Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 170 of 205
Found at i:50619907 original size:23 final size:22
Alignment explanation
Indices: 50619881--50619924 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
50619871 TTTATGAATT
50619881 TATTATTAGTTTTTAATATTATG
1 TATTATTA-TTTTTAATATTATG
*
50619904 TATTATTATTTTTTATATTAT
1 TATTATTATTTTTAATATTAT
50619925 TTTTAAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (22 bp):
TATTATTATTTTTAATATTATG
Found at i:50620429 original size:6 final size:6
Alignment explanation
Indices: 50620418--50620442 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
50620408 AGGGTTTTTC
50620418 TTCTTT TTCTTT TTCTTT TTCTTT T
1 TTCTTT TTCTTT TTCTTT TTCTTT T
50620443 CTAATAGTAG
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:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTCTTT
Found at i:50626050 original size:45 final size:45
Alignment explanation
Indices: 50625977--50626126 Score: 201
Period size: 45 Copynumber: 3.3 Consensus size: 45
50625967 TACTACGTGT
* * * *
50625977 ACCGAGTATCATTGATTGTAACGATGGTTGTTATGTGTTGATTCC
1 ACCGAGTACCATTGATTATAAAGGTGGTTGTTATGTGTTGATTCC
* * *
50626022 ACCGGGTACCATTGATTATAAAGGTGGTTGTTATGTGCTAATTCC
1 ACCGAGTACCATTGATTATAAAGGTGGTTGTTATGTGTTGATTCC
* * *
50626067 ACCGGGCACCATTGATTATAAAGGTGGTTGCTATGTGTTGATTCC
1 ACCGAGTACCATTGATTATAAAGGTGGTTGTTATGTGTTGATTCC
*
50626112 ACCGAGTATCATTGA
1 ACCGAGTACCATTGA
50626127 CTCTAAGGGT
Statistics
Matches: 91, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 91 1.00
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (45 bp):
ACCGAGTACCATTGATTATAAAGGTGGTTGTTATGTGTTGATTCC
Found at i:50626138 original size:45 final size:45
Alignment explanation
Indices: 50625977--50626164 Score: 200
Period size: 45 Copynumber: 4.2 Consensus size: 45
50625967 TACTACGTGT
* * * * *
50625977 ACCGAGTATCATTGATTGTAACGATGGTTGTTATGTGTTGATTCC
1 ACCGAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
* * * *
50626022 ACCGGGTACCATTGATTATAAAGGTGGTTGTTATGTGCTAATTCC
1 ACCGAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
* * * *
50626067 ACCGGGCACCATTGATTATAAAGGTGGTTGCTATGTGTTGATTCC
1 ACCGAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
* * * *
50626112 ACCGAGTATCATTGACTCTAAGGGTGG-TGCTGTGTGCTGA-TCC
1 ACCGAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
*
50626155 ACCGTGTATC
1 ACCGAGTATC
50626165 TGTTATTATT
Statistics
Matches: 123, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
43 12 0.10
44 11 0.09
45 100 0.81
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.35
Consensus pattern (45 bp):
ACCGAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
Found at i:50631599 original size:43 final size:43
Alignment explanation
Indices: 50631552--50631768 Score: 274
Period size: 43 Copynumber: 5.0 Consensus size: 43
50631542 TTTTAGAAAT
** *
50631552 AAACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
** * ** *
50631595 AAACGTTGCTAAAGACCAGGACCTTTAGCGGC-AATTTCTTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTC-CCAC
*
50631638 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * **
50631681 AAACGCCGCTAAATACCATGACCTTTAGCAGCGCTTTTGTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* *
50631724 AAACGCCGCTATAGACCATGACCTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
50631767 AA
1 AA
50631769 GATATTTAGC
Statistics
Matches: 145, Mismatches: 27, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
42 4 0.03
43 137 0.94
44 4 0.03
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:50631704 original size:86 final size:86
Alignment explanation
Indices: 50631552--50631768 Score: 310
Period size: 86 Copynumber: 2.5 Consensus size: 86
50631542 TTTTAGAAAT
* ** * **
50631552 AAACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTCCCACAAACGTTGCTAAAGACCAGGAC
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
*
50631617 CTTTAGCGGCAATTTCT-TCAC
66 CTTTAGCAGCAATTT-TGTCAC
* *
50631638 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAATACCATGAC
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
**
50631703 CTTTAGCAGCGCTTTTGTCAC
66 CTTTAGCAGCAATTTTGTCAC
*
50631724 AAACGCCGCTATAGACCATGACCTTTAGCGACGCTTTTCCCACAA
1 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCACAA
50631769 GATATTTAGC
Statistics
Matches: 118, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
85 1 0.01
86 117 0.99
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (86 bp):
AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
CTTTAGCAGCAATTTTGTCAC
Found at i:50631844 original size:43 final size:44
Alignment explanation
Indices: 50631790--50631905 Score: 128
Period size: 43 Copynumber: 2.7 Consensus size: 44
50631780 ACGTTTTTCC
* ** * ** *
50631790 CAAAAACGCCGCTAAAGGTCATGACCTTTAGCGG-TGTTTTTGT
1 CAAAAATGCCGCTAAAGAACATGACCTTTAACGGCACTTTTTAT
*
50631833 CACAAATGCCGCTAAAGAACATGACCTTTAACGGCACTTTTTAT
1 CAAAAATGCCGCTAAAGAACATGACCTTTAACGGCACTTTTTAT
* *
50631877 CAAAAATGCCGCTATAGAACA-AACCTTTA
1 CAAAAATGCCGCTAAAGAACATGACCTTTA
50631906 GCGACGCTTC
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 36 0.59
44 25 0.41
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (44 bp):
CAAAAATGCCGCTAAAGAACATGACCTTTAACGGCACTTTTTAT
Found at i:50631858 original size:112 final size:112
Alignment explanation
Indices: 50631661--50631862 Score: 296
Period size: 112 Copynumber: 1.8 Consensus size: 112
50631651 GACCATGACC
* * *
50631661 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAATACCATGACCTTTAGCAGCGCTTTTGTCACAA
1 TTTAGCGACGCTTTTCCCAAAAACGCCGCTAAAGACCATGACCTTTAGCAGCGCTTTTGTCACAA
* *
50631726 ACGCCGCTATAGACCATGACCTTTAGCGACGCTTTTCCCACAAGATA
66 ACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTCCCACAAGATA
* ** * * *
50631773 TTTAGCGACGTTTTTCCCAAAAACGCCGCTAAAGGTCATGACCTTTAGCGGTGTTTTTGTCACAA
1 TTTAGCGACGCTTTTCCCAAAAACGCCGCTAAAGACCATGACCTTTAGCAGCGCTTTTGTCACAA
*
50631838 ATGCCGCTAAAGAACATGACCTTTA
66 ACGCCGCTAAAGAACATGACCTTTA
50631863 ACGGCACTTT
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
112 78 1.00
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.28
Consensus pattern (112 bp):
TTTAGCGACGCTTTTCCCAAAAACGCCGCTAAAGACCATGACCTTTAGCAGCGCTTTTGTCACAA
ACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTCCCACAAGATA
Found at i:50633311 original size:16 final size:16
Alignment explanation
Indices: 50633287--50633321 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
50633277 TTTCCACTGA
*
50633287 CAAATTATAACAAAGG
1 CAAAATATAACAAAGG
50633303 CAAAATATAACAAAGG
1 CAAAATATAACAAAGG
50633319 CAA
1 CAA
50633322 TACCTTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.60, C:0.14, G:0.11, T:0.14
Consensus pattern (16 bp):
CAAAATATAACAAAGG
Found at i:50634453 original size:19 final size:19
Alignment explanation
Indices: 50634429--50634467 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
50634419 AGTGAGAAGA
50634429 TAAACTTCAGTCTGATTCT
1 TAAACTTCAGTCTGATTCT
50634448 TAAACTTCAGTCTGATTCT
1 TAAACTTCAGTCTGATTCT
50634467 T
1 T
50634468 CAGTATCTAA
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:0.26, C:0.21, G:0.10, T:0.44
Consensus pattern (19 bp):
TAAACTTCAGTCTGATTCT
Found at i:50635422 original size:88 final size:87
Alignment explanation
Indices: 50635295--50635467 Score: 310
Period size: 88 Copynumber: 2.0 Consensus size: 87
50635285 TAGCAGATTA
50635295 TATTAGAACATTGTTTTCATTAAAAATATGTACAAGTTAAAATGACTAACTTCTTAGCAGAATCA
1 TATTAGAACATTGTTTTCATTAAAAATATGTACAAGTTAAAATGACTAACTTCTTAGCAGAATCA
50635360 GCAGCCTTAATGGAGGCAGATC
66 GCAGCCTTAATGGAGGCAGATC
* * *
50635382 TATTAGAACATTTTTTTCCTTAAAAAATATGTATAAGTTAAAATGACTAACTTCTTAGCAGAATC
1 TATTAGAACATTGTTTTCATT-AAAAATATGTACAAGTTAAAATGACTAACTTCTTAGCAGAATC
50635447 AGCAGCCTTAATGGAGGCAGA
65 AGCAGCCTTAATGGAGGCAGA
50635468 GTCAGGGGCT
Statistics
Matches: 82, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
87 19 0.23
88 63 0.77
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (87 bp):
TATTAGAACATTGTTTTCATTAAAAATATGTACAAGTTAAAATGACTAACTTCTTAGCAGAATCA
GCAGCCTTAATGGAGGCAGATC
Found at i:50636269 original size:20 final size:20
Alignment explanation
Indices: 50636244--50636306 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
50636234 AAAATAAAAG
*
50636244 TTTAAAATCTTTTTAAAATT
1 TTTAAAATCATTTTAAAATT
* **
50636264 TTTAAAA-AAAATTAAAATCT
1 TTTAAAATCATTTTAAAAT-T
50636284 TTTAAAATTCATTTTAAAATT
1 TTTAAAA-TCATTTTAAAATT
50636305 TT
1 TT
50636307 AAATCACGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
19 7 0.21
20 15 0.45
21 3 0.09
22 8 0.24
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTAAAATCATTTTAAAATT
Found at i:50636288 original size:10 final size:10
Alignment explanation
Indices: 50636244--50636303 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
50636234 AAAATAAAAG
50636244 TTTAAAATCTT
1 TTTAAAATC-T
50636255 TTTAAAAT-T
1 TTTAAAATCT
***
50636264 TTTAAAAAAA
1 TTTAAAATCT
*
50636274 ATTAAAATCT
1 TTTAAAATCT
50636284 TTTAAAATTCAT
1 TTTAAAA-TC-T
50636296 TTTAAAAT
1 TTTAAAAT
50636304 TTTAAATCAC
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
9 8 0.21
10 12 0.31
11 11 0.28
12 8 0.21
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (10 bp):
TTTAAAATCT
Found at i:50636309 original size:30 final size:30
Alignment explanation
Indices: 50636237--50636309 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
50636227 TATTATAAAA
*
50636237 ATAAAAGTTTAAAATCTTTTTAAAATTTTT
1 ATAAAAATTTAAAATCTTTTTAAAATTTTT
* *
50636267 AAAAAAAATTAAAATC-TTTTAAAATTCATTT
1 ATAAAAATTTAAAATCTTTTTAAAATT--TTT
*
50636298 -TAAAATTTTAAA
1 ATAAAAATTTAAA
50636310 TCACGAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
29 10 0.29
30 22 0.63
31 3 0.09
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (30 bp):
ATAAAAATTTAAAATCTTTTTAAAATTTTT
Found at i:50637671 original size:41 final size:41
Alignment explanation
Indices: 50637609--50637887 Score: 364
Period size: 41 Copynumber: 6.8 Consensus size: 41
50637599 AGATTTTATT
*
50637609 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTATGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGC
* *
50637650 ATTAGTGGCGCTTCTTT-AAAAACGTCGCTAAAGGTACGAGC
1 ATTAGCGGCGCTT-TTTCAAAAACGCCGCTAAAGGTACGAGC
50637691 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGC
* ** * *
50637732 ATTCGCGGTACCTTTTCAAAAACGCCGCTAAAGGTACAAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGC
* * ** *
50637773 ATTAGCGGCTCTTATTCAAAAACAACGCTAAAGGTACGAGT
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGC
* **
50637814 ATTAGCGGCACTTTTTCAAAAACGCCGCTAAA-GCCCGGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTAC-GAGC
* *
50637855 ATTAGCGGTGCTTTTTCAAAAACGCCACTAAAG
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAG
50637888 ACCCCAAAAA
Statistics
Matches: 205, Mismatches: 29, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
40 5 0.02
41 197 0.96
42 3 0.01
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGC
Found at i:50638075 original size:41 final size:41
Alignment explanation
Indices: 50637951--50638077 Score: 124
Period size: 40 Copynumber: 3.2 Consensus size: 41
50637941 TTGGAAAATG
*
50637951 CCGCTAATGCTT-ATTTTTAGCGGCG---TTGTCCAAAATGCA
1 CCGCTAATGCTTGATTTTTAGTGGCGTTTTTGTCC-AAA-GCA
* * *
50637990 CCGCTAATGCTCGATATTTA-TCGGCGTTTTTGT-AAAAGCA
1 CCGCTAATGCTTGATTTTTAGT-GGCGTTTTTGTCCAAAGCA
*
50638030 CCGCTAATGCTTGATTTTTAGTGGCGTTTTTTGTCCAAA-CG
1 CCGCTAATGCTTGATTTTTAGTGGCG-TTTTTGTCCAAAGCA
50638071 CCGCTAA
1 CCGCTAA
50638078 AAGTGCCGCT
Statistics
Matches: 72, Mismatches: 8, Indels: 14
0.77 0.09 0.15
Matches are distributed among these distances:
39 11 0.15
40 35 0.49
41 19 0.26
42 3 0.04
43 4 0.06
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.35
Consensus pattern (41 bp):
CCGCTAATGCTTGATTTTTAGTGGCGTTTTTGTCCAAAGCA
Found at i:50642395 original size:272 final size:272
Alignment explanation
Indices: 50641879--50642430 Score: 847
Period size: 272 Copynumber: 2.0 Consensus size: 272
50641869 AGCAGAGTAA
** *
50641879 CAATATTTTAAAGTTGTGTAAATAGCCCTGCTGGTGCCATCTATTTATTGGGAGAGAATGTAGAA
1 CAATATTTTAAAGTTGTGTAAATAGCCCTGCTGGTGCCATCTATTTATAAGAAGAGAATGTAGAA
* * *
50641944 CCCTTATTTAATTATAGAAGTTTATTTTAACTAGAAAAACGAAATCTTAGTTCAACTAGGATGTA
66 CCCTTATTTAATTATAGAAGTTCATTTTAACTAGAAAAACAAAACCTTAGTTCAACTAGGATGTA
* * *
50642009 GGGGGTGACAACCTTAGTTAATGATACTATGATTTGTTGTCCCACCTTATAAGATAAAGGGCTTT
131 GGGGGCGACAACCTTAGTTAATGATACTATGACTTGTTGTCCCACCTTATAACATAAAGGGCTTT
* * * *
50642074 TAGGCTTCTTCCCTATTGGGTCTAATTATAAGTACTTCTCGGGCTTTTAATCCAATACTTTATAA
196 TAGGCTTCTTCCCTATCGGGTATAATTACAAGTACTTCTCGGACTTTTAATCCAATACTTTATAA
50642139 TTTGATTCAACC
261 TTTGATTCAACC
* * **
50642151 CAATATTTTAAAGTTGTGTAAATAGCCTTTCTGGTGTTATCTATTTATAAGAAGAGAATGTAGAA
1 CAATATTTTAAAGTTGTGTAAATAGCCCTGCTGGTGCCATCTATTTATAAGAAGAGAATGTAGAA
* *
50642216 CCCTTATTTATTTATAGAAGTTCATTTTAACTAGAAAAACAAAACCTTAGTTCAACTCGGATGTA
66 CCCTTATTTAATTATAGAAGTTCATTTTAACTAGAAAAACAAAACCTTAGTTCAACTAGGATGTA
* *
50642281 GGGGGCGACAACCTTAGTTAATGATATTATGACTTGTTGTCTCACCTTATAACATAATA-GGCTT
131 GGGGGCGACAACCTTAGTTAATGATACTATGACTTGTTGTCCCACCTTATAACATAA-AGGGCTT
* *
50642345 TTAGGCTTCTTTCCTATCGGGTATAATTACAAGTGCTTCTTC-GACTTTTAATCCAATACTTTAT
195 TTAGGCTTCTTCCCTATCGGGTATAATTACAAGTACTTC-TCGGACTTTTAATCCAATACTTTAT
**
50642409 AATTTGATTCAATT
259 AATTTGATTCAACC
50642423 CAATATTT
1 CAATATTT
50642431 GTTTTTCTAT
Statistics
Matches: 253, Mismatches: 25, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
272 250 0.99
273 3 0.01
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (272 bp):
CAATATTTTAAAGTTGTGTAAATAGCCCTGCTGGTGCCATCTATTTATAAGAAGAGAATGTAGAA
CCCTTATTTAATTATAGAAGTTCATTTTAACTAGAAAAACAAAACCTTAGTTCAACTAGGATGTA
GGGGGCGACAACCTTAGTTAATGATACTATGACTTGTTGTCCCACCTTATAACATAAAGGGCTTT
TAGGCTTCTTCCCTATCGGGTATAATTACAAGTACTTCTCGGACTTTTAATCCAATACTTTATAA
TTTGATTCAACC
Found at i:50642660 original size:6 final size:6
Alignment explanation
Indices: 50642649--50642689 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
50642639 AATTTTCAAG
50642649 TCATTT TCATTT TACAATTT TCATTT TCATTT TCATTT TCA
1 TCATTT TCATTT T-C-ATTT TCATTT TCATTT TCATTT TCA
50642690 GTTTAGAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 26 0.79
7 2 0.06
8 5 0.15
ACGTcount: A:0.22, C:0.17, G:0.00, T:0.61
Consensus pattern (6 bp):
TCATTT
Found at i:50642674 original size:20 final size:18
Alignment explanation
Indices: 50642649--50642689 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 18
50642639 AATTTTCAAG
50642649 TCATTTTCATTTTACAATTT
1 TCATTTTCATTTT-C-ATTT
50642669 TCATTTTCATTTTCATTT
1 TCATTTTCATTTTCATTT
50642687 TCA
1 TCA
50642690 GTTTAGAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 7 0.33
19 1 0.05
20 13 0.62
ACGTcount: A:0.22, C:0.17, G:0.00, T:0.61
Consensus pattern (18 bp):
TCATTTTCATTTTCATTT
Found at i:50642804 original size:16 final size:15
Alignment explanation
Indices: 50642779--50642813 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
50642769 TTCCAAAATG
*
50642779 TTTCCTATTTCTCCA
1 TTTCCTATTTCACCA
50642794 TTTCTCTATTTCACCA
1 TTTC-CTATTTCACCA
50642810 TTTC
1 TTTC
50642814 ACAATTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.14, C:0.31, G:0.00, T:0.54
Consensus pattern (15 bp):
TTTCCTATTTCACCA
Found at i:50645043 original size:51 final size:52
Alignment explanation
Indices: 50644966--50645094 Score: 181
Period size: 52 Copynumber: 2.5 Consensus size: 52
50644956 CGGATACCCG
*
50644966 GTGG-CTTGCACATAGTACCACCCTTGTAGCCAAAGCTA-CCTTCTTCACAAA
1 GTGGCCTT-CACATAGTACCACACTTGTAGCCAAAGCTATCCTTCTTCACAAA
** * *
50645017 GTGGCCTTCACATAGTACCACACTTGTTTCCACAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTAGCCAAAGCTATCCTTCTTCACAAA
*
50645069 GTGGCATTCACATAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
50645095 AGTCACTAGT
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
51 30 0.43
52 40 0.57
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (52 bp):
GTGGCCTTCACATAGTACCACACTTGTAGCCAAAGCTATCCTTCTTCACAAA
Found at i:50646506 original size:25 final size:25
Alignment explanation
Indices: 50646471--50646521 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
50646461 TGAGGGCTAG
*
50646471 GGTTTCTTTTAGTTCATTT-TTTTTA
1 GGTTTCATTTA-TTCATTTATTTTTA
*
50646496 GGTTTCATTTATTTATTTATTTTTA
1 GGTTTCATTTATTCATTTATTTTTA
50646521 G
1 G
50646522 TTCTGTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.16, C:0.06, G:0.12, T:0.67
Consensus pattern (25 bp):
GGTTTCATTTATTCATTTATTTTTA
Found at i:50648854 original size:12 final size:12
Alignment explanation
Indices: 50648832--50648866 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
50648822 AATATAAATA
50648832 AATAGGTAATAAT
1 AATA-GTAATAAT
50648845 AATAGTAATAAT
1 AATAGTAATAAT
*
50648857 AATAATAATA
1 AATAGTAATA
50648867 GGACTAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (12 bp):
AATAGTAATAAT
Found at i:50650625 original size:44 final size:44
Alignment explanation
Indices: 50650563--50650986 Score: 203
Period size: 44 Copynumber: 9.8 Consensus size: 44
50650553 CCTTTATTTT
* * * *
50650563 AATCCGCTCCATTATAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * *
50650607 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA-AATTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-GCTTC
** * * * * *
50650653 GGTCTGTTCCACTGTAATCTCAGGGAAATAAGA--CCT-GGTGC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * * ***
50650694 GATCTACTCTACTGTAA-CTTCAGAGAGATAAGA-TCCTTTATTC
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTACTAGCTTC
* * *
50650737 TAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTAGCTTC
1 -AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* **
50650782 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT--TGAAATTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACT-AGCTTC
* * * * * *
50650825 -TTCGGTTCCACTGTAATCTCAGGG-GAATAAGA--CCT-GGTGC
1 AATCTGCTCCACTGTAATCTCAGGGAG-ATAAGATTACTAGCTTC
* * * * * * * *
50650865 GATCTACTCTACTGTAA-CTTCAGAGAGATAAGA-TCCTTGGTTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTAC-TAGCTTC
* * * * * * *
50650909 AATCCGCTCCACTGTAAACTCAGGAAGATAGGAATACCAGTTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* *
50650953 AATCTACTCCGCTGTAATCTCAGGGAGATAAGAT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT
50650987 CTGAAATTCT
Statistics
Matches: 283, Mismatches: 75, Indels: 44
0.70 0.19 0.11
Matches are distributed among these distances:
40 4 0.01
41 50 0.18
42 34 0.12
43 7 0.02
44 143 0.51
45 12 0.04
46 33 0.12
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
Found at i:50650719 original size:175 final size:172
Alignment explanation
Indices: 50650518--50650999 Score: 786
Period size: 171 Copynumber: 2.8 Consensus size: 172
50650508 AGATCTGAAA
* * * *
50650518 CGATCTACTCTACTGTAACCTCAGAGAAATAAGATCCTTTATTTTAATCCGCTCCATTATAATCT
1 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCT
50650583 CAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
66 CAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
50650648 TCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
131 TCTTCGG---GTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
*
50650693 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTCTAATCCGCTCCACTGTAATCT
1 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCT
* *
50650758 CAGAGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTGAAAT
66 CAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
*
50650823 TCTTC-GGTTCCACTGTAATCTCAGGGGAATAAGACCTGGTG
131 TCTTCGGGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
** *
50650864 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGGTTTTAATCCGCTCCACTGTAAACT
1 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCT
* * * * *
50650929 CAGGAAGATAGGAATACCAGTTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
66 CAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
50650994 TCTTCG
131 TCTTCG
50651000 ATCTACTTCG
Statistics
Matches: 287, Mismatches: 19, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
171 158 0.55
174 1 0.00
175 128 0.45
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (172 bp):
CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCT
CAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
TCTTCGGGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
Found at i:50652326 original size:9 final size:9
Alignment explanation
Indices: 50652311--50652345 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
50652301 CCTCTCACAA
50652311 GTTTTTTGTT
1 GTTTTTT-TT
50652321 -TTTTTTTT
1 GTTTTTTTT
50652329 GTTTTTTTT
1 GTTTTTTTT
50652338 GTTTTTTT
1 GTTTTTTT
50652346 AGGAAGCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 2 0.08
9 22 0.92
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (9 bp):
GTTTTTTTT
Found at i:50652328 original size:11 final size:11
Alignment explanation
Indices: 50652312--50652345 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
50652302 CTCTCACAAG
50652312 TTTTTTGTTTT
1 TTTTTTGTTTT
50652323 TTTTTTG--TT
1 TTTTTTGTTTT
50652332 TTTTTTGTTTT
1 TTTTTTGTTTT
50652343 TTT
1 TTT
50652346 AGGAAGCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.43
11 12 0.57
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:50669793 original size:7 final size:7
Alignment explanation
Indices: 50669777--50669828 Score: 70
Period size: 7 Copynumber: 7.4 Consensus size: 7
50669767 ATTTCAAAAA
*
50669777 AAAAAAG
1 AAAAATG
*
50669784 AAAGATG
1 AAAAATG
50669791 AAAAATG
1 AAAAATG
50669798 AAAAATG
1 AAAAATG
50669805 -AAAATG
1 AAAAATG
50669811 AAAAATG
1 AAAAATG
50669818 AAAAAATG
1 -AAAAATG
50669826 AAA
1 AAA
50669829 GAGTAAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
6 6 0.15
7 27 0.68
8 7 0.17
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:50669800 original size:14 final size:15
Alignment explanation
Indices: 50669776--50669828 Score: 67
Period size: 13 Copynumber: 3.7 Consensus size: 15
50669766 GATTTCAAAA
* *
50669776 AAAAAAAGAAAGATG
1 AAAAAATGAAAAATG
50669791 -AAAAATGAAAAATG
1 AAAAAATGAAAAATG
50669805 --AAAATGAAAAATG
1 AAAAAATGAAAAATG
50669818 AAAAAATGAAA
1 AAAAAATGAAA
50669829 GAGTAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
13 13 0.38
14 12 0.35
15 9 0.26
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (15 bp):
AAAAAATGAAAAATG
Found at i:50671336 original size:87 final size:87
Alignment explanation
Indices: 50671061--50671477 Score: 646
Period size: 87 Copynumber: 4.8 Consensus size: 87
50671051 AGATCAGTGA
* *
50671061 AGATCAAAAATAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAT-AGCAGATCTTG
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATGA-CAGATCTTG
* *
50671125 CCTTCCTGCTTTAACAGTGAAGC
65 CCTTCCTGCGTTAACAGCGAAGC
* * * * *
50671148 AGATCGAAAACAAAGCCTTACCTCTATCGATTGCAGTGGAGCTGGTTAAAGAAG-CAGATCTCGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATGACAGATCTTGC
* *
50671212 CTTCCTACAG--ATCAGCGAAGC
66 CTTCCTGC-GTTAACAGCGAAGC
*
50671233 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAGAGATGACAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATGACAGATCTTGC
50671298 CTTCCTGCGTTAACAGCGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
*
50671320 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAGAGATGACAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATGACAGATCTTGC
50671385 CTTCCTGCGTTAACAGCGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
*
50671407 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTAGAGCTGGTTAAAGAT-ACCAGATCTTG
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATGA-CAGATCTTG
50671471 CCTTCCT
65 CCTTCCT
50671478 AAGCACTAGC
Statistics
Matches: 303, Mismatches: 21, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
85 59 0.19
86 33 0.11
87 211 0.70
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATGACAGATCTTGC
CTTCCTGCGTTAACAGCGAAGC
Found at i:50671342 original size:43 final size:43
Alignment explanation
Indices: 50671293--50671429 Score: 120
Period size: 43 Copynumber: 3.2 Consensus size: 43
50671283 GATGACAGAT
50671293 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGC
* * * * * * * * *
50671336 CTTGCC-TCCAT-CGGTT-GCAGTGGAGCTGGTTAGAGATGACAGA-T
1 CTTGCCTTCC-TGC-GTTAACAGCGAAGC-AGATCGA-A-AACAAAGC
50671380 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGC
50671423 CTTGCCT
1 CTTGCCT
50671430 CCATCGGTTG
Statistics
Matches: 67, Mismatches: 18, Indels: 18
0.65 0.17 0.17
Matches are distributed among these distances:
42 15 0.22
43 22 0.33
44 15 0.22
45 15 0.22
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.23
Consensus pattern (43 bp):
CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGC
Found at i:50671358 original size:172 final size:173
Alignment explanation
Indices: 50671061--50671477 Score: 651
Period size: 172 Copynumber: 2.4 Consensus size: 173
50671051 AGATCAGTGA
* * *
50671061 AGATCAAAAATAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATACCAGATCTTGC
* * *
50671126 CTTCCTGCTTTAACAGTGAAGCAGATCGAAAACAAAGCCTTACCTCTATCGATTGCAGTGGAGCT
66 CTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTACCTCCATCGATTGCAGTGGAGCT
*
50671191 GGTTAAAGAAG-CAGATCTCGCCTTCCTACAG-ATCAGCGAAGC
131 GGTTAAAGAAGACAGATCTCGCCTTCCTAC-GTAACAGCGAAGC
*
50671233 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAGAGATGA-CAGATCTTG
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAT-ACCAGATCTTG
* *
50671297 CCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGC
65 CCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTACCTCCATCGATTGCAGTGGAGC
* * * *
50671362 TGGTTAGAGATGACAGATCTTGCCTTCCTGCGTTAACAGCGAAGC
130 TGGTTAAAGAAGACAGATCTCGCCTTCCTACG-TAACAGCGAAGC
*
50671407 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTAGAGCTGGTTAAAGATACCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATACCAGATCTTGC
50671472 CTTCCT
66 CTTCCT
50671478 AAGCACTAGC
Statistics
Matches: 225, Mismatches: 15, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
172 130 0.58
173 18 0.08
174 77 0.34
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (173 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATACCAGATCTTGC
CTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTACCTCCATCGATTGCAGTGGAGCT
GGTTAAAGAAGACAGATCTCGCCTTCCTACGTAACAGCGAAGC
Found at i:50673487 original size:18 final size:18
Alignment explanation
Indices: 50673464--50673503 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
50673454 TCATACCATA
50673464 CATAGCCTCAACCACAAC
1 CATAGCCTCAACCACAAC
50673482 CATAGCCTCAACCACAAC
1 CATAGCCTCAACCACAAC
50673500 CATA
1 CATA
50673504 TATACAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.42, G:0.05, T:0.12
Consensus pattern (18 bp):
CATAGCCTCAACCACAAC
Found at i:50673970 original size:27 final size:27
Alignment explanation
Indices: 50673939--50673993 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
50673929 ATACATGAAT
*
50673939 TCATTTCAATATT-CATATCCCATTTCA
1 TCATTTC-ATATTCCATATCCCATCTCA
*
50673966 TCATTTCATATTCCATTTCCCATCTCA
1 TCATTTCATATTCCATATCCCATCTCA
50673993 T
1 T
50673994 ATCCATTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.25, C:0.29, G:0.00, T:0.45
Consensus pattern (27 bp):
TCATTTCATATTCCATATCCCATCTCA
Found at i:50673975 original size:20 final size:18
Alignment explanation
Indices: 50673950--50674006 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 18
50673940 CATTTCAATA
50673950 TTCATATCCCATTTCATCAT
1 TTCATAT-CCATTTC-TCAT
*
50673970 TTCATATTCCATTTCCCAT
1 TTCATA-TCCATTTCTCAT
*
50673989 CTCATATCCATTTCTCAT
1 TTCATATCCATTTCTCAT
50674007 CCTTGTCATC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 11 0.33
19 8 0.24
20 13 0.39
21 1 0.03
ACGTcount: A:0.23, C:0.32, G:0.00, T:0.46
Consensus pattern (18 bp):
TTCATATCCATTTCTCAT
Found at i:50675714 original size:18 final size:18
Alignment explanation
Indices: 50675691--50675726 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
50675681 ATCAACCATG
50675691 TAATGCTAATGAGAGGAT
1 TAATGCTAATGAGAGGAT
50675709 TAATGCTAATGAGAGGAT
1 TAATGCTAATGAGAGGAT
50675727 ATCATTTACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.28, T:0.28
Consensus pattern (18 bp):
TAATGCTAATGAGAGGAT
Found at i:50680262 original size:18 final size:18
Alignment explanation
Indices: 50680239--50680297 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 18
50680229 ATTTTCCCAT
*
50680239 AAAATATTAAAAAATAAG
1 AAAATATTAAAAAATAAA
50680257 AAAATATTATAGAAAAATAAA
1 AAAATA-T-TA-AAAAATAAA
50680278 AAAATATTAAAAAATGAAA
1 AAAATATTAAAAAAT-AAA
50680297 A
1 A
50680298 TTGATATAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
18 12 0.33
19 7 0.19
20 3 0.08
21 14 0.39
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (18 bp):
AAAATATTAAAAAATAAA
Found at i:50680289 original size:9 final size:9
Alignment explanation
Indices: 50680239--50680382 Score: 55
Period size: 9 Copynumber: 15.6 Consensus size: 9
50680229 ATTTTCCCAT
50680239 AAAATATTA
1 AAAATATTA
*
50680248 AAAA-ATAA
1 AAAATATTA
50680256 GAAAATATTA
1 -AAAATATTA
* *
50680266 TAGAAAAATAAA
1 -A-AAATAT-TA
50680278 AAAATATTA
1 AAAATATTA
*
50680287 AAAA-ATGA
1 AAAATATTA
*
50680295 AAATTGA-TA
1 AAAAT-ATTA
*
50680304 TAAAATTTTA
1 -AAAATATTA
50680314 AAAATCA-TA
1 AAAAT-ATTA
*
50680323 AAATTATTA
1 AAAATATTA
* *
50680332 ACAATTATAA
1 A-AAATATTA
50680342 AAAATA-TA
1 AAAATATTA
*
50680350 AAACTAATTA
1 AAAAT-ATTA
* *
50680360 AACATATTT
1 AAAATATTA
*
50680369 AAAATATTT
1 AAAATATTA
50680378 AAAAT
1 AAAAT
50680383 TTTGTAAAAA
Statistics
Matches: 100, Mismatches: 22, Indels: 26
0.68 0.15 0.18
Matches are distributed among these distances:
8 15 0.15
9 49 0.49
10 29 0.29
11 6 0.06
12 1 0.01
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAATATTA
Found at i:50680314 original size:27 final size:24
Alignment explanation
Indices: 50680278--50680347 Score: 68
Period size: 27 Copynumber: 2.7 Consensus size: 24
50680268 GAAAAATAAA
*
50680278 AAAATATTAAAAAATGAAAATTGATAT
1 AAAATTTTAAAAAAT-AAAATT-AT-T
50680305 AAAATTTTAAAAATCATAAAATTATT
1 AAAATTTTAAAAA--ATAAAATTATT
*
50680331 AACAATTATAAAAAATA
1 AA-AATTTTAAAAAATA
50680348 TAAAACTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
25 3 0.08
26 3 0.08
27 24 0.63
28 6 0.16
29 2 0.05
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (24 bp):
AAAATTTTAAAAAATAAAATTATT
Found at i:50680486 original size:11 final size:11
Alignment explanation
Indices: 50680470--50680495 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
50680460 ATATAAACTT
50680470 AAAAAATTATA
1 AAAAAATTATA
50680481 AAAAAATTATA
1 AAAAAATTATA
50680492 AAAA
1 AAAA
50680496 TTTGAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAAAATTATA
Found at i:50681378 original size:187 final size:187
Alignment explanation
Indices: 50681063--50681437 Score: 732
Period size: 187 Copynumber: 2.0 Consensus size: 187
50681053 TAAAAAGGGT
50681063 AATATTGAGTTATGTCAACATTGGGAAGTATATTATGACATATTAATTCAAGAAAATATTAAATT
1 AATATTGAGTTATGTCAACATTGGGAAGTATATTATGACATATTAATTCAAGAAAATATTAAATT
50681128 ACAAAAGTGAGAAAAGTTTTGTTGCCCAAAAGTAAATACTACAAATTTGAGGGGTTAAAGTGTAA
66 ACAAAAGTGAGAAAAGTTTTGTTGCCCAAAAGTAAATACTACAAATTTGAGGGGTTAAAGTGTAA
50681193 ATATGAAAAAGTTGAAGGACCAATAGTGTAAATATTTAAGGGTGGAATAATTTAGAA
131 ATATGAAAAAGTTGAAGGACCAATAGTGTAAATATTTAAGGGTGGAATAATTTAGAA
50681250 AATATTGAGTTATGTCAACATTGGGAAGTATATTATGACATATTAATTCAAGAAAATATTAAATT
1 AATATTGAGTTATGTCAACATTGGGAAGTATATTATGACATATTAATTCAAGAAAATATTAAATT
*
50681315 GCAAAAGTGAGAAAAGTTTTGTTGCCCAAAAGTAAATACTACAAATTTGAGGGGTTAAAGTGTAA
66 ACAAAAGTGAGAAAAGTTTTGTTGCCCAAAAGTAAATACTACAAATTTGAGGGGTTAAAGTGTAA
*
50681380 ATATGAAAAATTTGAAGGACCAATAGTGTAAATATTTAAGGGTGGAATAATTTAGAA
131 ATATGAAAAAGTTGAAGGACCAATAGTGTAAATATTTAAGGGTGGAATAATTTAGAA
50681437 A
1 A
50681438 CTAAGGAAAA
Statistics
Matches: 186, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
187 186 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (187 bp):
AATATTGAGTTATGTCAACATTGGGAAGTATATTATGACATATTAATTCAAGAAAATATTAAATT
ACAAAAGTGAGAAAAGTTTTGTTGCCCAAAAGTAAATACTACAAATTTGAGGGGTTAAAGTGTAA
ATATGAAAAAGTTGAAGGACCAATAGTGTAAATATTTAAGGGTGGAATAATTTAGAA
Found at i:50684095 original size:9 final size:9
Alignment explanation
Indices: 50684083--50684311 Score: 53
Period size: 9 Copynumber: 24.6 Consensus size: 9
50684073 AGTTTTTATT
50684083 TTTTTATAA
1 TTTTTATAA
*
50684092 TTTTTGTAA
1 TTTTTATAA
*
50684101 GTTTATATAA
1 -TTTTTATAA
* *
50684111 TTTTAATATT
1 TTTTTATA-A
50684121 TTTTTATAAA
1 TTTTTAT-AA
* *
50684131 TTTTAACAA
1 TTTTTATAA
*
50684140 TTTATTATTA
1 TTT-TTATAA
* *
50684150 -TTTAAGAA
1 TTTTTATAA
* *
50684158 TTCTAATACA
1 TTTTTATA-A
*
50684168 TTTTTCTAA
1 TTTTTATAA
50684177 -TTTTA-AA
1 TTTTTATAA
50684184 TATTTTAAATAA
1 T-TTTT--ATAA
*
50684196 GTTTTATTAA
1 TTTTTA-TAA
50684206 -TTTTATAAA
1 TTTTTAT-AA
50684215 TTCTTGTATAA
1 TT-TT-TATAA
*
50684226 TTTATTA-GA
1 TTT-TTATAA
50684235 TTTTTAT-A
1 TTTTTATAA
50684243 -TTTTATAA
1 TTTTTATAA
*
50684251 -TTTTA-AG
1 TTTTTATAA
* *
50684258 TTTATATTAG
1 TTTTTA-TAA
**
50684268 TTTTAATATTT
1 TTTT--TATAA
50684279 TTTTTATAA
1 TTTTTATAA
* *
50684288 TTTTTCTTAT
1 TTTTT-ATAA
50684298 TTTTTATAA
1 TTTTTATAA
50684307 TTTTT
1 TTTTT
50684312 TTAAAAAAAA
Statistics
Matches: 160, Mismatches: 35, Indels: 50
0.65 0.14 0.20
Matches are distributed among these distances:
7 9 0.06
8 22 0.14
9 58 0.36
10 46 0.29
11 18 0.11
12 7 0.04
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:50684128 original size:19 final size:19
Alignment explanation
Indices: 50684079--50684136 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
50684069 TTCAAGTTTT
**
50684079 TATTTTTTTATAATTTTTG
1 TATTTTTTTATAATTTTAA
** *
50684098 TAAGTTTATATAATTTTAA
1 TATTTTTTTATAATTTTAA
50684117 TATTTTTTTATAAATTTTAA
1 TATTTTTTTAT-AATTTTAA
50684137 CAATTTATTA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
19 22 0.73
20 8 0.27
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (19 bp):
TATTTTTTTATAATTTTAA
Found at i:50684147 original size:20 final size:21
Alignment explanation
Indices: 50684103--50684147 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
50684093 TTTTGTAAGT
* * *
50684103 TTATATAATTTTAATATTTTT
1 TTATATAATTTTAACAATTTA
50684124 TTATA-AATTTTAACAATTTA
1 TTATATAATTTTAACAATTTA
50684144 TTAT
1 TTAT
50684148 TATTTAAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATATAATTTTAACAATTTA
Found at i:50686890 original size:28 final size:28
Alignment explanation
Indices: 50686853--50686923 Score: 106
Period size: 30 Copynumber: 2.5 Consensus size: 28
50686843 TGGCCCACAC
* *
50686853 ATATTGATTTAGGTTTATATGGGGTCAT
1 ATATGGATTTAGGCTTATATGGGGTCAT
50686881 ATATGGATTTTTAGGCTTATATGGGGTCAT
1 ATATGGA--TTTAGGCTTATATGGGGTCAT
50686911 ATATGGATTTAGG
1 ATATGGATTTAGG
50686924 ATCCAAATCC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 12 0.31
30 27 0.69
ACGTcount: A:0.25, C:0.04, G:0.27, T:0.44
Consensus pattern (28 bp):
ATATGGATTTAGGCTTATATGGGGTCAT
Found at i:50686901 original size:30 final size:30
Alignment explanation
Indices: 50686860--50686920 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
50686850 CACATATTGA
*
50686860 TTTAGGTTTATATGGGGTCATATATGGATT
1 TTTAGGCTTATATGGGGTCATATATGGATT
50686890 TTTAGGCTTATATGGGGTCATATATGGATT
1 TTTAGGCTTATATGGGGTCATATATGGATT
50686920 T
1 T
50686921 AGGATCCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.05, G:0.26, T:0.46
Consensus pattern (30 bp):
TTTAGGCTTATATGGGGTCATATATGGATT
Found at i:50692400 original size:42 final size:42
Alignment explanation
Indices: 50692354--50692497 Score: 209
Period size: 42 Copynumber: 3.4 Consensus size: 42
50692344 ATAGTTAGCT
50692354 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCCAGAC
*
50692396 ATGGTCTTACTCGAATCTCATATCGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCCAGAC
* * ** *
50692438 ATTGTCTTACACGAATCACATGA-CGATAACAATGTCCCATAC
1 ATGGTCTTACACGAATCTCAT-ATCGATGCCAATGTCCCAGAC
50692480 ATGGTCTTACACGTAATC
1 ATGGTCTTACACG-AATC
50692498 ACATCCCAGT
Statistics
Matches: 92, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
42 87 0.95
43 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (42 bp):
ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCCAGAC
Found at i:50698155 original size:20 final size:19
Alignment explanation
Indices: 50698108--50698155 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 19
50698098 ATTTTTTTCA
*
50698108 CTTGATGAACAGTTGTATCT
1 CTTG-TGAACAATTGTATCT
50698128 -TT-TGAACAATTGTATCT
1 CTTGTGAACAATTGTATCT
50698145 CTTGGTGAACA
1 CTT-GTGAACA
50698156 GATTCATTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
17 14 0.58
18 2 0.08
19 2 0.08
20 6 0.25
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.40
Consensus pattern (19 bp):
CTTGTGAACAATTGTATCT
Found at i:50702194 original size:19 final size:20
Alignment explanation
Indices: 50702165--50702204 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
50702155 TCATATCATC
*
50702165 AAATAATTTAAAAATTCAAA
1 AAATAATTTAAAAAATCAAA
50702185 AAAT-ATTTAAAAAATCAAA
1 AAATAATTTAAAAAATCAAA
50702204 A
1 A
50702205 TTCATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (20 bp):
AAATAATTTAAAAAATCAAA
Found at i:50702233 original size:20 final size:19
Alignment explanation
Indices: 50702172--50702243 Score: 62
Period size: 19 Copynumber: 3.8 Consensus size: 19
50702162 ATCAAATAAT
50702172 TTAAAAATTCAAAAAA-T-A
1 TTAAAAATT-AAAAAATTCA
* *
50702190 TTTAAAAAAT-CAAAATTCA
1 -TTAAAAATTAAAAAATTCA
50702209 TTAAAAATTATAAAAAGTTCA
1 TTAAAAATTA-AAAAA-TTCA
50702230 -TAAAAATTAAAAAA
1 TTAAAAATTAAAAAA
50702244 AAGAAGTACA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
17 4 0.09
18 9 0.20
19 14 0.32
20 13 0.30
21 4 0.09
ACGTcount: A:0.64, C:0.06, G:0.01, T:0.29
Consensus pattern (19 bp):
TTAAAAATTAAAAAATTCA
Found at i:50702246 original size:21 final size:21
Alignment explanation
Indices: 50702201--50702244 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
50702191 TTAAAAAATC
*
50702201 AAAA-TTCATTAAAAATTATA
1 AAAAGTTCATTAAAAATTAAA
50702221 AAAAGTTCA-TAAAAATTAAA
1 AAAAGTTCATTAAAAATTAAA
50702241 AAAA
1 AAAA
50702245 AGAAGTACAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAAGTTCATTAAAAATTAAA
Found at i:50703496 original size:16 final size:17
Alignment explanation
Indices: 50703477--50703521 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
50703467 GAAAATAGAT
50703477 TAAA-TGAAAAATTGAA
1 TAAACTGAAAAATTGAA
*
50703493 TAAACTAAAAAATTGAA
1 TAAACTGAAAAATTGAA
*
50703510 TAAATTGAAAAA
1 TAAACTGAAAAA
50703522 AAATCAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.24
Consensus pattern (17 bp):
TAAACTGAAAAATTGAA
Found at i:50703713 original size:3 final size:3
Alignment explanation
Indices: 50703705--50703736 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
50703695 TTTACGTTAT
*
50703705 TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
50703737 GTTTATCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:50705598 original size:22 final size:22
Alignment explanation
Indices: 50705571--50705618 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
50705561 CTCTCTAATC
50705571 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
50705593 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
50705615 CTCT
1 CTCT
50705619 AAAATTCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.25, C:0.33, G:0.00, T:0.42
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:50705668 original size:30 final size:30
Alignment explanation
Indices: 50705627--50705689 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 30
50705617 CTAAAATTCA
50705627 TTTTTAAAATAATTAT-AATTTTTTTATAT
1 TTTTTAAAATAATTATAAATTTTTTTATAT
*
50705656 TTTTTAAAAATAATTTTAAATTTTTTTATAT
1 TTTTT-AAAATAATTATAAATTTTTTTATAT
50705687 TTT
1 TTT
50705690 CATTAATGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 5 0.16
30 10 0.32
31 16 0.52
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (30 bp):
TTTTTAAAATAATTATAAATTTTTTTATAT
Found at i:50706615 original size:268 final size:267
Alignment explanation
Indices: 50706137--50706672 Score: 1063
Period size: 268 Copynumber: 2.0 Consensus size: 267
50706127 TAGCAATTGG
50706137 GAGGCGGTGTGCTACGAGCTTTTGGGCGCTATTCCGAAAAAAATGGATGGAGGTAAGGTCGAGAT
1 GAGGCGGTGTGCTACGAGCTTTTGGGCGCTATTCCGAAAAAAATGGATGGAGGTAAGGTCGAGAT
50706202 GGGCTGGTTACGTGCCACCTTTCCCGAGCCGAATGTAAATTCAACTGAAATCCAAAGAATTCGAT
66 GGGCTGGTTACGTGCCACCTTTCCCGAGCCGAATGTAAATTCAACTGAAATCCAAAGAATTCGAT
50706267 ATGCTCGATCATACATTCTTCAAATAATTGGAGGTGTGCTAGGAGCCGTGTACATCTAAGGTGGC
131 ATGCTCGATCATACATTCTTCAAATAATTGGAGGTGTGCTAGGAGCCGTGTACATCTAAGGTGGC
50706332 TGCTAAAACTCGTTGATTTTAGAGGAGCCGGTGAATTTAGTTGGGGGTCTGCCGTCTTGGCAACA
196 TGCTAAAACTCGTTGATTTTAGAGGAGCCGGTGAATTTAGTTGGGGGTCTGCCGTCTTGGCAACA
50706397 TTATATC
261 TTATATC
50706404 GNAGGCGGTGTGCTACGAGCTTTTGGGCGCTATTCCGAAAAAAATGGATGGAGGTAAGGTCGAGA
1 G-AGGCGGTGTGCTACGAGCTTTTGGGCGCTATTCCGAAAAAAATGGATGGAGGTAAGGTCGAGA
50706469 TGGGCTGGTTACGTGCCACCTTTCCCGAGCCGAATGTAAATTCAACTGAAATCCAAAGAATTCGA
65 TGGGCTGGTTACGTGCCACCTTTCCCGAGCCGAATGTAAATTCAACTGAAATCCAAAGAATTCGA
50706534 TATGCTCGATCATACATTCTTCAAATAATTGGAGGTGTGCTAGGAGCCGTGTACATCTAAGGTGG
130 TATGCTCGATCATACATTCTTCAAATAATTGGAGGTGTGCTAGGAGCCGTGTACATCTAAGGTGG
50706599 CTGCTAAAACTCGTTGATTTTAGAGGAGCCGGTGAATTTAGTTGGGGGTCTGCCGTCTTGGCAAC
195 CTGCTAAAACTCGTTGATTTTAGAGGAGCCGGTGAATTTAGTTGGGGGTCTGCCGTCTTGGCAAC
50706664 ATTATATC
260 ATTATATC
50706672 G
1 G
50706673 TGAGATGTGC
Statistics
Matches: 268, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
267 1 0.00
268 267 1.00
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (267 bp):
GAGGCGGTGTGCTACGAGCTTTTGGGCGCTATTCCGAAAAAAATGGATGGAGGTAAGGTCGAGAT
GGGCTGGTTACGTGCCACCTTTCCCGAGCCGAATGTAAATTCAACTGAAATCCAAAGAATTCGAT
ATGCTCGATCATACATTCTTCAAATAATTGGAGGTGTGCTAGGAGCCGTGTACATCTAAGGTGGC
TGCTAAAACTCGTTGATTTTAGAGGAGCCGGTGAATTTAGTTGGGGGTCTGCCGTCTTGGCAACA
TTATATC
Found at i:50708043 original size:27 final size:24
Alignment explanation
Indices: 50707984--50708039 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
50707974 ATGCCGAACC
50707984 GGAAGAACCACAACCACCACCGGA
1 GGAAGAACCACAACCACCACCGGA
*
50708008 GGAAGAACCACAATCACCACCGGA
1 GGAAGAACCACAACCACCACCGGA
50708032 GGAAGAAC
1 GGAAGAAC
50708040 AACCGCCGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.43, C:0.32, G:0.23, T:0.02
Consensus pattern (24 bp):
GGAAGAACCACAACCACCACCGGA
Found at i:50708288 original size:23 final size:23
Alignment explanation
Indices: 50708258--50708322 Score: 67
Period size: 29 Copynumber: 2.6 Consensus size: 23
50708248 ACCCTAACCT
50708258 AACCCTAACCTAAATTAATTAAA
1 AACCCTAACCTAAATTAATTAAA
50708281 AACCCTAAACCTAACCTAAATTAATTAAA
1 AA--C----CCTAACCTAAATTAATTAAA
*
50708310 AACCCAAACCTAA
1 AACCCTAACCTAA
50708323 CCTAATTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
23 11 0.31
25 1 0.03
27 1 0.03
29 22 0.63
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (23 bp):
AACCCTAACCTAAATTAATTAAA
Found at i:50708319 original size:28 final size:28
Alignment explanation
Indices: 50708261--50708562 Score: 354
Period size: 28 Copynumber: 10.5 Consensus size: 28
50708251 CTAACCTAAC
50708261 CCTAACCTAAATTAATTAAAAACCCTAAA
1 CCTAACCTAAATTAATTAAAAACCC-AAA
50708290 CCTAACCTAAATTAATTAAAAACCCAAA
1 CCTAACCTAAATTAATTAAAAACCCAAA
* * *
50708318 CCTAACCTAATTTAATTGAAAATCCTAACCTAAC
1 CCTAACCTAAATTAATT--AAA----AACCCAAA
*
50708352 CCTAACCTAAATTAATTAAAAACCCTAA
1 CCTAACCTAAATTAATTAAAAACCCAAA
** *
50708380 TTTAACCTAAATTAATTAAAAACCCTAA
1 CCTAACCTAAATTAATTAAAAACCCAAA
* *
50708408 TCTAACCTAAATTAACTAAAAACCCTAAA
1 CCTAACCTAAATTAATTAAAAACCC-AAA
* * *
50708437 CCTAACTTAAATTAACTAAAAACCCTAA
1 CCTAACCTAAATTAATTAAAAACCCAAA
*
50708465 TCTAACCTAAATTAATTAAAAACCCTAAA
1 CCTAACCTAAATTAATTAAAAACCC-AAA
* * *
50708494 CCTAACCTAAATAAACTAAAAACCCTAA
1 CCTAACCTAAATTAATTAAAAACCCAAA
*
50708522 TCTAACCTAAATTAATTAAAAACCCTAAA
1 CCTAACCTAAATTAATTAAAAACCC-AAA
50708551 -CTAACCTAAATT
1 CCTAACCTAAATT
50708563 TTTTTGGCTT
Statistics
Matches: 237, Mismatches: 27, Indels: 19
0.84 0.10 0.07
Matches are distributed among these distances:
28 133 0.56
29 76 0.32
30 3 0.01
32 3 0.01
34 22 0.09
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (28 bp):
CCTAACCTAAATTAATTAAAAACCCAAA
Found at i:50708333 original size:57 final size:57
Alignment explanation
Indices: 50708255--50708562 Score: 424
Period size: 57 Copynumber: 5.3 Consensus size: 57
50708245 AAAACCCTAA
* *
50708255 CCTAACCCTAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAAC
1 CCTAAACCTAACCTAAATTAATTAAAAACCCT-AATCTAACCTAAATTAATTAAAAAC
* * *
50708313 CC-AAACCTAACCTAATTTAATTGAAAATCCTAACCTAACCCTAACCTAAATTAATTAAAAAC
1 CCTAAACCTAACCTAAATTAATT-AAAA----ACCCTAA-TCTAACCTAAATTAATTAAAAAC
** *
50708375 CCT-AATTTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAACTAAAAAC
1 CCTAAACCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAAC
* *
50708431 CCTAAACCTAACTTAAATTAACTAAAAACCCTAATCTAACCTAAATTAATTAAAAAC
1 CCTAAACCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAAC
* *
50708488 CCTAAACCTAACCTAAATAAACTAAAAACCCTAATCTAACCTAAATTAATTAAAAAC
1 CCTAAACCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAAC
50708545 CCTAAA-CTAACCTAAATT
1 CCTAAACCTAACCTAAATT
50708563 TTTTTGGCTT
Statistics
Matches: 225, Mismatches: 17, Indels: 18
0.87 0.07 0.07
Matches are distributed among these distances:
56 35 0.16
57 133 0.59
58 6 0.03
61 6 0.03
62 45 0.20
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (57 bp):
CCTAAACCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAAC
Found at i:50708457 original size:85 final size:85
Alignment explanation
Indices: 50708255--50708562 Score: 420
Period size: 85 Copynumber: 3.6 Consensus size: 85
50708245 AAAACCCTAA
* * *
50708255 CCTAACCCTAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCAAACC
1 CCTAAACCTAACCTAAATTAATTAAAAACCCT-AATCTAACCTAAATTAATTAAAAACCCTAACC
* * *
50708320 TAACCTAATTTAATTGAAAATCCTAA
65 TAACCTAAATTAACT-AAAA----AC
* * *
50708346 CCTAACCCTAACCTAAATTAATTAAAAACCCTAATTTAACCTAAATTAATTAAAAACCCTAATCT
1 CCTAAACCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAACCT
50708411 AACCTAAATTAACTAAAAAC
66 AACCTAAATTAACTAAAAAC
* *
50708431 CCTAAACCTAACTTAAATTAACTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAAACC
1 CCTAAACCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCT-AACC
*
50708496 TAACCTAAATAAACTAAAAAC
65 TAACCTAAATTAACTAAAAAC
* *
50708517 CCT-AATCTAACCTAAATTAATTAAAAACCCTAAACTAACCTAAATT
1 CCTAAACCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATT
50708563 TTTTTGGCTT
Statistics
Matches: 199, Mismatches: 17, Indels: 8
0.89 0.08 0.04
Matches are distributed among these distances:
85 96 0.48
86 26 0.13
89 4 0.02
90 41 0.21
91 32 0.16
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (85 bp):
CCTAAACCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAACCT
AACCTAAATTAACTAAAAAC
Found at i:50708596 original size:26 final size:26
Alignment explanation
Indices: 50708560--50708616 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
50708550 ACTAACCTAA
50708560 ATTTTTTTGGCTTAATAATTTTACAT
1 ATTTTTTTGGCTTAATAATTTTACAT
50708586 ATTTTTTTGGCTTAATAATTTTACAT
1 ATTTTTTTGGCTTAATAATTTTACAT
50708612 ATTTT
1 ATTTT
50708617 GAACACTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.60
Consensus pattern (26 bp):
ATTTTTTTGGCTTAATAATTTTACAT
Found at i:50708689 original size:56 final size:55
Alignment explanation
Indices: 50708588--50708729 Score: 153
Period size: 55 Copynumber: 2.5 Consensus size: 55
50708578 TTTTACATAT
* * *
50708588 TTTTTTGGCTTAATAATTTTACATATTTTGAACACTTTAATAACCATTAACACAA
1 TTTTTTGGCTTAATAATTTGACATATTTTGAAAACTTTAATAACCATTAACAAAA
* * * *
50708643 -TTTTTGGACTTAATAATTTGAGAT-TATTTGATAAATTTTACTAACCATTAAGAAAA
1 TTTTTTGG-CTTAATAATTTGACATAT-TTTGA-AAACTTTAATAACCATTAACAAAA
*
50708699 TTTTTTTGGCTTAATAATTTTACATAATTTT
1 -TTTTTTGGCTTAATAATTTGACAT-ATTTT
50708730 ACATAATGTT
Statistics
Matches: 71, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
54 8 0.11
55 19 0.27
56 19 0.27
57 14 0.20
58 10 0.14
59 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.47
Consensus pattern (55 bp):
TTTTTTGGCTTAATAATTTGACATATTTTGAAAACTTTAATAACCATTAACAAAA
Found at i:50708727 original size:10 final size:10
Alignment explanation
Indices: 50708712--50708736 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
50708702 TTTTGGCTTA
50708712 ATAATTTTAC
1 ATAATTTTAC
50708722 ATAATTTTAC
1 ATAATTTTAC
50708732 ATAAT
1 ATAAT
50708737 GTTAGATCTG
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:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:50710542 original size:125 final size:125
Alignment explanation
Indices: 50710316--50710653 Score: 532
Period size: 125 Copynumber: 2.7 Consensus size: 125
50710306 CCCAAACTTG
*
50710316 CTACTATAGCAAAATCGCGTCCACGAGGGTGCGATTTCACAATTTCTTCTCAAATAGCATCATCG
1 CTACTATAGCAAAATCGCGTCCACGAGGGTGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
* * * *
50710381 TAGAAACGATTTTATACTATTTGCTCAGAAACATCAGAAAAATATTATTTCTTACATTAC
66 TAGAAACGATTTTATACTATTTGCTCAAAAAAATCAGAAAAAAATTATTTCTTACATGAC
* * * *
50710441 CTACTATAGCAAAATCGCATCCATGAGGTTTCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
1 CTACTATAGCAAAATCGCGTCCACGAGGGTGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
50710506 TAGAAACGATTTTATACTATTTGCTCAAAAAAATCAGAAAAAAATTATTTCTTACATGAC
66 TAGAAACGATTTTATACTATTTGCTCAAAAAAATCAGAAAAAAATTATTTCTTACATGAC
* * * * *
50710566 CTACTGTAGCAAAATCGCGTCCACGAGGGCGGGATTTCACAATTTCTTCTCAAATAGTATCCTGG
1 CTACTATAGCAAAATCGCGTCCACGAGGGTGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
* *
50710631 TAGAAGCGATTTTATAGTATTTG
66 TAGAAACGATTTTATACTATTTG
50710654 ACCGGAGACA
Statistics
Matches: 193, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
125 193 1.00
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.32
Consensus pattern (125 bp):
CTACTATAGCAAAATCGCGTCCACGAGGGTGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
TAGAAACGATTTTATACTATTTGCTCAAAAAAATCAGAAAAAAATTATTTCTTACATGAC
Found at i:50712810 original size:125 final size:125
Alignment explanation
Indices: 50712459--50712796 Score: 523
Period size: 125 Copynumber: 2.7 Consensus size: 125
50712449 CCCAAACTTG
*
50712459 CTACTATAGCAAAATCGCGTCCACGAGGGTTCGATTTCACAATTTCTTCTCAAATAGCATCATCG
1 CTACTATAGCAAAATCGCGTCCACGAGGGTTCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
* * *
50712524 TAGAAACGATTTTATACTATTTGCTCAGAAACATCAGAAAAATATTATTTCTTACATTAC
66 TAGAAACGATTTTATACTATTTGCTCAGAAACATCAAAAAAAAATTATTTCTTACATGAC
* * *
50712584 CTACTATAGCAAAATCGCATCCATGAGGTTTCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
1 CTACTATAGCAAAATCGCGTCCACGAGGGTTCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
* *
50712649 TAGAAACGATTTTATACTATTTGCTCAAAAAAATCAAAAAAAAATTATTTCTTACATGAC
66 TAGAAACGATTTTATACTATTTGCTCAGAAACATCAAAAAAAAATTATTTCTTACATGAC
* *** * *
50712709 CTACTGTAGCAAAATCGCGTCCACGAGGGCGGGATTTCACAATTTCTTCTCAAATAGTATCCTGG
1 CTACTATAGCAAAATCGCGTCCACGAGGGTTCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
* *
50712774 TAGAAGCGATTTTATAGTATTTG
66 TAGAAACGATTTTATACTATTTG
50712797 ACCGGAGACA
Statistics
Matches: 193, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
125 193 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.33
Consensus pattern (125 bp):
CTACTATAGCAAAATCGCGTCCACGAGGGTTCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
TAGAAACGATTTTATACTATTTGCTCAGAAACATCAAAAAAAAATTATTTCTTACATGAC
Found at i:50714977 original size:13 final size:13
Alignment explanation
Indices: 50714959--50715013 Score: 56
Period size: 13 Copynumber: 3.9 Consensus size: 13
50714949 ATCCAACCCA
50714959 ACCCAACCCAATT
1 ACCCAACCCAATT
* *
50714972 ACCCAACCTATTT
1 ACCCAACCCAATT
50714985 ACCAACCCAACCCAATT
1 ----ACCCAACCCAATT
50715002 ACCCAACCCAAT
1 ACCCAACCCAAT
50715014 AAAACTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 23 0.68
17 11 0.32
ACGTcount: A:0.38, C:0.45, G:0.00, T:0.16
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:50715100 original size:38 final size:38
Alignment explanation
Indices: 50714994--50715110 Score: 189
Period size: 39 Copynumber: 3.0 Consensus size: 38
50714984 TACCAACCCA
50714994 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
1 ACCCAATTA-CCAACCCAATAAAACTAAAACTAAAGTCT
*
50715033 ATCCAATTACCTAACCCAATAAAACTAAAACTAAAGTCT
1 ACCCAATTACC-AACCCAATAAAACTAAAACTAAAGTCT
* *
50715072 ACCCAATTACCAACCCAATAAAAATAAAACCAAAGTCT
1 ACCCAATTACCAACCCAATAAAACTAAAACTAAAGTCT
50715110 A
1 A
50715111 ACTCTTAAGT
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
38 28 0.38
39 45 0.62
ACGTcount: A:0.50, C:0.28, G:0.03, T:0.19
Consensus pattern (38 bp):
ACCCAATTACCAACCCAATAAAACTAAAACTAAAGTCT
Found at i:50715264 original size:37 final size:37
Alignment explanation
Indices: 50715237--50715311 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
50715227 TGTTAATTTC
* *
50715237 AAGAATTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATGTAGTAATTCA
* * *
50715274 AAGACTTATGTAATATTTTTAATTATGCAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATGTAGTAATTCA
50715311 A
1 A
50715312 TTCGGGTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (37 bp):
AAGAATTATGTAATATTTTTAATTATGTAGTAATTCA
Found at i:50715330 original size:9 final size:9
Alignment explanation
Indices: 50715318--50715395 Score: 102
Period size: 9 Copynumber: 8.7 Consensus size: 9
50715308 TCAATTCGGG
*
50715318 TAATTTGAT
1 TAATTTGGT
*
50715327 TAATTCGGT
1 TAATTTGGT
*
50715336 TAATTCGGT
1 TAATTTGGT
50715345 TAATTTGGT
1 TAATTTGGT
50715354 TAATTTGGT
1 TAATTTGGT
*
50715363 TAATTCGGT
1 TAATTTGGT
*
50715372 TAATTTAGT
1 TAATTTGGT
*
50715381 TAATTCGGT
1 TAATTTGGT
50715390 TAATTT
1 TAATTT
50715396 TTAACCAAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 60 1.00
ACGTcount: A:0.26, C:0.05, G:0.18, T:0.51
Consensus pattern (9 bp):
TAATTTGGT
Found at i:50715333 original size:18 final size:18
Alignment explanation
Indices: 50715304--50715395 Score: 114
Period size: 18 Copynumber: 5.1 Consensus size: 18
50715294 AATTATGCAG
*
50715304 TGATTCAATTCGGGTAATT
1 TGATT-AATTCGGTTAATT
50715323 TGATTAATTCGGTTAATT
1 TGATTAATTCGGTTAATT
* * *
50715341 CGGTTAATTTGGTTAATT
1 TGATTAATTCGGTTAATT
*
50715359 TGGTTAATTCGGTTAATT
1 TGATTAATTCGGTTAATT
50715377 T-AGTTAATTCGGTTAATT
1 TGA-TTAATTCGGTTAATT
50715395 T
1 T
50715396 TTAACCAAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
18 60 0.92
19 5 0.08
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.49
Consensus pattern (18 bp):
TGATTAATTCGGTTAATT
Found at i:50715341 original size:27 final size:27
Alignment explanation
Indices: 50715310--50715394 Score: 127
Period size: 27 Copynumber: 3.1 Consensus size: 27
50715300 GCAGTGATTC
*
50715310 AATTCGGGTAATTTGATTAATTCGGTT
1 AATTCGGTTAATTTGATTAATTCGGTT
* *
50715337 AATTCGGTTAATTTGGTTAATTTGGTT
1 AATTCGGTTAATTTGATTAATTCGGTT
50715364 AATTCGGTTAATTT-AGTTAATTCGGTT
1 AATTCGGTTAATTTGA-TTAATTCGGTT
50715391 AATT
1 AATT
50715395 TTTAACCAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.26, C:0.06, G:0.20, T:0.48
Consensus pattern (27 bp):
AATTCGGTTAATTTGATTAATTCGGTT
Found at i:50725247 original size:25 final size:25
Alignment explanation
Indices: 50725219--50725326 Score: 119
Period size: 25 Copynumber: 4.3 Consensus size: 25
50725209 TGTAAACGAT
* * *
50725219 AAGCTCCTCCGAGCTGAATAACGGG
1 AAGCTCATGCGAGCTGAATAACGGA
* * *
50725244 AAGCTCATGCGACCTAAATAATGGA
1 AAGCTCATGCGAGCTGAATAACGGA
*
50725269 AAGCTCATGCGAGCTTAATAACGGGA
1 AAGCTCATGCGAGCTGAATAAC-GGA
* *
50725295 AA-CTCATGCGAGCTGAGTATCGGA
1 AAGCTCATGCGAGCTGAATAACGGA
50725319 AAGCTCAT
1 AAGCTCAT
50725327 AAGAGCTAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
24 5 0.07
25 59 0.86
26 5 0.07
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (25 bp):
AAGCTCATGCGAGCTGAATAACGGA
Found at i:50725333 original size:50 final size:50
Alignment explanation
Indices: 50725229--50725333 Score: 131
Period size: 50 Copynumber: 2.1 Consensus size: 50
50725219 AAGCTCCTCC
* **
50725229 GAGCTGAATAACGGGAAGCTCATGCGACCTAAATAATGGAAAGCTCATGC
1 GAGCTGAATAACGGGAAACTCATGCGACCTAAATAATGGAAAGCTCATAA
* * * *
50725279 GAGCTTAATAACGGGAAACTCATGCGAGCTGAGT-ATCGGAAAGCTCATAA
1 GAGCTGAATAACGGGAAACTCATGCGACCTAAATAAT-GGAAAGCTCATAA
50725329 GAGCT
1 GAGCT
50725334 AAAATAGGTG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 2 0.04
50 45 0.96
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (50 bp):
GAGCTGAATAACGGGAAACTCATGCGACCTAAATAATGGAAAGCTCATAA
Found at i:50728910 original size:34 final size:34
Alignment explanation
Indices: 50728867--50728934 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
50728857 GCACTTTTGA
* *
50728867 CACTGTACTGAGATGGGCTAAGGCCCAA-ACTGT
1 CACTGTACTGAAAAGGGCTAAGGCCCAAGACTGT
*
50728900 CACTGATACTGAAAAGGGCTTAGGCCCAAGACTGT
1 CACTG-TACTGAAAAGGGCTAAGGCCCAAGACTGT
50728935 TCAACTGTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (34 bp):
CACTGTACTGAAAAGGGCTAAGGCCCAAGACTGT
Found at i:50735471 original size:25 final size:25
Alignment explanation
Indices: 50735455--50735511 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
50735445 AATAATGAGG
50735455 AGCTCATGCGAGCTGAATAACAGGA
1 AGCTCATGCGAGCTGAATAACAGGA
* * *
50735480 AGCTCATGTGAGCT-AAGTATCGGGA
1 AGCTCATGCGAGCTGAA-TAACAGGA
50735505 AGCTCAT
1 AGCTCAT
50735512 AAGAGCTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 2 0.07
25 26 0.93
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.21
Consensus pattern (25 bp):
AGCTCATGCGAGCTGAATAACAGGA
Found at i:50743121 original size:21 final size:20
Alignment explanation
Indices: 50743069--50743143 Score: 89
Period size: 19 Copynumber: 3.6 Consensus size: 20
50743059 AAATTAAATC
* *
50743069 TCTAAGATTACAAAATCATA
1 TCTAAGATTGCAATATCATA
50743089 TCTTCCAAGATTGCATATATCATA
1 TC-T--AAGATTGCA-ATATCATA
50743113 TCTAAGATTGC-ATATCATA
1 TCTAAGATTGCAATATCATA
50743132 TCTAAGATTGCA
1 TCTAAGATTGCA
50743144 CATCCTTGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
19 19 0.40
20 2 0.04
21 9 0.19
23 9 0.19
24 9 0.19
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (20 bp):
TCTAAGATTGCAATATCATA
Found at i:50743659 original size:89 final size:89
Alignment explanation
Indices: 50743560--50743724 Score: 233
Period size: 89 Copynumber: 1.9 Consensus size: 89
50743550 GCCGATACAT
* * ** *
50743560 GAAGATAAGATCTGCTATCTTTGATCTAGTTCACGCCAATACATGAAGACAAGATCTGCTT-TCT
1 GAAGACAAGATCTGCTATATTCAATCTACTTCACGCCAATACATGAAGACAAGATCTG-TTATCT
*
50743624 TCGATCTACTTCGCCACCAGTATGG
65 TCAATCTACTTCGCCACCAGTATGG
* *
50743649 GAAGACAAGATCTGTTATATTCAATCTACTTCACGCCAATATATGAAGACAAGATCTGTTATCTT
1 GAAGACAAGATCTGCTATATTCAATCTACTTCACGCCAATACATGAAGACAAGATCTGTTATCTT
*
50743714 TAATCTACTTC
66 CAATCTACTTC
50743725 ACGCCAATAC
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
88 2 0.03
89 64 0.97
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (89 bp):
GAAGACAAGATCTGCTATATTCAATCTACTTCACGCCAATACATGAAGACAAGATCTGTTATCTT
CAATCTACTTCGCCACCAGTATGG
Found at i:50743676 original size:45 final size:44
Alignment explanation
Indices: 50743486--50743770 Score: 196
Period size: 44 Copynumber: 6.4 Consensus size: 44
50743476 ATAAGACTTG
* * * * * *
50743486 TATCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATTTGC
1 TATCTTCAATCTACTTC-ACACCAATATAGGAAGACAAGATCTGT
* ** * ** * * * * *
50743531 TACCTTTGATCTATTTCATGCCGATACATGAAGATAAGATCTGC
1 TATCTTCAATCTACTTCACACCAATATAGGAAGACAAGATCTGT
** * * * *
50743575 TATCTTTGATCTAGTTCACGCCAATACATGAAGACAAGATCTGCT
1 TATCTTCAATCTACTTCACACCAATATAGGAAGACAAGATCTG-T
* * * *
50743620 T-TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGT
1 TATCTTCAATCTACTTC-ACACCAATATAGGAAGACAAGATCTGT
* * *
50743664 TATATTCAATCTACTTCACGCCAATATATGAAGACAAGATCTGT
1 TATCTTCAATCTACTTCACACCAATATAGGAAGACAAGATCTGT
* * * *
50743708 TATCTTTAATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
1 TATCTTCAATCTACTTCACACCAATATAGGAAGACAAGATCTG-T
* *
50743753 T-TCTGCGATCTACTTCAC
1 TATCTTCAATCTACTTCAC
50743771 GACAACCCAG
Statistics
Matches: 196, Mismatches: 40, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
44 146 0.74
45 50 0.26
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (44 bp):
TATCTTCAATCTACTTCACACCAATATAGGAAGACAAGATCTGT
Found at i:50743695 original size:133 final size:133
Alignment explanation
Indices: 50743488--50743768 Score: 427
Period size: 133 Copynumber: 2.1 Consensus size: 133
50743478 AAGACTTGTA
* * ** * *
50743488 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATTTGCTACCTTTGATCTATTTCATGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTACATTCAATCTACTTCACGCC
* * * *
50743553 GATACATGAAGATAAGATCTGCTATCTTTGATCTAGTTCACGCCAATACATGAAGACAAGATCTG
66 AATACATGAAGACAAGATCTGCTATCTTTAATCTACTTCACGCCAATACATGAAGACAAGATCTG
50743618 CTT
131 CTT
* *
50743621 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATATTCAATCTACTTCACGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTACATTCAATCTACTTCACGCC
* *
50743686 AATATATGAAGACAAGATCTGTTATCTTTAATCTACTTCACGCCAATACATGAAGACAAGATCTG
66 AATACATGAAGACAAGATCTGCTATCTTTAATCTACTTCACGCCAATACATGAAGACAAGATCTG
50743751 CTT
131 CTT
*
50743754 TCTGCGATCTACTTC
1 TCTTCGATCTACTTC
50743769 ACGACAACCC
Statistics
Matches: 133, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
133 133 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (133 bp):
TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTACATTCAATCTACTTCACGCC
AATACATGAAGACAAGATCTGCTATCTTTAATCTACTTCACGCCAATACATGAAGACAAGATCTG
CTT
Found at i:50743764 original size:44 final size:44
Alignment explanation
Indices: 50743516--50743771 Score: 264
Period size: 44 Copynumber: 5.8 Consensus size: 44
50743506 ACCAGTATGG
* ** * * * *
50743516 GAAGACAAGATTTGCTACCTTTGATCTATTTCATGCCGATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * * *
50743560 GAAGATAAGATCTGCTATCTTTGATCTAGTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * * ***
50743604 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGCCAATACAT
* * *
50743649 GAAGACAAGATCTG-TTATATTCAATCTACTTCACGCCAATATAT
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCACGCCAATACAT
**
50743693 GAAGACAAGATCTG-TTATCTTTAATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCACGCCAATACAT
*
50743737 GAAGACAAGATCTGCTTTCTGCGATCTACTTCACG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACG
50743772 ACAACCCAGG
Statistics
Matches: 180, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
44 145 0.81
45 35 0.19
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (44 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
Found at i:50743834 original size:88 final size:88
Alignment explanation
Indices: 50743772--50744462 Score: 1006
Period size: 88 Copynumber: 7.9 Consensus size: 88
50743762 CTACTTCACG
*
50743772 ACAACCCAGGGAGGCAAGGTTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
50743837 TGCTATCTTCAACCTGCTCCACT
66 TGCTATCTTCAACCTGCTCCACT
50743860 ACAA-CCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
*
50743924 TGCTATCTTCAACCTACTCCACT
66 TGCTATCTTCAACCTGCTCCACT
* * * * *
50743947 ACGACCCAGGGAGGTAAGGCTGGTATCTTCGATCTACTTCACTCTCGGTACAAGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
50744012 TGCTATCTTCAACCTGCTCCACT
66 TGCTATCTTCAACCTGCTCCACT
* * * * *
50744035 ACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTATAAGAAGTCAATATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
*
50744100 TGCTATCTTCAACCTGCCCCACT
66 TGCTATCTTCAACCTGCTCCACT
* * *
50744123 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
50744188 TGCTATCTTCAACCTGCTCCACT
66 TGCTATCTTCAACCTGCTCCACT
* * * * * **
50744211 ACAACCCAGGGAGGGAAGGCTGGTATCTTCGATCTGCTTCGCTGTTGATGCAGGAAAACAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
50744276 TGCTATCTTCAACCTGCTCCACT
66 TGCTATCTTCAACCTGCTCCACT
* * * * *
50744299 ACAACCTAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
* * * *
50744364 TGCTATTTTTAACTTGCTCCGCT
66 TGCTATCTTCAACCTGCTCCACT
* * * * * * * *
50744387 ACAACCCAAGGAAGCAAGGTTGGTGTCTTCGACCTGCTTCGCTGTCGATGCAGGAAGGCAAGATC
1 ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
*
50744452 TGTTATCTTCA
66 TGCTATCTTCA
50744463 CTGATCTGCT
Statistics
Matches: 552, Mismatches: 50, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
87 84 0.15
88 468 0.85
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (88 bp):
ACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
TGCTATCTTCAACCTGCTCCACT
Found at i:50745693 original size:10 final size:11
Alignment explanation
Indices: 50745673--50745698 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
50745663 TCCCTTTTGC
50745673 TTTTTCTTTTT
1 TTTTTCTTTTT
50745684 TTTTTCTTTTT
1 TTTTTCTTTTT
50745695 TTTT
1 TTTT
50745699 GAAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:50751232 original size:47 final size:47
Alignment explanation
Indices: 50751177--50751268 Score: 139
Period size: 47 Copynumber: 2.0 Consensus size: 47
50751167 AGCCACCTTT
50751177 AAAAAACTGCCAATCGTTCTCCCATTTTTTTATTAATTTTTTTTTAA
1 AAAAAACTGCCAATCGTTCTCCCATTTTTTTATTAATTTTTTTTTAA
** * * *
50751224 AAAAAACTGTGAATCTTTCTCCCCTTTTTTTATTGATTTTTTTTT
1 AAAAAACTGCCAATCGTTCTCCCATTTTTTTATTAATTTTTTTTT
50751269 CAAACAATGA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.26, C:0.16, G:0.05, T:0.52
Consensus pattern (47 bp):
AAAAAACTGCCAATCGTTCTCCCATTTTTTTATTAATTTTTTTTTAA
Found at i:50751437 original size:21 final size:19
Alignment explanation
Indices: 50751400--50751474 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
50751390 AATCATATCT
50751400 TCCAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
50751419 TCCAAGATTGCATATATCATA
1 TCCAAGATTGC--ATATCATA
*
50751440 TCTAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
*
50751459 TCTAAGATTGCATATC
1 TCCAAGATTGCATATC
50751475 CTTGAAGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 35 0.66
21 18 0.34
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (19 bp):
TCCAAGATTGCATATCATA
Found at i:50751647 original size:105 final size:105
Alignment explanation
Indices: 50751465--50751673 Score: 373
Period size: 105 Copynumber: 2.0 Consensus size: 105
50751455 CATATCTAAG
50751465 ATTGCATATCCTTGAAGATTATGTTTCCATAAGCTTGTAGATGGACCTTCAACCTTTTCAAGTAA
1 ATTGCATATCCTTGAAGATTATGTTTCCATAAGCTTGTAGATGGACCTTCAACCTTTTCAAGTAA
*
50751530 TGGGCCATTCCGATCGGGCCAAATGATATAATTTTGTACA
66 TGGGCCATTCCGATCGGGCCAAATAATATAATTTTGTACA
** *
50751570 ATTGCATATTGTTGAAGATTATGTTTCCATAAGCTTGTAGATGGACCTTCAACCTTTTTAAGTAA
1 ATTGCATATCCTTGAAGATTATGTTTCCATAAGCTTGTAGATGGACCTTCAACCTTTTCAAGTAA
*
50751635 TGGGTCATTCCGATCGGGCCAAATAATATAATTTTGTAC
66 TGGGCCATTCCGATCGGGCCAAATAATATAATTTTGTAC
50751674 TAGACTTAGA
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
105 99 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (105 bp):
ATTGCATATCCTTGAAGATTATGTTTCCATAAGCTTGTAGATGGACCTTCAACCTTTTCAAGTAA
TGGGCCATTCCGATCGGGCCAAATAATATAATTTTGTACA
Found at i:50753555 original size:8 final size:8
Alignment explanation
Indices: 50753544--50753568 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
50753534 CCACCTACCC
50753544 CCCACTTG
1 CCCACTTG
50753552 CCCACTTG
1 CCCACTTG
50753560 CCCACTTG
1 CCCACTTG
50753568 C
1 C
50753569 GCCGAACACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.52, G:0.12, T:0.24
Consensus pattern (8 bp):
CCCACTTG
Found at i:50755188 original size:107 final size:107
Alignment explanation
Indices: 50755064--50755278 Score: 378
Period size: 107 Copynumber: 2.0 Consensus size: 107
50755054 ATTCGAGATA
**
50755064 AGAAGGCATTTTTCATTTTGACTTATCCAAGTAATTTTTTTT-TTAAAAAATAACGCAATATAAA
1 AGAAGGCATTTTTCATTTTGACTTATCCAAGTAATTTTTTTTAAAAAAAAATAACGCAATATAAA
50755128 GAAGGACCTTATTTTTAAAATTCTTTTCGAGTTTTTAATTTTC
66 GAAGGACCTTATTTTT-AAATTCTTTTCGAGTTTTTAATTTTC
50755171 AGAAGGCATTTTTCATTTTGACTTATCCAAGTAATTTTTTTTAAAAAAAAAAATAACGCAATATA
1 AGAAGGCATTTTTCATTTTGACTTATCCAAGTAATTTTTTTT--AAAAAAAAATAACGCAATATA
50755236 AAGAAGGACCTTATTTTTAAATTCTTTTCGAGTTTTTAATTTT
64 AAGAAGGACCTTATTTTTAAATTCTTTTCGAGTTTTTAATTTT
50755279 TGACATAAAG
Statistics
Matches: 103, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
107 42 0.41
109 25 0.24
110 36 0.35
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (107 bp):
AGAAGGCATTTTTCATTTTGACTTATCCAAGTAATTTTTTTTAAAAAAAAATAACGCAATATAAA
GAAGGACCTTATTTTTAAATTCTTTTCGAGTTTTTAATTTTC
Found at i:50757951 original size:28 final size:28
Alignment explanation
Indices: 50757911--50757967 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
50757901 AAGTCGCCTT
*
50757911 GGGAAAGAGTCTACTAGTTTGCCAAGAC
1 GGGAAAGAGTCTACTAGATTGCCAAGAC
50757939 GGGAAAGAGTCTACTAGATTGCCAAGAC
1 GGGAAAGAGTCTACTAGATTGCCAAGAC
50757967 G
1 G
50757968 AGAAGACGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.18, G:0.30, T:0.19
Consensus pattern (28 bp):
GGGAAAGAGTCTACTAGATTGCCAAGAC
Found at i:50767050 original size:44 final size:43
Alignment explanation
Indices: 50766991--50767959 Score: 454
Period size: 44 Copynumber: 21.7 Consensus size: 43
50766981 AGAATTGCAG
* *
50766991 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATATAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAG-A
* * *
50767035 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATT--A-A-AGG
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGA
* * * * **
50767074 ATCTTATCTCTCTGA-AGTTACAGTAGAGCAGATCGCA-CCAG-
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGATAGA
* * * * *
50767115 GTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAG-
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-A--T-AGA
* * **
50767161 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAGGCCAGAA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAG-A
* **
50767205 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGA
* * * **
50767248 GATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAATCTAGTA
1 -ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAG-A
* * * * *
50767293 ATCCTATCTCTCTGA-AGTTACAGTGGAGCGGATT-AAAATAAAGG
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGAT--AGA
* ** * * *
50767337 ATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCG--CATCAG-
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGAT-AGA
* * * * * **
50767378 GTCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCAG-
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-A--T-AGA
* **
50767424 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGA
* * * *
50767467 GATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAGTA
1 -ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAG-A
* * * * *
50767512 ATCCTATCTCTCTGA-AGTTACAGTGGAGCGGATT-AAAATAAAGG
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGAT--AGA
* **
50767556 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCACATTAGATTGAAGCCAGA
1 ATCTTATCTCCCTGAGA-TTACAGT-G-G-AG----C---AGATTGAAGATAGA
* ** *
50767609 GATCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAG-
1 -ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTG-AAGA--T-AGA
* *
50767656 ATCTTATCTCCCTGAGATTACAATGGGGCAGATTGAAGATAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAG-A
* * *
50767700 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAG-A
* * * * *
50767744 ATCCTATCTCTCTGA-AGTTACAGTGGAGCGGATT-AAAATAAAGG
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGAT--AGA
* **
50767788 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAGA
1 ATCTTATCTCCCTGAGA-TTACAGT-G-G-AG-------CAGATTGAAGATAGA
* ** *
50767841 GATCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAG-
1 -ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTG-AAGA--T-AGA
* *
50767888 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGATAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAG-A
* *
50767932 ATCCTATCTGCCTGAGATTACAGTGGAG
1 ATCTTATCTCCCTGAGATTACAGTGGAG
50767960 TGGATTAAAA
Statistics
Matches: 720, Mismatches: 134, Indels: 142
0.72 0.13 0.14
Matches are distributed among these distances:
38 1 0.00
39 27 0.04
40 2 0.00
41 55 0.08
42 14 0.02
43 17 0.02
44 376 0.52
45 20 0.03
46 131 0.18
47 5 0.01
48 4 0.01
51 3 0.00
52 2 0.00
53 6 0.01
54 51 0.07
55 6 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (43 bp):
ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGA
Found at i:50767225 original size:170 final size:173
Alignment explanation
Indices: 50766943--50767271 Score: 477
Period size: 170 Copynumber: 1.9 Consensus size: 173
50766933 TCATTATAAA
*
50766943 AGGTCTTATTCCCCTGAGATTACGGTGGAACAGACCAAAGAATTGCAGATCTTATCTCCCTGAGA
1 AGGTCTTATTCCCCTGAGATTACAGTGGAACAGACCAAAGAATTGCAGATCTTATCTCCCTGAGA
* * * * *
50767008 TTACAGCGGAGCAGATTGAATATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATT-AA-
66 TTACAGCGGAGCAGATTGAAGACAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTGAAC
50767071 AG-GATCTTATCTCTCTGA-AGTTACAGTAGAGCAGATCGCACC
131 AGAGATCTTATCTCTCTGAGA-TTACAGTAGAGCAGATCGCACC
* * * *
50767113 AGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAGATCTTATCTCCCTGAGG
1 AGGTCTTATTCCCCTGAGATTACAGTGGAACAGACCAAAGAATTGCAGATCTTATCTCCCTGAGA
* * * *
50767178 TTACAGTGGAGCAGATTGAGGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG
66 TTACAGCGGAGCAGATTGAAGACAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTGAA-
50767243 CCAGAGATCTTATCTCTCTGAGATTACAG
130 -CAGAGATCTTATCTCTCTGAGATTACAG
50767272 CGGAGTAGAT
Statistics
Matches: 139, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
170 112 0.81
171 2 0.01
174 2 0.01
175 22 0.16
176 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (173 bp):
AGGTCTTATTCCCCTGAGATTACAGTGGAACAGACCAAAGAATTGCAGATCTTATCTCCCTGAGA
TTACAGCGGAGCAGATTGAAGACAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTGAAC
AGAGATCTTATCTCTCTGAGATTACAGTAGAGCAGATCGCACC
Found at i:50767451 original size:263 final size:259
Alignment explanation
Indices: 50766989--50767579 Score: 832
Period size: 263 Copynumber: 2.3 Consensus size: 259
50766979 AAAGAATTGC
* *
50766989 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATATAGTAATCCTATCTCCCTG-AGAT
1 AGATCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAATATAGTAATCCTATCTCTCTGAAG-T
*
50767053 TACAGTGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTC
65 TACAGTGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCACCAGGTC
** * *
50767118 TTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAGATCTTATCTCCCTGAGGTTACA
130 TTATCACCCTGAGATTACAGGGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGTTACA
*
50767183 GTGGAGCAGATTGAGGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAG-
195 GTGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGT
* *
50767247 AGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAATCTAGTAATCCTATCTCTCTGAAGTT
1 AGATCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAATATAGTAATCCTATCTCTCTGAAGTT
* *
50767312 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
66 ACAGTGGAGCGGA-T----TAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCACCA
* ** *
50767377 GGTCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGT
126 GGTCTTATCACCCTGAGATTACAGGGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGT
* * *
50767442 TACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGC
191 TACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGC
*
50767507 TAGT
256 CAGT
* * * * * * *
50767511 A-ATCCTATCTCTCTGA-AGTTACAGTGGAGCGGATTAAAATAAAG-GATCTTATCTCTCTGAAG
1 AGATCTTATCTCTCTGAGA-TTACAGCGGAGCAGATT-GAATATAGTAATCCTATCTCTCTGAAG
50767573 TTACAGT
64 TTACAGT
50767580 AGAGTAGATC
Statistics
Matches: 295, Mismatches: 29, Indels: 13
0.88 0.09 0.04
Matches are distributed among these distances:
258 71 0.24
259 3 0.01
262 1 0.00
263 214 0.73
264 6 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (259 bp):
AGATCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAATATAGTAATCCTATCTCTCTGAAGTT
ACAGTGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCACCAGGTCT
TATCACCCTGAGATTACAGGGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGTTACAG
TGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGT
Found at i:50767785 original size:232 final size:232
Alignment explanation
Indices: 50767379--50767999 Score: 987
Period size: 232 Copynumber: 2.7 Consensus size: 232
50767369 TCGCATCAGG
* * * ** * *
50767379 TCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGATTA
** *
50767444 CAGTGGAGCAGATTGAAGCCAG-AGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCT
66 CAGTGGAGCAGATTGAAGATAGTA-ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCT
50767508 AGTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAG
130 AGTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAG
*
50767573 TTACAGTAGAGTAGATCACATTAGATTGAAGCCAGAGA
195 TTACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
50767611 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGATTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGATTA
* *
50767676 CAATGGGGCAGATTGAAGATAGTAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTA
66 CAGTGGAGCAGATTGAAGATAGTAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTA
50767741 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
131 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
50767806 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
196 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
50767843 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGATTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGATTA
* * * * * * **
50767908 CAGCGGAGTAGATTGAAGATAGTAATCCTATCTGCCTGAGATTACAGTGGAGTGGATT-AAAATA
66 CAGTGGAGCAGATTGAAGATAGTAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCT-
* *
50767972 AAG-GATCTTATCTCTCTGAAGTTACAGT
130 -AGTAATCCTATCTCTCTGAAGTTACAGT
50768000 AGAGTAGATC
Statistics
Matches: 361, Mismatches: 25, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
231 3 0.01
232 355 0.98
233 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (232 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGATTA
CAGTGGAGCAGATTGAAGATAGTAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTA
GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
Found at i:50767809 original size:88 final size:87
Alignment explanation
Indices: 50767700--50768008 Score: 268
Period size: 88 Copynumber: 3.4 Consensus size: 87
50767690 GAAGATAGTA
50767700 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGA-AGTTA
1 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTC-CTGAGA-TTA
50767764 CAGTGGAGCGGATTAAAATAAAGG
64 CAGTGGAGCGGATTAAAATAAAGG
* * * *
50767788 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAG-AGATCTTATCT
1 ATCTTATCTCCCTGAGA-TTACAG-CG-G-AG------T-AGATTGAAGCTAGTA-ATCCTATCT
* * ** **
50767851 CCCTGAGATTACAGTGGAACAGACCGAAAAATTTCA-G
54 -CCTGAGATTACAGTGGAGCGGA--TTAAAA-TAAAGG
*
50767888 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGATAGTAATCCTATCTGCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCT-CCTGAGATTAC
*
50767953 AGTGGAGTGGATTAAAATAAAGG
65 AGTGGAGCGGATTAAAATAAAGG
* **
50767976 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGAT
1 ATCTTATCTCCCTGAGA-TTACAGCGGAGTAGAT
50768009 CACAGCAGAC
Statistics
Matches: 174, Mismatches: 26, Indels: 42
0.72 0.11 0.17
Matches are distributed among these distances:
87 4 0.02
88 53 0.30
89 1 0.01
90 39 0.22
91 4 0.02
97 4 0.02
98 38 0.22
99 3 0.02
100 25 0.14
101 3 0.02
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (87 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCCTGAGATTACA
GTGGAGCGGATTAAAATAAAGG
Found at i:50767896 original size:188 final size:187
Alignment explanation
Indices: 50767653--50768041 Score: 581
Period size: 188 Copynumber: 2.1 Consensus size: 187
50767643 CGAAAAATTT
* ** ** * *
50767653 CAGATCTTATCTCCCTGAGATTACAATGGGGCAGATTG-AAGATAGT-A-ATCTTATCTCCCTGA
1 CAGATCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAAT-TTCAGATCTTATCTCCCTGA
*
50767715 GATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCT-CTCTGA-AGTTACAGTGGAGCGGATT
65 GATTACAGCGGAGTAGATTGAAGATAGTAATCCTATCTGC-CTGAGA-TTACAGTGGAGCGGATT
* ** *
50767778 AAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGCCA
128 AAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACAGCAGA-CAAAACCA
*
50767839 GAGATCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAG
1 CAGATCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAG
*
50767904 ATTACAGCGGAGTAGATTGAAGATAGTAATCCTATCTGCCTGAGATTACAGTGGAGTGGATTAAA
66 ATTACAGCGGAGTAGATTGAAGATAGTAATCCTATCTGCCTGAGATTACAGTGGAGCGGATTAAA
50767969 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACAGCAGACAAAACCA
131 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACAGCAGACAAAACCA
50768026 CAGATCTTATCTCCCT
1 CAGATCTTATCTCCCT
50768042 AAGCAGTTAG
Statistics
Matches: 183, Mismatches: 15, Indels: 9
0.88 0.07 0.04
Matches are distributed among these distances:
186 33 0.18
187 25 0.14
188 123 0.67
189 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (187 bp):
CAGATCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAG
ATTACAGCGGAGTAGATTGAAGATAGTAATCCTATCTGCCTGAGATTACAGTGGAGCGGATTAAA
ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACAGCAGACAAAACCA
Found at i:50767984 original size:44 final size:44
Alignment explanation
Indices: 50767841--50768008 Score: 119
Period size: 44 Copynumber: 3.8 Consensus size: 44
50767831 TGAAGCCAGA
* ** ** *
50767841 GATCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAA-ATTT
1 GATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAAATA-GT
*
50767885 CAGATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGATAGT
1 --GATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAAATAGT
* * * * *
50767931 AATCCTATCTGCCTGAGATTACAGTGGAGTGGATT-AAAATAAAG-
1 GATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAAAT--AGT
* **
50767975 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGAT
1 GATCTTATCTCCCTGAGA-TTACAGCGGAGTAGAT
50768009 CACAGCAGAC
Statistics
Matches: 99, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
43 5 0.05
44 56 0.57
45 2 0.02
46 35 0.35
47 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (44 bp):
GATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAAATAGT
Found at i:50768481 original size:8 final size:8
Alignment explanation
Indices: 50768470--50768494 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
50768460 CCACCTACCC
50768470 CCCACTTG
1 CCCACTTG
50768478 CCCACTTG
1 CCCACTTG
50768486 CCCACTTG
1 CCCACTTG
50768494 C
1 C
50768495 GCCAAACACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.52, G:0.12, T:0.24
Consensus pattern (8 bp):
CCCACTTG
Found at i:50769007 original size:13 final size:12
Alignment explanation
Indices: 50768971--50769008 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
50768961 CCTTTCCCCC
50768971 TCCCTTCTCTC-
1 TCCCTTCTCTCT
50768982 TCCCTTCTCTCT
1 TCCCTTCTCTCT
50768994 TCCCTCTCTCTCT
1 TCCCT-TCTCTCT
50769007 TC
1 TC
50769009 TTTTTTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 11 0.44
12 5 0.20
13 9 0.36
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (12 bp):
TCCCTTCTCTCT
Found at i:50770571 original size:5 final size:5
Alignment explanation
Indices: 50770561--50770585 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
50770551 GGTTATGGTA
50770561 TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT
50770586 GCCTCAAACG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:50772219 original size:16 final size:16
Alignment explanation
Indices: 50772194--50772238 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
50772184 TTTAGTGCCG
50772194 AGGG-TTTATGGGTTT
1 AGGGTTTTATGGGTTT
*
50772209 AGGGTTTTATGGTTTT
1 AGGGTTTTATGGGTTT
*
50772225 ATGGTTTTA-GGGTT
1 AGGGTTTTATGGGTT
50772239 AGTGTTTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 8 0.31
16 18 0.69
ACGTcount: A:0.13, C:0.00, G:0.36, T:0.51
Consensus pattern (16 bp):
AGGGTTTTATGGGTTT
Found at i:50772566 original size:126 final size:125
Alignment explanation
Indices: 50772416--50772935 Score: 656
Period size: 125 Copynumber: 4.2 Consensus size: 125
50772406 AGAATTTTGT
* ** * *
50772416 TTTTTTTACAGTAGTTTTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAGATAATGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAATGTCAAAA
* *
50772481 ATGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGGAAAAAGCTCCCACGTGGATGCTC
66 A-GCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
* * **
50772542 TTTTTCTACAGTAGTTCTTG-AAAAATAATTTTAAGAAGACAATTCTAAAAAAATAATGT-AAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAATGTCAAAA
* * * * * *
50772605 AGCACTTCAAGCAAGATGGACTGTTAGCAAAATTACTG-AAAAATCTCCCACGTGGA-CCTTT
66 AG--CTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGC-TC
* * * *
50772666 TTTTTTTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTTTAAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAATGTC-AAA
* * *
50772731 AAGCTTCAAGCATGATGCACTGTCAGTAAAATTATTGAAAAAAGCTCCCACGTGGATGCTC
65 AAGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
* * *
50772792 TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAAAAGACGGCTT-T-AAAAAATAGTGTCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGG-TTCTAAAAAAATAATGTCAAA
* * **
50772855 AACGCTTCAAGCAGGATGTACTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGGACACTC
65 AA-GCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
50772917 TTTTTCTACAGTAGTTCCT
1 TTTTTCTACAGTAGTTCCT
50772936 ATTTGGCCTT
Statistics
Matches: 342, Mismatches: 42, Indels: 21
0.84 0.10 0.05
Matches are distributed among these distances:
123 2 0.01
124 46 0.13
125 209 0.61
126 76 0.22
127 9 0.03
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (125 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAATGTCAAAA
AGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
Found at i:50775607 original size:18 final size:18
Alignment explanation
Indices: 50775584--50775619 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
50775574 TTGTACAAAT
*
50775584 ATATAAAGGTTAGGATAC
1 ATATAAAGGCTAGGATAC
*
50775602 ATATAAGGGCTAGGATAC
1 ATATAAAGGCTAGGATAC
50775620 GCACCTGGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.25, T:0.25
Consensus pattern (18 bp):
ATATAAAGGCTAGGATAC
Found at i:50777221 original size:31 final size:32
Alignment explanation
Indices: 50777148--50777221 Score: 80
Period size: 31 Copynumber: 2.3 Consensus size: 32
50777138 GACTATTATA
* *
50777148 AAAAATTATAAAATAAAAATTAATTAAAATTAC
1 AAAAATT-GAAAATAAAAATTAAATAAAATTAC
* * *
50777181 ATAAA-TGAAAATAAATATTAAATAATATT-C
1 AAAAATTGAAAATAAAAATTAAATAAAATTAC
50777211 AAAAATTGAAA
1 AAAAATTGAAA
50777222 TTAACCCTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
30 5 0.15
31 24 0.71
32 1 0.03
33 4 0.12
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (32 bp):
AAAAATTGAAAATAAAAATTAAATAAAATTAC
Found at i:50786082 original size:18 final size:19
Alignment explanation
Indices: 50786046--50786082 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
50786036 GTGAGAGAGC
50786046 AGATATTTTGTAAAATATAT
1 AGATATTTTGT-AAATATAT
50786066 AGATATTTTGT-AATATA
1 AGATATTTTGTAAATATA
50786083 AAAATAGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (19 bp):
AGATATTTTGTAAATATAT
Found at i:50791882 original size:20 final size:20
Alignment explanation
Indices: 50791850--50791897 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
50791840 ATAATTTAAT
50791850 AAATAAAAATAAAAATCTAA
1 AAATAAAAATAAAAATCTAA
* * *
50791870 AACTAAAAGTAAAAGTCTAA
1 AAATAAAAATAAAAATCTAA
50791890 AAATAAAA
1 AAATAAAA
50791898 CATAGTAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.71, C:0.06, G:0.04, T:0.19
Consensus pattern (20 bp):
AAATAAAAATAAAAATCTAA
Found at i:50796623 original size:27 final size:26
Alignment explanation
Indices: 50796583--50796643 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
50796573 TAGGTTAATT
* * *
50796583 TTAAAAT-AAGTAATATGTAAAATAAC
1 TTAAAATAAAATAATATAT-AAAGAAC
*
50796609 TTTAAATAAAATAATATATAAAGAAC
1 TTAAAATAAAATAATATATAAAGAAC
50796635 TTAAAATAA
1 TTAAAATAA
50796644 TTAACCTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 20 0.69
27 9 0.31
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (26 bp):
TTAAAATAAAATAATATATAAAGAAC
Found at i:50796691 original size:21 final size:21
Alignment explanation
Indices: 50796662--50796701 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
50796652 ATGAGTTAGG
50796662 TTAAGATAATAAATAAAAGGT
1 TTAAGATAATAAATAAAAGGT
* **
50796683 TTAATATAATCTATAAAAG
1 TTAAGATAATAAATAAAAG
50796702 AGAAAATTGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.10, T:0.33
Consensus pattern (21 bp):
TTAAGATAATAAATAAAAGGT
Found at i:50799448 original size:9 final size:9
Alignment explanation
Indices: 50799434--50799473 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
50799424 ATTCAATACT
50799434 TTAATTCGG
1 TTAATTCGG
50799443 TTAATTCGG
1 TTAATTCGG
**
50799452 TTAATTCTA
1 TTAATTCGG
50799461 TTAATTCGG
1 TTAATTCGG
50799470 TTAA
1 TTAA
50799474 GTTTTATACT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (9 bp):
TTAATTCGG
Found at i:50809980 original size:28 final size:28
Alignment explanation
Indices: 50809940--50810093 Score: 265
Period size: 28 Copynumber: 5.5 Consensus size: 28
50809930 TAAATTGTAC
50809940 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
50809968 AGCACTAAGTGTGCGAGATTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
50809996 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
50810024 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
50810052 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
50810079 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
50810094 GACTTAATAT
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.20
28 98 0.80
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:50815801 original size:16 final size:16
Alignment explanation
Indices: 50815780--50815814 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
50815770 TTGCCACCCA
50815780 CTATCTATGTTTTAGT
1 CTATCTATGTTTTAGT
50815796 CTATCTATGTTTTAGT
1 CTATCTATGTTTTAGT
50815812 CTA
1 CTA
50815815 ATTGCATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.20, C:0.14, G:0.11, T:0.54
Consensus pattern (16 bp):
CTATCTATGTTTTAGT
Found at i:50817219 original size:68 final size:68
Alignment explanation
Indices: 50817110--50817245 Score: 263
Period size: 68 Copynumber: 2.0 Consensus size: 68
50817100 TCTGTTTGCG
50817110 GGTGAAAAGCTGTACTAAAATGTAGTTTCGTACCTAAAGAATCTTGTAGTTTCTTCCAAAATCGC
1 GGTGAAAAGCTGTACTAAAATGTAGTTTCGTACCTAAAGAATCTTGTAGTTTCTTCCAAAATCGC
50817175 GAT
66 GAT
*
50817178 GGTGAAAAGCTGTACTAAAATGTAGTTTCGTACTTAAAGAATCTTGTAGTTTCTTCCAAAATCGC
1 GGTGAAAAGCTGTACTAAAATGTAGTTTCGTACCTAAAGAATCTTGTAGTTTCTTCCAAAATCGC
50817243 GAT
66 GAT
50817246 ATGAATCTCG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.33
Consensus pattern (68 bp):
GGTGAAAAGCTGTACTAAAATGTAGTTTCGTACCTAAAGAATCTTGTAGTTTCTTCCAAAATCGC
GAT
Found at i:50822689 original size:31 final size:31
Alignment explanation
Indices: 50822607--50822668 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
50822597 TCCAAGAGTT
50822607 TATATATAAATATACTTATATAATCATTCGA
1 TATATATAAATATACTTATATAATCATTCGA
50822638 TATATATAAATATACTTATATAATCATTCGA
1 TATATATAAATATACTTATATAATCATTCGA
50822669 ACCTTATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (31 bp):
TATATATAAATATACTTATATAATCATTCGA
Found at i:50825111 original size:22 final size:23
Alignment explanation
Indices: 50825049--50825113 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 23
50825039 CGCGTTCATT
50825049 AATTTAGCACTTCA-GTGCTCTTG
1 AATTTAGCACTT-ATGTGCTCTTG
*
50825072 AATTTAGCA-TTTTGGTGCTCTTG
1 AATTTAGCACTTAT-GTGCTCTTG
50825095 -ATTTAGCACTTATGTGCTC
1 AATTTAGCACTTATGTGCTC
50825114 CTGTATTTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
22 16 0.43
23 21 0.57
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.43
Consensus pattern (23 bp):
AATTTAGCACTTATGTGCTCTTG
Found at i:50842196 original size:30 final size:31
Alignment explanation
Indices: 50842128--50842215 Score: 94
Period size: 30 Copynumber: 2.9 Consensus size: 31
50842118 AGAATAAGTT
* *
50842128 GCTCACACAAGTTGACATTAT-ATCAAGGTT
1 GCTCACACAAGTTGATATTATAATCAAGGTA
50842158 GCTCACACAAGTTGATATTATAAT--AGAGTA
1 GCTCACACAAGTTGATATTATAATCAAG-GTA
* * *
50842188 GCTTACACAAGCTAATATTAT-ATCAAGG
1 GCTCACACAAGTTGATATTATAATCAAGG
50842216 GTATCCGTCC
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
29 4 0.08
30 41 0.84
31 4 0.08
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.30
Consensus pattern (31 bp):
GCTCACACAAGTTGATATTATAATCAAGGTA
Found at i:50843368 original size:30 final size:31
Alignment explanation
Indices: 50843334--50843395 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 31
50843324 TTTAAATATA
50843334 CCTTAATTAACGTTA-TTTAATTAAC-TTAAT
1 CCTTAATTAA-GTTACTTTAATTAACATTAAT
* *
50843364 CCTTAATTAATTTACTTTAATTATCATTAAT
1 CCTTAATTAAGTTACTTTAATTAACATTAAT
50843395 C
1 C
50843396 TCATTAGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 3 0.11
30 19 0.68
31 6 0.21
ACGTcount: A:0.35, C:0.15, G:0.02, T:0.48
Consensus pattern (31 bp):
CCTTAATTAAGTTACTTTAATTAACATTAAT
Found at i:50845143 original size:22 final size:22
Alignment explanation
Indices: 50845115--50845161 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
50845105 CTTCGTGACT
50845115 AAATAAGTTTATAATTAAAAGA
1 AAATAAGTTTATAATTAAAAGA
*
50845137 AAATAAGTTTATAATTAAAATA
1 AAATAAGTTTATAATTAAAAGA
50845159 AAA
1 AAA
50845162 ATAATCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (22 bp):
AAATAAGTTTATAATTAAAAGA
Found at i:50845752 original size:39 final size:39
Alignment explanation
Indices: 50845709--50845788 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
50845699 ATACCCAAAT
50845709 CCCCATCATAATAGATGAGGGGAAGTACACCTTATTAGC
1 CCCCATCATAATAGATGAGGGGAAGTACACCTTATTAGC
*
50845748 CCCCATCATAATATATGAGGGGAAGTACACCTTATTAGC
1 CCCCATCATAATAGATGAGGGGAAGTACACCTTATTAGC
50845787 CC
1 CC
50845789 TCCTCTCCTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.24
Consensus pattern (39 bp):
CCCCATCATAATAGATGAGGGGAAGTACACCTTATTAGC
Found at i:50856429 original size:50 final size:50
Alignment explanation
Indices: 50856354--50856596 Score: 360
Period size: 50 Copynumber: 4.8 Consensus size: 50
50856344 ATTTGGGTAA
* *
50856354 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
50856404 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
50856454 AGAGGTCCCATGTAAGATCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
50856504 AGAGGTCCCCCGTAACACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
50856554 AGAACATCTCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
50856597 TGTTATGATC
Statistics
Matches: 173, Mismatches: 19, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
50 141 0.82
51 32 0.18
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:50858701 original size:18 final size:16
Alignment explanation
Indices: 50858656--50858704 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 16
50858646 AACTAAACTC
50858656 AAATAAAATTAAAATAA
1 AAATAAAA-TAAAATAA
50858673 AAAGTAGAAATAAAATAA
1 AAA-TA-AAATAAAATAA
50858691 ATGAATAAAATAAA
1 A--AATAAAATAAA
50858705 CAAAAAAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 3 0.11
18 18 0.64
19 5 0.18
20 2 0.07
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.20
Consensus pattern (16 bp):
AAATAAAATAAAATAA
Found at i:50858721 original size:21 final size:22
Alignment explanation
Indices: 50858695--50858737 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
50858685 AAATAAATGA
* *
50858695 ATAAAATAAACAAA-AAAAGTT
1 ATAAAACAAAAAAATAAAAGTT
50858716 ATAAAACAAAAAAATAAAAGTT
1 ATAAAACAAAAAAATAAAAGTT
50858738 CTTTAAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.19
Consensus pattern (22 bp):
ATAAAACAAAAAAATAAAAGTT
Done.