Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 289 of 335
Found at i:87010963 original size:16 final size:17
Alignment explanation
Indices: 87010928--87010968 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
87010918 GTTTTAAATA
*
87010928 TTTTATAAAATATTTAAT
1 TTTTA-AAAATATATAAT
87010946 TTTTAAAAATATAT-AT
1 TTTTAAAAATATATAAT
87010962 TTTTAAA
1 TTTTAAA
87010969 GGGAAATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.41
17 8 0.36
18 5 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTAAAAATATATAAT
Found at i:87011759 original size:10 final size:10
Alignment explanation
Indices: 87011744--87011768 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
87011734 CCATAATTTA
87011744 TGATACAAAT
1 TGATACAAAT
87011754 TGATACAAAT
1 TGATACAAAT
87011764 TGATA
1 TGATA
87011769 ATAGGTTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (10 bp):
TGATACAAAT
Found at i:87011801 original size:26 final size:26
Alignment explanation
Indices: 87011764--87011847 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
87011754 TGATACAAAT
* *
87011764 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
87011790 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
87011816 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
87011842 TGATAA
1 TGATAA
87011848 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:87013362 original size:26 final size:26
Alignment explanation
Indices: 87013333--87013385 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
87013323 TTTACAGTTT
87013333 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
87013359 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
87013385 T
1 T
87013386 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:87014387 original size:8 final size:8
Alignment explanation
Indices: 87014353--87014412 Score: 68
Period size: 8 Copynumber: 7.5 Consensus size: 8
87014343 TAATTATGTG
*
87014353 AATAATAA
1 AATATTAA
87014361 AATATATAA
1 AATAT-TAA
87014370 AATA-TAA
1 AATATTAA
87014377 AATATTAA
1 AATATTAA
*
87014385 AATATCAA
1 AATATTAA
*
87014393 AATATCAA
1 AATATTAA
*
87014401 AATATTAG
1 AATATTAA
87014409 AATA
1 AATA
87014413 ATAATAATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
7 7 0.15
8 32 0.70
9 7 0.15
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (8 bp):
AATATTAA
Found at i:87014592 original size:25 final size:23
Alignment explanation
Indices: 87014564--87014628 Score: 87
Period size: 25 Copynumber: 2.8 Consensus size: 23
87014554 CGTGATAATA
87014564 TTAAAAATATATACATAATATAGTG
1 TTAAAAATATATACATAATATA--G
* *
87014589 TTAAAAATACATATATAATATAG
1 TTAAAAATATATACATAATATAG
87014612 TT-AAAATATATACATAA
1 TTAAAAATATATACATAA
87014629 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (23 bp):
TTAAAAATATATACATAATATAG
Found at i:87014677 original size:15 final size:16
Alignment explanation
Indices: 87014644--87014692 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
87014634 CATGTAGAAA
87014644 AAATATATATGTATAT
1 AAATATATATGTATAT
87014660 AAATA-ATATAGTAT-T
1 AAATATATAT-GTATAT
* *
87014675 AAAGATATATATATAT
1 AAATATATATGTATAT
87014691 AA
1 AA
87014693 TAGTATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (16 bp):
AAATATATATGTATAT
Found at i:87014684 original size:25 final size:24
Alignment explanation
Indices: 87014655--87014733 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 24
87014645 AATATATATG
87014655 TATATAAATAATATAGTATTAAAGA
1 TATATAAATAATATAGTATTAAA-A
*
87014680 TATATATAT-ATAATAGTA-TAAAA
1 TATATAAATAAT-ATAGTATTAAAA
* *
87014703 TATATATACGTAATATAGAATTTAAAA
1 TATATA-A-ATAATATAGTA-TTAAAA
87014730 TATA
1 TATA
87014734 CCTAATATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
23 7 0.16
24 6 0.14
25 20 0.45
26 2 0.05
27 9 0.20
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.38
Consensus pattern (24 bp):
TATATAAATAATATAGTATTAAAA
Found at i:87014687 original size:27 final size:26
Alignment explanation
Indices: 87014655--87014733 Score: 83
Period size: 27 Copynumber: 3.1 Consensus size: 26
87014645 AATATATATG
87014655 TATATAAATAATATAGTATTAAAGATA
1 TATATAAATAATATAGTATTAAA-ATA
*
87014682 TATATATAT-A-ATAGTA-TAAAATA
1 TATATAAATAATATAGTATTAAAATA
** *
87014705 TATATACGTAATATAGAATTTAAAATA
1 TATATAAATAATATAGTA-TTAAAATA
87014732 TA
1 TA
87014734 CCTAATATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
23 10 0.23
24 5 0.11
25 11 0.25
26 1 0.02
27 17 0.39
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.38
Consensus pattern (26 bp):
TATATAAATAATATAGTATTAAAATA
Found at i:87014716 original size:23 final size:25
Alignment explanation
Indices: 87014667--87014717 Score: 70
Period size: 23 Copynumber: 2.1 Consensus size: 25
87014657 TATAAATAAT
*
87014667 ATAGTATTAAAGATATATATATATA
1 ATAGTATTAAAGATATATATACATA
*
87014692 ATAGTA-TAAA-ATATATATACGTA
1 ATAGTATTAAAGATATATATACATA
87014715 ATA
1 ATA
87014718 TAGAATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 14 0.58
24 4 0.17
25 6 0.25
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (25 bp):
ATAGTATTAAAGATATATATACATA
Found at i:87015356 original size:30 final size:30
Alignment explanation
Indices: 87015322--87015382 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
87015312 AATGGAGCAA
*
87015322 GTGTGGCTAGTGGATTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
87015352 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
87015382 G
1 G
87015383 CTAAGATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.20, C:0.03, G:0.49, T:0.28
Consensus pattern (30 bp):
GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
Found at i:87016405 original size:18 final size:18
Alignment explanation
Indices: 87016382--87016445 Score: 87
Period size: 18 Copynumber: 3.6 Consensus size: 18
87016372 TAACTTTTCG
87016382 AGTGAAATAAAATTTCTT
1 AGTGAAATAAAATTTCTT
*
87016400 AGTGAAAT--AATTTTTT
1 AGTGAAATAAAATTTCTT
87016416 CGAGTGAAATAAAATTTCTT
1 --AGTGAAATAAAATTTCTT
87016436 AGTGAAATAA
1 AGTGAAATAA
87016446 TTTTTGGTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
16 7 0.17
18 26 0.65
20 7 0.17
ACGTcount: A:0.44, C:0.05, G:0.14, T:0.38
Consensus pattern (18 bp):
AGTGAAATAAAATTTCTT
Found at i:87016423 original size:36 final size:36
Alignment explanation
Indices: 87016376--87016450 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
87016366 AAACATTAAC
87016376 TTTTCGAGTGAAATAAAATTTCTTAGTGAAATAATT
1 TTTTCGAGTGAAATAAAATTTCTTAGTGAAATAATT
87016412 TTTTCGAGTGAAATAAAATTTCTTAGTGAAATAATT
1 TTTTCGAGTGAAATAAAATTTCTTAGTGAAATAATT
87016448 TTT
1 TTT
87016451 GGTATCTTTT
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:0.37, C:0.05, G:0.13, T:0.44
Consensus pattern (36 bp):
TTTTCGAGTGAAATAAAATTTCTTAGTGAAATAATT
Found at i:87016741 original size:30 final size:30
Alignment explanation
Indices: 87016706--87016762 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
87016696 ATCTATATTG
* *
87016706 ATTTTTTACAAAATTAAATAAATTTTTTTT
1 ATTTTTGACAAAATTAAATAAAATTTTTTT
87016736 ATTTTTGACAAAATTAAATAAAATTTT
1 ATTTTTGACAAAATTAAATAAAATTTT
87016763 AAGTTTACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (30 bp):
ATTTTTGACAAAATTAAATAAAATTTTTTT
Found at i:87023545 original size:13 final size:13
Alignment explanation
Indices: 87023527--87023553 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
87023517 CTTTTGCTAA
87023527 GGATTTTATTGTT
1 GGATTTTATTGTT
87023540 GGATTTTATTGTT
1 GGATTTTATTGTT
87023553 G
1 G
87023554 CTTTTCCCCA
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:0.15, C:0.00, G:0.26, T:0.59
Consensus pattern (13 bp):
GGATTTTATTGTT
Found at i:87026648 original size:19 final size:19
Alignment explanation
Indices: 87026624--87026716 Score: 64
Period size: 20 Copynumber: 4.7 Consensus size: 19
87026614 TTGTGTATTG
87026624 TTTATTATATTATTTACAT
1 TTTATTATATTATTTACAT
**
87026643 TTTATTATA-TATTTTGAT
1 TTTATTATATTATTTACAT
* *
87026661 TTATACATTTTATTATATATCAT
1 TT-T--ATTATATTATTTA-CAT
*
87026684 TTTATTATATATATATTA-TT
1 TTTATTATAT-TAT-TTACAT
*
87026704 TTTATTCTATTAT
1 TTTATTATATTAT
87026717 ACATTATATA
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
18 9 0.16
19 13 0.23
20 16 0.28
21 8 0.14
22 7 0.12
23 4 0.07
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (19 bp):
TTTATTATATTATTTACAT
Found at i:87026650 original size:14 final size:14
Alignment explanation
Indices: 87026631--87026694 Score: 80
Period size: 14 Copynumber: 4.6 Consensus size: 14
87026621 TTGTTTATTA
*
87026631 TATTATTTACATTT
1 TATTATATACATTT
87026645 TATTATAT--ATTT
1 TATTATATACATTT
87026657 TGATT-TATACATTT
1 T-ATTATATACATTT
87026671 TATTATATATCATTT
1 TATTATATA-CATTT
87026686 TATTATATA
1 TATTATATA
87026695 TATATTATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
12 8 0.18
13 6 0.14
14 16 0.36
15 14 0.32
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (14 bp):
TATTATATACATTT
Found at i:87026697 original size:17 final size:15
Alignment explanation
Indices: 87026631--87026695 Score: 77
Period size: 15 Copynumber: 4.7 Consensus size: 15
87026621 TTGTTTATTA
*
87026631 TATTATTTA-CATTT
1 TATTATATATCATTT
87026645 TATTATATAT--TTT
1 TATTATATATCATTT
*
87026658 GATT-TATA-CATTT
1 TATTATATATCATTT
87026671 TATTATATATCATTT
1 TATTATATATCATTT
87026686 TATTATATAT
1 TATTATATAT
87026696 ATATTATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
12 4 0.09
13 12 0.28
14 12 0.28
15 15 0.35
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (15 bp):
TATTATATATCATTT
Found at i:87026716 original size:25 final size:24
Alignment explanation
Indices: 87026684--87026758 Score: 71
Period size: 29 Copynumber: 2.9 Consensus size: 24
87026674 TATATATCAT
87026684 TTTATTATATATATATTATTTTTA
1 TTTATTATATATATATTATTTTTA
87026708 TTCTATTATACATTATATAATTATTTATTA
1 TT-TATTAT--A-TATAT-ATTATTT-TTA
* *
87026738 TTTATTAT-TATGTATAATTTT
1 TTTATTATATATATATTATTTT
87026759 AAAAATTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
23 1 0.02
24 8 0.19
25 10 0.23
27 1 0.02
28 5 0.12
29 13 0.30
30 5 0.12
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (24 bp):
TTTATTATATATATATTATTTTTA
Found at i:87026757 original size:17 final size:17
Alignment explanation
Indices: 87026670--87026757 Score: 61
Period size: 17 Copynumber: 4.9 Consensus size: 17
87026660 TTTATACATT
*
87026670 TTATTATATATCATTTTA
1 TTATTATATAT-AATTTA
*
87026688 TTATATATATATTATTT-
1 TTAT-TATATATAATTTA
*
87026705 TTATTCTATTATACATTATA
1 TTATTATA-TATA-ATT-TA
* * *
87026725 TAATTATTTATTATTTA
1 TTATTATATATAATTTA
*
87026742 TTATTATGTATAATTT
1 TTATTATATATAATTT
87026758 TAAAAATTTT
Statistics
Matches: 54, Mismatches: 11, Indels: 11
0.71 0.14 0.14
Matches are distributed among these distances:
16 3 0.06
17 22 0.41
18 13 0.24
19 11 0.20
20 5 0.09
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (17 bp):
TTATTATATATAATTTA
Found at i:87031640 original size:11 final size:11
Alignment explanation
Indices: 87031613--87031657 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
87031603 TTGCATTAAA
*
87031613 AAAATATATAC
1 AAAATATATAT
*
87031624 ATAATATATAT
1 AAAATATATAT
*
87031635 AAAATACATAT
1 AAAATATATAT
*
87031646 AATATATATAT
1 AAAATATATAT
87031657 A
1 A
87031658 CGTATTAGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATATATAT
Found at i:87032339 original size:11 final size:11
Alignment explanation
Indices: 87032306--87032342 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
87032296 ATATAAAAAG
87032306 AAAGAAAGAAA
1 AAAGAAAGAAA
87032317 AAA-AAA-ACAA
1 AAAGAAAGA-AA
87032327 AAAGAAAGAAA
1 AAAGAAAGAAA
87032338 AAAGA
1 AAAGA
87032343 TTCGAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
9 1 0.04
10 8 0.35
11 13 0.57
12 1 0.04
ACGTcount: A:0.84, C:0.03, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAGAAAGAAA
Found at i:87032371 original size:21 final size:20
Alignment explanation
Indices: 87032300--87032372 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 20
87032290 ATATGTATAT
87032300 AAAAAGAAAGAAAGAAAAAAA-
1 AAAAA-AAAGAAA-AAAAAAAG
*
87032321 AAACAAAAAGAAAGAAAAAAG
1 AAA-AAAAAGAAAAAAAAAAG
****
87032342 ATTCGAAAGAAAATAAAAAAG
1 AAAAAAAAGAAAA-AAAAAAG
87032363 AAAAAAAAGA
1 AAAAAAAAGA
87032373 TGCAAACCTT
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
20 13 0.33
21 24 0.62
22 2 0.05
ACGTcount: A:0.79, C:0.03, G:0.14, T:0.04
Consensus pattern (20 bp):
AAAAAAAAGAAAAAAAAAAG
Found at i:87033412 original size:74 final size:73
Alignment explanation
Indices: 87033252--87033455 Score: 277
Period size: 74 Copynumber: 2.8 Consensus size: 73
87033242 ACGTGAGCAA
*
87033252 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGACGAACAAAAATTAAAACTACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA--AACAAAAATTAAAACTACCTCA
* *
87033317 GCGTGTCCTG
64 ACATGTCCTG
* *
87033327 AGGTTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAA-AAATAGATTGAAAA-TACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACAAA-A-ATT-AAAACTACCTC
*
87033390 AACATGTCTTG
63 AACATGTCCTG
* *
87033401 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACAGAAATAAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACAAAAATTAAAA
87033456 ATATCAAAAT
Statistics
Matches: 115, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
72 7 0.06
73 5 0.04
74 59 0.51
75 44 0.38
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (73 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACAAAAATTAAAACTACCTCAAC
ATGTCCTG
Found at i:87042935 original size:26 final size:26
Alignment explanation
Indices: 87042904--87043037 Score: 232
Period size: 26 Copynumber: 5.2 Consensus size: 26
87042894 TGAAATGCCC
*
87042904 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
87042930 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87042956 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
87042982 ATCATGGAATATTTACCTAATCTATT
1 ATCATGGAACATTTACCTAACCCATT
87043008 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87043034 ATCA
1 ATCA
87043038 ATTTATACCA
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:87045767 original size:17 final size:16
Alignment explanation
Indices: 87045749--87045779 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
87045739 TTTTCGCAAA
87045749 AAAAT-TTTGTTTTTG
1 AAAATCTTTGTTTTTG
87045764 AAAATCTTTGTTTTTG
1 AAAATCTTTGTTTTTG
87045780 TAAACCCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.58
Consensus pattern (16 bp):
AAAATCTTTGTTTTTG
Found at i:87053226 original size:71 final size:71
Alignment explanation
Indices: 87053140--87053303 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
87053130 CGATTTGTCT
87053140 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
87053205 CTTTCA
66 CTTTCA
87053211 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
87053276 CTTTCA
66 CTTTCA
87053282 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
87053304 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:87053341 original size:71 final size:70
Alignment explanation
Indices: 87053140--87053337 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
87053130 CGATTTGTCT
* * * *
87053140 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
87053205 CTTTCA
65 CTTTCA
* * * *
87053211 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
87053276 CTTTCA
65 CTTTCA
* *
87053282 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
87053338 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:87055164 original size:15 final size:16
Alignment explanation
Indices: 87055139--87055168 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
87055129 TTCAAGTTAA
87055139 GATGATGAAGGAAGAT
1 GATGATGAAGGAAGAT
87055155 GATG-TGAAGGAAGA
1 GATGATGAAGGAAGA
87055169 AGAAACAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.00, G:0.40, T:0.17
Consensus pattern (16 bp):
GATGATGAAGGAAGAT
Found at i:87058132 original size:26 final size:25
Alignment explanation
Indices: 87058078--87058141 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 25
87058068 TATTTTAAAC
* * * *
87058078 TATTATTCATTTTAAGTTTTATATA
1 TATTATTTATTTTAACTATTATACA
87058103 TATTATTTATTTTAAACTATTATACA
1 TATTATTTATTTT-AACTATTATACA
*
87058129 TATTATTTGTTTT
1 TATTATTTATTTT
87058142 GAAGTTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
25 12 0.36
26 21 0.64
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (25 bp):
TATTATTTATTTTAACTATTATACA
Found at i:87067214 original size:29 final size:30
Alignment explanation
Indices: 87067146--87067217 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
87067136 GAGATGACAT
* *
87067146 GAAAACCAAGATAAAGAAGTCCATGACAAA
1 GAAATCCAAGATAAAGAAATCCATGACAAA
* * * *
87067176 GAAATTCAAGATAAGGAAATCCA-GATATA
1 GAAATCCAAGATAAAGAAATCCATGACAAA
87067205 GAAATCCAAGATA
1 GAAATCCAAGATA
87067218 GAATATCATA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
29 16 0.46
30 19 0.54
ACGTcount: A:0.54, C:0.14, G:0.17, T:0.15
Consensus pattern (30 bp):
GAAATCCAAGATAAAGAAATCCATGACAAA
Found at i:87075583 original size:23 final size:23
Alignment explanation
Indices: 87075552--87075605 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
87075542 AGCTTTGCTG
*
87075552 ATCAAGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
87075575 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
*
87075598 TTCAGGCA
1 ATCAGGCA
87075606 ACTCGTGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:87075614 original size:23 final size:23
Alignment explanation
Indices: 87075565--87075639 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
87075555 AAGCACTTTA
**
87075565 TGTGTCGTATATCAGGC-ACTTTA
1 TGTGTCGTATATCAGGCAAC-TCG
*
87075588 TGTGTCGTATTTCAGGCAACTCG
1 TGTGTCGTATATCAGGCAACTCG
*
87075611 TGTGTC--ATATCAGGCACCTCG
1 TGTGTCGTATATCAGGCAACTCG
87075632 TGTGTCGT
1 TGTGTCGT
87075640 TTCAAGCACT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
21 19 0.43
23 23 0.52
24 2 0.05
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.36
Consensus pattern (23 bp):
TGTGTCGTATATCAGGCAACTCG
Found at i:87075648 original size:21 final size:21
Alignment explanation
Indices: 87075565--87075648 Score: 69
Period size: 21 Copynumber: 3.8 Consensus size: 21
87075555 AAGCACTTTA
* **
87075565 TGTGTCGTATATCAGGCACTTTA
1 TGTGTCGT-T-TCAGGCACCTCG
*
87075588 TGTGTCGTATTTCAGGCAACTCG
1 TGTGTCG--TTTCAGGCACCTCG
* *
87075611 TGTGTCATATCAGGCACCTCG
1 TGTGTCGTTTCAGGCACCTCG
*
87075632 TGTGTCGTTTCAAGCAC
1 TGTGTCGTTTCAGGCAC
87075649 TAATGTGTAG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
21 26 0.53
23 21 0.43
24 1 0.02
25 1 0.02
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.35
Consensus pattern (21 bp):
TGTGTCGTTTCAGGCACCTCG
Found at i:87075859 original size:18 final size:19
Alignment explanation
Indices: 87075836--87075874 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
87075826 TGGAATTATG
*
87075836 AATTGAAATGTGA-ATTGA
1 AATTGAAATATGAGATTGA
*
87075854 AATTGAGATATGAGATTGA
1 AATTGAAATATGAGATTGA
87075873 AA
1 AA
87075875 GCTTGAGCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (19 bp):
AATTGAAATATGAGATTGA
Found at i:87078212 original size:12 final size:12
Alignment explanation
Indices: 87078197--87078221 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87078187 AAACCGAGCC
87078197 ATAAATATTTTT
1 ATAAATATTTTT
87078209 ATAAATATTTTT
1 ATAAATATTTTT
87078221 A
1 A
87078222 GAGTGTCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATAAATATTTTT
Found at i:87081307 original size:63 final size:63
Alignment explanation
Indices: 87081235--87081387 Score: 170
Period size: 63 Copynumber: 2.4 Consensus size: 63
87081225 AACGGGCATT
*
87081235 GGCGTGTGCCCAGGCCGTGTAATTCACTGTTTCTGATATAAAAGCCACACAG-CTAGGGACAC-
1 GGCGTGTGCCCAGGCCGTGTAACTCACTGTTTCTGATATAAAAGCCACACAGAC-AGGGACACA
* * *
87081297 GAGCGTGTGCCC--GCACTGTGTAACTCACTGTTTGTGGTATAAAAGCCACACGGACAGGGACAC
1 G-GCGTGTGCCCAGGC-C-GTGTAACTCACTGTTTCTGATATAAAAGCCACACAGACAGGGACAC
87081360 A
63 A
* * * *
87081361 GGCGTGTACCTAGCCCGTGTAAGTCAC
1 GGCGTGTGCCCAGGCCGTGTAACTCAC
87081388 ACAGGTAAGG
Statistics
Matches: 76, Mismatches: 8, Indels: 13
0.78 0.08 0.13
Matches are distributed among these distances:
61 2 0.03
62 2 0.03
63 68 0.89
64 3 0.04
65 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.27, T:0.22
Consensus pattern (63 bp):
GGCGTGTGCCCAGGCCGTGTAACTCACTGTTTCTGATATAAAAGCCACACAGACAGGGACACA
Found at i:87086076 original size:8 final size:8
Alignment explanation
Indices: 87086065--87086094 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
87086055 CAATTGTCAA
87086065 AAAATTTT
1 AAAATTTT
87086073 AAAATTTT
1 AAAATTTT
87086081 AAAATTTT
1 AAAATTTT
87086089 AAAATT
1 AAAATT
87086095 GGAAATCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
AAAATTTT
Found at i:87087058 original size:2 final size:2
Alignment explanation
Indices: 87087051--87087090 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
87087041 ATAAATCTAG
87087051 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
87087091 AAATAGTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:87093830 original size:27 final size:27
Alignment explanation
Indices: 87093799--87093949 Score: 171
Period size: 27 Copynumber: 5.6 Consensus size: 27
87093789 TTAGTTTACC
*
87093799 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
87093826 AAATTAC-CAAAGTACCCCCAATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
** *
87093853 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
87093880 AAATTACCGAAATACCCTC-AGTTTGCA
1 AAATTACTGAAATACCCTCGA-TTTGTA
87093907 AAATTACTGAAATACCCTCGATTTTGTA
1 AAATTACTGAAATACCCTCGA-TTTGTA
87093935 AAATTACTGAAATAC
1 AAATTACTGAAATAC
87093950 TCCTGTAAGA
Statistics
Matches: 105, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
26 4 0.04
27 76 0.72
28 25 0.24
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:87093881 original size:54 final size:54
Alignment explanation
Indices: 87093793--87093949 Score: 199
Period size: 54 Copynumber: 2.9 Consensus size: 54
87093783 AATACTTTAG
* *
87093793 TTTACCAAATTACTGAAATACCCTCGACTTGTAAAATTACC-AAAGTACCCCCAA
1 TTTACAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAA-TACCCCCAA
* ** * * *
87093847 TTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTACCGAAATACCCTCAG
1 TTTACAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCCCAA
* *
87093901 TTTGCAAAATTACTGAAATACCCTCGATTTTGTAAAATTACTGAAATAC
1 TTTACAAAATTACTGAAATACCCTCGA-TTTGTAAAATTACCGAAATAC
87093950 TCCTGTAAGA
Statistics
Matches: 87, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
54 64 0.74
55 23 0.26
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (54 bp):
TTTACAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCCCAA
Found at i:87094022 original size:54 final size:54
Alignment explanation
Indices: 87093959--87094103 Score: 218
Period size: 54 Copynumber: 2.7 Consensus size: 54
87093949 CTCCTGTAAG
* *
87093959 ATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTCTTACCCTCGATTT
* *
87094013 ATAGAATTACCATTTTACCCTCGATTTACAGAATTATCGTCTTATCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTCTTACCCTCGATTT
* * * *
87094067 ACAGAATTACTATTTTACCCTCAATTTACAAAATTAC
1 ATAGAATTACCATTTTACCCTCGATTTACAGAATTAC
87094104 TGAAATACCC
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 82 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (54 bp):
ATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTCTTACCCTCGATTT
Found at i:87094104 original size:27 final size:27
Alignment explanation
Indices: 87093961--87094103 Score: 196
Period size: 27 Copynumber: 5.3 Consensus size: 27
87093951 CCTGTAAGAT
*
87093961 AGAATTACCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
* *
87093988 AGAATTACCGTTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
87094015 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* * * *
87094042 AGAATTATCGTCTTATCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
87094069 AGAATTACTATTTTACCCTCAATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
87094096 AAAATTAC
1 AGAATTAC
87094104 TGAAATACCC
Statistics
Matches: 102, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 102 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:87094221 original size:26 final size:26
Alignment explanation
Indices: 87093799--87094221 Score: 130
Period size: 27 Copynumber: 15.7 Consensus size: 26
87093789 TTAGTTTACC
** * *
87093799 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCT-GATTTATA
* **
87093826 AAATTACCAAAGTACCCCCAATTTATA
1 AAATTACCAAAATA-CCCTGATTTATA
* * *
87093853 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCAAAATACCCT-GATTTATA
* * **
87093880 AAATTACCGAAATACCCTCAGTTTGCA
1 AAATTACCAAAATACCCTGA-TTTATA
** *
87093907 AAATTACTGAAATACCCTCGATTTTGTA
1 AAATTACCAAAATACCCT-GA-TTTATA
** **
87093935 AAATTACTGAAATACTCCTG-TAAGATA
1 AAATTACCAAAATAC-CCTGAT-TTATA
* ***
87093962 GAATTACCATTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCT-GATTTATA
* ****
87093989 GAATTACCGTTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCT-GATTTATA
* *** *
87094016 GAATTACCATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCT-GATTTATA
* * **** * *
87094043 GAATTATCGTCTTATCCTCGATTTACA
1 AAATTACCAAAATACCCT-GATTTATA
* * *** * *
87094070 GAATTACTATTTTACCCTCAATTTACA
1 AAATTACCAAAATACCCT-GATTTATA
** * *
87094097 AAATTACTGAAATACCCTTAGTTTACA
1 AAATTACCAAAATACCCTGA-TTTATA
**
87094124 AAATTACCAAAATACCCTCGATCAATA
1 AAATTACCAAAATACCCT-GATTTATA
* *
87094151 AAATTACCAAAATACCCCTGGTTTGT-
1 AAATTACCAAAATA-CCCTGATTTATA
* *
87094177 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATA-CCCTGATTTATA
*
87094204 AAATTACCGAAATACCCT
1 AAATTACCAAAATACCCT
87094222 TGTAGGGTAG
Statistics
Matches: 321, Mismatches: 63, Indels: 25
0.78 0.15 0.06
Matches are distributed among these distances:
26 37 0.12
27 250 0.78
28 31 0.10
29 3 0.01
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.33
Consensus pattern (26 bp):
AAATTACCAAAATACCCTGATTTATA
Found at i:87094235 original size:27 final size:27
Alignment explanation
Indices: 87094205--87094454 Score: 347
Period size: 27 Copynumber: 9.3 Consensus size: 27
87094195 TGATTTGTGA
*
87094205 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
87094232 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
87094259 AATTACTTAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
87094286 AATTATCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
87094313 AATTACTGAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
87094340 AAATACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
87094367 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
87094394 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
87094421 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
87094448 AATTACC
1 AATTACC
87094455 ATTTTGCCCC
Statistics
Matches: 200, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 200 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:87094455 original size:54 final size:54
Alignment explanation
Indices: 87094152--87094455 Score: 330
Period size: 54 Copynumber: 5.6 Consensus size: 54
87094142 CGATCAATAA
* ** **
87094152 AATTACCAAAATACCCCTGGT-TTGT-AAATTACCAAAATACCCCTG-ATTTGT-G
1 AATTACCGAAATACCCCT-GTAGGGTAAAATTACCAAAATACCCCTGTA-GGGTAG
* * **
87094204 AAATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
1 -AATTACCGAAATACCCCTGTAGGGTAAAATTACCAAAATACCCCTGTAGGGTAG
** * * * *
87094259 AATTACTTAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAAAATTACCAAAATACCCCTGTAGGGTAG
* * * *
87094313 AATTACTGAAATACCCCTGTAGGGTAAAAATACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAAAATTACCAAAATACCCCTGTAGGGTAG
*
87094367 AAATACCGAAATACCCCTGTAGGGTAGAAA-TACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTA-AAATTACCAAAATACCCCTGTAGGGTAG
* * *
87094421 AATTACCGAGATACCCTTGTGGGGTAAAATTACCA
1 AATTACCGAAATACCCCTGTAGGGTAAAATTACCA
87094456 TTTTGCCCCT
Statistics
Matches: 216, Mismatches: 29, Indels: 11
0.84 0.11 0.04
Matches are distributed among these distances:
52 2 0.01
53 21 0.10
54 188 0.87
55 5 0.02
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (54 bp):
AATTACCGAAATACCCCTGTAGGGTAAAATTACCAAAATACCCCTGTAGGGTAG
Found at i:87094887 original size:6 final size:6
Alignment explanation
Indices: 87094871--87094936 Score: 55
Period size: 6 Copynumber: 10.8 Consensus size: 6
87094861 ATTCTGTTAC
* * * *
87094871 CTGATA CTGATT TTGATT CTGATT CT-ATCAC CTGATT CTGATT TTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT
87094920 CTGATT CT-AGTT CTGAT
1 CTGATT CTGA-TT CTGAT
87094937 AATGTTTCTT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
5 3 0.06
6 40 0.83
7 3 0.06
8 2 0.04
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (6 bp):
CTGATT
Found at i:87094894 original size:31 final size:31
Alignment explanation
Indices: 87094853--87094928 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
87094843 ATTCACATTC
* * *
87094853 TGATTTTGATTCTGTTACCTGATACTGATTT
1 TGATTCTGATTCTATCACCTGATACTGATTT
*
87094884 TGATTCTGATTCTATCACCTGATTCTGATTT
1 TGATTCTGATTCTATCACCTGATACTGATTT
87094915 TGATTCTGATTCTA
1 TGATTCTGATTCTA
87094929 GTTCTGATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (31 bp):
TGATTCTGATTCTATCACCTGATACTGATTT
Found at i:87094905 original size:25 final size:24
Alignment explanation
Indices: 87094852--87094924 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 24
87094842 CATTCACATT
87094852 CTGATTTTGATTCTG-TTACCTGATA
1 CTGATTTTGATTCTGATT--CTGATA
87094877 CTGATTTTGATTCTGATTCT-ATCA
1 CTGATTTTGATTCTGATTCTGAT-A
* *
87094901 CCTGATTCTGATTTTGATTCTGAT
1 -CTGATTTTGATTCTGATTCTGAT
87094925 TCTAGTTCTG
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
23 2 0.05
24 3 0.07
25 33 0.79
26 4 0.10
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.49
Consensus pattern (24 bp):
CTGATTTTGATTCTGATTCTGATA
Found at i:87094936 original size:18 final size:18
Alignment explanation
Indices: 87094849--87094936 Score: 65
Period size: 19 Copynumber: 4.8 Consensus size: 18
87094839 TTGCATTCAC
*
87094849 ATTCTGATTTTGATTCTG
1 ATTCTGATTCTGATTCTG
* *
87094867 -TTACCTGATACTGATTTTG
1 ATT--CTGATTCTGATTCTG
*
87094886 ATTCTGATTCT-ATCACCTG
1 ATTCTGATTCTGAT--TCTG
*
87094905 ATTCTGATTTTGATTCTG
1 ATTCTGATTCTGATTCTG
87094923 ATTCT-AGTTCTGAT
1 ATTCTGA-TTCTGAT
87094937 AATGTTTCTT
Statistics
Matches: 54, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
17 5 0.09
18 21 0.39
19 24 0.44
20 4 0.07
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (18 bp):
ATTCTGATTCTGATTCTG
Found at i:87097168 original size:2 final size:2
Alignment explanation
Indices: 87097161--87097190 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
87097151 CGATTGCAAA
87097161 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
87097191 CTTCAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87098785 original size:3 final size:3
Alignment explanation
Indices: 87098771--87099131 Score: 226
Period size: 3 Copynumber: 122.7 Consensus size: 3
87098761 AAACATATAC
* * *
87098771 TAA TAT TAA TAA TAA T-A TAA TAC TAGA -AA TAA TAA TGA -AA TACA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TA-A
* ** *
87098815 -AA -AA AAA TGAA T-A TAA T-A TAA TAA TAA TGT TAAA TAA -AG TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
*
87098857 TAA -AA -AA TAA TAC T-A TATA TAA -ATA TATA TACA T-A TACA TATA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TA-A TA-A TA-A TAA TA-A TA-A
* *
87098900 TAA TAA AAA T-A TACA CTAA TAT TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TA-A -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
87098946 TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* ** *
87098993 TAA TAA TAA T-A TAGA AAA TAA -AA -AA TAA TAA TAA TAA TTG CAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
87099036 TAG CAA TAA AAA TAA AAA TAA TAG TAA TAA TAA CAA TAA T-G TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
87099083 TAA T-A TACA T-A TGAA TAA TAA TAA TAA TAA T-A TAA AAA TAA AAA
1 TAA TAA TA-A TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
87099127 TAA TA
1 TAA TA
87099132 GTGTTAGAAA
Statistics
Matches: 280, Mismatches: 47, Indels: 62
0.72 0.12 0.16
Matches are distributed among these distances:
2 37 0.13
3 212 0.76
4 29 0.10
5 2 0.01
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:87098801 original size:20 final size:19
Alignment explanation
Indices: 87098778--87099005 Score: 70
Period size: 20 Copynumber: 11.6 Consensus size: 19
87098768 TACTAATATT
*
87098778 AATAATAATATAATACTAGA
1 AATAATAATATAATAC-AAA
87098798 AATAATAATGA-AATACAAA
1 AATAATAAT-ATAATACAAA
* * *
87098817 AAAAATGAATATAATATAAT
1 AATAAT-AATATAATACAAA
** *
87098837 AATAATGTTA-AATA-AAGT
1 AATAATAATATAATACAA-A
* *
87098855 AATAA-AAAATAATAC-TA
1 AATAATAATATAATACAAA
*
87098872 TAT-ATAAATATATATAC--A
1 AATAAT-AATATA-ATACAAA
*
87098890 TATACAT-ATATAATA-AAA
1 AATA-ATAATATAATACAAA
87098908 ATATACACTAATATTAATA-ATAA
1 A-ATA-A-TAATA-TAATACA-AA
87098931 TAATAATAATAATAATA-ATAA
1 -AATAATAAT-ATAATACA-AA
87098952 TAATAATAATATAATA-ATAA
1 -AATAATAATATAATACA-AA
87098972 TAATAATAATAATAATA-ATAA
1 -AATAATAAT-ATAATACA-AA
87098993 TAATAATAATATA
1 -AATAATAATATA
87099006 GAAAATAAAA
Statistics
Matches: 172, Mismatches: 15, Indels: 42
0.75 0.07 0.18
Matches are distributed among these distances:
16 1 0.01
17 8 0.05
18 29 0.17
19 19 0.11
20 54 0.31
21 47 0.27
22 8 0.05
23 5 0.03
24 1 0.01
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (19 bp):
AATAATAATATAATACAAA
Found at i:87098934 original size:143 final size:149
Alignment explanation
Indices: 87098676--87099022 Score: 429
Period size: 147 Copynumber: 2.3 Consensus size: 149
87098666 AAAGGAAGGC
*
87098676 ATATAATATAATAATAATATTAAAATAAAGTAATTAAAAATTAATACTATACATAAATATATATA
1 ATATAATATAATAATAATATTAAAATAAAGTAATTAAAAAATAATACTATACATAAATATATATA
* * *
87098741 TATATACATACATATACAATAAACATATACTAATATTAATAATAATATAATACTAGA-AATAATA
66 CATATACATACATATACAATAAACATACACTAATATTAATAATAATATAATAATA-ATAATAATA
87098805 ATGAAATACAAAAAAAATGA
130 ATGAAATACAAAAAAAATGA
* *
87098825 ATATAATATAATAATAATGTT-AAATAAAGTAA-TAAAAAATAATACTATATATAAATATATATA
1 ATATAATATAATAATAATATTAAAATAAAGTAATTAAAAAATAATACTATACATAAATATATATA
* * *
87098888 CATATACATATATA-ATAA-AAATATACACTAATATTAATAATAATAATAATAATAATAATAATA
66 CATATACATACATATACAATAAACATACACTAATATTAATAATAAT-ATAATAATAATAATAATA
*
87098951 ATAATAATA-ATATAATAATAAT-A
130 ATGA-AATACA-A-AA-AA-AATGA
* * * *
87098974 ATAATAATAATAATAATAATAATAATAATATAGAAAATAAAAAATAATA
1 AT-ATAAT-ATAATAATAATATTAA-AATAAAGTAATTAAAAAATAATA
87099023 ATAATAATTG
Statistics
Matches: 172, Mismatches: 14, Indels: 19
0.84 0.07 0.09
Matches are distributed among these distances:
145 25 0.15
146 22 0.13
147 46 0.27
148 13 0.08
149 25 0.15
150 8 0.05
151 12 0.07
152 1 0.01
153 8 0.05
154 12 0.07
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (149 bp):
ATATAATATAATAATAATATTAAAATAAAGTAATTAAAAAATAATACTATACATAAATATATATA
CATATACATACATATACAATAAACATACACTAATATTAATAATAATATAATAATAATAATAATAA
TGAAATACAAAAAAAATGA
Found at i:87100658 original size:17 final size:18
Alignment explanation
Indices: 87100623--87100660 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
87100613 CTTTAGGATT
87100623 TATTTTTTTTCCTTCTTC
1 TATTTTTTTTCCTTCTTC
87100641 TATTTTTTATT-CTT-TTC
1 TATTTTTT-TTCCTTCTTC
87100658 TAT
1 TAT
87100661 CCTTCTCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 11 0.58
19 2 0.11
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTTTTTTCCTTCTTC
Found at i:87106718 original size:60 final size:59
Alignment explanation
Indices: 87106643--87106769 Score: 177
Period size: 60 Copynumber: 2.1 Consensus size: 59
87106633 AACTATGTTA
*
87106643 ATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTATGGCCCAGATTGATACTG
1 ATATGGGCAAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTATGGCCCAGATTAATACTG
* *
87106703 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAAGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCAAGGCCCAATATACTCTGATA-TGTAAAGGGCTATGGCCCAGATTAATACTG
87106763 ATATGGG
1 ATATGGG
87106770 TTAAAGCCCA
Statistics
Matches: 61, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
59 1 0.02
60 52 0.85
61 8 0.13
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (59 bp):
ATATGGGCAAGGCCCAATATACTCTGATATGTAAAGGGCTATGGCCCAGATTAATACTG
Found at i:87111031 original size:26 final size:26
Alignment explanation
Indices: 87110995--87111078 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
87110985 CATGAAATTC
87110995 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
87111021 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
87111047 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
87111073 TTATCA
1 TTATCA
87111079 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:87115537 original size:90 final size:90
Alignment explanation
Indices: 87115378--87115585 Score: 228
Period size: 90 Copynumber: 2.3 Consensus size: 90
87115368 TATTGCTTCT
* * ** *
87115378 TCTTTTT-TAAAGTTTGAGGGTGTTTTTGATGCATTTTGAAAATTCAAGTACCCAGTTGAGTG-T
1 TCTTTTTGAAAAGTTTGAGGG-CTTTTTGATGCATTTTGAAAATTCAAGTACCCAAATGAGTGCA
* *
87115441 AGAAAAAA-AGC-AGTAGCTTAATTGC
65 AAAAAAAAGAGCAAG-AGCTTAATTAC
* * * *
87115466 TTTTTTTTGAAAAGGTTTGAGGGCCTTTTT-ATGTATTTTGAAAGTTTAAGTACCCAAATGAGTG
1 -TCTTTTTGAAAA-GTTTGAGGG-CTTTTTGATGCATTTTGAAAATTCAAGTACCCAAATGAGTG
*
87115530 CAAAAAAAAAGAGCAAGGGCTTAATTAC
63 CAAAAAAAAAGAGCAAGAGCTTAATTAC
87115558 TCTTTTTGAAAAGTTTGAGGGCTTTTTG
1 TCTTTTTGAAAAGTTTGAGGGCTTTTTG
87115586 CACCCTTAAG
Statistics
Matches: 99, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
89 12 0.12
90 41 0.41
91 32 0.32
92 12 0.12
93 2 0.02
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.38
Consensus pattern (90 bp):
TCTTTTTGAAAAGTTTGAGGGCTTTTTGATGCATTTTGAAAATTCAAGTACCCAAATGAGTGCAA
AAAAAAAGAGCAAGAGCTTAATTAC
Found at i:87119066 original size:15 final size:15
Alignment explanation
Indices: 87119046--87119078 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
87119036 ATTGTAATAC
87119046 AAAAAATT-TTTATAA
1 AAAAAATTATTT-TAA
87119061 AAAAAATTATTTTAA
1 AAAAAATTATTTTAA
87119076 AAA
1 AAA
87119079 TATTTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 14 0.82
16 3 0.18
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AAAAAATTATTTTAA
Found at i:87122435 original size:42 final size:44
Alignment explanation
Indices: 87122352--87122489 Score: 135
Period size: 42 Copynumber: 3.2 Consensus size: 44
87122342 TCCCAAACGT
*
87122352 GGTCTTACA--TATAATCAAATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACACGTA-AATCAAATATCGATGCCAATGTCCCAGACAG
* * *
87122395 GGTCTTACACG-AAATCATATA-CGATGCCAATGTCCTAGACAT
1 GGTCTTACACGTAAATCAAATATCGATGCCAATGTCCCAGACAG
* * * *
87122437 GGTCTTACACGTAAATCTCAA-ATCGATGCTAACGTCCCAAAC-G
1 GGTCTTACACGTAAATC-AAATATCGATGCCAATGTCCCAGACAG
87122480 TGGTCTTACA
1 -GGTCTTACA
87122490 TGATAACACA
Statistics
Matches: 78, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
42 29 0.37
43 23 0.29
44 26 0.33
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (44 bp):
GGTCTTACACGTAAATCAAATATCGATGCCAATGTCCCAGACAG
Found at i:87125866 original size:11 final size:11
Alignment explanation
Indices: 87125830--87125885 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
87125820 CATAGTATGT
87125830 ATGATATGCAC
1 ATGATATGCAC
* *
87125841 ATGACATG--T
1 ATGATATGCAC
87125850 ATGATATGCAC
1 ATGATATGCAC
*
87125861 ATGATATG--T
1 ATGATATGCAC
87125870 ATGATATGCAC
1 ATGATATGCAC
87125881 ATGAT
1 ATGAT
87125886 GTATTCGTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:87125885 original size:20 final size:20
Alignment explanation
Indices: 87125825--87125885 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
87125815 GTAAACATAG
87125825 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
*
87125845 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
87125865 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
87125885 T
1 T
87125886 GTATTCGTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.34
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:87125961 original size:24 final size:24
Alignment explanation
Indices: 87125934--87126112 Score: 268
Period size: 24 Copynumber: 7.4 Consensus size: 24
87125924 GGAGGAAGTG
87125934 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
87125958 CAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
87125982 CAAAAGGTCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
87126006 CAAAAGGTCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
87126030 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
87126054 TAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* * **
87126078 TAAAAGGGCTTTTGCCTTAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
87126102 TAAAAGAGGCT
1 CAAAAG-GGCT
87126113 AGGCCTCCAG
Statistics
Matches: 146, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
24 142 0.97
25 4 0.03
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:87127125 original size:25 final size:25
Alignment explanation
Indices: 87127092--87127139 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
87127082 TTATACCATG
* * *
87127092 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
87127117 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
87127140 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:87127207 original size:20 final size:20
Alignment explanation
Indices: 87127182--87127240 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
87127172 ATAAATATGT
87127182 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
87127202 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
87127222 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
87127241 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:87127222 original size:11 final size:11
Alignment explanation
Indices: 87127186--87127240 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
87127176 ATATGTATGT
87127186 ATGATATGCAC
1 ATGATATGCAC
* *
87127197 ATGAAATG--T
1 ATGATATGCAC
87127206 ATGATATGCAC
1 ATGATATGCAC
*
87127217 ATGATATG--T
1 ATGATATGCAC
87127226 ATGATATGCAC
1 ATGATATGCAC
87127237 ATGA
1 ATGA
87127241 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:87127362 original size:24 final size:24
Alignment explanation
Indices: 87127292--87127386 Score: 122
Period size: 24 Copynumber: 3.9 Consensus size: 24
87127282 AGGAAGTGAA
*
87127292 AAAGGGCTTATGCCCCAGTTATCG
1 AAAGGGCTTATGCCCCAGTTATTG
87127316 AAAGGGCTTATGCCCCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATTG
*
87127340 AAAGGGCTT-TGGCCCCAGTTATTA
1 AAAGGGCTTAT-GCCCCAGTTATTG
*
87127364 AAAGAGGC-TAGGCCTCCAGTTAT
1 AAAG-GGCTTATGCC-CCAGTTAT
87127387 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
23 1 0.02
24 52 0.81
25 11 0.17
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.26
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATTG
Found at i:87127612 original size:30 final size:31
Alignment explanation
Indices: 87127578--87127678 Score: 123
Period size: 38 Copynumber: 3.1 Consensus size: 31
87127568 CGTTTACAGT
87127578 AAAGGCTTCGGCCCAGTAATATGAAATAT-A
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
87127608 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATATGA
1 AAAGGCTTCGGCCCAG-----T--AATATGAAATATGA
*
87127646 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
87127677 AA
1 AA
87127679 TATGAAAAGG
Statistics
Matches: 62, Mismatches: 1, Indels: 15
0.79 0.01 0.19
Matches are distributed among these distances:
30 16 0.26
31 15 0.24
33 1 0.02
35 1 0.02
37 12 0.19
38 17 0.27
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:87127656 original size:38 final size:38
Alignment explanation
Indices: 87127595--87127701 Score: 189
Period size: 38 Copynumber: 2.8 Consensus size: 38
87127585 TCGGCCCAGT
87127595 AATATGAAATAT-AAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
87127632 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
87127670 AATATGAAATATGAAAAGGGCTACGGCCCAGT
1 AATATGAAATATGAAAA-GGCTTCGGCCCAGT
87127702 GCATGATTGA
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
37 12 0.18
38 42 0.63
39 13 0.19
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.24
Consensus pattern (38 bp):
AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
Found at i:87135212 original size:25 final size:25
Alignment explanation
Indices: 87135183--87135230 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
87135173 TTATACCATG
* * *
87135183 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
87135208 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
87135231 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:87135299 original size:20 final size:20
Alignment explanation
Indices: 87135274--87135332 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
87135264 TAAATATGGT
87135274 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
87135294 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
87135314 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
87135333 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:87135314 original size:11 final size:11
Alignment explanation
Indices: 87135278--87135332 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
87135268 TATGGTATGT
87135278 ATGATATGCAC
1 ATGATATGCAC
* *
87135289 ATGAAATG--T
1 ATGATATGCAC
87135298 ATGATATGCAC
1 ATGATATGCAC
*
87135309 ATGATATG--T
1 ATGATATGCAC
87135318 ATGATATGCAC
1 ATGATATGCAC
87135329 ATGA
1 ATGA
87135333 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:87135451 original size:23 final size:24
Alignment explanation
Indices: 87135383--87135475 Score: 113
Period size: 23 Copynumber: 4.0 Consensus size: 24
87135373 GAGGAAGTGA
87135383 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
*
87135406 CAAAGGGCTTATGCCCC-GTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
87135429 GAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
87135452 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
87135476 ATGATAAAGC
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
22 10 0.16
23 37 0.61
24 6 0.10
25 8 0.13
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:87135704 original size:31 final size:31
Alignment explanation
Indices: 87135666--87135766 Score: 123
Period size: 38 Copynumber: 3.1 Consensus size: 31
87135656 CGTTTACAGT
87135666 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
87135697 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATATGA
1 AAAGGCTTCGGCCCAG-----T--AATATGAAATATGA
*
87135735 AAAGGCTTCGG-CCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
87135765 AA
1 AA
87135767 TATGAAAAGG
Statistics
Matches: 62, Mismatches: 1, Indels: 15
0.79 0.01 0.19
Matches are distributed among these distances:
30 15 0.24
31 16 0.26
32 1 0.02
36 1 0.02
37 4 0.06
38 25 0.40
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:87135759 original size:37 final size:38
Alignment explanation
Indices: 87135683--87135776 Score: 181
Period size: 37 Copynumber: 2.5 Consensus size: 38
87135673 TCGGCCCAGT
87135683 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
87135721 AATATGAAATATGAAAAGGCTTCGG-CCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
87135758 AATATGAAATATGAAAAGG
1 AATATGAAATATGAAAAGG
87135777 GCTACAGCCC
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 31 0.55
38 25 0.45
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.26
Consensus pattern (38 bp):
AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
Found at i:87135869 original size:20 final size:20
Alignment explanation
Indices: 87135844--87135881 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
87135834 GTTTATTCGC
*
87135844 GATTTTCAAATTTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
87135864 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
87135882 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:87137297 original size:27 final size:26
Alignment explanation
Indices: 87137266--87137329 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 26
87137256 AGATCACGAA
87137266 ATTACCCCTAAAGAGCAAAATTACCGG
1 ATTACCCCTAAAGAGCAAAATTACC-G
87137293 ATTACCCCTAAAGAGCAAAATTACCG
1 ATTACCCCTAAAGAGCAAAATTACCG
87137319 ATATACCCCTA
1 AT-TACCCCTA
87137330 GGGTTTTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 3 0.08
27 33 0.92
ACGTcount: A:0.41, C:0.28, G:0.11, T:0.20
Consensus pattern (26 bp):
ATTACCCCTAAAGAGCAAAATTACCG
Found at i:87138398 original size:37 final size:38
Alignment explanation
Indices: 87138298--87138399 Score: 95
Period size: 37 Copynumber: 2.6 Consensus size: 38
87138288 ATATATTTGG
87138298 TAATAATAATA--TAAAATAATAA-TATGTACATAAAAA
1 TAATAATAATATCTAAAATAA-AAGTATGTACATAAAAA
* *
87138334 TACATATATATATATGCATATAATAAAAGTATGTA-ATAATAA
1 TA-ATA-ATA-ATAT-C-TAAAATAAAAGTATGTACATAAAAA
*
87138376 TAATAATAATATCTACAATAAAAG
1 TAATAATAATATCTAAAATAAAAG
87138400 AAAATATTAG
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 13 0.24
38 4 0.07
39 7 0.13
40 3 0.05
41 3 0.05
42 10 0.18
43 13 0.24
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (38 bp):
TAATAATAATATCTAAAATAAAAGTATGTACATAAAAA
Found at i:87139238 original size:17 final size:17
Alignment explanation
Indices: 87139218--87139254 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
87139208 TTTTGGTAGG
87139218 TTTTTCTTT-TTCTTTTT
1 TTTTTCTTTGTT-TTTTT
87139235 TTTTTCTTTGTTTTTTT
1 TTTTTCTTTGTTTTTTT
87139252 TTT
1 TTT
87139255 GGGTTAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (17 bp):
TTTTTCTTTGTTTTTTT
Found at i:87139263 original size:45 final size:44
Alignment explanation
Indices: 87139160--87139271 Score: 124
Period size: 45 Copynumber: 2.5 Consensus size: 44
87139150 TTTTTTTATC
87139160 TTTTTTT-GTTAGGTTTTTCTTTTTTCTTCTTTTTTTTGGGTTAGG
1 TTTTTTTGGTTAGGTTTTTC-TTTTTCTTCTTTTTTTTGGGTTA-G
* ** *
87139205 TTTTTTTGG-TAGGTTTTTCTTTTTCTTTTTTTTTTCTTTGTT-T
1 TTTTTTTGGTTAGGTTTTTCTTTTTCTTCTTTTTTT-TGGGTTAG
87139248 TTTTTTTGGGTTAGGTTTTT-TTTT
1 TTTTTTT-GGTTAGGTTTTTCTTTT
87139272 GGGGGGCTTA
Statistics
Matches: 59, Mismatches: 4, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
43 7 0.12
44 21 0.36
45 30 0.51
46 1 0.02
ACGTcount: A:0.04, C:0.05, G:0.16, T:0.75
Consensus pattern (44 bp):
TTTTTTTGGTTAGGTTTTTCTTTTTCTTCTTTTTTTTGGGTTAG
Found at i:87140105 original size:30 final size:30
Alignment explanation
Indices: 87140069--87140130 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
87140059 TTTTGAAAAA
87140069 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
87140099 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
87140129 CA
1 CA
87140131 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:87140244 original size:13 final size:13
Alignment explanation
Indices: 87140226--87140259 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
87140216 TGAGTTGATT
*
87140226 TTTGAAAACAGAA
1 TTTGAAAAAAGAA
*
87140239 TTTGAAAAAAGAT
1 TTTGAAAAAAGAA
87140252 TTTGAAAA
1 TTTGAAAA
87140260 TACCTCGACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.03, G:0.15, T:0.29
Consensus pattern (13 bp):
TTTGAAAAAAGAA
Found at i:87140567 original size:72 final size:73
Alignment explanation
Indices: 87140277--87140804 Score: 441
Period size: 72 Copynumber: 6.8 Consensus size: 73
87140267 ACATGTAACC
* * * *
87140277 CGAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATAC
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAACAGAAATTG--AAAATAC
* *
87140342 CTCAGTGTGTGAT
62 CTCAGCGTGT-CT
* * *
87140355 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATAGC
1 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACC
*
87140420 TCAGCGCATGAGC-
63 TCAGCG--TG-TCT
* * *
87140433 CAAGGGTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
*
87140498 ACGTGTCT
66 GCGTGTCT
* ** * *
87140506 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
*
87140570 GCGTGTCC
66 GCGTGTCT
*
87140578 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGCAGAAATTGAAAAATG
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTGAAAACAGAAATTG----A--
** ** *
87140643 GAAATTGAAAATACCTCGACGTGTGAT
56 -AAA-T--ACCT-CAGC---GTGT-CT
* * *
87140670 CTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTTTTTGACAACAGAAATTGAAATTACCT
1 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCT
87140735 CAGCGTGTC-
64 CAGCGTGTCT
* *
87140744 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAAAAATTGAAAA
1 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAA
87140805 ACGGAAATTG
Statistics
Matches: 368, Mismatches: 54, Indels: 59
0.77 0.11 0.12
Matches are distributed among these distances:
72 66 0.18
73 30 0.08
74 43 0.12
75 32 0.09
76 14 0.04
77 58 0.16
78 5 0.01
79 51 0.14
80 2 0.01
81 1 0.00
82 1 0.00
83 2 0.01
84 2 0.01
85 1 0.00
86 1 0.00
87 2 0.01
88 2 0.01
90 18 0.05
91 4 0.01
92 1 0.00
93 32 0.09
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (73 bp):
CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
GCGTGTCT
Found at i:87140766 original size:74 final size:75
Alignment explanation
Indices: 87140643--87140804 Score: 222
Period size: 74 Copynumber: 2.1 Consensus size: 75
87140633 TTGAAAAATG
*
87140643 GAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
1 GAAATTGAAAATACCTCGACGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
87140708 TTTTGACAACA
65 TTTTGACAACA
* * *
87140719 GAAATTGAAATTACCTC-AGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
87140782 TTTTGA-AAGGCA
65 TTTTGACAA--CA
*
87140794 AAAATTGAAAA
1 GAAATTGAAAA
87140805 ACGGAAATTG
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
73 2 0.03
74 42 0.55
75 12 0.16
76 21 0.27
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (75 bp):
GAAATTGAAAATACCTCGACGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
TTTGACAACA
Found at i:87140801 original size:165 final size:165
Alignment explanation
Indices: 87140474--87141034 Score: 891
Period size: 165 Copynumber: 3.4 Consensus size: 165
87140464 TGATTTTTTG
* * * ** *
87140474 AAAACAGAAATTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* * *
87140537 TGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
66 TGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
87140601 ATATGAGTTGATTTTTTTTTTGAAA-GCAGAAATTGA
131 ATATGAGTTGA--TTTTTTTTGAAAGGCAGAAATTGA
* *
87140637 AAAATGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
87140702 TGACTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
*
87140767 AATATGAGTTGA-TTTTTTTGAAAGGCAAAAATTGA
130 AATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGA
* * *
87140802 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
87140867 TGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
*
87140932 AATATGAGTTGATTTTTTTTGAAAGACAGAAATTGA
130 AATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGA
*
87140968 AAAACGGAAATTGAAAATACCTCG-CGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
87141032 TGA
66 TGA
87141035 AATTAAAACA
Statistics
Matches: 371, Mismatches: 21, Indels: 10
0.92 0.05 0.02
Matches are distributed among these distances:
163 27 0.07
164 11 0.03
165 219 0.59
166 45 0.12
167 69 0.19
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (165 bp):
AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
TGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGA
Found at i:87140933 original size:74 final size:77
Alignment explanation
Indices: 87140798--87140970 Score: 244
Period size: 76 Copynumber: 2.3 Consensus size: 77
87140788 AAGGCAAAAA
* * * *
87140798 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATAC
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCACTCGCAATAC
87140863 GAGTTGA-TTTTT
65 GAGTTGATTTTTT
* * * *
87140875 TTGACA-ACAGAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACG
87140938 AGTTGATTTTTT
66 AGTTGATTTTTT
87140950 TTGAAAGACAGAAATTGAAAA
1 TTGAAAGACAGAAATTGAAAA
87140971 ACGGAAATTG
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
74 33 0.39
75 10 0.12
76 37 0.44
77 5 0.06
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (77 bp):
TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACG
AGTTGATTTTTT
Found at i:87140969 original size:14 final size:14
Alignment explanation
Indices: 87140950--87140984 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
87140940 TTGATTTTTT
*
87140950 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
*
87140964 TTGAAAAACGGAAA
1 TTGAAAAACAGAAA
87140978 TTGAAAA
1 TTGAAAA
87140985 TACCTCGCGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:87141340 original size:72 final size:71
Alignment explanation
Indices: 87141206--87141371 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
87141196 TGAACAACGT
* * * *
87141206 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
87141271 GAGTTG
66 GAGTTG
*
87141277 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
87141342 TGAGTTG
65 TGAGTTG
**
87141349 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
87141372 GGCTTAACTC
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:87141514 original size:71 final size:71
Alignment explanation
Indices: 87141371--87141634 Score: 356
Period size: 70 Copynumber: 3.7 Consensus size: 71
87141361 AAAAATTAAA
* * * * *
87141371 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTT-AAAACATAAACTAAAAATACCTCAGCGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
87141434 GCCCCG
66 GCCCCG
* *
87141440 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
* **
87141505 GTCTTG
66 GCCCCG
* * *
87141511 AGGCTCAACTCATCTCTCGCAATATGAGTTGA--TTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA-ACAAAAATTAAAAATACCTCAGCG
87141574 TGCCCCG
65 TGCCCCG
*
87141581 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG-AAAACAAAAATTAAAA
87141635 GGCTTAACTC
Statistics
Matches: 167, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
69 31 0.19
70 61 0.37
71 58 0.35
72 14 0.08
73 3 0.02
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
GCCCCG
Found at i:87141592 original size:70 final size:69
Alignment explanation
Indices: 87141371--87141634 Score: 339
Period size: 71 Copynumber: 3.7 Consensus size: 69
87141361 AAAAATTAAA
* ** * * *
87141371 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAGCGTGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAAACAAAAATTAAAAATACCTCAGCGTGC
87141436 CCCG
66 CCCG
* * *
87141440 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTAAAAACAAAAATTAAAAATACCTCAGCGT
* **
87141505 GTCTTG
64 GCCCCG
* *
87141511 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTAAAACACAAAAATTGAAAATACCTCAGCGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAA-ACAAAAATTAAAAATACCTCAGCGTG
87141576 CCCCG
65 CCCCG
*
87141581 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT-AAAAACAAAAATTAAAA
87141635 GGCTTAACTC
Statistics
Matches: 167, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
69 33 0.20
70 56 0.34
71 60 0.36
72 14 0.08
73 4 0.02
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (69 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAAACAAAAATTAAAAATACCTCAGCGTGC
CCCG
Found at i:87141617 original size:263 final size:257
Alignment explanation
Indices: 87141209--87141801 Score: 1042
Period size: 257 Copynumber: 2.3 Consensus size: 257
87141199 ACAACGTAAA
* * * * * *
87141209 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
87141274 TTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCA
66 TTG--ATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCA
87141339 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
129 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
87141404 TTAAAACATAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
194 TT-----A-AAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
87141469 TGATT
253 TGATT
87141474 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
87141539 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
66 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
87141604 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
131 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
*
87141669 AAAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
196 AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
*
87141731 TTGAAAACAACAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
87141796 TTGATT
66 TTGATT
87141802 TTCCTTGAAA
Statistics
Matches: 320, Mismatches: 8, Indels: 8
0.95 0.02 0.02
Matches are distributed among these distances:
257 130 0.41
258 1 0.00
263 127 0.40
265 62 0.19
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.26
Consensus pattern (257 bp):
TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
Found at i:87151156 original size:15 final size:16
Alignment explanation
Indices: 87151123--87151158 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
87151113 TTTCTTCTTT
*
87151123 TTTTTTTGGGGTTAGG
1 TTTTTTTGGGGTTAAG
87151139 TTTTTTTGGGG-TAAG
1 TTTTTTTGGGGTTAAG
87151154 TTTTT
1 TTTTT
87151159 CTTTTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.08, C:0.00, G:0.31, T:0.61
Consensus pattern (16 bp):
TTTTTTTGGGGTTAAG
Found at i:87153691 original size:3 final size:3
Alignment explanation
Indices: 87153683--87153717 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
87153673 TATTTGTTCT
87153683 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
87153718 TCTATGATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:87156299 original size:21 final size:23
Alignment explanation
Indices: 87156260--87156303 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
87156250 TTTTTATTTG
*
87156260 AAAACATATATTATAATATATGA
1 AAAACATATATAATAATATATGA
87156283 AAAACATATA-AATATATATAT
1 AAAACATATATAATA-ATATAT
87156304 AACCAGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (23 bp):
AAAACATATATAATAATATATGA
Found at i:87157622 original size:16 final size:18
Alignment explanation
Indices: 87157601--87157642 Score: 61
Period size: 16 Copynumber: 2.4 Consensus size: 18
87157591 GATCTTTTAC
*
87157601 ATATATTTTT-TTAT-AA
1 ATATATTTTTAATATAAA
87157617 ATATATTTTTAATATAAA
1 ATATATTTTTAATATAAA
87157635 ATATATTT
1 ATATATTT
87157643 ATTCACCCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.43
17 3 0.13
18 10 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATATATTTTTAATATAAA
Found at i:87164167 original size:46 final size:46
Alignment explanation
Indices: 87164117--87164292 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
87164107 TGGTTGAGCA
87164117 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
87164163 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* **
87164208 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
87164256 CCCGAGCTCGTTGAGTTGAGGCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87164293 GCGGTTACAT
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.58
47 29 0.28
48 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:87164273 original size:93 final size:93
Alignment explanation
Indices: 87164114--87164285 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
87164104 GGATGGTTGA
* ***
87164114 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACACCCGAACTCGTTGAGT
*
87164179 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGGCCGAGTTCGTGAAATGTAACTAG
*
87164207 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACACCCGAACTCGTTGAGT
*
87164272 TGAGGCTGAGTTCG
66 TGAGGCCGAGTTCG
87164286 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACACCCGAACTCGTTGAGT
TGAGGCCGAGTTCGTGAAATGTAACTAG
Found at i:87167236 original size:15 final size:15
Alignment explanation
Indices: 87167216--87167293 Score: 88
Period size: 15 Copynumber: 5.2 Consensus size: 15
87167206 TATAGTATCG
*
87167216 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTT
*
87167231 TATCTTGGATCTCTT
1 TATCTTGGATTTCTT
87167246 TAT-TCTGGATTTCTT
1 TATCT-TGGATTTCTT
* *
87167261 TAT-TCTGGGTTTCTC
1 TATCT-TGGATTTCTT
87167276 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
87167291 TAT
1 TAT
87167294 TCGGTTTTCT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
14 1 0.02
15 52 0.96
16 1 0.02
ACGTcount: A:0.12, C:0.15, G:0.15, T:0.58
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:87169734 original size:46 final size:46
Alignment explanation
Indices: 87169684--87169859 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
87169674 TGGTTGAGCA
87169684 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
87169730 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
87169775 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
87169823 -CTCGAGCTTGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87169860 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 4 0.04
46 61 0.58
47 28 0.26
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:87169840 original size:93 final size:93
Alignment explanation
Indices: 87169681--87169852 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
87169671 GGATGGTTGA
* *
87169681 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAGT
87169746 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
87169774 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG-CTCGAGCTTGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTC-CGAACTCGTTGAG
87169838 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
87169853 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:87171568 original size:93 final size:93
Alignment explanation
Indices: 87171456--87171627 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
87171446 CGCCCATAAG
* *
87171456 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
87171521 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
87171549 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
87171614 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
87171628 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:87171624 original size:46 final size:46
Alignment explanation
Indices: 87171449--87171624 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
87171439 TGTAACCCGC
* * *
87171449 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
87171495 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
87171545 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
87171588 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
87171625 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:87178561 original size:62 final size:62
Alignment explanation
Indices: 87178463--87178587 Score: 205
Period size: 62 Copynumber: 2.0 Consensus size: 62
87178453 TTTTAGTGGG
* *
87178463 TGTCAAGGGCAACCTACTAACAAAGTCCATCATTACTTGTTCCCATTTCCATAACTGAATCT
1 TGTCAAGGGCAACCCACTAACAAAGTCCATCATTACTTGTTCCCATTTCCATAACGGAATCT
** *
87178525 TGTCAAGGGCAACCCACTAACAAAGTCCATTGTTACTTGTTCCCATTTCCATAAGGGAATCT
1 TGTCAAGGGCAACCCACTAACAAAGTCCATCATTACTTGTTCCCATTTCCATAACGGAATCT
87178587 T
1 T
87178588 AACTGGCTGC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (62 bp):
TGTCAAGGGCAACCCACTAACAAAGTCCATCATTACTTGTTCCCATTTCCATAACGGAATCT
Found at i:87181508 original size:15 final size:15
Alignment explanation
Indices: 87181490--87181520 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
87181480 AAATAAATTG
87181490 TGCAAAAAATAAAAA
1 TGCAAAAAATAAAAA
*
87181505 TGCATAAAATAAAAA
1 TGCAAAAAATAAAAA
87181520 T
1 T
87181521 TTATCATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.19
Consensus pattern (15 bp):
TGCAAAAAATAAAAA
Found at i:87182989 original size:135 final size:137
Alignment explanation
Indices: 87182746--87183030 Score: 520
Period size: 135 Copynumber: 2.1 Consensus size: 137
87182736 CATTGGGCCT
** *
87182746 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
87182811 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
87182875 CATATGC
131 CATATGC
87182882 AAGCCCATTTGGGTAACAGTGATACTGGGCCA-AGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
87182946 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
87183011 CATATGC
131 CATATGC
87183018 AAGCCCATTTGGG
1 AAGCCCATTTGGG
87183031 GAGACTACTC
Statistics
Matches: 144, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
135 93 0.65
136 51 0.35
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:87184850 original size:26 final size:26
Alignment explanation
Indices: 87184814--87184949 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
87184804 CATGATATTC
87184814 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
87184840 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
87184866 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
87184892 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
87184918 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
87184944 TTATCA
1 TTATCA
87184950 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:87187844 original size:13 final size:13
Alignment explanation
Indices: 87187826--87187850 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87187816 ACATATTTAT
87187826 ATGAAAATAATAA
1 ATGAAAATAATAA
87187839 ATGAAAATAATA
1 ATGAAAATAATA
87187851 TATATATACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
ATGAAAATAATAA
Found at i:87187949 original size:27 final size:27
Alignment explanation
Indices: 87187919--87188025 Score: 80
Period size: 27 Copynumber: 4.0 Consensus size: 27
87187909 AGAATCAAAT
87187919 TATACAAATAATTTTAAAGAAAATATA
1 TATACAAATAATTTTAAAGAAAATATA
* *
87187946 TATAAAAATAA-ATTAGAAGAAAATAT-
1 TATACAAATAATTTTA-AAGAAAATATA
*
87187972 T-TACATAATAGATTTGGAAAGAAAATATA
1 TATACA-AATA-ATTT-TAAAGAAAATATA
* * * *
87188001 CAT-TAAA-GATTTTAAAGAAACTATA
1 TATACAAATAATTTTAAAGAAAATATA
87188026 CAAATAAAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
25 14 0.22
26 12 0.19
27 21 0.33
28 13 0.21
29 2 0.03
30 1 0.02
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (27 bp):
TATACAAATAATTTTAAAGAAAATATA
Found at i:87188002 original size:26 final size:25
Alignment explanation
Indices: 87187919--87188031 Score: 74
Period size: 26 Copynumber: 4.4 Consensus size: 25
87187909 AGAATCAAAT
*
87187919 TATACA-AATA-ATTTTAAAGAAAA
1 TATACATAATAGATTTGAAAGAAAA
* * *
87187942 TATATATAAAAATAAATTAG-AAGAAAA
1 TATACAT---AATAGATTTGAAAGAAAA
87187969 TATTTACATAATAGATTTGGAAAGAAAA
1 TA--TACATAATAGATTT-GAAAGAAAA
* *
87187997 TATACATTAA-AGATTTTAAAGAAAC
1 TATACA-TAATAGATTTGAAAGAAAA
87188022 TATACA-AATA
1 TATACATAATA
87188032 AAATACCATA
Statistics
Matches: 71, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
23 7 0.10
24 1 0.01
25 13 0.18
26 17 0.24
27 17 0.24
28 12 0.17
29 4 0.06
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (25 bp):
TATACATAATAGATTTGAAAGAAAA
Found at i:87188287 original size:21 final size:20
Alignment explanation
Indices: 87188263--87188302 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
87188253 TAAAAAAACA
87188263 AAACAATATAGATAATATACC
1 AAACAATATAGAT-ATATACC
* *
87188284 AAACCATATATATATATAC
1 AAACAATATAGATATATAC
87188303 GCATAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.28
Consensus pattern (20 bp):
AAACAATATAGATATATACC
Found at i:87194663 original size:32 final size:34
Alignment explanation
Indices: 87194617--87194681 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
87194607 TAACAGTGGT
*
87194617 ACTGGGCCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
** *
87194649 ACTGGGCCTTAGCCCCTTATTTAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATA
87194682 TGGCCCATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 10 0.37
33 5 0.19
34 12 0.44
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
Found at i:87195028 original size:25 final size:27
Alignment explanation
Indices: 87194991--87195043 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
87194981 TCAAACATGC
87194991 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* *
87195017 ATTTCGGT-AATTTATCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
87195043 A
1 A
87195044 AAACTGTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:87196566 original size:26 final size:26
Alignment explanation
Indices: 87196530--87196637 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
87196520 TGAAATTCCA
87196530 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87196556 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
87196582 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87196608 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87196634 ATCA
1 ATCA
87196638 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:87200661 original size:15 final size:14
Alignment explanation
Indices: 87200641--87200672 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
87200631 CACATCCCAA
87200641 AAATTGGGTTAGTAG
1 AAATTGGGTTAGT-G
87200656 AAATTGGGTTAGTG
1 AAATTGGGTTAGTG
87200670 AAA
1 AAA
87200673 CTAAGAGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (14 bp):
AAATTGGGTTAGTG
Found at i:87202489 original size:23 final size:23
Alignment explanation
Indices: 87202463--87202511 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
87202453 ACATGTCAAC
** *
87202463 ACATATAGGGTTTTCACATTACA
1 ACATATAGGGTTCGCACAGTACA
*
87202486 ACATATAGTGTTCGCACAGTACA
1 ACATATAGGGTTCGCACAGTACA
87202509 ACA
1 ACA
87202512 ATTCATATGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (23 bp):
ACATATAGGGTTCGCACAGTACA
Found at i:87202803 original size:14 final size:14
Alignment explanation
Indices: 87202774--87202814 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
87202764 TAGTGGTTGT
*
87202774 ACATAGGGGTTTGC
1 ACATAGGGGTTCGC
* *
87202788 ACGTATGGGTTCGC
1 ACATAGGGGTTCGC
87202802 ACATAGGGGTTCG
1 ACATAGGGGTTCG
87202815 ATGGGGGTTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.20, C:0.17, G:0.37, T:0.27
Consensus pattern (14 bp):
ACATAGGGGTTCGC
Found at i:87202964 original size:34 final size:34
Alignment explanation
Indices: 87202886--87202967 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
87202876 GCGTACTCTG
* **
87202886 TCATACTATATAACGTGAGGGTTCACATATTACA
1 TCATACTATATAACATGAGGGTTCACATACCACA
* ** * *
87202920 TCCTTTTATATAACATGTGTGTTCACATACCACA
1 TCATACTATATAACATGAGGGTTCACATACCACA
87202954 TCATACTATATAAC
1 TCATACTATATAAC
87202968 GTGGGGCTCG
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (34 bp):
TCATACTATATAACATGAGGGTTCACATACCACA
Found at i:87203282 original size:15 final size:15
Alignment explanation
Indices: 87203259--87203292 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
87203249 CTTATTTTGA
* *
87203259 AAAATGAATATTCAG
1 AAAACGAATAGTCAG
87203274 AAAACGAATAGTCAG
1 AAAACGAATAGTCAG
87203289 AAAA
1 AAAA
87203293 TAATAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.09, G:0.15, T:0.18
Consensus pattern (15 bp):
AAAACGAATAGTCAG
Found at i:87209490 original size:26 final size:26
Alignment explanation
Indices: 87209454--87209563 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
87209444 CATGAAATTC
*
87209454 TTATCATGAAACATTTACCTATCCCA
1 TTATCATGAAACATTTACCTAACCCA
87209480 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
87209506 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
87209532 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
87209558 TTATCA
1 TTATCA
87209564 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:87210934 original size:18 final size:18
Alignment explanation
Indices: 87210913--87210952 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
87210903 TTGTTTTAAG
87210913 TTTTAAAATATTT-TTTTA
1 TTTT-AAATATTTATTTTA
*
87210931 TTTTTAATATTTATTTTA
1 TTTTAAATATTTATTTTA
87210949 TTTT
1 TTTT
87210953 TATTTCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTAAATATTTATTTTA
Done.