Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 256 of 276
Found at i:84792998 original size:28 final size:29
Alignment explanation
Indices: 84792967--84793068 Score: 79
Period size: 30 Copynumber: 3.5 Consensus size: 29
84792957 ATCTTATTAT
84792967 ATTAATTATATTAATAA-TAAAT-TATATG
1 ATTAA-TATATTAATAATTAAATATATATG
* *
84792995 ATTAA-ATATAAATAATTAAATATGTATG
1 ATTAATATATTAATAATTAAATATATATG
* * *
84793023 TTTAATAATATTTATAACTATAACAT-TTTAT-
1 ATTAAT-ATATTAATAA-T-TAA-ATATATATG
84793054 ATTAATATATTAATA
1 ATTAATATATTAATA
84793069 TTTTAAAAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
26 9 0.15
27 5 0.08
28 14 0.24
30 16 0.27
31 6 0.10
32 7 0.12
33 2 0.03
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (29 bp):
ATTAATATATTAATAATTAAATATATATG
Found at i:84793641 original size:26 final size:25
Alignment explanation
Indices: 84793611--84793668 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
84793601 GTCAAATTGT
*
84793611 AATTTTATTTTCA-CTATTATATTTAA
1 AATTTTATTTTAATCT-TTATATTT-A
* *
84793637 AATTTAATTTTAATCTTTATATTTT
1 AATTTTATTTTAATCTTTATATTTA
84793662 AATTTTA
1 AATTTTA
84793669 CATAATTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 6 0.22
26 19 0.70
27 2 0.07
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.60
Consensus pattern (25 bp):
AATTTTATTTTAATCTTTATATTTA
Found at i:84793918 original size:3 final size:3
Alignment explanation
Indices: 84793910--84793934 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
84793900 TAACATTTCG
84793910 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
84793935 CCCTTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:84799664 original size:13 final size:13
Alignment explanation
Indices: 84799646--84799692 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
84799636 AAAAACCTGG
84799646 GTTTTTGAAACTT
1 GTTTTTGAAACTT
*
84799659 GTTTTTAAAACTTGT
1 GTTTTTGAAAC-T-T
*
84799674 GTTTTTGAAACCT
1 GTTTTTGAAACTT
84799687 GTTTTT
1 GTTTTT
84799693 AAAAATCAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 17 0.59
14 1 0.03
15 11 0.38
ACGTcount: A:0.21, C:0.09, G:0.15, T:0.55
Consensus pattern (13 bp):
GTTTTTGAAACTT
Found at i:84799669 original size:28 final size:28
Alignment explanation
Indices: 84799637--84799696 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
84799627 ATTGAACTTA
*
84799637 AAAACCTGGGTTTTTGAAACTTGTTTTT
1 AAAACCTGGGTTTTTGAAACCTGTTTTT
* *
84799665 AAAACTTGTGTTTTTGAAACCTGTTTTT
1 AAAACCTGGGTTTTTGAAACCTGTTTTT
84799693 AAAA
1 AAAA
84799697 ATCAGCCTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (28 bp):
AAAACCTGGGTTTTTGAAACCTGTTTTT
Found at i:84810065 original size:68 final size:66
Alignment explanation
Indices: 84809918--84810103 Score: 202
Period size: 68 Copynumber: 2.8 Consensus size: 66
84809908 ATATAGTTCG
* * *
84809918 GCTCTCTTGTACACATGGTGAACACTCAGTACCACCCATGTGACCTAGC--CA-ATTTATCTCGT
1 GCTCTCTTGTACACATGGTGTACACTCAGTATCACCCATGTGACCTAGCTACATATATATCTCGT
84809980 A
66 A
* *
84809981 GCTCTCTTGT-CTACATGGTGTACACAT-AGTATCACCCATGCGACCTAGCTACATCATAATGTC
1 GCTCTCTTGTAC-ACATGGTGTACAC-TCAGTATCACCCATGTGACCTAGCTACAT-AT-ATATC
*
84810044 TTGTA
62 TCGTA
* * * **
84810049 GCTCTCTTGTACACATGATGTGCACTCAGCATCATACATGTGACCTAGCTACATA
1 GCTCTCTTGTACACATGGTGTACACTCAGTATCACCCATGTGACCTAGCTACATA
84810104 CTATCTGTAT
Statistics
Matches: 102, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
62 1 0.01
63 42 0.41
64 1 0.01
65 2 0.02
67 4 0.04
68 51 0.50
69 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (66 bp):
GCTCTCTTGTACACATGGTGTACACTCAGTATCACCCATGTGACCTAGCTACATATATATCTCGT
A
Found at i:84815930 original size:46 final size:47
Alignment explanation
Indices: 84815802--84815970 Score: 179
Period size: 46 Copynumber: 3.6 Consensus size: 47
84815792 ATGTTGATTC
84815802 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATCTCCGT-GTCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCT-T-ACATCT-CGTAGTCGATG
* *
84815851 CCATGTCCCGGACATGGTCTTACACTAAC--ACATCTCGTAGTCGATG
1 -CATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGTAGTCGATG
* * * *
84815897 TATGTCCTAGACAT-GTCTTACACTGGCTTACATCTCG-AGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGTA-GTCGATG
* *
84815943 CATGTCCCCGACAT-GTCTTAAACTAGCT
1 CATGTCCCAGACATGGTCTTACACTAGCT
84815971 CTCGTTTCAA
Statistics
Matches: 102, Mismatches: 13, Indels: 12
0.80 0.10 0.09
Matches are distributed among these distances:
44 11 0.11
45 15 0.15
46 50 0.49
50 26 0.25
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGTAGTCGATG
Found at i:84821798 original size:27 final size:27
Alignment explanation
Indices: 84821768--84821967 Score: 265
Period size: 27 Copynumber: 7.4 Consensus size: 27
84821758 TGGATAAGTT
* * *
84821768 GTAGAATTACCAAAATACCCTTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
84821795 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
** *
84821822 GTAGAATTATTGAAGTACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
84821849 GTAGAATTACCGAAATACTCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
84821876 ATAGAATTACCGAAATACCCTTTTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
84821903 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
84821930 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
84821957 GTAAAATTACC
1 GTAGAATTACC
84821968 ATTTTGCCTC
Statistics
Matches: 150, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 150 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:84823000 original size:86 final size:86
Alignment explanation
Indices: 84822854--84823026 Score: 328
Period size: 86 Copynumber: 2.0 Consensus size: 86
84822844 ACGGGGGTGT
84822854 TATGGATGGCTCTGGGTTGGGATTTCTGCATTCATGATATATTTGTTCTGTATCTACTATGGGCC
1 TATGGATGGCTCTGGGTTGGGATTTCTGCATTCATGATATATTTGTTCTGTATCTACTATGGGCC
*
84822919 TATGGGTTTCATTCTGATTTC
66 TATGGGTTTCATTCTAATTTC
*
84822940 TATGGATGGCTCTGGGTTGGGATTTCTGCATTCATGATATATTTGTTCTGTATCTGCTATGGGCC
1 TATGGATGGCTCTGGGTTGGGATTTCTGCATTCATGATATATTTGTTCTGTATCTACTATGGGCC
84823005 TATGGGTTTCATTCTAATTTC
66 TATGGGTTTCATTCTAATTTC
84823026 T
1 T
84823027 GTACTGGGCC
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 85 1.00
ACGTcount: A:0.16, C:0.15, G:0.24, T:0.45
Consensus pattern (86 bp):
TATGGATGGCTCTGGGTTGGGATTTCTGCATTCATGATATATTTGTTCTGTATCTACTATGGGCC
TATGGGTTTCATTCTAATTTC
Found at i:84828966 original size:29 final size:27
Alignment explanation
Indices: 84828943--84829002 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
84828933 CGCCACATAT
84828943 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGGCCTAGCCACA
* * * *
84828969 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGGCCTAGCCACA
84828996 ATATCTG
1 ATATCTG
84829003 GCAGCCTCCC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGGCCTAGCCACA
Found at i:84832533 original size:46 final size:48
Alignment explanation
Indices: 84832300--84832572 Score: 226
Period size: 46 Copynumber: 5.8 Consensus size: 48
84832290 AGGGTATAAT
* **
84832300 GCCGATGCCATGTCCCAGACATGGTCTTACA-TAGACTATTGAAATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTT-ATCTCGAG
* * * * * * * *
84832349 GCTGACGCCATGTCCTAGACATGATCTTACACTGGCTCTCACATCTCCAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT--TATCTCGAG
*
84832399 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GACAC--ATCTCGTA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTTATCTCG-AG
* * *
84832445 ACCGATG-CATGTCCCAGACAT-GTCTTTCACT-GGT-TTACATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTT--ATCTCGAG
* *
84832491 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTTATCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTATCTCGAG
* *
84832537 GCCAATGCCGTGTCCCAGACATGGTCTTACACTAGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
84832573 GTACAAATGA
Statistics
Matches: 182, Mismatches: 28, Indels: 29
0.76 0.12 0.12
Matches are distributed among these distances:
44 10 0.05
45 15 0.08
46 58 0.32
47 16 0.09
48 15 0.08
49 31 0.17
50 37 0.20
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTATCTCGAG
Found at i:84833990 original size:33 final size:33
Alignment explanation
Indices: 84833953--84834059 Score: 133
Period size: 33 Copynumber: 3.2 Consensus size: 33
84833943 ATCCCCCTAG
*
84833953 CACACCAATGCTCAGAAGAGCTAATCCAACCAA
1 CACACCAATGCTCATAAGAGCTAATCCAACCAA
* * * **
84833986 CACACGAATGCTTATACGAGCTAATCCAACCTT
1 CACACCAATGCTCATAAGAGCTAATCCAACCAA
* * *
84834019 CACACTAGTGCTCATAAGAGCTAGTCCAACCAA
1 CACACCAATGCTCATAAGAGCTAATCCAACCAA
84834052 CACACCAA
1 CACACCAA
84834060 ACGGAGAGTA
Statistics
Matches: 59, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.38, C:0.33, G:0.12, T:0.17
Consensus pattern (33 bp):
CACACCAATGCTCATAAGAGCTAATCCAACCAA
Found at i:84848251 original size:40 final size:40
Alignment explanation
Indices: 84848196--84848274 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
84848186 CCTAAATTGA
84848196 TAGCTAAAAGTGTCAAATAGCTAGAGAATAAAGATTGGGT
1 TAGCTAAAAGTGTCAAATAGCTAGAGAATAAAGATTGGGT
*
84848236 TAGCTAAAAGTGTCAAATAGCTATAGAATAAAGATTGGG
1 TAGCTAAAAGTGTCAAATAGCTAGAGAATAAAGATTGGG
84848275 GGTCTTTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.43, C:0.08, G:0.24, T:0.25
Consensus pattern (40 bp):
TAGCTAAAAGTGTCAAATAGCTAGAGAATAAAGATTGGGT
Found at i:84856549 original size:30 final size:29
Alignment explanation
Indices: 84856493--84856549 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
84856483 TTTTTAGGCC
**
84856493 TAGGGGAAAATGGTCATTTTGTCAAAGTT
1 TAGGGGAAAATGGTCATTTTACCAAAGTT
*
84856522 TAGGGGCAAAATGGTTATTTTACCAAAG
1 TAGGGG-AAAATGGTCATTTTACCAAAG
84856550 ATATGAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.32
Consensus pattern (29 bp):
TAGGGGAAAATGGTCATTTTACCAAAGTT
Found at i:84858378 original size:40 final size:40
Alignment explanation
Indices: 84858294--84858514 Score: 279
Period size: 40 Copynumber: 5.5 Consensus size: 40
84858284 ACCCAAGTAT
* *
84858294 CTTCGGGAT-TTAG-CCGGATATA-ACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
84858333 CTTCGGGTCTTAGCCCGGTTATAGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
84858373 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
84858413 CTTCGGGTCTTAGCCCAGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
84858453 CTTCGGATCTTAGTCCGGATATAGTCACTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
84858493 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
84858515 CATTCGAATA
Statistics
Matches: 157, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 12 0.08
40 142 0.90
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:84866668 original size:40 final size:40
Alignment explanation
Indices: 84866591--84866811 Score: 288
Period size: 40 Copynumber: 5.5 Consensus size: 40
84866581 ACCCAAGTAT
* *
84866591 CTTCGGGAT-TTAG-CCGGATATA-ACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
*
84866630 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
84866670 CTTCTGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
84866710 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
84866750 CTTCGGATCTTAGTCCGGATATAGTCACTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
84866790 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
84866812 CATTCGAATA
Statistics
Matches: 159, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 12 0.08
40 144 0.91
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:84868805 original size:46 final size:44
Alignment explanation
Indices: 84868677--84868805 Score: 132
Period size: 46 Copynumber: 2.8 Consensus size: 44
84868667 GGGCTGTCAC
*
84868677 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACA
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACA
* * * ** *
84868723 AGTGCTAGTTTAAGACATGTCTAGGACATGTTTCGGCCTCGAGACGTA
1 A--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAC--A
*
84868771 AGCCGGTGTAAGACATGTCTGGGACATGCATCGGC
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
84868806 TACGCGATGT
Statistics
Matches: 66, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
46 41 0.62
47 13 0.20
48 12 0.18
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (44 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACA
Found at i:84883482 original size:23 final size:23
Alignment explanation
Indices: 84883456--84883502 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
84883446 TCAAATTGAA
84883456 AGTCCTTAAATGGTAATTAGACC
1 AGTCCTTAAATGGTAATTAGACC
84883479 AGTCCTTAAATGGTAATTAGACC
1 AGTCCTTAAATGGTAATTAGACC
84883502 A
1 A
84883503 TTATACTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (23 bp):
AGTCCTTAAATGGTAATTAGACC
Found at i:84892353 original size:28 final size:28
Alignment explanation
Indices: 84892322--84892382 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
84892312 TGTCCAAGCC
*
84892322 GTGTGAGTCACACGGGGTGACAACATGG
1 GTGTGAGTCACACGGGGTGACAACACGG
84892350 GTGTGAGTCACACGGGGTGACAACACGG
1 GTGTGAGTCACACGGGGTGACAACACGG
84892378 GTGTG
1 GTGTG
84892383 TCATAGAGTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.23, C:0.18, G:0.41, T:0.18
Consensus pattern (28 bp):
GTGTGAGTCACACGGGGTGACAACACGG
Found at i:84892355 original size:14 final size:14
Alignment explanation
Indices: 84892331--84892382 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 14
84892321 CGTGTGAGTC
84892331 ACACGGG-GTGACA
1 ACACGGGTGTGACA
*
84892344 ACATGGGTGTGAGTC-
1 ACACGGGTGTGA--CA
84892359 ACACGGG-GTGACA
1 ACACGGGTGTGACA
84892372 ACACGGGTGTG
1 ACACGGGTGTG
84892383 TCATAGAGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
12 1 0.03
13 13 0.41
14 11 0.34
15 6 0.19
16 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.40, T:0.15
Consensus pattern (14 bp):
ACACGGGTGTGACA
Found at i:84894260 original size:30 final size:30
Alignment explanation
Indices: 84894226--84894286 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
84894216 TATTATTCTA
84894226 TTGATCTTATTATTTTTAGGTTGGATTTGG
1 TTGATCTTATTATTTTTAGGTTGGATTTGG
84894256 TTGATCTTATTATTTTTAGGTTGGATTTGG
1 TTGATCTTATTATTTTTAGGTTGGATTTGG
84894286 T
1 T
84894287 ATGTTGGTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.16, C:0.03, G:0.23, T:0.57
Consensus pattern (30 bp):
TTGATCTTATTATTTTTAGGTTGGATTTGG
Found at i:84894322 original size:45 final size:45
Alignment explanation
Indices: 84894261--84894379 Score: 175
Period size: 45 Copynumber: 2.6 Consensus size: 45
84894251 TTTGGTTGAT
* * * * *
84894261 CTTATTATTTTTAGGTTGGATTTGGTATGTTGGTGTTGATTTTTG
1 CTTATTATTTTAAGGTTGGTTTTGGTATGATGATATTGATTTTTG
*
84894306 CTTATTGTTTTAAGGTTGGTTTTGGTATGATGATATTGATTTTTG
1 CTTATTATTTTAAGGTTGGTTTTGGTATGATGATATTGATTTTTG
*
84894351 CTTATTATTTTAAGGTTGGTTTTTGTATG
1 CTTATTATTTTAAGGTTGGTTTTGGTATG
84894380 CTAAAATTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.16, C:0.03, G:0.24, T:0.57
Consensus pattern (45 bp):
CTTATTATTTTAAGGTTGGTTTTGGTATGATGATATTGATTTTTG
Found at i:84894393 original size:45 final size:45
Alignment explanation
Indices: 84894261--84894394 Score: 151
Period size: 45 Copynumber: 3.0 Consensus size: 45
84894251 TTTGGTTGAT
* * * ****
84894261 CTTATTATTTTTAGGTTGGATTTGGTATGTTGGTGTTGATTTTTG
1 CTTATTATTTTAAGGTTGGTTTTGGTATGATAAAATTGATTTTTG
* * *
84894306 CTTATTGTTTTAAGGTTGGTTTTGGTATGATGATATTGATTTTTG
1 CTTATTATTTTAAGGTTGGTTTTGGTATGATAAAATTGATTTTTG
* * *
84894351 CTTATTATTTTAAGGTTGGTTTTTGTATGCTAAAATTTATTTTT
1 CTTATTATTTTAAGGTTGGTTTTGGTATGATAAAATTGATTTTT
84894395 AGAAATTTTT
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 77 1.00
ACGTcount: A:0.18, C:0.03, G:0.22, T:0.57
Consensus pattern (45 bp):
CTTATTATTTTAAGGTTGGTTTTGGTATGATAAAATTGATTTTTG
Found at i:84915850 original size:5 final size:5
Alignment explanation
Indices: 84915842--84915883 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
84915832 ATACTTTAAT
84915842 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TA
84915884 ATATTTTCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:84917712 original size:23 final size:21
Alignment explanation
Indices: 84917667--84917718 Score: 86
Period size: 21 Copynumber: 2.4 Consensus size: 21
84917657 AGTGCTTAAA
84917667 ACGACACACGAGGTGCCTGAT
1 ACGACACACGAGGTGCCTGAT
84917688 ACGACACACGAGGTGCCTGAAAT
1 ACGACACACGAGGTGCCTG--AT
84917711 ACGACACA
1 ACGACACA
84917719 TAAAGTGCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 19 0.66
23 10 0.34
ACGTcount: A:0.35, C:0.29, G:0.25, T:0.12
Consensus pattern (21 bp):
ACGACACACGAGGTGCCTGAT
Found at i:84917726 original size:23 final size:23
Alignment explanation
Indices: 84917644--84917730 Score: 74
Period size: 21 Copynumber: 4.0 Consensus size: 23
84917634 CCTGATCAGT
* * *
84917644 ATACGGCACATAAAGTG-CTTAA
1 ATACGACACACAAAGTGCCTGAA
* *
84917666 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
84917686 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
84917709 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
84917731 TCAGTAAAGC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
20 1 0.02
21 30 0.57
22 3 0.06
23 19 0.36
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:84918992 original size:24 final size:24
Alignment explanation
Indices: 84918962--84919027 Score: 89
Period size: 24 Copynumber: 2.7 Consensus size: 24
84918952 TACGAGTCAT
*
84918962 AATCGGTAAGCTCATTCAAGC-AG
1 AATCGGTAAGCTCATACAAGCGAG
*
84918985 AATACGGTAAGCTCATACGAGCTGAG
1 AAT-CGGTAAGCTCATACAAGC-GAG
84919011 AATCGGTAAGCTCATAC
1 AATCGGTAAGCTCATAC
84919028 GAGCTGTGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
23 3 0.08
24 16 0.42
25 14 0.37
26 5 0.13
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (24 bp):
AATCGGTAAGCTCATACAAGCGAG
Found at i:84919023 original size:25 final size:25
Alignment explanation
Indices: 84918962--84919033 Score: 103
Period size: 25 Copynumber: 2.9 Consensus size: 25
84918952 TACGAGTCAT
* *
84918962 AATCGGTAAGCTCATTCAAGC--AG
1 AATCGGTAAGCTCATACGAGCTGAG
84918985 AATACGGTAAGCTCATACGAGCTGAG
1 AAT-CGGTAAGCTCATACGAGCTGAG
84919011 AATCGGTAAGCTCATACGAGCTG
1 AATCGGTAAGCTCATACGAGCTG
84919034 TGGTGAGTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.07
24 16 0.36
25 20 0.45
26 5 0.11
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (25 bp):
AATCGGTAAGCTCATACGAGCTGAG
Found at i:84921143 original size:47 final size:46
Alignment explanation
Indices: 84921085--84921181 Score: 185
Period size: 46 Copynumber: 2.1 Consensus size: 46
84921075 TGCATATTTC
84921085 TTTTTGGATAATTTTTTTTATAAACAACATAAATAATTTTTAGGATT
1 TTTTTGGATAA-TTTTTTTATAAACAACATAAATAATTTTTAGGATT
84921132 TTTTTGGATAATTTTTTTATAAACAACATAAATAATTTTTAGGATT
1 TTTTTGGATAATTTTTTTATAAACAACATAAATAATTTTTAGGATT
84921178 TTTT
1 TTTT
84921182 ATTTACAAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 39 0.78
47 11 0.22
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.53
Consensus pattern (46 bp):
TTTTTGGATAATTTTTTTATAAACAACATAAATAATTTTTAGGATT
Found at i:84924402 original size:16 final size:16
Alignment explanation
Indices: 84924352--84924408 Score: 69
Period size: 16 Copynumber: 3.6 Consensus size: 16
84924342 TATTTGATTT
*
84924352 ATTGTAATGGAATAGA
1 ATTGTAATAGAATAGA
* * * *
84924368 ACTGCAATGGAATAAA
1 ATTGTAATAGAATAGA
84924384 ATTGTAATAGAATAGA
1 ATTGTAATAGAATAGA
84924400 ATTGTAATA
1 ATTGTAATA
84924409 ACAATTTAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.47, C:0.04, G:0.19, T:0.30
Consensus pattern (16 bp):
ATTGTAATAGAATAGA
Found at i:84930816 original size:130 final size:131
Alignment explanation
Indices: 84930482--84931000 Score: 564
Period size: 132 Copynumber: 4.0 Consensus size: 131
84930472 ATTGTTCATT
* * * * *
84930482 TAAAAATTCTTTAAAACGAAGGCGATGTTCAATATTTGACAATTCGCAGAATCGTGCCCTAAT-G
1 TAAAAACTCTTTAAAACGAAGGCAATATTCGATATTTGGCAATTCGCAGAATCGTGCCCT-ATCG
* * * * * *
84930546 TGTTGGGTTTCAATTTCTCGTTTGCTCAAAATAATCGAATGTCCCTTTGGAATTTCATTCATGTT
65 TGCTGGGTTGCAATTTCCCGTTCGTTCAAAATAATCGAATGTCCCTTT-GAATTTCACTCATGTT
84930611 TTC
129 TTC
* * * *
84930614 TAAAAACTCTTTAAAACGAAGGTAATACTCGATGTTTGGCAATTCG-GGAATCGTGCCCTATCGT
1 TAAAAACTCTTTAAAACGAAGGCAATATTCGATATTTGGCAATTCGCAGAATCGTGCCCTATCGT
* * * * * *
84930678 GCTGGGTTGCGATTTCCCGTTCGTTCAAAACAATCGAATATTCCTTTGAAATTTCACCCATGTCT
66 GCTGGGTTGCAATTTCCCGTTCGTTCAAAATAATCGAATGTCCCTTTG-AATTTCACTCATGTTT
84930743 T-
130 TC
* * * *
84930744 TAAAAATTCTTT-AAGCGAAGGCGATGTTCGATATTTGGCAATTCGCAGAATCGTGCCCTATCGT
1 TAAAAACTCTTTAAAACGAAGGCAATATTCGATATTTGGCAATTCGCAGAATCGTGCCCTATCGT
* * * *
84930808 GCTGGGTTGCAATTTCTCGTTGGTTCAAAATAATCGAAGGTCCCTTTTGAATTTCACTCACGTTT
66 GCTGGGTTGCAATTTCCCGTTCGTTCAAAATAATCGAATGTCCC-TTTGAATTTCACTCATGTTT
84930873 TC
130 TC
* * * * * * *
84930875 TAAAAACTCTTCAAAACGAAGGTAATATTTGATGTTTAGCAATTCGGAGAATCGTGCTCTATCGT
1 TAAAAACTCTTTAAAACGAAGGCAATATTCGATATTTGGCAATTCGCAGAATCGTGCCCTATCGT
** * * *
84930940 GCTGGGTTGCAATTTCCTATTTG-TCAAAAATGATCGAA-GATTCCTTTAGAATTTCACTCAT
66 GCTGGGTTGCAATTTCCCGTTCGTTC-AAAATAATCGAATG-TCCCTTT-GAATTTCACTCAT
84931001 ACTCTCTAAA
Statistics
Matches: 321, Mismatches: 57, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
129 27 0.08
130 82 0.26
131 86 0.27
132 126 0.39
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (131 bp):
TAAAAACTCTTTAAAACGAAGGCAATATTCGATATTTGGCAATTCGCAGAATCGTGCCCTATCGT
GCTGGGTTGCAATTTCCCGTTCGTTCAAAATAATCGAATGTCCCTTTGAATTTCACTCATGTTTT
C
Found at i:84931014 original size:261 final size:261
Alignment explanation
Indices: 84930484--84931088 Score: 748
Period size: 261 Copynumber: 2.3 Consensus size: 261
84930474 TGTTCATTTA
*
84930484 AAAATTCTTTAAAACGAAGGCGATGTTCAATATTTGACAATTCGCAGAATCGTGCCCTAATGTGT
1 AAAATTCTTTAAAACGAAGGCGATGTTCAATATTTGACAATTCGCAGAATCGTGCCCTAATGTGC
* * * * *
84930549 TGGGTTTCAATTTCTCGTTTGCTCAAAATAATCGAATGTCCCTTTGGAATTTCATTCATGTTTTC
66 TGGGTTGCAATTTCTCGTTGGCTCAAAATAATCGAAGGTCCCTTTGGAATTTCACTCACGTTTTC
* *
84930614 TAAAAACTCTTTAAAACGAAGGTAATACTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCGTG
131 TAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTAGCAATTCGGGAATCGTGCCCTATCGTG
* * * * *
84930679 CTGGGTTGCGATTTCCCGTTCGTTCAAAACAATCGAATATTCCTTTGAAATTTCACCCATGTCTT
196 CTGGGTTGCAATTTCCCATTCGTTCAAAACAATCGAAGATTCCTTTGAAATTTCACCCATCTCTC
84930744 T
261 T
* * *
84930745 AAAAATTCTTT-AAGCGAAGGCGATGTTCGATATTTGGCAATTCGCAGAATCGTGCCCT-ATCGT
1 -AAAATTCTTTAAAACGAAGGCGATGTTCAATATTTGACAATTCGCAGAATCGTGCCCTAAT-GT
* *
84930808 GCTGGGTTGCAATTTCTCGTTGGTTCAAAATAATCGAAGGTCCCTTTTGAATTTCACTCACGTTT
64 GCTGGGTTGCAATTTCTCGTTGGCTCAAAATAATCGAAGGTCCCTTTGGAATTTCACTCACGTTT
* * *
84930873 TCTAAAAACTCTTCAAAACGAAGGTAATATTTGATGTTTAGCAATTCGGAGAATCGTGCTCTATC
129 TCTAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTAGCAATTCGG-GAATCGTGCCCTATC
* * *
84930938 GTGCTGGGTTGCAATTTCCTATTTG-TCAAAA-ATGATCGAAGATTCCTTT-AGAATTTCACTCA
193 GTGCTGGGTTGCAATTTCCCATTCGTTCAAAACA--ATCGAAGATTCCTTTGA-AATTTCACCCA
84931000 TACTCTCT
255 T-CTCTCT
* * * * *
84931008 -AAATTC--TAAAA-TAAGGCAATG-TCTGATATTTAGA-AATTCG-AGGAGTCGTGCCCTACTG
1 AAAATTCTTTAAAACGAAGGCGATGTTC-AATATTT-GACAATTCGCA-GAATCGTGCCCTAATG
* *
84931066 TGCTAGGTTTCAATTTTCTCGTT
63 TGCTGGGTTGCAA-TTTCTCGTT
84931089 AGACTAAATA
Statistics
Matches: 299, Mismatches: 32, Indels: 26
0.84 0.09 0.07
Matches are distributed among these distances:
258 3 0.01
259 45 0.15
260 16 0.05
261 161 0.54
262 70 0.23
263 4 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.35
Consensus pattern (261 bp):
AAAATTCTTTAAAACGAAGGCGATGTTCAATATTTGACAATTCGCAGAATCGTGCCCTAATGTGC
TGGGTTGCAATTTCTCGTTGGCTCAAAATAATCGAAGGTCCCTTTGGAATTTCACTCACGTTTTC
TAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTAGCAATTCGGGAATCGTGCCCTATCGTG
CTGGGTTGCAATTTCCCATTCGTTCAAAACAATCGAAGATTCCTTTGAAATTTCACCCATCTCTC
T
Found at i:84931939 original size:19 final size:20
Alignment explanation
Indices: 84931915--84931967 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
84931905 TAAGATTTAT
84931915 AAAAATTTTAAAA-ATAAAA
1 AAAAATTTTAAAATATAAAA
*
84931934 AAAAA-TTTAAAATTTAAAA
1 AAAAATTTTAAAATATAAAA
*
84931953 ATAAAATTATAAAAT
1 A-AAAATTTTAAAAT
84931968 TGATTTGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 7 0.24
19 11 0.38
20 4 0.14
21 7 0.24
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAATTTTAAAATATAAAA
Found at i:84932573 original size:16 final size:17
Alignment explanation
Indices: 84932552--84932586 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
84932542 TGATATTTGG
84932552 ATGATTAAATT-TTTTT
1 ATGATTAAATTATTTTT
84932568 ATGATTAAATTATTTTT
1 ATGATTAAATTATTTTT
84932585 AT
1 AT
84932587 TAAATATGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (17 bp):
ATGATTAAATTATTTTT
Found at i:84933511 original size:3 final size:3
Alignment explanation
Indices: 84933495--84933665 Score: 141
Period size: 3 Copynumber: 56.0 Consensus size: 3
84933485 TATTTATTTC
* * * *
84933495 TAT TAT TTT CTAT TAT TGT CAT TAT TAA TAT ATAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* * * * * * *
84933542 TAT TAC TAA TAT CAC TAT TAC TAT T-T T-T TAT TAC TGT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
84933588 TAT TAT TAT TATT TAC TAT CTAA TA- TAT TAT TAT TACCT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT -TAT TAT TAT TAT TAT TA--T TAT TAT TAT
*
84933636 TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
84933666 ATTTTCTTTT
Statistics
Matches: 134, Mismatches: 26, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
2 6 0.04
3 115 0.86
4 10 0.07
5 3 0.02
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:84933848 original size:3 final size:3
Alignment explanation
Indices: 84933827--84934197 Score: 130
Period size: 3 Copynumber: 125.7 Consensus size: 3
84933817 CAAACTTTAG
* * * **
84933827 ATT ATTT ATT ATT -TGT ATT ATT GTT ATT ATT ACT ATTT ATT CTT ACC
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
* * * *
84933874 ATT ATT ATT ACT ATT ATT TTT GCTT -TT ATT ATT ATT ACT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
84933918 GTT ATT ATT ATT TTCT ATT ACT ATT ATC ATT ATT ATT AAT ACT AAT
1 ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
84933964 ATT AAT ATT CTT ATT ATT ACT ATT ATT ATT ATT ATT CTT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* ** * * * *
84934012 -TT -TT ACT GCT AAT ATTT ATT ATC ATT ATT GTT ACT ATT ATT -TT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
84934055 -TT ACT ATT ATT ATT -TT -TT ATT -TT TTT ACT ACT ATT ACTT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT
* * * * *
84934096 ATT CGTT AGT ATC ATT ATT AATT -TT ATCT -GT ATT -TCT -TT ACT ATT
1 ATT -ATT ATT ATT ATT ATT -ATT ATT AT-T ATT ATT AT-T ATT ATT ATT
* * * *
84934141 ATT TTT ATT CTC ATT ATTT ATT -TT -TT ATT ATT GTT ATT ATT ATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
84934185 GTC A-T ATT ATT AT
1 ATT ATT ATT ATT AT
84934198 ATATGTTTTA
Statistics
Matches: 270, Mismatches: 73, Indels: 50
0.69 0.19 0.13
Matches are distributed among these distances:
2 31 0.11
3 215 0.80
4 24 0.09
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:84936126 original size:25 final size:25
Alignment explanation
Indices: 84936089--84936143 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
84936079 AACGAAACAA
84936089 ATCA-AACAGAACAAAACT-GAATAG
1 ATCAGAACAGAACAAAA-TGGAATAG
* *
84936113 ATCAGAACATAACAGAATGGAATAG
1 ATCAGAACAGAACAAAATGGAATAG
*
84936138 AGCAGA
1 ATCAGA
84936144 GCAAAACTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.13
Consensus pattern (25 bp):
ATCAGAACAGAACAAAATGGAATAG
Found at i:84936183 original size:35 final size:35
Alignment explanation
Indices: 84936117--84936211 Score: 102
Period size: 35 Copynumber: 2.7 Consensus size: 35
84936107 GAATAGATCA
* ** *
84936117 GAACATAACAGAATGGAATAGAGCAGAGCAAAACT-
1 GAACAGAACAGAACAGAACAGAGCAGAGCAAAA-TG
* * * *
84936152 GAACTGAACTGAATAGAACGGAGCAGAGCAAAATG
1 GAACAGAACAGAACAGAACAGAGCAGAGCAAAATG
84936187 GAACAGAACAGAACAGAACAGAGCA
1 GAACAGAACAGAACAGAACAGAGCA
84936212 TGTATGTTTA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
34 1 0.02
35 48 0.98
ACGTcount: A:0.51, C:0.16, G:0.25, T:0.08
Consensus pattern (35 bp):
GAACAGAACAGAACAGAACAGAGCAGAGCAAAATG
Found at i:84949994 original size:17 final size:17
Alignment explanation
Indices: 84949972--84950021 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
84949962 AGTAATAATA
*
84949972 ATTAAAATTTTAAAAAT
1 ATTAAAAATTTAAAAAT
84949989 ATTAAAAATTTAAAAAT
1 ATTAAAAATTTAAAAAT
** *
84950006 AACAAAAATTCAAAAA
1 ATTAAAAATTTAAAAA
84950022 AAATGTTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (17 bp):
ATTAAAAATTTAAAAAT
Found at i:84956485 original size:18 final size:19
Alignment explanation
Indices: 84956462--84956498 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
84956452 AAATTAAAAT
84956462 ATTAATTAAACTAA-TTAA
1 ATTAATTAAACTAACTTAA
*
84956480 ATTAATTAACCTAACTTAA
1 ATTAATTAAACTAACTTAA
84956499 CCTAATGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTAATTAAACTAACTTAA
Found at i:84959636 original size:12 final size:11
Alignment explanation
Indices: 84959619--84959649 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
84959609 AAATTTTAGG
84959619 TTAGTTTAATT
1 TTAGTTTAATT
84959630 ATTAGTTTAATT
1 -TTAGTTTAATT
84959642 TTAGTTTA
1 TTAGTTTA
84959650 TAAGAACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (11 bp):
TTAGTTTAATT
Found at i:84964167 original size:46 final size:46
Alignment explanation
Indices: 84964098--84964210 Score: 163
Period size: 46 Copynumber: 2.5 Consensus size: 46
84964088 GCTAGTGTAG
*
84964098 GACATGTCTGGGAAATGCATCAGCCACATCATAAGAGCCAGTATAA
1 GACATGTCTGGGACATGCATCAGCCACATCATAAGAGCCAGTATAA
** * * * *
84964144 GACATGTCTGGGACATGTGTCAGCCAGATCATGAGAGCTAGTGTAA
1 GACATGTCTGGGACATGCATCAGCCACATCATAAGAGCCAGTATAA
84964190 GACATGTCTGGGACATGCATC
1 GACATGTCTGGGACATGCATC
84964211 GGCGTCGTGA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 58 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (46 bp):
GACATGTCTGGGACATGCATCAGCCACATCATAAGAGCCAGTATAA
Found at i:84964332 original size:49 final size:49
Alignment explanation
Indices: 84964274--84964397 Score: 160
Period size: 49 Copynumber: 2.5 Consensus size: 49
84964264 TGTTGTATGT
* *
84964274 CAGTGTAAGACCTGTTTGGGATATGGCATCGACAC-CGATAGATGAGAGC
1 CAGTGTAAGACCTGTTTGGGACATGGCATCGAC-CTCGATAGATGAAAGC
* * * *
84964323 CAGTGTAAGACCTGTTTGGGACATGGCATCGGCCTTGCTATATGAAAGC
1 CAGTGTAAGACCTGTTTGGGACATGGCATCGACCTCGATAGATGAAAGC
*
84964372 CAGTGTAAGACCATGTCTGGGACATG
1 CAGTGTAAGACC-TGTTTGGGACATG
84964398 ACGTTGGCAT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
48 1 0.02
49 53 0.80
50 12 0.18
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTTTGGGACATGGCATCGACCTCGATAGATGAAAGC
Found at i:84969834 original size:19 final size:19
Alignment explanation
Indices: 84969810--84969847 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
84969800 TGCGAATGAA
84969810 TCATTTCTCATTTTC-TTTT
1 TCATTTC-CATTTTCATTTT
84969829 TCATTTCCATTTTCATTTT
1 TCATTTCCATTTTCATTTT
84969848 GAGAAAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.13, C:0.21, G:0.00, T:0.66
Consensus pattern (19 bp):
TCATTTCCATTTTCATTTT
Found at i:84973787 original size:63 final size:62
Alignment explanation
Indices: 84973673--84973790 Score: 146
Period size: 63 Copynumber: 1.9 Consensus size: 62
84973663 ATTTTAATAA
** *
84973673 ATCTAATTAAAACTTTTAAAAAATTGCCAGACTTAATGAGAATTTACAAAAATTTTAAAGGG
1 ATCTAATTAAAACTTTTAAAAAATTGAAAGACTTAATAAGAATTTACAAAAATTTTAAAGGG
* ** * **
84973735 ATCTAATTAAAATTTTTAAATATTTTGAAAGACTTATTAAGAATTTTTAAAAATTT
1 ATCTAATTAAAACTTTTAAA-AAATTGAAAGACTTAATAAGAATTTACAAAAATTT
84973791 CAAAAGTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
62 19 0.41
63 27 0.59
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (62 bp):
ATCTAATTAAAACTTTTAAAAAATTGAAAGACTTAATAAGAATTTACAAAAATTTTAAAGGG
Found at i:84974271 original size:6 final size:6
Alignment explanation
Indices: 84974260--84974292 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
84974250 ACAACAATGA
84974260 CTCACT CTCACT CTCACT CTCACT CTCACT CTC
1 CTCACT CTCACT CTCACT CTCACT CTCACT CTC
84974293 TTACATGTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.52, G:0.00, T:0.33
Consensus pattern (6 bp):
CTCACT
Found at i:84975908 original size:21 final size:22
Alignment explanation
Indices: 84975882--84975928 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
84975872 CTCTGCTCAA
*
84975882 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
84975903 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
84975925 ACTC
1 ACTC
84975929 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:84979117 original size:21 final size:22
Alignment explanation
Indices: 84979091--84979137 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
84979081 CTCTGCTCAA
*
84979091 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
84979112 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
84979134 ACTC
1 ACTC
84979138 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:84980376 original size:12 final size:12
Alignment explanation
Indices: 84980359--84980411 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
84980349 ATGGTTGCCC
*
84980359 TCATCATTGTCA
1 TCATCATTATCA
84980371 TCATCATTATCA
1 TCATCATTATCA
* * *
84980383 TTATCATCAACA
1 TCATCATTATCA
*
84980395 TCATCGTTATCA
1 TCATCATTATCA
84980407 TCATC
1 TCATC
84980412 TTCTACTTCA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.30, C:0.26, G:0.04, T:0.40
Consensus pattern (12 bp):
TCATCATTATCA
Found at i:84980384 original size:18 final size:18
Alignment explanation
Indices: 84980359--84980411 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
84980349 ATGGTTGCCC
*
84980359 TCATCATTGTCATCATCA
1 TCATCATTATCATCATCA
* *
84980377 TTATCATTATCATCAACA
1 TCATCATTATCATCATCA
*
84980395 TCATCGTTATCATCATC
1 TCATCATTATCATCATC
84980412 TTCTACTTCA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.30, C:0.26, G:0.04, T:0.40
Consensus pattern (18 bp):
TCATCATTATCATCATCA
Found at i:84982300 original size:2 final size:2
Alignment explanation
Indices: 84982293--84982319 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
84982283 CAAGACCAGA
84982293 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
84982320 CTGTGCAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:84986245 original size:12 final size:13
Alignment explanation
Indices: 84986228--84986257 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
84986218 AGCCTTTATG
84986228 GAAAAGAAA-AAA
1 GAAAAGAAAGAAA
84986240 GAAAAGAAAGAAA
1 GAAAAGAAAGAAA
84986253 GAAAA
1 GAAAA
84986258 TCACTTGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
GAAAAGAAAGAAA
Found at i:84990117 original size:30 final size:30
Alignment explanation
Indices: 84990083--84990143 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
84990073 TAGAAGATAG
84990083 ACATAAATGTGATTGACTGACTGGACTGAC
1 ACATAAATGTGATTGACTGACTGGACTGAC
84990113 ACATAAATGTGATTGACTGACTGGACTGAC
1 ACATAAATGTGATTGACTGACTGGACTGAC
84990143 A
1 A
84990144 GTACTTCGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.26
Consensus pattern (30 bp):
ACATAAATGTGATTGACTGACTGGACTGAC
Found at i:84993479 original size:17 final size:18
Alignment explanation
Indices: 84993457--84993491 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
84993447 CCTTTTAGGC
84993457 CATGTGGG-CCATACGGG
1 CATGTGGGCCCATACGGG
84993474 CATGTGGGCCCATACGGG
1 CATGTGGGCCCATACGGG
84993492 TGAACCACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.17, C:0.26, G:0.40, T:0.17
Consensus pattern (18 bp):
CATGTGGGCCCATACGGG
Found at i:84999975 original size:17 final size:15
Alignment explanation
Indices: 84999943--84999972 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
84999933 ACTTTGAGTA
84999943 ATGGTGTGCAATGGG
1 ATGGTGTGCAATGGG
*
84999958 ATGGTGTGTAATGGG
1 ATGGTGTGCAATGGG
84999973 GGAGTGTGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.03, G:0.47, T:0.30
Consensus pattern (15 bp):
ATGGTGTGCAATGGG
Found at i:85013911 original size:19 final size:19
Alignment explanation
Indices: 85013887--85013925 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
85013877 TGAGATTGAT
85013887 AGCAGGAATGAGGAGTATA
1 AGCAGGAATGAGGAGTATA
85013906 AGCAGGAATGAGGAGTATA
1 AGCAGGAATGAGGAGTATA
85013925 A
1 A
85013926 ACTCCTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.36, T:0.15
Consensus pattern (19 bp):
AGCAGGAATGAGGAGTATA
Found at i:85014667 original size:26 final size:26
Alignment explanation
Indices: 85014636--85014687 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
85014626 GCTTTCCACT
85014636 TCATTTTTGACGCTCAATCTCTTTCC
1 TCATTTTTGACGCTCAATCTCTTTCC
* * *
85014662 TCATTTTTTACTCTCATTCTCTTTCC
1 TCATTTTTGACGCTCAATCTCTTTCC
85014688 CTTAGCGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.13, C:0.31, G:0.04, T:0.52
Consensus pattern (26 bp):
TCATTTTTGACGCTCAATCTCTTTCC
Found at i:85015884 original size:6 final size:6
Alignment explanation
Indices: 85015873--85015900 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
85015863 TTAAAACTAC
85015873 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
85015901 TAGCAGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:85029942 original size:21 final size:21
Alignment explanation
Indices: 85029918--85029960 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
85029908 CCATATAAGG
85029918 ACCTCAATTTTTGAATTCCAT
1 ACCTCAATTTTTGAATTCCAT
85029939 ACCTCAATTTTTGAATTCCAT
1 ACCTCAATTTTTGAATTCCAT
85029960 A
1 A
85029961 ACTGTTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.42
Consensus pattern (21 bp):
ACCTCAATTTTTGAATTCCAT
Found at i:85031868 original size:22 final size:21
Alignment explanation
Indices: 85031838--85031884 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
85031828 TACAAATTAA
85031838 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
85031860 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
85031881 ATCT
1 ATCT
85031885 AAGATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:85031878 original size:16 final size:16
Alignment explanation
Indices: 85031857--85031907 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 16
85031847 ATTACAAGAT
85031857 CATATCTTCAAGATTG
1 CATATCTTCAAGATTG
85031873 CATATCATATCTAAGATTG
1 CATATC-T-TC-AAGATTG
*
85031892 CATATCCTTAAAGATT
1 CATAT-CTTCAAGATT
85031908 ATATTTCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 13 0.43
20 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (16 bp):
CATATCTTCAAGATTG
Found at i:85031890 original size:19 final size:21
Alignment explanation
Indices: 85031855--85031897 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
85031845 AGATTACAAG
85031855 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
85031876 ATCATATC-T-AAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
85031895 ATC
1 ATC
85031898 CTTAAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
20 1 0.05
21 8 0.36
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (21 bp):
ATCATATCTTCAAGATTGCAT
Found at i:85032318 original size:45 final size:45
Alignment explanation
Indices: 85032252--85032363 Score: 154
Period size: 45 Copynumber: 2.5 Consensus size: 45
85032242 GAAAGGCAAT
* *
85032252 ATATGCTATCTTTGATTTGCTCCCCATCTAATACAGAGACGCCAA
1 ATATGCTATCTTCGATCTGCTCCCCATCTAATACAGAGACGCCAA
* * *
85032297 ATATGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATATGCTATCTTCGATCTGCTCCCCATCTAATACAGAGACGCCAA
* *
85032342 ATTTGCT-TCTTCAATCTGCTCC
1 ATATGCTATCTTCGATCTGCTCC
85032364 TTACAAACTC
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
44 14 0.24
45 45 0.76
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (45 bp):
ATATGCTATCTTCGATCTGCTCCCCATCTAATACAGAGACGCCAA
Found at i:85033174 original size:205 final size:205
Alignment explanation
Indices: 85032437--85033151 Score: 1295
Period size: 205 Copynumber: 3.5 Consensus size: 205
85032427 AAATCTGCTT
* * *
85032437 CTTCGATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* *
85032502 GTGAAAGCCAAATCAGTTATGTCTTCGATTTGCTCCTTGTAAGTACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
85032567 GGATCTGCTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
131 GGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
85032632 AGATGCCAGA
196 AGATGCCAGA
85032642 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
85032707 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
85032772 GGATCTACTTCAGTATAAACATCTGAAGTTTAGATCTGCTATGTGTCTGCCCTTCGTCGAAGTGG
131 GGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
85032837 AGATGCCAGA
196 AGATGCCAGA
* *
85032847 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGTTTCAAAGTAAGCAC
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* *
85032912 GTGAAATCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTGAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
85032977 GGATTTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
131 GGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
85033042 AGATGCCAGA
196 AGATGCCAGA
85033052 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
*
85033117 GTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTC
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTC
85033152 TCTGCCAATA
Statistics
Matches: 490, Mismatches: 20, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
205 490 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
AGATGCCAGA
Found at i:85033189 original size:44 final size:44
Alignment explanation
Indices: 85033123--85033230 Score: 171
Period size: 44 Copynumber: 2.4 Consensus size: 44
85033113 GCACGTGAAA
* *
85033123 GCCAAATCAGCTATGTCTTCGATCTGCTCTCTGCCAATACAGAGAT
1 GCCAAATCTGCTA--TCTTCGATCTGCTCTCTGACAATACAGAGAT
*
85033169 GCCAAATCTGGTATCTTCGATCTGCTCTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
85033213 GCCAAATCTGCTATCTTC
1 GCCAAATCTGCTATCTTC
85033231 AACTTGTTCC
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
44 47 0.81
46 11 0.19
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.30
Consensus pattern (44 bp):
GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
Found at i:85033637 original size:132 final size:132
Alignment explanation
Indices: 85033174--85033881 Score: 776
Period size: 132 Copynumber: 5.4 Consensus size: 132
85033164 GAGATGCCAA
* * * * * *
85033174 ATCTGGTATCTTCGATCTGCTCTCTGA-CAATACAGAGATGCCAAATCTGCTATCTTCAACTTGT
1 ATCTGTTATCTTCGATCTGTTCCCT-ATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGT
*
85033238 TCCCTATAAACACAGGGATGTCATGCTGAAATCCTCGATCTGCTTCGTTGTAAGCACAGAAGTGT
65 TCCCTATAAACACAGGGATGTCATGCTGAAATCCTCGATCTGCTTCGCTGTAAGCACAGAAGTGT
85033303 TAG
130 TAG
* ** * *
85033306 ATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGATGTC--ATGCTGAAATCCTCGA-TCTG
1 ATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAAT-CTGCTATCTTCAACT-TG
** * * * * ** * * * *
85033368 CTTCGTTGTAAGCACA-GAAGTGTTA-GATCTGTTATCTTCGATCTG-TTCCCTATAAACACAG-
64 -TTCCCTATAAACACAGGGA-TGTCATG--CTGAAATCCTCGATCTGCTTCGCTGTAAGCACAGA
* *
85033429 GGATG-T-C
125 AG-TGTTAG
** * ** * * *
85033436 ATGCTGAAATCCTCGATCTGCTTCGTTGTAAGCACA-GAAGTGCCAAATCTGCTATCTTCAACTT
1 AT-CTGTTATCTTCGATCTG-TTCCCTATAAACACAGGGA-TGCCAAATCTGCTATCTTCAACTT
*
85033500 GTTCCCTATAAACACAGGGATGTCATGCTGAAATCCTCGATCTGCTTCGTTGTAAGCACAGAAGT
63 GTTCCCTATAAACACAGGGATGTCATGCTGAAATCCTCGATCTGCTTCGCTGTAAGCACAGAAGT
85033565 GTTAG
128 GTTAG
* *
85033570 ATCTGTTATCTTCGATCTGTTCCCTATAAACAAAGGGATGCCAAATCTGCTATCATCAACTTGTT
1 ATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTT
* * * *
85033635 CCCTATAAACACAGGGATGCCATGCTGAAATCCTCAATCTGCTTCGCTGTAAGCACAGGAGTGTC
66 CCCTATAAACACAGGGATGTCATGCTGAAATCCTCGATCTGCTTCGCTGTAAGCACAGAAGTGTT
85033700 AG
131 AG
85033702 ATCTGTTATCTTCGATCTGTTCCCTATAAAC-CTAGGGATGCCAAATCTGCTATCTTCAACTTGT
1 ATCTGTTATCTTCGATCTGTTCCCTATAAACAC-AGGGATGCCAAATCTGCTATCTTCAACTTGT
* * * *
85033766 TCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATTTGTTTCGCTGTAAGCACAGGAA-TG
65 TCCCTATAAACACAGGGATGTCATGCTGAAATCCTCGATCTGCTTCGCTGTAAGCACA-GAAGTG
*
85033830 TCAG
129 TTAG
* *
85033834 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGTCAAATCT
1 ATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCT
85033882 TGTTTCTTTG
Statistics
Matches: 474, Mismatches: 78, Indels: 48
0.79 0.13 0.08
Matches are distributed among these distances:
130 5 0.01
131 47 0.10
132 368 0.78
133 49 0.10
134 5 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (132 bp):
ATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTT
CCCTATAAACACAGGGATGTCATGCTGAAATCCTCGATCTGCTTCGCTGTAAGCACAGAAGTGTT
AG
Found at i:85033648 original size:88 final size:88
Alignment explanation
Indices: 85033218--85033609 Score: 680
Period size: 88 Copynumber: 4.5 Consensus size: 88
85033208 GAGATGCCAA
* *
85033218 ATCTGCTATCTTC-AACTTGTTCCCTATAAACACAGGGATGTCATGCTGAAATCCTCGATCTGCT
1 ATCTGTTATCTTCGATC-TGTTCCCTATAAACACAGGGATGTCATGCTGAAATCCTCGATCTGCT
85033282 TCGTTGTAAGCACAGAAGTGTTAG
65 TCGTTGTAAGCACAGAAGTGTTAG
85033306 ATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGATGTCATGCTGAAATCCTCGATCTGCTT
1 ATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGATGTCATGCTGAAATCCTCGATCTGCTT
85033371 CGTTGTAAGCACAGAAGTGTTAG
66 CGTTGTAAGCACAGAAGTGTTAG
85033394 ATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGATGTCATGCTGAAATCCTCGATCTGCTT
1 ATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGATGTCATGCTGAAATCCTCGATCTGCTT
** *
85033459 CGTTGTAAGCACAGAAGTGCCAA
66 CGTTGTAAGCACAGAAGTGTTAG
* *
85033482 ATCTGCTATCTTC-AACTTGTTCCCTATAAACACAGGGATGTCATGCTGAAATCCTCGATCTGCT
1 ATCTGTTATCTTCGATC-TGTTCCCTATAAACACAGGGATGTCATGCTGAAATCCTCGATCTGCT
85033546 TCGTTGTAAGCACAGAAGTGTTAG
65 TCGTTGTAAGCACAGAAGTGTTAG
*
85033570 ATCTGTTATCTTCGATCTGTTCCCTATAAACAAAGGGATG
1 ATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGATG
85033610 CCAAATCTGC
Statistics
Matches: 288, Mismatches: 13, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
87 2 0.01
88 282 0.98
89 4 0.01
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (88 bp):
ATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGATGTCATGCTGAAATCCTCGATCTGCTT
CGTTGTAAGCACAGAAGTGTTAG
Found at i:85033895 original size:44 final size:44
Alignment explanation
Indices: 85033161--85033881 Score: 372
Period size: 44 Copynumber: 16.4 Consensus size: 44
85033151 CTCTGCCAAT
* * * * * * *
85033161 ACAGAGATGCCAAATCTGGTATCTTCGATCTGCTCTCTGA-CAAT
1 ACAGGGATGTCAAATCTGCTATCTTCGATCTGTTCCCT-ATAAAC
* * *
85033205 ACAGAGATGCCAAATCTGCTATCTTC-AACTTGTTCCCTATAAAC
1 ACAGGGATGTCAAATCTGCTATCTTCGATC-TGTTCCCTATAAAC
** * ** * *
85033249 ACAGGGATGTC--ATGCTGAAATCCTCGATCTGCTTCGTTGTAAGC
1 ACAGGGATGTCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAAC
* * * *
85033293 ACA-GAAGTGTTAGATCTGTTATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGA-TGTCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
** * ** * *
85033337 ACAGGGATGTC--ATGCTGAAATCCTCGATCTGCTTCGTTGTAAGC
1 ACAGGGATGTCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAAC
* * * *
85033381 ACA-GAAGTGTTAGATCTGTTATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGA-TGTCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
** * ** * *
85033425 ACAGGGATGTC--ATGCTGAAATCCTCGATCTGCTTCGTTGTAAGC
1 ACAGGGATGTCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAAC
* * *
85033469 ACA-GAAGTGCCAAATCTGCTATCTTC-AACTTGTTCCCTATAAAC
1 ACAGGGA-TGTCAAATCTGCTATCTTCGATC-TGTTCCCTATAAAC
** * ** * *
85033513 ACAGGGATGTC--ATGCTGAAATCCTCGATCTGCTTCGTTGTAAGC
1 ACAGGGATGTCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAAC
* * * *
85033557 ACA-GAAGTGTTAGATCTGTTATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGA-TGTCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
* * * *
85033601 AAAGGGATGCCAAATCTGCTATCATC-AACTTGTTCCCTATAAAC
1 ACAGGGATGTCAAATCTGCTATCTTCGATC-TGTTCCCTATAAAC
* ** * * * * *
85033645 ACAGGGATG-C-CATGCTGAAATCCTCAATCTGCTTCGCTGTAAGC
1 ACAGGGATGTCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAAC
* *
85033689 ACA-GGAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGA-TGTCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
* *
85033733 -CTAGGGATGCCAAATCTGCTATCTTC-AACTTGTTCCCTATAAAC
1 AC-AGGGATGTCAAATCTGCTATCTTCGATC-TGTTCCCTATAAAC
* ** * * * *
85033777 ACAGGGATG-C-CATGCTGAAATCTTCGATTTGTTTCGCTGTAAGC
1 ACAGGGATGTCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAAC
* *
85033821 ACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGATGTCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
85033865 ACAGGGATGTCAAATCT
1 ACAGGGATGTCAAATCT
85033882 TGTTTCTTTG
Statistics
Matches: 504, Mismatches: 128, Indels: 90
0.70 0.18 0.12
Matches are distributed among these distances:
42 12 0.02
43 90 0.18
44 297 0.59
45 93 0.18
46 12 0.02
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (44 bp):
ACAGGGATGTCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
Found at i:85034811 original size:20 final size:19
Alignment explanation
Indices: 85034786--85034830 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
85034776 CTTTTTTCTC
85034786 TTTTTTATTTTTATTATTAT
1 TTTTTTATTTTTATT-TTAT
* * *
85034806 TTTTTTCTTTTTCTTTTCT
1 TTTTTTATTTTTATTTTAT
85034825 TTTTTT
1 TTTTTT
85034831 TTGAAATAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTTTATTTTTATTTTAT
Found at i:85041616 original size:19 final size:19
Alignment explanation
Indices: 85041581--85041678 Score: 137
Period size: 19 Copynumber: 5.2 Consensus size: 19
85041571 AGATTATAAG
85041581 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
85041602 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
85041621 ATCATATCTAAGACTG--T
1 ATCATATCTAAGATTGCAT
* *
85041638 ATCATATCTATGATTGCGT
1 ATCATATCTAAGATTGCAT
85041657 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
85041676 ATC
1 ATC
85041679 CTTAAAGATT
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
17 15 0.21
19 46 0.66
20 1 0.01
21 8 0.11
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:85041645 original size:36 final size:36
Alignment explanation
Indices: 85041601--85041669 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
85041591 CAAGATTGCA
85041601 TATCATATCTAAGATTGCATATCATATCTAAGACTG
1 TATCATATCTAAGATTGCATATCATATCTAAGACTG
* *
85041637 TATCATATCTATGATTGCGTATCATATCTAAGA
1 TATCATATCTAAGATTGCATATCATATCTAAGA
85041670 TTGCATATCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.38
Consensus pattern (36 bp):
TATCATATCTAAGATTGCATATCATATCTAAGACTG
Found at i:85045171 original size:39 final size:40
Alignment explanation
Indices: 85045020--85045189 Score: 198
Period size: 40 Copynumber: 4.3 Consensus size: 40
85045010 GGACTAAGAT
* * * *
85045020 CCGAAGGCCTTTGTGCGAGATACTAAATCTGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
85045060 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
85045100 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
85045140 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
85045179 CCGAAGGCATT
1 CCGAAGGCATT
85045190 TGAACGAGGA
Statistics
Matches: 111, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
39 32 0.29
40 79 0.71
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:85045209 original size:79 final size:80
Alignment explanation
Indices: 85045042--85045224 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 80
85045032 GTGCGAGATA
* * * * *
85045042 CTAAATCTGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
85045107 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
85045122 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
85045186 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
85045201 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
85045225 TACGTGAATT
Statistics
Matches: 84, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
78 14 0.17
79 47 0.56
80 23 0.27
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:85046776 original size:54 final size:54
Alignment explanation
Indices: 85046683--85046800 Score: 150
Period size: 54 Copynumber: 2.2 Consensus size: 54
85046673 TCCAGTTAGC
* * * *
85046683 GAGTTACATGGCCTAGCACACGGCCTAGTACACAGGCGTGTGTGGCAACTCAGA
1 GAGTTACACGACCTAGCACACGGCCTAGTACACAGGCGTGTGGGGAAACTCAGA
* *
85046737 GAGTTACACGACCTAGCACACTGCCT-G-ACACATGCGCGTGTGGGGAAACTCAGT
1 GAGTTACACGACCTAGCACACGGCCTAGTACACA-G-GCGTGTGGGGAAACTCAGA
85046791 GAGTTACACG
1 GAGTTACACG
85046801 GGTGAAGACA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
52 5 0.09
53 2 0.04
54 49 0.88
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.19
Consensus pattern (54 bp):
GAGTTACACGACCTAGCACACGGCCTAGTACACAGGCGTGTGGGGAAACTCAGA
Found at i:85047439 original size:8 final size:8
Alignment explanation
Indices: 85047425--85047454 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
85047415 ATAAATGAAT
85047425 AGAAATGG
1 AGAAATGG
*
85047433 TGAAATGG
1 AGAAATGG
85047441 AGAAATGG
1 AGAAATGG
85047449 AGAAAT
1 AGAAAT
85047455 AGTAAACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (8 bp):
AGAAATGG
Found at i:85047544 original size:58 final size:58
Alignment explanation
Indices: 85047443--85047558 Score: 153
Period size: 58 Copynumber: 2.0 Consensus size: 58
85047433 TGAAATGGAG
* *
85047443 AAATGGAGAAATAGTAAACATTTGAAAATGATTATGGATTTCTCCAAAAATGAAAATGA
1 AAATGGAGAAATAGGAAACATTTGAAAATGAATATGGATTTCTCC-AAAATGAAAATGA
* * * * *
85047502 AAATGGAGAAAT-GGAATCTTTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAATGA
1 AAATGGAGAAATAGGAAACATTTGAAAATGAATATGGATTTCTCCAAAATGAAAATGA
85047559 CCTGAAAAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 13 0.26
58 25 0.50
59 12 0.24
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.28
Consensus pattern (58 bp):
AAATGGAGAAATAGGAAACATTTGAAAATGAATATGGATTTCTCCAAAATGAAAATGA
Found at i:85049082 original size:35 final size:35
Alignment explanation
Indices: 85049043--85049133 Score: 101
Period size: 35 Copynumber: 2.6 Consensus size: 35
85049033 ACTGATACTT
85049043 TGATTCACATGTTAAGCATGTTACTATTCTGATTA
1 TGATTCACATGTTAAGCATGTTACTATTCTGATTA
** * * * *
85049078 TGATTTGCATGTTGAGCATGTTATTATTTTGATTC
1 TGATTCACATGTTAAGCATGTTACTATTCTGATTA
* * *
85049113 TGAATCACTTGTTAAACATGT
1 TGATTCACATGTTAAGCATGT
85049134 CATTGTGTTA
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.45
Consensus pattern (35 bp):
TGATTCACATGTTAAGCATGTTACTATTCTGATTA
Found at i:85052295 original size:20 final size:20
Alignment explanation
Indices: 85052272--85052319 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
85052262 ACAATTTATT
85052272 GATACTTGGTAAAAGGTATC
1 GATACTTGGTAAAAGGTATC
**
85052292 GATACTTTTTTAAAAGGTATC
1 GATAC-TTGGTAAAAGGTATC
*
85052313 AATACTT
1 GATACTT
85052320 TTGTAATTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (20 bp):
GATACTTGGTAAAAGGTATC
Found at i:85052307 original size:21 final size:21
Alignment explanation
Indices: 85052281--85052321 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
85052271 TGATACTTGG
*
85052281 TAAAAGGTATCGATACTTTTT
1 TAAAAGGTATCAATACTTTTT
85052302 TAAAAGGTATCAATACTTTT
1 TAAAAGGTATCAATACTTTT
85052322 GTAATTGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (21 bp):
TAAAAGGTATCAATACTTTTT
Found at i:85052558 original size:22 final size:24
Alignment explanation
Indices: 85052533--85052576 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
85052523 ATTTTATTCA
85052533 ACTTTAACTT-TTAT-TCAAAAAC
1 ACTTTAACTTGTTATATCAAAAAC
*
85052555 ACTTTAATTTGTTATATCAAAA
1 ACTTTAACTTGTTATATCAAAA
85052577 CATATTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.43
Consensus pattern (24 bp):
ACTTTAACTTGTTATATCAAAAAC
Found at i:85053013 original size:21 final size:20
Alignment explanation
Indices: 85052989--85053034 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
85052979 AAAAAAGAAA
* *
85052989 AAGTTGGTGGATCAAAATTT
1 AAGTTGATGGATAAAAATTT
85053009 CAAGTTTGATGGATAAAAATTT
1 -AAG-TTGATGGATAAAAATTT
85053031 AAGT
1 AAGT
85053035 CGTGAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 1 0.05
21 6 0.27
22 15 0.68
ACGTcount: A:0.39, C:0.04, G:0.22, T:0.35
Consensus pattern (20 bp):
AAGTTGATGGATAAAAATTT
Found at i:85056920 original size:12 final size:11
Alignment explanation
Indices: 85056877--85056925 Score: 53
Period size: 11 Copynumber: 4.2 Consensus size: 11
85056867 TTTAAAATTT
*
85056877 AAAATTATTAA
1 AAAATTATAAA
85056888 AAAATTATAAA
1 AAAATTATAAA
*
85056899 CGAAATTTATAAA
1 --AAAATTATAAA
85056912 AAAAGTTATAAA
1 AAAA-TTATAAA
85056924 AA
1 AA
85056926 TTTTAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
11 13 0.41
12 9 0.28
13 10 0.31
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:85057080 original size:18 final size:17
Alignment explanation
Indices: 85057044--85057078 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
85057034 TTATTTTTAA
*
85057044 TAAAAAATTTATAATTT
1 TAAAAAATGTATAATTT
85057061 TAAAAAATGTATAATTT
1 TAAAAAATGTATAATTT
85057078 T
1 T
85057079 TATAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
TAAAAAATGTATAATTT
Found at i:85068005 original size:38 final size:38
Alignment explanation
Indices: 85067944--85068130 Score: 205
Period size: 38 Copynumber: 4.8 Consensus size: 38
85067934 ATTTGATGTG
* * **
85067944 TATCCGGGCTTAAAGGCCCGCAGGCTTTATGCTGAAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCATGCTGGTATTA
* *
85067984 TATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATTA
* *
85068022 TATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATTA
*
85068060 TATCCGGGTTAAATCCCGCAGGCCT-AGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGTATTA
* * * *
85068098 TATCTGAGTTTAAAGTCCCGTAGGCTTCGTGCT
1 TATCCG-GGTTAAA-TCCCGCAGGCTTCATGCT
85068131 AGTGTTATGT
Statistics
Matches: 127, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
38 95 0.75
39 11 0.09
40 21 0.17
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATTA
Found at i:85068053 original size:76 final size:77
Alignment explanation
Indices: 85067944--85068130 Score: 241
Period size: 76 Copynumber: 2.4 Consensus size: 77
85067934 ATTTGATGTG
* ** * *
85067944 TATCCGGGCTTAAAGGCCCGCAGGCTTTATGCTGAAATTATATCTGGGTTAAATCCCGCAGGCTT
1 TATCCGGG-TTAAAGTCCCGCAGGCTTCGTGCTGAAATTATATCCGGGTTAAATCCCGCAGGCCT
*
85068009 CGTGCTGGTATTA
65 AGTGCTGGTATTA
* **
85068022 TATCCGGGTTAAA-TCCCACAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTA
1 TATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGAAATTATATCCGGGTTAAATCCCGCAGGCCTA
85068086 GTGCTGGTATTA
66 GTGCTGGTATTA
* * *
85068098 TATCTGAGTTTAAAGTCCCGTAGGCTTCGTGCT
1 TATCCG-GGTTAAAGTCCCGCAGGCTTCGTGCT
85068131 AGTGTTATGT
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
76 59 0.63
77 11 0.12
78 24 0.26
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (77 bp):
TATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGAAATTATATCCGGGTTAAATCCCGCAGGCCTA
GTGCTGGTATTA
Found at i:85072930 original size:28 final size:28
Alignment explanation
Indices: 85072848--85072997 Score: 187
Period size: 28 Copynumber: 5.4 Consensus size: 28
85072838 GAGATTGGCG
* * * *
85072848 CTAAGTGTGCGGGTTTAAATTGTGCAGCA
1 CTAAGTGTGCGAGTTT-GATTATGTAGCA
* *
85072877 CTAAGTGTGCGA-ATTGAATATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
85072904 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
85072932 CTAAGTGTGCGAGTATGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
85072960 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
85072987 CTGAGTGTGCG
1 CTAAGTGTGCG
85072998 GACTTAATAA
Statistics
Matches: 107, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
27 42 0.39
28 54 0.50
29 11 0.10
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:85072938 original size:55 final size:55
Alignment explanation
Indices: 85072873--85072997 Score: 189
Period size: 55 Copynumber: 2.3 Consensus size: 55
85072863 TAAATTGTGC
*
85072873 AGCACTAAGTGTGCGAAT-TGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATATGAATATGTAGCACTAAGTGTGCGAG-TTGACTATAT
* * *
85072928 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATATGAATATGTAGCACTAAGTGTGCGAGTTGACTATAT
*
85072983 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
85072998 GACTTAATAA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 39 0.61
56 25 0.39
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAATATGAATATGTAGCACTAAGTGTGCGAGTTGACTATAT
Found at i:85078175 original size:13 final size:13
Alignment explanation
Indices: 85078157--85078182 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
85078147 CAAAATCATA
85078157 ATTATAATAATTT
1 ATTATAATAATTT
85078170 ATTATAATAATTT
1 ATTATAATAATTT
85078183 CGGTAAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTATAATAATTT
Found at i:85080438 original size:24 final size:23
Alignment explanation
Indices: 85080403--85080452 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
85080393 CATTAAATGC
85080403 TTACTAGATTTTCTTTACTCAGTT
1 TTACTAGATTTTCTTT-CTCAGTT
* *
85080427 TTACTAGGTTTTCTTTCTCTGTT
1 TTACTAGATTTTCTTTCTCAGTT
85080450 TTA
1 TTA
85080453 TTAGTGCTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.16, C:0.16, G:0.10, T:0.58
Consensus pattern (23 bp):
TTACTAGATTTTCTTTCTCAGTT
Found at i:85081181 original size:18 final size:18
Alignment explanation
Indices: 85081160--85081195 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
85081150 GACATGGGCT
85081160 AGGACACAGCCATGTGCC
1 AGGACACAGCCATGTGCC
*
85081178 AGGACACGGCCATGTGCC
1 AGGACACAGCCATGTGCC
85081196 TTACATCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.33, G:0.31, T:0.11
Consensus pattern (18 bp):
AGGACACAGCCATGTGCC
Found at i:85084072 original size:47 final size:48
Alignment explanation
Indices: 85083998--85084224 Score: 213
Period size: 47 Copynumber: 4.8 Consensus size: 48
85083988 AGGGTATAAT
85083998 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCAT-GTCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCGTCTCAA
* * * *
85084045 GTCGATGCCATGTCCCAAACATTGTCTTACACT-GACT-ATCGTCATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCGTC-TC-AA
* *
85084094 GCCGATG-CATGTCTCAGACAT-GTCTTACGCTAGCTC-TCGTCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCGTCTCAA
* * ** * *
85084139 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATAATGT--G
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC--TCATCGTCTCAA
*
85084188 GCCAATG-CATGTCCCAGACAT-GTCTTACACTAGCTCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCA
85084225 CAATAACCCA
Statistics
Matches: 150, Mismatches: 18, Indels: 27
0.77 0.09 0.14
Matches are distributed among these distances:
44 3 0.02
45 1 0.01
46 23 0.15
47 78 0.52
48 33 0.22
49 7 0.05
50 2 0.01
51 3 0.02
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCGTCTCAA
Found at i:85084206 original size:94 final size:94
Alignment explanation
Indices: 85084006--85084224 Score: 289
Period size: 94 Copynumber: 2.3 Consensus size: 94
85083996 ATGCCGATGC
* * *
85084006 CATGTCCCAGACATGGTCTTACACTAGCTCATGTCTCAAGTCGATGCCATGTCCCAAACATTGTC
1 CATGTCCCAGACAT-GTCTTACACTAGCTCATGTCTCAAGCCAATGCCATGTCCCAAACATGGTC
* * *
85084071 TTACACTGACTATCGTCATCGAGGCCGATG
65 TTACACTGACTATCATAATCGAGGCCAATG
* * *
85084101 CATGTCTCAGACATGTCTTACGCTAGCTC-TCGTCTCAATGCCAATGCCATGTCCCAGACATGGT
1 CATGTCCCAGACATGTCTTACACTAGCTCAT-GTCTCAA-GCCAATGCCATGTCCCAAACATGGT
* * *
85084165 CTTACACTGGCTTTCATAAT-GTGGCCAATG
64 CTTACACTGACTATCATAATCGAGGCCAATG
85084195 CATGTCCCAGACATGTCTTACACTAGCTCA
1 CATGTCCCAGACATGTCTTACACTAGCTCA
85084225 CAATAACCCA
Statistics
Matches: 107, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
93 1 0.01
94 56 0.52
95 50 0.47
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGCTCATGTCTCAAGCCAATGCCATGTCCCAAACATGGTCT
TACACTGACTATCATAATCGAGGCCAATG
Found at i:85086527 original size:23 final size:23
Alignment explanation
Indices: 85086498--85086564 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
85086488 TAAATGATAT
85086498 TTTTATTAAATAATAATTTAATA
1 TTTTATTAAATAATAATTTAATA
*
85086521 TTTTATTTAA-AATAA--TAATA
1 TTTTATTAAATAATAATTTAATA
* *
85086541 TTTTAATAAGTAAT-ATTATAATA
1 TTTTATTAAATAATAATT-TAATA
85086564 T
1 T
85086565 ATGTAAAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
20 13 0.36
21 3 0.08
22 5 0.14
23 15 0.42
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (23 bp):
TTTTATTAAATAATAATTTAATA
Found at i:85089323 original size:18 final size:19
Alignment explanation
Indices: 85089283--85089323 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
85089273 TACTTGAAAA
*
85089283 GTTAAAAAATATAACTATT
1 GTTATAAAATATAACTATT
*
85089302 -TTATAAAA-ATAATTATT
1 GTTATAAAATATAACTATT
85089319 GTTAT
1 GTTAT
85089324 TACTTTTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (19 bp):
GTTATAAAATATAACTATT
Found at i:85092085 original size:20 final size:20
Alignment explanation
Indices: 85092060--85092100 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
85092050 TTCGGGGATC
85092060 ATTTT-GAAACAAAACAAAAA
1 ATTTTGGAAA-AAAACAAAAA
*
85092080 ATTTTGGAAAAAAATAAAAA
1 ATTTTGGAAAAAAACAAAAA
85092100 A
1 A
85092101 ATTCGAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.66, C:0.05, G:0.07, T:0.22
Consensus pattern (20 bp):
ATTTTGGAAAAAAACAAAAA
Found at i:85092506 original size:183 final size:183
Alignment explanation
Indices: 85092198--85092578 Score: 539
Period size: 183 Copynumber: 2.1 Consensus size: 183
85092188 CGAAGTATGG
* * * *
85092198 GACACACGGTTGTGTCCCAACTCGTGTGTCCGCCTGTGTGGGTATTCAAAACAGGGTTACACGAC
1 GACACACGGCTGTGTCCCAACTCGTGTGTCCGCCTGTGCGAGTATTCAAAACAGGGTCACACGAC
* * * *
85092263 AATGTCACAGGTTGTATGCCAGACCATGTGTGCATTCAAAGTTTGGTCACATAGCCATGTCACCA
66 AATGTCACAGGTCGTATGCCAAAACATGTGTGCATTCAAAGTTTGGTCACACAGCCATGTCACCA
*
85092328 AGCCGTGTAACTCTCTAAGACCGTGTGGTTCATCCTGCATTTAAAATTTAATT
131 AGCCGTGTAACTCTCTAAGACCGTGTGGTTCATCCTGCACTTAAAATTTAATT
* * * * * *
85092381 GACACACGGCTGTGTCCCAGC-CTGTGTGTCCGCTTGTGCGAGTATTCAAAATAGGGTCATATGG
1 GACACACGGCTGTGTCCCAACTC-GTGTGTCCGCCTGTGCGAGTATTCAAAACAGGGTCACACGA
** * *
85092445 CCGTGTCACAGGTCGTGTGCCAAAACTTGTGTGCATTCAAAGTTTGGTCACACAGCCATGTCACC
65 CAATGTCACAGGTCGTATGCCAAAACATGTGTGCATTCAAAGTTTGGTCACACAGCCATGTCACC
* * * *
85092510 AGGCCGTGTAACTCTCTGAGACTGTGTGGTTCGTCCTGCACTTAAAATTTAATT
130 AAGCCGTGTAACTCTCTAAGACCGTGTGGTTCATCCTGCACTTAAAATTTAATT
85092564 GACACACGGCTGTGT
1 GACACACGGCTGTGT
85092579 GGTGTGACAG
Statistics
Matches: 174, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
182 1 0.01
183 173 0.99
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (183 bp):
GACACACGGCTGTGTCCCAACTCGTGTGTCCGCCTGTGCGAGTATTCAAAACAGGGTCACACGAC
AATGTCACAGGTCGTATGCCAAAACATGTGTGCATTCAAAGTTTGGTCACACAGCCATGTCACCA
AGCCGTGTAACTCTCTAAGACCGTGTGGTTCATCCTGCACTTAAAATTTAATT
Found at i:85093648 original size:44 final size:45
Alignment explanation
Indices: 85093531--85093694 Score: 120
Period size: 44 Copynumber: 3.6 Consensus size: 45
85093521 TCTCGAAGTG
* *
85093531 ATGCCATAGTGTCTTTCAACTATGGTCTTGATCGTTTTCCAGTGTA
1 ATGCCATAGTATCTTTCAACTATGGTCTTGACCGTTTT-CAGTGTA
* * * * * * *
85093577 GTGCCGTAGTATCTTTTAAATAGGGTCTT-ACCCGTTTT-GGTTTA
1 ATGCCATAGTATCTTTCAACTATGGTCTTGA-CCGTTTTCAGTGTA
* ** * *
85093621 ATGCCATAGTATCTGTCAACTATGGTCTTTTCC-TTTTCGATTATA
1 ATGCCATAGTATCTTTCAACTATGGTCTTGACCGTTTTC-AGTGTA
* *
85093666 ATGACATGGTATCTTTCAA-TCATGGTCTT
1 ATGCCATAGTATCTTTCAACT-ATGGTCTT
85093695 TCCTTTTTCT
Statistics
Matches: 91, Mismatches: 22, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
43 4 0.04
44 30 0.33
45 28 0.31
46 29 0.32
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (45 bp):
ATGCCATAGTATCTTTCAACTATGGTCTTGACCGTTTTCAGTGTA
Found at i:85099356 original size:43 final size:42
Alignment explanation
Indices: 85099245--85099358 Score: 113
Period size: 43 Copynumber: 2.7 Consensus size: 42
85099235 ATGCCATATC
* * * * *
85099245 CCAGATATGGTCTTACATGTTATCACATATCGATGCCACTGT
1 CCAGACATGGTCTTACATGTAATCATATAACGATGCCAATGT
* * *
85099287 CTCAGACAGGGTCTAACACG-ATATCATATAACGATGCCAATGTT
1 C-CAGACATGGTCTTACATGTA-ATCATATAACGATGCCAATG-T
*
85099331 CCAGACATAGTCTTACATGTAATCATAT
1 CCAGACATGGTCTTACATGTAATCATAT
85099359 CTCAGTAATC
Statistics
Matches: 56, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
42 1 0.02
43 52 0.93
44 3 0.05
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (42 bp):
CCAGACATGGTCTTACATGTAATCATATAACGATGCCAATGT
Found at i:85105532 original size:43 final size:43
Alignment explanation
Indices: 85105495--85105591 Score: 131
Period size: 43 Copynumber: 2.3 Consensus size: 43
85105485 TCACATATCG
* *
85105495 ATGCCATTGTCTCAGACAGGGTCTTACACATAATCACAATACA
1 ATGCCAATGTCCCAGACAGGGTCTTACACATAATCACAATACA
* **
85105538 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAATACA
1 ATGCCAATGTCCCAGACAGGGTCTTACACATAATCACAATACA
* *
85105581 ATTCTAATGTC
1 ATGCCAATGTC
85105592 ATGGCATTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACATAATCACAATACA
Found at i:85108259 original size:19 final size:19
Alignment explanation
Indices: 85108213--85108260 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
85108203 GTATATATTT
85108213 TAAA-TTTATTTAGGCAGA
1 TAAATTTTATTTAGGCAGA
* *
85108231 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGCAGA
*
85108250 TAAGTTTTATT
1 TAAATTTTATT
85108261 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (19 bp):
TAAATTTTATTTAGGCAGA
Found at i:85112966 original size:19 final size:19
Alignment explanation
Indices: 85112920--85112967 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
85112910 GTATATATTT
85112920 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
85112938 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
85112957 TAAGTTTTATT
1 TAAATTTTATT
85112968 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:85113028 original size:43 final size:43
Alignment explanation
Indices: 85112981--85113071 Score: 112
Period size: 42 Copynumber: 2.1 Consensus size: 43
85112971 ATTCTAGGAA
** * *
85112981 TATTTTTATTTTATCTTTTAGTAGTTTATTAGAATAAGGAAAC
1 TATTTTTACCTTATCTTTTAATAGTTTATTAGAACAAGGAAAC
* * *
85113024 TA-TTTTCCCTTATGTTTTAATAGTTTATTAGAACAAGGGAAC
1 TATTTTTACCTTATCTTTTAATAGTTTATTAGAACAAGGAAAC
85113066 TATTTT
1 TATTTT
85113072 CCCAATTAGG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 35 0.88
43 5 0.12
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (43 bp):
TATTTTTACCTTATCTTTTAATAGTTTATTAGAACAAGGAAAC
Found at i:85113050 original size:42 final size:42
Alignment explanation
Indices: 85112991--85113074 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
85112981 TATTTTTATT
* *
85112991 TTATCTTTTAGTAGTTTATTAGAATAAGGAAACTATTTTCCC
1 TTATCTTTTAATAGTTTATTAGAACAAGGAAACTATTTTCCC
* *
85113033 TTATGTTTTAATAGTTTATTAGAACAAGGGAACTATTTTCCC
1 TTATCTTTTAATAGTTTATTAGAACAAGGAAACTATTTTCCC
85113075 AATTAGGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (42 bp):
TTATCTTTTAATAGTTTATTAGAACAAGGAAACTATTTTCCC
Found at i:85118875 original size:23 final size:23
Alignment explanation
Indices: 85118849--85118896 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
85118839 GCTCTGTGTA
85118849 AGCTTCCTGTTATAAGGCTTGAG
1 AGCTTCCTGTTATAAGGCTTGAG
85118872 AGCTTCCTGTTATAAGGCTTGAG
1 AGCTTCCTGTTATAAGGCTTGAG
85118895 AG
1 AG
85118897 TATGCTTCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (23 bp):
AGCTTCCTGTTATAAGGCTTGAG
Found at i:85140946 original size:39 final size:39
Alignment explanation
Indices: 85140903--85140981 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
85140893 AAGCTTAGTG
85140903 AATGATTAGAATAACCACTACTCAAACATGTCATCATGC
1 AATGATTAGAATAACCACTACTCAAACATGTCATCATGC
85140942 AATGATTAGAATAACCACTACTCAAACATGTCATCATGC
1 AATGATTAGAATAACCACTACTCAAACATGTCATCATGC
85140981 A
1 A
85140982 TCAACAATAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.25
Consensus pattern (39 bp):
AATGATTAGAATAACCACTACTCAAACATGTCATCATGC
Found at i:85142910 original size:28 final size:28
Alignment explanation
Indices: 85142879--85142954 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 28
85142869 GGGTGTTACA
* *
85142879 AATTGGGTGACCAATTTAAAATATTCAT
1 AATTGGGTGACCAATTTAAAAAATCCAT
* *
85142907 AATTTGGTGACTAA---AAAAAATCCAT
1 AATTGGGTGACCAATTTAAAAAATCCAT
*
85142932 AGTTGGGTGACCAATTTAAAAAA
1 AATTGGGTGACCAATTTAAAAAA
85142955 AATCTTAGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
25 20 0.53
28 18 0.47
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (28 bp):
AATTGGGTGACCAATTTAAAAAATCCAT
Found at i:85143488 original size:16 final size:18
Alignment explanation
Indices: 85143455--85143490 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
85143445 TTTAAATAAG
85143455 AATTTTATATAGTTTTTA
1 AATTTTATATAGTTTTTA
85143473 AATTTTAT-TA-TTTTTA
1 AATTTTATATAGTTTTTA
85143489 AA
1 AA
85143491 AAATAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 2 0.11
18 8 0.44
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
AATTTTATATAGTTTTTA
Found at i:85147636 original size:3 final size:3
Alignment explanation
Indices: 85147628--85147660 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
85147618 CAATCAATTT
85147628 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
85147661 TTACCAAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:85148592 original size:51 final size:51
Alignment explanation
Indices: 85148534--85148638 Score: 201
Period size: 51 Copynumber: 2.1 Consensus size: 51
85148524 TCTTGAATAA
85148534 AATGCTACCAAGCTTGTGGTTTCTTATTTAAATTTATCAGGACGCAATTGG
1 AATGCTACCAAGCTTGTGGTTTCTTATTTAAATTTATCAGGACGCAATTGG
*
85148585 AATGCTACCAAGCTTGTGGTTTCTTATTTAAATTTATCTGGACGCAATTGG
1 AATGCTACCAAGCTTGTGGTTTCTTATTTAAATTTATCAGGACGCAATTGG
85148636 AAT
1 AAT
85148639 TCCGAAGTTC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (51 bp):
AATGCTACCAAGCTTGTGGTTTCTTATTTAAATTTATCAGGACGCAATTGG
Found at i:85150891 original size:29 final size:29
Alignment explanation
Indices: 85150858--85150922 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
85150848 CATTAGAAGA
85150858 TAAATTTGACAAGCTCACTAATGTAGTTC
1 TAAATTTGACAAGCTCACTAATGTAGTTC
85150887 TAAATTTGACAAGCTCACTAATGTAGTTC
1 TAAATTTGACAAGCTCACTAATGTAGTTC
*
85150916 AAAATTT
1 TAAATTT
85150923 ACTTGCAGGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (29 bp):
TAAATTTGACAAGCTCACTAATGTAGTTC
Found at i:85156219 original size:27 final size:27
Alignment explanation
Indices: 85156185--85156238 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
85156175 TAAAATACAT
85156185 TTTTTTAATGCCTAATTTAATAGATTG
1 TTTTTTAATGCCTAATTTAATAGATTG
*
85156212 TTTTTTAATGTCTAATTTAATAGATTG
1 TTTTTTAATGCCTAATTTAATAGATTG
85156239 AATGAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.54
Consensus pattern (27 bp):
TTTTTTAATGCCTAATTTAATAGATTG
Found at i:85156666 original size:21 final size:21
Alignment explanation
Indices: 85156642--85156719 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
85156632 TCGGGATAAA
* *
85156642 CTCTTTTGAGATTTTGTTCAG
1 CTCTTTTGAGCTTCTGTTCAG
* *
85156663 CTCTTATGAGCTTCTGTTAAG
1 CTCTTTTGAGCTTCTGTTCAG
85156684 CTCTTTTGAGCTTCTGTTCAG
1 CTCTTTTGAGCTTCTGTTCAG
* *
85156705 TTCTTGTGAGCTTCT
1 CTCTTTTGAGCTTCT
85156720 ATTGGTGTGT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.13, C:0.19, G:0.19, T:0.49
Consensus pattern (21 bp):
CTCTTTTGAGCTTCTGTTCAG
Found at i:85163830 original size:188 final size:187
Alignment explanation
Indices: 85163513--85163887 Score: 696
Period size: 188 Copynumber: 2.0 Consensus size: 187
85163503 AACCGATTCT
*
85163513 AACATCATCCTTAGTAAACATTCAAAAACTTGGAATTTTTAAAAATATACTTGCTAAATTTTTCA
1 AACATCATCCTTAGTAAACATTCAAAAACCTGGAATTTTTAAAAATATACTTGCTAAATTTTTCA
* *
85163578 TATTTTCATATTAGTCCCTAAACTCAAACCTAACAAAAATTCATTTATAAAGTAGTCCTAATTTA
66 TATTTGCATATTAGTCCCTAAACTCAAAACTAACAAAAATTCATTTATAAAGTAGTCCTAATTTA
85163643 CAACCAAGTTTACGAATTCATCATTTAACACCAAAAAAATTTAAAAAACCATCAATGG
131 CAACCAAGTTTACGAATTCATCATTTAACACCAAAAAAATTT-AAAAACCATCAATGG
*
85163701 AACATCATCCTTAGTAAACATTCAAAAACCTGGAATTTTTAAAAATGTACTTGCTAAATTTTTCA
1 AACATCATCCTTAGTAAACATTCAAAAACCTGGAATTTTTAAAAATATACTTGCTAAATTTTTCA
*
85163766 TATTTGCATATTAGTCCCTAAACTCAAAACTAACAAAAATTCCTTTATAAAGTAGTCCTAATTTA
66 TATTTGCATATTAGTCCCTAAACTCAAAACTAACAAAAATTCATTTATAAAGTAGTCCTAATTTA
85163831 CAACCAAGTTTACGAATTCATCATTTAACACCAAAAAAATTTAAAAACCATCAATGG
131 CAACCAAGTTTACGAATTCATCATTTAACACCAAAAAAATTTAAAAACCATCAATGG
85163888 CAAGTTCCTA
Statistics
Matches: 182, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
187 15 0.08
188 167 0.92
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.33
Consensus pattern (187 bp):
AACATCATCCTTAGTAAACATTCAAAAACCTGGAATTTTTAAAAATATACTTGCTAAATTTTTCA
TATTTGCATATTAGTCCCTAAACTCAAAACTAACAAAAATTCATTTATAAAGTAGTCCTAATTTA
CAACCAAGTTTACGAATTCATCATTTAACACCAAAAAAATTTAAAAACCATCAATGG
Found at i:85164888 original size:17 final size:16
Alignment explanation
Indices: 85164866--85164899 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
85164856 AGGATTAAAA
85164866 ATAAATAACGAAAATAC
1 ATAAATAA-GAAAATAC
*
85164883 ATAAATAAGTAAATAC
1 ATAAATAAGAAAATAC
85164899 A
1 A
85164900 AACAAATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.65, C:0.09, G:0.06, T:0.21
Consensus pattern (16 bp):
ATAAATAAGAAAATAC
Found at i:85171028 original size:17 final size:18
Alignment explanation
Indices: 85170996--85171037 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
85170986 TATACTTTCT
85170996 TTTATAAACTATAAAATAA
1 TTTATAAAC-ATAAAATAA
*
85171015 TTTATAAA-ATAAAATAG
1 TTTATAAACATAAAATAA
85171032 TTTATA
1 TTTATA
85171038 GTTATAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 14 0.64
19 8 0.36
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (18 bp):
TTTATAAACATAAAATAA
Found at i:85185906 original size:26 final size:26
Alignment explanation
Indices: 85185876--85185927 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
85185866 GACAAATAGA
85185876 AGCTAACAAACGAAAATGATTTTAAC
1 AGCTAACAAACGAAAATGATTTTAAC
* * *
85185902 AGCTAATAAATGAAAATGGTTTTAAC
1 AGCTAACAAACGAAAATGATTTTAAC
85185928 TTGGTGAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.48, C:0.12, G:0.13, T:0.27
Consensus pattern (26 bp):
AGCTAACAAACGAAAATGATTTTAAC
Found at i:85191098 original size:12 final size:12
Alignment explanation
Indices: 85191074--85191106 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
85191064 TCATTCACTC
85191074 TTTTTT-TTCTT
1 TTTTTTCTTCTT
*
85191085 TTTTTTCTTTTT
1 TTTTTTCTTCTT
85191097 TTTTTTCTTC
1 TTTTTTCTTC
85191107 CATAAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTTTCTTCTT
Found at i:85191100 original size:10 final size:9
Alignment explanation
Indices: 85191072--85191099 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
85191062 CTTCATTCAC
85191072 TCTTTTTTT
1 TCTTTTTTT
85191081 TCTTTTTTT
1 TCTTTTTTT
85191090 TCTTTTTTT
1 TCTTTTTTT
85191099 T
1 T
85191100 TTTCTTCCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:85191937 original size:18 final size:17
Alignment explanation
Indices: 85191912--85191945 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
85191902 AACGGTCAAT
85191912 TGTTCAGTAACAGTCAG
1 TGTTCAGTAACAGTCAG
*
85191929 TGTTGCAGTAATAGTCA
1 TGTT-CAGTAACAGTCA
85191946 ATTATTCAAT
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:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (17 bp):
TGTTCAGTAACAGTCAG
Found at i:85192102 original size:18 final size:19
Alignment explanation
Indices: 85192070--85192107 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
85192060 CACCGTATCG
85192070 GTAACAGTAAAGGTA-ACA
1 GTAACAGTAAAGGTACACA
**
85192088 GTAACAGTAGCGGTACACA
1 GTAACAGTAAAGGTACACA
85192107 G
1 G
85192108 AGTACCTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.42, C:0.16, G:0.26, T:0.16
Consensus pattern (19 bp):
GTAACAGTAAAGGTACACA
Done.