Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 326 of 335
Found at i:95668705 original size:22 final size:22
Alignment explanation
Indices: 95668658--95668708 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
95668648 ATTCCTTTTC
*
95668658 TATTATTATTTATTATATTGTA
1 TATTATTATTGATTATATTGTA
95668680 TATTATTATTAGATTATCA-TGT-
1 TATTATTATT-GATTAT-ATTGTA
95668702 TATTATT
1 TATTATT
95668709 TCTTTCTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 17 0.65
23 8 0.31
24 1 0.04
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (22 bp):
TATTATTATTGATTATATTGTA
Found at i:95668777 original size:13 final size:14
Alignment explanation
Indices: 95668754--95668782 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
95668744 GCTATTACTA
95668754 TTTTTATTTTTATT
1 TTTTTATTTTTATT
95668768 TTTTTA-TTTTATT
1 TTTTTATTTTTATT
95668781 TT
1 TT
95668783 ACTACCAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTATTTTTATT
Found at i:95669248 original size:32 final size:32
Alignment explanation
Indices: 95669143--95669250 Score: 66
Period size: 29 Copynumber: 3.3 Consensus size: 32
95669133 TTAGTGTTAC
* *
95669143 TATTTCTATTATTGTTTTATTA-TTATTATTATTAT
1 TATTT-TATTATT-ATTTATTACTCATTA-T-TTAT
*
95669178 TATTATTATTATTATTTATT--T-GTTA-TTAT
1 TATT-TTATTATTATTTATTACTCATTATTTAT
**
95669207 GGTTGTTATTATTA-TTATTACCTCATTATTTAT
1 TATT-TTATTATTATTTATTA-CTCATTATTTAT
95669240 TATTTTATTAT
1 TATTTTATTAT
95669251 CGTCTATTAG
Statistics
Matches: 59, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
28 5 0.08
29 15 0.25
31 1 0.02
32 13 0.22
33 7 0.12
34 6 0.10
35 11 0.19
36 1 0.02
ACGTcount: A:0.26, C:0.04, G:0.05, T:0.66
Consensus pattern (32 bp):
TATTTTATTATTATTTATTACTCATTATTTAT
Found at i:95669336 original size:3 final size:3
Alignment explanation
Indices: 95669321--95669396 Score: 59
Period size: 3 Copynumber: 26.0 Consensus size: 3
95669311 TTAAAGAAAA
* * * * * *
95669321 TAT TAT TAC TAT TAT TAT TAT CAT TAC TAC TAT ATAT TAT TAG CA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
*
95669366 TAT TAT TAT TAT T-T TCT T-T TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
95669397 CCTTATTAAC
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
2 5 0.08
3 52 0.87
4 3 0.05
ACGTcount: A:0.32, C:0.08, G:0.01, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:95669336 original size:24 final size:25
Alignment explanation
Indices: 95669281--95669337 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
95669271 ACCTTTTTTG
* *
95669281 TATATTAAGGAAAATATATTAGATTA
1 TATATTAAAGAAAATATATTA-ACTA
95669307 TATATTAAAGAAAATATTATT-ACTA
1 TATATTAAAGAAAATA-TATTAACTA
95669332 T-TATTA
1 TATATTA
95669338 TTATCATTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 5 0.18
25 4 0.14
26 15 0.54
27 4 0.14
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (25 bp):
TATATTAAAGAAAATATATTAACTA
Found at i:95669450 original size:20 final size:20
Alignment explanation
Indices: 95669421--95669460 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
95669411 TTTTACCTTT
95669421 TTTTAATATTATTAT-TATTA
1 TTTTAATATT-TTATATATTA
*
95669441 TTTTACTATTTTATATATTA
1 TTTTAATATTTTATATATTA
95669461 CTTATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTAATATTTTATATATTA
Found at i:95676597 original size:14 final size:14
Alignment explanation
Indices: 95676578--95676607 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
95676568 TAAAAGGACC
95676578 ATTTTGTAAAAAGT
1 ATTTTGTAAAAAGT
95676592 ATTTTGTAAAAAGT
1 ATTTTGTAAAAAGT
95676606 AT
1 AT
95676608 AAAAGTGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (14 bp):
ATTTTGTAAAAAGT
Found at i:95677308 original size:20 final size:20
Alignment explanation
Indices: 95677280--95677317 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
95677270 CTAGGAGCTA
95677280 TGTGATCTGAGCTCATGAGT
1 TGTGATCTGAGCTCATGAGT
* *
95677300 TGTGGTCTGAGTTCATGA
1 TGTGATCTGAGCTCATGA
95677318 TATATGTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.13, G:0.32, T:0.37
Consensus pattern (20 bp):
TGTGATCTGAGCTCATGAGT
Found at i:95682409 original size:25 final size:25
Alignment explanation
Indices: 95682380--95682484 Score: 192
Period size: 25 Copynumber: 4.2 Consensus size: 25
95682370 TGAAATTCCC
95682380 ATCATGGAACATTTACCTAACCATT
1 ATCATGGAACATTTACCTAACCATT
95682405 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAA-CCATT
*
95682431 ATCATGAAACATTTACCTAACCATT
1 ATCATGGAACATTTACCTAACCATT
95682456 ATCATGGAACATTTACCTAACCATT
1 ATCATGGAACATTTACCTAACCATT
95682481 ATCA
1 ATCA
95682485 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
25 53 0.69
26 24 0.31
ACGTcount: A:0.37, C:0.25, G:0.07, T:0.31
Consensus pattern (25 bp):
ATCATGGAACATTTACCTAACCATT
Found at i:95682450 original size:51 final size:50
Alignment explanation
Indices: 95682380--95682484 Score: 192
Period size: 51 Copynumber: 2.1 Consensus size: 50
95682370 TGAAATTCCC
*
95682380 ATCATGGAACATTTACCTAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCATTATCATGGAACATTTACCTAA-CCATT
95682431 ATCATGAAACATTTACCTAACCATTATCATGGAACATTTACCTAACCATT
1 ATCATGAAACATTTACCTAACCATTATCATGGAACATTTACCTAACCATT
95682481 ATCA
1 ATCA
95682485 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 9 0.17
51 44 0.83
ACGTcount: A:0.37, C:0.25, G:0.07, T:0.31
Consensus pattern (50 bp):
ATCATGAAACATTTACCTAACCATTATCATGGAACATTTACCTAACCATT
Found at i:95692379 original size:26 final size:26
Alignment explanation
Indices: 95692341--95692448 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
95692331 TGAAATTCTC
*
95692341 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
95692367 ATCATGGAGCATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
95692393 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
95692419 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
95692445 ATCA
1 ATCA
95692449 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:95694597 original size:33 final size:32
Alignment explanation
Indices: 95694545--95694818 Score: 244
Period size: 32 Copynumber: 8.5 Consensus size: 32
95694535 TCGATGGACC
* *
95694545 TTTCCTTTTCCAGTTGTACAC-CTGAGGTGAACA
1 TTTCCTTTTCAAG-TGTACACACT-AGGTGTACA
* * * *
95694578 TTCCCTTTTCAAATGGTACACACAAAGTGTACA
1 TTTCCTTTTCAAGT-GTACACACTAGGTGTACA
*
95694611 TTTCCTTTTCAAGTGTACACACTAGGGGTACA
1 TTTCCTTTTCAAGTGTACACACTAGGTGTACA
* *
95694643 TTTCCTTTTCAAGTGTACACACAAAGTGTACA
1 TTTCCTTTTCAAGTGTACACACTAGGTGTACA
** * * * * *
95694675 AATCCATTTCAAGTGTACATACAAAGTGTACG
1 TTTCCTTTTCAAGTGTACACACTAGGTGTACA
* *
95694707 TTTCCTTTTCAAGTGTACACACAAAGTGTACA
1 TTTCCTTTTCAAGTGTACACACTAGGTGTACA
** * * *
95694739 AATCCTTTTCAAGTGTACACACAAAGTCTACA
1 TTTCCTTTTCAAGTGTACACACTAGGTGTACA
** * ** *
95694771 AATCCTTTTCAAGTGTACACACAAAATGTACG
1 TTTCCTTTTCAAGTGTACACACTAGGTGTACA
*
95694803 TTCCCTTTTCAAGTGT
1 TTTCCTTTTCAAGTGT
95694819 TACCCTTTCG
Statistics
Matches: 206, Mismatches: 33, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
32 170 0.83
33 35 0.17
34 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.33
Consensus pattern (32 bp):
TTTCCTTTTCAAGTGTACACACTAGGTGTACA
Found at i:95694642 original size:32 final size:32
Alignment explanation
Indices: 95694575--95694818 Score: 317
Period size: 32 Copynumber: 7.6 Consensus size: 32
95694565 CCTGAGGTGA
* *
95694575 ACATTCCCTTTTCAAATGGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGT-GTACACACAAAGTGT
* * *
95694608 ACATTTCCTTTTCAAGTGTACACACTAGGGGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
95694640 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
** * *
95694672 ACAAATCCATTTCAAGTGTACATACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
*
95694704 ACGTTTCCTTTTCAAGTGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
** *
95694736 ACAAATCCTTTTCAAGTGTACACACAAAGTCT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
** *
95694768 ACAAATCCTTTTCAAGTGTACACACAAAATGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
* *
95694800 ACGTTCCCTTTTCAAGTGT
1 ACATTTCCTTTTCAAGTGT
95694819 TACCCTTTCG
Statistics
Matches: 184, Mismatches: 27, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
32 169 0.92
33 15 0.08
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (32 bp):
ACATTTCCTTTTCAAGTGTACACACAAAGTGT
Found at i:95694711 original size:96 final size:96
Alignment explanation
Indices: 95694584--95694818 Score: 353
Period size: 96 Copynumber: 2.4 Consensus size: 96
95694574 AACATTCCCT
* * * * **
95694584 TTTCAAATGGTACACACAAAGTGTACATTTCCTTTTCAAGTGTACACACTAGGGGTACATTTCCT
1 TTTCAAGT-GTACACACAAAGTGTACGTTTCCTTTTCAAGTGTACACACAAAGGGTACAAATCCT
*
95694649 TTTCAAGTGTACACACAAAGTGTACAAATCCA
65 TTTCAAGTGTACACACAAAGTCTACAAATCCA
* *
95694681 TTTCAAGTGTACATACAAAGTGTACGTTTCCTTTTCAAGTGTACACACAAAGTGTACAAATCCTT
1 TTTCAAGTGTACACACAAAGTGTACGTTTCCTTTTCAAGTGTACACACAAAGGGTACAAATCCTT
*
95694746 TTCAAGTGTACACACAAAGTCTACAAATCCT
66 TTCAAGTGTACACACAAAGTCTACAAATCCA
* *
95694777 TTTCAAGTGTACACACAAAATGTACGTTCCCTTTTCAAGTGT
1 TTTCAAGTGTACACACAAAGTGTACGTTTCCTTTTCAAGTGT
95694819 TACCCTTTCG
Statistics
Matches: 125, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
96 118 0.94
97 7 0.06
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.32
Consensus pattern (96 bp):
TTTCAAGTGTACACACAAAGTGTACGTTTCCTTTTCAAGTGTACACACAAAGGGTACAAATCCTT
TTCAAGTGTACACACAAAGTCTACAAATCCA
Found at i:95694841 original size:96 final size:95
Alignment explanation
Indices: 95694581--95694845 Score: 320
Period size: 96 Copynumber: 2.7 Consensus size: 95
95694571 GTGAACATTC
* * * *
95694581 CCTTTTCAAATGGTACACACAAAGTGTACATTTCCTTTTCAAGTGTACACACTAGGGGT-ACATT
1 CCTTTTCAAGT-GTACACACAAAGTGTACGTTTCCTTTTCAAGTGTAC-C-CTACGGGTGACAAT
*
95694645 TCCTTTTCAAGTGTACACACAAAGTGTACAAAT
63 TCCTTTTCAAGTGTACACACAAAGTCTACAAAT
* * * ** *
95694678 CCATTTCAAGTGTACATACAAAGTGTACGTTTCCTTTTCAAGTGTACAC-ACAAAGTGTACAAAT
1 CCTTTTCAAGTGTACACACAAAGTGTACGTTTCCTTTTCAAGTGTACCCTAC-GGGTG-ACAATT
95694742 CCTTTTCAAGTGTACACACAAAGTCTACAAAT
64 CCTTTTCAAGTGTACACACAAAGTCTACAAAT
* * *
95694774 CCTTTTCAAGTGTACACACAAAATGTACGTTCCCTTTTCAAGTGTTACCCTTTCGGGTGA-AATT
1 CCTTTTCAAGTGTACACACAAAGTGTACGTTTCCTTTTCAAGTG-TACCC-TACGGGTGACAATT
95694838 CCTTTTCA
64 CCTTTTCA
95694846 TAATGAGATC
Statistics
Matches: 142, Mismatches: 20, Indels: 13
0.81 0.11 0.07
Matches are distributed among these distances:
93 1 0.01
94 3 0.02
96 120 0.85
97 14 0.10
98 3 0.02
99 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.33
Consensus pattern (95 bp):
CCTTTTCAAGTGTACACACAAAGTGTACGTTTCCTTTTCAAGTGTACCCTACGGGTGACAATTCC
TTTTCAAGTGTACACACAAAGTCTACAAAT
Found at i:95703118 original size:32 final size:32
Alignment explanation
Indices: 95703057--95703187 Score: 163
Period size: 32 Copynumber: 4.1 Consensus size: 32
95703047 CCCGAGGTGC
* *
95703057 ACATTCCCTTTTCAAATGGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGT-GTACACACAAAGTGT
* * *
95703090 ATATTTCCTTTTCAAGTGTGCACACAAAGGGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
* *
95703122 ACATTTTCTTTTCAAGTGCACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
** *
95703154 ACAAATACTTTTCAAGTGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
95703186 AC
1 AC
95703188 CTTTTCAAGT
Statistics
Matches: 84, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
32 70 0.83
33 14 0.17
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (32 bp):
ACATTTCCTTTTCAAGTGTACACACAAAGTGT
Found at i:95711698 original size:32 final size:32
Alignment explanation
Indices: 95711631--95711810 Score: 243
Period size: 32 Copynumber: 5.6 Consensus size: 32
95711621 CCCGAGGTGC
* *
95711631 ACATTCCCTTTTCAAATGGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGT-GTACACACAAAGTGT
* *
95711664 ACATTTCCTTTTCAAGTGTGCACACAAAGGGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
* *
95711696 ACATTTTCTTTTCAAGTGCACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
** * *
95711728 ACAAATACTTTTCAAGTGTACATACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
*
95711760 ACGTTTCCTTTTCAAGTGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
*
95711792 ACGTTTCCTTTTCAAGTGT
1 ACATTTCCTTTTCAAGTGT
95711811 CACCCTTTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
32 114 0.88
33 15 0.12
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (32 bp):
ACATTTCCTTTTCAAGTGTACACACAAAGTGT
Found at i:95720368 original size:32 final size:32
Alignment explanation
Indices: 95720301--95720480 Score: 243
Period size: 32 Copynumber: 5.6 Consensus size: 32
95720291 CCCGAGGTGC
* *
95720301 ACATTCCCTTTTCAAATGGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGT-GTACACACAAAGTGT
* *
95720334 ACATTTCCTTTTCAAGTGTGCACACAAAGGGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
* *
95720366 ACATTTTCTTTTCAAGTGCACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
** * *
95720398 ACAAATACTTTTCAAGTGTACATACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
*
95720430 ACGTTTCCTTTTCAAGTGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTGT
*
95720462 ACGTTTCCTTTTCAAGTGT
1 ACATTTCCTTTTCAAGTGT
95720481 CACCCTTTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
32 114 0.88
33 15 0.12
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (32 bp):
ACATTTCCTTTTCAAGTGTACACACAAAGTGT
Found at i:95729596 original size:26 final size:28
Alignment explanation
Indices: 95729567--95729619 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
95729557 TTGAATTTAT
95729567 ATATATTTAAAATTTTT-ATTT-TTTGA
1 ATATATTTAAAATTTTTGATTTATTTGA
* *
95729593 ATATTTTTATAATTTTTGATTTATTTG
1 ATATATTTAAAATTTTTGATTTATTTG
95729620 TTGATGTGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 15 0.65
27 4 0.17
28 4 0.17
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (28 bp):
ATATATTTAAAATTTTTGATTTATTTGA
Found at i:95733259 original size:16 final size:16
Alignment explanation
Indices: 95733238--95733274 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
95733228 CAAGAGATGG
95733238 GAAATTGAGGGTTTGA
1 GAAATTGAGGGTTTGA
95733254 GAAATTGAGGGTTTGA
1 GAAATTGAGGGTTTGA
*
95733270 CAAAT
1 GAAAT
95733275 CAAGGTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.35, C:0.03, G:0.32, T:0.30
Consensus pattern (16 bp):
GAAATTGAGGGTTTGA
Found at i:95733639 original size:37 final size:37
Alignment explanation
Indices: 95733572--95733645 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
95733562 GCATGCAACG
* *
95733572 TGATTGTATTTCTTGACTACAACCCAAGGGCTAAAGC
1 TGATCGTATTTCTTGACAACAACCCAAGGGCTAAAGC
* *
95733609 TGATCGTATTTCTTGACAACAGCCCCAGGGCTAAAGC
1 TGATCGTATTTCTTGACAACAACCCAAGGGCTAAAGC
95733646 AAAACTGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (37 bp):
TGATCGTATTTCTTGACAACAACCCAAGGGCTAAAGC
Found at i:95767274 original size:38 final size:37
Alignment explanation
Indices: 95767212--95767286 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 37
95767202 TTTCAGTTTT
* *
95767212 GCTTTAGCCCTGGGGCTGTTGTCAAGAATATACGATCA
1 GCTTTAGCCCTGGGGCTGTAGTCAAGAA-ATACAATCA
* *
95767250 GCTTTAGCCCTTGGGTTGTAGTCAAGAAATACAATCA
1 GCTTTAGCCCTGGGGCTGTAGTCAAGAAATACAATCA
95767287 CGTTGCATGC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
37 8 0.24
38 25 0.76
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (37 bp):
GCTTTAGCCCTGGGGCTGTAGTCAAGAAATACAATCA
Found at i:95767607 original size:16 final size:16
Alignment explanation
Indices: 95767583--95767619 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
95767573 TTTTACCTTG
*
95767583 ATTTGTCAAACCCTCA
1 ATTTCTCAAACCCTCA
95767599 ATTTCTCAAACCCTCA
1 ATTTCTCAAACCCTCA
95767615 ATTTC
1 ATTTC
95767620 CCATCTCTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.30, C:0.32, G:0.03, T:0.35
Consensus pattern (16 bp):
ATTTCTCAAACCCTCA
Found at i:95771283 original size:27 final size:28
Alignment explanation
Indices: 95771235--95771288 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
95771225 GTCACATCAA
*
95771235 CAAATAAATCAAAAATTATAAAAATATT
1 CAAAAAAATCAAAAATTATAAAAATATT
* *
95771263 CAAAAAAAT-AAAAATTTTAAATATAT
1 CAAAAAAATCAAAAATTATAAAAATAT
95771289 ATAAATTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.30
Consensus pattern (28 bp):
CAAAAAAATCAAAAATTATAAAAATATT
Found at i:95772603 original size:20 final size:21
Alignment explanation
Indices: 95772578--95772620 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
95772568 TTAATTAAAT
95772578 AAATTA-TTAAAA-ATTCATAA
1 AAATTATTTAAAAGATT-ATAA
95772598 AAATTATTTAAAAGATTATAA
1 AAATTATTTAAAAGATTATAA
95772619 AA
1 AA
95772621 TCGGTTCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.29
21 12 0.57
22 3 0.14
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
AAATTATTTAAAAGATTATAA
Found at i:95779354 original size:21 final size:21
Alignment explanation
Indices: 95779328--95779370 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
95779318 TTTGTGTTGG
95779328 TAGCTATTCTTCCTTGAGTTA
1 TAGCTATTCTTCCTTGAGTTA
95779349 TAGCTATTCTTCCTTGAGTTA
1 TAGCTATTCTTCCTTGAGTTA
95779370 T
1 T
95779371 CATTTTTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.49
Consensus pattern (21 bp):
TAGCTATTCTTCCTTGAGTTA
Found at i:95784330 original size:30 final size:30
Alignment explanation
Indices: 95784291--95784350 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
95784281 GTATTTTGAC
* *
95784291 CTTTTAAAATAGTAAAAAAAT-TAATTTAAT
1 CTTTGAAAATA-TAAAAAAATATAAGTTAAT
*
95784321 CTTTGAAAATATATAAAAATATAAGTTAAT
1 CTTTGAAAATATAAAAAAATATAAGTTAAT
95784351 ACAATAACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.38
Consensus pattern (30 bp):
CTTTGAAAATATAAAAAAATATAAGTTAAT
Found at i:95784926 original size:99 final size:99
Alignment explanation
Indices: 95784755--95784933 Score: 331
Period size: 99 Copynumber: 1.8 Consensus size: 99
95784745 AGGGTCGAAA
* *
95784755 AAAAAGATGATTGGGCATTATCTGTGCATTTCTTCTTTTTCTTCTCATCTTTCTCTGCATCTTCT
1 AAAAAGATGATTGGGCATTATCTATGCATTTCTTCTTTTTCTTCTCATCTTTCTCTGCATCTTCC
95784820 TCTCCCTCAACCTCTTTCTCCTTGTTGGTGTAAT
66 TCTCCCTCAACCTCTTTCTCCTTGTTGGTGTAAT
*
95784854 AAAAAGATGATTGGGCATTCTCTATGCATTTCTTCTTTTTCTTCTCATCTTTCTCTGCATCTTCC
1 AAAAAGATGATTGGGCATTATCTATGCATTTCTTCTTTTTCTTCTCATCTTTCTCTGCATCTTCC
95784919 TCTCCCTCAACCTCT
66 TCTCCCTCAACCTCT
95784934 GTCCAAGTCT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 77 1.00
ACGTcount: A:0.17, C:0.27, G:0.11, T:0.45
Consensus pattern (99 bp):
AAAAAGATGATTGGGCATTATCTATGCATTTCTTCTTTTTCTTCTCATCTTTCTCTGCATCTTCC
TCTCCCTCAACCTCTTTCTCCTTGTTGGTGTAAT
Found at i:95786870 original size:158 final size:149
Alignment explanation
Indices: 95786537--95786946 Score: 536
Period size: 158 Copynumber: 2.7 Consensus size: 149
95786527 CAATTTACTC
* *
95786537 AAAAATAAACTTTAAAAAATTTAATAAACTCGAATTCAAATCCAATCAAATCGAATGGGATAACA
1 AAAAATAAATTTTAAAAAGTTTAATAAACTCGAATTCAAATCCAATCAAATCGAATGGGATAACA
* * *
95786602 AAGATTACTGTTTTGGCACTTAAAAATGATATGAAACCAATCCTCATATGCACATAAACATAGTA
66 TAGATTACTGTTTTGGCACCTAAAATTGATATGAAACCAATCCTCATATGCACATAAACATAGTA
*
95786667 CAAATCTTTGGAATATGTA
131 CAAATCTTTGGAATATATA
* * * * *
95786686 AAAAATAAGTTTTAAAAAGTTTAATAAACTCGAATTTAAATCCAATCAAATCTAATTGG-TAATA
1 AAAAATAAATTTTAAAAAGTTTAATAAACTCGAATTCAAATCCAATCAAATCGAATGGGATAACA
* *
95786750 TAGAGTACTGTTTTGGCACCTAAAATTGAAATGAAACCAATCCTCATATGCACATTTCGCATATA
66 TAGATTACTGTTTTGGCACCTAAAATTGATATGAAACCAATCCTCATATG--CA-----C--ATA
*
95786815 AACATAGTACAAATCTTTTTGAATATATA
122 AACATAGTACAAATC-TTTGGAATATATA
* * *
95786844 AAAAATAAATTTTAAAAAGTTAAATAAACTAGAATTCAAATCCAATTC-AATCGAATGGGATAAG
1 AAAAATAAATTTTAAAAAGTTTAATAAACTCGAATTCAAATCCAA-TCAAATCGAATGGGATAAC
* *
95786908 ATAGATTACTGTTTTGGTACCTAAAATTGATATAAAACC
65 ATAGATTACTGTTTTGGCACCTAAAATTGATATGAAACC
95786947 GACGAAGAAA
Statistics
Matches: 224, Mismatches: 25, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
148 49 0.22
149 53 0.24
150 2 0.01
155 1 0.00
157 18 0.08
158 61 0.27
159 40 0.18
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.30
Consensus pattern (149 bp):
AAAAATAAATTTTAAAAAGTTTAATAAACTCGAATTCAAATCCAATCAAATCGAATGGGATAACA
TAGATTACTGTTTTGGCACCTAAAATTGATATGAAACCAATCCTCATATGCACATAAACATAGTA
CAAATCTTTGGAATATATA
Found at i:95787153 original size:6 final size:6
Alignment explanation
Indices: 95787142--95787166 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
95787132 AGCTGGTGGA
95787142 GTGGGT GTGGGT GTGGGT GTGGGT G
1 GTGGGT GTGGGT GTGGGT GTGGGT G
95787167 GTGATGGTTC
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:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (6 bp):
GTGGGT
Found at i:95788044 original size:19 final size:20
Alignment explanation
Indices: 95788004--95788045 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
95787994 CCACGTCAAC
*
95788004 AAATAATTCAAAAATTATAA
1 AAATAATTCAAAAAATATAA
*
95788024 AAAT-ATTCAAACAA-ATAA
1 AAATAATTCAAAAAATATAA
95788042 AAAT
1 AAAT
95788046 TTAAAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 8 0.40
20 4 0.20
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (20 bp):
AAATAATTCAAAAAATATAA
Found at i:95789681 original size:2 final size:2
Alignment explanation
Indices: 95789671--95789712 Score: 68
Period size: 2 Copynumber: 21.0 Consensus size: 2
95789661 TTTTTCATTG
95789671 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
95789713 TCAATACAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 1 0.03
2 35 0.92
3 2 0.05
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:95791722 original size:12 final size:12
Alignment explanation
Indices: 95791705--95791732 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
95791695 ATGAATTTTG
95791705 ATTTGATGTATA
1 ATTTGATGTATA
95791717 ATTTGATGTATA
1 ATTTGATGTATA
95791729 ATTT
1 ATTT
95791733 TTTATTCGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (12 bp):
ATTTGATGTATA
Found at i:95793156 original size:20 final size:19
Alignment explanation
Indices: 95793096--95793157 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
95793086 ATTATTTTTT
*
95793096 AAAATT-TTGAAAAATAT-
1 AAAATTATTAAAAAATATA
* *
95793113 AAAATCATTTAAAAAATTTA
1 AAAATTA-TTAAAAAATATA
95793133 AAAATTATTAAAAATATATA
1 AAAATTATTAAAAA-ATATA
95793153 AAAAT
1 AAAAT
95793158 ATATATTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 5 0.14
19 16 0.44
20 15 0.42
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAATTATTAAAAAATATA
Found at i:95793157 original size:10 final size:10
Alignment explanation
Indices: 95793105--95793162 Score: 52
Period size: 10 Copynumber: 6.0 Consensus size: 10
95793095 TAAAATTTTG
95793105 AAAA-ATAT-
1 AAAATATATA
*
95793113 AAAATCATTTA
1 AAAAT-ATATA
*
95793124 AAAA-ATTTA
1 AAAATATATA
95793133 AAAAT-TATTA
1 AAAATATA-TA
95793143 AAAATATATA
1 AAAATATATA
95793153 AAAATATATA
1 AAAATATATA
95793163 TTTTTAATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
8 4 0.10
9 10 0.24
10 22 0.52
11 6 0.14
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATATATA
Found at i:95795034 original size:10 final size:10
Alignment explanation
Indices: 95795003--95795034 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
95794993 TGCAATAATT
*
95795003 AATTTTTTAA
1 AATTTTTAAA
95795013 AATTTTTAAA
1 AATTTTTAAA
95795023 AATTTTTAAA
1 AATTTTTAAA
95795033 AA
1 AA
95795035 ATTAATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
AATTTTTAAA
Found at i:95796111 original size:18 final size:16
Alignment explanation
Indices: 95796080--95796114 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
95796070 TTATATCACT
95796080 AATTATTATTTAATTA
1 AATTATTATTTAATTA
95796096 AATTATATATTTTAATTA
1 AATTAT-TA-TTTAATTA
95796114 A
1 A
95796115 TATTTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 2 0.12
18 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
AATTATTATTTAATTA
Found at i:95797344 original size:2 final size:2
Alignment explanation
Indices: 95797337--95797376 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
95797327 TATAGTTGTT
95797337 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
95797377 CACACAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:95798837 original size:97 final size:95
Alignment explanation
Indices: 95798714--95798905 Score: 228
Period size: 97 Copynumber: 2.0 Consensus size: 95
95798704 TCTAGTAAAA
* ** * *
95798714 TTAGGGTTTTAGTTTTTTATAATTTTAAGTGTTTAAG-ATTAGGGTTAGGGTTTATAAAATTAAA
1 TTAGGGTTTTAGGTTTTTATAATTTTAAGTGAGT-AGTATTAAGATTAGGGTTTATAAAATTAAA
*
95798778 GTTTATGGATTTTTTATTTTTTAAGTGTTTAGG
65 GTTTA-GGATTTTTTA-TTTTTAAGTGCTTAGG
* * *
95798811 TTAGGG-TTTAGGGTTTTTA-AATTTTTAAGTGAGTAGTGTTAAGATTAGGGTTTATAGAATTAG
1 TTAGGGTTTTA-GGTTTTTATAA-TTTTAAGTGAGTAGTATTAAGATTAGGGTTTATAAAATTAA
*
95798874 GGTTTAGGATTTTTTATTTTTAAGTGCTTAGG
64 AGTTTAGGATTTTTTATTTTTAAGTGCTTAGG
95798906 ATTTAGTTTA
Statistics
Matches: 82, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
95 15 0.18
96 18 0.22
97 49 0.60
ACGTcount: A:0.26, C:0.01, G:0.23, T:0.50
Consensus pattern (95 bp):
TTAGGGTTTTAGGTTTTTATAATTTTAAGTGAGTAGTATTAAGATTAGGGTTTATAAAATTAAAG
TTTAGGATTTTTTATTTTTAAGTGCTTAGG
Found at i:95802417 original size:35 final size:35
Alignment explanation
Indices: 95802378--95802445 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
95802368 AGGAACAAGA
* *
95802378 AGTTGTAGCAATCTAGTCGCTGAGGATTTGACCTT
1 AGTTGTAGCAATCCAATCGCTGAGGATTTGACCTT
*
95802413 AGTTGTAGCAATCCAATCTCTGAGGATTTGACC
1 AGTTGTAGCAATCCAATCGCTGAGGATTTGACC
95802446 CTACTTTCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (35 bp):
AGTTGTAGCAATCCAATCGCTGAGGATTTGACCTT
Found at i:95804694 original size:17 final size:18
Alignment explanation
Indices: 95804662--95804696 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
95804652 AATAAAAATA
95804662 ATAAAAACAATAATTTAG
1 ATAAAAACAATAATTTAG
*
95804680 ATAAAAATAAT-ATTTAG
1 ATAAAAACAATAATTTAG
95804697 GAAAATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (18 bp):
ATAAAAACAATAATTTAG
Found at i:95805245 original size:3 final size:3
Alignment explanation
Indices: 95805239--95805302 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
95805229 GAGGAGGAGG
95805239 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
95805287 AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA A
95805303 AATTACTGGC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:95806205 original size:3 final size:3
Alignment explanation
Indices: 95806197--95806233 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
95806187 TCAGTAACTG
*
95806197 TTC TTC TTC TTTA TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC
95806234 CTCTGTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.94
4 2 0.06
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:95806315 original size:21 final size:21
Alignment explanation
Indices: 95806289--95806330 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
95806279 CAACTTGGCA
95806289 AGTTAACTGGCCACATCAGCT
1 AGTTAACTGGCCACATCAGCT
* *
95806310 AGTTAACTTGCCACATTAGCT
1 AGTTAACTGGCCACATCAGCT
95806331 GTTCTGTTAA
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:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:95806429 original size:30 final size:32
Alignment explanation
Indices: 95806362--95806432 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 32
95806352 AAACTGTTAG
* *
95806362 TGAGTGACTGTTTTGTCACTTTTTTATAACGT
1 TGAGTGACTGTTTTGTCACTTTTTCATAAAGT
*
95806394 T-AGTGACTGTTTTGTTA-TTTTTCA-AAAGT
1 TGAGTGACTGTTTTGTCACTTTTTCATAAAGT
95806423 TGAGTGACTG
1 TGAGTGACTG
95806433 AAATGAAACC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.14
30 14 0.40
31 15 0.43
32 1 0.03
ACGTcount: A:0.21, C:0.10, G:0.21, T:0.48
Consensus pattern (32 bp):
TGAGTGACTGTTTTGTCACTTTTTCATAAAGT
Found at i:95814446 original size:11 final size:11
Alignment explanation
Indices: 95814430--95814465 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
95814420 TTTTTAGGAT
95814430 ATAATAAAATA
1 ATAATAAAATA
95814441 ATAATAAAATA
1 ATAATAAAATA
95814452 ATAATTAAAA-A
1 ATAA-TAAAATA
95814463 ATA
1 ATA
95814466 TATTTAGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAATAAAATA
Found at i:95825918 original size:19 final size:19
Alignment explanation
Indices: 95825894--95825932 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
95825884 TGTTTAGTCC
95825894 AGGCCCCAATATGAGAACA
1 AGGCCCCAATATGAGAACA
95825913 AGGCCCCAATATGAGAACA
1 AGGCCCCAATATGAGAACA
95825932 A
1 A
95825933 TTACCAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.26, G:0.21, T:0.10
Consensus pattern (19 bp):
AGGCCCCAATATGAGAACA
Found at i:95827940 original size:57 final size:57
Alignment explanation
Indices: 95827852--95827962 Score: 179
Period size: 57 Copynumber: 1.9 Consensus size: 57
95827842 TTTTATAAAA
* *
95827852 AAATAAATTTTTTTATAATACGTAAATAAGTAAATTTTTGATGTAAAAATACAACTC
1 AAATAAATTTTTTTATAATACGTAAATAAGTAAATTATTAATGTAAAAATACAACTC
*
95827909 AAATAAATTTTTTTAATAA-ATGTAAATAAGTAAATTATTAATGTAAAAATACAA
1 AAATAAATTTTTTT-ATAATACGTAAATAAGTAAATTATTAATGTAAAAATACAA
95827963 TATAAACAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
57 46 0.92
58 4 0.08
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.38
Consensus pattern (57 bp):
AAATAAATTTTTTTATAATACGTAAATAAGTAAATTATTAATGTAAAAATACAACTC
Found at i:95829851 original size:50 final size:50
Alignment explanation
Indices: 95829776--95829876 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 50
95829766 AGGACCAGGC
* *
95829776 TGCACAAGTAGAATCCATATAGAACTACTCTTCTTCTATTTGACTTTGAT
1 TGCACAAGTAGAATCAATATAGAACTACTCTTCTTCTATTTGACATTGAT
* *
95829826 TGCACAAGTAGAATCAATATAGAACTACTTTTCTTTTATTTGACATTGAT
1 TGCACAAGTAGAATCAATATAGAACTACTCTTCTTCTATTTGACATTGAT
95829876 T
1 T
95829877 ACAATAATGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.40
Consensus pattern (50 bp):
TGCACAAGTAGAATCAATATAGAACTACTCTTCTTCTATTTGACATTGAT
Found at i:95835628 original size:159 final size:159
Alignment explanation
Indices: 95835339--95835658 Score: 640
Period size: 159 Copynumber: 2.0 Consensus size: 159
95835329 GTGAAAAGTC
95835339 ATATGATTCTGCTCCACTTGACTAAAATAAATGTATGAGAAATACATAGGATTATATTATTAAAA
1 ATATGATTCTGCTCCACTTGACTAAAATAAATGTATGAGAAATACATAGGATTATATTATTAAAA
95835404 ATTAAAATTCTCATACTTGATCAATATTGTACTTTATCATTATACATATTAGAAATAAATATTAG
66 ATTAAAATTCTCATACTTGATCAATATTGTACTTTATCATTATACATATTAGAAATAAATATTAG
95835469 TTTCTTAGCTACAAAAAGGACACCAATAA
131 TTTCTTAGCTACAAAAAGGACACCAATAA
95835498 ATATGATTCTGCTCCACTTGACTAAAATAAATGTATGAGAAATACATAGGATTATATTATTAAAA
1 ATATGATTCTGCTCCACTTGACTAAAATAAATGTATGAGAAATACATAGGATTATATTATTAAAA
95835563 ATTAAAATTCTCATACTTGATCAATATTGTACTTTATCATTATACATATTAGAAATAAATATTAG
66 ATTAAAATTCTCATACTTGATCAATATTGTACTTTATCATTATACATATTAGAAATAAATATTAG
95835628 TTTCTTAGCTACAAAAAGGACACCAATAA
131 TTTCTTAGCTACAAAAAGGACACCAATAA
95835657 AT
1 AT
95835659 GTATCTACTC
Statistics
Matches: 161, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
159 161 1.00
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.35
Consensus pattern (159 bp):
ATATGATTCTGCTCCACTTGACTAAAATAAATGTATGAGAAATACATAGGATTATATTATTAAAA
ATTAAAATTCTCATACTTGATCAATATTGTACTTTATCATTATACATATTAGAAATAAATATTAG
TTTCTTAGCTACAAAAAGGACACCAATAA
Found at i:95838622 original size:24 final size:24
Alignment explanation
Indices: 95838594--95838641 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
95838584 GGGTTTTGAT
*
95838594 TAAACA-GAAAGAACAAATAAAGAA
1 TAAACATG-AAGAACAAACAAAGAA
*
95838618 TAAACATGAAGAAGAAACAAAGAA
1 TAAACATGAAGAACAAACAAAGAA
95838642 GCTTTTGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.69, C:0.08, G:0.15, T:0.08
Consensus pattern (24 bp):
TAAACATGAAGAACAAACAAAGAA
Found at i:95840156 original size:18 final size:17
Alignment explanation
Indices: 95840135--95840171 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
95840125 TTTAGGATGA
*
95840135 TTTTATTTTAATATTTAT
1 TTTTATTTAAATA-TTAT
95840153 TTTTATTTAAATATTAT
1 TTTTATTTAAATATTAT
95840170 TT
1 TT
95840172 GTAAAGATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTATTTAAATATTAT
Found at i:95840161 original size:17 final size:18
Alignment explanation
Indices: 95840135--95840171 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
95840125 TTTAGGATGA
95840135 TTTTATTTT-AATATTTAT
1 TTTTATTTTAAATA-TTAT
95840153 TTTTA-TTTAAATATTAT
1 TTTTATTTTAAATATTAT
95840170 TT
1 TT
95840172 GTAAAGATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTATTTTAAATATTAT
Found at i:95840452 original size:15 final size:15
Alignment explanation
Indices: 95840436--95840464 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
95840426 AATAATTTTA
95840436 AAAAT-TTTAAAGGT
1 AAAATATTTAAAGGT
95840450 AAAATATTTAAAGGT
1 AAAATATTTAAAGGT
95840465 TATCAAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (15 bp):
AAAATATTTAAAGGT
Found at i:95842289 original size:25 final size:25
Alignment explanation
Indices: 95842259--95842308 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
95842249 TATCAAACTA
95842259 CATATCTCCTTCCAACATCTCCCGT
1 CATATCTCCTTCCAACATCTCCCGT
95842284 CATATCTCCTTCCAACATCTCCCGT
1 CATATCTCCTTCCAACATCTCCCGT
95842309 TTCTACTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.44, G:0.04, T:0.32
Consensus pattern (25 bp):
CATATCTCCTTCCAACATCTCCCGT
Found at i:95842660 original size:36 final size:36
Alignment explanation
Indices: 95842608--95842680 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
95842598 CAGTTGGTGG
*
95842608 ATAGTGATGGTTGTGAAACTAACTAAAAATTTGACT
1 ATAGTGATGGTCGTGAAACTAACTAAAAATTTGACT
95842644 ATAGTGATGGTCGTGAAACTAACTAAAAATTTGACT
1 ATAGTGATGGTCGTGAAACTAACTAAAAATTTGACT
95842680 A
1 A
95842681 AGGTAAGCGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.32
Consensus pattern (36 bp):
ATAGTGATGGTCGTGAAACTAACTAAAAATTTGACT
Found at i:95842741 original size:24 final size:24
Alignment explanation
Indices: 95842708--95842756 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
95842698 GAACAGTAGT
* *
95842708 ATAGTTATGGTGAGACCGGAAATA
1 ATAGTAATGGTAAGACCGGAAATA
* *
95842732 ATAGTAATGGTAAGACTGGAGATA
1 ATAGTAATGGTAAGACCGGAAATA
95842756 A
1 A
95842757 CGTATCCACG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.41, C:0.06, G:0.29, T:0.24
Consensus pattern (24 bp):
ATAGTAATGGTAAGACCGGAAATA
Found at i:95847137 original size:58 final size:58
Alignment explanation
Indices: 95847046--95847176 Score: 165
Period size: 58 Copynumber: 2.2 Consensus size: 58
95847036 GACAAGATTG
* * * * * *
95847046 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
* *
95847104 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGTGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
95847163 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
95847177 GATTCACTAT
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 40 0.63
59 21 0.33
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:95847170 original size:29 final size:30
Alignment explanation
Indices: 95847046--95847176 Score: 162
Period size: 30 Copynumber: 4.5 Consensus size: 30
95847036 GACAAGATTG
* * * * *
95847046 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
95847076 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
95847104 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
95847134 GCACTAAGTGTGTGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
95847163 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
95847177 GATTCACTAT
Statistics
Matches: 90, Mismatches: 7, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 45 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:95853983 original size:26 final size:26
Alignment explanation
Indices: 95853947--95854054 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
95853937 TGATACAAAT
95853947 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
95853973 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
95853999 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
95854025 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
95854051 TGAT
1 TGAT
95854055 GGGAATTTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:95860190 original size:26 final size:26
Alignment explanation
Indices: 95860154--95860289 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
95860144 CATGAAATTC
* *
95860154 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
* *
95860180 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
95860206 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
95860232 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
95860258 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
95860284 TTATCA
1 TTATCA
95860290 ATTTGTATCA
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 108 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:95862465 original size:24 final size:23
Alignment explanation
Indices: 95862417--95862465 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
95862407 TTAAATTTAA
*
95862417 GACATGTGATAGAATAAAATTAT
1 GACATGTGATAGAATAAAATCAT
*
95862440 GACATGTGACATA-AATAACATCAT
1 GACATGTG--ATAGAATAAAATCAT
95862464 GA
1 GA
95862466 TGATGACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 8 0.36
24 11 0.50
25 3 0.14
ACGTcount: A:0.47, C:0.10, G:0.16, T:0.27
Consensus pattern (23 bp):
GACATGTGATAGAATAAAATCAT
Found at i:95869558 original size:20 final size:20
Alignment explanation
Indices: 95869521--95869558 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
95869511 GAGACGTTGG
*
95869521 AATGACTTCAATTCCCAAGA
1 AATGACTTCAAATCCCAAGA
95869541 AATGA-TTCAAATCACCAA
1 AATGACTTCAAATC-CCAA
95869559 CACCTTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.45, C:0.24, G:0.08, T:0.24
Consensus pattern (20 bp):
AATGACTTCAAATCCCAAGA
Found at i:95878163 original size:2 final size:2
Alignment explanation
Indices: 95878156--95878194 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
95878146 TGTATGAGAA
* *
95878156 AT AT AT AT AT AT AT AT A- AT AT AT AT AT CT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95878195 GATCTGATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:95878681 original size:10 final size:10
Alignment explanation
Indices: 95878666--95878690 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
95878656 GAGGGAGCCG
95878666 GCCCCTGCCA
1 GCCCCTGCCA
95878676 GCCCCTGCCA
1 GCCCCTGCCA
95878686 GCCCC
1 GCCCC
95878691 CTTGGATTCG
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:0.08, C:0.64, G:0.20, T:0.08
Consensus pattern (10 bp):
GCCCCTGCCA
Found at i:95881130 original size:24 final size:23
Alignment explanation
Indices: 95881099--95881144 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
95881089 AATTTTGGGC
* *
95881099 CCAAAACCTCTAAACCCACTAAG
1 CCAAAACCCCAAAACCCACTAAG
*
95881122 CCAATAACCCCAAAACCTACTAA
1 CCAA-AACCCCAAAACCCACTAA
95881145 ACCCAGACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.46, C:0.39, G:0.02, T:0.13
Consensus pattern (23 bp):
CCAAAACCCCAAAACCCACTAAG
Found at i:95882879 original size:5 final size:5
Alignment explanation
Indices: 95882869--95882900 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
95882859 GAATTTGTGA
95882869 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
95882901 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:95887548 original size:2 final size:2
Alignment explanation
Indices: 95887541--95887577 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
95887531 TGGCTTCTAT
95887541 TC TC TC TC 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 TC TC TC TC T
95887578 TGTTAAGTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:95904732 original size:13 final size:13
Alignment explanation
Indices: 95904714--95904738 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95904704 ACTGCTCTTG
95904714 TGCCCAAAATATT
1 TGCCCAAAATATT
95904727 TGCCCAAAATAT
1 TGCCCAAAATAT
95904739 GATCGTGGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.28
Consensus pattern (13 bp):
TGCCCAAAATATT
Found at i:95908098 original size:7 final size:7
Alignment explanation
Indices: 95908076--95908124 Score: 64
Period size: 7 Copynumber: 6.9 Consensus size: 7
95908066 TTAGTACTTA
95908076 TTTTTTC
1 TTTTTTC
*
95908083 -TTCTTC
1 TTTTTTC
95908089 TTTTTTC
1 TTTTTTC
95908096 TTTTTTTTC
1 --TTTTTTC
95908105 TTTTTTC
1 TTTTTTC
95908112 TTTTTTC
1 TTTTTTC
95908119 TTTTTT
1 TTTTTT
95908125 TTAAAATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
6 5 0.14
7 25 0.68
9 7 0.19
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTC
Found at i:95908107 original size:16 final size:17
Alignment explanation
Indices: 95908078--95908126 Score: 75
Period size: 16 Copynumber: 2.9 Consensus size: 17
95908068 AGTACTTATT
95908078 TTTTCTTCTTCTTTTTTC
1 TTTT-TTCTTCTTTTTTC
95908096 TTTTTT-TTCTTTTTTC
1 TTTTTTCTTCTTTTTTC
95908112 TTTTTTCTT-TTTTTT
1 TTTTTTCTTCTTTTTT
95908127 AAAATTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 22 0.73
17 4 0.13
18 4 0.13
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (17 bp):
TTTTTTCTTCTTTTTTC
Found at i:95908117 original size:23 final size:22
Alignment explanation
Indices: 95908076--95908126 Score: 84
Period size: 23 Copynumber: 2.3 Consensus size: 22
95908066 TTAGTACTTA
95908076 TTTTTTCTTCTTCTTTTTTCTT
1 TTTTTTCTTCTTCTTTTTTCTT
*
95908098 TTTTTTCTTTTTTCTTTTTTCTT
1 TTTTTTC-TTCTTCTTTTTTCTT
95908121 TTTTTT
1 TTTTTT
95908127 AAAATTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 7 0.26
23 20 0.74
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (22 bp):
TTTTTTCTTCTTCTTTTTTCTT
Found at i:95909451 original size:7 final size:7
Alignment explanation
Indices: 95909441--95909484 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
95909431 TAACTAAAAT
95909441 AAAATAA
1 AAAATAA
95909448 AAAATAA
1 AAAATAA
95909455 AAAATAA
1 AAAATAA
**
95909462 AAAA-GG
1 AAAATAA
95909468 AAAATAA
1 AAAATAA
*
95909475 TAAATAA
1 AAAATAA
95909482 AAA
1 AAA
95909485 GAAAAAGAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
6 4 0.13
7 26 0.87
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.14
Consensus pattern (7 bp):
AAAATAA
Found at i:95909471 original size:20 final size:18
Alignment explanation
Indices: 95909436--95909496 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 18
95909426 ATATTTAACT
95909436 AAAATAAAATAAAAAATAA
1 AAAATAAAA-AAAAAATAA
95909455 AAAATAAAAAAGGAAAATAA
1 AAAATAAAAAA--AAAATAA
* *
95909475 TAAATAAAAAGAAAAAGAA
1 AAAATAAAAA-AAAAATAA
95909494 AAA
1 AAA
95909497 GAAAAAGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
18 2 0.06
19 17 0.47
20 16 0.44
21 1 0.03
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.11
Consensus pattern (18 bp):
AAAATAAAAAAAAAATAA
Found at i:95909503 original size:6 final size:6
Alignment explanation
Indices: 95909461--95909506 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
95909451 ATAAAAAATA
* * *
95909461 AAAAAG GAAAAT AATAAAT AAAAAG AAAAAG AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AA-AAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
95909507 GATTGGGTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (6 bp):
AAAAAG
Found at i:95913295 original size:27 final size:26
Alignment explanation
Indices: 95913265--95913326 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
95913255 AGATAATTAA
95913265 AATAAAATCCTAAAT-TTGAATAATCCT
1 AATAAAAT-CTAAATATT-AATAATCCT
* * *
95913292 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCTAAATATTAATAATCCT
95913319 AATAAAAT
1 AATAAAAT
95913327 AAAATAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 23 0.79
28 4 0.14
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (26 bp):
AATAAAATCTAAATATTAATAATCCT
Found at i:95916583 original size:16 final size:17
Alignment explanation
Indices: 95916558--95916600 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
95916548 TTCAACAAAT
95916558 AATT-TAAAAATAAT-A
1 AATTATAAAAATAATAA
*
95916573 AATTATAAAAA-AGTAA
1 AATTATAAAAATAATAA
95916589 AATTATAAAAAT
1 AATTATAAAAAT
95916601 TTCATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 6 0.25
16 18 0.75
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (17 bp):
AATTATAAAAATAATAA
Found at i:95919264 original size:107 final size:109
Alignment explanation
Indices: 95919054--95919270 Score: 249
Period size: 107 Copynumber: 2.0 Consensus size: 109
95919044 TTAAAGTTGC
* * * *
95919054 ATAACAAATGGTTAAAATCTAAACAATGAATCAAGCCCCAAATTGTGGTCTATTGATCGAGTATC
1 ATAACAAATGATTAAAATCTAAACAATGAAGCAAGCCCCAAATTGTGATCCATTGATCGAGTATC
* *
95919119 TATTTTCTATAAAAATAGCATAAAATCGAGTCATCAATGCACCT
66 TATTTTCTATAAAAATAGCATAAAATCAAGTCACCAATGCACCT
* * * * * * * * *
95919163 ATAACAAATTATTAAAATTTAAATAATGAAGCAA-TCGCAAGTTGTGATCCATTGATTGAGTGTT
1 ATAACAAATGATTAAAATCTAAACAATGAAGCAAGCCCCAAATTGTGATCCATTGATCGAGTATC
* * * *
95919227 TA-TTTCTATAAAAATAGCCTAGATTCAAGTCACCAATGTACCT
66 TATTTTCTATAAAAATAGCATAAAATCAAGTCACCAATGCACCT
95919270 A
1 A
95919271 AAGAAAAAGT
Statistics
Matches: 89, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
107 36 0.40
108 24 0.27
109 29 0.33
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (109 bp):
ATAACAAATGATTAAAATCTAAACAATGAAGCAAGCCCCAAATTGTGATCCATTGATCGAGTATC
TATTTTCTATAAAAATAGCATAAAATCAAGTCACCAATGCACCT
Found at i:95919901 original size:20 final size:20
Alignment explanation
Indices: 95919863--95919902 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
95919853 TAAATTCTAA
* **
95919863 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
95919883 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
95919903 GAAATAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:95921085 original size:68 final size:68
Alignment explanation
Indices: 95921001--95921137 Score: 186
Period size: 68 Copynumber: 2.0 Consensus size: 68
95920991 TTAAAAAATG
**
95921001 TCACCATTAGTAATTTAACGGAAACGTGACTAAAATATTAAAATTT-GGTAACATGACTAAAATA
1 TCACCATTAGTAATTTAACGGAAACGTGACTAAAATATT-AAATTTCAATAACATGACTAAAATA
*
95921065 GACA
65 AACA
* ** * *
95921069 TCACCATTAGTGATTTAACGGAGGCGTGGCTAAAATATTAAATTTCAATAACATGACTAAGATAA
1 TCACCATTAGTAATTTAACGGAAACGTGACTAAAATATTAAATTTCAATAACATGACTAAAATAA
95921134 ACA
66 ACA
95921137 T
1 T
95921138 TTTTAAATAT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
67 6 0.10
68 54 0.90
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (68 bp):
TCACCATTAGTAATTTAACGGAAACGTGACTAAAATATTAAATTTCAATAACATGACTAAAATAA
ACA
Found at i:95922407 original size:20 final size:21
Alignment explanation
Indices: 95922382--95922423 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
95922372 TTTTTACATA
95922382 TTTAATTTTATTGTT-TAAAT
1 TTTAATTTTATTGTTGTAAAT
95922402 TTTAATTTTATTGTTGTAAAT
1 TTTAATTTTATTGTTGTAAAT
95922423 T
1 T
95922424 ATATGTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (21 bp):
TTTAATTTTATTGTTGTAAAT
Found at i:95922432 original size:20 final size:20
Alignment explanation
Indices: 95922384--95922432 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
95922374 TTTACATATT
* *
95922384 TAATTTTATTGTTTAAATTT
1 TAATGTTATTGTTTAAATTA
*
95922404 TAATTTTATTGTTGTAAATTA
1 TAATGTTATTGTT-TAAATTA
95922425 T-ATGTTAT
1 TAATGTTAT
95922433 ATATTCAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (20 bp):
TAATGTTATTGTTTAAATTA
Found at i:95928375 original size:59 final size:59
Alignment explanation
Indices: 95928302--95928439 Score: 267
Period size: 59 Copynumber: 2.3 Consensus size: 59
95928292 TAGGGTCTGA
95928302 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAATTGTCGTTGCAGGGG
1 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAATTGTCGTTGCAGGGG
*
95928361 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTTATTAGAGTAATTGTCGTTGCAGGGG
1 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAATTGTCGTTGCAGGGG
95928420 ATTTAGCCTGGACTGGTAAT
1 ATTTAGCCTGGACTGGTAAT
95928440 CCCACTGTAA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
59 78 1.00
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (59 bp):
ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAATTGTCGTTGCAGGGG
Found at i:95928533 original size:46 final size:46
Alignment explanation
Indices: 95928476--95928841 Score: 617
Period size: 46 Copynumber: 8.0 Consensus size: 46
95928466 AGTGTGCTCT
*
95928476 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
*
95928522 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
95928568 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
95928614 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
95928660 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
*
95928706 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
* *
95928752 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
* * * * * *
95928798 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
95928842 TCATGTCAAA
Statistics
Matches: 307, Mismatches: 12, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
45 1 0.00
46 306 1.00
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
Found at i:95930517 original size:21 final size:21
Alignment explanation
Indices: 95930491--95930531 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
95930481 AGACAAGCGA
* *
95930491 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
95930512 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
95930532 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:95933966 original size:13 final size:13
Alignment explanation
Indices: 95933948--95933972 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95933938 CTCTCACCCA
95933948 AATCACAAAACAC
1 AATCACAAAACAC
95933961 AATCACAAAACA
1 AATCACAAAACA
95933973 AATTTTAGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.28, G:0.00, T:0.08
Consensus pattern (13 bp):
AATCACAAAACAC
Found at i:95935202 original size:12 final size:12
Alignment explanation
Indices: 95935185--95935217 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
95935175 CGGCCCGCCC
95935185 ATATTAATTTTT
1 ATATTAATTTTT
95935197 ATATT-ATTTTT
1 ATATTAATTTTT
95935208 ATA-TAATTTT
1 ATATTAATTTT
95935218 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:95935470 original size:11 final size:11
Alignment explanation
Indices: 95935439--95935478 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
95935429 ACAATAACAA
*
95935439 CAAAATAGTAG
1 CAAAATAATAG
*
95935450 CAACATAATAG
1 CAAAATAATAG
*
95935461 TAAAATAATAG
1 CAAAATAATAG
95935472 CAAAATA
1 CAAAATA
95935479 GGGAAAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:95935892 original size:30 final size:30
Alignment explanation
Indices: 95935853--95935910 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
95935843 CATGGGCTGG
* * *
95935853 CATAAGGGCGTGTGGCCAGCCCGTGTGGCT
1 CATAAGGGCGTGTGCCCAACCCATGTGGCT
*
95935883 CATACGGGCGTGTGCCCAACCCATGTGG
1 CATAAGGGCGTGTGCCCAACCCATGTGG
95935911 AAATGCCCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.36, T:0.19
Consensus pattern (30 bp):
CATAAGGGCGTGTGCCCAACCCATGTGGCT
Found at i:95937134 original size:12 final size:13
Alignment explanation
Indices: 95937119--95937147 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
95937109 TTTTTAAAAT
95937119 ATTAATTAATT-A
1 ATTAATTAATTCA
95937131 ATTAATTAATTCA
1 ATTAATTAATTCA
95937144 ATTA
1 ATTA
95937148 TTTTTTCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTAATTAATTCA
Found at i:95937290 original size:68 final size:68
Alignment explanation
Indices: 95937210--95937341 Score: 185
Period size: 68 Copynumber: 1.9 Consensus size: 68
95937200 AAAAAAGGTT
* *
95937210 ACCATTAGTGATTTAACGGAAGCATGACCAAAATATTAAAATTT-GGTAACGTGACTAAAATAGA
1 ACCATTAGTGATTTAACGGAAGCATGACCAAAATATT-AAATTTCGATAACATGACTAAAATAGA
95937274 CATC
65 CATC
* ** * *
95937278 ACCATTAGTGATTTAACGGAGGTGTGGCCAAAATATTAAATTTCGATAACATGACTAAGATAGA
1 ACCATTAGTGATTTAACGGAAGCATGACCAAAATATTAAATTTCGATAACATGACTAAAATAGA
95937342 TATTTTTAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
67 6 0.11
68 50 0.89
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (68 bp):
ACCATTAGTGATTTAACGGAAGCATGACCAAAATATTAAATTTCGATAACATGACTAAAATAGAC
ATC
Found at i:95938452 original size:20 final size:20
Alignment explanation
Indices: 95938427--95938467 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
95938417 TTTTTACATA
95938427 TTTAATTTTATTGTT-TAAAT
1 TTTAATTTT-TTGTTGTAAAT
95938447 TTTAATTTTTTGTTGTAAAT
1 TTTAATTTTTTGTTGTAAAT
95938467 T
1 T
95938468 ATATGTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (20 bp):
TTTAATTTTTTGTTGTAAAT
Found at i:95940041 original size:68 final size:68
Alignment explanation
Indices: 95939941--95940077 Score: 193
Period size: 68 Copynumber: 2.0 Consensus size: 68
95939931 AAAAAAAAGG
** *
95939941 TCACCATTAGTGATTTAATGGAAACATGACCAAAATATTAAAATTTGGTAACATGACTAAAATAA
1 TCACCATTAGTGATTTAATGGAAACACAACCAAAATATTAAAATTTGATAACATGACTAAAATAA
95940006 ACA
66 ACA
** * * * *
95940009 TCACCATTAGTGATTTAATGGAGGCACAACCAAAATATTAAATTTTGATAACATGCCTAAGATAG
1 TCACCATTAGTGATTTAATGGAAACACAACCAAAATATTAAAATTTGATAACATGACTAAAATAA
95940074 ACA
66 ACA
95940077 T
1 T
95940078 TTTTGAACAT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
68 60 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (68 bp):
TCACCATTAGTGATTTAATGGAAACACAACCAAAATATTAAAATTTGATAACATGACTAAAATAA
ACA
Found at i:95944289 original size:11 final size:11
Alignment explanation
Indices: 95944248--95944301 Score: 65
Period size: 11 Copynumber: 5.0 Consensus size: 11
95944238 TTGACCTTTC
95944248 CAAGGTATGGG
1 CAAGGTATGGG
* *
95944259 -TAGGTATGAG
1 CAAGGTATGGG
*
95944269 AAAGGTATGGG
1 CAAGGTATGGG
95944280 CAAGGTATGGG
1 CAAGGTATGGG
*
95944291 CAAGGGATGGG
1 CAAGGTATGGG
95944302 TATATTCTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
10 8 0.22
11 28 0.78
ACGTcount: A:0.30, C:0.06, G:0.46, T:0.19
Consensus pattern (11 bp):
CAAGGTATGGG
Found at i:95946702 original size:18 final size:18
Alignment explanation
Indices: 95946681--95946730 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
95946671 ACTGTATACA
*
95946681 TGAACAGTACCGTATATG
1 TGAATAGTACCGTATATG
*
95946699 TGAATAGTACTGTATATG
1 TGAATAGTACCGTATATG
*
95946717 TAAATAGTACCGTA
1 TGAATAGTACCGTA
95946731 AACGGTCATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (18 bp):
TGAATAGTACCGTATATG
Found at i:95947290 original size:11 final size:11
Alignment explanation
Indices: 95947274--95947315 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
95947264 AGGTATAGGT
*
95947274 AGGTATGGGAA
1 AGGTATGGGCA
95947285 AGGTATGGGCA
1 AGGTATGGGCA
95947296 AGGTATGGGCA
1 AGGTATGGGCA
*
95947307 AGGGATGGG
1 AGGTATGGG
95947316 TATATTCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.29, C:0.05, G:0.50, T:0.17
Consensus pattern (11 bp):
AGGTATGGGCA
Found at i:95950919 original size:21 final size:21
Alignment explanation
Indices: 95950894--95950943 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
95950884 ATTATTCCAA
*
95950894 TAATATTTATTTTATTA-AATT
1 TAATATTTACTTT-TTATAATT
*
95950915 TAATATATACTTTTTATAATT
1 TAATATTTACTTTTTATAATT
95950936 T-ATATTTA
1 TAATATTTA
95950944 AAAAAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TAATATTTACTTTTTATAATT
Found at i:95953957 original size:23 final size:23
Alignment explanation
Indices: 95953927--95953972 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
95953917 CATTAAGGTG
95953927 ATCACAACTATTGGAGTTTGAGT
1 ATCACAACTATTGGAGTTTGAGT
95953950 ATCACAACTATTGGAGTTTGAGT
1 ATCACAACTATTGGAGTTTGAGT
95953973 GTACTTTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (23 bp):
ATCACAACTATTGGAGTTTGAGT
Found at i:95968354 original size:18 final size:18
Alignment explanation
Indices: 95968331--95968495 Score: 222
Period size: 18 Copynumber: 9.2 Consensus size: 18
95968321 CCCAACTACT
*
95968331 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
95968349 GTATACGTGAATAGTATC
1 GTATACGTGAATAGTACC
* *
95968367 GTATACGTGAATAGTGCT
1 GTATACGTGAATAGTACC
*
95968385 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
95968403 ATATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
95968421 ATATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
* * *
95968439 ATATATGTGAATAGTACT
1 GTATACGTGAATAGTACC
* *
95968457 ATATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
95968475 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
95968493 GTA
1 GTA
95968496 AACGGTCGTA
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 132 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.30
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:95976983 original size:16 final size:16
Alignment explanation
Indices: 95976964--95976994 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
95976954 AAAACAAGAA
95976964 ATTATGAAAATACAAC
1 ATTATGAAAATACAAC
95976980 ATTATGAAAATACAA
1 ATTATGAAAATACAA
95976995 AACATTAATG
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:0.58, C:0.10, G:0.06, T:0.26
Consensus pattern (16 bp):
ATTATGAAAATACAAC
Found at i:95982513 original size:18 final size:18
Alignment explanation
Indices: 95982466--95982539 Score: 85
Period size: 18 Copynumber: 4.1 Consensus size: 18
95982456 CCAACTACTA
*
95982466 TATACGTGAACAGTACCG
1 TATACGTGAATAGTACCG
* * * *
95982484 TATTCATAAATAGTGCCG
1 TATACGTGAATAGTACCG
* *
95982502 TATATGTGAATAGTACTG
1 TATACGTGAATAGTACCG
95982520 TATACGTGAATAGTACCG
1 TATACGTGAATAGTACCG
95982538 TA
1 TA
95982540 AACGGTCGTA
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (18 bp):
TATACGTGAATAGTACCG
Found at i:95985572 original size:2 final size:2
Alignment explanation
Indices: 95985565--95985598 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
95985555 TGTATACTTT
95985565 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
95985599 ACCTCATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:95986491 original size:50 final size:51
Alignment explanation
Indices: 95986408--95986513 Score: 169
Period size: 50 Copynumber: 2.1 Consensus size: 51
95986398 TACAAATTTA
* *
95986408 ACTACCAATTGTCTATTGACTATACTTTGACGCCAC-AGAAAAAGACTAAG
1 ACTACCAATTGTCTATTGACTATACTTTAACGCCACAAAAAAAAGACTAAG
* *
95986458 ACTATCAATTGTCTATTGACTATACTTTAACGCCGCAAAAAAAAGACTAAG
1 ACTACCAATTGTCTATTGACTATACTTTAACGCCACAAAAAAAAGACTAAG
95986509 ACTAC
1 ACTAC
95986514 AAAACAAGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 33 0.66
51 17 0.34
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.26
Consensus pattern (51 bp):
ACTACCAATTGTCTATTGACTATACTTTAACGCCACAAAAAAAAGACTAAG
Found at i:95987261 original size:32 final size:31
Alignment explanation
Indices: 95987225--95987295 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
95987215 AATCCTTTAA
*
95987225 AAATTATAAAGATATAAACTATTAAAATGGTG
1 AAATTATAAAGATAT-AACTATTAAAATAGTG
* ****
95987257 AAATTACATTTTTATAACTATTAAAATAGTG
1 AAATTATAAAGATATAACTATTAAAATAGTG
95987288 AAATTATA
1 AAATTATA
95987296 TTTTTACTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
31 22 0.69
32 10 0.31
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (31 bp):
AAATTATAAAGATATAACTATTAAAATAGTG
Found at i:95987279 original size:31 final size:31
Alignment explanation
Indices: 95987241--95987301 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
95987231 TAAAGATATA
*
95987241 AACTATTAAAATGGTGAAATTACATTTTTAT
1 AACTATTAAAATAGTGAAATTACATTTTTAT
*
95987272 AACTATTAAAATAGTGAAATTATATTTTTA
1 AACTATTAAAATAGTGAAATTACATTTTTA
95987302 CTATCGTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (31 bp):
AACTATTAAAATAGTGAAATTACATTTTTAT
Found at i:95991983 original size:18 final size:18
Alignment explanation
Indices: 95991960--95992032 Score: 101
Period size: 18 Copynumber: 4.1 Consensus size: 18
95991950 CATTTACGGC
95991960 ACTATTCACGTATACAGT
1 ACTATTCACGTATACAGT
*
95991978 ACTATTCACGTATACGGT
1 ACTATTCACGTATACAGT
* *
95991996 ACTATTTATGTATACAGT
1 ACTATTCACGTATACAGT
* *
95992014 ACTGTTCACATATACAGT
1 ACTATTCACGTATACAGT
95992032 A
1 A
95992033 GTTGGGATTG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (18 bp):
ACTATTCACGTATACAGT
Found at i:95997267 original size:17 final size:18
Alignment explanation
Indices: 95997235--95997268 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
95997225 ATTTTAGCCA
*
95997235 ACTACAATATTCAAGTTC
1 ACTACAATAGTCAAGTTC
95997253 ACTACAAT-GTCAAGTT
1 ACTACAATAGTCAAGTT
95997269 TAGTTACATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (18 bp):
ACTACAATAGTCAAGTTC
Found at i:95998875 original size:18 final size:19
Alignment explanation
Indices: 95998831--95998875 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
95998821 TTTTTAATAA
95998831 ATTTACATTTTAATATGTTT
1 ATTTA-ATTTTAATATGTTT
*
95998851 A-TAAATTTTAAT-TGTTT
1 ATTTAATTTTAATATGTTT
95998868 ATTTAATT
1 ATTTAATT
95998876 ATGATTGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 6 0.27
18 13 0.59
19 2 0.09
20 1 0.05
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (19 bp):
ATTTAATTTTAATATGTTT
Found at i:95999107 original size:2 final size:2
Alignment explanation
Indices: 95999102--95999135 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
95999092 CACACCATAA
95999102 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95999136 GAAAATACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96001276 original size:72 final size:72
Alignment explanation
Indices: 96001173--96001393 Score: 340
Period size: 72 Copynumber: 3.1 Consensus size: 72
96001163 GAATTGACAA
*
96001173 TGGAATTTGTCCACTCAATTGGTTGCC-TGACAGGTCTAAATGAGTGAGTTGAAAGAGGTTTCCC
1 TGGAATTTGTCCACTCAATTGGTT-CCATGACAAGTCTAAATGAGTGAGTTGAAAGAGGTTTCCC
*
96001237 AGTGATCT
65 AATGATCT
*
96001245 TGGAATTTGTCCACTCAATTGGTTCCATGACAAGTCTAAATGAGTGAGTTGCAAGAGG-TTCCCA
1 TGGAATTTGTCCACTCAATTGGTTCCATGACAAGTCTAAATGAGTGAGTTGAAAGAGGTTTCCC-
96001309 AATGATCT
65 AATGATCT
* * *
96001317 TGGAATTTGTCCACTCAATTGGTT-CATCGAAAAGTCTAAATGAATGAGTTGAAAGAGATTTCCC
1 TGGAATTTGTCCACTCAATTGGTTCCAT-GACAAGTCTAAATGAGTGAGTTGAAAGAGGTTTCCC
96001381 AATGATCT
65 AATGATCT
96001389 TGGAA
1 TGGAA
96001394 CCGACCCTGA
Statistics
Matches: 138, Mismatches: 7, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
71 10 0.07
72 123 0.89
73 5 0.04
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (72 bp):
TGGAATTTGTCCACTCAATTGGTTCCATGACAAGTCTAAATGAGTGAGTTGAAAGAGGTTTCCCA
ATGATCT
Found at i:96003863 original size:21 final size:21
Alignment explanation
Indices: 96003838--96003893 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
96003828 AACAGCGGTG
*
96003838 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
96003859 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
96003880 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
96003894 AATAGCGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:96007446 original size:32 final size:32
Alignment explanation
Indices: 96007406--96007558 Score: 225
Period size: 32 Copynumber: 4.8 Consensus size: 32
96007396 AAAAAATATG
* *
96007406 ATACATTAGGTTTACGTATAAAAAAGTAGATC
1 ATACATTAGTTTTACATATAAAAAAGTAGATC
* *
96007438 ATACATTAGTTTTGCATATAAAAAAGTAGATA
1 ATACATTAGTTTTACATATAAAAAAGTAGATC
* *
96007470 ATACATTAGGTTCACATATAAAAAAGTAGATC
1 ATACATTAGTTTTACATATAAAAAAGTAGATC
* * *
96007502 ATACATTAGTTTTGCAAATGAAAAAGTAGATC
1 ATACATTAGTTTTACATATAAAAAAGTAGATC
96007534 ATACATTAGTTTTACATATAAAAAA
1 ATACATTAGTTTTACATATAAAAAA
96007559 CTAGCATAGT
Statistics
Matches: 105, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 105 1.00
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.32
Consensus pattern (32 bp):
ATACATTAGTTTTACATATAAAAAAGTAGATC
Found at i:96007491 original size:64 final size:64
Alignment explanation
Indices: 96007406--96007558 Score: 252
Period size: 64 Copynumber: 2.4 Consensus size: 64
96007396 AAAAAATATG
* *
96007406 ATACATTAGGTTTACGTATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGTAGATA
1 ATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCAAATAAAAAAGTAGATA
* * *
96007470 ATACATTAGGTTCACATATAAAAAAGTAGATCATACATTAGTTTTGCAAATGAAAAAGTAGATC
1 ATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCAAATAAAAAAGTAGATA
*
96007534 ATACATTAGTTTTACATATAAAAAA
1 ATACATTAGGTTTACATATAAAAAA
96007559 CTAGCATAGT
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 82 1.00
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.32
Consensus pattern (64 bp):
ATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCAAATAAAAAAGTAGATA
Found at i:96009885 original size:18 final size:19
Alignment explanation
Indices: 96009850--96009885 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
96009840 ATGATATTAA
96009850 TGATATACCTACAAGGTAG
1 TGATATACCTACAAGGTAG
96009869 TGATATACCTA-AAGGTA
1 TGATATACCTACAAGGTA
96009886 TGAAAACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (19 bp):
TGATATACCTACAAGGTAG
Found at i:96018553 original size:21 final size:21
Alignment explanation
Indices: 96018527--96018567 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
96018517 AGACAAGCGA
* *
96018527 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
96018548 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
96018568 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:96022083 original size:18 final size:18
Alignment explanation
Indices: 96022047--96022086 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
96022037 ACTATACAAG
**
96022047 GCTCGCACCTTTTGATGA
1 GCTCGCACCACTTGATGA
*
96022065 GCTCGCACCACTTGCTGA
1 GCTCGCACCACTTGATGA
96022083 GCTC
1 GCTC
96022087 ATAACTCGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.35, G:0.23, T:0.28
Consensus pattern (18 bp):
GCTCGCACCACTTGATGA
Found at i:96028216 original size:21 final size:21
Alignment explanation
Indices: 96028190--96028230 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
96028180 AGACAAGCGA
* *
96028190 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
96028211 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
96028231 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:96031725 original size:18 final size:18
Alignment explanation
Indices: 96031689--96031728 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
96031679 ACTATACAAG
**
96031689 GCTCGCACCTTTTGATGA
1 GCTCGCACCACTTGATGA
*
96031707 GCTCGCACCACTTGCTGA
1 GCTCGCACCACTTGATGA
96031725 GCTC
1 GCTC
96031729 ATAACTCGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.35, G:0.23, T:0.28
Consensus pattern (18 bp):
GCTCGCACCACTTGATGA
Found at i:96037861 original size:21 final size:21
Alignment explanation
Indices: 96037835--96037875 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
96037825 AGACAAGCGA
* *
96037835 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
96037856 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
96037876 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:96041369 original size:18 final size:18
Alignment explanation
Indices: 96041333--96041372 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
96041323 ACTATACAAG
**
96041333 GCTCGCACCTTTTGATGA
1 GCTCGCACCACTTGATGA
*
96041351 GCTCGCACCACTTGCTGA
1 GCTCGCACCACTTGATGA
96041369 GCTC
1 GCTC
96041373 ATAACTCGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.35, G:0.23, T:0.28
Consensus pattern (18 bp):
GCTCGCACCACTTGATGA
Done.