Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 136 of 290
Found at i:42893781 original size:34 final size:34
Alignment explanation
Indices: 42893738--42893813 Score: 143
Period size: 34 Copynumber: 2.2 Consensus size: 34
42893728 GCCATGAGAT
42893738 TTGGCTTGTAAATGTTGGAATATGACCATTTAAG
1 TTGGCTTGTAAATGTTGGAATATGACCATTTAAG
*
42893772 TTGGCTTGTAAATGTTGGAATATGGCCATTTAAG
1 TTGGCTTGTAAATGTTGGAATATGACCATTTAAG
42893806 TTGGCTTG
1 TTGGCTTG
42893814 AATTATATGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.25, C:0.09, G:0.26, T:0.39
Consensus pattern (34 bp):
TTGGCTTGTAAATGTTGGAATATGACCATTTAAG
Found at i:42893980 original size:23 final size:24
Alignment explanation
Indices: 42893949--42893994 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
42893939 TATATTTTGG
* *
42893949 TATGATTTGAGGAGGATGAATTGA
1 TATGATTTGAGAAGCATGAATTGA
42893973 TATG-TTTGAGAAGCATGAATTG
1 TATGATTTGAGAAGCATGAATTG
42893995 GTTGATAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.33, C:0.02, G:0.30, T:0.35
Consensus pattern (24 bp):
TATGATTTGAGAAGCATGAATTGA
Found at i:42896009 original size:37 final size:37
Alignment explanation
Indices: 42895959--42896037 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
42895949 TTATTACGAA
* *
42895959 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
42895996 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
42896033 GTCTT
1 GTCTT
42896038 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:42896234 original size:47 final size:47
Alignment explanation
Indices: 42896156--42896596 Score: 758
Period size: 47 Copynumber: 9.4 Consensus size: 47
42896146 CCCTTCGGGA
* * * * * * *
42896156 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42896203 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42896250 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42896297 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42896344 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42896390 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42896437 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42896484 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42896531 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42896578 CTTATCACATATATACACT
1 CTTATCACATATATACACT
42896597 GTCTTGGCTG
Statistics
Matches: 375, Mismatches: 18, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
46 45 0.12
47 330 0.88
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:42896565 original size:234 final size:234
Alignment explanation
Indices: 42896156--42896596 Score: 783
Period size: 234 Copynumber: 1.9 Consensus size: 234
42896146 CCCTTCGGGA
* * * * * * *
42896156 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATACAC
42896221 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
42896286 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
42896351 CATATATACACTTTCACATTCATCACATCGGCATTAGGC
196 CATATATACACTTTCACATTCATCACATCGGCATTAGGC
* * * *
42896390 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATACAC
42896455 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
42896520 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
42896585 CATATATACACT
196 CATATATACACT
42896597 GTCTTGGCTG
Statistics
Matches: 196, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
234 196 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (234 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
CATATATACACTTTCACATTCATCACATCGGCATTAGGC
Found at i:42910812 original size:46 final size:47
Alignment explanation
Indices: 42910761--42910891 Score: 155
Period size: 46 Copynumber: 2.8 Consensus size: 47
42910751 ATGATTGAGC
42910761 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGGATG-GAACTAG
* * *
42910808 -TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGGAACTA-G
42910853 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGG
42910892 GCGGGTTACA
Statistics
Matches: 71, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
45 3 0.04
46 29 0.41
47 29 0.41
48 2 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (47 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGGAACTAG
Found at i:42910877 original size:47 final size:46
Alignment explanation
Indices: 42910759--42910884 Score: 152
Period size: 47 Copynumber: 2.7 Consensus size: 46
42910749 GGATGATTGA
* *
42910759 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GGATGCGAAT
*
42910807 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGGATGCGAA-T
42910850 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCG
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCG
42910885 CTTATGGGCG
Statistics
Matches: 70, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
45 3 0.04
46 29 0.41
47 30 0.43
48 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGGATGCGAAT
Found at i:42912616 original size:33 final size:34
Alignment explanation
Indices: 42912545--42912617 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
42912535 GCATATCTAT
* * * *
42912545 TACTGAGATGGGCTAAGGCCCTAATGCTTACTGT
1 TACTGAAATGGGCTAAGGCCCAAATGCATACTGA
42912579 TACTGAAATGGGCTAAGG-CCAAACTG-ATACTGA
1 TACTGAAATGGGCTAAGGCCCAAA-TGCATACTGA
42912612 TACTGA
1 TACTGA
42912618 TATTAAAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
33 15 0.44
34 19 0.56
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (34 bp):
TACTGAAATGGGCTAAGGCCCAAATGCATACTGA
Found at i:42928681 original size:47 final size:47
Alignment explanation
Indices: 42928616--42928722 Score: 133
Period size: 47 Copynumber: 2.3 Consensus size: 47
42928606 GAATAATACG
* * * * *
42928616 TTGATTTGGCTACGGGCCATCATATAAGTATTTTGAGAGGAGTTACT
1 TTGATTTGGCTACAGGCCATCATATAAGTACTTAGAGAGAAGTTACC
** * *
42928663 TTGATTTGGCTACAGGCCATGGTATAAGTACTTAGGGATAAGTTACC
1 TTGATTTGGCTACAGGCCATCATATAAGTACTTAGAGAGAAGTTACC
42928710 TTGATTTGGCTAC
1 TTGATTTGGCTAC
42928723 GAGTCATTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (47 bp):
TTGATTTGGCTACAGGCCATCATATAAGTACTTAGAGAGAAGTTACC
Found at i:42930709 original size:21 final size:21
Alignment explanation
Indices: 42930685--42930726 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
42930675 CACATGTAAC
*
42930685 TCCTAAATGTTAGGTGAACAA
1 TCCTAAATATTAGGTGAACAA
*
42930706 TCCTAAATATTGGGTGAACAA
1 TCCTAAATATTAGGTGAACAA
42930727 CTCTTGTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (21 bp):
TCCTAAATATTAGGTGAACAA
Found at i:42937378 original size:50 final size:49
Alignment explanation
Indices: 42937317--42937450 Score: 135
Period size: 40 Copynumber: 2.9 Consensus size: 49
42937307 AGTTTCGATA
42937317 TGTGATCCCATGTAAGACCATGTCAGGGACATGGCATTGGCATCGATATG
1 TGTGATCCCATGTAAGACCAT-TCAGGGACATGGCATTGGCATCGATATG
*
42937367 TGTGATGCCATGT-----C--T--GGGACATGGCATTGGCATCGATATG
1 TGTGATCCCATGTAAGACCATTCAGGGACATGGCATTGGCATCGATATG
* * *
42937407 TATGAACCCATGTAAGACCATATCTA-GGATATGGCATTGGCATC
1 TGTGATCCCATGTAAGACCAT-TC-AGGGACATGGCATTGGCATC
42937451 TCACTATGTG
Statistics
Matches: 68, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
40 35 0.51
42 1 0.01
45 2 0.03
48 1 0.01
50 29 0.43
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
TGTGATCCCATGTAAGACCATTCAGGGACATGGCATTGGCATCGATATG
Found at i:42937418 original size:40 final size:40
Alignment explanation
Indices: 42937334--42937419 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 40
42937324 CCATGTAAGA
* **
42937334 CCATGTCAGGGACATGGCATTGGCATCGATATGTGTGATG
1 CCATGTCAGGGACATGGCATTGGCATCGATATGTATGAAC
*
42937374 CCATGTCTGGGACATGGCATTGGCATCGATATGTATGAAC
1 CCATGTCAGGGACATGGCATTGGCATCGATATGTATGAAC
42937414 CCATGT
1 CCATGT
42937420 AAGACCATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (40 bp):
CCATGTCAGGGACATGGCATTGGCATCGATATGTATGAAC
Found at i:42939226 original size:19 final size:19
Alignment explanation
Indices: 42939204--42939245 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
42939194 AGACACGGGA
42939204 GTGTCCCTAGCACACAGGC
1 GTGTCCCTAGCACACAGGC
*
42939223 GTGTCCCTAGCACACGGGC
1 GTGTCCCTAGCACACAGGC
42939242 GTGT
1 GTGT
42939246 GTTCTATACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.17, C:0.33, G:0.31, T:0.19
Consensus pattern (19 bp):
GTGTCCCTAGCACACAGGC
Found at i:42940427 original size:47 final size:46
Alignment explanation
Indices: 42940187--42940499 Score: 196
Period size: 47 Copynumber: 6.7 Consensus size: 46
42940177 AGTGAAAGCC
* *
42940187 AGTGTAAGA-CATGTTTGGGACAT-GCATC-AGCTTTGAGATGAAAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-C-TTGAGATGATA-CT
* ** * * *
42940233 AGTGTAAGA-CATGCCTGAAACAT-GCATCGGCCTCGAGATATGCATGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGAG--ATG-ATACT
* * *
42940281 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAGATGA-TACT
* * * * * * *
42940329 AGTGTAAGA-CGTGTCTAGGACA-CGTATTGGCCTTGATGATGATAGT
1 AGTGTAAGACCATGTCTGGGACATGGCA-TCGACTTGA-GATGATACT
*
42940375 CAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTAAACT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATG-ATACT
* * * * *
42940423 AGTGTAAAACCATGTCTGGAACATGGCATCGGCTTGACATG-T-GT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGATACT
* *
42940467 CAGTATAAGACC-TGTCTGGGACACGGCATCGAC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGAC
42940500 ATAGATGGAC
Statistics
Matches: 209, Mismatches: 42, Indels: 34
0.73 0.15 0.12
Matches are distributed among these distances:
44 19 0.09
45 9 0.04
46 36 0.17
47 70 0.33
48 50 0.24
49 16 0.08
50 9 0.04
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGATACT
Found at i:42940459 original size:95 final size:92
Alignment explanation
Indices: 42940186--42940501 Score: 299
Period size: 95 Copynumber: 3.4 Consensus size: 92
42940176 TAGTGAAAGC
* * *
42940186 CAGTGTAAGA-CATGTTTGGGACAT-GCATC-AGCTTTGAGATGAAAGCTAGTGTAAGACATGCC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGA-CATTGAGATGAAA-CTAGTGTAAGACATGTC
* *
42940248 TGAAACATGCATCGGCCTCGAGAT-ATGCAT
64 TGGAACATGCATCGGCCTTGAGATGATG--T
* * ** *
42940278 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCTAGTGTAAGACGTGT
1 -C-AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGATGA-AACTAGTGTAAGACATGT
* * *
42940343 CTAGG-ACACGTATTGGCCTTGATGATGATAGT
63 CT-GGAACATGCATCGGCCTTGA-GATGAT-GT
*
42940375 CAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAGATGTAAACTAGTGTAAAACCATGTC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGATG-AAACTAGTGTAAGA-CATGTC
*
42940439 TGGAACATGGCATCGG-CTTGACATG-TGT
64 TGGAACAT-GCATCGGCCTTGAGATGATGT
* *
42940467 CAGTATAAGACC-TGTCTGGGACACGGCATCGACAT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACAT
42940502 AGATGGACGA
Statistics
Matches: 184, Mismatches: 25, Indels: 29
0.77 0.11 0.12
Matches are distributed among these distances:
91 20 0.11
92 14 0.08
93 2 0.01
94 31 0.17
95 60 0.33
96 49 0.27
97 5 0.03
98 2 0.01
99 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (92 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGATGAAACTAGTGTAAGACATGTCTG
GAACATGCATCGGCCTTGAGATGATGT
Found at i:42940560 original size:142 final size:142
Alignment explanation
Indices: 42940279--42940552 Score: 308
Period size: 141 Copynumber: 1.9 Consensus size: 142
42940269 GATATGCATG
* * * * *
42940279 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCTAGTGTAAGACGTGTC
1 CTAGTGTAAAACCATGTCTGGAACATGGCATCGGCATTGACACGAGTGCTAGTATAAGACCTGTC
* * * * * * * * *
42940344 TAGGACACGTATTGGCCTTGATGATGATAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
66 TAGGACACGCATCGACATAGATGACGAGAGTCAGTATAAGACCATGTCTGGGACATGGCATCGAA
42940409 TTGAGATGTAAA
131 TTGAGATGTAAA
* *
42940421 CTAGTGTAAAACCATGTCTGGAACATGGCATCGGC-TTGACATGTGT-C-AGTATAAGACCTGTC
1 CTAGTGTAAAACCATGTCTGGAACATGGCATCGGCATTGACACGAGTGCTAGTATAAGACCTGTC
* *
42940483 TGGGACACGGCATCGACATAGATGGACGAGAGTTAGTATAAGACCATAGT-T-GGACTATGGCAT
66 TAGGACAC-GCATCGACATAGAT-GACGAGAGTCAGTATAAGACCAT-GTCTGGGAC-ATGGCAT
42940546 C-AATTGA
127 CGAATTGA
42940553 ATGATGTACT
Statistics
Matches: 110, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
139 20 0.18
140 19 0.17
141 36 0.33
142 35 0.32
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (142 bp):
CTAGTGTAAAACCATGTCTGGAACATGGCATCGGCATTGACACGAGTGCTAGTATAAGACCTGTC
TAGGACACGCATCGACATAGATGACGAGAGTCAGTATAAGACCATGTCTGGGACATGGCATCGAA
TTGAGATGTAAA
Found at i:42943780 original size:50 final size:50
Alignment explanation
Indices: 42943721--42943864 Score: 243
Period size: 50 Copynumber: 2.9 Consensus size: 50
42943711 AGTTTCGATA
*
42943721 TGTGATCCCATGTAAGACCATGTCGGGGACATGGCATTGGCATCGATATG
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
42943771 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
* * * *
42943821 TGTGAACCCATGTAAGACCATATCTGGGATAGGGCATTGGCATC
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
42943865 TCACTATGTG
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 89 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (50 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
Found at i:42947193 original size:94 final size:92
Alignment explanation
Indices: 42946934--42947202 Score: 266
Period size: 94 Copynumber: 2.9 Consensus size: 92
42946924 GTTATTGTGG
* * * * *
42946934 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACA-TTATGAGAGCCAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GCCTCAGTGATGATAACCAGTGTAAGACCATGT
** *
42946998 CTGGGACATGGCATCGGCATTGAGATGAAT
65 CTGGGACAT-GCATCGGCATCAAAATG-AT
* * *
42947028 GCTAGTGTAAGACATGTTTGGGACATGCATCGCCTC-GGGACG-TAAGCCAGTGTAATG--CATG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGCCTCAGTGATGATAA-CCAGTGTAA-GACCATG
* *
42947089 TTTGGGACATGCATTGGC-TACAAAATG-T
64 TCTGGGACATGCATCGGCAT-CAAAATGAT
42947117 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCAGTGATGATAACCAGTGTAAGACCA
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATC-GCCTCAGTGATGATAACCAGTGTAAGACCA
42947181 TGTCTGGGACATGGCATCGGCA
62 TGTCTGGGACAT-GCATCGGCA
42947203 ACTTGCCCGT
Statistics
Matches: 143, Mismatches: 18, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
88 1 0.01
89 11 0.08
90 14 0.10
91 16 0.11
92 20 0.14
93 28 0.20
94 46 0.32
95 7 0.05
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (92 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGCCTCAGTGATGATAACCAGTGTAAGACCATGTC
TGGGACATGCATCGGCATCAAAATGAT
Found at i:42948010 original size:30 final size:30
Alignment explanation
Indices: 42947974--42948031 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
42947964 TGAGACATGG
* *
42947974 CCGTGTGTCTCAGTCGTGTGGAGGACACGA
1 CCGTGTGTCTCAGCCGTATGGAGGACACGA
42948004 CCGTGTGTCTCAGCCGTATGGAGGACAC
1 CCGTGTGTCTCAGCCGTATGGAGGACAC
42948032 AGCCTAGTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.17, C:0.26, G:0.34, T:0.22
Consensus pattern (30 bp):
CCGTGTGTCTCAGCCGTATGGAGGACACGA
Found at i:42948323 original size:22 final size:21
Alignment explanation
Indices: 42948298--42948343 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
42948288 AGCACGACCA
42948298 TGTTAAAATGGTCACACGGGCG
1 TGTTAAAAT-GTCACACGGGCG
** *
42948320 TGTTACCATTTCACACGGGCG
1 TGTTAAAATGTCACACGGGCG
42948341 TGT
1 TGT
42948344 GACCTGTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (21 bp):
TGTTAAAATGTCACACGGGCG
Found at i:42951409 original size:16 final size:16
Alignment explanation
Indices: 42951388--42951418 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
42951378 AGACTATAAA
42951388 CCATTCCATTTACTTT
1 CCATTCCATTTACTTT
42951404 CCATTCCATTTACTT
1 CCATTCCATTTACTT
42951419 ACTTTCCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.32, G:0.00, T:0.48
Consensus pattern (16 bp):
CCATTCCATTTACTTT
Found at i:42951422 original size:20 final size:20
Alignment explanation
Indices: 42951397--42951459 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
42951387 ACCATTCCAT
42951397 TTACTTTCCATTCCATTTAC
1 TTACTTTCCATTCCATTTAC
*
42951417 TTACTTTCCATTTCATTTAC
1 TTACTTTCCATTCCATTTAC
*
42951437 TTATTTTCCATTCCATTTAC
1 TTACTTTCCATTCCATTTAC
42951457 TTA
1 TTA
42951460 GCATAAGCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.21, C:0.25, G:0.00, T:0.54
Consensus pattern (20 bp):
TTACTTTCCATTCCATTTAC
Found at i:42952912 original size:18 final size:18
Alignment explanation
Indices: 42952889--42952926 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
42952879 AAAAATTACT
42952889 TAACAA-AATACTTATAAA
1 TAACAACAATACTTA-AAA
42952907 TAACAACTAATACTTAAAA
1 TAACAAC-AATACTTAAAA
42952926 T
1 T
42952927 TAATCATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (18 bp):
TAACAACAATACTTAAAA
Found at i:42958526 original size:39 final size:39
Alignment explanation
Indices: 42958481--42958695 Score: 326
Period size: 39 Copynumber: 5.5 Consensus size: 39
42958471 ACAAAGCATG
* * *
42958481 CGGGACTTTATGCCCGGATGTAATA-CAGCAC-AAAGCCTT
1 CGGGAC-TTA-GCCCGGATATAACACCAGCACGAATGCCTT
*
42958520 CAGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
42958559 CGGGACTTAGCCCGGGTATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
42958598 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
42958637 CGGGACTTAGCCCGAATATAACACCAACACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
42958676 CGGGAATTAGCCCGGATATA
1 CGGGACTTAGCCCGGATATA
42958696 TATCTCACAC
Statistics
Matches: 163, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
37 12 0.07
38 9 0.06
39 142 0.87
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:42964687 original size:46 final size:46
Alignment explanation
Indices: 42964637--42964812 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
42964627 TGGTTGAGCA
* * *
42964637 TCCGAAATCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* *** * * * *
42964683 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACCAGGCA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTC-ACTTATGGATACGA-ACG
* *
42964730 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * *
42964776 CCCGAGCTCATTGAGTTGAGTCCAAGTTCACTTATGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
42964813 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
46 69 0.66
47 36 0.34
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:42967756 original size:39 final size:39
Alignment explanation
Indices: 42967678--42967892 Score: 317
Period size: 39 Copynumber: 5.5 Consensus size: 39
42967668 CAAAGCATGT
* * * *
42967678 GGGACTTTAAGCCCGAATGTAATACCAGCAC-AAAGCCTTC
1 GGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTTC
* *
42967718 AGGACTTAGCCCGGATATAACACCGGCACGAATGCCTTC
1 GGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
42967757 GGGACTTAGCCCAGG-TATAACACCAGCACGAATGCCTTC
1 GGGACTTAGCCC-GGATATAACACCAGCACGAATGCCTTC
42967796 GGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
1 GGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
*
42967835 GGGACATAGCCCGGATATAACACCAGCACGAATGCCTTC
1 GGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
*
42967874 GGGAATTAGCCCGGATATA
1 GGGACTTAGCCCGGATATA
42967893 TATCTCACAC
Statistics
Matches: 161, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
38 20 0.12
39 135 0.84
40 6 0.04
ACGTcount: A:0.30, C:0.29, G:0.23, T:0.18
Consensus pattern (39 bp):
GGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
Found at i:42971900 original size:46 final size:46
Alignment explanation
Indices: 42971589--42971898 Score: 406
Period size: 46 Copynumber: 6.7 Consensus size: 46
42971579 TTATCTTTGA
* * * * *
42971589 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
* * *
42971635 TATGTTGCCATGGTATCTTTCAATCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
*
42971681 CATGTTGTCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* *** * ***
42971727 TACACTGCCATGGTATCTTTCAACCATGGTCTTATTAATTTCCCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
*
42971773 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* ** *
42971819 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
42971865 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA
42971899 CATATTTTAT
Statistics
Matches: 227, Mismatches: 36, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
45 4 0.02
46 223 0.98
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
Found at i:42973772 original size:11 final size:11
Alignment explanation
Indices: 42973754--42973812 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
42973744 CTTTATATAC
*
42973754 TAATAAAATGA
1 TAATAAAATAA
*
42973765 TGATAAAATAA
1 TAATAAAATAA
*
42973776 TAATAAAATATCT
1 TAATAAAATA--A
* *
42973789 TATTAAAATAT
1 TAATAAAATAA
42973800 TAATAAAATAA
1 TAATAAAATAA
42973811 TA
1 TA
42973813 TTTATCTAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
11 30 0.77
13 9 0.23
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:42985037 original size:17 final size:17
Alignment explanation
Indices: 42984989--42985039 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
42984979 GTATATTTAA
42984989 ATTTAATTCAAATCA--
1 ATTTAATTCAAATCATT
* *
42985004 ATTTATAGTTTATATCATT
1 ATTTA-A-TTCAAATCATT
42985023 ATTTAATTCAAATCATT
1 ATTTAATTCAAATCATT
42985040 TAATATATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 5 0.18
16 1 0.04
17 16 0.57
18 1 0.04
19 5 0.18
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (17 bp):
ATTTAATTCAAATCATT
Found at i:42985639 original size:27 final size:27
Alignment explanation
Indices: 42985604--42985669 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 27
42985594 AAAAACTAAT
*
42985604 TTTTTAATTTTTAAAATT-TTTATATA
1 TTTTTAATTTTGAAAATTATTTATATA
* *
42985630 TTTTTAAATTATTGAAATTTATTTTTATA
1 TTTTT-AATT-TTGAAAATTATTTATATA
42985659 TTTTTAATTTT
1 TTTTTAATTTT
42985670 AATGAACTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 5 0.15
27 6 0.18
28 11 0.32
29 12 0.35
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (27 bp):
TTTTTAATTTTGAAAATTATTTATATA
Found at i:42987617 original size:23 final size:23
Alignment explanation
Indices: 42987591--42987654 Score: 85
Period size: 22 Copynumber: 2.8 Consensus size: 23
42987581 GTAAATAAAA
* *
42987591 ATGGTGATTCGAATACAATTATC
1 ATGGTGATTCCAATACAATTAGC
*
42987614 ATGGTGATTCCAATATAA-TAGC
1 ATGGTGATTCCAATACAATTAGC
*
42987636 ATGATGATTCCAATACAAT
1 ATGGTGATTCCAATACAAT
42987655 GCAAACTAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 19 0.54
23 16 0.46
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (23 bp):
ATGGTGATTCCAATACAATTAGC
Found at i:42991695 original size:21 final size:21
Alignment explanation
Indices: 42991669--42991731 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
42991659 TGGTGAAAAT
*
42991669 TATTCTTGAGGACTCGAGACA
1 TATTCTTGAGGTCTCGAGACA
*
42991690 TATTCTTGAGGTCTCAAGACA
1 TATTCTTGAGGTCTCGAGACA
* *
42991711 TATTCTTAATGTCTCGAGACA
1 TATTCTTGAGGTCTCGAGACA
42991732 CTAACGAAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (21 bp):
TATTCTTGAGGTCTCGAGACA
Found at i:42992757 original size:28 final size:29
Alignment explanation
Indices: 42992716--42992775 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
42992706 TTAGAGAACT
* * *
42992716 ATCACAATATAACATACATAAAGCGTTGG
1 ATCACAATAAAACACACATAAAGCGTTAG
*
42992745 ATCA-AATAAAACACACATTAAGCGTTAG
1 ATCACAATAAAACACACATAAAGCGTTAG
42992773 ATC
1 ATC
42992776 TCCCACCTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.23
Consensus pattern (29 bp):
ATCACAATAAAACACACATAAAGCGTTAG
Found at i:42995317 original size:25 final size:24
Alignment explanation
Indices: 42995289--42995342 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
42995279 ACTTACAAGC
*
42995289 GCTTCCCGATATAC-AGCTCGTATGA
1 GCTTCCCG-T-TACTAGCTCATATGA
42995314 GCTTCCCGTTACTTAGCTCATATGA
1 GCTTCCCGTTAC-TAGCTCATATGA
42995339 GCTT
1 GCTT
42995343 TCCATTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 3 0.12
24 1 0.04
25 22 0.85
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.33
Consensus pattern (24 bp):
GCTTCCCGTTACTAGCTCATATGA
Found at i:42996555 original size:53 final size:53
Alignment explanation
Indices: 42996498--42996666 Score: 155
Period size: 53 Copynumber: 3.1 Consensus size: 53
42996488 AAGTCAGAGA
42996498 GCTCACAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTCGAAT
1 GCTCACAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTCGAAT
* * * * * * ** * * **
42996551 GCTCACACGGCCTAGCACATGAGCGTGTGG-CTTGGTCGTGTG-ACCTAAGTCAGAGA-
1 GCTCACA-AG-TTTGGACACGGGC-T-TGGACACGGCCGTGTGCCCCTATTTC-GA-AT
42996607 GCTCACAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTCGAAT
1 GCTCACAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTCGAAT
42996660 GCTCACA
1 GCTCACA
42996667 CGGCTTGAGA
Statistics
Matches: 83, Mismatches: 24, Indels: 18
0.66 0.19 0.14
Matches are distributed among these distances:
52 4 0.05
53 26 0.31
54 15 0.18
55 15 0.18
56 19 0.23
57 4 0.05
ACGTcount: A:0.20, C:0.28, G:0.29, T:0.23
Consensus pattern (53 bp):
GCTCACAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTCGAAT
Found at i:42996629 original size:109 final size:109
Alignment explanation
Indices: 42996438--42996670 Score: 466
Period size: 109 Copynumber: 2.1 Consensus size: 109
42996428 GAACAAAACA
42996438 GAATGCTCACACGGCCTAGCACATGAGCGTGTGGCTTGGTCGTGTGACCTAAGTCAGAGAGCTCA
1 GAATGCTCACACGGCCTAGCACATGAGCGTGTGGCTTGGTCGTGTGACCTAAGTCAGAGAGCTCA
42996503 CAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTC
66 CAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTC
42996547 GAATGCTCACACGGCCTAGCACATGAGCGTGTGGCTTGGTCGTGTGACCTAAGTCAGAGAGCTCA
1 GAATGCTCACACGGCCTAGCACATGAGCGTGTGGCTTGGTCGTGTGACCTAAGTCAGAGAGCTCA
42996612 CAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTC
66 CAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTC
42996656 GAATGCTCACACGGC
1 GAATGCTCACACGGC
42996671 TTGAGACACC
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 124 1.00
ACGTcount: A:0.21, C:0.27, G:0.30, T:0.22
Consensus pattern (109 bp):
GAATGCTCACACGGCCTAGCACATGAGCGTGTGGCTTGGTCGTGTGACCTAAGTCAGAGAGCTCA
CAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTC
Found at i:42996702 original size:109 final size:109
Alignment explanation
Indices: 42996438--42996702 Score: 381
Period size: 109 Copynumber: 2.4 Consensus size: 109
42996428 GAACAAAACA
* * ** *
42996438 GAATGCTCACACGGCCTAGCACATGAGCGTGTGGCTTGGTCGTGTGACCTAAGTCAGAGAGCTCA
1 GAATGCTCACACGGCCTAGCACACGAGCGTGTCGCTTGACCATGTGACCTAAGTCAGAGAGCTCA
42996503 CAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTC
66 CAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTC
* * ** *
42996547 GAATGCTCACACGGCCTAGCACATGAGCGTGTGGCTTGGTCGTGTGACCTAAGTCAGAGAGCTCA
1 GAATGCTCACACGGCCTAGCACACGAGCGTGTCGCTTGACCATGTGACCTAAGTCAGAGAGCTCA
42996612 CAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTC
66 CAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTC
* * *
42996656 GAATGCTCACACGGCTTGAG-ACACCG-GTGTGTCTCTTGACCATGTGA
1 GAATGCTCACACGGCCT-AGCACA-CGAGCGTGTCGCTTGACCATGTGA
42996703 GCCACACGGC
Statistics
Matches: 146, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
109 143 0.98
110 3 0.02
ACGTcount: A:0.20, C:0.26, G:0.30, T:0.23
Consensus pattern (109 bp):
GAATGCTCACACGGCCTAGCACACGAGCGTGTCGCTTGACCATGTGACCTAAGTCAGAGAGCTCA
CAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTC
Found at i:42998739 original size:28 final size:27
Alignment explanation
Indices: 42998681--42998736 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
42998671 TAGGAAAACT
* **
42998681 AAGAATAGCTTTTGTGGTGAATTCTGA
1 AAGAATAGCCTTTGTGGCAAATTCTGA
42998708 AAGAATAGCCTTTGTGGCAAATTCTGA
1 AAGAATAGCCTTTGTGGCAAATTCTGA
42998735 AA
1 AA
42998737 AGATTGCCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (27 bp):
AAGAATAGCCTTTGTGGCAAATTCTGA
Found at i:43000004 original size:20 final size:20
Alignment explanation
Indices: 42999963--43000016 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
42999953 CTAAGATAAG
* *
42999963 GTATCAGTGCCTTTAAGGAA
1 GTATCAGTACCTTTAAGCAA
42999983 GTATCAGTACC-TTAAGTCAA
1 GTATCAGTACCTTTAAG-CAA
43000003 GTATC-GATACCTTT
1 GTATCAG-TACCTTT
43000017 TGATTTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 6 0.21
20 21 0.72
21 2 0.07
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (20 bp):
GTATCAGTACCTTTAAGCAA
Found at i:43004495 original size:48 final size:44
Alignment explanation
Indices: 43004413--43004528 Score: 124
Period size: 48 Copynumber: 2.5 Consensus size: 44
43004403 CATTGATTGT
* * *
43004413 TTTATTATTAGATTCAAATTTTGACATATTTTTATCGTAACCAATTAA
1 TTTATTATTAGATTCAAAATTTGACAAATCTTTATC---A-CAATTAA
* *
43004461 TTTATTATTAGATTCAAAATTTGATAAATCTTTATCATAATTAA
1 TTTATTATTAGATTCAAAATTTGACAAATCTTTATCACAATTAA
* **
43004505 CTTATTGCTAGATTCAAAATTTGA
1 TTTATTATTAGATTCAAAATTTGA
43004529 AAGACTTTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
44 27 0.45
45 1 0.02
48 32 0.53
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (44 bp):
TTTATTATTAGATTCAAAATTTGACAAATCTTTATCACAATTAA
Found at i:43004984 original size:21 final size:21
Alignment explanation
Indices: 43004924--43004985 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
43004914 TTGTGTATTT
43004924 TATAAAATTATAACAAAAAAA
1 TATAAAATTATAACAAAAAAA
* * *
43004945 TAT-TATTTA-AATTCTAAAAAA
1 TATAAAATTATAA--CAAAAAAA
*
43004966 TATAAAATTATAGCAAAAAA
1 TATAAAATTATAACAAAAAA
43004986 GTTTATTATA
Statistics
Matches: 30, Mismatches: 7, Indels: 8
0.67 0.16 0.18
Matches are distributed among these distances:
19 2 0.07
20 4 0.13
21 19 0.63
22 4 0.13
23 1 0.03
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.31
Consensus pattern (21 bp):
TATAAAATTATAACAAAAAAA
Found at i:43013340 original size:6 final size:6
Alignment explanation
Indices: 43013331--43013355 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
43013321 CCAAATCCAT
43013331 AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA A
43013356 TTGAAAAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:43018836 original size:25 final size:25
Alignment explanation
Indices: 43018808--43018865 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
43018798 ATGTTGATAT
43018808 GTTTAATTTAATTAATATGGCTTAA
1 GTTTAATTTAATTAATATGGCTTAA
43018833 GTTTAATTTAATTAATATGGCTTAA
1 GTTTAATTTAATTAATATGGCTTAA
*
43018858 ATTTAATT
1 GTTTAATT
43018866 CGTGTTAGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.50
Consensus pattern (25 bp):
GTTTAATTTAATTAATATGGCTTAA
Found at i:43020568 original size:19 final size:21
Alignment explanation
Indices: 43020519--43020568 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 21
43020509 AGAAAATTTT
43020519 TAAT-TAATGATGAATTGAGAA
1 TAATATAATGATGAATT-AGAA
*
43020540 TAATAAAATG-TGAATT-GAA
1 TAATATAATGATGAATTAGAA
*
43020559 TTATATAATG
1 TAATATAATG
43020569 CAATTGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 11 0.44
21 10 0.40
22 4 0.16
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (21 bp):
TAATATAATGATGAATTAGAA
Found at i:43023254 original size:22 final size:22
Alignment explanation
Indices: 43023222--43023268 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
43023212 TGTAAGTTTA
43023222 AAAGTGAAAAA-TGACTAATTTGT
1 AAAGTGAAAAATTGA-TAATTT-T
43023245 AAAGT-AAAAATTGATAATTTT
1 AAAGTGAAAAATTGATAATTTT
43023266 AAA
1 AAA
43023269 CTTAGGGGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 11 0.48
23 8 0.35
ACGTcount: A:0.53, C:0.02, G:0.13, T:0.32
Consensus pattern (22 bp):
AAAGTGAAAAATTGATAATTTT
Found at i:43023254 original size:23 final size:21
Alignment explanation
Indices: 43023222--43023268 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
43023212 TGTAAGTTTA
*
43023222 AAAGTGAAAAATGACTAATTTGT
1 AAAGTAAAAAATGA-TAATTT-T
*
43023245 AAAGTAAAAATTGATAATTTT
1 AAAGTAAAAAATGATAATTTT
43023266 AAA
1 AAA
43023269 CTTAGGGGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 6 0.27
23 12 0.55
ACGTcount: A:0.53, C:0.02, G:0.13, T:0.32
Consensus pattern (21 bp):
AAAGTAAAAAATGATAATTTT
Found at i:43032342 original size:27 final size:27
Alignment explanation
Indices: 43032312--43032387 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
43032302 TGTCTTGATA
** * *
43032312 GACTAACCCATTTTTACTGTCCTAGTG
1 GACTAACTAATTTTTACTGTCCGAGCG
* *
43032339 GACTAACTTATTTTTACTGTCCGGGCG
1 GACTAACTAATTTTTACTGTCCGAGCG
43032366 GACTAACTAATTTTTACTGTCC
1 GACTAACTAATTTTTACTGTCC
43032388 CGATGAACTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (27 bp):
GACTAACTAATTTTTACTGTCCGAGCG
Found at i:43032397 original size:27 final size:27
Alignment explanation
Indices: 43032312--43032399 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
43032302 TGTCTTGATA
** *
43032312 GACTAACCCATTTTTACTGT-CCTAGTG
1 GACTAACTAATTTTTACTGTCCCGA-TG
* * **
43032339 GACTAACTTATTTTTACTGTCCGGGCG
1 GACTAACTAATTTTTACTGTCCCGATG
43032366 GACTAACTAATTTTTACTGTCCCGATG
1 GACTAACTAATTTTTACTGTCCCGATG
*
43032393 AACTAAC
1 GACTAAC
43032400 CTATGTTTAC
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
27 48 0.98
28 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (27 bp):
GACTAACTAATTTTTACTGTCCCGATG
Found at i:43032424 original size:54 final size:54
Alignment explanation
Indices: 43032311--43032424 Score: 122
Period size: 54 Copynumber: 2.1 Consensus size: 54
43032301 TTGTCTTGAT
* * * * * * *
43032311 AGACTAACCCATTTTTACTGTCCTAGTGGACTAACTTATTTTTACTGTCCGGGC
1 AGACTAACCAATTTTTACTGTCCGAGTGAACTAACCTATGTTTACTATCCGAGC
* * *
43032365 GGACTAACTAATTTTTACTGTCCCGA-TGAACTAACCTATGTTTACTATCCTAGC
1 AGACTAACCAATTTTTACTGT-CCGAGTGAACTAACCTATGTTTACTATCCGAGC
43032419 AGACTA
1 AGACTA
43032425 CCCCATGTTT
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
54 45 0.94
55 3 0.06
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (54 bp):
AGACTAACCAATTTTTACTGTCCGAGTGAACTAACCTATGTTTACTATCCGAGC
Found at i:43039512 original size:10 final size:10
Alignment explanation
Indices: 43039499--43039523 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
43039489 AAAAACATAG
43039499 AAAAATTATA
1 AAAAATTATA
43039509 AAAAATTATA
1 AAAAATTATA
43039519 AAAAA
1 AAAAA
43039524 AAATCATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAAATTATA
Found at i:43039535 original size:23 final size:23
Alignment explanation
Indices: 43039499--43039545 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
43039489 AAAAACATAG
*
43039499 AAAAATTATAAAAAATTATAAAA
1 AAAAATCATAAAAAATTATAAAA
* * *
43039522 AAAAATCATTAAAACTTATTAAA
1 AAAAATCATAAAAAATTATAAAA
43039545 A
1 A
43039546 CTTATAATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (23 bp):
AAAAATCATAAAAAATTATAAAA
Found at i:43039617 original size:54 final size:54
Alignment explanation
Indices: 43039547--43039656 Score: 177
Period size: 54 Copynumber: 2.0 Consensus size: 54
43039537 TTATTAAAAC
*
43039547 TTATAATAATTATTAGAAATTAATTAAAAACCATAAAAATTTAG-AAAAAATAAT
1 TTATAAAAATTATTAGAAATTAATTAAAAACCAT-AAAATTTAGTAAAAAATAAT
* *
43039601 TTATAAAAATTGTTAGAAATTAATTAAAAACCATAAAATTTTGTAAAAAATAAT
1 TTATAAAAATTATTAGAAATTAATTAAAAACCATAAAATTTAGTAAAAAATAAT
43039655 TT
1 TT
43039657 TTTTCCAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
53 8 0.15
54 44 0.85
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (54 bp):
TTATAAAAATTATTAGAAATTAATTAAAAACCATAAAATTTAGTAAAAAATAAT
Found at i:43039843 original size:33 final size:33
Alignment explanation
Indices: 43039782--43039859 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 33
43039772 TTTCTAACAA
** * **
43039782 TTTTAATAAATTATTTTTCTAAATTTTTATGGT
1 TTTTAATAAATTATTTTAATAAACTTTTATAAT
43039815 TTTTAATAAATTATTTTAA-ATAACTTTTATAAT
1 TTTTAATAAATTATTTTAATA-AACTTTTATAAT
*
43039848 TTTTAATTAATT
1 TTTTAATAAATT
43039860 TATAATAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 1 0.03
33 37 0.97
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (33 bp):
TTTTAATAAATTATTTTAATAAACTTTTATAAT
Found at i:43039851 original size:9 final size:9
Alignment explanation
Indices: 43039834--43039911 Score: 52
Period size: 9 Copynumber: 8.4 Consensus size: 9
43039824 ATTATTTTAA
*
43039834 ATAACTTTT
1 ATAATTTTT
43039843 ATAA-TTTT
1 ATAATTTTT
43039851 -TAATTAATTT
1 ATAATT--TTT
**
43039861 ATAATAATT
1 ATAATTTTT
*
43039870 ATAATTTTA
1 ATAATTTTT
*
43039879 ATCAATTTTA
1 AT-AATTTTT
*
43039889 ATGACTTTTT
1 AT-AATTTTT
43039899 ATAATTTTT
1 ATAATTTTT
43039908 ATAA
1 ATAA
43039912 AAAAAATTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
7 3 0.05
8 5 0.09
9 24 0.44
10 19 0.35
11 4 0.07
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (9 bp):
ATAATTTTT
Found at i:43039872 original size:27 final size:25
Alignment explanation
Indices: 43039841--43039890 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 25
43039831 TAAATAACTT
*
43039841 TTATAATTTTTAATTAATTTATAATAA
1 TTATAA-TTTTAATCAATTT-TAATAA
43039868 TTATAATTTTAATCAATTTTAAT
1 TTATAATTTTAATCAATTTTAAT
43039891 GACTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 12 0.55
27 6 0.27
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
TTATAATTTTAATCAATTTTAATAA
Found at i:43060851 original size:36 final size:34
Alignment explanation
Indices: 43060677--43061062 Score: 279
Period size: 35 Copynumber: 10.6 Consensus size: 34
43060667 ATGCCGACCT
*
43060677 TTAAAAAGGGTTGGGATAGACCTAGT-TAAGACCAACC
1 TTAAAAA-GGTTGGGATAGA-CT-GTCTAAG-GCAACC
* * *
43060714 TTTGAAAAAGGTTGTGATAAACCTGTCTAAGACAACC
1 -TT-AAAAAGGTTGGGATAGA-CTGTCTAAGGCAACC
* ** * * *
43060751 TTAAAAAGGTCGATATAGTTCTTGTTTAAGGCAACTT
1 TTAAAAAGGTTGGGATAG-AC-TGTCTAAGGCAAC-C
* *
43060788 TTAAAAACGGTTGGGATAGAGCCGTCTAATGCAACC
1 TTAAAAA-GGTTGGGATAGA-CTGTCTAAGGCAACC
* ** *
43060824 TTAAAAAGGTTGGGATCGACATTGTCTAAAACGACC
1 TTAAAAAGGTTGGGATAGAC--TGTCTAAGGCAACC
*
43060860 TATAAAAAAAGGTTGGGATAGACCTATCTAAGGCAACC
1 T-T--AAAAAGGTTGGGATAGA-CTGTCTAAGGCAACC
* *
43060898 TTAAACAGGTTAGGATAGACCATGTCTAAGGCAACC
1 TTAAAAAGGTTGGGATAGA-C-TGTCTAAGGCAACC
* *
43060934 TTTAAAAAAGGTCGGAATAGACTTGTCTAAGGCAACC
1 -TT-AAAAAGGTTGGGATAGAC-TGTCTAAGGCAACC
* *
43060971 TTAAAAAGGTTGGGATAGACCATGTCTAAGGTAACTT
1 TTAAAAAGGTTGGGATAGA-C-TGTCTAAGGCAAC-C
* * *
43061008 TTAAAAAATGTTGGGATAGACCTGTTTAAAGCAACC
1 TT-AAAAAGGTTGGGATAGA-CTGTCTAAGGCAACC
43061044 TTAAAAAGGTTGGGATAGA
1 TTAAAAAGGTTGGGATAGA
43061063 TATTATTTAA
Statistics
Matches: 281, Mismatches: 48, Indels: 41
0.76 0.13 0.11
Matches are distributed among these distances:
34 1 0.00
35 72 0.26
36 61 0.22
37 55 0.20
38 70 0.25
39 21 0.07
40 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (34 bp):
TTAAAAAGGTTGGGATAGACTGTCTAAGGCAACC
Found at i:43060954 original size:147 final size:146
Alignment explanation
Indices: 43060718--43061062 Score: 383
Period size: 147 Copynumber: 2.4 Consensus size: 146
43060708 CCAACCTTTG
* * * * * ** * *
43060718 AAAAAGGTTGTGATAAACCTGTCTAAGACAACCTTAAAAAGG-TCGATATAGTTCTTGTTTAAGG
1 AAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAAAAAGGTTAG-GATAGACCATGTCTAAGG
* * * * * *
43060782 CAACTTTTAAAAACGGTTGGGATAGAGC-CGTCTAATGCAACCTTAAAAAGGTTGGGATCGA-CA
65 CAACCTTTAAAAAAGGTCGGAATAGA-CTCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCA
*
43060845 TTGTCTAAAACG-ACCTATAA
129 -TGTCT--AACGTAACTATAA
* *
43060865 AAAAAGGTTGGGATAGACCTATCTAAGGCAACCTTAAACAGGTTAGGATAGACCATGTCTAAGGC
1 AAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAAAAAGGTTAGGATAGACCATGTCTAAGGC
*
43060930 AACCTTTAAAAAAGGTCGGAATAGACTTGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCATG
66 AACCTTTAAAAAAGGTCGGAATAGACTCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCATG
* * *
43060995 TCTAAGGTAACTTTTA
131 TCTAACGTAACTATAA
* * * *
43061011 AAAAATGTTGGGATAGACCTGTTTAAAGCAACCTTAAAAAGGTTGGGATAGA
1 AAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAAAAAGGTTAGGATAGA
43061063 TATTATTTAA
Statistics
Matches: 166, Mismatches: 28, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
145 3 0.02
146 52 0.31
147 107 0.64
148 4 0.02
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (146 bp):
AAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAAAAAGGTTAGGATAGACCATGTCTAAGGC
AACCTTTAAAAAAGGTCGGAATAGACTCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCATG
TCTAACGTAACTATAA
Found at i:43061086 original size:73 final size:73
Alignment explanation
Indices: 43060677--43061102 Score: 378
Period size: 73 Copynumber: 5.8 Consensus size: 73
43060667 ATGCCGACCT
* * * * * *
43060677 TTAAAAAGGGTTGGGATAGACCTAGT-TAAGACCAACCTTTGAAAAAGGTTGTGATAAACCTGTC
1 TTAAAAA-GGTTGGGATAGACATTGTCTAA-AGCAACCTTTAAAAAAGGTTGGGATAGACCTGTC
43060741 T-AAGACAACC
64 TAAAG-CAACC
* ** * * * * *
43060751 TTAAAAAGGTCGATATAGTTC-TTGTTTAAGGCAACTTTTAAAAACGGTTGGGATAGAGCC-GTC
1 TTAAAAAGGTTGGGATAG-ACATTGTCTAAAGCAACCTTTAAAAAAGGTTGGGATAGA-CCTGTC
*
43060814 TAATGCAACC
64 TAAAGCAACC
* * * * *
43060824 TTAAAAAGGTTGGGATCGACATTGTCTAAAACGACCTATAAAAAAAGGTTGGGATAGACCTATCT
1 TTAAAAAGGTTGGGATAGACATTGTCTAAAGCAACCT-TTAAAAAAGGTTGGGATAGACCTGTCT
*
43060889 AAGGCAACC
65 AAAGCAACC
* * * * * *
43060898 TTAAACAGGTTAGGATAGACCA-TGTCTAAGGCAACCTTTAAAAAAGGTCGGAATAGACTTGTCT
1 TTAAAAAGGTTGGGATAGA-CATTGTCTAAAGCAACCTTTAAAAAAGGTTGGGATAGACCTGTCT
*
43060962 AAGGCAACC
65 AAAGCAACC
* * * * *
43060971 TTAAAAAGGTTGGGATAGACCA-TGTCTAAGGTAACTTTTAAAAAATGTTGGGATAGACCTGTTT
1 TTAAAAAGGTTGGGATAGA-CATTGTCTAAAGCAACCTTTAAAAAAGGTTGGGATAGACCTGTCT
43061035 AAAGCAACC
65 AAAGCAACC
* * * * * *
43061044 TTAAAAAGGTTGGGATAGATATTATTTAAAACAACCTATAAAAAAAGATTGGGATAGAC
1 TTAAAAAGGTTGGGATAGACATTGTCTAAAGCAACCT-TTAAAAAAGGTTGGGATAGAC
43061103 ACGTATAATA
Statistics
Matches: 284, Mismatches: 58, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
72 2 0.01
73 190 0.67
74 90 0.32
75 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.26
Consensus pattern (73 bp):
TTAAAAAGGTTGGGATAGACATTGTCTAAAGCAACCTTTAAAAAAGGTTGGGATAGACCTGTCTA
AAGCAACC
Found at i:43061222 original size:26 final size:25
Alignment explanation
Indices: 43061193--43061252 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 25
43061183 GGAATTGTGC
43061193 TTTAAATACAACTAA-AAAAATTAAAA
1 TTTAAATACAA--AATAAAAATTAAAA
*
43061219 TTTAAAATACAAAATTAAAATTAAAA
1 TTT-AAATACAAAATAAAAATTAAAA
*
43061245 TTAAAATA
1 TTTAAATA
43061253 AAGATTGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 7 0.23
26 15 0.50
27 8 0.27
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (25 bp):
TTTAAATACAAAATAAAAATTAAAA
Found at i:43061223 original size:7 final size:6
Alignment explanation
Indices: 43061209--43061251 Score: 59
Period size: 6 Copynumber: 6.8 Consensus size: 6
43061199 TACAACTAAA
*
43061209 AAAATT AAAATTT AAAATAC AAAATT AAAATT AAAATT AAAAT
1 AAAATT AAAA-TT AAAAT-T AAAATT AAAATT AAAATT AAAAT
43061252 AAAGATTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 22 0.67
7 11 0.33
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (6 bp):
AAAATT
Found at i:43063978 original size:44 final size:46
Alignment explanation
Indices: 43063910--43064032 Score: 189
Period size: 44 Copynumber: 2.7 Consensus size: 46
43063900 ATCAAATAAA
*
43063910 TAATGCATACTTTA-CCTGGGTAAAGTATGCATTATTAGTGAA-T-C
1 TAATACATACTTTATCC-GGGTAAAGTATGCATTATTAGTGAACTGC
*
43063954 TACTACATACTTTATCCGGGTAAAGTATGCATTATTAGTGAATCTGC
1 TAATACATACTTTATCCGGGTAAAGTATGCATTATTAGTGAA-CTGC
43064001 TAATACATACTTTATCCGGGTAAAGTATGCAT
1 TAATACATACTTTATCCGGGTAAAGTATGCAT
43064033 ACATTCTTAA
Statistics
Matches: 72, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
44 37 0.51
45 2 0.03
46 1 0.01
47 32 0.44
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (46 bp):
TAATACATACTTTATCCGGGTAAAGTATGCATTATTAGTGAACTGC
Found at i:43064557 original size:30 final size:30
Alignment explanation
Indices: 43064493--43064557 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
43064483 TTCAAGATCA
* * *
43064493 TAAAATCCTAAACCCTAAAATAATAGACCT
1 TAAACTCCTAAACCATAAAATAATAGACCC
43064523 TAAACTCCTAAACCATAAACCATAA-A-ACCC
1 TAAACTCCTAAACCATAAA--ATAATAGACCC
43064553 TAAAC
1 TAAAC
43064558 CGTAGTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
30 25 0.83
31 1 0.03
32 4 0.13
ACGTcount: A:0.51, C:0.28, G:0.02, T:0.20
Consensus pattern (30 bp):
TAAACTCCTAAACCATAAAATAATAGACCC
Found at i:43064690 original size:22 final size:21
Alignment explanation
Indices: 43064654--43064732 Score: 71
Period size: 22 Copynumber: 4.0 Consensus size: 21
43064644 AATCGCAAAC
43064654 CCATAACACAAAACCCTAAAT
1 CCATAACACAAAACCCTAAAT
*
43064675 CCATAATCATAAAACCCTAAA-
1 CCATAA-CACAAAACCCTAAAT
* *
43064696 --AT--CA-TAAACCCTAAAC
1 CCATAACACAAAACCCTAAAT
43064712 CCATAAACACAAAACCCTAAA
1 CCAT-AACACAAAACCCTAAA
43064733 ACCTTAAACT
Statistics
Matches: 47, Mismatches: 3, Indels: 15
0.72 0.05 0.23
Matches are distributed among these distances:
15 10 0.21
16 2 0.04
18 2 0.04
19 2 0.04
21 8 0.17
22 23 0.49
ACGTcount: A:0.53, C:0.32, G:0.00, T:0.15
Consensus pattern (21 bp):
CCATAACACAAAACCCTAAAT
Found at i:43064706 original size:15 final size:16
Alignment explanation
Indices: 43064679--43064710 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
43064669 CTAAATCCAT
43064679 AATCATAAAACCCTAA
1 AATCATAAAACCCTAA
43064695 AATCAT-AAACCCTAA
1 AATCATAAAACCCTAA
43064710 A
1 A
43064711 CCCATAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.56, C:0.25, G:0.00, T:0.19
Consensus pattern (16 bp):
AATCATAAAACCCTAA
Found at i:43064716 original size:15 final size:15
Alignment explanation
Indices: 43064686--43064732 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
43064676 CATAATCATA
**
43064686 AAACCCTAAAATCAT
1 AAACCCTAAACCCAT
43064701 AAACCCTAAACCCAT
1 AAACCCTAAACCCAT
* *
43064716 AAACACAAAACCC-T
1 AAACCCTAAACCCAT
43064730 AAA
1 AAA
43064733 ACCTTAAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.55, C:0.32, G:0.00, T:0.13
Consensus pattern (15 bp):
AAACCCTAAACCCAT
Found at i:43064741 original size:37 final size:37
Alignment explanation
Indices: 43064664--43064741 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
43064654 CCATAACACA
* * * *
43064664 AAACCCTAAATCCATAATCATAAAACCCTAAAATCAT
1 AAACCCTAAACCCATAAACACAAAACCCTAAAACCAT
*
43064701 AAACCCTAAACCCATAAACACAAAACCCTAAAACCTT
1 AAACCCTAAACCCATAAACACAAAACCCTAAAACCAT
43064738 AAAC
1 AAAC
43064742 TATATAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.17
Consensus pattern (37 bp):
AAACCCTAAACCCATAAACACAAAACCCTAAAACCAT
Found at i:43065272 original size:132 final size:132
Alignment explanation
Indices: 43065035--43065531 Score: 798
Period size: 132 Copynumber: 3.8 Consensus size: 132
43065025 CTGACAAGTG
* * *
43065035 TATCCCAACACTTAGGAAAGTGTCACCCCAAAACTGTCGTCTTAGGACTAGACAAAAGCCAACTC
1 TATCCCAACACTTAGGAAAGTGTCACCACAAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTC
* *
43065100 TTATTCAAGCGTTGTCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTAG
66 TTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATAG
43065165 TC
131 TC
** ** * *
43065167 TATCCCAACACTTATAAAAGTGTTGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAATTC
1 TATCCCAACACTTAGGAAAGTGTCACCACAAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTC
43065232 TTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATAG
66 TTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATAG
43065297 TC
131 TC
** *
43065299 TATCCCAACACTTAGGAAAGTGTCACCACAAAAGTGTTTTCTTAGGACTACACAGAAGCCAACTC
1 TATCCCAACACTTAGGAAAGTGTCACCACAAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTC
* *
43065364 TTATTCAAGCGTTGCCTTAGGCATACATATCCTAACCCTTATACAAAGAATTGGCCAAAGCATAG
66 TTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATAG
43065429 TC
131 TC
** *
43065431 TATCCCAACACTTAGGAAA-TGTCGTCACAAAAGTGTCGTCTTAGGACTACACAAAAACCAACTC
1 TATCCCAACACTTAGGAAAGTGTCACCACAAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTC
* *
43065495 TTATTCAAGCGTTGCTTTAGGCATACATATACCAACC
66 TTATTCAAGCGTTGCCTTAGGCATACATATCCCAACC
43065532 TTTAGGAAAA
Statistics
Matches: 336, Mismatches: 29, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
131 73 0.22
132 263 0.78
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.25
Consensus pattern (132 bp):
TATCCCAACACTTAGGAAAGTGTCACCACAAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTC
TTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATAG
TC
Found at i:43065621 original size:91 final size:90
Alignment explanation
Indices: 43065431--43065622 Score: 260
Period size: 91 Copynumber: 2.1 Consensus size: 90
43065421 AAGCATAGTC
**
43065431 TATCCCAACACTTAGGAAATGTCGTCACAAAAGTGTCGTCTTAGGACTACACAAAAACCAACTCT
1 TATCCCAAC-CTTAGGAAATGTCACCACAAAAGTGTCGTCTTAGGACTACACAAAAACCAACTCT
*
43065496 TATTCAAGCGTTGCTTTAGGCATACA
65 TATTCAAGCGTTGCTTTAGACATACA
* * **
43065522 TATACCAACCTTTAGGAAAATGTCACCACAAAAGTGTTGTCTTAGGACTACAC-AAAGGCAACTC
1 TATCCCAACC-TTAGG-AAATGTCACCACAAAAGTGTCGTCTTAGGACTACACAAAAACCAACTC
* *
43065586 TTATTTAAGCGTTGCTTTAGACATGCA
64 TTATTCAAGCGTTGCTTTAGACATACA
*
43065613 TCTCCCAACC
1 TATCCCAACC
43065623 CTTATACAAA
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
90 1 0.01
91 54 0.61
92 33 0.38
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.27
Consensus pattern (90 bp):
TATCCCAACCTTAGGAAATGTCACCACAAAAGTGTCGTCTTAGGACTACACAAAAACCAACTCTT
ATTCAAGCGTTGCTTTAGACATACA
Found at i:43067659 original size:35 final size:35
Alignment explanation
Indices: 43067620--43067695 Score: 102
Period size: 35 Copynumber: 2.2 Consensus size: 35
43067610 AATTTAATTT
43067620 ATATTTT-ATTATTTGATT-TAAATATAATTTGTAAA
1 ATATTTTGA-TATTTGATTATAAATATAATTT-TAAA
* *
43067655 ATATTTTGATATTTTATTATGAATATAATTTTAAA
1 ATATTTTGATATTTGATTATAAATATAATTTTAAA
43067690 ATATTT
1 ATATTT
43067696 AAATTTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
35 25 0.68
36 12 0.32
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (35 bp):
ATATTTTGATATTTGATTATAAATATAATTTTAAA
Found at i:43067917 original size:21 final size:21
Alignment explanation
Indices: 43067893--43067945 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
43067883 CATTATTTCT
* *
43067893 AATCTCACCGCTATAGTATCC
1 AATCTCACCGCTACAGTAACC
*
43067914 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
43067935 AATCTCACCGC
1 AATCTCACCGC
43067946 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:43068269 original size:70 final size:70
Alignment explanation
Indices: 43068095--43068345 Score: 308
Period size: 70 Copynumber: 3.6 Consensus size: 70
43068085 TAGCTGACGA
* * * * * * * *
43068095 TTAAGGCTTGCAAGTTCAATATCGCAGCTTCCAAAATAGTTAGCGCAAGCTTATGC-TCTCAGCT
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAATAGTTAGCGCGAGTTTACGCTTC-CAACT
*
43068159 GGTATC
65 AGTATC
* * *
43068165 TTAA-GCTTGCAGGTTCAATACCACAGCCTCCAAAATAGTTAGCTCGAGTTTACGCTTCCAACTA
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAATAGTTAGCGCGAGTTTACGCTTCCAACTA
43068229 GTATC
66 GTATC
** * *
43068234 TTAAGGCTCGCAGGTTCAATACCTTAGCCTCCAAAATAGTTAGCGCGAGTCTACGCTCCCAACTA
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAATAGTTAGCGCGAGTTTACGCTTCCAACTA
43068299 GTATC
66 GTATC
* * *
43068304 TTAATGCTCGCAGGTTCAATACCGTAGCCTCCAAAACAGTTA
1 TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAATAGTTA
43068346 TGTAACAGCC
Statistics
Matches: 160, Mismatches: 19, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
69 56 0.35
70 104 0.65
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (70 bp):
TTAAGGCTCGCAGGTTCAATACCGCAGCCTCCAAAATAGTTAGCGCGAGTTTACGCTTCCAACTA
GTATC
Found at i:43068730 original size:83 final size:83
Alignment explanation
Indices: 43068591--43068757 Score: 325
Period size: 83 Copynumber: 2.0 Consensus size: 83
43068581 TATGAGGTCC
43068591 TTATTATGTTATTAGACCATTGATATATTAAATGGACATTATTGGACATCCATTATAAGTTTAAA
1 TTATTATGTTATTAGACCATTGATATATTAAATGGACATTATTGGACATCCATTATAAGTTTAAA
43068656 TGTTTATTATATTAAGGT
66 TGTTTATTATATTAAGGT
*
43068674 TTATTATGTTATTAGACCATTGATATATTAAATGGACATTGTTGGACATCCATTATAAGTTTAAA
1 TTATTATGTTATTAGACCATTGATATATTAAATGGACATTATTGGACATCCATTATAAGTTTAAA
43068739 TGTTTATTATATTAAGGT
66 TGTTTATTATATTAAGGT
43068757 T
1 T
43068758 AAAATGGTAA
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (83 bp):
TTATTATGTTATTAGACCATTGATATATTAAATGGACATTATTGGACATCCATTATAAGTTTAAA
TGTTTATTATATTAAGGT
Found at i:43069755 original size:42 final size:42
Alignment explanation
Indices: 43069645--43069778 Score: 146
Period size: 44 Copynumber: 3.1 Consensus size: 42
43069635 TCCTGATATA
* * *
43069645 TGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATTG-ATT
1 TGATTTTGTGTAAGACCATGTCTGGGACATAGGCATTGTATT
* *
43069686 TGAAATTTATGTGTAAGACCATGTCTGGGACATCGGCATCGTATT
1 TG--ATTT-TGTGTAAGACCATGTCTGGGACATAGGCATTGTATT
* *
43069731 TGATTTTGTGTAAGACTC-TCTCTGGGACAGAGGCATTGATATT
1 TGATTTTGTGTAAGAC-CATGTCTGGGACATAGGCATTG-TATT
43069774 TGATT
1 TGATT
43069779 CCATGTAAGA
Statistics
Matches: 79, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
41 2 0.03
42 26 0.33
43 18 0.23
44 28 0.35
45 5 0.06
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (42 bp):
TGATTTTGTGTAAGACCATGTCTGGGACATAGGCATTGTATT
Found at i:43072107 original size:279 final size:276
Alignment explanation
Indices: 43071467--43072455 Score: 854
Period size: 279 Copynumber: 3.5 Consensus size: 276
43071457 CGTAGCCTCC
* * * * * * * * * * *
43071467 AAAATAATTAGCGCGAGCCTACGCTCCTAGTTGATATCTTAAGGCTTGTAGGTTCAATACTATAG
1 AAAACAATTAGCGTGAGCCTACACACCCAGCTGATATCCTAAAGCTCGCAGGTTCAATACTACAG
* * * *
43071532 CCTCCAAAACAGTTAACGC-CG-GCTTACGCTCTCAGATGGTATCATAAGGCTCGTAGGTTCAAT
66 CCTCCAAAACAGTT-A-GCACGAGCTTACGCTCTCAGCTGATATCTTAAGGCTCAT-GGTTCAAT
* * * * * *
43071595 ACTGCAACCTCCAAAACTGGTTAGCATGAGCATCTGATCCTAGCTGGTATCTTAAGGCTCGCAGG
128 ACCGCAACCTCCAAAA-TAGTTAACGTGAGCATATGATCCCAGCTGGTATCTTAAGGCTCGCAGG
* * * *
43071660 CTCAATACCACAGCCTCCAAAATAGTTAGCCCAAGCCTACGCTCCCAGA-TAGTATCCTAAAGCT
192 TTCAATACCGCAGCCTCCAAAATAGTTAGCCGAA-CCTACGCTCCCA-ACTGGTATCCT-AAGCT
* * *
43071724 CGCATGTTCAATACTACAACCTCT
254 CGCAAGTTCAATACCACAA-CTTT
* * * * * **
43071748 AAAACAGTTAGCGTGAGCCTATACTCCCAGCTGATATCCTAAGGCTCACAGGTTCAATACCGCAG
1 AAAACAATTAGCGTGAGCCTACACACCCAGCTGATATCCTAAAGCTCGCAGGTTCAATACTACAG
* * * * *
43071813 TCTCCAAAATAGTTAGCATGAGCCTACGCTCTCAGCTGATATCTTAAGGCTCAATGGTTTAATAC
66 CCTCCAAAACAGTTAGCACGAGCTTACGCTCTCAGCTGATATCTTAAGGCTC-ATGGTTCAATAC
* * * * * * * * *
43071878 CGTAACCTTCAAAATAGTTAACGTGAGCTTGTGCTCCCAGTTAGTATCTTAGGGCTCACAGGTTC
130 CGCAACCTCCAAAATAGTTAACGTGAGCATATGATCCCAGCTGGTATCTTAAGGCTCGCAGGTTC
* * * *
43071943 AATACCGCAGCCTCCAAAACAGTTAGCGCGAACCTACTCTCCCAACTGGTATCCTGAGTCTCGTA
195 AATACCGCAGCCTCCAAAATAGTTAGC-CGAACCTACGCTCCCAACTGGTATCCTAAG-CTCGCA
*
43072008 GGTTCAATACCACAACTTT
258 AGTTCAATACCACAACTTT
* * * *
43072027 AAAATAATTAGCGTGAGCCTACGCACCCAGTTGATATCCTAAAGCTCGTAGGTTCAATACTACAG
1 AAAACAATTAGCGTGAGCCTACACACCCAGCTGATATCCTAAAGCTCGCAGGTTCAATACTACAG
* * * * * * * * ** * **
43072092 CCTCCAAAATAGTTAGCGCAAACTTACACTCTCATCTGGTATTTTAAGGCTCGCGGGTCCAATGT
66 CCTCCAAAACAGTTAGCACGAGCTTACGCTCTCAGCTGATATCTTAAGGCTC-ATGGTTCAATAC
* * * * * *
43072157 CACAGCCTCCAAAATAGTTAACGCGAGCCTACGTTCCCAGCTGGTATCTTAAGGCTCGCAGGTTC
130 CGCAACCTCCAAAATAGTTAACGTGAGCATATGATCCCAGCTGGTATCTTAAGGCTCGCAGGTTC
* ** * * * * *
43072222 AATACCGCAACCTCCAAAATAGTTAGTATGAGCTTACGCTCCCAACTGGTATCTTAAAACTCACA
195 AATACCGCAGCCTCCAAAATAGTTAG-CCGAACCTACGCTCCCAACTGGTATCCT-AAGCTCGCA
* ** * *
43072287 AATTCAATACCGTAGCTTC
258 AGTTCAATACCACAACTTT
* * *
43072306 AAAACAGTTAGCGTGAGCCTACACTA-CCAGCTGGTATCCTAAAGCTCGCAGGTTCAATA-TCGC
1 AAAACAATTAGCGTGAGCCTACAC-ACCCAGCTGATATCCTAAAGCTCGCAGGTTCAATACT-AC
* * * * * * * * *
43072369 AACATCCAAAACAGTTAGTACGATCTTACGTTCCCAGCTAATATCTTAAGGCTCGTACGTTCAAT
64 AGCCTCCAAAACAGTTAGCACGAGCTTACGCTCTCAGCTGATATCTTAAGGCTCAT-GGTTCAAT
* *
43072434 ACCACAGCCTCCAAAATAGTTA
128 ACCGCAACCTCCAAAATAGTTA
43072456 GTGTCAACTT
Statistics
Matches: 563, Mismatches: 134, Indels: 24
0.78 0.19 0.03
Matches are distributed among these distances:
278 1 0.00
279 343 0.61
280 105 0.19
281 113 0.20
282 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (276 bp):
AAAACAATTAGCGTGAGCCTACACACCCAGCTGATATCCTAAAGCTCGCAGGTTCAATACTACAG
CCTCCAAAACAGTTAGCACGAGCTTACGCTCTCAGCTGATATCTTAAGGCTCATGGTTCAATACC
GCAACCTCCAAAATAGTTAACGTGAGCATATGATCCCAGCTGGTATCTTAAGGCTCGCAGGTTCA
ATACCGCAGCCTCCAAAATAGTTAGCCGAACCTACGCTCCCAACTGGTATCCTAAGCTCGCAAGT
TCAATACCACAACTTT
Found at i:43072174 original size:349 final size:348
Alignment explanation
Indices: 43071420--43072456 Score: 830
Period size: 349 Copynumber: 3.0 Consensus size: 348
43071410 CGGGCCTAAG
** ** ** * * *
43071420 CTCCCAGCTGATATCCTAAGGCTCATTGGTTTAATACCGTAGCCTCCAAAATAATTAGCGCGAGC
1 CTCCCAGCTGATATCCTAAGGCTCACAGGTCCAATACCACAGCCTCCAAAATAGTTAACACGAGC
* * * * *** * *
43071485 CTACGCTCCTAGTTGATATCTTAAGGCTTGTAGGTTCAATACTATAGCCTCCAAAACAGTTAACG
66 CTACGCTCCCAGCTGATATCTTAAGGCTCGAAGGTTCAATACCGCAACCTCCAAAATAGTTAAC-
** * * * ** ** ** * *
43071550 CCG-GCTTACGCTCTCAGA-TGGTATCATAAGGCTCGTAGGTTCAATACTGCAACCTCCAAAACT
130 ATGAGCTTACGCTCCCA-ACTAGTATCTTAAAACTCACAAATTCAATACCGC-AGCTCCAAAAC-
* ** * * * * * * * *
43071613 GGTTAGCATG-AGC-A-TCTGATCCTAGCTGGTATCTTAAGGCTCGCAGGCTCAATACCACAGCC
192 AGTTAGCGCGAACCTACACT-A-CC-AACTGGTATCCTAAAGCTCGCAGGTTCAATACCACAACA
* * * * * *
43071675 TCCAAAATAGTTAGCCCAAGCCTACGCTCCCAGATAGTATCCTAAAGCTCGCATGTTCAATACTA
254 TCCAAAACAATTAGCACGAGCCTACGCTCCCAGATA-TATCCTAAAGCTCGTACGTTCAATACTA
* * * ** * *
43071740 CAACCTCTAAAACAGTTAGCGTGAGCCTATA
318 CAGCCTCCAAAATAGTTAGCGCAAACCTACA
* * * * *
43071771 CTCCCAGCTGATATCCTAAGGCTCACAGGTTCAATACCGCAGTCTCCAAAATAGTTAGCATGAGC
1 CTCCCAGCTGATATCCTAAGGCTCACAGGTCCAATACCACAGCCTCCAAAATAGTTAACACGAGC
* * * *
43071836 CTACGCTCTCAGCTGATATCTTAAGGCTC-AATGGTTTAATACCGTAACCTTCAAAATAGTTAAC
66 CTACGCTCCCAGCTGATATCTTAAGGCTCGAA-GGTTCAATACCGCAACCTCCAAAATAGTTAAC
* ** ** *** **
43071900 GTGAGCTTGTGCTCCCAGTTAGTATCTTAGGGCTCACAGGTTCAATACCGCAGCCTCCAAAACAG
130 ATGAGCTTACGCTCCCAACTAGTATCTTAAAACTCACAAATTCAATACCGCAG-CTCCAAAACAG
* * * * **
43071965 TTAGCGCGAACCTACTCTCCCAACTGGTATCCT-GAGTCTCGTAGGTTCAATACCACAAC-TTTA
194 TTAGCGCGAACCTACACTACCAACTGGTATCCTAAAG-CTCGCAGGTTCAATACCACAACATCCA
* ** * * *
43072028 AAATAATTAGCGTGAGCCTACGCACCCAGTTGATATCCTAAAGCTCGTAGGTTCAATACTACAGC
258 AAACAATTAGCACGAGCCTACGCTCCCAGAT-ATATCCTAAAGCTCGTACGTTCAATACTACAGC
*
43072093 CTCCAAAATAGTTAGCGCAAACTTACA
322 CTCCAAAATAGTTAGCGCAAACCTACA
* * * ** * * ** *
43072120 CTCTCATCTGGTATTTTAAGGCTCGCGGGTCCAATGTCACAGCCTCCAAAATAGTTAACGCGAGC
1 CTCCCAGCTGATATCCTAAGGCTCACAGGTCCAATACCACAGCCTCCAAAATAGTTAACACGAGC
* * * **
43072185 CTACGTTCCCAGCTGGTATCTTAAGGCTCGCAGGTTCAATACCGCAACCTCCAAAATAGTTAGTA
66 CTACGCTCCCAGCTGATATCTTAAGGCTCGAAGGTTCAATACCGCAACCTCCAAAATAGTTAACA
* * *
43072250 TGAGCTTACGCTCCCAACTGGTATCTTAAAACTCACAAATTCAATACCGTAGCTTCAAAACAGTT
131 TGAGCTTACGCTCCCAACTAGTATCTTAAAACTCACAAATTCAATACCGCAGCTCCAAAACAGTT
* * * * *
43072315 AGCGTGAGCCTACACTACCAGCTGGTATCCTAAAGCTCGCAGGTTCAATATCGCAACATCCAAAA
196 AGCGCGAACCTACACTACCAACTGGTATCCTAAAGCTCGCAGGTTCAATACCACAACATCCAAAA
* * * * * * * * *
43072380 CAGTTAGTACGATCTTACGTTCCCAGCTAATATCTTAAGGCTCGTACGTTCAATACCACAGCCTC
261 CAATTAGCACGAGCCTACGCTCCCAGAT-ATATCCTAAAGCTCGTACGTTCAATACTACAGCCTC
43072445 CAAAATAGTTAG
325 CAAAATAGTTAG
43072457 TGTCAACTTA
Statistics
Matches: 549, Mismatches: 125, Indels: 26
0.78 0.18 0.04
Matches are distributed among these distances:
348 57 0.10
349 290 0.53
350 41 0.07
351 157 0.29
352 1 0.00
353 3 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (348 bp):
CTCCCAGCTGATATCCTAAGGCTCACAGGTCCAATACCACAGCCTCCAAAATAGTTAACACGAGC
CTACGCTCCCAGCTGATATCTTAAGGCTCGAAGGTTCAATACCGCAACCTCCAAAATAGTTAACA
TGAGCTTACGCTCCCAACTAGTATCTTAAAACTCACAAATTCAATACCGCAGCTCCAAAACAGTT
AGCGCGAACCTACACTACCAACTGGTATCCTAAAGCTCGCAGGTTCAATACCACAACATCCAAAA
CAATTAGCACGAGCCTACGCTCCCAGATATATCCTAAAGCTCGTACGTTCAATACTACAGCCTCC
AAAATAGTTAGCGCAAACCTACA
Found at i:43072416 original size:139 final size:139
Alignment explanation
Indices: 43072166--43072417 Score: 351
Period size: 139 Copynumber: 1.8 Consensus size: 139
43072156 TCACAGCCTC
* ** * * *
43072166 CAAAATAGTTAACGCGAGCCTACGTTCCCAGCTGGTATCTTAAGGCTCGCAGGTTCAATACCGCA
1 CAAAACAGTTAACGCGAGCCTACACTACCAGCTGGTATCCTAAAGCTCGCAGGTTCAATACCGCA
* * * **
43072231 ACCTCCAAAATAGTTAGTATGAGCTTACGCTCCCAACTGGTATCTTAAAACTCACAAATTCAATA
66 ACATCCAAAACAGTTAGTACGAGCTTACGCTCCCAACTAATATCTTAAAACTCACAAATTCAATA
43072296 CCGTAGCTT
131 CCGTAGCTT
* * *
43072305 CAAAACAGTTAGCGTGAGCCTACACTACCAGCTGGTATCCTAAAGCTCGCAGGTTCAATATCGCA
1 CAAAACAGTTAACGCGAGCCTACACTACCAGCTGGTATCCTAAAGCTCGCAGGTTCAATACCGCA
* * *
43072370 ACATCCAAAACAGTTAGTACGATCTTACGTTCCCAGCTAATATCTTAA
66 ACATCCAAAACAGTTAGTACGAGCTTACGCTCCCAACTAATATCTTAA
43072418 GGCTCGTACG
Statistics
Matches: 96, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
139 96 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (139 bp):
CAAAACAGTTAACGCGAGCCTACACTACCAGCTGGTATCCTAAAGCTCGCAGGTTCAATACCGCA
ACATCCAAAACAGTTAGTACGAGCTTACGCTCCCAACTAATATCTTAAAACTCACAAATTCAATA
CCGTAGCTT
Found at i:43072457 original size:70 final size:70
Alignment explanation
Indices: 43071402--43072456 Score: 761
Period size: 70 Copynumber: 15.1 Consensus size: 70
43071392 CCAAAATAGA
* * * * *** * **
43071402 AGTTAGCGCGGGCCTAAGCTCCCAGCTGATATCCTAAGGCTCATTGGTTTAATACCGTAGCCTCC
1 AGTTAGCGCGAGCCTACGCTCCCAGCTGGTATCTTAAGGCTCGCAGGTTCAATACCACAGCCTCC
43071467 AAAAT
66 AAAAT
* * * * * * * *
43071472 AATTAGCGCGAGCCTACGCTCCTAGTTGATATCTTAAGGCTTGTAGGTTCAATACTATAGCCTCC
1 AGTTAGCGCGAGCCTACGCTCCCAGCTGGTATCTTAAGGCTCGCAGGTTCAATACCACAGCCTCC
*
43071537 AAAAC
66 AAAAT
* * * * * * ** *
43071542 AGTTAACGCCG-GCTTACGCTCTCAGATGGTATCATAAGGCTCGTAGGTTCAATACTGCAACCTC
1 AGTTAGCG-CGAGCCTACGCTCCCAGCTGGTATCTTAAGGCTCGCAGGTTCAATACCACAGCCTC
43071606 CAAAACT
65 CAAAA-T
* ** * * * *
43071613 GGTTAGCATGAGCAT-CTGATCCTAGCTGGTATCTTAAGGCTCGCAGGCTCAATACCACAGCCTC
1 AGTTAGCGCGAGCCTAC-GCTCCCAGCTGGTATCTTAAGGCTCGCAGGTTCAATACCACAGCCTC
43071677 CAAAAT
65 CAAAAT
* * * * * * * * * *
43071683 AGTTAGCCCAAGCCTACGCTCCCAGATAGTATCCTAAAGCTCGCATGTTCAATACTACAACCTCT
1 AGTTAGCGCGAGCCTACGCTCCCAGCTGGTATCTTAAGGCTCGCAGGTTCAATACCACAGCCTCC
*
43071748 AAAAC
66 AAAAT
* ** * * * * *
43071753 AGTTAGCGTGAGCCTATACTCCCAGCTGATATCCTAAGGCTCACAGGTTCAATACCGCAGTCTCC
1 AGTTAGCGCGAGCCTACGCTCCCAGCTGGTATCTTAAGGCTCGCAGGTTCAATACCACAGCCTCC
43071818 AAAAT
66 AAAAT
** * * * * ** * *
43071823 AGTTAGCATGAGCCTACGCTCTCAGCTGATATCTTAAGGCTC-AATGGTTTAATACCGTAACCTT
1 AGTTAGCGCGAGCCTACGCTCCCAGCTGGTATCTTAAGGCTCGCA-GGTTCAATACCACAGCCTC
43071887 CAAAAT
65 CAAAAT
* * * ** * * * * *
43071893 AGTTAACGTGAGCTTGTGCTCCCAGTTAGTATCTTAGGGCTCACAGGTTCAATACCGCAGCCTCC
1 AGTTAGCGCGAGCCTACGCTCCCAGCTGGTATCTTAAGGCTCGCAGGTTCAATACCACAGCCTCC
*
43071958 AAAAC
66 AAAAT
* * * * * * * * **
43071963 AGTTAGCGCGAACCTACTCTCCCAACTGGTATCCTGAGTCTCGTAGGTTCAATACCACA-ACTTT
1 AGTTAGCGCGAGCCTACGCTCCCAGCTGGTATCTTAAGGCTCGCAGGTTCAATACCACAGCCTCC
43072027 AAAAT
66 AAAAT
* * * * * * * * *
43072032 AATTAGCGTGAGCCTACGCACCCAGTTGATATCCTAAAGCTCGTAGGTTCAATACTACAGCCTCC
1 AGTTAGCGCGAGCCTACGCTCCCAGCTGGTATCTTAAGGCTCGCAGGTTCAATACCACAGCCTCC
43072097 AAAAT
66 AAAAT
* * * * * * * * * **
43072102 AGTTAGCGCAAACTTACACTCTCATCTGGTATTTTAAGGCTCGCGGGTCCAATGTCACAGCCTCC
1 AGTTAGCGCGAGCCTACGCTCCCAGCTGGTATCTTAAGGCTCGCAGGTTCAATACCACAGCCTCC
43072167 AAAAT
66 AAAAT
* * * *
43072172 AGTTAACGCGAGCCTACGTTCCCAGCTGGTATCTTAAGGCTCGCAGGTTCAATACCGCAACCTCC
1 AGTTAGCGCGAGCCTACGCTCCCAGCTGGTATCTTAAGGCTCGCAGGTTCAATACCACAGCCTCC
43072237 AAAAT
66 AAAAT
*** * * ** * ** ** *
43072242 AGTTAGTATGAGCTTACGCTCCCAACTGGTATCTTAAAACTCACAAATTCAATACCGTAG-CTTC
1 AGTTAGCGCGAGCCTACGCTCCCAGCTGGTATCTTAAGGCTCGCAGGTTCAATACCACAGCCTCC
*
43072306 AAAAC
66 AAAAT
* * * * * * * * *
43072311 AGTTAGCGTGAGCCTACACTACCAGCTGGTATCCTAAAGCTCGCAGGTTCAATATCGCAACATCC
1 AGTTAGCGCGAGCCTACGCTCCCAGCTGGTATCTTAAGGCTCGCAGGTTCAATACCACAGCCTCC
*
43072376 AAAAC
66 AAAAT
** * * * ** * *
43072381 AGTTAGTACGATCTTACGTTCCCAGCTAATATCTTAAGGCTCGTACGTTCAATACCACAGCCTCC
1 AGTTAGCGCGAGCCTACGCTCCCAGCTGGTATCTTAAGGCTCGCAGGTTCAATACCACAGCCTCC
43072446 AAAAT
66 AAAAT
43072451 AGTTAG
1 AGTTAG
43072457 TGTCAACTTA
Statistics
Matches: 752, Mismatches: 224, Indels: 18
0.76 0.23 0.02
Matches are distributed among these distances:
69 107 0.14
70 591 0.79
71 54 0.07
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (70 bp):
AGTTAGCGCGAGCCTACGCTCCCAGCTGGTATCTTAAGGCTCGCAGGTTCAATACCACAGCCTCC
AAAAT
Found at i:43078459 original size:19 final size:19
Alignment explanation
Indices: 43078401--43078461 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
43078391 ATAGGACAAC
* *
43078401 AAAATTATTAAAAA-CAGT
1 AAAATTATTAAAAATAATT
* **
43078419 AAATATTATTTAAAATGTTT
1 AAA-ATTATTAAAAATAATT
43078439 AAAATTATTAAAAATAATT
1 AAAATTATTAAAAATAATT
43078458 AAAA
1 AAAA
43078462 ATTTGTAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
18 3 0.09
19 27 0.79
20 4 0.12
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (19 bp):
AAAATTATTAAAAATAATT
Found at i:43080272 original size:12 final size:12
Alignment explanation
Indices: 43080254--43080286 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
43080244 ATAATAGTGT
43080254 GCGTGGCCGTGG
1 GCGTGGCCGTGG
*
43080266 TCGTGGCCGTGG
1 GCGTGGCCGTGG
43080278 GCGTGGCCG
1 GCGTGGCCG
43080287 CAGACATAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.27, G:0.55, T:0.18
Consensus pattern (12 bp):
GCGTGGCCGTGG
Found at i:43084593 original size:28 final size:28
Alignment explanation
Indices: 43084553--43084615 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
43084543 GTCATTATCA
43084553 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * *
43084581 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
43084609 ACCCCAT
1 ACCCCAT
43084616 TAATATGGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:43087623 original size:15 final size:15
Alignment explanation
Indices: 43087603--43087634 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
43087593 GTAACAAATC
43087603 AGTTGGCATTATCAA
1 AGTTGGCATTATCAA
43087618 AGTTGGCATTATCAA
1 AGTTGGCATTATCAA
43087633 AG
1 AG
43087635 GATAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (15 bp):
AGTTGGCATTATCAA
Found at i:43088990 original size:22 final size:23
Alignment explanation
Indices: 43088941--43088991 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
43088931 TCATTTTATC
* *
43088941 TAATAAATAATTTAAATTAATTA
1 TAATAATTAATTTAAAATAATTA
*
43088964 T-ATAATTAA-TTAAAATATTTA
1 TAATAATTAATTTAAAATAATTA
43088985 TAATAAT
1 TAATAAT
43088992 ATATAAAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 11 0.46
22 12 0.50
23 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TAATAATTAATTTAAAATAATTA
Found at i:43090772 original size:20 final size:21
Alignment explanation
Indices: 43090738--43090791 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
43090728 TGATGATATT
*
43090738 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
43090759 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
43090779 TTTTATTATTTTA
1 TTATATTATTTTA
43090792 TTATTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:43090797 original size:11 final size:11
Alignment explanation
Indices: 43090781--43090808 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
43090771 ATGAGATATT
43090781 TTATTATTTTA
1 TTATTATTTTA
43090792 TTATTATTTTA
1 TTATTATTTTA
43090803 TTATTA
1 TTATTA
43090809 ATTATTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:43093007 original size:46 final size:46
Alignment explanation
Indices: 43092955--43093224 Score: 391
Period size: 46 Copynumber: 5.9 Consensus size: 46
43092945 TGCTCTCTGC
43092955 TATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA
1 TATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA
*
43093001 TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA
1 TATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA
*
43093047 CATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA
1 TATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA
* *
43093093 TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGA
1 TATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA
** *
43093139 TATGAAATGA-ACAAGACCATGGTTGAAAGATACCATGGCAACATGA
1 TATGAAAT-ATGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA
* ** * * *
43093185 CAAAAAATGA-GTAAGACCATAGTTGAAAGACACTATGGCA
1 TATGAAAT-ATGTAAGACCATGGTTGAAAGATACCATGGCA
43093225 TCATGTCAAA
Statistics
Matches: 205, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 205 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
TATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA
Found at i:43095674 original size:104 final size:104
Alignment explanation
Indices: 43095494--43095717 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
43095484 TTGTATATAA
** * *
43095494 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
43095559 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
43095598 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
43095662 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
43095702 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
43095718 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:43095769 original size:71 final size:72
Alignment explanation
Indices: 43095636--43095787 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
43095626 TCATTGGTGG
* *
43095636 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
43095701 GAGGGGT
66 GAGGGGT
***
43095708 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
43095772 GAGGGGT
66 GAGGGGT
43095779 TGCTAAGTG
1 TGCTAAGTG
43095788 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:43103161 original size:26 final size:26
Alignment explanation
Indices: 43103126--43103176 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
43103116 AATGTGAAAG
*
43103126 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
43103152 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
43103177 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:43103188 original size:103 final size:104
Alignment explanation
Indices: 43103048--43103270 Score: 369
Period size: 103 Copynumber: 2.2 Consensus size: 104
43103038 TGTATATAAA
** * *
43103048 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
43103112 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
43103151 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
43103216 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
43103255 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
43103271 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 90 0.80
104 22 0.20
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:43103322 original size:71 final size:72
Alignment explanation
Indices: 43103189--43103340 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
43103179 TCATTGGTGG
* *
43103189 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
43103254 GAGGGGT
66 GAGGGGT
***
43103261 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
43103325 GAGGGGT
66 GAGGGGT
43103332 TGCTAAGTG
1 TGCTAAGTG
43103341 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:43104915 original size:15 final size:15
Alignment explanation
Indices: 43104891--43104936 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
43104881 ATTTAAATAG
*
43104891 AAATAAAAATATAAT
1 AAATAGAAATATAAT
43104906 AAATAGAAATATAAT
1 AAATAGAAATATAAT
43104921 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
43104937 ATAGAGAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:43104937 original size:29 final size:29
Alignment explanation
Indices: 43104904--43105020 Score: 80
Period size: 29 Copynumber: 4.0 Consensus size: 29
43104894 TAAAAATATA
43104904 ATAAATAGAAATATAATAATAGTAGAAAT
1 ATAAATAGAAATATAATAATAGTAGAAAT
* *
43104933 ATAAATAGAGAA-ATAAAAATTAG-ATAAAT
1 ATAAATAGA-AATATAATAA-TAGTAGAAAT
* * * * *
43104962 A-ATAATAGTATTAGAATAACA-AAGTAAAT
1 ATA-AATAGAAATATAATAATAGTAG-AAAT
* * *
43104991 ATAAATAGAAACATAATAATAATAGCAAT
1 ATAAATAGAAATATAATAATAGTAGAAAT
43105020 A
1 A
43105021 ATATATTAAA
Statistics
Matches: 65, Mismatches: 15, Indels: 16
0.68 0.16 0.17
Matches are distributed among these distances:
28 4 0.06
29 53 0.82
30 8 0.12
ACGTcount: A:0.62, C:0.03, G:0.09, T:0.26
Consensus pattern (29 bp):
ATAAATAGAAATATAATAATAGTAGAAAT
Found at i:43104939 original size:44 final size:44
Alignment explanation
Indices: 43104885--43104971 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
43104875 ATTAGTATTT
43104885 AAATAGAAATA-A-AAATATAATAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGAGAAATA-AA-AAATAGATAA-ATAATAATAGTAG
* *
43104929 AAATATAAATAGAGAAATAAAAATTAGATAAATAATAATAGTA
1 AAATAGAAATAGAGAAATAAAAAATAGATAAATAATAATAGTA
43104972 TTAGAATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 28 0.74
45 5 0.13
46 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (44 bp):
AAATAGAAATAGAGAAATAAAAAATAGATAAATAATAATAGTAG
Found at i:43104956 original size:15 final size:14
Alignment explanation
Indices: 43104901--43104969 Score: 59
Period size: 15 Copynumber: 4.7 Consensus size: 14
43104891 AAATAAAAAT
43104901 ATAATAAATAGA-AA
1 ATAA-AAATAGAGAA
*
43104915 TATAATAATAGTAGAA
1 -ATAAAAATAG-AGAA
*
43104931 ATATAAATAGAGAA
1 ATAAAAATAGAGAA
*
43104945 ATAAAAATTAGATAA
1 ATAAAAA-TAGAGAA
*
43104960 ATAATAATAG
1 ATAAAAATAG
43104970 TATTAGAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
14 18 0.40
15 25 0.56
16 2 0.04
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (14 bp):
ATAAAAATAGAGAA
Found at i:43107533 original size:27 final size:27
Alignment explanation
Indices: 43107472--43107549 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 27
43107462 TTAGATTGCG
* **
43107472 CCACAAAGGCATT-CATTTCATAGATTG
1 CCACAAAGGC-TTCCTTTTCATAGATCA
* *
43107499 CCATAAAGGCTTCCTTTTCATAGGTCA
1 CCACAAAGGCTTCCTTTTCATAGATCA
* * *
43107526 CCACAAAGACTTCTTTTTTATAGA
1 CCACAAAGGCTTCCTTTTCATAGA
43107550 CCGGCACAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
26 2 0.05
27 38 0.95
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (27 bp):
CCACAAAGGCTTCCTTTTCATAGATCA
Found at i:43118041 original size:15 final size:15
Alignment explanation
Indices: 43118018--43118047 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
43118008 CTGATGTAGC
*
43118018 TACTTTGTATTCGAG
1 TACTCTGTATTCGAG
43118033 TACTCTGTATTCGAG
1 TACTCTGTATTCGAG
43118048 ATTAGTGTGT
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:0.17, G:0.20, T:0.43
Consensus pattern (15 bp):
TACTCTGTATTCGAG
Found at i:43138595 original size:15 final size:15
Alignment explanation
Indices: 43138555--43138595 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
43138545 CTCCTTTTAA
43138555 AAAAAT-TATAAAAT
1 AAAAATATATAAAAT
*
43138569 -ATAATATAATAAAAT
1 AAAAATAT-ATAAAAT
43138584 AAAAATATATAA
1 AAAAATATATAA
43138596 TAGTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
13 4 0.18
14 1 0.05
15 11 0.50
16 6 0.27
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAAATATATAAAAT
Found at i:43139871 original size:7 final size:7
Alignment explanation
Indices: 43139855--43139889 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
43139845 TGTGTTCGTA
43139855 AATA-TT
1 AATATTT
43139861 AATATTT
1 AATATTT
43139868 AATATTT
1 AATATTT
43139875 AATATTT
1 AATATTT
43139882 AATATTT
1 AATATTT
43139889 A
1 A
43139890 TGAGACTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.14
7 24 0.86
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
AATATTT
Found at i:43141507 original size:22 final size:22
Alignment explanation
Indices: 43141476--43141539 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
43141466 GATGCTGACA
*
43141476 AAAGTAAGTTTCAAATGCTATCC
1 AAAGCAAGTTT-AAATGCTATCC
43141499 -AAGCAAGTTTTAAATG-TCATCC
1 AAAGCAAG-TTTAAATGCT-ATCC
* *
43141521 AAAGCATGTTTTAATGCTA
1 AAAGCAAGTTTAAATGCTA
43141540 GTATTGTAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
21 1 0.03
22 23 0.68
23 10 0.29
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.33
Consensus pattern (22 bp):
AAAGCAAGTTTAAATGCTATCC
Found at i:43142693 original size:3 final size:3
Alignment explanation
Indices: 43142685--43142735 Score: 75
Period size: 3 Copynumber: 17.0 Consensus size: 3
43142675 AAAAAGAAAT
* * *
43142685 ATA ATA ATA GTA ATA ATA ATA GTA ATA ATA ATA GTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
43142733 ATA
1 ATA
43142736 CAATGTTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:43142702 original size:12 final size:12
Alignment explanation
Indices: 43142685--43142735 Score: 93
Period size: 12 Copynumber: 4.2 Consensus size: 12
43142675 AAAAAGAAAT
43142685 ATAATAATAGTA
1 ATAATAATAGTA
43142697 ATAATAATAGTA
1 ATAATAATAGTA
43142709 ATAATAATAGTA
1 ATAATAATAGTA
*
43142721 ATAATAATAATA
1 ATAATAATAGTA
43142733 ATA
1 ATA
43142736 CAATGTTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (12 bp):
ATAATAATAGTA
Found at i:43154269 original size:20 final size:20
Alignment explanation
Indices: 43154244--43154283 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
43154234 AAATTATATC
43154244 TTAATATAAAAATATAAAAA
1 TTAATATAAAAATATAAAAA
* *
43154264 TTAATATTACAATATAAAAA
1 TTAATATAAAAATATAAAAA
43154284 ATATATACAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (20 bp):
TTAATATAAAAATATAAAAA
Found at i:43154432 original size:110 final size:117
Alignment explanation
Indices: 43154252--43154582 Score: 424
Period size: 110 Copynumber: 2.8 Consensus size: 117
43154242 TCTTAATATA
* * * * * *
43154252 AAAATATAAAAATTAATATTACAATATAAAAAATATATACACTAGTCAAACCAATCTTAATATTA
1 AAAATATACAAATT-ATATTA-AATATAAAAAA-ACATACACTA-CCAAAACTACCTTAATATTA
* *
43154317 GTTTTAACACAAATCTAATCATTCAAACAAAAATATAATGTTGAATGTTATATCTT
62 CTTTTAACACAAATCTAATAATTCAAACAAAAATATAATGTTGAATGTTATATCTT
* *
43154373 AAAATATACAAA-T-TA-T-AAT-TAAAAAAA-A-ACACTACCAAAATTACCTTAATGTTACTTT
1 AAAATATACAAATTATATTAAATATAAAAAAACATACACTACCAAAACTACCTTAATATTACTTT
* *
43154431 TAACACAAATATAATAAGTCAAACAAAAATATAATGTTGAATGTTATATCTT
66 TAACACAAATCTAATAATTCAAACAAAAATATAATGTTGAATGTTATATCTT
*
43154483 AAAATATACAAATTAGTATTACAATATAAAAAAACATACACTACCAAAACTATCTTAATATTACT
1 AAAATATACAAATTA-TATTA-AATATAAAAAAACATACACTACCAAAACTACCTTAATATTACT
* *
43154548 TTTAACACAATTCTAATAATTCAAACAAAATTATA
64 TTTAACACAAATCTAATAATTCAAACAAAAATATA
43154583 TAATATTACC
Statistics
Matches: 183, Mismatches: 18, Indels: 20
0.83 0.08 0.09
Matches are distributed among these distances:
110 78 0.43
111 7 0.04
112 1 0.01
113 3 0.02
114 8 0.04
115 3 0.02
116 3 0.02
117 9 0.05
118 3 0.02
119 56 0.31
120 1 0.01
121 11 0.06
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.32
Consensus pattern (117 bp):
AAAATATACAAATTATATTAAATATAAAAAAACATACACTACCAAAACTACCTTAATATTACTTT
TAACACAAATCTAATAATTCAAACAAAAATATAATGTTGAATGTTATATCTT
Found at i:43163300 original size:6 final size:6
Alignment explanation
Indices: 43163289--43163333 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
43163279 CATAAAGATG
*
43163289 AAAAAT AAAAAT AAAAAT AAAAAG AAAAAT AAAAAT -AAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
43163334 GTCCCTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 5 0.14
6 31 0.86
ACGTcount: A:0.84, C:0.00, G:0.02, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:43165394 original size:28 final size:28
Alignment explanation
Indices: 43165354--43165564 Score: 242
Period size: 28 Copynumber: 7.5 Consensus size: 28
43165344 ATTCTGCTAT
* * *
43165354 AAAGGCTTATTCTTTCTTAGTTCGCCAG
1 AAAGGCTTATTCTTTCGTAGTTCACCAC
**
43165382 AAAGGCTTATTCTTTCGTAGTTCGTCAC
1 AAAGGCTTATTCTTTCGTAGTTCACCAC
*
43165410 AAAGGCTTATTCTTTCATAGTTCACCAC
1 AAAGGCTTATTCTTTCGTAGTTCACCAC
**
43165438 AAAGGCTTATTCTTTCGTAGTTCGTCAC
1 AAAGGCTTATTCTTTCGTAGTTCACCAC
* * * *
43165466 AAAGGCTTATTCTTTCCTAGGTCTCCAT
1 AAAGGCTTATTCTTTCGTAGTTCACCAC
* * *
43165494 AAAGGCTTATTCTTTTGTTGTTCACCAT
1 AAAGGCTTATTCTTTCGTAGTTCACCAC
* * * *
43165522 AAAGGATTATTCTTTCGTATTTCACTAG
1 AAAGGCTTATTCTTTCGTAGTTCACCAC
*
43165550 AAAAGCTTATTCTTT
1 AAAGGCTTATTCTTT
43165565 TCTGACATGT
Statistics
Matches: 156, Mismatches: 27, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 156 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (28 bp):
AAAGGCTTATTCTTTCGTAGTTCACCAC
Found at i:43165565 original size:56 final size:56
Alignment explanation
Indices: 43165354--43165564 Score: 269
Period size: 56 Copynumber: 3.8 Consensus size: 56
43165344 ATTCTGCTAT
* *
43165354 AAAGGCTTATTCTTTCTTAGTTCGCCAGAAAGGCTTATTCTTTCGTAGTTCGTCAC
1 AAAGGCTTATTCTTTCATAGTTCACCAGAAAGGCTTATTCTTTCGTAGTTCGTCAC
*
43165410 AAAGGCTTATTCTTTCATAGTTCACCACAAAGGCTTATTCTTTCGTAGTTCGTCAC
1 AAAGGCTTATTCTTTCATAGTTCACCAGAAAGGCTTATTCTTTCGTAGTTCGTCAC
* * * * * * ** *
43165466 AAAGGCTTATTCTTTCCTAGGTCTCCATAAAGGCTTATTCTTTTGTTGTTCACCAT
1 AAAGGCTTATTCTTTCATAGTTCACCAGAAAGGCTTATTCTTTCGTAGTTCGTCAC
* * * * *
43165522 AAAGGATTATTCTTTCGTATTTCACTAGAAAAGCTTATTCTTT
1 AAAGGCTTATTCTTTCATAGTTCACCAGAAAGGCTTATTCTTT
43165565 TCTGACATGT
Statistics
Matches: 135, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 135 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (56 bp):
AAAGGCTTATTCTTTCATAGTTCACCAGAAAGGCTTATTCTTTCGTAGTTCGTCAC
Found at i:43168250 original size:54 final size:54
Alignment explanation
Indices: 43168158--43168292 Score: 189
Period size: 54 Copynumber: 2.5 Consensus size: 54
43168148 ATGTTCCAAG
* * * * * * * *
43168158 TTAGTGAGTTACACGGCCTAACACATGACCTGGCACACGGGCGTGTGTGGCAAC
1 TTAGAGAGTTACATGGCCTAGCACACGACCTAGCACACGGACGTGTATGGCAAA
*
43168212 TTAGAGAGTTACATGGCCTAGCACACGACCTAGTACACGGACGTGTATGGCAAA
1 TTAGAGAGTTACATGGCCTAGCACACGACCTAGCACACGGACGTGTATGGCAAA
43168266 TTAGAGAGTTACATGGCCTAGCACACG
1 TTAGAGAGTTACATGGCCTAGCACACG
43168293 GCCTGACCAC
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (54 bp):
TTAGAGAGTTACATGGCCTAGCACACGACCTAGCACACGGACGTGTATGGCAAA
Found at i:43170273 original size:43 final size:43
Alignment explanation
Indices: 43170225--43170308 Score: 159
Period size: 43 Copynumber: 2.0 Consensus size: 43
43170215 AAGTAAGTGC
*
43170225 ATCCTAGCCCTATTTTTAATGTTCTTTATATTTTTGAAATCTA
1 ATCCTAGCCCCATTTTTAATGTTCTTTATATTTTTGAAATCTA
43170268 ATCCTAGCCCCATTTTTAATGTTCTTTATATTTTTGAAATC
1 ATCCTAGCCCCATTTTTAATGTTCTTTATATTTTTGAAATC
43170309 CTCGTAGCTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.25, C:0.18, G:0.07, T:0.50
Consensus pattern (43 bp):
ATCCTAGCCCCATTTTTAATGTTCTTTATATTTTTGAAATCTA
Found at i:43171075 original size:48 final size:48
Alignment explanation
Indices: 43171001--43171463 Score: 608
Period size: 48 Copynumber: 9.6 Consensus size: 48
43170991 CCGTGCTAAA
* * * * *
43171001 TGTGCCTGTGTAAGACCATGTTTGGGATATGGCATCGGCGATGATATA
1 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATG
** *
43171049 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATATA
1 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATG
* * ** *
43171097 TTTACCAGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATAGG
1 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATG
* * *
43171145 TATGCCAGTGTAAGACCATGTCTGGGGCATGGCATCAGTGATGATATG
1 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATG
*
43171193 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGTGATGATATG
1 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATG
* * * ** *
43171241 TGTGCCAATGTAAGACAATGTCTGGGGCATGGCATTGGCGATGATATA
1 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATG
*
43171289 TGTGCCAGTGTAAGACCATGTCTTGGACATGGCATCAGCGATGATATG
1 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATG
*
43171337 TGTGCCGGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATG
1 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATG
* * * *
43171385 TGTGCCAGTGCAAGACCATGTCTGGGACATGGCATCTGTGATGAGATG
1 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATG
*
43171433 TG-GATTCA-TGTAAGACCATGT-TAGGGACATG
1 TGTG--CCAGTGTAAGACCATGTCT-GGGACATG
43171464 ACATTGGTAC
Statistics
Matches: 372, Mismatches: 40, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
47 2 0.01
48 368 0.99
49 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (48 bp):
TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATG
Found at i:43179628 original size:20 final size:20
Alignment explanation
Indices: 43179599--43179644 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
43179589 AAGAAATTCT
*
43179599 TTTTAT-TGTTTTAATATCA
1 TTTTATGTGTTATAATATCA
* *
43179618 TTTTATGTGTTATAGTATGA
1 TTTTATGTGTTATAATATCA
43179638 TTTTATG
1 TTTTATG
43179645 AGTGCATGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.24, C:0.02, G:0.13, T:0.61
Consensus pattern (20 bp):
TTTTATGTGTTATAATATCA
Found at i:43185209 original size:16 final size:16
Alignment explanation
Indices: 43185172--43185209 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
43185162 ACAGATAAAA
43185172 AGGCATACTACCCCTC
1 AGGCATACTACCCCTC
* *
43185188 AAGCATACTACCCCTT
1 AGGCATACTACCCCTC
43185204 AGGCAT
1 AGGCAT
43185210 GAACTCATTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.37, G:0.13, T:0.21
Consensus pattern (16 bp):
AGGCATACTACCCCTC
Found at i:43192166 original size:7 final size:7
Alignment explanation
Indices: 43192149--43192199 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
43192139 AGGACCAATT
43192149 GAGAG-A
1 GAGAGAA
43192155 GAGAGAA
1 GAGAGAA
43192162 GAGAGAA
1 GAGAGAA
*
43192169 GAGAAAA
1 GAGAGAA
*
43192176 GAAAGAA
1 GAGAGAA
*
43192183 GAGGAGAG
1 GA-GAGAA
*
43192191 GAGACAA
1 GAGAGAA
43192198 GA
1 GA
43192200 TATTCTGCCA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
6 5 0.14
7 26 0.72
8 5 0.14
ACGTcount: A:0.57, C:0.02, G:0.41, T:0.00
Consensus pattern (7 bp):
GAGAGAA
Found at i:43194664 original size:27 final size:27
Alignment explanation
Indices: 43194626--43194684 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
43194616 TAAAAGCTTG
*
43194626 GGCCTGGTAAGCAAGTATACGCCAGTA
1 GGCCTGGCAAGCAAGTATACGCCAGTA
** * *
43194653 GGCCTGGCAAGCTGGTGTACGCTAGTA
1 GGCCTGGCAAGCAAGTATACGCCAGTA
43194680 GGCCT
1 GGCCT
43194685 AGCGAGTTAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.24, G:0.34, T:0.20
Consensus pattern (27 bp):
GGCCTGGCAAGCAAGTATACGCCAGTA
Found at i:43194697 original size:27 final size:27
Alignment explanation
Indices: 43194634--43194706 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 27
43194624 TGGGCCTGGT
* * *
43194634 AAGCAAGTATACGCCAGTAGGCCTGGC
1 AAGCTAGTGTACGCCAGTAGGCCTAGC
* *
43194661 AAGCTGGTGTACGCTAGTAGGCCTAGC
1 AAGCTAGTGTACGCCAGTAGGCCTAGC
* * * *
43194688 GAGTTAGTGTTCACCAGTA
1 AAGCTAGTGTACGCCAGTA
43194707 AGTTTGGCGA
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (27 bp):
AAGCTAGTGTACGCCAGTAGGCCTAGC
Found at i:43199360 original size:10 final size:11
Alignment explanation
Indices: 43199333--43199365 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
43199323 AAAGCCAGAA
43199333 AAGAAAAAGAG
1 AAGAAAAAGAG
43199344 AAGAAAAAGAG
1 AAGAAAAAGAG
*
43199355 GA-AAAAAGAG
1 AAGAAAAAGAG
43199365 A
1 A
43199366 TAAAATGACG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 8 0.40
11 12 0.60
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (11 bp):
AAGAAAAAGAG
Found at i:43200871 original size:10 final size:11
Alignment explanation
Indices: 43200840--43200872 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
43200830 CAATTCAATC
43200840 AATTTAATTAAA
1 AATTT-ATTAAA
43200852 AATTTATTAAA
1 AATTTATTAAA
43200863 AATTT-TTAAA
1 AATTTATTAAA
43200873 GTTTAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 5 0.24
11 11 0.52
12 5 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
AATTTATTAAA
Found at i:43201777 original size:2 final size:2
Alignment explanation
Indices: 43201770--43201840 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
43201760 TTCAAGGAGG
43201770 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
43201812 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
43201841 TTTCTTTTCT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:43203453 original size:124 final size:124
Alignment explanation
Indices: 43203233--43203476 Score: 375
Period size: 124 Copynumber: 2.0 Consensus size: 124
43203223 TAAATGCTTC
* *
43203233 AGTTGGTTTTGAAGTCTGGACTTAGCTTTTTCTCCCTGCCTTGCACAATTAGACAGATTGGTGAT
1 AGTTGGTTTCGAAGTCTGGACTTAGCTTTTTCTCCCTGCCTTGCACAACTAGACAGATTGGTGAT
* * *
43203298 TGTGGAGTTACTTTGGCAAAAATCTTTAGCATCCTCCTGGTGATATTTGATTAGCATCA
66 TGTGGAGTTACCTTAGCAAAAACCTTTAGCATCCTCCTGGTGATATTTGATTAGCATCA
* * * *
43203357 AGTTGGTTTCGAAGTTTGTACTTAGCCTTTTT-TCCTTTCCTTGCACAACTAGACATG-TTGGTG
1 AGTTGGTTTCGAAGTCTGGACTTAG-CTTTTTCTCCCTGCCTTGCACAACTAGACA-GATTGGTG
43203420 ATTGTGGAGTTACCTTAGCAAAAACCTTTAGCATCCTCCTGGTGATATTTGATTAGC
64 ATTGTGGAGTTACCTTAGCAAAAACCTTTAGCATCCTCCTGGTGATATTTGATTAGC
43203477 TACAAGCAAT
Statistics
Matches: 109, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
124 102 0.94
125 7 0.06
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (124 bp):
AGTTGGTTTCGAAGTCTGGACTTAGCTTTTTCTCCCTGCCTTGCACAACTAGACAGATTGGTGAT
TGTGGAGTTACCTTAGCAAAAACCTTTAGCATCCTCCTGGTGATATTTGATTAGCATCA
Found at i:43207486 original size:30 final size:31
Alignment explanation
Indices: 43207450--43207531 Score: 87
Period size: 34 Copynumber: 2.6 Consensus size: 31
43207440 ATAAAAAAAT
* *
43207450 ATTTAAATTAGGG-TTTATGATTTTTAAATGA
1 ATTTAAATTAGGGTTTTA-GAGTTTTAAATAA
43207481 ATTAAATAAATTAGGGTTTTAGAGTTTTAAATAA
1 ATT---TAAATTAGGGTTTTAGAGTTTTAAATAA
*
43207515 A-TAAAATTAGGGTTTTA
1 ATTTAAATTAGGGTTTTA
43207532 AATAAATTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
30 14 0.32
31 3 0.07
33 1 0.02
34 22 0.50
35 4 0.09
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (31 bp):
ATTTAAATTAGGGTTTTAGAGTTTTAAATAA
Found at i:43207491 original size:34 final size:34
Alignment explanation
Indices: 43207453--43207521 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
43207443 AAAAAATATT
* * *
43207453 TAAATTAGGG-TTTATGATTTTTAAATGAATTAAA
1 TAAATTAGGGTTTTA-GAGTTTTAAATAAATAAAA
43207487 TAAATTAGGGTTTTAGAGTTTTAAATAAATAAAA
1 TAAATTAGGGTTTTAGAGTTTTAAATAAATAAAA
43207521 T
1 T
43207522 TAGGGTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 27 0.87
35 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.42
Consensus pattern (34 bp):
TAAATTAGGGTTTTAGAGTTTTAAATAAATAAAA
Done.