGTG
65208997 AAGAAGGTAG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 39 1.00
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (51 bp):
GATAGCTTCGATCACAGGTGTGGTACTAAGTAAAGGCCACTATGTGTAAAA
Found at i:65213860 original size:22 final size:22
Alignment explanation
Indices: 65213835--65213876 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
65213825 TAAAAAATAC
*
65213835 TAATACTTAAATAGTAGTAACA
1 TAATACTGAAATAGTAGTAACA
* *
65213857 TAATAGTGAAATTGTAGTAA
1 TAATACTGAAATAGTAGTAA
65213877 AATAGGGAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.33
Consensus pattern (22 bp):
TAATACTGAAATAGTAGTAACA
Found at i:65221121 original size:21 final size:21
Alignment explanation
Indices: 65221095--65221134 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
65221085 TCTGCTCAAA
* *
65221095 CTCCACCTGTTTTGGAGTACG
1 CTCCACCTGCTGTGGAGTACG
65221116 CTCCACCTGCTGTGGAGTA
1 CTCCACCTGCTGTGGAGTA
65221135 TTGCTCGTCT
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:0.15, C:0.30, G:0.25, T:0.30
Consensus pattern (21 bp):
CTCCACCTGCTGTGGAGTACG
Found at i:65237201 original size:21 final size:21
Alignment explanation
Indices: 65237176--65237219 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
65237166 TCATGGAGAA
65237176 ATTCTAAATTTTATGAATTAC
1 ATTCTAAATTTTATGAATTAC
*
65237197 ATTCTGAATTTTATGAATTAC
1 ATTCTAAATTTTATGAATTAC
65237218 AT
1 AT
65237220 GGGCTATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (21 bp):
ATTCTAAATTTTATGAATTAC
Found at i:65237881 original size:64 final size:64
Alignment explanation
Indices: 65237777--65237898 Score: 154
Period size: 64 Copynumber: 1.9 Consensus size: 64
65237767 ATCCCAATCT
* * * ** * *
65237777 GTATTGATCCTATATGTGTTGCGGACATATCGTAGCTCTTTGTGAGCGTCTTGTTATATGATTG
1 GTATTGATCCTACATGTATTGCGGACATACCACAGCTCTTTATGAGCGTCTTGATATATGATTG
* * *
65237841 GTATTGATCCTGCATGTATTGCGGATATACCACAGTTCTTTATGAGCGTCTTGATATA
1 GTATTGATCCTACATGTATTGCGGACATACCACAGCTCTTTATGAGCGTCTTGATATA
65237899 GGCTCCTTGT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
64 48 1.00
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.40
Consensus pattern (64 bp):
GTATTGATCCTACATGTATTGCGGACATACCACAGCTCTTTATGAGCGTCTTGATATATGATTG
Found at i:65238010 original size:24 final size:24
Alignment explanation
Indices: 65237982--65238043 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
65237972 TGGATCTTTA
*
65237982 GAGCTACCTGTTATTGGCTCGCAT
1 GAGCTTCCTGTTATTGGCTCGCAT
**
65238006 GAGCTTCCTGATTA-TGGCTCTTAT
1 GAGCTTCCTG-TTATTGGCTCGCAT
*
65238030 GAGCTTCCCGTTAT
1 GAGCTTCCTGTTAT
65238044 ACAGCCAGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 3 0.09
24 26 0.81
25 3 0.09
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (24 bp):
GAGCTTCCTGTTATTGGCTCGCAT
Found at i:65239579 original size:50 final size:49
Alignment explanation
Indices: 65239398--65239636 Score: 316
Period size: 49 Copynumber: 4.8 Consensus size: 49
65239388 GTAGTCAAAG
* * * * * *
65239398 TTATCTGGTACACATAGTAGCCTGCACATGGTACTACACATGCGACCAA
1 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
65239447 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
1 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
65239496 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AA
** * * *
65239546 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAG
1 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAA
* * * *
65239597 TTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
65239637 TGCGACCTCA
Statistics
Matches: 169, Mismatches: 18, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
49 90 0.53
50 43 0.25
51 35 0.21
52 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (49 bp):
TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
Found at i:65239588 original size:99 final size:100
Alignment explanation
Indices: 65239398--65239643 Score: 334
Period size: 99 Copynumber: 2.5 Consensus size: 100
65239388 GTAGTCAAAG
* * * * ** *
65239398 TTATCTGGTACACATAGTAGCCTGCACATGGTACTACACATGCGACCAATTATCCGGTACACGTA
1 TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTA
65239463 GTAGCCTGCACTTAGTACTACACACGTGA-C-CAA
66 GTAGCCTGCACTTAGTACTACACACGTGATCACAA
* * *
65239496 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGT
1 TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCCGATACACGT
*
65239561 AGTAGCCTGCACTTAGTACTACACACGTGATCACAG
65 AGTAGCCTGCACTTAGTACTACACACGTGATCACAA
* * * *
65239597 TTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
65239644 TCACAATAGA
Statistics
Matches: 128, Mismatches: 17, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
98 41 0.32
99 43 0.34
100 1 0.01
101 43 0.34
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (100 bp):
TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTA
GTAGCCTGCACTTAGTACTACACACGTGATCACAA
Found at i:65249333 original size:13 final size:13
Alignment explanation
Indices: 65249317--65249362 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
65249307 CGTTTTAAAT
65249317 TTTTTATTTAATA
1 TTTTTATTTAATA
*
65249330 TTTTTAATTAATA
1 TTTTTATTTAATA
* *
65249343 TTATT-TTCAA-A
1 TTTTTATTTAATA
65249354 TTTTTATTT
1 TTTTTATTT
65249363 TAATTTATTT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
11 5 0.19
12 5 0.19
13 16 0.62
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTTATTTAATA
Found at i:65253833 original size:15 final size:15
Alignment explanation
Indices: 65253813--65253845 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
65253803 TTTAAAATAC
65253813 TTTTTTTATTTTACT
1 TTTTTTTATTTTACT
65253828 TTTTTTTATTTTACT
1 TTTTTTTATTTTACT
65253843 TTT
1 TTT
65253846 ACTTTTAATT
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:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTTATTTTACT
Found at i:65256389 original size:19 final size:21
Alignment explanation
Indices: 65256350--65256391 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
65256340 AAATTTTTTA
65256350 TATTTTTATATTAACTACTTT
1 TATTTTTATATTAACTACTTT
*
65256371 TATTTTT-TA-TAATTACTTT
1 TATTTTTATATTAACTACTTT
65256390 TA
1 TA
65256392 GAAATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 11 0.55
20 2 0.10
21 7 0.35
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTTTTATATTAACTACTTT
Found at i:65257023 original size:88 final size:88
Alignment explanation
Indices: 65256895--65257081 Score: 229
Period size: 88 Copynumber: 2.1 Consensus size: 88
65256885 TTTTTTAAAA
* *
65256895 AATTAAGCTCC-TACCTTTTTTTACACTTAATTAGGCACTTAAACTTTTAAAATGCATCAAAAA-
1 AATTAAGC-CCTTACCTTTTTTTACACTTAATTAGACACTTAAACTTTCAAAATGCAT-AAAAAC
* * *
65256958 GGCCCTTAAACTTCTTCAAAAAAAGT
64 GACCCTCAAACTTCTTC-AAAAAAGC
* *
65256984 AATTAAGCCCTTA-CTTTTTTTCCACTTAATT-GACAACTTAAACTTTCAAAATGCATAAAAACT
1 AATTAAGCCCTTACCTTTTTTTACACTTAATTAGAC-ACTTAAACTTTCAAAATGCATAAAAACG
* *
65257047 ACCCTCAAATTTTTTCAAAAAAGC
65 ACCCTCAAACTTCTTCAAAAAAGC
65257071 AATTAAGCCCT
1 AATTAAGCCCT
65257082 ACTCTTATTA
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
87 25 0.29
88 51 0.59
89 10 0.12
ACGTcount: A:0.39, C:0.21, G:0.06, T:0.34
Consensus pattern (88 bp):
AATTAAGCCCTTACCTTTTTTTACACTTAATTAGACACTTAAACTTTCAAAATGCATAAAAACGA
CCCTCAAACTTCTTCAAAAAAGC
Found at i:65257163 original size:18 final size:19
Alignment explanation
Indices: 65257134--65257174 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
65257124 ATTTTATAAA
*
65257134 AAAAATATTAAATTTTAAT
1 AAAAATATTAAAATTTAAT
*
65257153 AAAAATA-TAAAATTTATT
1 AAAAATATTAAAATTTAAT
65257171 AAAA
1 AAAA
65257175 TTTTTATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATATTAAAATTTAAT
Found at i:65257172 original size:21 final size:21
Alignment explanation
Indices: 65257126--65257174 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 21
65257116 AACAACATAT
*
65257126 TTTA-TAAAAAAAATATTAAA
1 TTTATTAAAAAAAATATAAAA
*
65257146 -TT-TTAATAAAAATATAAAA
1 TTTATTAAAAAAAATATAAAA
65257165 TTTATTAAAA
1 TTTATTAAAA
65257175 TTTTTATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
19 16 0.70
20 2 0.09
21 5 0.22
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TTTATTAAAAAAAATATAAAA
Found at i:65258202 original size:24 final size:26
Alignment explanation
Indices: 65258157--65258205 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
65258147 AATAAAAAAT
*
65258157 TTTAAAAATATAAAAAATCAAATATA
1 TTTAAAAACATAAAAAATCAAATATA
65258183 TTTAAAAACAT-AAAAA-CAAATAT
1 TTTAAAAACATAAAAAATCAAATAT
65258206 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 5 0.23
26 10 0.45
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (26 bp):
TTTAAAAACATAAAAAATCAAATATA
Found at i:65258936 original size:16 final size:16
Alignment explanation
Indices: 65258915--65258962 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
65258905 TTTTAAAGAA
65258915 AATATATACATAAAAT
1 AATATATACATAAAAT
*
65258931 AATATA-ACAT-CAAT
1 AATATATACATAAAAT
*
65258945 AATATATACATAGAAT
1 AATATATACATAAAAT
65258961 AA
1 AA
65258963 GAAAATAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 9 0.32
15 8 0.29
16 11 0.39
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.29
Consensus pattern (16 bp):
AATATATACATAAAAT
Found at i:65258945 original size:14 final size:15
Alignment explanation
Indices: 65258915--65258955 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
65258905 TTTTAAAGAA
*
65258915 AATATATACATAAAAT
1 AATATATACAT-CAAT
65258931 AATATA-ACATCAAT
1 AATATATACATCAAT
65258945 AATATATACAT
1 AATATATACAT
65258956 AGAATAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 9 0.39
15 8 0.35
16 6 0.26
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.32
Consensus pattern (15 bp):
AATATATACATCAAT
Found at i:65260664 original size:19 final size:19
Alignment explanation
Indices: 65260640--65260744 Score: 108
Period size: 19 Copynumber: 5.5 Consensus size: 19
65260630 CTTTATAAAA
65260640 ATTTTATAATTTTTTATAT
1 ATTTTATAATTTTTTATAT
* *
65260659 ATTTTATTA-TTTTTATAAA
1 ATTTTATAATTTTTTAT-AT
*
65260678 ATTTTACAATTTTTTATAT
1 ATTTTATAATTTTTTATAT
*
65260697 -TTTTATGAATTTTATATAT
1 ATTTTAT-AATTTTTTATAT
* *
65260716 ATTTTTATAATTTTTAATAA
1 A-TTTTATAATTTTTTATAT
65260736 ATTTT-TAAT
1 ATTTTATAAT
65260745 GTTTAATTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
18 16 0.23
19 32 0.45
20 17 0.24
21 6 0.08
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (19 bp):
ATTTTATAATTTTTTATAT
Found at i:65260668 original size:12 final size:10
Alignment explanation
Indices: 65260641--65260742 Score: 79
Period size: 10 Copynumber: 10.5 Consensus size: 10
65260631 TTTATAAAAA
65260641 TTTTATAATT
1 TTTTATAATT
*
65260651 TTTTAT-ATA
1 TTTTATAATT
*
65260660 TTTTATTA-T
1 TTTTATAATT
**
65260669 TTTTATAAAA
1 TTTTATAATT
*
65260679 TTTTACAATT
1 TTTTATAATT
65260689 TTTTAT-A-T
1 TTTTATAATT
65260697 TTTTATGAATT
1 TTTTAT-AATT
*
65260708 TTATAT-ATAT
1 TTTTATAAT-T
65260718 TTTTATAATT
1 TTTTATAATT
* *
65260728 TTTAATAAAT
1 TTTTATAATT
65260738 TTTTA
1 TTTTA
65260743 ATGTTTAATT
Statistics
Matches: 72, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
8 7 0.10
9 18 0.25
10 39 0.54
11 8 0.11
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (10 bp):
TTTTATAATT
Found at i:65260683 original size:38 final size:39
Alignment explanation
Indices: 65260631--65260740 Score: 134
Period size: 38 Copynumber: 2.8 Consensus size: 39
65260621 TTCTTACGAC
*
65260631 TTTATAAAAATTTTATAATTTTTTATATATTTTAT-TATT
1 TTTAT-AAAATTTTATAATTTTTTATATATTTTATGAATT
*
65260670 TTTATAAAATTTTACAATTTTTTATAT-TTTTATGAATT
1 TTTATAAAATTTTATAATTTTTTATATATTTTATGAATT
* * * *
65260708 TTATATATATTTTTATAATTTTTAATAAATTTT
1 TT-TATAAAATTTTATAATTTTTTATATATTTT
65260741 TAATGTTTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
37 6 0.10
38 26 0.43
39 25 0.41
40 4 0.07
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (39 bp):
TTTATAAAATTTTATAATTTTTTATATATTTTATGAATT
Found at i:65260730 original size:9 final size:9
Alignment explanation
Indices: 65260641--65260742 Score: 82
Period size: 9 Copynumber: 10.6 Consensus size: 9
65260631 TTTATAAAAA
65260641 TTTTATAAT
1 TTTTATAAT
65260650 TTTT-TATAT
1 TTTTATA-AT
*
65260659 ATTTTATTAT
1 -TTTTATAAT
*
65260669 TTTTATAAAA
1 TTTTAT-AAT
*
65260679 TTTTACAAT
1 TTTTATAAT
65260688 TTTT-TATAT
1 TTTTATA-AT
65260697 TTTTATGAAT
1 TTTTAT-AAT
65260707 TTTATATATAT
1 TTT-TATA-AT
65260718 TTTTATAAT
1 TTTTATAAT
65260727 TTTTAATAAAT
1 TTTT-AT-AAT
65260738 TTTTA
1 TTTTA
65260743 ATGTTTAATT
Statistics
Matches: 76, Mismatches: 6, Indels: 21
0.74 0.06 0.20
Matches are distributed among these distances:
8 3 0.04
9 30 0.39
10 26 0.34
11 17 0.22
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:65260810 original size:21 final size:20
Alignment explanation
Indices: 65260786--65260824 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
65260776 TTATAGCTTT
65260786 TATTGATTTTAAATTTTTATA
1 TATT-ATTTTAAATTTTTATA
* *
65260807 TATTTTTTTGAATTTTTA
1 TATTATTTTAAATTTTTA
65260825 ATAAAAGCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (20 bp):
TATTATTTTAAATTTTTATA
Found at i:65261001 original size:90 final size:88
Alignment explanation
Indices: 65260835--65261053 Score: 275
Period size: 90 Copynumber: 2.5 Consensus size: 88
65260825 ATAAAAGCAA
* * * * *
65260835 AGGCTTAACTGCTTTTTTTTT-AAATAAATTTGAGGGTCTTTTTTATGCATTTTGAAAGTTCAAG
1 AGGCTTAATTGCTTTTTTTTTGAAA-AAGTTTGAGGG-CTTTTTGATGCATTTTGAAAATCCAAG
*
65260899 TACCCAATTGAGTGCAAAAAAAAATAG
64 TACCCAAATGAGTG-AAAAAAAAA-AG
* * *
65260926 AGGCTTAATTGCTTTTTTTTTGAAAATGTTTGAGGGCCTTTTGATGTATTTTGAAAATCCAAGTA
1 AGGCTTAATTGCTTTTTTTTTGAAAAAGTTTGAGGGCTTTTTGATGCATTTTGAAAATCCAAGTA
*
65260991 CCCAAATGAGTGAAAAAAATAAG
66 CCCAAATGAGTGAAAAAAAAAAG
*
65261014 -GGCTTAATT--TCTTTTTTTGAAAAAGTTTGAGGGCTTTTTG
1 AGGCTTAATTGCTTTTTTTTTGAAAAAGTTTGAGGGCTTTTTG
65261054 CACCCTTAAG
Statistics
Matches: 114, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
85 28 0.25
87 9 0.08
88 2 0.02
89 8 0.07
90 35 0.31
91 29 0.25
92 3 0.03
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.40
Consensus pattern (88 bp):
AGGCTTAATTGCTTTTTTTTTGAAAAAGTTTGAGGGCTTTTTGATGCATTTTGAAAATCCAAGTA
CCCAAATGAGTGAAAAAAAAAAG
Found at i:65268276 original size:21 final size:22
Alignment explanation
Indices: 65268237--65268277 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
65268227 TCGAATTAGT
65268237 CACACAGGCGTGTTGCCCCTCC
1 CACACAGGCGTGTTGCCCCTCC
*
65268259 CACACGGGCGTG-TGCCCCT
1 CACACAGGCGTGTTGCCCCT
65268278 GTATCTAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.44, G:0.27, T:0.17
Consensus pattern (22 bp):
CACACAGGCGTGTTGCCCCTCC
Found at i:65268640 original size:41 final size:42
Alignment explanation
Indices: 65268548--65268707 Score: 182
Period size: 41 Copynumber: 3.9 Consensus size: 42
65268538 ATACTTGATA
* * * * * *
65268548 TCTCGCACACTAAGTGCCAAAGCATAGCCAAACCTATTATAA
1 TCTCGCACACTAAGTGCCAAATCATAGCCGAAGCTATCACAG
* **
65268590 TCTCACACACTAAGTGCC-TTTCATAGCCGAAGCTATCACAG
1 TCTCGCACACTAAGTGCCAAATCATAGCCGAAGCTATCACAG
* *
65268631 TCTCGCACACTAAGTGCC-ATTCATAGCCGAAGCTATCTCAG
1 TCTCGCACACTAAGTGCCAAATCATAGCCGAAGCTATCACAG
* *
65268672 TCTAGCACACTAAGTGCCATAT-ATAGCCGAAGCTAT
1 TCTCGCACACTAAGTGCCAAATCATAGCCGAAGCTAT
65268708 TCCGATTCGC
Statistics
Matches: 102, Mismatches: 15, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
41 84 0.82
42 18 0.18
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (42 bp):
TCTCGCACACTAAGTGCCAAATCATAGCCGAAGCTATCACAG
Found at i:65272769 original size:24 final size:24
Alignment explanation
Indices: 65272742--65272788 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
65272732 TGTATGTGTG
65272742 TGAACATAATGGGTGGTTTAATTA
1 TGAACATAATGGGTGGTTTAATTA
65272766 TGAACATAATGGGTGGTTTAATT
1 TGAACATAATGGGTGGTTTAATT
65272789 GTTATGCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.32, C:0.04, G:0.26, T:0.38
Consensus pattern (24 bp):
TGAACATAATGGGTGGTTTAATTA
Found at i:65274371 original size:32 final size:32
Alignment explanation
Indices: 65274335--65274399 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
65274325 TGTATGCATT
65274335 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
65274367 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
65274399 T
1 T
65274400 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:65277422 original size:10 final size:10
Alignment explanation
Indices: 65277382--65277427 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
65277372 AAAAAGGAAT
*
65277382 GAGCTGAAAC
1 GAGCTAAAAC
65277392 GAGCTAAAATC
1 GAGCTAAAA-C
* *
65277403 AAGCTCAAAC
1 GAGCTAAAAC
65277413 GAGCTAAAAC
1 GAGCTAAAAC
65277423 GAGCT
1 GAGCT
65277428 CAAGTGAGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.13
Consensus pattern (10 bp):
GAGCTAAAAC
Found at i:65277437 original size:20 final size:21
Alignment explanation
Indices: 65277383--65277430 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
65277373 AAAAGGAATG
*
65277383 AGCTGAAACGAGCTAAAATCA
1 AGCTCAAACGAGCTAAAATCA
*
65277404 AGCTCAAACGAGCTAAAA-CG
1 AGCTCAAACGAGCTAAAATCA
65277424 AGCTCAA
1 AGCTCAA
65277431 GTGAGCTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.46, C:0.23, G:0.19, T:0.12
Consensus pattern (21 bp):
AGCTCAAACGAGCTAAAATCA
Found at i:65278455 original size:20 final size:20
Alignment explanation
Indices: 65278411--65278448 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
65278401 CCACGAATTG
*
65278411 TTTTATTGATAAGATTATAA
1 TTTTATTGATAAAATTATAA
*
65278431 TTTTATTTATAAAATTAT
1 TTTTATTGATAAAATTAT
65278449 TTTTTTAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTTATTGATAAAATTATAA
Found at i:65278576 original size:18 final size:18
Alignment explanation
Indices: 65278541--65278578 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
65278531 TTTTACCAAA
**
65278541 AAATATTTTTTATTTTTT
1 AAATATTTTTTAACTTTT
65278559 AAATATTTTTTAACTTTT
1 AAATATTTTTTAACTTTT
65278577 AA
1 AA
65278579 CTTTTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
AAATATTTTTTAACTTTT
Found at i:65282557 original size:23 final size:23
Alignment explanation
Indices: 65282531--65282575 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
65282521 AAAAATTAAG
65282531 TAAAACATTAAAACATTCCAATA
1 TAAAACATTAAAACATTCCAATA
* *
65282554 TAAAACATTAAGACATTGCAAT
1 TAAAACATTAAAACATTCCAAT
65282576 CCAAAAGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.53, C:0.16, G:0.04, T:0.27
Consensus pattern (23 bp):
TAAAACATTAAAACATTCCAATA
Found at i:65282581 original size:23 final size:23
Alignment explanation
Indices: 65282532--65282581 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
65282522 AAAATTAAGT
*
65282532 AAAACATTAAAACATTCCAATAT
1 AAAACATTAAAACATTCCAATAC
* * *
65282555 AAAACATTAAGACATTGCAATCC
1 AAAACATTAAAACATTCCAATAC
65282578 AAAA
1 AAAA
65282582 GTAACCATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.56, C:0.18, G:0.04, T:0.22
Consensus pattern (23 bp):
AAAACATTAAAACATTCCAATAC
Found at i:65284340 original size:26 final size:26
Alignment explanation
Indices: 65284311--65284361 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
65284301 ATATACCCAT
* *
65284311 GAACTGCTTA-ATACCCCAATGAACAG
1 GAACTG-TTATATAACCCAACGAACAG
65284337 GAACTGTTATATAACCCAACGAACA
1 GAACTGTTATATAACCCAACGAACA
65284362 TTGCTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.41, C:0.25, G:0.14, T:0.20
Consensus pattern (26 bp):
GAACTGTTATATAACCCAACGAACAG
Found at i:65289357 original size:5 final size:5
Alignment explanation
Indices: 65289349--65289379 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
65289339 CAAACAAAGA
65289349 GAAGG GAAGG GAAGG GAAGG GAAGG GAAGG G
1 GAAGG GAAGG GAAGG GAAGG GAAGG GAAGG G
65289380 GAAAAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (5 bp):
GAAGG
Found at i:65290291 original size:20 final size:21
Alignment explanation
Indices: 65290262--65290306 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
65290252 ACATAAAAAG
*
65290262 ATATTTTTTTGGTAAATTACA
1 ATATTTTTTTAGTAAATTACA
65290283 ATATTTTTTTAGTAAATTACA
1 ATATTTTTTTAGTAAATTACA
65290304 ATA
1 ATA
65290307 ATAAGGTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (21 bp):
ATATTTTTTTAGTAAATTACA
Found at i:65292561 original size:37 final size:37
Alignment explanation
Indices: 65292481--65292572 Score: 95
Period size: 37 Copynumber: 2.5 Consensus size: 37
65292471 TTTATTTTAA
*
65292481 TATAA-TATATATTTCATATATTTTTATCAATTAGTTT
1 TATAACTATATATTTTAT-TATTTTTATCAATTAGTTT
*
65292518 CA-AACTATATATTTTATTATTTATTAT-ATATTA-TTT
1 TATAACTATATATTTTATTATTT-TTATCA-ATTAGTTT
65292554 TATAACTA-ATATTTATATT
1 TATAACTATATATTT-TATT
65292573 CTAATTATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
36 18 0.38
37 29 0.62
ACGTcount: A:0.37, C:0.05, G:0.01, T:0.57
Consensus pattern (37 bp):
TATAACTATATATTTTATTATTTTTATCAATTAGTTT
Found at i:65295516 original size:393 final size:385
Alignment explanation
Indices: 65294743--65295516 Score: 997
Period size: 393 Copynumber: 2.0 Consensus size: 385
65294733 GTTGAATTAC
* * * *
65294743 AATTAAAATATTAATTTTGTACTTTTCAAAATTTTTAATGATATTTTTAAAAAATTAAAATGATT
1 AATTAAAATATTAATTTTGCACTTTTCAAAATTTTTAATGATAGTTTTAAAAAATCAAAAAGATT
65294808 ATAAAAATATATATAATTTTTTTCTAAAATTATAAAACAATTAATTTTTAAAAAATAATTCTATG
66 ATAAAAATATATATAATTTTTTTCTAAAATTATAAAACAATTAATTTTTAAAAAATAATTCTATG
* *
65294873 TATTTTAAATAAAAATAAAAATAAGGTATAATGCCAAAAATAGCCCTTAACATTTGCTTGATCAA
131 TATTTTAAATAAAAATAAAAATAAGGCATAATACCAAAAATAGCCCTTAACATTTGCTTGATCAA
* * ** * * * *
65294938 TCACTTTGGTCTTTATTCTTTTTATTTTTGAAGCCCTTTAACTCTGATGGTTTCGTTTTTGATCA
196 TCACTTTGGCCTTTATTC--TTTATTTCTGAAGAACTTTAACACTGATAGTTTCATTTTTGATAA
* *
65295003 AATTGATCATTTCTTGATAGAATTGACGATGTGACCATTAGTTGACTAACAGTCAACGGCATGCA
259 AATTGATCATTTCTTGACAGAATTGACGATGTGACCATTAGTTGACTAACAGTCAACAGCATGCA
* * * * *
65295068 CCAATGTGGCACTTTACATGTGTATAATTGTTGACATGGTGCTATTTTGTCTTATATGTTAT
324 CCAATGTGGAACTCTACATGTATATAATTGCTGACATGGTGCTATTTTATCTTATATGTTAT
*
65295130 AATTAAAATATTAATTTTGCACTTTTCAAAATTTTTAATGATAGTTTTAAAAAATCAAAAAGTTT
1 AATTAAAATATTAATTTTGCACTTTTCAAAATTTTTAATGATAGTTTTAAAAAATCAAAAAGATT
*
65295195 ATAAAAATATATATAATTTGTTTTCTAAAATTATAAAA-TA-TAA-TTTTAAAAATATAATTCTA
66 ATAAAAATATATATAATTT-TTTTCTAAAATTATAAAACAATTAATTTTTAAAAA-ATAATTCTA
65295257 TGTATTTTAAAAAAATAAAAATACATAAAATTTAAAAGGCATAATACCAAAAATAGCCCTTTAAC
129 TGTATTTT----AAATAAAAAT--A-AAAA--T--AAGGCATAATACCAAAAATAGCCC-TTAAC
* * *
65295322 GTTT-TTCTGATCAATCACTTTGGCCTTTATTC-TT-TTTCT-AAGAACTTTAACACTTATAGTT
182 ATTTGCT-TGATCAATCACTTTGGCCTTTATTCTTTATTTCTGAAGAACTTTAACACTGATAGTT
* * * *
65295383 TCATTTTTGATAAAATTGATCAATTTC-TGACGGAATTGACGATGTGTCCGTTAGTTGACTAATA
246 TCATTTTTGATAAAATTGATC-ATTTCTTGACAGAATTGACGATGTGACCATTAGTTGACTAACA
* **** * *
65295447 GTCTACAGCATGTGTTAATGTGGAACTCTACATGTATATAATTGCTGACGTGGTGTTATTTTATC
310 GTCAACAGCATGCACCAATGTGGAACTCTACATGTATATAATTGCTGACATGGTGCTATTTTATC
65295512 TTATA
375 TTATA
65295517 CGTCATATCA
Statistics
Matches: 334, Mismatches: 37, Indels: 26
0.84 0.09 0.07
Matches are distributed among these distances:
385 9 0.03
386 20 0.06
387 80 0.24
388 18 0.05
390 10 0.03
392 1 0.00
393 129 0.39
394 9 0.03
395 3 0.01
397 23 0.07
398 32 0.10
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (385 bp):
AATTAAAATATTAATTTTGCACTTTTCAAAATTTTTAATGATAGTTTTAAAAAATCAAAAAGATT
ATAAAAATATATATAATTTTTTTCTAAAATTATAAAACAATTAATTTTTAAAAAATAATTCTATG
TATTTTAAATAAAAATAAAAATAAGGCATAATACCAAAAATAGCCCTTAACATTTGCTTGATCAA
TCACTTTGGCCTTTATTCTTTATTTCTGAAGAACTTTAACACTGATAGTTTCATTTTTGATAAAA
TTGATCATTTCTTGACAGAATTGACGATGTGACCATTAGTTGACTAACAGTCAACAGCATGCACC
AATGTGGAACTCTACATGTATATAATTGCTGACATGGTGCTATTTTATCTTATATGTTAT
Found at i:65301811 original size:91 final size:92
Alignment explanation
Indices: 65301658--65301862 Score: 250
Period size: 91 Copynumber: 2.2 Consensus size: 92
65301648 TGCTCGACCA
* * * *
65301658 ATGGTTTATCCACAATGTATTTTAGTCAACAGTCATCTACTCAACCAGTGGTTTATCCACAACAT
1 ATGGTTCATCCACAATGTATTCTAGTCAACAATCATCTACTCAACCAGTGGTTTATCAACAACAT
* *
65301723 ATTAGCAACTTTTATCTTCACAAATGG
66 ATTAGCAACTTTTATCTGCACAAACGG
* * * * * * *
65301750 ATGGTTCATCCACTA-GTATTCTAGTCTACAATTATCTGCTCGACTAGTGGTTTATCAACAACGT
1 ATGGTTCATCCACAATGTATTCTAGTCAACAATCATCTACTCAACCAGTGGTTTATCAACAACAT
* *
65301814 ATTAGCAATTTTTATCTGCACAGACGG
66 ATTAGCAACTTTTATCTGCACAAACGG
*
65301841 ATGGTTCATCCACCAATATATT
1 ATGGTTCATCCA-CAATGTATT
65301863 TATCATTACC
Statistics
Matches: 94, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
91 75 0.80
92 15 0.16
93 4 0.04
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (92 bp):
ATGGTTCATCCACAATGTATTCTAGTCAACAATCATCTACTCAACCAGTGGTTTATCAACAACAT
ATTAGCAACTTTTATCTGCACAAACGG
Found at i:65303428 original size:7 final size:6
Alignment explanation
Indices: 65303406--65303447 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
65303396 TGGCAAATTA
*
65303406 AAAAGG AAAATG AAAATG AAAA-- AAAATG AAAATG AAAA-G AAA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAA
65303448 CTTTATAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
4 4 0.12
5 4 0.12
6 25 0.76
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.10
Consensus pattern (6 bp):
AAAATG
Found at i:65303433 original size:16 final size:16
Alignment explanation
Indices: 65303412--65303443 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
65303402 ATTAAAAAGG
65303412 AAAATGAAAATGAAAA
1 AAAATGAAAATGAAAA
65303428 AAAATGAAAATGAAAA
1 AAAATGAAAATGAAAA
65303444 GAAACTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (16 bp):
AAAATGAAAATGAAAA
Found at i:65303436 original size:22 final size:21
Alignment explanation
Indices: 65303405--65303447 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
65303395 GTGGCAAATT
65303405 AAAAAGGAAAATGAAAATGAAA
1 AAAAAGGAAAATGAAAA-GAAA
*
65303427 AAAAATGAAAATGAAAAGAAA
1 AAAAAGGAAAATGAAAAGAAA
65303448 CTTTATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.09
Consensus pattern (21 bp):
AAAAAGGAAAATGAAAAGAAA
Found at i:65304187 original size:71 final size:71
Alignment explanation
Indices: 65304071--65304206 Score: 182
Period size: 71 Copynumber: 1.9 Consensus size: 71
65304061 AAATGATTTA
* * * * *
65304071 ACACATATTTTTCAGTTTTACCGACCAGCGCATGGCTCATTTATTGTCGGCTATATCGACTAGTG
1 ACACATATTTGTCAGTTTTACCGACCAGCGCAAGGCACATTTATTGTCGGCTATACCGACCAGTG
65304136 ATGGGC
66 ATGGGC
* * * * *
65304142 ACACATATTTGTCCGTTTTACCGACTAGCGTAAGGCACATTTATTGTTGGTTATACCGACCAGTG
1 ACACATATTTGTCAGTTTTACCGACCAGCGCAAGGCACATTTATTGTCGGCTATACCGACCAGTG
65304207 CAGGATGCAT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
71 55 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.34
Consensus pattern (71 bp):
ACACATATTTGTCAGTTTTACCGACCAGCGCAAGGCACATTTATTGTCGGCTATACCGACCAGTG
ATGGGC
Found at i:65304290 original size:95 final size:95
Alignment explanation
Indices: 65304122--65304298 Score: 239
Period size: 95 Copynumber: 1.9 Consensus size: 95
65304112 TATTGTCGGC
* * * **
65304122 TATATCGACTAGTGATGGGCACACATATTTGTCCGTTTTACCGACTAGCGTAAGGCACATTTATT
1 TATACCGACTAGTGATGGGCACACATATTTGTCCGTTCTACCGACTAACACAAGGCACATTTATT
*
65304187 GTTGGTTATACCGACCAGTGCAGGATGCAT
66 GTCGGTTATACCGACCAGTGCAGGATGCAT
* * * *
65304217 TATACCGACTAGTGCTGGGCACACATATTTGTCGGTTCTACCGA-TCAACACATGGCGCATTTAT
1 TATACCGACTAGTGATGGGCACACATATTTGTCCGTTCTACCGACT-AACACAAGGCACATTTAT
*
65304281 TGTCGGTTATACTGACCA
65 TGTCGGTTATACCGACCA
65304299 ATTTTAGGCA
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
94 1 0.01
95 69 0.99
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (95 bp):
TATACCGACTAGTGATGGGCACACATATTTGTCCGTTCTACCGACTAACACAAGGCACATTTATT
GTCGGTTATACCGACCAGTGCAGGATGCAT
Found at i:65311108 original size:18 final size:18
Alignment explanation
Indices: 65311080--65311123 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
65311070 AGTGAAATTT
65311080 ATATGAAAATCCCT-GAAGG
1 ATAT-AAAAT-CCTAGAAGG
*
65311099 ATTTAAAATCCTAGAAGG
1 ATATAAAATCCTAGAAGG
65311117 ATATAAA
1 ATATAAA
65311124 GTTTCTCGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 16 0.73
19 3 0.14
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.25
Consensus pattern (18 bp):
ATATAAAATCCTAGAAGG
Found at i:65314525 original size:137 final size:137
Alignment explanation
Indices: 65314279--65314565 Score: 529
Period size: 137 Copynumber: 2.1 Consensus size: 137
65314269 TATTGGGCCT
** * *
65314279 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTTGGTCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
65314344 AGCCCCTTATTCAGATAATAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
65314409 CATATGC
131 CATATGC
65314416 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
65314481 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
65314546 CATATGC
131 CATATGC
65314553 AAGCCCATTTGGG
1 AAGCCCATTTGGG
65314566 GAGACTACTC
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 145 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:65314842 original size:26 final size:26
Alignment explanation
Indices: 65314813--65314865 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
65314803 TCAAAGATGC
65314813 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
65314839 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
65314865 A
1 A
65314866 AAATTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:65316389 original size:26 final size:26
Alignment explanation
Indices: 65316353--65316436 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
65316343 CATGAAATTC
65316353 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
65316379 TTATCATGAAACATTTATCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
65316405 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
65316431 TTATCA
1 TTATCA
65316437 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:65325923 original size:17 final size:18
Alignment explanation
Indices: 65325903--65325942 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
65325893 AAATGAAACT
* *
65325903 AAAATA-AACTTTTTTAA
1 AAAATATAACTTCTTAAA
65325920 AAAATATAACTTCTTAAA
1 AAAATATAACTTCTTAAA
65325938 AAAAT
1 AAAAT
65325943 TGGAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAATATAACTTCTTAAA
Found at i:65326028 original size:18 final size:18
Alignment explanation
Indices: 65325994--65326028 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
65325984 CTCAAAACAA
*
65325994 TAAAAATAAATTCTAATT
1 TAAAAATAAATACTAATT
*
65326012 TAAAAATAAATAGTAAT
1 TAAAAATAAATACTAAT
65326029 AATATTGTAA
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:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (18 bp):
TAAAAATAAATACTAATT
Found at i:65328162 original size:15 final size:15
Alignment explanation
Indices: 65328142--65328179 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
65328132 TGTGTAATTA
65328142 TTTGCCTTCAGGTGC
1 TTTGCCTTCAGGTGC
65328157 TTTGCCTTCAGGTGC
1 TTTGCCTTCAGGTGC
65328172 TTTGCCTT
1 TTTGCCTT
65328180 TCGTGGTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.05, C:0.26, G:0.24, T:0.45
Consensus pattern (15 bp):
TTTGCCTTCAGGTGC
Found at i:65328978 original size:3 final size:3
Alignment explanation
Indices: 65328970--65328995 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
65328960 CCTTTCTTGA
65328970 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
65328996 GTACATGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:65343667 original size:46 final size:47
Alignment explanation
Indices: 65343512--65343678 Score: 162
Period size: 46 Copynumber: 3.6 Consensus size: 47
65343502 TGTGTCAGTA
* * *
65343512 TAAGATATGTCTGGGACATGCATCAGCCAT-ATTACGAGAGCTAGTG
1 TAAGACATGTCTGGGACATGCATCAGCTATGATAACGAGAGCTAGTG
* * * * ** * *
65343558 TGAGACATGACTGGGATATGCATCGGCCTCGGGATATAC--CAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCAG-CT-ATGATA-ACGAGAGCTAGTG
* *
65343606 TAAGACATGTATGGGACATGCATCAGCTTTGA-AACGAGAGCTAGTG
1 TAAGACATGTCTGGGACATGCATCAGCTATGATAACGAGAGCTAGTG
65343652 TAAGACATGTCTGGGACATGCATCAGC
1 TAAGACATGTCTGGGACATGCATCAGC
65343679 CTCGAGATAT
Statistics
Matches: 94, Mismatches: 21, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
44 2 0.02
45 1 0.01
46 56 0.60
47 3 0.03
48 28 0.30
49 2 0.02
50 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (47 bp):
TAAGACATGTCTGGGACATGCATCAGCTATGATAACGAGAGCTAGTG
Found at i:65343715 original size:94 final size:94
Alignment explanation
Indices: 65343513--65343729 Score: 258
Period size: 94 Copynumber: 2.3 Consensus size: 94
65343503 GTGTCAGTAT
* ** * * *
65343513 AAGATATGTCTGGGACATGCATCAGCCATATTACGAGAGCTAGTGTGAGACATGACTGGGATATG
1 AAGATCTGTCTGGGACATGCATCAGCTTTATAACGAGAGCTAGTGTAAGACATGACTGGGACATG
* * * *
65343578 CATCGGCCTCGGGATATACCAGCCAGTGT
66 CATCAGCCTCGAGATATACAAGCCAGTGC
* *
65343607 AAGA-CATGTATGGGACATGCATCAGCTTTGA-AACGAGAGCTAGTGTAAGACATGTCTGGGACA
1 AAGATC-TGTCTGGGACATGCATCAGCTTT-ATAACGAGAGCTAGTGTAAGACATGACTGGGACA
**
65343670 TGCATCAGCCTCGAGATATACAAGTTAGTGC
64 TGCATCAGCCTCGAGATATACAAGCCAGTGC
*
65343701 AAGATCTGTCTGGGACATGGCGTCAGCTT
1 AAGATCTGTCTGGGACAT-GCATCAGCTT
65343730 GTTGTGTGTC
Statistics
Matches: 103, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
94 92 0.89
95 11 0.11
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (94 bp):
AAGATCTGTCTGGGACATGCATCAGCTTTATAACGAGAGCTAGTGTAAGACATGACTGGGACATG
CATCAGCCTCGAGATATACAAGCCAGTGC
Found at i:65343806 original size:49 final size:48
Alignment explanation
Indices: 65343742--65343911 Score: 164
Period size: 49 Copynumber: 3.5 Consensus size: 48
65343732 TGTGTGTCAA
* *
65343742 TGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGA-AACCAG
* * * * *
65343791 TGTAAGACCTGTCTGGGACACGGCATCGGCATCGATATATGAAACTTAA
1 TGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAC-CAG
* * * * * * *
65343840 TGTAAGACCTATTTAGGACATGGCATCAACTTTGAT-G-TGCTAACCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATG-AAACCAG
65343887 TGTAAGACCATGTCTGGGACATGGC
1 TGTAAGACC-TGTCTGGGACATGGC
65343912 GTCGGTATCT
Statistics
Matches: 96, Mismatches: 22, Indels: 7
0.77 0.18 0.06
Matches are distributed among these distances:
47 12 0.12
48 17 0.18
49 67 0.70
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (48 bp):
TGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAACCAG
Found at i:65353754 original size:30 final size:30
Alignment explanation
Indices: 65353720--65353777 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
65353710 ATTTTTGAGC
* * * *
65353720 CTAGGGGTAAAATGGTCATTTTGTAAAAGT
1 CTAGGGGAAAAATAGACATTTTGCAAAAGT
65353750 CTAGGGGAAAAATAGACATTTTGCAAAA
1 CTAGGGGAAAAATAGACATTTTGCAAAA
65353778 AATGTGATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.28
Consensus pattern (30 bp):
CTAGGGGAAAAATAGACATTTTGCAAAAGT
Found at i:65354217 original size:21 final size:21
Alignment explanation
Indices: 65354193--65354240 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
65354183 GGCCACACAA
65354193 GCGTGTTGCCCTTTCACACGG
1 GCGTGTTGCCCTTTCACACGG
*
65354214 GCGTGTTGCTCTTTCACACGG
1 GCGTGTTGCCCTTTCACACGG
65354235 GCGTGT
1 GCGTGT
65354241 ACCCTTGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.08, C:0.29, G:0.31, T:0.31
Consensus pattern (21 bp):
GCGTGTTGCCCTTTCACACGG
Found at i:65355705 original size:46 final size:46
Alignment explanation
Indices: 65355577--65355709 Score: 142
Period size: 46 Copynumber: 2.9 Consensus size: 46
65355567 CTTAATATTT
* * * *
65355577 CGTATTCTCCAGTCCGCAATATATGCAAGAGTTGGGAACCTAAATT
1 CGTATTCTCAAGTCCGCAACATATGCAAGAGATGGGAACCTAAATC
** * * *
65355623 TTTATTCTCAAATCCGCAACAAATAC-AGAGGATGGGAACCTAAATC
1 CGTATTCTCAAGTCCGCAACATATGCAAGA-GATGGGAACCTAAATC
** *
65355669 CGTATTCTTTAGTCCGCAACATATGCAAGAGCTGGGAACCT
1 CGTATTCTCAAGTCCGCAACATATGCAAGAGATGGGAACCT
65355710 GGGCAAAAAT
Statistics
Matches: 68, Mismatches: 17, Indels: 4
0.76 0.19 0.04
Matches are distributed among these distances:
45 3 0.04
46 62 0.91
47 3 0.04
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (46 bp):
CGTATTCTCAAGTCCGCAACATATGCAAGAGATGGGAACCTAAATC
Found at i:65357207 original size:14 final size:15
Alignment explanation
Indices: 65357179--65357225 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
65357169 TATATATATT
*
65357179 TATTAGTAATAAATTA
1 TATTA-TAATTAATTA
65357195 TATTA-AATTAATTA
1 TATTATAATTAATTA
65357209 -ATTATAATTATATTA
1 TATTATAATTA-ATTA
65357224 TA
1 TA
65357226 AGATATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 4 0.15
14 13 0.48
15 4 0.15
16 6 0.22
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
TATTATAATTAATTA
Found at i:65358527 original size:24 final size:22
Alignment explanation
Indices: 65358500--65358559 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 22
65358490 TTTACAATTG
65358500 AAATGGATTGATTTGATATGTGAT
1 AAATGGATTGATTT-ATATG-GAT
**
65358524 AAATTTATTGAATTTATATGGAT
1 AAATGGATTG-ATTTATATGGAT
*
65358547 ATATGTGATTGAT
1 AAATG-GATTGAT
65358560 GTGGAAATTG
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
23 8 0.28
24 17 0.59
25 4 0.14
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (22 bp):
AAATGGATTGATTTATATGGAT
Found at i:65358975 original size:59 final size:59
Alignment explanation
Indices: 65358909--65359043 Score: 168
Period size: 59 Copynumber: 2.3 Consensus size: 59
65358899 ACTCCGTACC
* * * *
65358909 TTACTGTTACTGTTACTGTTCC-AGATTTGTT-CTGATGAGGTATTTTGTGTACCGCTA-TT
1 TTACTGTTACTGTTACTGTTCCGA-ATTTGTTCCAG-TGAGGTATTCTGTATACCG-TACTG
*
65358968 TTACTGTTACTGTTACTGTTCCGAATTTGTTCCAGTGAGGTATTCTGTATATCGTACTG
1 TTACTGTTACTGTTACTGTTCCGAATTTGTTCCAGTGAGGTATTCTGTATACCGTACTG
*
65359027 CTACTGTTACTGTTACT
1 TTACTGTTACTGTTACT
65359044 ATTACCGTTA
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
58 2 0.03
59 62 0.93
60 3 0.04
ACGTcount: A:0.18, C:0.17, G:0.19, T:0.46
Consensus pattern (59 bp):
TTACTGTTACTGTTACTGTTCCGAATTTGTTCCAGTGAGGTATTCTGTATACCGTACTG
Found at i:65359225 original size:18 final size:18
Alignment explanation
Indices: 65359202--65359243 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
65359192 TAATTAACTG
65359202 TTACTGACTAAATGATTA
1 TTACTGACTAAATGATTA
* *
65359220 TTACTGATTAACTGATTA
1 TTACTGACTAAATGATTA
65359238 TTACTG
1 TTACTG
65359244 TTGACTGACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (18 bp):
TTACTGACTAAATGATTA
Done.