Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 128 of 185
Found at i:39419256 original size:24 final size:24
Alignment explanation
Indices: 39419220--39419275 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
39419210 TTCTTTCTTT
*
39419220 ATATAATAATAAAATAATAATAAA
1 ATATATTAATAAAATAATAATAAA
* *
39419244 ATATATTATTAAAATATTAATAAA
1 ATATATTAATAAAATAATAATAAA
39419268 ATAATATT
1 AT-ATATT
39419276 TATCTAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
ATATATTAATAAAATAATAATAAA
Found at i:39422551 original size:11 final size:11
Alignment explanation
Indices: 39422535--39422559 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
39422525 AAATTCATTC
39422535 TAGTGATAATT
1 TAGTGATAATT
39422546 TAGTGATAATT
1 TAGTGATAATT
39422557 TAG
1 TAG
39422560 AAGTTCAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (11 bp):
TAGTGATAATT
Found at i:39423012 original size:22 final size:22
Alignment explanation
Indices: 39422987--39423028 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
39422977 CTTAATTTCT
*
39422987 CATTTATTGATTGAATGTAATA
1 CATTTATTAATTGAATGTAATA
39423009 CATTTATTAATTGAATGTAA
1 CATTTATTAATTGAATGTAA
39423029 ATGAGCTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (22 bp):
CATTTATTAATTGAATGTAATA
Found at i:39424327 original size:18 final size:17
Alignment explanation
Indices: 39424304--39424337 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
39424294 ATAGTTATAA
39424304 TTTTATAAATAATTTTAC
1 TTTTAT-AATAATTTTAC
*
39424322 TTTTATTATAATTTTA
1 TTTTATAATAATTTTA
39424338 TAAATAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTATAATAATTTTAC
Found at i:39427688 original size:22 final size:22
Alignment explanation
Indices: 39427657--39427707 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
39427647 GTATCATTTT
*
39427657 AAATTTAATTTATT-TAAAATTA
1 AAATTAAATTT-TTCTAAAATTA
*
39427679 AAATTAAATTTTTCTAAATTTA
1 AAATTAAATTTTTCTAAAATTA
39427701 AATATTA
1 AA-ATTA
39427708 CAGAATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 2 0.08
22 19 0.76
23 4 0.16
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
AAATTAAATTTTTCTAAAATTA
Found at i:39432354 original size:19 final size:19
Alignment explanation
Indices: 39432332--39432402 Score: 64
Period size: 18 Copynumber: 3.9 Consensus size: 19
39432322 TTATGCTACA
39432332 AAATATTTATTATTAATAT
1 AAATATTTATTATTAATAT
39432351 AAAT-TATTATT-TTAATA-
1 AAATAT-TTATTATTAATAT
* *
39432368 ATA-ATTTATTATTAAAAT
1 AAATATTTATTATTAATAT
39432386 -AATAATTTA-TATTAATA
1 AAAT-ATTTATTATTAATA
39432403 GTTTATTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
16 5 0.12
17 9 0.21
18 14 0.33
19 14 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATATTTATTATTAATAT
Found at i:39432357 original size:16 final size:16
Alignment explanation
Indices: 39432338--39432387 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 16
39432328 TACAAAATAT
39432338 TTATTATTAATATAAA
1 TTATTATTAATATAAA
*
39432354 TTATTATTTTAATAATAAT
1 TTATTA--TTAAT-ATAAA
*
39432373 TTATTATTAAAATAA
1 TTATTATTAATATAA
39432388 TAATTTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 10 0.34
17 4 0.14
18 5 0.17
19 10 0.34
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATTATTAATATAAA
Found at i:39432401 original size:35 final size:35
Alignment explanation
Indices: 39432336--39432402 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
39432326 GCTACAAAAT
* * *
39432336 ATTTATTATTAATATAAATTATTATTTTAATAATA
1 ATTTATTATTAAAATAAAATATTATATTAATAATA
39432371 ATTTATTATTAAAATAATAAT-TTATATTAATA
1 ATTTATTATTAAAATAA-AATATTATATTAATA
39432403 GTTTATTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 26 0.93
36 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (35 bp):
ATTTATTATTAAAATAAAATATTATATTAATAATA
Found at i:39432402 original size:16 final size:16
Alignment explanation
Indices: 39432357--39432402 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 16
39432347 ATATAAATTA
*
39432357 TTATTTTAATAATAAT
1 TTATATTAATAATAAT
39432373 TTATTATTAAAATAATAAT
1 TTA-TATT--AATAATAAT
39432392 TTATATTAATA
1 TTATATTAATA
39432403 GTTTATTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 7 0.27
17 3 0.12
18 4 0.15
19 12 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATATTAATAATAAT
Found at i:39448877 original size:12 final size:12
Alignment explanation
Indices: 39448860--39448886 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
39448850 TGAGGTGCAG
39448860 ATTTTTATAAAA
1 ATTTTTATAAAA
39448872 ATTTTTATAAAA
1 ATTTTTATAAAA
39448884 ATT
1 ATT
39448887 ACTGATCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTTTTATAAAA
Found at i:39457903 original size:2 final size:2
Alignment explanation
Indices: 39457896--39457931 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
39457886 CTAAGAATTT
39457896 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
39457932 ATGAGTAGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:39458439 original size:13 final size:13
Alignment explanation
Indices: 39458421--39458449 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
39458411 CTTATCTTCC
39458421 AAATTAGAATGAT
1 AAATTAGAATGAT
39458434 AAATTAGAATGAT
1 AAATTAGAATGAT
39458447 AAA
1 AAA
39458450 AAGAGAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.28
Consensus pattern (13 bp):
AAATTAGAATGAT
Found at i:39459231 original size:25 final size:25
Alignment explanation
Indices: 39459197--39459247 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
39459187 AATAACGTTG
39459197 TTTTTTTTTTTTTTTTGACTGCCTT
1 TTTTTTTTTTTTTTTTGACTGCCTT
*
39459222 TTTTTTTTTTTTTTTTGCCTGCCTT
1 TTTTTTTTTTTTTTTTGACTGCCTT
39459247 T
1 T
39459248 ATTTGTTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.02, C:0.14, G:0.08, T:0.76
Consensus pattern (25 bp):
TTTTTTTTTTTTTTTTGACTGCCTT
Found at i:39463778 original size:45 final size:45
Alignment explanation
Indices: 39463714--39463817 Score: 163
Period size: 45 Copynumber: 2.3 Consensus size: 45
39463704 TCTAATTTAT
* *
39463714 ATTACAAAGTTTGTTCCAAGTTTGTTCCAATACGTGCCAATTAAA
1 ATTACAAAGTTTGTTCCAAGTTTGTTCCAACACCTGCCAATTAAA
* * *
39463759 ATTACAAAGTTTGTTCCAAGTTTGTTTCAACACCTGTCATTTAAA
1 ATTACAAAGTTTGTTCCAAGTTTGTTCCAACACCTGCCAATTAAA
39463804 ATTACAAAGTTTGT
1 ATTACAAAGTTTGT
39463818 ATTTTTGCAT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.38
Consensus pattern (45 bp):
ATTACAAAGTTTGTTCCAAGTTTGTTCCAACACCTGCCAATTAAA
Found at i:39484219 original size:88 final size:88
Alignment explanation
Indices: 39484049--39484219 Score: 236
Period size: 88 Copynumber: 1.9 Consensus size: 88
39484039 TGAAATTCCA
* * *
39484049 GCCTTGTCTCCCTGAGCAGCAATGGAGTAGGTTAAAAATAGCAGATCTTGTTTGCCTGTATTGAC
1 GCCTTGTCTCCCTGAGCAGCAATGGAGTAGGTTAAAAATAACAGATCTTGCTTGCCTGTACTGAC
* *
39484114 AGCAAAGTAGATCGAAGATACCT
66 AGCAAAGCAGATAGAAGATACCT
* * *
39484137 GCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAACAGATCTTGCCTT-CCTGTACTGG
1 GCCTTGTCTCCCTGAGCAGCAATGGAGTAGGTTAAAAATAACAGATCTTG-CTTGCCTGTACTGA
**
39484201 CAGTGAAGCAGATAGAAGA
65 CAGCAAAGCAGATAGAAGA
39484220 CTTTAGTCTT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
88 70 0.97
89 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (88 bp):
GCCTTGTCTCCCTGAGCAGCAATGGAGTAGGTTAAAAATAACAGATCTTGCTTGCCTGTACTGAC
AGCAAAGCAGATAGAAGATACCT
Found at i:39484630 original size:44 final size:44
Alignment explanation
Indices: 39484536--39484785 Score: 151
Period size: 44 Copynumber: 5.8 Consensus size: 44
39484526 GAAGATGGCG
* * *
39484536 AATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTAAAGCTAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAAC
* * *
39484580 AATCTTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAA-ATCAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAAC
* * * *
39484623 AATTCTTATTTCTCTGAAGTTGCAG-AGAGCAGA-T--CGCAT--C
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-ATAAC
* * * * * *
39484663 TAGTCTTATCTCCTTGAAGTTGCAGAGGAGTAGACT-GAG-TAAGC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAA-C
* * * * ***
39484707 AGGTCTGATCTCCCTGAAGTTGCAATGGAGTAGACCCAAGA-AAGC
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAA-C
*
39484752 GAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
39484786 CTCAAGAAAG
Statistics
Matches: 164, Mismatches: 28, Indels: 27
0.75 0.13 0.12
Matches are distributed among these distances:
40 20 0.12
41 8 0.05
42 4 0.02
43 12 0.07
44 84 0.51
45 35 0.21
46 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAAC
Found at i:39484774 original size:45 final size:44
Alignment explanation
Indices: 39484664--39484806 Score: 164
Period size: 45 Copynumber: 3.2 Consensus size: 44
39484654 GATCGCATCT
* ** *
39484664 AGTCTTATCTCCTTGAAGTTGCAGA-GGAGTAGA-CTGAGTAAGC
1 AGTCTTATCTCCCTGAAGTTGCA-ATGGAGTAGACCCAAGAAAGC
*
39484707 AGGTCTGATCTCCCTGAAGTTGCAATGGAGTAGACCCAAGAAAGC
1 A-GTCTTATCTCCCTGAAGTTGCAATGGAGTAGACCCAAGAAAGC
* * *
39484752 GAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGC
1 -AGTCTTATCTCCCTGAAGTTGCAATGGAGTAGACCCAAGAAAGC
39484797 AAGTCTTATC
1 -AGTCTTATC
39484807 CCCCAGAAAT
Statistics
Matches: 86, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
43 2 0.02
44 28 0.33
45 55 0.64
46 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.24
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAATGGAGTAGACCCAAGAAAGC
Found at i:39484823 original size:45 final size:45
Alignment explanation
Indices: 39484732--39484824 Score: 123
Period size: 45 Copynumber: 2.1 Consensus size: 45
39484722 GAAGTTGCAA
* * * * * *
39484732 TGGAGTAGACCCAAGAAAGCGAGTCTTATCTCCCTGAAGTTGCAG
1 TGGAGCAGACCCAAGAAAGCAAGTCTTATCCCCCAGAAATTACAG
*
39484777 TGGAGCAGACTCAAGAAAGCAAGTCTTATCCCCCAGAAATTACAG
1 TGGAGCAGACCCAAGAAAGCAAGTCTTATCCCCCAGAAATTACAG
39484822 TGG
1 TGG
39484825 GGCAAACTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (45 bp):
TGGAGCAGACCCAAGAAAGCAAGTCTTATCCCCCAGAAATTACAG
Found at i:39486918 original size:10 final size:10
Alignment explanation
Indices: 39486903--39486932 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
39486893 GTAAGACATA
39486903 TTATAAATAT
1 TTATAAATAT
39486913 TTATAAATA-
1 TTATAAATAT
39486922 TTATAAATAT
1 TTATAAATAT
39486932 T
1 T
39486933 AAGCAATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
TTATAAATAT
Found at i:39486925 original size:9 final size:9
Alignment explanation
Indices: 39486900--39486933 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
39486890 TTGGTAAGAC
39486900 ATATTATAA
1 ATATTATAA
39486909 ATATTTATAA
1 ATA-TTATAA
39486919 ATATTATAA
1 ATATTATAA
39486928 ATATTA
1 ATATTA
39486934 AGCAATGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
ATATTATAA
Found at i:39493897 original size:29 final size:30
Alignment explanation
Indices: 39493830--39493898 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 30
39493820 ATTTGATCTT
* *
39493830 ATTTAATTCTTTTTAATAATACAATGACTA
1 ATTTAATTCTATTTAATAATACAAGGACTA
* * *
39493860 AATTGATTC-ATTTAATAATA-GAGGAACTA
1 ATTTAATTCTATTTAATAATACAAGG-ACTA
39493889 ATTTAATTCT
1 ATTTAATTCT
39493899 GTTCCTATAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
28 2 0.07
29 21 0.70
30 7 0.23
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (30 bp):
ATTTAATTCTATTTAATAATACAAGGACTA
Found at i:39495796 original size:24 final size:22
Alignment explanation
Indices: 39495769--39495814 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
39495759 AAAAAATTCT
*
39495769 ATTTTATTCATTAACATTATCTAA
1 ATTTAATTCATTAA-ATTA-CTAA
*
39495793 ATTTAATTCGTTAAATTACTAA
1 ATTTAATTCATTAAATTACTAA
39495815 CGGTAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 4 0.20
24 12 0.60
ACGTcount: A:0.39, C:0.11, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTTAATTCATTAAATTACTAA
Found at i:39496680 original size:20 final size:20
Alignment explanation
Indices: 39496638--39496686 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
39496628 TTTTCTTTAA
*
39496638 ATTATTTTATTTTTAAGACT
1 ATTATTTTATTTATAAGACT
*
39496658 ATTATTTTATTTAT-AGAATT
1 ATTATTTTATTTATAAG-ACT
39496678 ATTATTTTA
1 ATTATTTTA
39496687 ATAAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (20 bp):
ATTATTTTATTTATAAGACT
Found at i:39503374 original size:38 final size:36
Alignment explanation
Indices: 39503301--39503433 Score: 162
Period size: 37 Copynumber: 3.6 Consensus size: 36
39503291 TACCGTATGC
* *
39503301 AATTTTGAAAATATA-TTAAAAAATACGAA-TAGATA
1 AATTTTGAAAAAAGATTTAAAAAATACGAACT-GATA
39503336 AATTTTGAAAAAAGATTTTAAAAGAATACGAACTGATA
1 AATTTTGAAAAAAGA-TTTAAAA-AATACGAACTGATA
* *
39503374 AATTTTGAAAAAATATTTAAGAAAATACGATCTGATA
1 AATTTTGAAAAAAGATTTAA-AAAATACGAACTGATA
* *
39503411 AATTTTGAAAAAAAAATTAAAAA
1 AATTTTGAAAAAAGATTTAAAAA
39503434 TAAAATGCAA
Statistics
Matches: 87, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
35 13 0.15
36 3 0.03
37 42 0.48
38 28 0.32
39 1 0.01
ACGTcount: A:0.56, C:0.04, G:0.10, T:0.30
Consensus pattern (36 bp):
AATTTTGAAAAAAGATTTAAAAAATACGAACTGATA
Found at i:39503485 original size:22 final size:23
Alignment explanation
Indices: 39503445--39503489 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
39503435 AAAATGCAAA
*
39503445 ATTGATAAATTCATGGAACGTGG
1 ATTGATAAAATCATGGAACGTGG
39503468 ATTGATAAAAT-ATGGAACGTGG
1 ATTGATAAAATCATGGAACGTGG
39503490 CCATGGGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.38, C:0.07, G:0.27, T:0.29
Consensus pattern (23 bp):
ATTGATAAAATCATGGAACGTGG
Found at i:39504596 original size:21 final size:22
Alignment explanation
Indices: 39504571--39504633 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 22
39504561 ATATAAATAT
39504571 TATATTAATTTAATAAGATTTA
1 TATATTAATTTAATAAGATTTA
*
39504593 -ATATTAAATTTAATCTAATATTTA
1 TATATT-AATTTAA--TAAGATTTA
39504617 TCTATATTAATTTAATA
1 --TATATTAATTTAATA
39504634 TTAAAGTGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
21 5 0.15
22 7 0.21
24 10 0.29
26 7 0.21
27 5 0.15
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (22 bp):
TATATTAATTTAATAAGATTTA
Found at i:39510732 original size:22 final size:22
Alignment explanation
Indices: 39510706--39510747 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
39510696 ATAAATACTG
*
39510706 TAACATG-GTAATTTTTTTATAA
1 TAACATGAG-AATTGTTTTATAA
39510728 TAACATGAGAATTGTTTTAT
1 TAACATGAGAATTGTTTTAT
39510748 GTAAATGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.48
Consensus pattern (22 bp):
TAACATGAGAATTGTTTTATAA
Found at i:39513988 original size:15 final size:17
Alignment explanation
Indices: 39513953--39513990 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
39513943 GAATGAAAAG
*
39513953 AAAATTGAAAGAGTAGA
1 AAAATAGAAAGAGTAGA
39513970 AAAATAGAAAGA-T-GA
1 AAAATAGAAAGAGTAGA
39513985 AAAATA
1 AAAATA
39513991 TAATTGTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 1 0.05
17 11 0.55
ACGTcount: A:0.66, C:0.00, G:0.18, T:0.16
Consensus pattern (17 bp):
AAAATAGAAAGAGTAGA
Found at i:39517374 original size:18 final size:18
Alignment explanation
Indices: 39517328--39517378 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
39517318 AGCTTTCAGG
39517328 CATTCTTCTCCCTTCATC
1 CATTCTTCTCCCTTCATC
* ***
39517346 CAGTAAGCTCCCTTCATC
1 CATTCTTCTCCCTTCATC
39517364 CATTCTTCTCCCTTC
1 CATTCTTCTCCCTTC
39517379 CTTCATTCCT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.14, C:0.43, G:0.04, T:0.39
Consensus pattern (18 bp):
CATTCTTCTCCCTTCATC
Found at i:39520155 original size:20 final size:20
Alignment explanation
Indices: 39520130--39520169 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
39520120 AATATTTTCC
*
39520130 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
39520150 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
39520170 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:39520175 original size:34 final size:35
Alignment explanation
Indices: 39520118--39520184 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
39520108 ACTTTTCCGG
*
39520118 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
39520153 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
39520185 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:39520176 original size:14 final size:14
Alignment explanation
Indices: 39520153--39520192 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
39520143 ACAGAAAAGT
*
39520153 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
39520167 AAATCATTTTACGG
1 AAAACATTTTACAG
39520181 AAAACATTTTAC
1 AAAACATTTTAC
39520193 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:39526266 original size:43 final size:42
Alignment explanation
Indices: 39526200--39526358 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 42
39526190 AGCTCGTACA
** *
39526200 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATAACG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCAAAT-ACG
* * * * *
39526243 ATGCCACTATCCCATACAAGGTCTTACACGAAATCATATACG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCAAATACG
* *
39526285 ATGCCAATGTCTCAGACATGGTCTTACACGTAAATCTCAAAT-CG
1 ATGCCAATATCCCAGACATGGTCTTACACGT-AA--TCAAATACG
* *
39526329 ATGCCAACATCCCAGACGTGGTCTTACACG
1 ATGCCAATATCCCAGACATGGTCTTACACG
39526359 ATATCACATA
Statistics
Matches: 94, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
42 28 0.30
43 33 0.35
44 28 0.30
45 5 0.05
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (42 bp):
ATGCCAATATCCCAGACATGGTCTTACACGTAATCAAATACG
Found at i:39526356 original size:86 final size:84
Alignment explanation
Indices: 39526200--39526364 Score: 208
Period size: 86 Copynumber: 1.9 Consensus size: 84
39526190 AGCTCGTACA
* *
39526200 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATAACGATGCCACTATCCCATACAAGGT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAAT-ACGATGCCACTATCCCAGACAAGGT
39526265 CTTACACGAAATCATATACG
65 CTTACACGAAATCATATACG
* * **
39526285 ATGCCAATGTCTCAGACATGGTCTTACACGTAAATCTCAAAT-CGATGCCAAC-ATCCCAGACGT
1 ATGCCAACGTCCCAGACATGGTCTTACACGT-AA--TCAAATACGATGCC-ACTATCCCAGACAA
*
39526348 GGTCTTACACGATATCA
62 GGTCTTACACGAAATCA
39526365 CATATCGAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
85 28 0.41
86 33 0.48
87 2 0.03
88 6 0.09
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.24
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATACGATGCCACTATCCCAGACAAGGTC
TTACACGAAATCATATACG
Found at i:39527365 original size:13 final size:13
Alignment explanation
Indices: 39527347--39527373 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
39527337 TACAAACGAT
39527347 AAAATTTTCACAC
1 AAAATTTTCACAC
39527360 AAAATTTTCACAC
1 AAAATTTTCACAC
39527373 A
1 A
39527374 TATAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:39541928 original size:25 final size:24
Alignment explanation
Indices: 39541900--39541946 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
39541890 AAATATTTTT
* *
39541900 TTATTTTTATACTTTTTTAAAAAAA
1 TTATTCTTATA-TATTTTAAAAAAA
39541925 TTATTCTTATATATTTTAAAAA
1 TTATTCTTATATATTTTAAAAA
39541947 TATTTACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (24 bp):
TTATTCTTATATATTTTAAAAAAA
Found at i:39545401 original size:16 final size:17
Alignment explanation
Indices: 39545374--39545411 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
39545364 ATAAAAAAAC
39545374 ATATAT-TTTAT-ATTA
1 ATATATGTTTATAATTA
39545389 ATATATGTTTATAATTA
1 ATATATGTTTATAATTA
39545406 A-ATATG
1 ATATATG
39545412 AATATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.29
16 10 0.48
17 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (17 bp):
ATATATGTTTATAATTA
Found at i:39547956 original size:29 final size:29
Alignment explanation
Indices: 39547923--39548039 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
39547913 TGTAATTTTT
*
39547923 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
39547952 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
39547982 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
39548011 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
39548040 TTATTTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:39547978 original size:30 final size:30
Alignment explanation
Indices: 39547938--39548039 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
39547928 ATTTAGGATT
*
39547938 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
39547968 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
39547998 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
39548028 AAAATGCAATTT
1 AAAATGAAATTT
39548040 TTATTTTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:39548062 original size:16 final size:17
Alignment explanation
Indices: 39548037--39548072 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
39548027 CAAAATGCAA
39548037 TTTTTATTTTTT-AAAT
1 TTTTTATTTTTTGAAAT
*
39548053 TTTTTTTTTTTTGAAAT
1 TTTTTATTTTTTGAAAT
39548070 TTT
1 TTT
39548073 GAAAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTTTATTTTTTGAAAT
Found at i:39548063 original size:17 final size:17
Alignment explanation
Indices: 39548037--39548072 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
39548027 CAAAATGCAA
*
39548037 TTTTTATTTTTTAAATT
1 TTTTTATTTTTGAAATT
*
39548054 TTTTTTTTTTTGAAATT
1 TTTTTATTTTTGAAATT
39548071 TT
1 TT
39548073 GAAAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTTTATTTTTGAAATT
Found at i:39548502 original size:54 final size:54
Alignment explanation
Indices: 39548314--39549004 Score: 1126
Period size: 54 Copynumber: 12.8 Consensus size: 54
39548304 CACGTGAGCC
* * * * *
39548314 AAGGCTCAACTCACTTCTCGCAATATAAGTTGATTTTTG-AAAACAGAATTTACAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATT--AA
*
39548369 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTG---GTTTTTGAAAAATAGAAATTAA
39548422 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
*
39548476 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
*
39548530 AAGGCTCAACTCACCTCTCGCAATATGAGTTAGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
* * *
39548584 AAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
39548638 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
* * *
39548692 AAGTCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATT-AA
**
39548747 AATACCTC--CTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AA-GGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
39548800 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
39548854 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
39548908 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
39548962 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAA
39549005 TTGAAAATAC
Statistics
Matches: 599, Mismatches: 25, Indels: 25
0.92 0.04 0.04
Matches are distributed among these distances:
50 14 0.02
52 4 0.01
53 38 0.06
54 494 0.82
55 34 0.06
56 3 0.01
58 6 0.01
59 6 0.01
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.30
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
Found at i:39549204 original size:73 final size:72
Alignment explanation
Indices: 39548963--39549449 Score: 707
Period size: 73 Copynumber: 6.8 Consensus size: 72
39548953 AGAAATTAAA
** ** *
39548963 AGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTG-----A-AAATTGAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
39549022 TGTCTTG
66 TGTCTTG
* * *
39549029 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
*
39549094 TGTCCTG
66 TGTCTTG
* *
39549101 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAATTAACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAAT-ACCTCAAC
39549166 GTGTCTTG
65 GTGTCTTG
39549174 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACCTCAAC
39549239 GTGTCTTG
65 GTGTCTTG
39549247 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACCTCAAC
39549312 GTGTCTTG
65 GTGTCTTG
*
39549320 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATTACCTCAA
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAAA-TACCTCAA
*
39549385 CGTGCCTTG
64 CGTGTCTTG
** * * * *
39549394 AGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAGCATAGATTGAAAA
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAA
39549450 AAAACATAAA
Statistics
Matches: 386, Mismatches: 24, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
66 34 0.09
71 1 0.00
72 77 0.20
73 198 0.51
74 76 0.20
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (72 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACG
TGTCTTG
Found at i:39549466 original size:16 final size:17
Alignment explanation
Indices: 39549432--39549466 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
39549422 TTGATTTTTG
* *
39549432 AAAAGCATAGATTGAAA
1 AAAAACATAAATTGAAA
39549449 AAAAACATAAATTGAAA
1 AAAAACATAAATTGAAA
39549466 A
1 A
39549467 TACCTCAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.06, G:0.11, T:0.17
Consensus pattern (17 bp):
AAAAACATAAATTGAAA
Found at i:39549671 original size:123 final size:122
Alignment explanation
Indices: 39549450--39549768 Score: 521
Period size: 123 Copynumber: 2.6 Consensus size: 122
39549440 AGATTGAAAA
* * * * * *
39549450 AAAACATAAATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTTGCAATATGAGT
1 AAAACATAAACTAAAAATACCTCGGC--GTG-CCCGAGGCTCAACTCACTTCTCGCAATATGAGT
*
39549515 TGATTTTTGAAAAAGAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
63 TGATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
*
39549575 AAAACATAAACTAAAAATACCTCGGCGTGCCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACATAAACTAAAAATACCTCGGCGTGCCC-GAGGCTCAACTCACTTCTCGCAATATGAGTTG
39549640 ATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
65 ATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
39549698 AAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
1 AAAACATAAACTAAAAATACCTCGGCGTG-CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
39549763 ATTTTT
65 ATTTTT
39549769 TTTAAAAAAT
Statistics
Matches: 183, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
122 2 0.01
123 155 0.85
124 3 0.02
125 23 0.13
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (122 bp):
AAAACATAAACTAAAAATACCTCGGCGTGCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
TTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
Found at i:39558343 original size:24 final size:24
Alignment explanation
Indices: 39558323--39558382 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
39558313 CTTTTCTTTT
*
39558323 TCTTTT-TTCTTTCTTTCTTCTTCC
1 TCTTTTCTTC-TTCCTTCTTCTTCC
39558347 TCTTTTCTTCTTCCTTCTTCTTCC
1 TCTTTTCTTCTTCCTTCTTCTTCC
*
39558371 T-TCTTCTTCTTC
1 TCTTTTCTTCTTC
39558383 AAAGTCTAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 10 0.30
24 20 0.61
25 3 0.09
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (24 bp):
TCTTTTCTTCTTCCTTCTTCTTCC
Found at i:39558345 original size:3 final size:3
Alignment explanation
Indices: 39558311--39558382 Score: 62
Period size: 3 Copynumber: 24.0 Consensus size: 3
39558301 TTTTTATTAT
* *
39558311 TTC TT- TTC TTT TTC TT- TT- TTC TTTC TTTC TTC TTC CTC TT- TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC -TTC -TTC TTC TTC TTC TTC TTC
39558354 TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
39558383 AAAGTCTAGC
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
2 8 0.14
3 38 0.64
4 13 0.22
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:39558350 original size:13 final size:13
Alignment explanation
Indices: 39558334--39558382 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
39558324 CTTTTTTCTT
39558334 TCTTTCTTCTTCC
1 TCTTTCTTCTTCC
39558347 TCTTTTCTTCTT-C
1 TC-TTTCTTCTTCC
39558360 -C-TTCTTCTTCC
1 TCTTTCTTCTTCC
39558371 T-TCTTCTTCTTC
1 TCT-TTCTTCTTC
39558383 AAAGTCTAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
10 8 0.26
11 1 0.03
12 1 0.03
13 12 0.39
14 9 0.29
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TCTTTCTTCTTCC
Found at i:39558366 original size:10 final size:10
Alignment explanation
Indices: 39558351--39558379 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
39558341 TCTTCCTCTT
39558351 TTCTTCTTCC
1 TTCTTCTTCC
39558361 TTCTTCTTCC
1 TTCTTCTTCC
39558371 TTCTTCTTC
1 TTCTTCTTC
39558380 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:39558472 original size:17 final size:17
Alignment explanation
Indices: 39558437--39558481 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
39558427 GACGCCGATA
*
39558437 CTCTTTCTTTTCTTCTC
1 CTCTTTCTTTTCCTCTC
39558454 CTCTTCTCTTTTCCT-TC
1 CTCTT-TCTTTTCCTCTC
*
39558471 CTTTTTCTTTT
1 CTCTTTCTTTT
39558482 TTTTCGAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 6 0.24
17 11 0.44
18 8 0.32
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (17 bp):
CTCTTTCTTTTCCTCTC
Found at i:39558479 original size:16 final size:18
Alignment explanation
Indices: 39558440--39558481 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
39558430 GCCGATACTC
*
39558440 TTTCTTTTCTTCTCCTCT
1 TTTCTTTTCCTCTCCTCT
*
39558458 TCTCTTTTCCT-TCCT-T
1 TTTCTTTTCCTCTCCTCT
39558474 TTTCTTTT
1 TTTCTTTT
39558482 TTTTCGAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 8 0.38
17 4 0.19
18 9 0.43
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTCTTTTCCTCTCCTCT
Found at i:39558749 original size:29 final size:30
Alignment explanation
Indices: 39558716--39558832 Score: 114
Period size: 30 Copynumber: 3.9 Consensus size: 30
39558706 CGTAATTTTT
*
39558716 AGAAAATTTA-GGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGGTTAAAATGAAATTTAA
* * *
39558745 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTAGGGGT-TAAAATGAAATTTAA
* * *
39558775 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTTAGGGGTTAAAATGAAATTTAA
* *
39558804 GGAAAAGTTTAGGGGTTAAAATGCAATTT
1 AGAAAA-TTTAGGGGTTAAAATGAAATTT
39558833 TTATTTTTTA
Statistics
Matches: 71, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
29 13 0.18
30 57 0.80
31 1 0.01
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (30 bp):
AGAAAATTTAGGGGTTAAAATGAAATTTAA
Found at i:39558771 original size:30 final size:30
Alignment explanation
Indices: 39558731--39558832 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
39558721 ATTTAGGATT
*
39558731 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
39558761 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
39558791 AAAATGAAATTT-AGGAAAAGTTTAGGGGTT
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
39558821 AAAATGCAATTT
1 AAAATGAAATTT
39558833 TTATTTTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:39558853 original size:14 final size:15
Alignment explanation
Indices: 39558828--39558862 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
39558818 GTTAAAATGC
*
39558828 AATTTTTATTTTTTA
1 AATTTTTATTTTTGA
39558843 AATTTTT-TTTTTGA
1 AATTTTTATTTTTGA
39558857 AATTTT
1 AATTTT
39558863 AAAAATTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (15 bp):
AATTTTTATTTTTGA
Found at i:39559349 original size:4 final size:4
Alignment explanation
Indices: 39559340--39559383 Score: 88
Period size: 4 Copynumber: 11.0 Consensus size: 4
39559330 TATATATCAT
39559340 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
39559384 ATAATGTACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:39559706 original size:30 final size:30
Alignment explanation
Indices: 39559672--39559731 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
39559662 GTCTACGCCA
*
39559672 CCATCGGCATCTCCTTCTCCTTCCTCTCCG
1 CCATCGGCATCTCCATCTCCTTCCTCTCCG
* *
39559702 CCATCTGCATCTGCATCTCCTTCCTCTCCG
1 CCATCGGCATCTCCATCTCCTTCCTCTCCG
39559732 GTTCCGGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.08, C:0.48, G:0.10, T:0.33
Consensus pattern (30 bp):
CCATCGGCATCTCCATCTCCTTCCTCTCCG
Found at i:39564396 original size:29 final size:30
Alignment explanation
Indices: 39564342--39564405 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
39564332 GGGATGGGAG
* *
39564342 GGGAGTAAAATTTTTTGTGGAAAAGTAGAA-
1 GGGAGTAAAATATTTTGGGGAAAAGTA-AAT
*
39564372 GGGAGTAAAA-ATTTTGGGGGAAAGTAAAT
1 GGGAGTAAAATATTTTGGGGAAAAGTAAAT
39564401 GGGAG
1 GGGAG
39564406 AGTAAAATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 2 0.07
29 18 0.60
30 10 0.33
ACGTcount: A:0.39, C:0.00, G:0.36, T:0.25
Consensus pattern (30 bp):
GGGAGTAAAATATTTTGGGGAAAAGTAAAT
Found at i:39564412 original size:139 final size:142
Alignment explanation
Indices: 39564236--39564498 Score: 347
Period size: 139 Copynumber: 1.9 Consensus size: 142
39564226 GGTTTGGGGA
* * * *
39564236 AGTAAAATTTTTAGGGGAAGTAAATAGGGGGAGTAAAATTTTGGAGAGAAAATATTAAAAAAATT
1 AGTAAAAATTTTAGGGGAAGTAAATAGGGAGAGTAAAATGTTGAAGAGAAAATATTAAAAAAATT
*** * * * *
39564301 GAG-G-GGGGTGGGTTTAGGGTAGATG-GGAG-GTGGGATGGGAGGGGAGTAAAATTTTTTGTGG
66 G-GTGAGAAATGGATTTAGGGTAGATGAGGAGAATGGGATGGGAGGAGAGTAAAAGTTTTTGTGG
39564362 AAAAGTAGAAGGG
130 AAAAGTAGAAGGG
* *
39564375 AGTAAAAATTTTGGGGGAAAGTAAAT-GGGAGAGTAAAATGTTGAAGGGAAAATATTAAAAAAAT
1 AGTAAAAATTTTAGGGG-AAGTAAATAGGGAGAGTAAAATGTTGAAGAGAAAATATTAAAAAAAT
*
39564439 TGGTGAGAAATGGATTTTGGGTAGATGAGGAGAATGGGATGGGAGGAGAGTAAAAGTTTT
65 TGGTGAGAAATGGATTTAGGGTAGATGAGGAGAATGGGATGGGAGGAGAGTAAAAGTTTT
39564499 GGAGGGAAAA
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
138 1 0.01
139 52 0.50
140 24 0.23
141 4 0.04
142 24 0.23
ACGTcount: A:0.38, C:0.00, G:0.37, T:0.25
Consensus pattern (142 bp):
AGTAAAAATTTTAGGGGAAGTAAATAGGGAGAGTAAAATGTTGAAGAGAAAATATTAAAAAAATT
GGTGAGAAATGGATTTAGGGTAGATGAGGAGAATGGGATGGGAGGAGAGTAAAAGTTTTTGTGGA
AAAGTAGAAGGG
Found at i:39566909 original size:16 final size:15
Alignment explanation
Indices: 39566888--39566935 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
39566878 GATGTGAATA
39566888 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
39566904 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
39566919 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
39566935 A
1 A
39566936 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:39566911 original size:24 final size:24
Alignment explanation
Indices: 39566884--39566939 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
39566874 TAATGATGTG
*
39566884 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
39566908 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
39566932 AATAATAA
1 AATAATAA
39566940 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:39566918 original size:8 final size:8
Alignment explanation
Indices: 39566884--39566935 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
39566874 TAATGATGTG
*
39566884 AATAATAA
1 AATATTAA
39566892 AATATATAA
1 AATAT-TAA
39566901 AATA-TAA
1 AATATTAA
39566908 AATATTAA
1 AATATTAA
*
39566916 AATATCAA
1 AATATTAA
*
39566924 AATATTAG
1 AATATTAA
39566932 AATA
1 AATA
39566936 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:39567498 original size:30 final size:30
Alignment explanation
Indices: 39567348--39567522 Score: 228
Period size: 30 Copynumber: 5.8 Consensus size: 30
39567338 TAGGTACAAG
* *
39567348 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
* ** * *
39567378 AGGTAATGGAGCAA-GTGTGGCTAGTGGATT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
*
39567408 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
39567438 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
39567468 TGGTGATGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
39567498 TGGTGGTGGAAAAGGTGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGT
39567523 TGAGAAAAGT
Statistics
Matches: 129, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
29 2 0.02
30 127 0.98
ACGTcount: A:0.21, C:0.04, G:0.48, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:39568328 original size:75 final size:76
Alignment explanation
Indices: 39568230--39568408 Score: 254
Period size: 77 Copynumber: 2.4 Consensus size: 76
39568220 CGACATGTAA
*
39568230 ACCCAAGGCTCAACTCACATCTCGCAATATGAGTTGA-TTTTTGAAAAGCAGAAATTGAAAA-CG
1 ACCCAAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAATAG
**
39568293 CCTCAGCGTGTG
66 -CTCAGCACGTG
* *
39568305 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAATA
1 ACCCAAGGCTCAACTCACATCTCGCAATATGAGTTGA-TTTTTTGAAAAGCAGAAATTGAAAATA
39568370 GCTCAGCACGTG
65 GCTCAGCACGTG
* * *
39568382 AGCAAAGGCTCAACTCACTTCTCGCAA
1 ACCCAAGGCTCAACTCACATCTCGCAA
39568409 AAGTAGATTT
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
75 35 0.38
77 56 0.61
78 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (76 bp):
ACCCAAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAATAG
CTCAGCACGTG
Found at i:39568823 original size:76 final size:73
Alignment explanation
Indices: 39568546--39568807 Score: 416
Period size: 73 Copynumber: 3.5 Consensus size: 73
39568536 AGCATGTGAG
*
39568546 CCGAGACTCAACTCACCTTTCGTAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTC
1 CCGAGGCTCAACTCACCTTTCGTAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTC
39568611 AGCGTGTC
66 AGCGTGTC
39568619 CCGAGGCTCAACTCACCTTTCGTAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTC
1 CCGAGGCTCAACTCACCTTTCGTAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTC
39568684 AGCGTGTC
66 AGCGTGTC
* * * * *
39568692 CCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTTAAAAATAC
1 CCGAGGCTCAACTCACCTTTCGTAATATGAGTT-A-ATTTTTGACAAACAGAAA-TTGAAATTAC
39568757 CTCAGCGTGTC
63 CTCAGCGTGTC
* * *
39568768 CTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTT
1 CCGAGGCTCAACTCACCTTTCGTAATATGAGTTAATTTTT
39568808 TTTACGAATA
Statistics
Matches: 175, Mismatches: 11, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
73 104 0.59
74 6 0.03
75 16 0.09
76 49 0.28
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (73 bp):
CCGAGGCTCAACTCACCTTTCGTAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTC
AGCGTGTC
Found at i:39568886 original size:91 final size:90
Alignment explanation
Indices: 39568732--39568898 Score: 239
Period size: 91 Copynumber: 1.8 Consensus size: 90
39568722 GTTGATTTTT
* * *
39568732 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATG
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATG
*
39568797 AGTTGATTTTTTTTACGAATAGAAA
66 AGTTAATTTTTTTTACGAATAGAAA
* *
39568822 TTGAAGAACAGAAA-TTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAAT
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGC--GTG-GCCTGAGGCTCAACTCACCTCTCGCAAT
39568885 ATGAGTTAATTTTT
63 ATGAGTTAATTTTT
39568899 GACAAACAGA
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
89 14 0.21
90 13 0.19
91 39 0.57
92 2 0.03
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (90 bp):
TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTAATTTTTTTTACGAATAGAAA
Found at i:39568960 original size:73 final size:74
Alignment explanation
Indices: 39568822--39568990 Score: 214
Period size: 73 Copynumber: 2.3 Consensus size: 74
39568812 CGAATAGAAA
* * * *
39568822 TTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCA-GTGACCCAAGGCTCAACTCACCTCTCACAATAT
39568887 GAGTTAATTT
65 GAGTTAATTT
* ** * *
39568897 TTGACAAACAGAAATTGAAATTACCTCAGC-GTGTCCCAAGGCTCAACTCACCTTTCACAATATG
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGACCCAAGGCTCAACTCACCTCTCACAATATG
*
39568961 AGTTGATTT
66 AGTTAATTT
* *
39568970 TTGAAAAATATAAATTGAAAA
1 TTGAAAAACAGAAATTGAAAA
39568991 AACAGAAATT
Statistics
Matches: 80, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
73 54 0.68
75 26 0.32
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (74 bp):
TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGACCCAAGGCTCAACTCACCTCTCACAATATG
AGTTAATTT
Found at i:39568964 original size:164 final size:165
Alignment explanation
Indices: 39568657--39569177 Score: 609
Period size: 177 Copynumber: 3.1 Consensus size: 165
39568647 GAGTTAATTT
** ** *
39568657 TTGACAAACAGAAATTGAAATTACCTCAGC--GTGTCCCGAGGCTCAACTCACCTTTCGCAATAT
1 TTGA-AAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
* * **
39568720 GAGTTGATTTTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACC
65 GAGTTGATTTTTTTGACAAACAGAAA-TTGAAAATACCTCAGCGTGTCCCAAGGCTCAACTCACC
* **
39568785 TCTCGTAATATGAGTTGATTTTTTTTACGAATAGAAA
129 TCTCGCAATATGAGTTGATTTTTTTTAAAAATAGAAA
39568822 TTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAA-AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
* *
39568887 GAGTT-A-ATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCAAGGCTCAACTCACCT
65 GAGTTGATTTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCCAAGGCTCAACTCACCT
* * *
39568950 TTCACAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAACAGAAA
130 CTCGCAATATGAGTTGA-TTTT------T-T---TT--AAAAATAGAAA
* * * *
39568999 TTGAAAAGCAGAAATTAAAAAGACTTCAGCATGTGAGCCGAGACTCAACTCACCTCTCACAATAT
1 TTGAAAA-CAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
* *
39569064 GAGTTGATTTTTTTTGACAAACAGAAATTGAAAAATACCTCAGCGTGTAAGCCAAGGGTCAACTC
65 GAGTTGA-TTTTTTTGACAAACAGAAATTG-AAAATACCTCAGCGTGT--CCCAAGGCTCAACTC
*
39569129 ACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAA
126 ACCTCTCGCAATATGAGTTGATTTTTTTTAAAAATAGAAA
39569169 TTGAAAACA
1 TTGAAAACA
39569178 CCTCAGCATG
Statistics
Matches: 304, Mismatches: 29, Indels: 42
0.81 0.08 0.11
Matches are distributed among these distances:
164 50 0.16
165 46 0.15
166 1 0.00
167 35 0.12
169 2 0.01
170 17 0.06
171 1 0.00
172 2 0.01
175 3 0.01
176 3 0.01
177 71 0.23
178 1 0.00
180 20 0.07
181 16 0.05
182 4 0.01
183 32 0.11
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (165 bp):
TTGAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCCAAGGCTCAACTCACCTC
TCGCAATATGAGTTGATTTTTTTTAAAAATAGAAA
Found at i:39568989 original size:14 final size:14
Alignment explanation
Indices: 39568970--39569019 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
39568960 GAGTTGATTT
* *
39568970 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
39568984 TTGAAAAAACAGAAA
1 TTG-AAAAACAGAAA
*
39568999 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
39569013 TT-AAAAA
1 TTGAAAAA
39569020 GACTTCAGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 15 0.48
15 12 0.39
ACGTcount: A:0.64, C:0.04, G:0.12, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:39569126 original size:79 final size:76
Alignment explanation
Indices: 39568999--39569226 Score: 270
Period size: 79 Copynumber: 3.0 Consensus size: 76
39568989 AAAACAGAAA
* * * *
39568999 TTGAAAAGCAGAAATT-AAAAAGACTTCAGCATGTGAGCCGAGACTCAACTCACCTCTCACAATA
1 TTGAAAA-CAGAAATTGAAAAACACCTCAGCATGT-AGCC-AGGCTCAACTCACCTCTCGCAATA
39569063 TGAGTTGATTTTTT
63 TGAGTTGATTTTTT
* * *
39569077 TTGACAAACAGAAATTGAAAAATACCTCAGCGTGTAAGCCAAGGGTCAACTCACCTCTCGCAATA
1 TTGA-AAACAGAAATTGAAAAACACCTCAGCATGT-AGCC-AGGCTCAACTCACCTCTCGCAATA
39569142 TGAGTTGA-TTTTT
63 TGAGTTGATTTTTT
*
39569155 TTGAAAAATAGAAATTG-AAAACACCTCAGCATGT-G--AGGCTCAACTCACCTCTCGCAATATG
1 TTG-AAAACAGAAATTGAAAAACACCTCAGCATGTAGCCAGGCTCAACTCACCTCTCGCAATATG
*
39569216 ATTTGATTTTT
65 AGTTGATTTTT
39569227 GAAAAACATA
Statistics
Matches: 133, Mismatches: 13, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
72 30 0.23
73 4 0.03
75 1 0.01
77 15 0.11
78 31 0.23
79 52 0.39
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (76 bp):
TTGAAAACAGAAATTGAAAAACACCTCAGCATGTAGCCAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTT
Found at i:39569214 original size:72 final size:74
Alignment explanation
Indices: 39569042--39569406 Score: 273
Period size: 71 Copynumber: 4.8 Consensus size: 74
39569032 TGAGCCGAGA
* * *
39569042 CTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTGACAAACAGAAATTGAAAAATACCTC-A
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAATAGAAATTG-AAAATACCTCAA
*
39569106 -GCGTGTAAGCCAAGG
64 CGCATGT--G---AGG
* *
39569121 GTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAACACCTC-A-G
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAATACCTCAACG
39569184 CATGTGAGG
66 CATGTGAGG
* ***
39569193 CTCAACTCACCTCTCGCAATATGATTTGATTTTTGAAAAACATAAATTGAGCAGAAATTGAAAAT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTT--TTGA-A-AAA-T----AGAAATTGAAAAT
** *
39569258 ACCTCAACGGGTCTTGAGG
57 ACCTCAACGCAT-GTGAGG
* ** *
39569277 TTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-ATGAT--AAATTGAAAATACCTCAATG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAATACCTCAACG
*
39569338 TGACT-TGAGG
66 -CA-TGTGAGG
* * *
39569348 TTCAACTCACCTCTCACAATATGAGTTGA-TTTTTTGAATTAAAACAGAAATTGAAAATA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-A--AAAATAGAAATTGAAAATA
39569407 GAAATGGAAA
Statistics
Matches: 238, Mismatches: 28, Indels: 42
0.77 0.09 0.14
Matches are distributed among these distances:
71 59 0.25
72 36 0.15
73 1 0.00
74 1 0.00
75 4 0.02
76 3 0.01
77 29 0.12
78 21 0.09
79 28 0.12
81 17 0.07
82 1 0.00
83 6 0.03
84 32 0.13
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (74 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAATACCTCAACG
CATGTGAGG
Found at i:39569457 original size:159 final size:154
Alignment explanation
Indices: 39569122--39569475 Score: 430
Period size: 159 Copynumber: 2.2 Consensus size: 154
39569112 AAGCCAAGGG
39569122 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAACACCTCAGCAT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAATA-AAATTGAAAACACCTCAGCAT
* * * * *
39569187 GTGAGGCTCAACTCACCTCTCGCAATATGATTTGATTTTTGAAAAACATAAATTGAGCAGAAATT
64 GTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTGAACAGAAATG
* *
39569252 GAAAATACCTCAACGGGTCTTGAGGT
129 GAAAACACCTCAACGCGTCTTGAGGT
** * *
39569278 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-ATGAT-AAATTGAAAATACCTCAATGTGA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAAAATTGAAAACACCTC-A-G-CA
*
39569341 CT-TGAGGTTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAATTAAAACAGAAATTGAAAA
63 -TGTGAGGCTCAACTCACCTCTCACAATATGAGTTGA-TTTTTG-A--AAAACAGAAATTG--AA
*
39569405 TAGAAATGGAAAACACCTC-A-GCGTCTTGAGGT
121 CAGAAATGGAAAACACCTCAACGCGTCTTGAGGT
*
39569437 TCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAA
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA
39569476 CACATAAATT
Statistics
Matches: 171, Mismatches: 15, Indels: 19
0.83 0.07 0.09
Matches are distributed among these distances:
152 15 0.09
153 1 0.01
154 4 0.02
155 39 0.23
156 35 0.20
157 1 0.01
159 50 0.29
160 8 0.05
161 18 0.11
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (154 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAAAATTGAAAACACCTCAGCATGT
GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTGAACAGAAATGGA
AAACACCTCAACGCGTCTTGAGGT
Found at i:39569694 original size:77 final size:77
Alignment explanation
Indices: 39569535--39569802 Score: 327
Period size: 77 Copynumber: 3.6 Consensus size: 77
39569525 CGACGTGTGA
* * * * *
39569535 CCCGAGACTCAACTTACCTCTCGCAATATGAGTTAATTCTTTT-A-AAAAGCAAAAATTGAAAAT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAACAAAAATTGAAAAT
39569598 ACCTCAGCGTGT
66 ACCTCAGCGTGT
* * * * *
39569610 CCCGAGGCTCAACTCACCTATCACAATATGAGTTGATTTTTTTGATAAAAATAGAATTTGAAAAT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAACAAAAATTGAAAAT
*
39569675 ATCTCAGCGTGT
66 ACCTCAGCGTGT
* * *
39569687 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG--ACAAACAAAAATTGAAATT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAACAAAAATTGAAAAT
39569748 ACCTCAGC--GT
66 ACCTCAGCGTGT
** *
39569758 CTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
39569803 AACATAAATT
Statistics
Matches: 166, Mismatches: 22, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
71 36 0.22
73 27 0.16
75 43 0.26
76 1 0.01
77 59 0.36
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.31
Consensus pattern (77 bp):
CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAACAAAAATTGAAAAT
ACCTCAGCGTGT
Found at i:39569764 original size:417 final size:416
Alignment explanation
Indices: 39569122--39569877 Score: 956
Period size: 417 Copynumber: 1.8 Consensus size: 416
39569112 AAGCCAAGGG
* * * *
39569122 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAACACCTCAGCAT
1 TCAACTCACCTCTCGCAATATGAGTTAATTCTTTTGAAAAACAAAAATTGAAAACACCTCAGCAT
* * *
39569187 GTGAGGCTCAACTCACCTCTCGCAATATGATTTGATTTTTGAAAAACATAAATTGAGCAGAAATT
66 GTGAGGCTCAACTCACCTATCACAATATGAGTTGATTTTTGAAAAACATAAATT--G-AGAAATT
* * **
39569252 GAAAATACCTCAACGGGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATGA
128 GAAAATACCTCAACGGGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAACA
* * *
39569317 TAAATTGAAAATACCTCAATGTGACTTGAGGTTCAACTCACCTCTCACAATATGAGTTGATTTTT
193 AAAATTGAAAATACCTCAATGCGACTTGAGGCTCAACTCACCTCTCACAATATGAGTTGA-TTTT
* * * * *
39569382 TGAATTAAAACAGAAATT-GAAAATAGAAATGGAAAACACCTCAGC-GTCTTGAGGTTCAACTCA
257 T---TTAAAACAGAAATTAAAAAACAAAAATGGAAAACACCTCAGCGGTCCTGAGGCTCAACTCA
39569445 CCTCTCGCAATATGAGCTGATTTTTTTGAAACACATAAATTAAAAAAAAAAGAAATTAAAAATAG
319 CCTCTCGCAATATGAGCTGATTTTTTTGAAACACATAAATTAAAAAAAAAAGAAATTAAAAATAG
39569510 AATTTGAAAGGACCTCGACGTGTGACCCGAGAC
384 AATTTGAAAGGACCTCGACGTGTGACCCGAGAC
* * *
39569543 TCAACTTACCTCTCGCAATATGAGTTAATTCTTTT-AAAAAGCAAAAATTGAAAATACCTCAGCG
1 TCAACTCACCTCTCGCAATATGAGTTAATTCTTTTGAAAAA-CAAAAATTGAAAACACCTCAGCA
*** * *
39569607 TGTCCCGAGGCTCAACTCACCTATCACAATATGAGTTGATTTTTTTGATA-A-AAA-T-AGAATT
65 TGT---GAGGCTCAACTCACCTATCACAATATGAGTTGATTTTTGAAAAACATAAATTGAGAAAT
* * *
39569668 TGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACA
127 TGAAAATACCTCAACGGGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG---
* * * *
39569732 AACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAT
189 AACAAAAATTGAAAATACCTCAATGCGACTTGAGGCTCAACTCACCTCTCACAATATGAGTTGAT
* * * *
39569795 TTTTTTGAAACATAAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACT
254 TTTTTTAAAACAGAAATT-AAAAAACAAAAATGGAAAACACCTCAGCG-GTCCTGAGGCTCAACT
39569860 CACCTCTCGCAATATGAG
317 CACCTCTCGCAATATGAG
39569878 TTGAAATTAA
Statistics
Matches: 286, Mismatches: 38, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
413 12 0.04
415 22 0.08
416 11 0.04
417 122 0.43
418 1 0.00
419 17 0.06
420 5 0.02
421 55 0.19
422 3 0.01
423 1 0.00
424 37 0.13
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.29
Consensus pattern (416 bp):
TCAACTCACCTCTCGCAATATGAGTTAATTCTTTTGAAAAACAAAAATTGAAAACACCTCAGCAT
GTGAGGCTCAACTCACCTATCACAATATGAGTTGATTTTTGAAAAACATAAATTGAGAAATTGAA
AATACCTCAACGGGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAACAAAA
ATTGAAAATACCTCAATGCGACTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTA
AAACAGAAATTAAAAAACAAAAATGGAAAACACCTCAGCGGTCCTGAGGCTCAACTCACCTCTCG
CAATATGAGCTGATTTTTTTGAAACACATAAATTAAAAAAAAAAGAAATTAAAAATAGAATTTGA
AAGGACCTCGACGTGTGACCCGAGAC
Found at i:39569852 original size:159 final size:159
Alignment explanation
Indices: 39569667--39569957 Score: 451
Period size: 159 Copynumber: 1.8 Consensus size: 159
39569657 AAAATAGAAT
* ** *
39569667 TTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
1 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-AATT-AAA
* ** * *
39569732 A-ACAAAAATTGAAATTACCTCAGCGT-CTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAT
64 ACACAAAAATTGAAAATACCTCAGCGTCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
39569795 TTTTTTGAAACATAAATTAAAAAAACAAAAA
129 TTTTTTGAAACATAAATTAAAAAAACAAAAA
39569826 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAAC
1 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAAC
*
39569891 ACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGATT
66 ACAAAAATTGAAAATACCTCAGCGT-CCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
39569956 TT
130 TT
39569958 GAAAAAGTAG
Statistics
Matches: 119, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
157 3 0.03
158 26 0.22
159 55 0.46
160 35 0.29
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.28
Consensus pattern (159 bp):
TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAAC
ACAAAAATTGAAAATACCTCAGCGTCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTT
TTTTGAAACATAAATTAAAAAAACAAAAA
Found at i:39569926 original size:72 final size:73
Alignment explanation
Indices: 39569808--39569949 Score: 241
Period size: 72 Copynumber: 2.0 Consensus size: 73
39569798 TTTGAAACAT
* *
39569808 AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
1 AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
39569873 ATGAGTTG
66 ATGAGTTG
* *
39569881 AAATT-AAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAAT
1 AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
39569945 ATGAG
66 ATGAG
39569950 CTGATTTTGA
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
72 60 0.92
73 5 0.08
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (73 bp):
AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTG
Found at i:39570324 original size:72 final size:72
Alignment explanation
Indices: 39570103--39570533 Score: 443
Period size: 72 Copynumber: 5.8 Consensus size: 72
39570093 AGTGTGTAAT
* ** * * * *
39570103 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA--ATTTT--GAAAACAGAAATTAAAAATAC
* *
39570168 CTCAGCATGTGAAC
62 CTCA--ACGTG-TC
** *
39570182 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAACAGAAATTAAAAATA
1 CTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA-----ATTTTGAAAACAGAAATTAAAAATA
39570246 CCTCAACGTGTC
61 CCTCAACGTGTC
*
39570258 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTAAAAATACCTCA
1 CTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTAAAAATACCTCA
39570323 ACGTGTC
66 ACGTGTC
* * *
39570330 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTAAAAATACCTCA
*
39570395 GCGTGTC
66 ACGTGTC
* * * * * *
39570402 CTGAGGCTCAACTCATTTATCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA--ATTTTGAA-AACAGAAATTAAAAATACC
*
39570467 TCAGCGTGTC
63 TCAACGTGTC
** * * *
39570477 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACAAAAATTAAAA
1 CTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTG-AAAACAGAAATTAAAA
39570534 GGCTTAACTC
Statistics
Matches: 318, Mismatches: 26, Indels: 23
0.87 0.07 0.06
Matches are distributed among these distances:
72 153 0.48
73 2 0.01
74 6 0.02
75 59 0.19
76 1 0.00
77 35 0.11
78 31 0.10
79 24 0.08
81 7 0.02
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.31
Consensus pattern (72 bp):
CTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTAAAAATACCTCA
ACGTGTC
Found at i:39570415 original size:144 final size:144
Alignment explanation
Indices: 39570103--39570533 Score: 488
Period size: 147 Copynumber: 2.9 Consensus size: 144
39570093 AGTGTGTAAT
* **
39570103 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTT--AAAAACAGAAATTGAAAATAC
* * * *
39570168 CTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAACA
63 CTCA--ACGTG-TCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA-----ATTTTGAAAACA
39570233 GAAATTAAAAATACCTCAACGTGTC
120 GAAATTAAAAATACCTCAACGTGTC
* * * * *
39570258 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA-ATTTTGAAAACAGAAATTAAAAATACCTC
1 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTAAAAACAGAAATTGAAAATACCTC
** *
39570322 AACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAA
66 AACGTGTC-TGAGGCTCAACTCACCTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTAAAA
* *
39570387 TTACCTCAGCGTGTC
130 ATACCTCAACGTGTC
* * *
39570402 CTGAGGCTCAACTCATTTATCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--TTTTTTAAAAACAGAAATTGAAAATACC
* * * *
39570467 TCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACAAAAATTA
64 TCAACGTGT-CTGAGGCTCAACTCACCTCTCGCAATATAAGTTGAATTTTG-AAAACAGAAATTA
39570531 AAA
127 AAA
39570534 GGCTTAACTC
Statistics
Matches: 238, Mismatches: 32, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
144 65 0.27
146 6 0.03
147 73 0.31
148 2 0.01
149 35 0.15
151 23 0.10
153 4 0.02
155 30 0.13
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.31
Consensus pattern (144 bp):
CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTAAAAACAGAAATTGAAAATACCTC
AACGTGTCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTAAAAA
TACCTCAACGTGTC
Found at i:39570649 original size:115 final size:115
Alignment explanation
Indices: 39570465--39570761 Score: 535
Period size: 115 Copynumber: 2.6 Consensus size: 115
39570455 ATTGAAATTA
* * * * *
39570465 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATT
1 CCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATT
39570530 AAAAGGCTTAACTCACCTCTCGCAATATGAGTCAACATAAACTAAAAATC
66 AAAAGGCTTAACTCACCTCTCGCAATATGAGTCAACATAAACTAAAAATC
39570580 CCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATT
1 CCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATT
39570645 AAAAGGCTTAACTCACCTCTCGCAATATGAGTCAACATAAACTAAAAATC
66 AAAAGGCTTAACTCACCTCTCGCAATATGAGTCAACATAAACTAAAAATC
39570695 CCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTG-AAAA-AAAAATT
1 CCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATT
39570758 AAAA
66 AAAA
39570762 ATACCTCAAC
Statistics
Matches: 177, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
113 11 0.06
114 4 0.02
115 162 0.92
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (115 bp):
CCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATT
AAAAGGCTTAACTCACCTCTCGCAATATGAGTCAACATAAACTAAAAATC
Found at i:39587302 original size:93 final size:91
Alignment explanation
Indices: 39587155--39587358 Score: 247
Period size: 93 Copynumber: 2.3 Consensus size: 91
39587145 GCACTCAAGT
* * * * *
39587155 TTTTCAAAAAAAGCAATTAAG--TCTCTGTTTTTTTTTGCACTCATTTGGGTACTTGAACTTTCA
1 TTTTCAAAAAAAGCAATTAAGCCCCTCTCTTTTTTTTTGCAATCAATTGGGTACTTGAACTTCCA
*
39587218 AAAT-ATATCAAAAAAGCCCTTAAAC-C
66 AAATGAT-TCAAAAAA-CCCTCAAACTC
*
39587244 TTTTCAAGAAAAAGCAATTAAGCCCCTGCTCTTTTTTTTTTCAATCAATTGGGTACTTGAACTTC
1 TTTTCAA-AAAAAGCAATTAAGCCCCT-CTCTTTTTTTTTGCAATCAATTGGGTACTTGAACTTC
* * *
39587309 CAAAATGCTTCAAAAGACCCTCAAACTT
64 CAAAATGATTCAAAAAACCCTCAAACTC
39587337 TTTTC-AAAAAAGCAATTAAGCC
1 TTTTCAAAAAAAGCAATTAAGCC
39587359 TCTGATTTTA
Statistics
Matches: 99, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
89 7 0.07
90 14 0.14
91 16 0.16
92 11 0.11
93 50 0.51
94 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (91 bp):
TTTTCAAAAAAAGCAATTAAGCCCCTCTCTTTTTTTTTGCAATCAATTGGGTACTTGAACTTCCA
AAATGATTCAAAAAACCCTCAAACTC
Found at i:39587487 original size:9 final size:8
Alignment explanation
Indices: 39587473--39587522 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 8
39587463 TAAATTTTTT
39587473 TAAAAATA
1 TAAAAATA
39587481 GTAAAAATA
1 -TAAAAATA
39587490 TATAAAATA
1 TA-AAAATA
39587499 TATAGAAATA
1 TA-A-AAATA
39587509 TAAAAATTA
1 TAAAAA-TA
39587518 TAAAA
1 TAAAA
39587523 TTTTATAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
8 5 0.13
9 26 0.68
10 7 0.18
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (8 bp):
TAAAAATA
Found at i:39587495 original size:19 final size:19
Alignment explanation
Indices: 39587473--39587522 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
39587463 TAAATTTTTT
39587473 TAAAA-ATAGTAAAAATATA
1 TAAAATATA-TAAAAATATA
*
39587492 TAAAATATATAGAAATATA
1 TAAAATATATAAAAATATA
39587511 -AAAAT-TATAAAA
1 TAAAATATATAAAA
39587523 TTTTATAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 6 0.21
18 5 0.18
19 14 0.50
20 3 0.11
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (19 bp):
TAAAATATATAAAAATATA
Found at i:39587769 original size:36 final size:38
Alignment explanation
Indices: 39587729--39587811 Score: 107
Period size: 36 Copynumber: 2.2 Consensus size: 38
39587719 GGTCATTAAT
* * *
39587729 TTTTTTATGATTTT-TATAAAAAATTAAT-ATTTTTTA
1 TTTTTTATGATTTTACAAAAAAAATTAATAATTTATTA
*
39587765 TTTTTTATGATTTTACAAAAAAAATTTATAATTTATTA
1 TTTTTTATGATTTTACAAAAAAAATTAATAATTTATTA
39587803 TATTTTTAT
1 T-TTTTTAT
39587812 TAAAATTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
36 14 0.35
37 11 0.28
38 8 0.20
39 7 0.17
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.59
Consensus pattern (38 bp):
TTTTTTATGATTTTACAAAAAAAATTAATAATTTATTA
Found at i:39587988 original size:89 final size:88
Alignment explanation
Indices: 39587862--39588068 Score: 213
Period size: 89 Copynumber: 2.3 Consensus size: 88
39587852 AAGAGCAGGG
* * * * * *
39587862 GCTTAATTGC-TTTTTTAAAAAATTTTGAGGGTCTTTTTGATGCATTTTGAAAATTTAATTACCC
1 GCTTAATTGCTTTTTTTAAAAAAGTTTGAGGGTCTTTTTAATACATTCTGAAAATTCAAGTACCC
*
39587926 AATTGAGTGAAAAAAAAAGTAAGA
66 AATTGAGTG-AAAAAAAAGGAAGA
* * * * *
39587950 GCTTAATTGCTTTTTTTGAAGAAGTTTGATGG-CATTTTTAATACATTCTGAAAATTCAAGTGCT
1 GCTTAATTGCTTTTTTTAAAAAAGTTTGAGGGTC-TTTTTAATACATTCTGAAAATTCAAGTACC
* *
39588014 TAATTGAGTGAAAAAAAAGGAAGG
65 CAATTGAGTGAAAAAAAAGGAAGA
* *
39588038 GCTTAATTACTTTTCTTTTTAAAAA-TTTGAG
1 GCTTAATTGC-TTT-TTTTAAAAAAGTTTGAG
39588069 AACTTTTTAC
Statistics
Matches: 97, Mismatches: 18, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
88 32 0.33
89 57 0.59
90 8 0.08
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (88 bp):
GCTTAATTGCTTTTTTTAAAAAAGTTTGAGGGTCTTTTTAATACATTCTGAAAATTCAAGTACCC
AATTGAGTGAAAAAAAAGGAAGA
Found at i:39588295 original size:2 final size:2
Alignment explanation
Indices: 39588288--39588319 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
39588278 ACGCACACGC
39588288 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39588320 TACAAATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39588873 original size:22 final size:22
Alignment explanation
Indices: 39588846--39588891 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
39588836 ATAATGTATT
*
39588846 TTTTAAA-AAAGATATTTAAAAA
1 TTTTAAAGAAA-ATATATAAAAA
39588868 TTTTAAAGAAAATATATAAAAA
1 TTTTAAAGAAAATATATAAAAA
39588890 TT
1 TT
39588892 ATATATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (22 bp):
TTTTAAAGAAAATATATAAAAA
Found at i:39588923 original size:17 final size:17
Alignment explanation
Indices: 39588903--39588952 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
39588893 TATATTTTTA
39588903 AATTTAAAAGAAATTAT-
1 AATTTAAAA-AAATTATG
39588920 AATTTAAAAAAATATATG
1 AATTTAAAAAAAT-TATG
*
39588938 TATTTAAAAAAATTA
1 AATTTAAAAAAATTA
39588953 AAAAAATTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 4 0.13
17 14 0.47
18 12 0.40
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (17 bp):
AATTTAAAAAAATTATG
Found at i:39591671 original size:14 final size:14
Alignment explanation
Indices: 39591618--39591691 Score: 69
Period size: 14 Copynumber: 5.2 Consensus size: 14
39591608 TTTCTTCTTA
* *
39591618 AATTCTCAATCTTC
1 AATTTTCAATTTTC
* * *
39591632 AATTTCCAGTTTTT
1 AATTTTCAATTTTC
39591646 AATTTT-ATATTTTC
1 AATTTTCA-ATTTTC
39591660 AATTTTCAATTTTC
1 AATTTTCAATTTTC
*
39591674 AAATTTTTAATTTTC
1 -AATTTTCAATTTTC
39591689 AAT
1 AAT
39591692 CCTCAATTCT
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
13 1 0.02
14 33 0.69
15 14 0.29
ACGTcount: A:0.30, C:0.14, G:0.01, T:0.55
Consensus pattern (14 bp):
AATTTTCAATTTTC
Found at i:39591679 original size:29 final size:29
Alignment explanation
Indices: 39591648--39591711 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
39591638 CAGTTTTTAA
39591648 TTTTATATTTTCAATTTTCAATTTTCAAAT
1 TTTTA-ATTTTCAATTTTCAATTTTCAAAT
** *
39591678 TTTTAATTTTCAATCCTCAATTCTCAAAT
1 TTTTAATTTTCAATTTTCAATTTTCAAAT
39591707 ATTTT
1 -TTTT
39591712 TTTAAGTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.30, C:0.14, G:0.00, T:0.56
Consensus pattern (29 bp):
TTTTAATTTTCAATTTTCAATTTTCAAAT
Found at i:39591680 original size:15 final size:15
Alignment explanation
Indices: 39591654--39591690 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
39591644 TTAATTTTAT
39591654 ATTTTC-AATTTTCA
1 ATTTTCAAATTTTCA
*
39591668 ATTTTCAAATTTTTA
1 ATTTTCAAATTTTCA
39591683 ATTTTCAA
1 ATTTTCAA
39591691 TCCTCAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTCAAATTTTCA
Found at i:39591697 original size:22 final size:22
Alignment explanation
Indices: 39591654--39591697 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
39591644 TTAATTTTAT
**
39591654 ATTTTCAATTTTCAATTTTCAA
1 ATTTTCAATTTTCAATCCTCAA
*
39591676 ATTTTTAATTTTCAATCCTCAA
1 ATTTTCAATTTTCAATCCTCAA
39591698 TTCTCAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTTCAATTTTCAATCCTCAA
Found at i:39598587 original size:24 final size:24
Alignment explanation
Indices: 39598560--39598635 Score: 100
Period size: 24 Copynumber: 3.1 Consensus size: 24
39598550 TGCTTTCTGT
39598560 TTAAGTGCTCTTCGGAGCTTCCCG
1 TTAAGTGCTCTTCGGAGCTTCCCG
*
39598584 TTAAGTGCTCTTCGGAGCTACCCG
1 TTAAGTGCTCTTCGGAGCTTCCCG
* *
39598608 ATATAG-GCTCTTTGTGAGCTTCCCG
1 TTA-AGTGCTCTTCG-GAGCTTCCCG
39598633 TTA
1 TTA
39598636 CATGGCTCAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
24 32 0.71
25 13 0.29
ACGTcount: A:0.16, C:0.26, G:0.24, T:0.34
Consensus pattern (24 bp):
TTAAGTGCTCTTCGGAGCTTCCCG
Found at i:39601548 original size:36 final size:36
Alignment explanation
Indices: 39601508--39601582 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
39601498 ACCTGATGTG
39601508 ATTACTGGTACTTTTTCTCTCTTTGATACTGATATA
1 ATTACTGGTACTTTTTCTCTCTTTGATACTGATATA
39601544 ATTACTGGTACTTTTTCTCTCTTTGATACTGATATA
1 ATTACTGGTACTTTTTCTCTCTTTGATACTGATATA
39601580 ATT
1 ATT
39601583 GCTTTGATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.23, C:0.16, G:0.11, T:0.51
Consensus pattern (36 bp):
ATTACTGGTACTTTTTCTCTCTTTGATACTGATATA
Found at i:39603152 original size:158 final size:158
Alignment explanation
Indices: 39602923--39603245 Score: 549
Period size: 158 Copynumber: 2.0 Consensus size: 158
39602913 AAATGACCAA
*
39602923 AAAAAAATCAATTATTTACATAAATGATCCTGGTTCAAAAACAATAACTTAAATGACCTGAAATG
1 AAAAAAATCAATTATTTACATAAATGATCCCGGTTCAAAAACAATAACTTAAATGACCTGAAATG
*
39602988 ACCAGTAAAATTAGG-TAAGAGAGACTAAATGGTTGGCACCAATATTTTTTTCTAACACAATCAT
66 ACCAGTAAAATT-GGATAAGAGAGACTAAATGGCTGGCACCAATATTTTTTTCTAACACAATCAT
39603052 TGTTTTGTGTGATGATTGTGTCAGTGGTT
130 TGTTTTGTGTGATGATTGTGTCAGTGGTT
* ** *
39603081 AAAAAAATTAATTATTTGTATAAATGATCCCGGTTCAAAAACAATAACTTAAATGACTTGAAATG
1 AAAAAAATCAATTATTTACATAAATGATCCCGGTTCAAAAACAATAACTTAAATGACCTGAAATG
* *
39603146 ATCAGTAAAATTGGATAAGAGAGACTAAATGGCTGGCACCAATATTTTTTTCTAACACAATCGTT
66 ACCAGTAAAATTGGATAAGAGAGACTAAATGGCTGGCACCAATATTTTTTTCTAACACAATCATT
*
39603211 GTTTTGTTTGATGATTGTGTCAGTGGTT
131 GTTTTGTGTGATGATTGTGTCAGTGGTT
39603239 AAAAAAA
1 AAAAAAA
39603246 ATTTGGGTGC
Statistics
Matches: 155, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
157 2 0.01
158 153 0.99
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (158 bp):
AAAAAAATCAATTATTTACATAAATGATCCCGGTTCAAAAACAATAACTTAAATGACCTGAAATG
ACCAGTAAAATTGGATAAGAGAGACTAAATGGCTGGCACCAATATTTTTTTCTAACACAATCATT
GTTTTGTGTGATGATTGTGTCAGTGGTT
Found at i:39604256 original size:75 final size:75
Alignment explanation
Indices: 39604168--39604315 Score: 226
Period size: 75 Copynumber: 2.0 Consensus size: 75
39604158 CCACTTCTCC
* * * * *
39604168 AATTTTATTATTATTGTTTTTGAATCAGGGTCAGTTATGTAAATAATTAATTTTTTG-GATCATT
1 AATTTTACTATTATTGTTTTTAAACCAAGATCAGTTATGTAAATAATTAATTTTTTGAG-TCATT
39604232 TGGGTAAAACT
65 TGGGTAAAACT
*
39604243 AATTTTACTATTATTGTTTTTAAACCAAGATCATTTATGTAAATAATTAATTTTTTGAGTCATTT
1 AATTTTACTATTATTGTTTTTAAACCAAGATCAGTTATGTAAATAATTAATTTTTTGAGTCATTT
39604308 GGGTAAAA
66 GGGTAAAA
39604316 TAGCCATTCT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
75 65 0.98
76 1 0.02
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (75 bp):
AATTTTACTATTATTGTTTTTAAACCAAGATCAGTTATGTAAATAATTAATTTTTTGAGTCATTT
GGGTAAAACT
Found at i:39606582 original size:4 final size:4
Alignment explanation
Indices: 39606575--39606627 Score: 70
Period size: 4 Copynumber: 13.2 Consensus size: 4
39606565 TTTACTTTTC
* * * *
39606575 TATG TATG TATG TATG TATG TACG TACG TATG TATG TATG CATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
39606623 TATG T
1 TATG T
39606628 GTTGTGTATG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.43
Consensus pattern (4 bp):
TATG
Found at i:39607045 original size:31 final size:31
Alignment explanation
Indices: 39606986--39607046 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
39606976 TACAATTTAG
*
39606986 TTATTAAACTATTCAAAAGTTTTCATTTAAA
1 TTATTAAACTATTCAAAAATTTTCATTTAAA
* *
39607017 TTATTGAATTATTCAAAAAATTTT-ATTTAA
1 TTATTAAACTATTC-AAAAATTTTCATTTAA
39607047 GTTAATGGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 18 0.69
32 8 0.31
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.48
Consensus pattern (31 bp):
TTATTAAACTATTCAAAAATTTTCATTTAAA
Found at i:39610024 original size:8 final size:9
Alignment explanation
Indices: 39609997--39610022 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
39609987 CACGTTCACC
39609997 GGGTAAAAA
1 GGGTAAAAA
39610006 GGGTAAAAA
1 GGGTAAAAA
39610015 GGGTAAAA
1 GGGTAAAA
39610023 GGAAGAGTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.35, T:0.12
Consensus pattern (9 bp):
GGGTAAAAA
Found at i:39610357 original size:6 final size:6
Alignment explanation
Indices: 39610346--39610384 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
39610336 TGCAAGATCC
39610346 CTGCTT CTGCTT CTGCTT CTGCTT CTGCTT CTGCTT CTG
1 CTGCTT CTGCTT CTGCTT CTGCTT CTGCTT CTGCTT CTG
39610385 ATACTAACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.33, G:0.18, T:0.49
Consensus pattern (6 bp):
CTGCTT
Found at i:39610501 original size:15 final size:15
Alignment explanation
Indices: 39610492--39610526 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
39610482 ACCAGCTCCT
39610492 CCTCCTCCAGCACCA
1 CCTCCTCCAGCACCA
* *
39610507 CCTCCTGCGGCACCA
1 CCTCCTCCAGCACCA
39610522 CCTCC
1 CCTCC
39610527 CAAAGCAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.14, C:0.60, G:0.11, T:0.14
Consensus pattern (15 bp):
CCTCCTCCAGCACCA
Found at i:39614807 original size:24 final size:23
Alignment explanation
Indices: 39614740--39614807 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 23
39614730 AATTTATTTT
39614740 ATATATTTTTC-TTTATA-TATA
1 ATATATTTTTCTTTTATAGTATA
* **
39614761 ATATTTATTTTTGTAGTATTAGTATA
1 ATA--TATTTTTCTTTTA-TAGTATA
39614787 ATATATTTTTCTTTCTATAGT
1 ATATATTTTTCTTT-TATAGT
39614808 TGCTACTATA
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
21 3 0.09
23 7 0.20
24 14 0.40
25 4 0.11
26 7 0.20
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.60
Consensus pattern (23 bp):
ATATATTTTTCTTTTATAGTATA
Found at i:39615528 original size:35 final size:35
Alignment explanation
Indices: 39615480--39615548 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
39615470 TAATTTGAAT
* *
39615480 ATTTTATATTTATC-TCAAATAATATTAATGTTATA
1 ATTTTAGAATTATCTTCAAATAAT-TTAATGTTATA
* *
39615515 ATTTTAGAATTATCTTCAATTTATTTAATGTTAT
1 ATTTTAGAATTATCTTCAAATAATTTAATGTTAT
39615549 TGTTTTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 22 0.76
36 7 0.24
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (35 bp):
ATTTTAGAATTATCTTCAAATAATTTAATGTTATA
Found at i:39620507 original size:17 final size:18
Alignment explanation
Indices: 39620485--39620521 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
39620475 TTATTCTTTT
39620485 ATTCTTTCATCCA-AATC
1 ATTCTTTCATCCATAATC
*
39620502 ATTCTTTCATTCATAATC
1 ATTCTTTCATCCATAATC
39620520 AT
1 AT
39620522 ACTGTGCAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTCTTTCATCCATAATC
Found at i:39623536 original size:41 final size:41
Alignment explanation
Indices: 39623476--39623557 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
39623466 GAATGGGACC
* * *
39623476 GTGGAAGCAGCAAATAAAAATATCAAGAAGATTGTAGGGAA
1 GTGGAAGCAGCAAACAAAAACATCAAGAAAATTGTAGGGAA
*
39623517 GTGGAAGCAGCTAACAAAAACATCAAGAAAATTGTAGGGAA
1 GTGGAAGCAGCAAACAAAAACATCAAGAAAATTGTAGGGAA
39623558 AATGACTGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.49, C:0.10, G:0.26, T:0.16
Consensus pattern (41 bp):
GTGGAAGCAGCAAACAAAAACATCAAGAAAATTGTAGGGAA
Found at i:39625388 original size:46 final size:46
Alignment explanation
Indices: 39625319--39625568 Score: 394
Period size: 46 Copynumber: 5.4 Consensus size: 46
39625309 TATCAATGAG
* *
39625319 GATAGCAGATCTTATCTTTCTGTATTTAGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
39625365 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* * *
39625411 GATAGCGGATCTTATTTTCCTGTATTTGGCAGCGGAGGAGATCAAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
*
39625457 GATAGCGGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
39625503 GATAGTAGATCTTATCTTCCTGTATTTGGCAGCAGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
**
39625549 GAT-GGTGAATCTTATCTTCC
1 GATAGCAG-ATCTTATCTTCC
39625569 CAATACAATG
Statistics
Matches: 191, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 2 0.01
46 189 0.99
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.30
Consensus pattern (46 bp):
GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
Found at i:39625657 original size:44 final size:44
Alignment explanation
Indices: 39625604--39626343 Score: 177
Period size: 44 Copynumber: 16.8 Consensus size: 44
39625594 GCCATTAGTC
* *
39625604 CTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATT
* * ** *
39625648 CTGTCACCCTAAGCAGTAGTGGAGCAGATTGAAGA-TGGTGAAT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATT
* * * * * * *
39625691 CTTATCTTCCC-AATACAGTGGAGAAGTAGATTTAAGCCATT--AG-TC
1 C-TATC-ACCCTAA-GCAGTAGTGGAGTAGATTGAAG--ATTGCAGATT
*
39625736 CTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATT
* * * **
39625780 CTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTG-A-ATT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGAT--TGCAGATT
* ** * * * * * * *
39625824 TTATCTTTCC-AATACAGTGGAGAAGCAGATTTAAGCCATT--AG-TC
1 CTATC-ACCCTAA-GCAGTAGTGGAGTAGATTGAAG--ATTGCAGATT
* *
39625868 CTATCACCCTAAGCAGTAGTGGAGTA-ATTTGAAGCTTGTAGATT
1 CTATCACCCTAAGCAGTAGTGGAGTAGA-TTGAAGATTGCAGATT
* * * ** ** *
39625912 CTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGA-TGGTGAAT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATT
* * * * * * * * *
39625955 CTTATCTTCAC-AATACAGTGGAGAAGCAGATTTAAGCCATT--AG-TC
1 C-TATC-ACCCTAA-GCAGTAGTGGAGTAGATTGAAG--ATTGCAGATT
* * * * *
39626000 CTATCCCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTACAAATT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATT
* * * ** * ** *
39626044 TTGTCACCCTAATCAGTAGTGGAACAGATCGAAGA-TGGTGAAT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATT
* * * * * * * *
39626087 CTTATCTTCCC-AATACAGTGGAGAAGCAGATTTAAGCCATT--AG-TC
1 C-TATC-ACCCTAA-GCAGTAGTGGAGTAGATTGAAG--ATTGCAGATT
* *
39626132 CTATCACCCTAAGCAGTAGTGGAGTA-ATTTGAAGCTTGTAGATT
1 CTATCACCCTAAGCAGTAGTGGAGTAGA-TTGAAGATTGCAGATT
* * * ** ** *
39626176 CTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGA-TGGTGAAT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATT
* * * * * * * * *
39626219 CTTATCTTCAC-AATACAGTGGAGAAGCAGATTTAAGCCATT--AG-TC
1 C-TATC-ACCCTAA-GCAGTAGTGGAGTAGATTGAAG--ATTGCAGATT
* *
39626264 CTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATT
* * *
39626308 CTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGAT
1 CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGAT
39626344 GGTGAATCTT
Statistics
Matches: 484, Mismatches: 157, Indels: 110
0.64 0.21 0.15
Matches are distributed among these distances:
41 13 0.03
42 2 0.00
43 115 0.24
44 239 0.49
45 99 0.20
46 6 0.01
47 6 0.01
48 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (44 bp):
CTATCACCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGATT
Found at i:39626517 original size:132 final size:132
Alignment explanation
Indices: 39625541--39626495 Score: 1570
Period size: 132 Copynumber: 7.2 Consensus size: 132
39625531 GCAGCAGAGG
* * *
39625541 AGATCGAAGATGGTGAATCTTATCTTCCCAATACAATGGAGAAGCAGATTCAAGCCATTAGTCCT
1 AGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
* *
39625606 ATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGA
66 ATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGA
39625671 GC
131 GC
** *
39625673 AGATTGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGTAGATTTAAGCCATTAGTCCT
1 AGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
39625738 ATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGA
66 ATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGA
39625803 GC
131 GC
* *
39625805 AGATCAAAGATGGTGAATTTTATCTTTCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
1 AGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
** * *
39625870 ATCACCCTAAGCAGTAGTGGAGTAATTTGAAGCTTGTAGATTCTGTCACCCTAATCAGTAGTGGA
66 ATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGA
39625935 GC
131 GC
*
39625937 AGATCAAAGATGGTGAATCTTATCTTCACAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
1 AGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
* * * * *
39626002 ATCCCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTACAAATTTTGTCACCCTAATCAGTAGTGGA
66 ATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGA
*
39626067 AC
131 GC
*
39626069 AGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
1 AGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
** * *
39626134 ATCACCCTAAGCAGTAGTGGAGTAATTTGAAGCTTGTAGATTCTGTCACCCTAATCAGTAGTGGA
66 ATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGA
39626199 GC
131 GC
*
39626201 AGATCAAAGATGGTGAATCTTATCTTCACAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
1 AGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
* *
39626266 ATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGA
66 ATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGA
39626331 GC
131 GC
* * *
39626333 AGATCGAAGATGGTGAATCTTATCTTCACAATACAGTGGAGAAGCAGATTTAAGCCGTTAGTCCT
1 AGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
* * * *
39626398 ATCACCCTAAGCAGTAGTGGAATAGGTCGAAGATTACAGATTCTGTCACCCTAAACAGTAGTGGA
66 ATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGA
39626463 GC
131 GC
39626465 AGATCAAAGATGCG-GAATCTTATCTTCCCAA
1 AGATCAAAGATG-GTGAATCTTATCTTCCCAA
39626496 GGTAGTAGGG
Statistics
Matches: 767, Mismatches: 55, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
132 766 1.00
133 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (132 bp):
AGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
ATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGA
GC
Found at i:39629291 original size:19 final size:19
Alignment explanation
Indices: 39629254--39629295 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
39629244 TAAAAATAAT
*
39629254 TATAGGAAATCTAAAATTA
1 TATAGCAAATCTAAAATTA
39629273 CTATAGCAAATCT-AAATTA
1 -TATAGCAAATCTAAAATTA
39629292 TATA
1 TATA
39629296 ATTTAGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.19
19 6 0.29
20 11 0.52
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (19 bp):
TATAGCAAATCTAAAATTA
Found at i:39633006 original size:12 final size:12
Alignment explanation
Indices: 39632985--39633019 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
39632975 GTGAAAAACA
39632985 TACATAAAAATG
1 TACATAAAAATG
* *
39632997 TCCATCAAAATG
1 TACATAAAAATG
39633009 TACATAAAAAT
1 TACATAAAAAT
39633020 ACATATGGCC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.54, C:0.14, G:0.06, T:0.26
Consensus pattern (12 bp):
TACATAAAAATG
Found at i:39636161 original size:3 final size:3
Alignment explanation
Indices: 39636153--39636190 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
39636143 ATCACATGTT
39636153 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
39636191 TGGATGTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:39640528 original size:3 final size:3
Alignment explanation
Indices: 39640520--39640548 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
39640510 ATCACATGTT
39640520 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
39640549 TGGATGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:39646401 original size:5 final size:5
Alignment explanation
Indices: 39646391--39646418 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
39646381 ACAATATCAC
39646391 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
39646419 TCGAGACAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:39648575 original size:24 final size:24
Alignment explanation
Indices: 39648548--39648599 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
39648538 TTAGTAAGTC
*
39648548 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
39648572 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
39648596 AAAT
1 AAAT
39648600 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:39649500 original size:24 final size:24
Alignment explanation
Indices: 39649473--39649524 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
39649463 TTAGTAAGTC
*
39649473 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
39649497 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
39649521 AAAT
1 AAAT
39649525 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:39652602 original size:18 final size:18
Alignment explanation
Indices: 39652575--39652667 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
39652565 TACGACCGTT
39652575 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
39652593 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
39652611 TACAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
39652629 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
39652647 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
39652665 TAC
1 TAC
39652668 AGTAGTTGGG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:39673511 original size:18 final size:17
Alignment explanation
Indices: 39673469--39673511 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
39673459 TTTTTAAGTT
*
39673469 TATAATATTTTATATTA
1 TATAATTTTTTATATTA
* *
39673486 TGTTATTTTTATATATTA
1 TATAATTTTT-TATATTA
39673504 TATAATTT
1 TATAATTT
39673512 AGAACACATT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TATAATTTTTTATATTA
Found at i:39674623 original size:183 final size:183
Alignment explanation
Indices: 39674393--39674762 Score: 704
Period size: 183 Copynumber: 2.0 Consensus size: 183
39674383 CATAGAGACT
**
39674393 TATTAGTAGGAGCATGTGGTTAATTTAAAAGTTTGGTATCGAGTTTAGGGACTAAATTGAATAAA
1 TATTAGTAGGAGCATGTGGTTAATTTAAAAGTTCAGTATCGAGTTTAGGGACTAAATTGAATAAA
39674458 TTAAAAAATTATAGGAATTAAAATGCAAGTATTCCATTTTTATTTTGATGAAAAAGACTTGATAA
66 TTAAAAAATTATAGGAATTAAAATGCAAGTATTCCATTTTTATTTTGATGAAAAAGACTTGATAA
39674523 CAATTTTACCATTACTTAAAAAAATCAATAGTTTTACGATGGCTTTTAAATGA
131 CAATTTTACCATTACTTAAAAAAATCAATAGTTTTACGATGGCTTTTAAATGA
*
39674576 TATTAGTAGGAGCATGTGGTTAATTTAAAAGTTCAGTGTCGAGTTTAGGGACTAAATTGAATAAA
1 TATTAGTAGGAGCATGTGGTTAATTTAAAAGTTCAGTATCGAGTTTAGGGACTAAATTGAATAAA
*
39674641 TTAAAAAATTATAGGAATTAAAATGCAAGTATTCCATTTTTATTTTGATGAAAAAGACTTGATGA
66 TTAAAAAATTATAGGAATTAAAATGCAAGTATTCCATTTTTATTTTGATGAAAAAGACTTGATAA
39674706 CAATTTTACCATTACTTAAAAAAATCAATAGTTTTACGATGGCTTTTAAATGA
131 CAATTTTACCATTACTTAAAAAAATCAATAGTTTTACGATGGCTTTTAAATGA
39674759 TATT
1 TATT
39674763 TTTATTAATA
Statistics
Matches: 183, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
183 183 1.00
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (183 bp):
TATTAGTAGGAGCATGTGGTTAATTTAAAAGTTCAGTATCGAGTTTAGGGACTAAATTGAATAAA
TTAAAAAATTATAGGAATTAAAATGCAAGTATTCCATTTTTATTTTGATGAAAAAGACTTGATAA
CAATTTTACCATTACTTAAAAAAATCAATAGTTTTACGATGGCTTTTAAATGA
Found at i:39676092 original size:3 final size:3
Alignment explanation
Indices: 39676079--39676121 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
39676069 TAAAGTAAAG
39676079 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
39676122 GAGATAAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:39677431 original size:75 final size:75
Alignment explanation
Indices: 39677263--39677445 Score: 208
Period size: 75 Copynumber: 2.4 Consensus size: 75
39677253 TGGGCACACA
* * * *
39677263 ATCGTCAGTTAATCCGACTAGCGCTGGGCGCAAACACCGTTGGTTCATCCAACTAGAGCTGGGCT
1 ATCGTCAGTAAACCCGACTAGCGCTGGGTGCAAACACCGTTAGTTCATCCAACTAGAGCTGGGCT
*
39677328 CACAATTATT
66 CACAATTAAT
* * * ** *
39677338 ATCGTCAGTATACCCGACTAGCACTGGGTGCAAATAGTGTTAGTTTATCCAACTAGAGCTGGGCT
1 ATCGTCAGTAAACCCGACTAGCGCTGGGTGCAAACACCGTTAGTTCATCCAACTAGAGCTGGGCT
39677403 CAC-ATTCAAT
66 CACAATT-AAT
* **
39677413 A-CTGTCGGTAAATTCGACTAGCGCTGGGTGCAA
1 ATC-GTCAGTAAACCCGACTAGCGCTGGGTGCAA
39677446 TCTTCTTTGC
Statistics
Matches: 90, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
74 4 0.04
75 86 0.96
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.26
Consensus pattern (75 bp):
ATCGTCAGTAAACCCGACTAGCGCTGGGTGCAAACACCGTTAGTTCATCCAACTAGAGCTGGGCT
CACAATTAAT
Found at i:39682300 original size:39 final size:41
Alignment explanation
Indices: 39682227--39682316 Score: 130
Period size: 39 Copynumber: 2.2 Consensus size: 41
39682217 TAAAAAATAT
* * *
39682227 TTATATTAAAAAACATTACCATAAATATAATAAATGTTTTA
1 TTATATTAAAAAACATCACAATAAATATAATAAATATTTTA
39682268 TTATATTAAAAAACA-CA-AATAAATATAATAAATATTTTA
1 TTATATTAAAAAACATCACAATAAATATAATAAATATTTTA
*
39682307 TTGTATTAAA
1 TTATATTAAA
39682317 TATAATTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 29 0.64
40 1 0.02
41 15 0.33
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (41 bp):
TTATATTAAAAAACATCACAATAAATATAATAAATATTTTA
Found at i:39683874 original size:31 final size:31
Alignment explanation
Indices: 39683839--39683897 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
39683829 TAAAATATAT
39683839 ATTTTTA-ATAATTTT-AATGATTTTTAAAATA
1 ATTTTTATATAATTTTGAA--ATTTTTAAAATA
*
39683870 ATTTTTATATATTTTTGAAATTTTTAAA
1 ATTTTTATATAATTTTGAAATTTTTAAA
39683898 TTTTAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
31 16 0.64
32 7 0.28
33 2 0.08
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (31 bp):
ATTTTTATATAATTTTGAAATTTTTAAAATA
Done.