Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 318 of 378
Found at i:96749329 original size:50 final size:50
Alignment explanation
Indices: 96749254--96749628 Score: 322
Period size: 50 Copynumber: 7.6 Consensus size: 50
96749244 TTCGAGAGCT
* ** * *
96749254 AGTGTACGACCATGTCTGGGACATGGTGTCGGCCTCGGTACATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATACATGAGAGTC
* * * * *
96749304 AGTGTAAGACCATGTTTGGGACATGGCATTGGAAC-CGATAGATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CCTCGATACATGAGAGTC
* * * * *
96749354 AATGTAAGACCATGTCTGGGACATGGCATTGGTAC-CGATAGATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CCTCGATACATGAGAGTC
* * *
96749404 AGTGTAATG-CCATGTCTGGGACATGGCATCAG-CT--AT-GA-GATGTGTC
1 AGTGTAA-GACCATGTCTGGGACATGGCATCGGCCTCGATACATGA-GAGTC
* * * * *
96749450 AGTGTAAGACCATGTTTAGGACATGGCATCGGCCTCGACATACGAGA-TC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATACATGAGAGTC
* * *
96749499 TAGTGTAAGACCATGTCTGGGACATGGCTTCGGCCTTGATACATGATAGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATACATGAGAGTC
* * * * * * * *
96749550 AGTGTAAGACCATTTTTGGGATATGACATCGACTTTGATACATGAG-CT-
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATACATGAGAGTC
96749598 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
96749629 ACTTCATACC
Statistics
Matches: 268, Mismatches: 45, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
45 3 0.01
46 32 0.12
47 4 0.01
48 28 0.10
49 4 0.01
50 191 0.71
51 6 0.02
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATACATGAGAGTC
Found at i:96749570 original size:146 final size:146
Alignment explanation
Indices: 96749300--96749628 Score: 348
Period size: 146 Copynumber: 2.2 Consensus size: 146
96749290 GGTACATGAT
* * *
96749300 AGTCAGTGTAAGACCATGTTTGGGACATGGCATTGGAACCGATAGATGAGAGCCAATGTAAGACC
1 AGTCAGTGTAAGACCATGTTTGGGACATGGCATCGGAACCGACAGACGAGAGCCAATGTAAGACC
* *
96749365 ATGTCTGGGACATGGCATTGGTACCGATAGATGAGAGCCAGTGTAATGCCATGTCTGGGACATGG
66 ATGTCTGGGACATGGCATTGG-ACCGATACATGAGAGCCAGTGTAATGCCATGTCTGGGACATGA
*
96749430 CATC-AGCTATG-AGATG
130 CATCGA-CTATGAACATG
* * * * * * *
96749446 TGTCAGTGTAAGACCATGTTTAGGACATGGCATCGG-CCTCGACATACGAGATCTAGTGTAAGAC
1 AGTCAGTGTAAGACCATGTTTGGGACATGGCATCGGAAC-CGACAGACGAGAGCCAATGTAAGAC
* * * * *
96749510 CATGTCTGGGACATGGC-TTCGG-CCTTGATACATGATAGTCAGTGTAA-GACCATTTTTGGGAT
65 CATGTCTGGGACATGGCATT-GGACC--GATACATGAGAGCCAGTGTAATG-CCATGTCTGGGAC
*
96749572 ATGACATCGACTTTGATACATG
126 ATGACATCGACTATGA-ACATG
*
96749594 AG-CTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTC-AGTGTAAGACCATGTTTGGGACATGGCATCG
96749629 ACTTCATACC
Statistics
Matches: 152, Mismatches: 22, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
144 2 0.01
145 4 0.03
146 110 0.72
147 2 0.01
148 34 0.22
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (146 bp):
AGTCAGTGTAAGACCATGTTTGGGACATGGCATCGGAACCGACAGACGAGAGCCAATGTAAGACC
ATGTCTGGGACATGGCATTGGACCGATACATGAGAGCCAGTGTAATGCCATGTCTGGGACATGAC
ATCGACTATGAACATG
Found at i:96757215 original size:50 final size:48
Alignment explanation
Indices: 96757128--96757310 Score: 158
Period size: 50 Copynumber: 3.8 Consensus size: 48
96757118 GGAGTTATTC
* * * * * *
96757128 GAGAGCTAGTGTAAGGCCATGTTTGAGATATGACATCGGTACAGATAGAT
1 GAGAGCCA-TGTAAGACCATGTCTGGGACATGGCATCGGTACAGAT-GAT
* *
96757178 GAGAGCCAATGTAAGACAATGTCTGGGACATGGCATCGGCTATGAGATG-T
1 GAGAGCC-ATGTAAGACCATGTCTGGGACATGGCATCGG-TA-CAGATGAT
** * *
96757228 GTTAG---TGTAAGACCATGTCTGGGACATGGCATCGGCACAGATGGAC
1 GAGAGCCATGTAAGACCATGTCTGGGACATGGCATCGGTACAGAT-GAT
*
96757274 GAGAGCCAGTGTAAGACCATGTCTGGGATATGGCATC
1 GAGAGCCA-TGTAAGACCATGTCTGGGACATGGCATC
96757311 AGCCTCCACA
Statistics
Matches: 107, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
44 4 0.04
45 2 0.02
46 32 0.30
50 61 0.57
51 4 0.04
52 4 0.04
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.23
Consensus pattern (48 bp):
GAGAGCCATGTAAGACCATGTCTGGGACATGGCATCGGTACAGATGAT
Found at i:96757298 original size:96 final size:96
Alignment explanation
Indices: 96757134--96757310 Score: 255
Period size: 96 Copynumber: 1.8 Consensus size: 96
96757124 ATTCGAGAGC
* * * * *
96757134 TAGTGTAAGGCCATGTTTGAGATATGACATCGGTACAGATAGATGAGAGCCAATGTAAGACAATG
1 TAGTGTAAGACCATGTCTGAGACATGACATCGGCACAGATAGACGAGAGCCAATGTAAGACAATG
96757199 TCTGGGACATGGCATCGGCTATGAGATGTGT
66 TCTGGGACATGGCATCGGCTATGAGATGTGT
* * * * *
96757230 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATGGACGAGAGCCAGTGTAAGACCATG
1 TAGTGTAAGACCATGTCTGAGACATGACATCGGCACAGATAGACGAGAGCCAATGTAAGACAATG
*
96757295 TCTGGGATATGGCATC
66 TCTGGGACATGGCATC
96757311 AGCCTCCACA
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
96 70 1.00
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (96 bp):
TAGTGTAAGACCATGTCTGAGACATGACATCGGCACAGATAGACGAGAGCCAATGTAAGACAATG
TCTGGGACATGGCATCGGCTATGAGATGTGT
Found at i:96772172 original size:12 final size:12
Alignment explanation
Indices: 96772149--96772195 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
96772139 TTACATTTAA
96772149 TATTTAAATTTCT
1 TATTT-AATTTCT
*
96772162 TATTCAATTTC-
1 TATTTAATTTCT
96772173 TATTTAATTTCT
1 TATTTAATTTCT
*
96772185 TCTTTAATTTC
1 TATTTAATTTC
96772196 AATTTTAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.33
12 16 0.53
13 4 0.13
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTTAATTTCT
Found at i:96772184 original size:23 final size:24
Alignment explanation
Indices: 96772149--96772200 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
96772139 TTACATTTAA
96772149 TATTTAAATTTCTTATTCAATTTC
1 TATTTAAATTTCTTATTCAATTTC
* *
96772173 TATTT-AATTTCTTCTTTAATTTC
1 TATTTAAATTTCTTATTCAATTTC
*
96772196 AATTT
1 TATTT
96772201 TAATCTTAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.62
Consensus pattern (24 bp):
TATTTAAATTTCTTATTCAATTTC
Found at i:96773417 original size:18 final size:18
Alignment explanation
Indices: 96773391--96773432 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
96773381 TTATTCGAAA
96773391 CACTCATATCTCACAAAT
1 CACTCATATCTCACAAAT
*
96773409 CACTTATATCTCACAAAT
1 CACTCATATCTCACAAAT
96773427 CACTCA
1 CACTCA
96773433 ATAGAATTTA
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:0.38, C:0.33, G:0.00, T:0.29
Consensus pattern (18 bp):
CACTCATATCTCACAAAT
Found at i:96773963 original size:21 final size:21
Alignment explanation
Indices: 96773908--96773963 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
96773898 TTCTCACATC
* * *
96773908 AATTTATTATTAAAGATTAAT
1 AATTTAATATAAAAGAATAAT
**
96773929 -ATTTTCTATCAAAAGAATAAT
1 AATTTAATAT-AAAAGAATAAT
96773950 AATTTAATATAAAA
1 AATTTAATATAAAA
96773964 TATTTAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
20 7 0.26
21 13 0.48
22 7 0.26
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (21 bp):
AATTTAATATAAAAGAATAAT
Found at i:96773976 original size:26 final size:27
Alignment explanation
Indices: 96773944--96773998 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
96773934 CTATCAAAAG
96773944 AATAATAATTTAATA-TAAAATAT-TTA
1 AATAAT-ATTTAATATTAAAATATATTA
**
96773970 AATAATATTTTTTATTAAAATATATTA
1 AATAATATTTAATATTAAAATATATTA
96773997 AA
1 AA
96773999 ATATATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.24
26 14 0.56
27 5 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
AATAATATTTAATATTAAAATATATTA
Found at i:96774013 original size:8 final size:10
Alignment explanation
Indices: 96773982--96774012 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
96773972 TAATATTTTT
96773982 TATTAAAATA
1 TATTAAAATA
96773992 TATTAAAATA
1 TATTAAAATA
96774002 TATTAAAATA
1 TATTAAAATA
96774012 T
1 T
96774013 TTTATTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
TATTAAAATA
Found at i:96774523 original size:26 final size:26
Alignment explanation
Indices: 96774494--96774547 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
96774484 TATGACATAC
96774494 TTCCATGTCATTATATCATCCTGCAA
1 TTCCATGTCATTATATCATCCTGCAA
* *
96774520 TTCCATGTCATTATATCATGCTGTAA
1 TTCCATGTCATTATATCATCCTGCAA
96774546 TT
1 TT
96774548 ACATACAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.22, G:0.09, T:0.43
Consensus pattern (26 bp):
TTCCATGTCATTATATCATCCTGCAA
Found at i:96777612 original size:40 final size:41
Alignment explanation
Indices: 96777485--96777614 Score: 144
Period size: 40 Copynumber: 3.2 Consensus size: 41
96777475 ATGCTGGAAA
* * * *
96777485 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTA-GTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGACATGG
* * *
96777525 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACAT--
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC--GACATGG
96777566 TT-TATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGACATGG
96777605 TTATATCCGG
1 TTATATCCGG
96777615 TTATATTCCG
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
37 4 0.05
39 2 0.03
40 65 0.88
41 1 0.01
42 1 0.01
43 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGACATGG
Found at i:96780784 original size:13 final size:13
Alignment explanation
Indices: 96780766--96780790 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96780756 ATGAAATTGC
96780766 ATTTACATGTTGT
1 ATTTACATGTTGT
96780779 ATTTACATGTTG
1 ATTTACATGTTG
96780791 CTTTTTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (13 bp):
ATTTACATGTTGT
Found at i:96782625 original size:23 final size:23
Alignment explanation
Indices: 96782582--96782668 Score: 95
Period size: 23 Copynumber: 3.7 Consensus size: 23
96782572 TAATGTTCAT
**
96782582 GAACATGTTCATTTAAC-TTAATC
1 GAACATGTTCA-CGAACATTAATC
*
96782605 GAACATGTTCACGAACATTAAAC
1 GAACATGTTCACGAACATTAATC
* * *
96782628 TAACATGTTCATGAACATATAATT
1 GAACATGTTCACGAACAT-TAATC
96782652 GAACATGTTCACGAACA
1 GAACATGTTCACGAACA
96782669 ATGTTAATAA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
22 3 0.06
23 32 0.60
24 18 0.34
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.30
Consensus pattern (23 bp):
GAACATGTTCACGAACATTAATC
Found at i:96791628 original size:25 final size:25
Alignment explanation
Indices: 96791594--96791642 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
96791584 CAGTAAACAC
* *
96791594 GAATTATCTAGAAAGCCTTTGTGGT
1 GAATTATCTAGAAAACCCTTGTGGT
*
96791619 GAATTCTCTAGAAAACCCTTGTGG
1 GAATTATCTAGAAAACCCTTGTGG
96791643 CAAACTCATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (25 bp):
GAATTATCTAGAAAACCCTTGTGGT
Found at i:96803884 original size:76 final size:76
Alignment explanation
Indices: 96803758--96803906 Score: 262
Period size: 76 Copynumber: 2.0 Consensus size: 76
96803748 TGGATTGGTA
*
96803758 ATTCAGATCCGAGCTCATTAAGGGTGTTTGTTGCGATAAGGGATTTAGCCTGGACTGGTAATCTC
1 ATTCAGATCCGAGCTCATTAAGGGTGTTTGTTGCGATAAGGGATTTAGCCTGGACTGGTAATCCC
96803823 GACATCACGTC
66 GACATCACGTC
* * *
96803834 ATTCAGATTCGATCTCATTAAGGGTGTTTGTTGCTATAAGGGATTTAGCCTGGACTGGTAATCCC
1 ATTCAGATCCGAGCTCATTAAGGGTGTTTGTTGCGATAAGGGATTTAGCCTGGACTGGTAATCCC
96803899 GACATCAC
66 GACATCAC
96803907 CTTATGAGTT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 69 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (76 bp):
ATTCAGATCCGAGCTCATTAAGGGTGTTTGTTGCGATAAGGGATTTAGCCTGGACTGGTAATCCC
GACATCACGTC
Found at i:96809137 original size:20 final size:20
Alignment explanation
Indices: 96809099--96809137 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
96809089 TGGAGTAGAA
*
96809099 ATATTGATACCTTAGGAAAT
1 ATATTGATACCTTAAGAAAT
*
96809119 ATATTGATACTTTAAGAAA
1 ATATTGATACCTTAAGAAA
96809138 AGTATCGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.36
Consensus pattern (20 bp):
ATATTGATACCTTAAGAAAT
Found at i:96811801 original size:28 final size:28
Alignment explanation
Indices: 96811762--96811833 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
96811752 AGATGAAATG
96811762 CACAATT--AATAACATGGAGGTAGTAA
1 CACAATTAAAATAACATGGAGGTAGTAA
**
96811788 CATGATTAAAATAACATGGAGGTAGTAA
1 CACAATTAAAATAACATGGAGGTAGTAA
96811816 CACAATTAAAATAACATG
1 CACAATTAAAATAACATG
96811834 TATTGAATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 5 0.12
28 35 0.88
ACGTcount: A:0.49, C:0.11, G:0.17, T:0.24
Consensus pattern (28 bp):
CACAATTAAAATAACATGGAGGTAGTAA
Found at i:96813846 original size:2 final size:2
Alignment explanation
Indices: 96813839--96813866 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
96813829 ACATGCACTC
96813839 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96813867 GAATGCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96816282 original size:25 final size:25
Alignment explanation
Indices: 96816244--96816327 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 25
96816234 ATGTAAACAA
* *
96816244 GAAGCTCTTCCGAGCCATATAAT-GG
1 GAAGCTCATACGAGCCATAT-ATCGG
*
96816269 GAAGCTCATACGAGCTATATATCGG
1 GAAGCTCATACGAGCCATATATCGG
* ** *
96816294 GAAGCTCTTGTGAGCCAAATATCGG
1 GAAGCTCATACGAGCCATATATCGG
96816319 GAAGCTCAT
1 GAAGCTCAT
96816328 TAAAGCCAAG
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
24 2 0.04
25 47 0.96
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (25 bp):
GAAGCTCATACGAGCCATATATCGG
Found at i:96816334 original size:25 final size:26
Alignment explanation
Indices: 96816287--96816351 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 26
96816277 TACGAGCTAT
**
96816287 ATATCGGGAAGCTC-TTGTGAGCCAA
1 ATATCGGGAAGCTCATTGAAAGCCAA
96816312 ATATCGGGAAGCTCATT-AAAGCCAA
1 ATATCGGGAAGCTCATTGAAAGCCAA
* *
96816337 GTATCGTGAAGCTCA
1 ATATCGGGAAGCTCA
96816352 AGAGAGCTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 33 0.94
26 2 0.06
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (26 bp):
ATATCGGGAAGCTCATTGAAAGCCAA
Found at i:96819693 original size:16 final size:16
Alignment explanation
Indices: 96819672--96819703 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
96819662 ACATACATTC
96819672 AATTCAATATAAAAAA
1 AATTCAATATAAAAAA
96819688 AATTCAATATAAAAAA
1 AATTCAATATAAAAAA
96819704 TTCTAACGCT
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:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (16 bp):
AATTCAATATAAAAAA
Found at i:96820496 original size:30 final size:30
Alignment explanation
Indices: 96820460--96820519 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
96820450 ATAAATAGGA
96820460 GTGCAAAATAGGAGGATTTGCATGACAAAC
1 GTGCAAAATAGGAGGATTTGCATGACAAAC
96820490 GTGCAAAATAGGAGGATTTGCATGACAAAC
1 GTGCAAAATAGGAGGATTTGCATGACAAAC
96820520 CTCCCATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (30 bp):
GTGCAAAATAGGAGGATTTGCATGACAAAC
Found at i:96820631 original size:26 final size:26
Alignment explanation
Indices: 96820602--96820709 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
96820592 TGGTACAAAT
* *
96820602 TGATAATGGGTTAGGTCAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
96820628 TGATAATGGATTAGGTAAATATTACA
1 TGATAATGGGTTAGGTAAATGTTCCA
96820654 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
96820680 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
96820706 TGAT
1 TGAT
96820710 GGCCATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:96822413 original size:27 final size:26
Alignment explanation
Indices: 96822316--96822420 Score: 106
Period size: 27 Copynumber: 3.9 Consensus size: 26
96822306 AGGAAGCGTC
* *
96822316 CTGGTGGCTATGCCACAATTATCTGATT
1 CTGGTGACTCTGCCACAA-TATCTG-TT
*
96822344 -TGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGACTCTGCCACA-ATATCTGTT
*
96822370 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGACTCTGCCACAATATCTGT-T
*
96822397 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGACTCT-GCCACAATATCTG
96822421 GTAGCCTCGC
Statistics
Matches: 70, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
26 11 0.16
27 58 0.83
28 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (26 bp):
CTGGTGACTCTGCCACAATATCTGTT
Found at i:96827646 original size:26 final size:26
Alignment explanation
Indices: 96827617--96827723 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
96827607 TGGTACAAAT
96827617 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
96827643 TGATAATGGATTAGGTAAATATT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
96827668 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
96827694 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
96827720 TGAT
1 TGAT
96827724 GGCATTTCAT
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 23 0.31
26 52 0.69
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:96827677 original size:51 final size:52
Alignment explanation
Indices: 96827617--96827723 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
96827607 TGGTACAAAT
96827617 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATT-CA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
96827668 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
96827720 TGAT
1 TGAT
96827724 GGCATTTCAT
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 47 0.89
52 6 0.11
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:96829221 original size:26 final size:26
Alignment explanation
Indices: 96829158--96829233 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 26
96829148 AAAAGCAGCT
* * * *
96829158 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-GTGCA
96829186 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGGTGCA
*
96829212 AAATTACTGTTATACCCTTAGG
1 AAATTACTGTTATACCCCTAGG
96829234 GTTAATTTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 24 0.56
27 1 0.02
28 18 0.42
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGGTGCA
Found at i:96829377 original size:27 final size:26
Alignment explanation
Indices: 96829347--96829477 Score: 163
Period size: 27 Copynumber: 4.8 Consensus size: 26
96829337 CTAGTGGTTA
96829347 TGCCACAATTATCTGATCTGGTGGCTC
1 TGCCAC-ATTATCTGATCTGGTGGCTC
* *
96829374 TGCCACATATATCTGTTCTGGTGGCTA
1 TGCCACAT-TATCTGATCTGGTGGCTC
* *
96829401 TGCCACGATTATCTAATATGGTGGCTC
1 TGCCAC-ATTATCTGATCTGGTGGCTC
*
96829428 TGCCACATATATCTGTTCTGGTGGCTC
1 TGCCACAT-TATCTGATCTGGTGGCTC
*
96829455 TGCCACAATATCTGTATCTGGTG
1 TGCCACATTATCTG-ATCTGGTG
96829478 ACTTCGTCAG
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
26 10 0.11
27 77 0.87
28 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (26 bp):
TGCCACATTATCTGATCTGGTGGCTC
Found at i:96829477 original size:54 final size:53
Alignment explanation
Indices: 96829340--96829477 Score: 204
Period size: 54 Copynumber: 2.5 Consensus size: 53
96829330 AAGCGTCCTA
*
96829340 GTGGTTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTATGCCACAA-TATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
* * *
96829394 GTGGCTATGCCACGATTATCTAATATGGTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTATGCCAC-AATATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
*
96829448 GTGGCTCTGCCACAATATCTGTATCTGGTG
1 GTGGCTATGCCACAATATCTG-ATCTGGTG
96829478 ACTTCGTCAG
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
53 6 0.08
54 67 0.91
55 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.36
Consensus pattern (53 bp):
GTGGCTATGCCACAATATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
Found at i:96830649 original size:15 final size:16
Alignment explanation
Indices: 96830607--96830652 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 16
96830597 TTAAATTTTA
96830607 ACTTATATAATGTAATAT
1 ACTTATATAA--TAATAT
96830625 A-TTATAATAATAAT-T
1 ACTTAT-ATAATAATAT
96830640 ACTTATATAATAA
1 ACTTATATAATAA
96830653 GCAAATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 9 0.35
16 8 0.31
17 4 0.15
18 5 0.19
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (16 bp):
ACTTATATAATAATAT
Found at i:96830670 original size:23 final size:23
Alignment explanation
Indices: 96830644--96830693 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
96830634 ATAATTACTT
*
96830644 ATATAATAAGCAAATATATATAA
1 ATATAACAAGCAAATATATATAA
* ***
96830667 ATATTACAAGTTTATATATATAA
1 ATATAACAAGCAAATATATATAA
96830690 ATAT
1 ATAT
96830694 TACACTTGTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (23 bp):
ATATAACAAGCAAATATATATAA
Found at i:96836081 original size:54 final size:54
Alignment explanation
Indices: 96836018--96836126 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
96836008 CTGAATTACT
*
96836018 ATAAAACATGAAAAATAACATTGAGTAAGCATTTAAGCTTAGTAAGTTCGTATA
1 ATAAAACATGAAAAATAACATAGAGTAAGCATTTAAGCTTAGTAAGTTCGTATA
96836072 ATAAAACATGAAAAATAACATAGAGTAAGCATTTAAGCTTAGTAAGTTCGTATA
1 ATAAAACATGAAAAATAACATAGAGTAAGCATTTAAGCTTAGTAAGTTCGTATA
96836126 A
1 A
96836127 CAAGGAAATT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.48, C:0.09, G:0.15, T:0.28
Consensus pattern (54 bp):
ATAAAACATGAAAAATAACATAGAGTAAGCATTTAAGCTTAGTAAGTTCGTATA
Found at i:96836556 original size:25 final size:24
Alignment explanation
Indices: 96836541--96836673 Score: 95
Period size: 25 Copynumber: 5.4 Consensus size: 24
96836531 CCATATAACT
* * *
96836541 GGAAGCTCATGTGAGCTAAGTAAC
1 GGAAGCTCATGTGAGCCAAATATC
* ** ***
96836565 GAAAGCTCATACGAGCTGTATATC
1 GGAAGCTCATGTGAGCCAAATATC
*
96836589 GAGAAGCTCTTGTGAGCCAAATATC
1 G-GAAGCTCATGTGAGCCAAATATC
* *
96836614 GGGAAGCTCTTATGAGCCAAATATC
1 -GGAAGCTCATGTGAGCCAAATATC
* * *
96836639 AGGAAGCTCATGAGAGCCAAGTATTA
1 -GGAAGCTCATGTGAGCCAAATA-TC
96836665 GGAAGCTCA
1 GGAAGCTCA
96836674 AGAGAGCTGT
Statistics
Matches: 85, Mismatches: 21, Indels: 5
0.77 0.19 0.05
Matches are distributed among these distances:
24 18 0.21
25 65 0.76
26 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.22
Consensus pattern (24 bp):
GGAAGCTCATGTGAGCCAAATATC
Found at i:96838719 original size:3 final size:3
Alignment explanation
Indices: 96838711--96838795 Score: 161
Period size: 3 Copynumber: 28.3 Consensus size: 3
96838701 ATGTCTTTTC
96838711 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
96838759 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TTT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
96838796 GGCTTTCTTC
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:96842347 original size:4 final size:4
Alignment explanation
Indices: 96842338--96842367 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
96842328 ACTAATGGTA
*
96842338 TAAT TAAT TAAT TAAT TAAT TGAT TAAT TA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TA
96842368 CTTTTAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:96847955 original size:71 final size:73
Alignment explanation
Indices: 96847800--96847946 Score: 190
Period size: 73 Copynumber: 2.0 Consensus size: 73
96847790 AAATTAACAT
* * * *
96847800 TTGTGACAAAAATAAATGATCACAAATATTTAATTTTTTGTGACCAAATTATCGACACTAAAATT
1 TTGTAACAAAAATAAATGATCACAAATATTCAATTTTTTGAGACCAAATTATCAACACTAAAATT
*
96847865 ATAAGCAA
66 ATAAGAAA
* * * *
96847873 TTGTAACAAAAATAAATGATCATAAGTATTCAATTTTTT-AG-CCAAATTTTCAACACTGAAATT
1 TTGTAACAAAAATAAATGATCACAAATATTCAATTTTTTGAGACCAAATTATCAACACTAAAATT
*
96847936 GTAAGAAA
66 ATAAGAAA
96847944 TTG
1 TTG
96847947 AGGAAAAAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
71 28 0.44
72 1 0.02
73 35 0.55
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (73 bp):
TTGTAACAAAAATAAATGATCACAAATATTCAATTTTTTGAGACCAAATTATCAACACTAAAATT
ATAAGAAA
Found at i:96848120 original size:73 final size:74
Alignment explanation
Indices: 96848038--96848178 Score: 169
Period size: 74 Copynumber: 1.9 Consensus size: 74
96848028 TGGGTACAAG
* *
96848038 TATTTAATTT-TTTATGAATAAAATTTCTAACACT-AAATTATAAGCAATTGTGACAAAATCAAA
1 TATTCAATTTGTTTATGAAT-AAATTTCTAACACTAAAATCATAAGCAATTGTGACAAAATCAAA
96848101 TAATGGTAAT
65 TAATGGTAAT
* * * * * * * *
96848111 TATTCAATTTGTTTATTACTAAATTTTTTATATTAAAATCATAATCAATTGTGACAAAATTAAAT
1 TATTCAATTTGTTTATGAATAAATTTCTAACACTAAAATCATAAGCAATTGTGACAAAATCAAAT
96848176 AAT
66 AAT
96848179 CAAATTAATT
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
73 19 0.34
74 37 0.66
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (74 bp):
TATTCAATTTGTTTATGAATAAATTTCTAACACTAAAATCATAAGCAATTGTGACAAAATCAAAT
AATGGTAAT
Found at i:96851467 original size:28 final size:27
Alignment explanation
Indices: 96851400--96851470 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 27
96851390 AGTATGCCAA
*
96851400 AAAGGCTTCCCTTTTTCATAGATCACCAC
1 AAAGGCTT--CTTTTTCATAAATCACCAC
* *
96851429 AAAGGCTTCTTTTTCATAAATCGCTAC
1 AAAGGCTTCTTTTTCATAAATCACCAC
*
96851456 AAAGGTTTTCTTTTT
1 AAAGG-CTTCTTTTT
96851471 TTGGCGTGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 21 0.57
28 8 0.22
29 8 0.22
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (27 bp):
AAAGGCTTCTTTTTCATAAATCACCAC
Found at i:96854002 original size:49 final size:49
Alignment explanation
Indices: 96853809--96854125 Score: 222
Period size: 49 Copynumber: 6.7 Consensus size: 49
96853799 TTATGAGAGC
* * * *
96853809 CAGTGTAAGACCATGTCTGGGATATGGCATCGGCA-TTGA-AATGAGAG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTAGATATTGAGAT
* * * * *
96853856 CTAGTATAAGA-CATGTCTGGGAC-T-GCATCGGC-CTTGAGATGTAAG-C
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTAGATAT-TGAGAT
* * * *
96853902 CAGTGTAAGA-CATGTCTGGGCCAT-GCATTGG--CTATGAGA-TGTG-T
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTA-GATATTGAGAT
* *
96853946 CAGTGTAAGACCATGTCTAGGACATGGTATCGGCAC-AGATATTGAGAT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTAGATATTGAGAT
* * * * * *
96853994 CTAGTGTAAGACTATGTTTGGGACATGACATCGGC-CTCGATTTTGATAGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTAGATATTGAGA-T
* * *
96854044 CAGTGTAAGACCATGTTTGGGACATGGCATC-G-ACTTGATGGA-TGAG-C
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTAGAT--ATTGAGAT
96854091 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
96854126 TTATACCCTA
Statistics
Matches: 217, Mismatches: 33, Indels: 38
0.75 0.11 0.13
Matches are distributed among these distances:
44 12 0.06
45 45 0.21
46 22 0.10
47 49 0.23
48 19 0.09
49 68 0.31
50 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (49 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTAGATATTGAGAT
Found at i:96864829 original size:22 final size:22
Alignment explanation
Indices: 96864804--96864875 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
96864794 CCATAGCATA
96864804 TTTCAACTATGGTCTTACTCAT
1 TTTCAACTATGGTCTTACTCAT
* * * *
96864826 TTTCTACTATGATGCCATA-GCAT
1 TTTCAACTATG--GTCTTACTCAT
*
96864849 CTTTCAACTATGGTTTTACTCAT
1 -TTTCAACTATGGTCTTACTCAT
96864872 TTTC
1 TTTC
96864876 TATTATTATG
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
22 17 0.46
23 6 0.16
24 14 0.38
ACGTcount: A:0.22, C:0.22, G:0.10, T:0.46
Consensus pattern (22 bp):
TTTCAACTATGGTCTTACTCAT
Found at i:96864841 original size:46 final size:46
Alignment explanation
Indices: 96864788--96864922 Score: 209
Period size: 46 Copynumber: 3.0 Consensus size: 46
96864778 GTGATTTCAC
*
96864788 ATGATGCCATAGCATATTTCAACTATGGTCTTACTCATTTTCTACT
1 ATGATGCCATAGCATCTTTCAACTATGGTCTTACTCATTTTCTACT
* *
96864834 ATGATGCCATAGCATCTTTCAACTATGGTTTTACTCATTTTCTATT
1 ATGATGCCATAGCATCTTTCAACTATGGTCTTACTCATTTTCTACT
* * *
96864880 ATTATGCCATAGAATCTTTCAGCTATGGTCTTACTC-TTTTCTA
1 ATGATGCCATAGCATCTTTCAACTATGGTCTTACTCATTTTCTA
96864923 GGTGTATAGC
Statistics
Matches: 82, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
45 7 0.09
46 75 0.91
ACGTcount: A:0.24, C:0.21, G:0.11, T:0.44
Consensus pattern (46 bp):
ATGATGCCATAGCATCTTTCAACTATGGTCTTACTCATTTTCTACT
Found at i:96864858 original size:24 final size:23
Alignment explanation
Indices: 96864788--96864860 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 23
96864778 GTGATTTCAC
96864788 ATGATGCCATAGCATATTTCAACT
1 ATGATGCCATAGCAT-TTTCAACT
* * * *
96864812 ATG--GTCTTACTCATTTTCTACT
1 ATGATGCCATA-GCATTTTCAACT
96864834 ATGATGCCATAGCATCTTTCAACT
1 ATGATGCCATAGCAT-TTTCAACT
96864858 ATG
1 ATG
96864861 GTTTTACTCA
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
22 14 0.38
23 6 0.16
24 17 0.46
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.38
Consensus pattern (23 bp):
ATGATGCCATAGCATTTTCAACT
Found at i:96870669 original size:16 final size:16
Alignment explanation
Indices: 96870648--96870678 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
96870638 CTTTTATTTT
*
96870648 CTAATTTCCAAATTAC
1 CTAATTGCCAAATTAC
96870664 CTAATTGCCAAATTA
1 CTAATTGCCAAATTA
96870679 ACCTTTTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.23, G:0.03, T:0.35
Consensus pattern (16 bp):
CTAATTGCCAAATTAC
Found at i:96875682 original size:45 final size:46
Alignment explanation
Indices: 96875537--96875694 Score: 158
Period size: 46 Copynumber: 3.5 Consensus size: 46
96875527 TGTCTTTCAA
* * * *
96875537 CTATGGTCTTACGCATCTTCTACCATGATGCCATAGCATCTTTTAG
1 CTATGGTCTTACTCATCTTCTATCATGATGCCATACCATATTTTAG
* * * * ** * *
96875583 CTATGTTCTTAATCATTTTCTATTATGATGCCATATTATATTTCAA
1 CTATGGTCTTACTCATCTTCTATCATGATGCCATACCATATTTTAG
* * *
96875629 CTACGGTCTTACTTATCTT-TATCATGATGTCATACCATATTTTAG
1 CTATGGTCTTACTCATCTTCTATCATGATGCCATACCATATTTTAG
*
96875674 CTATGGTCTCACTCAT-TTCTA
1 CTATGGTCTTACTCATCTTCTA
96875695 GGCGCATAGC
Statistics
Matches: 86, Mismatches: 25, Indels: 3
0.75 0.22 0.03
Matches are distributed among these distances:
44 2 0.02
45 35 0.41
46 49 0.57
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.44
Consensus pattern (46 bp):
CTATGGTCTTACTCATCTTCTATCATGATGCCATACCATATTTTAG
Found at i:96875908 original size:35 final size:35
Alignment explanation
Indices: 96875869--96876038 Score: 218
Period size: 35 Copynumber: 4.9 Consensus size: 35
96875859 CAACACTATA
* * * *
96875869 AGTATGGTTAATACCATACCTACGTTTCACAACTC
1 AGTATGGATAATACCATACCTACGTATCATAGCTC
* *
96875904 AGTATGGGA-AATATCATACCTACGTATTATAGCTC
1 AGTAT-GGATAATACCATACCTACGTATCATAGCTC
*
96875939 AGTATGGA-AATACCATACCTACGTATCATAGCTT
1 AGTATGGATAATACCATACCTACGTATCATAGCTC
* *
96875973 AGTATAGATAATACCATACCTACGTATCATGGCTC
1 AGTATGGATAATACCATACCTACGTATCATAGCTC
* *
96876008 AGTATGGATAATACCATACCTATGTGTCATA
1 AGTATGGATAATACCATACCTACGTATCATA
96876039 ACTTTGCCAT
Statistics
Matches: 117, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
34 33 0.28
35 82 0.70
36 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.31
Consensus pattern (35 bp):
AGTATGGATAATACCATACCTACGTATCATAGCTC
Found at i:96875960 original size:69 final size:69
Alignment explanation
Indices: 96875869--96876029 Score: 207
Period size: 69 Copynumber: 2.3 Consensus size: 69
96875859 CAACACTATA
* * * * *
96875869 AGTATGGTTAATACCATACCTACGTTTCACAACTCAGTATGGGA-AATATCATACCTACGTATTA
1 AGTATGG-AAATACCATACCTACGTATCACAACTCAGTAT-AGATAATACCATACCTACGTATCA
96875933 TAGCTC
64 TAGCTC
* * * *
96875939 AGTATGGAAATACCATACCTACGTATCATAGCTTAGTATAGATAATACCATACCTACGTATCATG
1 AGTATGGAAATACCATACCTACGTATCACAACTCAGTATAGATAATACCATACCTACGTATCATA
96876004 GCTC
66 GCTC
96876008 AGTATGGATAATACCATACCTA
1 AGTATGGA-AATACCATACCTA
96876030 TGTGTCATAA
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
68 2 0.03
69 58 0.73
70 20 0.25
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (69 bp):
AGTATGGAAATACCATACCTACGTATCACAACTCAGTATAGATAATACCATACCTACGTATCATA
GCTC
Found at i:96882833 original size:35 final size:35
Alignment explanation
Indices: 96882782--96882964 Score: 192
Period size: 35 Copynumber: 5.3 Consensus size: 35
96882772 AGTGCCCTGA
* * * *
96882782 TTCACAACTCAATATGGTTGATACCATACCTACGT
1 TTCATAACTCAGTATGGATAATACCATACCTACGT
* *
96882817 TTCACAACTCGGTATGGGA-AATACCATACCTACGT
1 TTCATAACTCAGTAT-GGATAATACCATACCTACGT
*
96882852 ATT-ATAACTCAATATGGA-AATACCATACCTACGT
1 -TTCATAACTCAGTATGGATAATACCATACCTACGT
* ** * *
96882886 ATCATAGGTTAGTATGGATAATACCATACTTACGT
1 TTCATAACTCAGTATGGATAATACCATACCTACGT
* *
96882921 ATCATAGCTCAGTATGGATAATACCATACCTACGT
1 TTCATAACTCAGTATGGATAATACCATACCTACGT
*
96882956 GTCATAACT
1 TTCATAACT
96882965 TTGCCATGGA
Statistics
Matches: 126, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
33 1 0.01
34 30 0.24
35 91 0.72
36 4 0.03
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (35 bp):
TTCATAACTCAGTATGGATAATACCATACCTACGT
Found at i:96882901 original size:69 final size:69
Alignment explanation
Indices: 96882787--96882964 Score: 205
Period size: 69 Copynumber: 2.6 Consensus size: 69
96882777 CCTGATTCAC
** * * *
96882787 AACTCAATATGGTTGATACCATACCTACGTTTCACAACTCGGTATGGGA-AATACCATACCTACG
1 AACTCAATATGG-AAATACCATACCTACGTATCATAACTCAGTAT-GGATAATACCATACCTACG
*
96882851 TATTAT
64 TATCAT
** * *
96882857 AACTCAATATGGAAATACCATACCTACGTATCATAGGTTAGTATGGATAATACCATACTTACGTA
1 AACTCAATATGGAAATACCATACCTACGTATCATAACTCAGTATGGATAATACCATACCTACGTA
96882922 TCAT
66 TCAT
* * *
96882926 AGCTCAGTATGGATAATACCATACCTACGTGTCATAACT
1 AACTCAATATGGA-AATACCATACCTACGTATCATAACT
96882965 TTGCCATGGA
Statistics
Matches: 91, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
68 3 0.03
69 54 0.59
70 34 0.37
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (69 bp):
AACTCAATATGGAAATACCATACCTACGTATCATAACTCAGTATGGATAATACCATACCTACGTA
TCAT
Found at i:96884907 original size:46 final size:46
Alignment explanation
Indices: 96884832--96884950 Score: 157
Period size: 46 Copynumber: 2.6 Consensus size: 46
96884822 TACCATGACG
* * * *
96884832 TCTTTCAACTATGGTCTTATTCATCTTCTACCAAAATGCCATAGCA
1 TCTTTCAGCTATGGTCTTACTCATTTTCTACCAAAATGCCATAACA
* ** * *
96884878 TCTTTCAGCTATGGTCTCACTCATTTTCTATTATAATGCTATAACA
1 TCTTTCAGCTATGGTCTTACTCATTTTCTACCAAAATGCCATAACA
96884924 TCTTTCAGCTATGGTCTTACTCATTTT
1 TCTTTCAGCTATGGTCTTACTCATTTT
96884951 TAGGCATAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 63 1.00
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.43
Consensus pattern (46 bp):
TCTTTCAGCTATGGTCTTACTCATTTTCTACCAAAATGCCATAACA
Found at i:96885935 original size:6 final size:6
Alignment explanation
Indices: 96885919--96885949 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
96885909 TCTTAGTGTG
96885919 AAAAT- AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AA
96885950 GAACACATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:96891743 original size:6 final size:6
Alignment explanation
Indices: 96891722--96891757 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
96891712 CCAATTTGTG
96891722 AAAAT- AAAAT- AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA
96891758 GAACACACAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.33
6 20 0.67
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:96893165 original size:16 final size:16
Alignment explanation
Indices: 96893140--96893170 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
96893130 TATTAAAAAC
*
96893140 AAAATTTTAATTAAAT
1 AAAATATTAATTAAAT
96893156 AAAATATTAATTAAA
1 AAAATATTAATTAAA
96893171 CCCAGTAGAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAAATATTAATTAAAT
Found at i:96896007 original size:41 final size:40
Alignment explanation
Indices: 96895891--96896026 Score: 164
Period size: 40 Copynumber: 3.4 Consensus size: 40
96895881 CGTTTTAACA
* * * ** *
96895891 AAAACGCCGCTAAAAACTGAGGAATAGCGGCTTTTTTGTT
1 AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGT
*
96895931 AAAATGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGT
* * *
96895971 AAAACGCTGCTAAAGACCAGAGCATTAGCGGTGCTTTTGGT
1 AAAACGCCGCTAAA-AACAGAGCATTAGCGGCGCTTTTGGT
*
96896012 AAAACGCCACTAAAA
1 AAAACGCCGCTAAAA
96896027 GTTATATAAC
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 46 0.56
41 36 0.44
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (40 bp):
AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGT
Found at i:96896667 original size:24 final size:24
Alignment explanation
Indices: 96896640--96896688 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
96896630 CATATATTTA
96896640 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
96896664 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
96896688 T
1 T
96896689 GCTATTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TTAAAAGTTTATATAAAAATTAAT
Found at i:96897151 original size:19 final size:22
Alignment explanation
Indices: 96897110--96897171 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
96897100 CTCTTAATTT
*
96897110 AAAAATTATAAAAATCTTCAAA
1 AAAAATTATAAAAATCTTAAAA
96897132 AAAAATT-T-AAAAT-TTAAAA
1 AAAAATTATAAAAATCTTAAAA
* *
96897151 ATAAAA-AATAAAAAACTTAAA
1 A-AAAATTATAAAAATCTTAAA
96897172 TATTTAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
19 6 0.18
20 10 0.30
21 5 0.15
22 12 0.36
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAAATTATAAAAATCTTAAAA
Found at i:96897211 original size:7 final size:7
Alignment explanation
Indices: 96897170--96897197 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
96897160 AAAAAACTTA
96897170 AATATTT
1 AATATTT
96897177 AATATTT
1 AATATTT
96897184 AATATTT
1 AATATTT
96897191 AATATTT
1 AATATTT
96897198 TAGTTCATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
AATATTT
Found at i:96897288 original size:20 final size:19
Alignment explanation
Indices: 96897265--96897328 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
96897255 TAATCTCAGC
* *
96897265 ATAAAAAATTTGAAAGAAAA
1 ATAAAAAAATAGAAA-AAAA
96897285 ATAAAAAAATAGAAAAAAA
1 ATAAAAAAATAGAAAAAAA
*
96897304 ATATAAAAAA-ATAAAAAAA
1 ATA-AAAAAATAGAAAAAAA
*
96897323 TTAAAA
1 ATAAAA
96897329 TTAAACAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
18 3 0.08
19 17 0.44
20 19 0.49
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (19 bp):
ATAAAAAAATAGAAAAAAA
Found at i:96897291 original size:21 final size:22
Alignment explanation
Indices: 96897267--96897322 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
96897257 ATCTCAGCAT
* *
96897267 AAAAAATTTGAAAGAAAA-ATA
1 AAAAAATTAGAAAAAAAATATA
96897288 AAAAAA-TAGAAAAAAAATATA
1 AAAAAATTAGAAAAAAAATATA
96897309 AAAAAA-TA-AAAAAA
1 AAAAAATTAGAAAAAA
96897323 TTAAAATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.14
Consensus pattern (22 bp):
AAAAAATTAGAAAAAAAATATA
Found at i:96897302 original size:10 final size:9
Alignment explanation
Indices: 96897281--96897328 Score: 60
Period size: 9 Copynumber: 5.1 Consensus size: 9
96897271 AATTTGAAAG
96897281 AAAAATAAA
1 AAAAATAAA
*
96897290 AAAATAGAAA
1 AAAA-ATAAA
96897300 AAAAATATAA
1 AAAAATA-AA
96897310 AAAAATAAA
1 AAAAATAAA
*
96897319 AAAATTAAA
1 AAAAATAAA
96897328 A
1 A
96897329 TTAAACAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 17 0.50
10 17 0.50
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (9 bp):
AAAAATAAA
Found at i:96897303 original size:11 final size:10
Alignment explanation
Indices: 96897287--96897322 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
96897277 AAAGAAAAAT
96897287 AAAAAAATAGA
1 AAAAAAATA-A
*
96897298 AAAAAAATAT
1 AAAAAAATAA
96897308 AAAAAAATAA
1 AAAAAAATAA
96897318 AAAAA
1 AAAAA
96897323 TTAAAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:96897962 original size:20 final size:20
Alignment explanation
Indices: 96897930--96897967 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
96897920 TGTAGTTTTT
96897930 ATTTTGTTAATT-ATTTTCA
1 ATTTTGTTAATTAATTTTCA
*
96897949 ATTTTTTTATATTAATTTT
1 ATTTTGTTA-ATTAATTTT
96897968 TTGTGTTCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 8 0.50
20 3 0.19
21 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (20 bp):
ATTTTGTTAATTAATTTTCA
Found at i:96900676 original size:43 final size:42
Alignment explanation
Indices: 96900615--96900760 Score: 202
Period size: 43 Copynumber: 3.4 Consensus size: 42
96900605 TTTTTAAAAT
*
96900615 TCATGATTTTTAGCGGCGTTTGCAGGAAAAGCGCCGCTAAAGG
1 TCATGATCTTTAGCGGCGTTTG-AGGAAAAGCGCCGCTAAAGG
96900658 TCATGATCTTTAGCGGCGTTTGAGGGAAAAGCGCCGCTAAAGG
1 TCATGATCTTTAGCGGCGTTTGA-GGAAAAGCGCCGCTAAAGG
* * ** *
96900701 TCATGGTCGTTAGCGGCGTTTGTAAAAAAAGCGCCGCTAAAAG
1 TCATGATCTTTAGCGGCGTTTG-AGGAAAAGCGCCGCTAAAGG
*
96900744 TCATGGTCTTTAGCGGC
1 TCATGATCTTTAGCGGC
96900761 CTTTTTTTAA
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
42 1 0.01
43 92 0.98
44 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (42 bp):
TCATGATCTTTAGCGGCGTTTGAGGAAAAGCGCCGCTAAAGG
Found at i:96903410 original size:2 final size:2
Alignment explanation
Indices: 96903403--96903440 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
96903393 GATAATGGAT
96903403 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
96903441 AACTAATAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:96910703 original size:19 final size:20
Alignment explanation
Indices: 96910670--96910709 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
96910660 ATATATGTAT
96910670 ATAAAATAAAGAAAAT-AAA
1 ATAAAATAAAGAAAATGAAA
96910689 ATAAAATAACA-AAAATGAAA
1 ATAAAATAA-AGAAAATGAAA
96910709 A
1 A
96910710 ATGAACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
ATAAAATAAAGAAAATGAAA
Found at i:96910982 original size:11 final size:10
Alignment explanation
Indices: 96910950--96910990 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
96910940 AGAGGTTAGG
96910950 TTTTT-TTC-
1 TTTTTCTTCA
96910958 TTTTTCTTCA
1 TTTTTCTTCA
96910968 TTTTTCTTCA
1 TTTTTCTTCA
96910978 TTTTT-TT-A
1 TTTTTCTTCA
96910986 TTTTT
1 TTTTT
96910991 TATTTTGGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 11 0.35
9 5 0.16
10 15 0.48
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTTCTTCA
Found at i:96911345 original size:44 final size:44
Alignment explanation
Indices: 96911287--96911739 Score: 725
Period size: 44 Copynumber: 10.4 Consensus size: 44
96911277 CCCCGTCTAA
*
96911287 TACAGAGACGCCAAATCCGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
96911331 TACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
96911375 TACAGAGAGGCCAAATCTGTTATCTTTGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
96911419 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
96911463 TACAGAGATGCCAAATC----ATCTTCGATCAGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
96911503 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGTCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
96911547 TACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
96911591 TACAGAGACGCCAAATCTGCTATCTTCGATCTGCTTTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * * *
96911635 TACAGAGACGCCAAATCTGCTATATTCAATCTGCTCTTCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
96911679 TACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
96911723 TACAGATATGCCAAATC
1 TACAGAGACGCCAAATC
96911740 ATCTTGGATT
Statistics
Matches: 380, Mismatches: 25, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
40 38 0.10
44 342 0.90
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (44 bp):
TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
Found at i:96911517 original size:172 final size:175
Alignment explanation
Indices: 96911256--96911739 Score: 722
Period size: 172 Copynumber: 2.8 Consensus size: 175
96911246 GGAAGGCGAT
* * *** * *
96911256 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCCGTTATCTTCGATCTGC
1 ATCTGCTATCTTCGATCTGCTCTCCG-CCGCTACAGAGACGCCAAA-CTGCTATCTTCGATCTGC
* *
96911321 TCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCCGCCGCTACAGAGAGGC
64 TCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGC
* *
96911386 CAAATCTGTTATCTTTGATCTGCTCTCCGCCGCTACAGAGACGCCAA
129 CAAATCTGCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
96911433 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAA-T-C-ATCTTCGATCAGCTC
1 ATCTGCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAACTGCTATCTTCGATCTGCTC
*
96911495 TCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGTCGCTACAGAGACGCCA
66 TCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
96911560 AATCTGCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
131 AATCTGCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
96911605 ATCTGCTATCTTCGATCTGCTTTCCGCCGCTACAGAGACGCCAAATCTGCTATATTCAATCTGCT
1 ATCTGCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAA-CTGCTATCTTCGATCTGCT
* * * *
96911670 CTTCGCCGCTACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCCGCCGCTACAGATATGCC
65 CTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCC
96911735 AAATC
130 AAATC
96911740 ATCTTGGATT
Statistics
Matches: 277, Mismatches: 26, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
172 161 0.58
174 1 0.00
175 1 0.00
176 91 0.33
177 23 0.08
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.28
Consensus pattern (175 bp):
ATCTGCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAACTGCTATCTTCGATCTGCTC
TCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
AATCTGCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
Found at i:96911815 original size:88 final size:88
Alignment explanation
Indices: 96911701--96911924 Score: 288
Period size: 88 Copynumber: 2.6 Consensus size: 88
96911691 AAATATGTTA
* * * * * *
96911701 TCTTCGATCTGCTCTCCGCC-GCTACAGATATGCCAAATCATCTTGGATTTACTTCAATGTAAAC
1 TCTTCGATCTACTCACCGCCTGATACAGAGATGCCAAATCATCTTGGATCTACTTCAACGTAAAC
96911765 ACGTGAAAGCCAAATCAGCTATG
66 ACGTGAAAGCCAAATCAGCTATG
* * ** * * *
96911788 TTTTCGATCTGCTCATTGTCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTTAACGTAAAC
1 TCTTCGATCTACTCACCGCCTGATACAGAGATGCCAAATCATCTTGGATCTACTTCAACGTAAAC
*
96911853 ACGTGAAAGCCAAATTAGCTATG
66 ACGTGAAAGCCAAATCAGCTATG
* * *
96911876 TCTTCGATCTACTCCCCGCCTGATACAGAGATGCGAAATTATCTTGGAT
1 TCTTCGATCTACTCACCGCCTGATACAGAGATGCCAAATCATCTTGGAT
96911925 ATCTTCAGCT
Statistics
Matches: 116, Mismatches: 20, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
87 15 0.13
88 101 0.87
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (88 bp):
TCTTCGATCTACTCACCGCCTGATACAGAGATGCCAAATCATCTTGGATCTACTTCAACGTAAAC
ACGTGAAAGCCAAATCAGCTATG
Found at i:96911841 original size:260 final size:259
Alignment explanation
Indices: 96911262--96911744 Score: 752
Period size: 260 Copynumber: 1.9 Consensus size: 259
96911252 CGATATCTGC
* * *
96911262 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCCGTTATCTTCGATCTGCTCTCCG
1 TATCTTCGATCTGCTCTCCGTCTGATACAGAGACGCCAAATCC--TATCTTCGATCTGCTCTCCG
* * *
96911327 CCGCTACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCCGCCGCTACAGAGAGGCCAAATC
64 CCGCTACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC
* * ** *
96911392 TGTTATCTTTGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTC
129 TGCTATATTCAATCTGCTCTCCGCCGCTACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTC
** * *
96911457 CGCCGCTACAGAGATGCCAAATCATCTTCGATCAGCTCTCCGCCGCTACAGAGACGCCAAATCTG
194 CGCCGCTACAGAGATGCCAAATCATCTTCGATCAGCTCTCCAACGCTACAGAGAAGCCAAATCAG
96911522 T
259 T
*
96911523 TATCTTCGATCTGCTCTCCGTC-GCTACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCG
1 TATCTTCGATCTGCTCTCCGTCTGATACAGAGACGCCAAATC--CTATCTTCGATCTGCTCTCCG
*
96911587 CCGCTACAGAGACGCCAAATCTGCTATCTTCGATCTGCTTTCCGCCGCTACAGAGACGCCAAATC
64 CCGCTACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC
*
96911652 TGCTATATTCAATCTGCTCTTCGCCGCTACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTC
129 TGCTATATTCAATCTGCTCTCCGCCGCTACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTC
*
96911717 CGCCGCTACAGATATGCCAAATCATCTT
194 CGCCGCTACAGAGATGCCAAATCATCTT
96911745 GGATTTACTT
Statistics
Matches: 205, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
260 184 0.90
261 20 0.10
262 1 0.00
ACGTcount: A:0.22, C:0.33, G:0.17, T:0.28
Consensus pattern (259 bp):
TATCTTCGATCTGCTCTCCGTCTGATACAGAGACGCCAAATCCTATCTTCGATCTGCTCTCCGCC
GCTACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTG
CTATATTCAATCTGCTCTCCGCCGCTACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCCG
CCGCTACAGAGATGCCAAATCATCTTCGATCAGCTCTCCAACGCTACAGAGAAGCCAAATCAGT
Found at i:96913777 original size:6 final size:6
Alignment explanation
Indices: 96913768--96913797 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
96913758 TTTTTTTTTT
*
96913768 TTTGCC TTTGCC TTTGCC TTTACC TTTGCC
1 TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC
96913798 ATAGAGCGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.03, C:0.33, G:0.13, T:0.50
Consensus pattern (6 bp):
TTTGCC
Found at i:96915913 original size:19 final size:19
Alignment explanation
Indices: 96915889--96915936 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
96915879 GGGAAAATCT
96915889 AATGCAAATGATGCAATGC
1 AATGCAAATGATGCAATGC
*
96915908 AATGCACATGATGCAATGC
1 AATGCAAATGATGCAATGC
96915927 AATGCAAATG
1 AATGCAAATG
96915937 CATGGGATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGCAAATGATGCAATGC
Found at i:96915949 original size:24 final size:24
Alignment explanation
Indices: 96915899--96915952 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
96915889 AATGCAAATG
*
96915899 ATGCAATGCAATGCACATGATGCA
1 ATGCAATGCAATGCACAGGATGCA
**
96915923 ATGCAATGCAAATGCATGGGATG-A
1 ATGCAATGC-AATGCACAGGATGCA
96915947 ATGCAA
1 ATGCAA
96915953 AGGAAAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (24 bp):
ATGCAATGCAATGCACAGGATGCA
Found at i:96920784 original size:19 final size:19
Alignment explanation
Indices: 96920756--96920793 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
96920746 GAAATGAATA
*
96920756 ATTTCGGGCAAATAGGTTG
1 ATTTCAGGCAAATAGGTTG
96920775 ATTTCAGGCAAATAGGTTG
1 ATTTCAGGCAAATAGGTTG
96920794 GTAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.29, T:0.32
Consensus pattern (19 bp):
ATTTCAGGCAAATAGGTTG
Found at i:96921068 original size:2 final size:2
Alignment explanation
Indices: 96921061--96921102 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
96921051 GTAGGTAAAT
96921061 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
96921103 CATAAACAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:96921751 original size:24 final size:25
Alignment explanation
Indices: 96921711--96921757 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
96921701 ATATATATGT
96921711 ATATAAAATAAAGAAAAT-AAAATA
1 ATATAAAATAAAGAAAATGAAAATA
*
96921735 ATATAATATAACA-AAAATGAAAA
1 ATATAAAATAA-AGAAAATGAAAA
96921758 ATGAGCAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.21
Consensus pattern (25 bp):
ATATAAAATAAAGAAAATGAAAATA
Found at i:96927106 original size:17 final size:18
Alignment explanation
Indices: 96927071--96927113 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
96927061 TCATAACATT
*
96927071 AAAACTATTTTTAAGTTA
1 AAAAATATTTTTAAGTTA
*
96927089 AAAAATATTTTTTA-TTA
1 AAAAATATTTTTAAGTTA
*
96927106 AAATATAT
1 AAAAATAT
96927114 CAATAACAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (18 bp):
AAAAATATTTTTAAGTTA
Found at i:96927474 original size:11 final size:11
Alignment explanation
Indices: 96927460--96927488 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
96927450 AAAAATAATT
96927460 AAAATATTTAG
1 AAAATATTTAG
96927471 AAAATATTTAG
1 AAAATATTTAG
96927482 AAAATAT
1 AAAATAT
96927489 GGATTATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (11 bp):
AAAATATTTAG
Found at i:96931553 original size:18 final size:19
Alignment explanation
Indices: 96931532--96931585 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 19
96931522 CTGCATCTTT
*
96931532 TTCCTCCA-CTACGCCTTC
1 TTCCTCCATCTACACCTTC
*
96931550 TTCCT-CATCTGCACCTTC
1 TTCCTCCATCTACACCTTC
*
96931568 TTCCT-CACCTACACCTTC
1 TTCCTCCATCTACACCTTC
96931586 ATTGTCACCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 2 0.06
18 29 0.94
ACGTcount: A:0.13, C:0.48, G:0.04, T:0.35
Consensus pattern (19 bp):
TTCCTCCATCTACACCTTC
Found at i:96935443 original size:18 final size:18
Alignment explanation
Indices: 96935420--96935458 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
96935410 TCCCTTGCCC
*
96935420 CTTCTTCATCCTCTGCAT
1 CTTCTTCATCATCTGCAT
* *
96935438 CTTCTTCCTCATCTGCTT
1 CTTCTTCATCATCTGCAT
96935456 CTT
1 CTT
96935459 TATTGTCACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.38, G:0.05, T:0.49
Consensus pattern (18 bp):
CTTCTTCATCATCTGCAT
Found at i:96937842 original size:18 final size:17
Alignment explanation
Indices: 96937809--96937858 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
96937799 CTTTAAATGG
96937809 TTTTTAATAATTTTTAA
1 TTTTTAATAATTTTTAA
96937826 TTTTTAA-AATTTATTTAA
1 TTTTTAATAA-TT-TTTAA
*
96937844 TATTTTTATAATTTT
1 T-TTTTAATAATTTT
96937859 AATAACGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 2 0.07
17 9 0.32
18 8 0.29
19 7 0.25
20 2 0.07
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTAATAATTTTTAA
Found at i:96942983 original size:57 final size:57
Alignment explanation
Indices: 96942893--96943006 Score: 201
Period size: 57 Copynumber: 2.0 Consensus size: 57
96942883 TTGTAATTTT
* *
96942893 TATATTTTTGAGATCGTTACAATTAGGTCTAGCTAACCCGTATCTCTGTTTTTGAAA
1 TATATTTTTGAGATCGCTACAATTAGGTCTAGCTAACCCGTATCTCCGTTTTTGAAA
*
96942950 TATATTTTTGAGATCGCTACAATTAGGTTTAGCTAACCCGTATCTCCGTTTTTGAAA
1 TATATTTTTGAGATCGCTACAATTAGGTCTAGCTAACCCGTATCTCCGTTTTTGAAA
96943007 CTGTTAAAGA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (57 bp):
TATATTTTTGAGATCGCTACAATTAGGTCTAGCTAACCCGTATCTCCGTTTTTGAAA
Found at i:96944297 original size:7 final size:7
Alignment explanation
Indices: 96944285--96944332 Score: 78
Period size: 7 Copynumber: 6.9 Consensus size: 7
96944275 AAGGTTGTAG
96944285 TAAATGT
1 TAAATGT
96944292 TAAATGT
1 TAAATGT
96944299 TAAATGT
1 TAAATGT
96944306 TAAATGT
1 TAAATGT
96944313 TAAATGT
1 TAAATGT
*
96944320 TCAATGT
1 TAAATGT
*
96944327 TCAATG
1 TAAATG
96944333 AACTACTTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.42
Consensus pattern (7 bp):
TAAATGT
Found at i:96948823 original size:20 final size:20
Alignment explanation
Indices: 96948790--96948865 Score: 104
Period size: 20 Copynumber: 3.9 Consensus size: 20
96948780 ATACGTGGGA
96948790 TATGATAT--ACATGA-ATG
1 TATGATATGCACATGATATG
96948807 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
*
96948828 TATGACATGCACATGATATG
1 TATGATATGCACATGATATG
*
96948848 TATGAAATGCACATGATA
1 TATGATATGCACATGATA
96948866 AATTCATAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
18 8 0.15
20 42 0.79
21 3 0.06
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:96948825 original size:11 final size:11
Alignment explanation
Indices: 96948809--96948865 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
96948799 CATGAATGAT
96948809 ATGATATGCAC
1 ATGATATGCAC
*
96948820 ATGATATG--T
1 ATGATATGCAC
*
96948829 ATGACATGCAC
1 ATGATATGCAC
*
96948840 ATGATATG--T
1 ATGATATGCAC
*
96948849 ATGAAATGCAC
1 ATGATATGCAC
96948860 ATGATA
1 ATGATA
96948866 AATTCATAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
9 14 0.41
11 20 0.59
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:96948991 original size:52 final size:52
Alignment explanation
Indices: 96948913--96949045 Score: 182
Period size: 52 Copynumber: 2.6 Consensus size: 52
96948903 GGAGGAAGTG
**
96948913 AAAAAGGGCTTATGCCTTAGTTTATTGAAAAGGGCTTATGCCCCAGTATACC
1 AAAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTATACC
* * *
96948965 AAAAAAGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCTAGTTTACC
1 AAAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTATACC
* *
96949017 GAAAAGGGC-TGTGCCCCAG-TTATT-AAAAG
1 AAAAAGGGCTTATGCCCCAGTTTATTGAAAAG
96949046 AGGATAGGCC
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
49 5 0.07
50 5 0.07
51 9 0.12
52 54 0.74
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.27
Consensus pattern (52 bp):
AAAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTATACC
Found at i:96949037 original size:25 final size:26
Alignment explanation
Indices: 96948914--96949037 Score: 142
Period size: 26 Copynumber: 4.8 Consensus size: 26
96948904 GAGGAAGTGA
** **
96948914 AAAAGGGCTTATGCCTTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* *
96948940 AAAAGGGCTTATGCCCCAGTATACCA
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
96948966 AAAAAGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
96948992 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
96949018 AAAAGGGC-TGTGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
96949038 ATTAAAAGAG
Statistics
Matches: 81, Mismatches: 17, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
25 10 0.12
26 71 0.88
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:96951914 original size:19 final size:19
Alignment explanation
Indices: 96951890--96951987 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
96951880 AATCTTTAAG
96951890 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
96951909 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
96951928 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
96951945 GATATGCAATCGTAGATAT
1 GATATGCAATCTTAGATAT
96951964 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
96951985 GAT
1 GAT
96951988 CTTGTAATCT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 17 0.23
19 47 0.64
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:96951920 original size:36 final size:35
Alignment explanation
Indices: 96951880--96951987 Score: 103
Period size: 36 Copynumber: 2.9 Consensus size: 35
96951870 ATGGAAATAT
96951880 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
96951916 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
* *
96951952 AATCGTAGATATGATATGCAATCTTGAAGATATGAT
1 AATC-T--TTAAGATATGCAATCTT--AGATATGAT
96951988 CTTGTAATCT
Statistics
Matches: 60, Mismatches: 2, Indels: 16
0.77 0.03 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 28 0.47
38 7 0.12
40 10 0.17
41 6 0.10
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:96956738 original size:2 final size:2
Alignment explanation
Indices: 96956731--96956773 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
96956721 TATTTGAGTT
*
96956731 TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
96956773 T
1 T
96956774 GCACATTCGG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:96957949 original size:40 final size:40
Alignment explanation
Indices: 96957900--96958045 Score: 163
Period size: 40 Copynumber: 3.7 Consensus size: 40
96957890 TGAGGAATTG
* *
96957900 TATCCGGGCTTAAAGACCCGTAGGCTATATGCTGAAATGT
1 TATCAGGGCTTAAAGACCCGCAGGCTATATGCTGAAATGT
* *
96957940 TATCAGGGCTTAAAGACACGCAGGCTATATGCTGGAATGT
1 TATCAGGGCTTAAAGACCCGCAGGCTATATGCTGAAATGT
* * * * *
96957980 TATCTGGGCTTAAAGACCTGCAGGCTTTGTGCT-AGAATGC
1 TATCAGGGCTTAAAGACCCGCAGGCTATATGCTGA-AATGT
*
96958020 TATCCA-GGC-TAGAGACCCGCAGGCTA
1 TAT-CAGGGCTTAAAGACCCGCAGGCTA
96958046 CGAGCTGGTA
Statistics
Matches: 89, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
39 14 0.16
40 74 0.83
41 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
TATCAGGGCTTAAAGACCCGCAGGCTATATGCTGAAATGT
Found at i:96958773 original size:2 final size:2
Alignment explanation
Indices: 96958766--96958790 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
96958756 TGAAAATGAC
96958766 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
96958791 ACACAAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:96965619 original size:40 final size:40
Alignment explanation
Indices: 96965582--96965727 Score: 215
Period size: 40 Copynumber: 3.7 Consensus size: 40
96965572 TGAGGAATTG
96965582 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
1 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
*
96965622 TATCCGGGCTTAAAGACCCACAGGCTATATGCTGGAATGT
1 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
* * * *
96965662 TATCCGGGCTTAAAGACCCACAGGCT-TCGTGCTAGAATGC
1 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATGT
*
96965702 TATCCGGGC-TAGAGACCCGCAGGCTA
1 TATCCGGGCTTAAAGACCCGCAGGCTA
96965728 CGAGCTGGTA
Statistics
Matches: 98, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
39 15 0.15
40 83 0.85
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
Found at i:96968302 original size:21 final size:21
Alignment explanation
Indices: 96968272--96968323 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
96968262 CTTCTATTTC
*
96968272 AAAAAAAAAA-AGGAAAAAAG
1 AAAAAAAAAAGAGAAAAAAAG
*
96968292 AAAAGAAAAAAGAGAAAAAAAT
1 AAAA-AAAAAAGAGAAAAAAAG
96968314 AAAAAAAAAA
1 AAAAAAAAAA
96968324 TGGAGAGGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 4 0.14
21 12 0.43
22 12 0.43
ACGTcount: A:0.87, C:0.00, G:0.12, T:0.02
Consensus pattern (21 bp):
AAAAAAAAAAGAGAAAAAAAG
Found at i:96969352 original size:44 final size:45
Alignment explanation
Indices: 96969210--96969524 Score: 211
Period size: 44 Copynumber: 7.1 Consensus size: 45
96969200 AAAAGAAACA
* * *
96969210 AGATTTGGCATCCTTGTATTTATAAGGAA-ACAGATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACA-AGATCGAAGATAGC
* * * * * **
96969255 AGATCTGACAGT-CCTGTGCTTACAGCGAAGC-AGATCGAAGATTTC
1 AGATTTGGCA-TCCCTGTGTTTATAGGGAA-CAAGATCGAAGATAGC
*
96969300 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAG-TTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGC
96969343 AGATTTGGCATCCCTGTGTTTATAGGGAAC-AGATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGC
** * * * * * * * ***
96969387 AGATCAGACATTCCTGTGCTTACA-GCAAAACAGATCAAAGATTTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACA-AGATCGAAGATAGC
** * * *
96969432 A-ACATGGCATCCCTATGTTTATAGGGAACAAG-TTGAAGATAGT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGC
* * *
96969475 AGATTTTGTATCCCTGTGTTTATAGGGAACAA-ATCAAAGACATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGATCGAAG--ATAGC
96969521 AGAT
1 AGAT
96969525 CTGATTTTCG
Statistics
Matches: 202, Mismatches: 52, Indels: 31
0.71 0.18 0.11
Matches are distributed among these distances:
42 1 0.00
43 25 0.12
44 118 0.58
45 48 0.24
46 10 0.05
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (45 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGC
Found at i:96969451 original size:132 final size:132
Alignment explanation
Indices: 96969210--96969525 Score: 461
Period size: 132 Copynumber: 2.4 Consensus size: 132
96969200 AAAAGAAACA
* * * *
96969210 AGATTTGGCATCCTTGTATTTATAAGGAAACAGATCGAAGATAGCAGATCTGACAGTCCTGTGCT
1 AGATTTGGCATCCCTGTGTTTAT-AGGGAACAGATCGAAGATAGCAGATCAGACAGTCCTGTGCT
* * * * *
96969275 TACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
65 TACAGCAAAACAGATCAAAGATTTCAACATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGAT
96969340 AGC
130 AGC
*
96969343 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCAGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCAGACAGTCCTGTGCTT
*
96969408 ACAGCAAAACAGATCAAAGATTTTAACATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCAAAACAGATCAAAGATTTCAACATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATA
*
96969473 GT
131 GC
* * * *
96969475 AGATTTTGTATCCCTGTGTTTATAGGGAACAAATCAAAGACATAGCAGATC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAG--ATAGCAGATC
96969526 TGATTTTCGG
Statistics
Matches: 165, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
132 134 0.81
133 21 0.13
134 10 0.06
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCAGACAGTCCTGTGCTT
ACAGCAAAACAGATCAAAGATTTCAACATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:96969698 original size:175 final size:175
Alignment explanation
Indices: 96969489--96970050 Score: 901
Period size: 175 Copynumber: 3.2 Consensus size: 175
96969479 TTTGTATCCC
* * * * *
96969489 TGTGTTTATAGGGAACAAATCAAAGACATAGCAGATCTGATTTTCGGATGTTCTCACACCAAAGC
1 TGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGC
96969554 AGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACC
66 AGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACC
* * *
96969619 TTTAGATGTTTATACTAAAGCATATCCAAGATGATTTGGCATTCT
131 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCT
*
96969664 TGTGTTTACAAGGAACAAATTGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGC
1 TGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGC
*
96969729 AGATCCAAGATAACAAATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACC
66 AGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACC
96969794 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCT
131 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCT
* * * *
96969839 TGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCAGAAGTTCTTACACCAAAGT
1 TGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGC
* * * * *
96969904 AGATCCAAGATAACAGATTTAGCATCTCCATTTCGACGGAGAGTAGATACATAGCAGATCTAACC
66 AGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACC
*
96969969 TTCAGATGATTT-TACTGAAGCAGATCCAAGATGATTTGGCATCCT
131 TTCAGATG-TTTATACTGAAGCAGATCCAAGATGATTTGGCATTCT
** *
96970014 TGTGTTCCCAAGGAGCAAATCGAAGACATAGCAGATT
1 TGTGTTTACAAGGAACAAATCGAAGACATAGCAGATT
96970051 CGGCTTTCAC
Statistics
Matches: 361, Mismatches: 25, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
175 358 0.99
176 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (175 bp):
TGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGC
AGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACC
TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCT
Found at i:96969886 original size:87 final size:86
Alignment explanation
Indices: 96969618--96970097 Score: 277
Period size: 87 Copynumber: 5.5 Consensus size: 86
96969608 CAGGTCTAAC
* *
96969618 CTTT-AGATGTTTATACTAAAGCATATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAA
1 CTTTCAGATGTTTACACTAAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTT-CAAGGAACAA
*
96969682 ATTGAAGACATAGCAGATTTGA
65 ATCGAAGACATAGCAGATTTGA
* * * * *** *
96969704 CTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAACAAATCTGGCA-TC-TCCATTTCGACG
1 CTTTCAGATGTT-T-ACACTAAAGCAGATCCAAGAT----GATTTGGCATTCTTGTGTTTC-AAG
* * * * * *
96969767 G---AGAGC-AGGTACATAGCAGGTCTAA
59 GAACAAATCGAAG-ACATAGCAGATTTGA
* * *
96969792 CCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAA
1 CTTTCAGATGTTTACACTAAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTT-CAAGGAACAA
96969857 ATCGAAGACATAGCAGATTTGA
65 ATCGAAGACATAGCAGATTTGA
* * * * *** *
96969879 CTTTCAGAAGTTCTTACACCAAAGTAGATCCAAGATAACAGATTTAGCA-TC-TCCATTTCGACG
1 CTTTCAGATG-T-TTACACTAAAGCAGATCCAAGAT----GATTTGGCATTCTTGTGTTTC-AAG
* * * * * *
96969942 G-A-GAGTAG-ATACATAGCAGATCTAA
59 GAACAAATCGAAGACATAGCAGATTTGA
* * * * * *
96969967 CCTTCAGATGATTT-TACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCCCAAGGAGCA
1 CTTTCAGATG-TTTACACTAAAGCAGATCCAAGATGATTTGGCATTCTTGTGTT-TCAAGGAACA
* *
96970031 AATCGAAGACATAGCAGATTCGG
64 AATCGAAGACATAGCAGATTTGA
* * *
96970054 CTTTCACG-TGTTTACGCTGAAGCAGATCTAAGATGATTTGGCAT
1 CTTTCA-GATGTTTACACTAAAGCAGATCCAAGATGATTTGGCAT
96970098 CTCTGTATTG
Statistics
Matches: 285, Mismatches: 78, Indels: 61
0.67 0.18 0.14
Matches are distributed among these distances:
82 15 0.05
83 3 0.01
84 13 0.05
85 2 0.01
86 44 0.15
87 80 0.28
88 52 0.18
89 40 0.14
90 3 0.01
91 14 0.05
92 4 0.01
93 15 0.05
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (86 bp):
CTTTCAGATGTTTACACTAAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTCAAGGAACAAA
TCGAAGACATAGCAGATTTGA
Found at i:96969962 original size:88 final size:88
Alignment explanation
Indices: 96969514--96970000 Score: 272
Period size: 88 Copynumber: 5.6 Consensus size: 88
96969504 CAAATCAAAG
* * * * *
96969514 ACATAGCAGATCTGATTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAACAGATCTGGCAT
1 ACATAGCAGATTTGACTTTCAGATGTTCTTACACCAAAGCAGATCCAAGATAACAGATTTGGCAT
* *
96969579 CTCCATTTCGACGGAGAGCAGGT
66 CTCCATTTCGACGGAGAGTAGAT
* * * * * *
96969602 ACATAGCAGGTCTAACCTTT-AGATG-T-TTATACTAAAGCATATCCAAGAT----GATTTGGCA
1 ACATAGCAGATTTGA-CTTTCAGATGTTCTTACACCAAAGCAGATCCAAGATAACAGATTTGGCA
*** * * * * *
96969660 TTCTTGTGTTTAC-AAGGAACAAATTGAAG
65 -TC-TCCATTT-CGACGG-A-GAGTAG-AT
* * * *
96969689 ACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAACAAATCTGGCAT
1 ACATAGCAGATTTGACTTTCAGATGTTCTTACACCAAAGCAGATCCAAGATAACAGATTTGGCAT
* *
96969754 CTCCATTTCGACGGAGAGCAGGT
66 CTCCATTTCGACGGAGAGTAGAT
* * * * * **
96969777 ACATAGCAGGTCTAACCTTCAGATG-T-TTATACTGAAGCAGATCCAAGAT----GATTTGGCAT
1 ACATAGCAGATTTGACTTTCAGATGTTCTTACACCAAAGCAGATCCAAGATAACAGATTTGGCA-
*** * * * * *
96969836 TCTTGTGTTTAC-AAGGAACAAATCGAAG
65 TC-TCCATTT-CGACGG-A-GAGTAG-AT
* * *
96969864 ACATAGCAGATTTGACTTTCAGAAGTTCTTACACCAAAGTAGATCCAAGATAACAGATTTAGCAT
1 ACATAGCAGATTTGACTTTCAGATGTTCTTACACCAAAGCAGATCCAAGATAACAGATTTGGCAT
96969929 CTCCATTTCGACGGAGAGTAGAT
66 CTCCATTTCGACGGAGAGTAGAT
* * * **
96969952 ACATAGCAGATCTAACCTTCAGATGATT-TT--ACTGAAGCAGATCCAAGAT
1 ACATAGCAGATTTGACTTTCAGATG-TTCTTACACCAAAGCAGATCCAAGAT
96970001 GATTTGGCAT
Statistics
Matches: 285, Mismatches: 85, Indels: 60
0.66 0.20 0.14
Matches are distributed among these distances:
82 15 0.05
83 4 0.01
84 14 0.05
85 4 0.01
86 62 0.22
87 38 0.13
88 63 0.22
89 48 0.17
90 4 0.01
91 14 0.05
92 4 0.01
93 15 0.05
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (88 bp):
ACATAGCAGATTTGACTTTCAGATGTTCTTACACCAAAGCAGATCCAAGATAACAGATTTGGCAT
CTCCATTTCGACGGAGAGTAGAT
Found at i:96970540 original size:19 final size:19
Alignment explanation
Indices: 96970516--96970613 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
96970506 AATCTTTAAG
96970516 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
96970535 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
96970554 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
96970571 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
96970590 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
96970611 GAT
1 GAT
96970614 CTTGTAATCT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:96970546 original size:36 final size:35
Alignment explanation
Indices: 96970506--96970613 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 35
96970496 ATGGAAATAT
96970506 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
96970542 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
*
96970578 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
96970614 CTTGTAATCT
Statistics
Matches: 61, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 28 0.46
37 1 0.02
38 7 0.11
40 10 0.16
41 6 0.10
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:96980312 original size:15 final size:15
Alignment explanation
Indices: 96980280--96980343 Score: 89
Period size: 15 Copynumber: 4.4 Consensus size: 15
96980270 CAAAGATAAC
96980280 AAGAAA-CC-GAATA
1 AAGAAATCCAGAATA
96980293 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
96980308 GAGAAATCCAGAATA
1 AAGAAATCCAGAATA
96980323 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
96980338 AAGAAA
1 AAGAAA
96980344 CCCAAGATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
13 6 0.13
14 3 0.07
15 35 0.78
16 1 0.02
ACGTcount: A:0.61, C:0.12, G:0.16, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:96983404 original size:93 final size:93
Alignment explanation
Indices: 96983289--96983459 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
96983279 GCCCATAAGT
* * * *
96983289 GAACTCGGACTCAATTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGAGTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
96983354 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
96983382 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
96983447 CGAGTTCGGATGC
66 CGAGCTCGGATGC
96983460 TCATCCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:96983456 original size:46 final size:46
Alignment explanation
Indices: 96983281--96983456 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
96983271 TGTAACCCGC
* * *
96983281 CCATAAGTGAACTCGGACTCAATTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
96983327 CCATAAGTGAACTCGGAGTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
96983373 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
96983420 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
96983457 TGCTCATCCA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 68 0.63
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:96986345 original size:46 final size:49
Alignment explanation
Indices: 96986275--96986592 Score: 180
Period size: 47 Copynumber: 6.7 Consensus size: 49
96986265 TATTTGTATA
*
96986275 CTAGTGTAAGACCATGTCTCGGACATGGCATCAGCATTG-AGAG-AGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGTAGAGAAGAG
* * * * *
96986322 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCATCCTCG-CGATGTA-AG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGTAGA-GAAGAG
* * * * * * *
96986368 CCAGTATAAGA-CATGTTTGGGATATGGCATCGGCA-TGTATAGAAGTG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGTAGAGAAGAG
* * * * *
96986415 TTAGTGTAAGACCATGGCTGGGACATGGCATCACCATGGATATGTG-AGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTG-TA-GAGAAGAG
* * * * * *** *
96986465 CTAGTGTAGGACCATGTCTGGGACATGGCGTCGGCCTCGATTTCGATA-AT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTG-TAGAGA-AGAG
* * * *
96986515 C-AATGTAAGACCATGTCTGGGACATGGCAT-TG-ACT-TA-ATGGATGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGTAGA--GAAGAG
*
96986561 CCAGTGTAAGACCATGTCTGGGACATGGCATC
1 CTAGTGTAAGACCATGTCTGGGACATGGCATC
96986593 GACATCATAC
Statistics
Matches: 202, Mismatches: 53, Indels: 31
0.71 0.19 0.11
Matches are distributed among these distances:
45 12 0.06
46 44 0.22
47 56 0.28
48 20 0.10
49 28 0.14
50 40 0.20
51 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (49 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGTAGAGAAGAG
Found at i:96988717 original size:30 final size:30
Alignment explanation
Indices: 96988683--96988739 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
96988673 ATTGAATTTC
*
96988683 AAGCCTAGGAGTAAAATAGTCATTTTGTGA
1 AAGCCTAGGAGCAAAATAGTCATTTTGTGA
* *
96988713 AAGCCTAGGGGCAAAATGGTCATTTTG
1 AAGCCTAGGAGCAAAATAGTCATTTTG
96988740 CCCAATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.28
Consensus pattern (30 bp):
AAGCCTAGGAGCAAAATAGTCATTTTGTGA
Found at i:96990527 original size:20 final size:21
Alignment explanation
Indices: 96990488--96990527 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
96990478 GTTATGATGA
*
96990488 CCACATGGGCATGTTGCCCTT
1 CCACACGGGCATGTTGCCCTT
96990509 CCACACGGGCATG-TGCCCT
1 CCACACGGGCATGTTGCCCT
96990528 GTTTCAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.15, C:0.38, G:0.25, T:0.23
Consensus pattern (21 bp):
CCACACGGGCATGTTGCCCTT
Found at i:96999041 original size:22 final size:21
Alignment explanation
Indices: 96999006--96999046 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
96998996 CGAAAATGAT
96999006 TAAAATAATCAAAATTTAATA
1 TAAAATAATCAAAATTTAATA
*
96999027 TAAAAGTAATTAAAATTTAA
1 TAAAA-TAATCAAAATTTAA
96999047 CATGTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
TAAAATAATCAAAATTTAATA
Found at i:97001380 original size:29 final size:28
Alignment explanation
Indices: 97001326--97001380 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
97001316 ATCAGTATAA
** *
97001326 TTGAAGTAAAGTGTGCTCTGCACCTCTT
1 TTGAAGTAAAGAATGCTCTACACCTCTT
*
97001354 TTGAAGTAATAGAATGCTCTACGCCTC
1 TTGAAGTAA-AGAATGCTCTACACCTC
97001381 ATCAGAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 9 0.41
29 13 0.59
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (28 bp):
TTGAAGTAAAGAATGCTCTACACCTCTT
Found at i:97005919 original size:13 final size:13
Alignment explanation
Indices: 97005901--97005940 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
97005891 GCTCGAAAGG
97005901 GACACGCCCGTGT
1 GACACGCCCGTGT
*
97005914 GACACGCCTGTGT
1 GACACGCCCGTGT
97005927 GACACGCCCGTGT
1 GACACGCCCGTGT
97005940 G
1 G
97005941 CGATTACTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.15, C:0.35, G:0.33, T:0.17
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:97007873 original size:20 final size:20
Alignment explanation
Indices: 97007848--97007892 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
97007838 TGCTTCCTTC
97007848 GCTTTGCTCCTTTGCTGATG
1 GCTTTGCTCCTTTGCTGATG
97007868 GCTTTGCTCCTTTGCTGATG
1 GCTTTGCTCCTTTGCTGATG
97007888 GCTTT
1 GCTTT
97007893 CCAAAGTGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.04, C:0.24, G:0.24, T:0.47
Consensus pattern (20 bp):
GCTTTGCTCCTTTGCTGATG
Found at i:97008552 original size:24 final size:24
Alignment explanation
Indices: 97008483--97008553 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
97008473 CTGTCAGGAG
*
97008483 AGGATTTAGGAGTTGATAAGGCAT
1 AGGATTTAGGAGTTGATAAGGGAT
*
97008507 AGGATTTATGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
97008531 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
97008554 GGAAATCTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.35, C:0.03, G:0.35, T:0.27
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:97009493 original size:31 final size:31
Alignment explanation
Indices: 97009458--97009521 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
97009448 CCTTTTCATG
97009458 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
97009489 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
97009520 TT
1 TT
97009522 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:97009777 original size:24 final size:24
Alignment explanation
Indices: 97009713--97009854 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
97009703 GCTTTATCAT
*
97009713 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
97009738 ATAACTGGGGCA-AAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
97009761 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
97009784 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
97009808 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
97009832 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
97009855 TCACTTCTCA
Statistics
Matches: 111, Mismatches: 3, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
23 40 0.36
24 63 0.57
25 8 0.07
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:97009802 original size:47 final size:48
Alignment explanation
Indices: 97009713--97009853 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
97009703 GCTTTATCAT
*
97009713 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCA-AAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
97009761 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
97009808 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
97009854 TTCACTTCTC
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
46 12 0.14
47 41 0.47
48 34 0.39
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:97009828 original size:71 final size:71
Alignment explanation
Indices: 97009712--97009854 Score: 218
Period size: 71 Copynumber: 2.0 Consensus size: 71
97009702 TGCTTTATCA
*
97009712 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAGCCCTTTCAATAACTGGGGCATAAG
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAGCCCTTTCAATAACTGGGGCATAAG
97009777 CCCTTT
66 CCCTTT
* **
97009783 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCA-AAGCCCTTTCAATAACTGGGGCATA
97009846 AGCCCTTT
64 AGCCCTTT
97009854 T
1 T
97009855 TCACTTCTCA
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
70 21 0.32
71 45 0.68
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (71 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAGCCCTTTCAATAACTGGGGCATAAG
CCCTTT
Found at i:97009927 original size:20 final size:20
Alignment explanation
Indices: 97009902--97009942 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
97009892 TTATGATTAC
97009902 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
97009922 ATCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
97009942 A
1 A
97009943 CCATATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:97010017 original size:25 final size:25
Alignment explanation
Indices: 97009985--97010032 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
97009975 ATACATAAAC
* * *
97009985 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
97010010 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
97010033 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:97014531 original size:30 final size:31
Alignment explanation
Indices: 97014497--97014559 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
97014487 CCTTTTCATG
97014497 TTTCATA-TTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
97014527 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
97014558 TT
1 TT
97014560 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:97014802 original size:24 final size:24
Alignment explanation
Indices: 97014751--97014893 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
97014741 GCTTTATCAT
*
97014751 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
97014776 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
97014800 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
97014823 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
97014847 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
97014871 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
97014894 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Done.