Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 306 of 444
Found at i:88122681 original size:25 final size:25
Alignment explanation
Indices: 88122618--88122693 Score: 91
Period size: 25 Copynumber: 3.0 Consensus size: 25
88122608 AGCTTAAGAA
*
88122618 AGCCAAAT-ATCGAGAAGCTCATAAG
1 AGCCAAATAAT-GGGAAGCTCATAAG
* *
88122643 AGCCAAATATTGGGATGCTCATAAG
1 AGCCAAATAATGGGAAGCTCATAAG
* *
88122668 AGCTAAATAATGGGAAGCTCACAAG
1 AGCCAAATAATGGGAAGCTCATAAG
88122693 A
1 A
88122694 TTTGTGGTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
25 42 0.98
26 1 0.02
ACGTcount: A:0.42, C:0.17, G:0.22, T:0.18
Consensus pattern (25 bp):
AGCCAAATAATGGGAAGCTCATAAG
Found at i:88128551 original size:21 final size:21
Alignment explanation
Indices: 88128525--88128571 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
88128515 TATGAGGAAA
*
88128525 AAAAAAACATGAGTGCATACC
1 AAAAAAACATGAGAGCATACC
* *
88128546 AAAAAAACGTGAGAGTATACC
1 AAAAAAACATGAGAGCATACC
88128567 AAAAA
1 AAAAA
88128572 TATACGAGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.57, C:0.15, G:0.15, T:0.13
Consensus pattern (21 bp):
AAAAAAACATGAGAGCATACC
Found at i:88128582 original size:23 final size:21
Alignment explanation
Indices: 88128541--88128582 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
88128531 ACATGAGTGC
*
88128541 ATACCAAAAAAACGTGAGAGT
1 ATACCAAAAAAACGAGAGAGT
88128562 ATACCAAAAATATACGAGAGA
1 ATACCAAAAA-A-ACGAGAGA
88128583 CTATTTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 1 0.06
23 7 0.39
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (21 bp):
ATACCAAAAAAACGAGAGAGT
Found at i:88130663 original size:27 final size:26
Alignment explanation
Indices: 88130615--88130689 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
88130605 GCGAGGCTGC
* *
88130615 CAGATATTGTGAC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
88130641 ACAGATATTGTGGCAGAGCCACCAGAT
1 -CAGATATTGTGGCAGAGCCACCAGAT
* *
88130668 CAGATAATCGTGGCATAGCCAC
1 CAGAT-ATTGTGGCAGAGCCAC
88130690 TAGAACGTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:88132317 original size:26 final size:26
Alignment explanation
Indices: 88132288--88132343 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
88132278 TGAAACGCCC
88132288 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
88132314 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
88132340 ATCA
1 ATCA
88132344 ATTTGTACCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:88137324 original size:27 final size:27
Alignment explanation
Indices: 88137276--88137381 Score: 110
Period size: 27 Copynumber: 3.9 Consensus size: 27
88137266 GCGAGGCTGC
* *
88137276 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
88137303 CAGATATTGTGGCAGAGCCACCATA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
88137329 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
** *
88137356 CAGATAATCATGGCATAGCCACCAGA
1 CAGAT-ATTGTGGCAGAGCCACCAGA
88137382 ACGCTTCCTC
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
26 8 0.12
27 57 0.84
28 3 0.04
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:88139010 original size:26 final size:26
Alignment explanation
Indices: 88138979--88139034 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
88138969 TGAAATGCCC
88138979 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
88139005 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
88139031 ATCA
1 ATCA
88139035 ATTTGTACCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:88142384 original size:15 final size:15
Alignment explanation
Indices: 88142364--88142397 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
88142354 TGTTGTTTCG
88142364 ATTGTTTAATATAT-A
1 ATTGTTT-ATATATGA
88142379 ATTGTTTATATATGA
1 ATTGTTTATATATGA
88142394 ATTG
1 ATTG
88142398 AGTTCATTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGTTTATATATGA
Found at i:88142544 original size:45 final size:46
Alignment explanation
Indices: 88142466--88142579 Score: 124
Period size: 45 Copynumber: 2.5 Consensus size: 46
88142456 ACCAAAAACG
* *** * * *
88142466 AGTAAGACTATAACTGAAAGACGTTATGGCATCACGATTC-TATCA
1 AGTAAGACCATAACTGAAAGACACAATGCCATCACGAATCAAATCA
*
88142511 AGTAAGACCATAACTGAAAGACACAATGCCATCACGAATCAAATGA
1 AGTAAGACCATAACTGAAAGACACAATGCCATCACGAATCAAATCA
**
88142557 A-TAAGACCATAGTTGAAAGACAC
1 AGTAAGACCATAACTGAAAGACAC
88142580 TATAGTGACA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 54 0.93
46 4 0.07
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (46 bp):
AGTAAGACCATAACTGAAAGACACAATGCCATCACGAATCAAATCA
Found at i:88142612 original size:46 final size:46
Alignment explanation
Indices: 88142551--88142669 Score: 166
Period size: 46 Copynumber: 2.6 Consensus size: 46
88142541 ATCACGAATC
** * *
88142551 AAATGAATAAGACCATAGTTGAAAGACACTATAGTGACATGATGGG
1 AAATGAATAAGACCATAGTTGAAAGACACTATAGAAACATGACGGA
*
88142597 AAATGAATAAGACCATAGTTGAAAGATACTATAGAAACATGACGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATAGAAACATGACGGA
* * *
88142643 AAATAAATAAGCCCATGGTTGAAAGAC
1 AAATGAATAAGACCATAGTTGAAAGAC
88142670 GCCATGGCAC
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 64 1.00
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.20
Consensus pattern (46 bp):
AAATGAATAAGACCATAGTTGAAAGACACTATAGAAACATGACGGA
Found at i:88144485 original size:25 final size:25
Alignment explanation
Indices: 88144451--88144502 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
88144441 CATACTATGA
*
88144451 TACATTATTCAATTATATAAGACAT
1 TACATTATTCAATTATATAAGAAAT
88144476 TACATTATTCAATTATATAAGAAAT
1 TACATTATTCAATTATATAAGAAAT
88144501 TA
1 TA
88144503 ATATGAAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (25 bp):
TACATTATTCAATTATATAAGAAAT
Found at i:88144909 original size:20 final size:20
Alignment explanation
Indices: 88144886--88144942 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
88144876 ATGAGGACAA
* *
88144886 ACCAAAAATCATGAGCGTAT
1 ACCAAAAAACATGAGAGTAT
*
88144906 ACCAAAAAACATTAGAGTAT
1 ACCAAAAAACATGAGAGTAT
* *
88144926 ACCAAAACATATGAGAG
1 ACCAAAAAACATGAGAG
88144943 GCTACTTGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.51, C:0.18, G:0.14, T:0.18
Consensus pattern (20 bp):
ACCAAAAAACATGAGAGTAT
Found at i:88145143 original size:19 final size:19
Alignment explanation
Indices: 88144983--88145155 Score: 56
Period size: 20 Copynumber: 8.9 Consensus size: 19
88144973 AGAAGATATA
*
88144983 AAAAATTTGA-GATTATACC
1 AAAAATATGAGGA-TATACC
*
88145002 AAAAAACATGAGGAT-TACC
1 -AAAAATATGAGGATATACC
* *
88145021 AAAAAGTATGAGCAAATACC
1 AAAAA-TATGAGGATATACC
* *
88145041 AAAATTGTGAGGGAT-TACC
1 AAAAATATGA-GGATATACC
* * * *
88145060 ATAAAAACATGAAGAAATACT
1 --AAAAATATGAGGATATACC
* *
88145081 AAAAA-ATTGATGGGTA-ACT
1 AAAAATA-TGA-GGATATACC
* *
88145100 AGAAAACATGAGGGA-ATACAA
1 A-AAAATATGA-GGATATAC-C
88145121 AAAAATATGAGGATATACC
1 AAAAATATGAGGATATACC
*
88145140 AAAACT-TGA-GATATAC
1 AAAAATATGAGGATATAC
88145156 TAATTTTCGG
Statistics
Matches: 115, Mismatches: 24, Indels: 31
0.68 0.14 0.18
Matches are distributed among these distances:
17 7 0.06
18 9 0.08
19 39 0.34
20 46 0.40
21 14 0.12
ACGTcount: A:0.51, C:0.11, G:0.17, T:0.21
Consensus pattern (19 bp):
AAAAATATGAGGATATACC
Found at i:88150327 original size:16 final size:16
Alignment explanation
Indices: 88150306--88150337 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
88150296 TTTGACTGGG
*
88150306 AAAATATATATTGAAT
1 AAAATATAGATTGAAT
88150322 AAAATATAGATTGAAT
1 AAAATATAGATTGAAT
88150338 TTCAAAATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.34
Consensus pattern (16 bp):
AAAATATAGATTGAAT
Found at i:88152457 original size:30 final size:29
Alignment explanation
Indices: 88152401--88152458 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 29
88152391 TAAATATAAA
88152401 ATTATAAATTATCATGAATATACATTTATG
1 ATTATAAATTAT-ATGAATATACATTTATG
*
88152431 ATTATAAATT-TATTGAATTATTCATTTA
1 ATTATAAATTATA-TGAA-TATACATTTA
88152459 CCTTTTGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 1 0.04
29 5 0.20
30 19 0.76
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.48
Consensus pattern (29 bp):
ATTATAAATTATATGAATATACATTTATG
Found at i:88156943 original size:24 final size:24
Alignment explanation
Indices: 88156916--88156978 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
88156906 CTTATTATGT
88156916 TCGCACACATAGTGCCATAATAAA
1 TCGCACACATAGTGCCATAATAAA
*
88156940 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAATAAA
88156964 TCGCACACATAGTGC
1 TCGCACACATAGTGC
88156979 AATTGAGATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.37, C:0.27, G:0.16, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAATAAA
Found at i:88166261 original size:46 final size:47
Alignment explanation
Indices: 88166114--88166332 Score: 164
Period size: 46 Copynumber: 4.7 Consensus size: 47
88166104 TGTGTGAGCT
* * ** *
88166114 AGTGTAAGACATGTCTGGGACATGCATCGGCC-AC-ATTATAAGAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCTACGA-GACGATAGCC
* * * * * * *
88166160 AGTGTAAGACCATGTCTGGGACATGGCAT-TG-ATAGTGAGACAAGAGCT
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTA-CGAGACGATAGCC
*
88166208 AGTGTAAGACATGTCTATGACATGCATCGGCCT-CGAGACG-TAAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCTACGAGACGAT-AGCC
* * * *
88166254 AGTGTAAGACACGTCTGGGACATGCATCGG-CTACGAGATGATAGTC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCTACGAGACGATAGCC
*
88166300 AGTGTAAGACCATGTCTAGGACATAACATCGGC
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGC
88166333 ACCTTACCCA
Statistics
Matches: 138, Mismatches: 22, Indels: 23
0.75 0.12 0.13
Matches are distributed among these distances:
45 2 0.01
46 66 0.48
47 42 0.30
48 27 0.20
49 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCTACGAGACGATAGCC
Found at i:88168066 original size:18 final size:18
Alignment explanation
Indices: 88168043--88168080 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
88168033 TCAAGTGTTG
88168043 AAATGGTATAAGCTTACT
1 AAATGGTATAAGCTTACT
*
88168061 AAATGGTATGAGCTTACT
1 AAATGGTATAAGCTTACT
88168079 AA
1 AA
88168081 GTATTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (18 bp):
AAATGGTATAAGCTTACT
Found at i:88168451 original size:33 final size:33
Alignment explanation
Indices: 88168409--88168474 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
88168399 TGGTTTAAAT
88168409 GTTAGTGGGACATTCCACAATATATGTGTCAGC
1 GTTAGTGGGACATTCCACAATATATGTGTCAGC
88168442 GTTAGTGGGACATTCCACAATATATGTGTCAGC
1 GTTAGTGGGACATTCCACAATATATGTGTCAGC
88168475 AGTTTAGCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (33 bp):
GTTAGTGGGACATTCCACAATATATGTGTCAGC
Found at i:88169693 original size:17 final size:17
Alignment explanation
Indices: 88169667--88169704 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
88169657 TTAAATAATT
88169667 AAAT-AAGAAGAAAATA
1 AAATAAAGAAGAAAATA
*
88169683 AAATAAAGAAGAACATA
1 AAATAAAGAAGAAAATA
88169700 AAATA
1 AAATA
88169705 GATAGATGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.74, C:0.03, G:0.11, T:0.13
Consensus pattern (17 bp):
AAATAAAGAAGAAAATA
Found at i:88173591 original size:2 final size:2
Alignment explanation
Indices: 88173584--88173619 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
88173574 TCAATGGATA
88173584 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
88173620 GACATGAGAA
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88181861 original size:12 final size:13
Alignment explanation
Indices: 88181844--88181875 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
88181834 ATAGCACATT
88181844 TCAAAAC-ATGCA
1 TCAAAACTATGCA
88181856 TCAAAACTATGCA
1 TCAAAACTATGCA
88181869 -CAAAACT
1 TCAAAACT
88181876 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:88189015 original size:12 final size:13
Alignment explanation
Indices: 88188998--88189029 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
88188988 ATAGCACATT
88188998 TCAAAAC-ATGCA
1 TCAAAACTATGCA
88189010 TCAAAACTATGCA
1 TCAAAACTATGCA
88189023 -CAAAACT
1 TCAAAACT
88189030 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:88189622 original size:44 final size:42
Alignment explanation
Indices: 88189486--88189634 Score: 135
Period size: 42 Copynumber: 3.5 Consensus size: 42
88189476 CAATGCCGAC
* * *
88189486 GTCCCAGACGTGGTCTTACATGT-AATTCAGTATCGATGCCTCT
1 GTCCCAGACATGGTCTTACAT-TAAATTCA-AATCGATGCCTGT
* * * *
88189529 GTCCCAGACAGGGTCTTATATGAGAA--CAGATACGATG-CTGAT
1 GTCCCAGACATGGTCTTACATTA-AATTCAAAT-CGATGCCTG-T
88189571 GTCCCAGACATGGTCTTACACTTAAATTTCAAATCGATGCCTGT
1 GTCCCAGACATGGTCTTACA-TTAAA-TTCAAATCGATGCCTGT
*
88189615 GTCCCAGACACGGTCTTACA
1 GTCCCAGACATGGTCTTACA
88189635 CGATAATTTA
Statistics
Matches: 86, Mismatches: 11, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
41 4 0.05
42 28 0.33
43 20 0.23
44 27 0.31
45 7 0.08
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACATTAAATTCAAATCGATGCCTGT
Found at i:88189643 original size:44 final size:43
Alignment explanation
Indices: 88189486--88189642 Score: 135
Period size: 44 Copynumber: 3.7 Consensus size: 43
88189476 CAATGCCGAC
* * * *
88189486 GTCCCAGACGTGGTCTTACATG-TAATTCAGTATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACGATAATTCA-AATCGATGCCTGT
* * * * *
88189529 GTCCCAGACAGGGTCTTATATGAGAA--CAGATACGATG-CTGAT
1 GTCCCAGACATGGTCTTACACGATAATTCAAAT-CGATGCCTG-T
*
88189571 GTCCCAGACATGGTCTTACAC-TTAAATTTCAAATCGATGCCTGT
1 GTCCCAGACATGGTCTTACACGAT-AA-TTCAAATCGATGCCTGT
*
88189615 GTCCCAGACACGGTCTTACACGATAATT
1 GTCCCAGACATGGTCTTACACGATAATT
88189643 TAGATCAATA
Statistics
Matches: 91, Mismatches: 14, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
41 4 0.04
42 28 0.31
43 21 0.23
44 30 0.33
45 8 0.09
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGATAATTCAAATCGATGCCTGT
Found at i:88191109 original size:93 final size:93
Alignment explanation
Indices: 88190987--88191196 Score: 339
Period size: 93 Copynumber: 2.3 Consensus size: 93
88190977 TGTTTCAACT
* * * *
88190987 AGGATTTAGCCTGGACTGGTAATAATAATTGACTGGATTTAGCCTAGACTGGTAATCTAGATTTG
1 AGGATTTAGCCTGGACTGGTAATCATAATTGACTAGATTTAGCCTAGACTGGTAATCCAAATTTG
88191052 ACTCTATAGGGAATTCTCTGTCATATAA
66 ACTCTATAGGGAATTCTCTGTCATATAA
* * * *
88191080 AGGATTTAGCCTAGACTAGTAATCTTAATTGACTAGATTTAGCCTGGACTGGTAATCCAAATTTG
1 AGGATTTAGCCTGGACTGGTAATCATAATTGACTAGATTTAGCCTAGACTGGTAATCCAAATTTG
*
88191145 ACTCTATAGGGAATTCTTTGTCATATAA
66 ACTCTATAGGGAATTCTCTGTCATATAA
88191173 AGGATTTAGCCTGGACTGGTAATC
1 AGGATTTAGCCTGGACTGGTAATC
88191197 CGACAAAGCC
Statistics
Matches: 106, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 106 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (93 bp):
AGGATTTAGCCTGGACTGGTAATCATAATTGACTAGATTTAGCCTAGACTGGTAATCCAAATTTG
ACTCTATAGGGAATTCTCTGTCATATAA
Found at i:88191359 original size:2 final size:2
Alignment explanation
Indices: 88191352--88191383 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
88191342 TCAATGGATA
88191352 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
88191384 GACATGAGAA
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:88198652 original size:21 final size:21
Alignment explanation
Indices: 88198594--88198654 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
88198584 AGGCACTTTA
88198594 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGT-TTT-AGGCACCTCG
* * *
88198617 TGTGTCATATCAGGCACCTCG
1 TGTGTCGTTTTAGGCACCTCG
88198638 TGTGTCGTTTTAGGCAC
1 TGTGTCGTTTTAGGCAC
88198655 TTTATGTGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 24 0.75
22 1 0.03
23 7 0.22
ACGTcount: A:0.15, C:0.25, G:0.26, T:0.34
Consensus pattern (21 bp):
TGTGTCGTTTTAGGCACCTCG
Found at i:88198662 original size:21 final size:21
Alignment explanation
Indices: 88198584--88198666 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
88198574 TTTACTGATC
* *
88198584 AGGCACTTTATGTGTCGTATTT
1 AGGCACCTCATGTGTCGT-TTT
* * * *
88198606 CAGGCACCTCGTGTGTCATATC
1 -AGGCACCTCATGTGTCGTTTT
*
88198628 AGGCACCTCGTGTGTCGTTTT
1 AGGCACCTCATGTGTCGTTTT
* *
88198649 AGGCACTTTATGTGTCGT
1 AGGCACCTCATGTGTCGT
88198667 ATACTGATCA
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
21 33 0.69
22 1 0.02
23 14 0.29
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.37
Consensus pattern (21 bp):
AGGCACCTCATGTGTCGTTTT
Found at i:88206492 original size:23 final size:23
Alignment explanation
Indices: 88206466--88206540 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 23
88206456 AGGCACTTTA
88206466 TGTGTCGTATTTTAGGCACCTCG
1 TGTGTCGTATTTTAGGCACCTCG
*
88206489 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTTAGGCACCTCG
* **
88206510 TGTGTCG--TTTTAGGCACTTTA
1 TGTGTCGTATTTTAGGCACCTCG
88206531 TGTGTCGTAT
1 TGTGTCGTAT
88206541 ACTGATCAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
21 33 0.77
23 10 0.23
ACGTcount: A:0.13, C:0.20, G:0.27, T:0.40
Consensus pattern (23 bp):
TGTGTCGTATTTTAGGCACCTCG
Found at i:88210775 original size:21 final size:22
Alignment explanation
Indices: 88210749--88210790 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
88210739 TGTCCTTGTT
88210749 TAAAAGTTATG-TGTGGATGTG
1 TAAAAGTTATGATGTGGATGTG
*
88210770 TAAAAGTTATGATGTTGATGT
1 TAAAAGTTATGATGTGGATGT
88210791 AGTGTCTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.31, C:0.00, G:0.29, T:0.40
Consensus pattern (22 bp):
TAAAAGTTATGATGTGGATGTG
Found at i:88213191 original size:50 final size:48
Alignment explanation
Indices: 88213028--88213205 Score: 202
Period size: 50 Copynumber: 3.7 Consensus size: 48
88213018 GGTATAATGC
* *
88213028 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCATC-C-ATCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACAATCGAGT
* * * *
88213075 CGATGCCATGTCCCAGACACGGTCTTACA-TTGACTATCGA-AATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTC-ACAATCGA-GT
* *
88213124 CGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACA-AT-CGAGT
88213174 CGATGCCATGTCCCAGACATGGTCTTACACTA
1 CGATGCCATGTCCCAGACATGGTCTTACACTA
88213206 ACACATCTCG
Statistics
Matches: 109, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
46 4 0.04
47 29 0.27
48 5 0.05
49 33 0.30
50 36 0.33
51 2 0.02
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAATCGAGT
Found at i:88215226 original size:153 final size:153
Alignment explanation
Indices: 88214948--88215246 Score: 508
Period size: 153 Copynumber: 2.0 Consensus size: 153
88214938 GCGCAAAGCC
* * *
88214948 ATACTTACTTTCTAGTTGGACATTTAATTGGATATAAGAAACCCTCATGATCTTTTGAGCTACAC
1 ATACTTACTTTCTAGTTGGACATTTAATTGGACACAAGAAACCCTCATGATCTTTTGAACTACAC
* *
88215013 TAATAACATTTCACAACAGGTGAGAGATCAATTGTACTCTTTCTTTCATTTGACCATCTCTTCTT
66 CAATAACATTTCACAACAGGTAAGAGATCAATTGTACTCTTTCTTTCATTTGACCATCTCTTCTT
88215078 AAAGTACTCATCAATTGAAAGTT
131 AAAGTACTCATCAATTGAAAGTT
*
88215101 ATACTTACTTTCTAGTTGGACATTTAATTGGACACCAGAAACCCTCATGATCTTTTGAACTACAC
1 ATACTTACTTTCTAGTTGGACATTTAATTGGACACAAGAAACCCTCATGATCTTTTGAACTACAC
* *
88215166 CAATAACATTTCACAACATGTAAGAGATCAATTGTACTCTTTCTTTCGTTTGACCATCTCTTCTT
66 CAATAACATTTCACAACAGGTAAGAGATCAATTGTACTCTTTCTTTCATTTGACCATCTCTTCTT
* *
88215231 GAAGTAGTCATCAATT
131 AAAGTACTCATCAATT
88215247 AATCGATTGC
Statistics
Matches: 136, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
153 136 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (153 bp):
ATACTTACTTTCTAGTTGGACATTTAATTGGACACAAGAAACCCTCATGATCTTTTGAACTACAC
CAATAACATTTCACAACAGGTAAGAGATCAATTGTACTCTTTCTTTCATTTGACCATCTCTTCTT
AAAGTACTCATCAATTGAAAGTT
Found at i:88225107 original size:27 final size:27
Alignment explanation
Indices: 88225077--88225216 Score: 133
Period size: 27 Copynumber: 5.2 Consensus size: 27
88225067 ATTACCGTTT
** *
88225077 TACCCTCAATTTACAAAATTACCAAAA
1 TACCCTCGGTTTATAAAATTACCAAAA
* *
88225104 TACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCGGTTTATAAAATTACCAAAA
* *
88225131 TACCC-CTGGTTTGTAAAATTACTAAAA
1 TACCCTC-GGTTTATAAAATTACCAAAA
**
88225158 TACCCTTTGTTTATAAAATTACCAAAA
1 TACCCTCGGTTTATAAAATTACCAAAA
* *
88225185 TACCAAT-GGTTTGA-AAAATTACTAAAA
1 TACC-CTCGGTTT-ATAAAATTACCAAAA
88225212 TACCC
1 TACCC
88225217 CTGTAGGGTA
Statistics
Matches: 92, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
27 90 0.98
28 2 0.02
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.31
Consensus pattern (27 bp):
TACCCTCGGTTTATAAAATTACCAAAA
Found at i:88225135 original size:54 final size:54
Alignment explanation
Indices: 88225079--88225188 Score: 148
Period size: 54 Copynumber: 2.0 Consensus size: 54
88225069 TACCGTTTTA
88225079 CCCTCAATTTACAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATAC
1 CCCT-AATTTACAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATAC
** ** * * *
88225134 CCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATAC
1 CCCTAATTTACAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATAC
88225188 C
1 C
88225189 AATGGTTTGA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
54 44 0.92
55 4 0.08
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.31
Consensus pattern (54 bp):
CCCTAATTTACAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATAC
Found at i:88225195 original size:54 final size:54
Alignment explanation
Indices: 88225091--88225216 Score: 198
Period size: 54 Copynumber: 2.3 Consensus size: 54
88225081 CTCAATTTAC
* ** *
88225091 AAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGT
1 AAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGA
* *
88225145 AAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCAATGGTTTGA
1 AAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGA
88225199 AAAATTACTAAAATACCC
1 AAAATTACTAAAATACCC
88225217 CTGTAGGGTA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (54 bp):
AAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGA
Found at i:88225229 original size:27 final size:27
Alignment explanation
Indices: 88225199--88225260 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
88225189 AATGGTTTGA
88225199 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* * *
88225226 AAAATTACTGAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
88225253 AAAATTAC
1 AAAATTAC
88225261 CATTTTGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGTAGGGT
Found at i:88225229 original size:54 final size:54
Alignment explanation
Indices: 88225091--88225242 Score: 155
Period size: 54 Copynumber: 2.8 Consensus size: 54
88225081 CTCAATTTAC
* ** * ** *
88225091 AAAATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTGGTTTGT
1 AAAATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATACCAATGGTTTGA
* **
88225145 AAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCAATGGTTTGA
1 AAAATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCAATGGTTTGA
* **
88225199 AAAATTACTAAAATACCC-CTGTAGGGTAAAATTACTGAAATACC
1 AAAATTACTAAAATACCCTCTGT-GGATAAAATTACCAAAATACC
88225243 CTTGTGGGGT
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
53 3 0.04
54 81 0.95
55 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (54 bp):
AAAATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCAATGGTTTGA
Found at i:88225245 original size:81 final size:81
Alignment explanation
Indices: 88225086--88225245 Score: 216
Period size: 81 Copynumber: 2.0 Consensus size: 81
88225076 TTACCCTCAA
** **
88225086 TTTACAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATT
1 TTTACAAAATTACCAAAATACCAATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATT
88225151 ACTAAAATACCCTTTG
66 ACTAAAATACCCTTTG
* * *
88225167 TTTATAAAATTACCAAAATACCAATGGTTTGA-AAAATTACTAAAATACCCCT-GTAGGGTAAAA
1 TTTACAAAATTACCAAAATACCAATGGTTT-ATAAAATCACCAAAATACCCCTGGT-GGGTAAAA
*
88225230 TTACTGAAATACCCTT
64 TTACTAAAATACCCTT
88225246 GTGGGGTAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
80 2 0.03
81 66 0.96
82 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (81 bp):
TTTACAAAATTACCAAAATACCAATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATT
ACTAAAATACCCTTTG
Found at i:88225914 original size:28 final size:28
Alignment explanation
Indices: 88225882--88225976 Score: 147
Period size: 28 Copynumber: 3.4 Consensus size: 28
88225872 GTAGATCACG
*
88225882 AAATTACCCCTAAAGAGCAAAATTACTA
1 AAATTACCCCTAAAGAGCAAAATTACCA
*
88225910 AAATTACCCCTAAAGAGCAAAATTACCG
1 AAATTACCCCTAAAGAGCAAAATTACCA
*
88225938 AAATTACCCCTAAATAGCAAAATTACCA
1 AAATTACCCCTAAAGAGCAAAATTACCA
*
88225966 ATA-TACCCCTA
1 AAATTACCCCTA
88225977 GGGTTTAAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
27 8 0.13
28 54 0.87
ACGTcount: A:0.47, C:0.25, G:0.06, T:0.21
Consensus pattern (28 bp):
AAATTACCCCTAAAGAGCAAAATTACCA
Found at i:88230225 original size:45 final size:41
Alignment explanation
Indices: 88230124--88230225 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 41
88230114 TTGTTTACTC
* * *
88230124 ATTTTCTTTTTAGTATTATAGTTTTCATTTATTATTTTCTT
1 ATTTTATTTTTAGTATTATAGTTTTCATTGATTATTTTCCT
88230165 ATTTTATTATTTAGTATTATAGTTGTT-ATTGATTATTTCAATCCT
1 ATTTTATT-TTTAGTATTATAGTT-TTCATTGATTATTT---TCCT
88230210 ATTATTATTTTTAGTA
1 ATT-TTATTTTTAGTA
88230226 CTGTTAATTC
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
41 7 0.13
42 25 0.48
43 2 0.04
45 13 0.25
46 5 0.10
ACGTcount: A:0.25, C:0.06, G:0.07, T:0.63
Consensus pattern (41 bp):
ATTTTATTTTTAGTATTATAGTTTTCATTGATTATTTTCCT
Found at i:88240292 original size:8 final size:8
Alignment explanation
Indices: 88240279--88240322 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
88240269 TATATTTCCT
88240279 TTTTTTTC
1 TTTTTTTC
88240287 TTTTTTTC
1 TTTTTTTC
*
88240295 TTTCTTTC
1 TTTTTTTC
88240303 TTTCTTTT-
1 TTT-TTTTC
88240311 TTTTTTT-
1 TTTTTTTC
88240318 TTTTT
1 TTTTT
88240323 CTGAAATGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
7 9 0.27
8 21 0.64
9 3 0.09
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTTC
Found at i:88240298 original size:12 final size:12
Alignment explanation
Indices: 88240278--88240316 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
88240268 TTATATTTCC
88240278 TTTTT-TTTCTT
1 TTTTTCTTTCTT
88240289 TTTTTCTTTCTT
1 TTTTTCTTTCTT
*
88240301 TCTTTCTTT-TT
1 TTTTTCTTTCTT
88240312 TTTTT
1 TTTTT
88240317 TTTTTTCTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 11 0.44
12 14 0.56
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTTTCTTTCTT
Found at i:88245797 original size:44 final size:44
Alignment explanation
Indices: 88245734--88245821 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
88245724 TGATAAAATA
88245734 AAATCCTAAGTGTCTAGCCTTCATCTTTTTCACCTATTCTTTCT
1 AAATCCTAAGTGTCTAGCCTTCATCTTTTTCACCTATTCTTTCT
88245778 AAATCCTAAGTGTCTAGCCTTCATCTTTTTCACCTATTCTTTCT
1 AAATCCTAAGTGTCTAGCCTTCATCTTTTTCACCTATTCTTTCT
88245822 TCCTAACCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.20, C:0.27, G:0.07, T:0.45
Consensus pattern (44 bp):
AAATCCTAAGTGTCTAGCCTTCATCTTTTTCACCTATTCTTTCT
Found at i:88246777 original size:46 final size:47
Alignment explanation
Indices: 88246626--88246844 Score: 161
Period size: 46 Copynumber: 4.7 Consensus size: 47
88246616 TCACTTGTAT
* * * *
88246626 GAGCTAGTGTAAGACATGTCTTGGACATG-CATCGGCGA-C-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGACATCGGC-ATCGA-GACGA
* *
88246672 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACATGACATCGGCATCGAGACGA
* * * * * *
88246720 GTGCTAATGTAAGACATGTCTGGGAC-TTACTTCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGACATCGGCATCGAGACG-A
*
88246767 -AGCCAGTGTAAGACATGTCTAGGACATG-CATCGGC-TAC-A-A-GA
1 GAGCCAGTGTAAGACATGTCTGGGACATGACATCGGCAT-CGAGACGA
* * *
88246809 TGTGTCAGTGTAAGACCATGTCTGGGACATGGCATC
1 -GAGCCAGTGTAAGA-CATGTCTGGGACATGACATC
88246845 AGCACAAATA
Statistics
Matches: 140, Mismatches: 22, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 12 0.09
45 16 0.11
46 59 0.42
47 29 0.21
48 21 0.15
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (47 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGACATCGGCATCGAGACGA
Found at i:88260632 original size:13 final size:13
Alignment explanation
Indices: 88260614--88260644 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
88260604 AAAACCTTGC
88260614 CACACGGGTAGAT
1 CACACGGGTAGAT
88260627 CACACGGGTAGAT
1 CACACGGGTAGAT
88260640 CACAC
1 CACAC
88260645 ACCCGTGTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.29, G:0.26, T:0.13
Consensus pattern (13 bp):
CACACGGGTAGAT
Found at i:88270095 original size:40 final size:40
Alignment explanation
Indices: 88270030--88270123 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 40
88270020 CCAACTCCGT
* *
88270030 CCAACCCAACACACC--ATGTGGGGATAAAATTGACCCAC
1 CCAACCCTACACACCAAATATGGGGATAAAATTGACCCAC
* *
88270068 CCATCCCTACACACCAAATATGGGGATAAAATTGACCCAT
1 CCAACCCTACACACCAAATATGGGGATAAAATTGACCCAC
*
88270108 CTAACCCTACACACCA
1 CCAACCCTACACACCA
88270124 TAAAGTACCC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
38 13 0.27
40 35 0.73
ACGTcount: A:0.37, C:0.35, G:0.12, T:0.16
Consensus pattern (40 bp):
CCAACCCTACACACCAAATATGGGGATAAAATTGACCCAC
Found at i:88271798 original size:48 final size:48
Alignment explanation
Indices: 88271727--88272096 Score: 388
Period size: 48 Copynumber: 7.7 Consensus size: 48
88271717 TATGTGTGCT
88271727 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAGAGCC
*
88271775 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAGAGCC
* * * ** * * *
88271823 AATGTAAGACCATGTCTGGGACATGACATCGACGTTGA-TATGTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCAT-ATTATGAGAGCC
* * * *
88271871 AGTATAAGACCATGTCTGGGACATGGCATCGACCACATTATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAGAGCC
* *
88271919 AGTGTAAGACCATGTCTGGGACATGGTATCGGCC-TCAATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCAT-ATTATGAGAGCC
* * * * ** * * *
88271967 AGTGTAAGACTATGTTTGGAACATGGCA-CCGATATTGTTAT-ATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-TATTATGA-GAGCC
* ** **
88272015 AGTGTAAGACCATGTTTGGGACATGGCATCAACACCGATGTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CATAT-TATGAGAGCC
*
88272065 AGTGTAAGACCATGTCCGGGACATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
88272097 TATTTTACCC
Statistics
Matches: 262, Mismatches: 50, Indels: 18
0.79 0.15 0.05
Matches are distributed among these distances:
47 4 0.02
48 219 0.84
49 4 0.02
50 34 0.13
51 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAGAGCC
Found at i:88271973 original size:144 final size:144
Alignment explanation
Indices: 88271712--88272096 Score: 542
Period size: 144 Copynumber: 2.7 Consensus size: 144
88271702 AAGACATTTG
* *
88271712 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAGAGCCAG
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCCAG
*
88271777 TGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAATGTAAGACCATGTCTGG
66 TGTAAGACCATGTCTGGGACATGGCATCGGCCACAATATGAGAGCCAATGTAAGACCATGTCTGG
* *
88271842 GACATGACATCGAC
131 AACATGACACCGAC
* *
88271856 GTTGATATGTGTGCTAGTATAAGACCATGTCTGGGACATGGCATCGACCACATTATGTGAGCCAG
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCCAG
* * * * *
88271921 TGTAAGACCATGTCTGGGACATGGTATCGGCCTCAATATGAGAGCCAGTGTAAGACTATGTTTGG
66 TGTAAGACCATGTCTGGGACATGGCATCGGCCACAATATGAGAGCCAATGTAAGACCATGTCTGG
* *
88271986 AACATGGCACCGAT
131 AACATGACACCGAC
* * *
88272000 ATTGTTATATGTGT-C-AGTGTAAGACCATGTTTGGGACATGGCATC-AACACCGATGTATGAGA
1 GTTG--ATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCA-C-AT-TATGAGA
*
88272062 GCCAGTGTAAGACCATGTCCGGGACATGGCATCGG
61 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
88272097 TATTTTACCC
Statistics
Matches: 215, Mismatches: 21, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
143 3 0.01
144 162 0.75
145 3 0.01
146 47 0.22
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (144 bp):
GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCCAG
TGTAAGACCATGTCTGGGACATGGCATCGGCCACAATATGAGAGCCAATGTAAGACCATGTCTGG
AACATGACACCGAC
Found at i:88274998 original size:12 final size:12
Alignment explanation
Indices: 88274969--88275002 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
88274959 AAAGTGTGTT
88274969 CATTTTGA-GGA
1 CATTTTGAGGGA
*
88274980 CAGTTTGAGGGA
1 CATTTTGAGGGA
88274992 CATTTTGAGGG
1 CATTTTGAGGG
88275003 TTTTTATTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.24, C:0.09, G:0.35, T:0.32
Consensus pattern (12 bp):
CATTTTGAGGGA
Found at i:88278067 original size:24 final size:25
Alignment explanation
Indices: 88278040--88278096 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
88278030 ATTTTAATTC
* *
88278040 TTTTGTTTTC-CTAAAATTCTTTTA
1 TTTTCTTTTCTCTAAAATTATTTTA
* *
88278064 TTTTCTTTTCTCTAACATTATTTTT
1 TTTTCTTTTCTCTAAAATTATTTTA
88278089 TTGTTCTT
1 TT-TTCTT
88278097 CTTTCTCTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 9 0.33
25 13 0.48
26 5 0.19
ACGTcount: A:0.16, C:0.14, G:0.04, T:0.67
Consensus pattern (25 bp):
TTTTCTTTTCTCTAAAATTATTTTA
Found at i:88285982 original size:2 final size:2
Alignment explanation
Indices: 88285975--88286004 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
88285965 CTTATTCTTC
88285975 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
88286005 GTAAACATGT
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:88291510 original size:24 final size:24
Alignment explanation
Indices: 88291478--88291684 Score: 342
Period size: 24 Copynumber: 8.6 Consensus size: 24
88291468 TATCTCAAAT
*
88291478 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
88291502 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
88291526 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
88291550 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
88291574 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
88291598 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
* *
88291622 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
* *
88291646 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
88291670 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
88291685 ACATAATAAG
Statistics
Matches: 177, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 177 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:88299248 original size:24 final size:24
Alignment explanation
Indices: 88299216--88299446 Score: 381
Period size: 24 Copynumber: 9.6 Consensus size: 24
88299206 TATCTCAAAT
*
88299216 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
*
88299240 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
88299264 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
88299288 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
88299312 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
88299336 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
88299360 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
* *
88299384 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
* *
88299408 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
88299432 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
88299447 ACATAATAAG
Statistics
Matches: 201, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 201 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:88305519 original size:20 final size:20
Alignment explanation
Indices: 88305476--88305552 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
88305466 ATTTCATGTT
* * *
88305476 TTTTTTAGTATATTCTCATA
1 TTTTTTGGTATACTCTCAGA
*
88305496 -TTTTTGGTATACTCTTAGA
1 TTTTTTGGTATACTCTCAGA
* * *
88305515 TTTTTTGATATTCTCTCATA
1 TTTTTTGGTATACTCTCAGA
*
88305535 TTTTTTGGTATACCCTCA
1 TTTTTTGGTATACTCTCA
88305553 AAATTGTTGA
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
19 15 0.33
20 30 0.67
ACGTcount: A:0.21, C:0.14, G:0.09, T:0.56
Consensus pattern (20 bp):
TTTTTTGGTATACTCTCAGA
Found at i:88305563 original size:40 final size:39
Alignment explanation
Indices: 88305489--88305565 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 39
88305479 TTTAGTATAT
* * * * *
88305489 TCTCATATTTTTGGTATACTCTTAGATTTTTTGATATTC
1 TCTCATATTTTTGGTATACCCTCAAAATTGTTGATATTC
88305528 TCTCATATTTTTTGGTATACCCTCAAAATTGTTGATAT
1 TCTCATA-TTTTTGGTATACCCTCAAAATTGTTGATAT
88305566 AGTTTCAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
39 7 0.22
40 25 0.78
ACGTcount: A:0.23, C:0.14, G:0.10, T:0.52
Consensus pattern (39 bp):
TCTCATATTTTTGGTATACCCTCAAAATTGTTGATATTC
Found at i:88305756 original size:20 final size:20
Alignment explanation
Indices: 88305733--88305817 Score: 59
Period size: 20 Copynumber: 4.3 Consensus size: 20
88305723 TCCCTCACAA
88305733 TTTTTGGTATTTGCTCATAT
1 TTTTTGGTATTTGCTCATAT
** *
88305753 TTTTTGGTAACT-CTCATGT
1 TTTTTGGTATTTGCTCATAT
* * * *
88305772 TTTTTTG-ATATACTCAGATT
1 TTTTTGGTATTTGCTCATA-T
*
88305792 TTTTTGGTATCTTG-TCATAA
1 TTTTTGGTAT-TTGCTCATAT
88305812 TTTTTG
1 TTTTTG
88305818 ATATCCCGTC
Statistics
Matches: 48, Mismatches: 13, Indels: 8
0.70 0.19 0.12
Matches are distributed among these distances:
18 2 0.04
19 16 0.33
20 23 0.48
21 6 0.12
22 1 0.02
ACGTcount: A:0.18, C:0.11, G:0.14, T:0.58
Consensus pattern (20 bp):
TTTTTGGTATTTGCTCATAT
Found at i:88305778 original size:237 final size:237
Alignment explanation
Indices: 88305315--88305784 Score: 549
Period size: 237 Copynumber: 2.0 Consensus size: 237
88305305 AAACTTTCAT
** * * *** *
88305315 AATTGTTAATATAGTTTCATTATTAGAATTTGGTAAGATATATAATTTTAAGCTAAAATTTTGTG
1 AATTGTTAATATAGTTTCAAAATTAGAATTTAGTAAGAGATAT-ATCAAAAACTAAAATTTTGT-
* * *
88305380 AGAGATAAACTAAATTTAATCATAATTTTTTAAAAATGAAATTTATATAAACTAACAAATTTCTT
64 AGAGATAAACTAAATTTAATCATAATTTTTTAAAAATAAAATTTAAATAAACTAACAAATTTCCT
* * * * *
88305445 AATATGAACCAAAATTGGTACATTTCATGTTTTTTTTAGTATATTCTCATATTTTTGGTATACTC
129 AATATGAACCAAAATTGGTACATATCATGTTTTTATGAGTATATCCTCAAATTTTTGGTATACTC
* * *
88305510 TTAGATTTTTTGATATTCTCTCATATTTTTTGGTATACCCTCAA
194 TCAGATTTTTTGATATACTCTCATATTTTTTGATATACCCTCAA
*
88305554 AATTGTTGATATAGTTTCAAAATTAGAATTTAGTAAGAGATAT-TCAAAAACATAAAATTTTGT-
1 AATTGTTAATATAGTTTCAAAATTAGAATTTAGTAAGAGATATATCAAAAAC-TAAAATTTTGTA
* * * *
88305617 GAGATAAAGTAAATTTAATTATAAATTTTTTAAAAAATAAAATTTAAATAAATTAAGAAATTTCC
65 GAGATAAACTAAATTTAATCAT-AATTTTTT-AAAAATAAAATTTAAATAAACTAACAAATTTCC
*
88305682 TAATATGAACC-AAATTGGTGCATATCATGTTTTTATGA-TA-ATCCCTCACAATTTTTGGTAT-
128 TAATATGAACCAAAATTGGTACATATCATGTTTTTATGAGTATAT-CCTCA-AATTTTTGGTATA
* * * *
88305743 TTGCTCATATTTTTTGGTA-ACTCTCATGTTTTTTTGATATAC
191 CT-CTCAGATTTTTTGATATACTCTCAT-ATTTTTTGATATAC
88305785 TCAGATTTTT
Statistics
Matches: 195, Mismatches: 29, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
235 2 0.01
236 34 0.17
237 71 0.36
238 50 0.26
239 38 0.19
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.44
Consensus pattern (237 bp):
AATTGTTAATATAGTTTCAAAATTAGAATTTAGTAAGAGATATATCAAAAACTAAAATTTTGTAG
AGATAAACTAAATTTAATCATAATTTTTTAAAAATAAAATTTAAATAAACTAACAAATTTCCTAA
TATGAACCAAAATTGGTACATATCATGTTTTTATGAGTATATCCTCAAATTTTTGGTATACTCTC
AGATTTTTTGATATACTCTCATATTTTTTGATATACCCTCAA
Found at i:88305835 original size:40 final size:41
Alignment explanation
Indices: 88305747--88305881 Score: 104
Period size: 40 Copynumber: 3.4 Consensus size: 41
88305737 TGGTATTTGC
* * *
88305747 TCATATTTTTTGGTA-ACTCTCATGTTTTTTTGATATA--C-
1 TCATATTTTTTGGTAGTCTCTCAT-ATATTTTGATATACCCG
* *
88305785 TCAGATTTTTTTGGTA-TCTTGTCATA-ATTTTTGATAT-CCCG
1 TCATA-TTTTTTGGTAGTC-TCTCATATA-TTTTGATATACCCG
* * *
88305826 TCATGTTTTTAGGTAGTCTCTCATATATTTTGATATACCCT
1 TCATATTTTTTGGTAGTCTCTCATATATTTTGATATACCCG
*
88305867 TTATATTTTTTGGTA
1 TCATATTTTTTGGTA
88305882 CACATTCATG
Statistics
Matches: 75, Mismatches: 13, Indels: 15
0.73 0.13 0.15
Matches are distributed among these distances:
38 4 0.05
39 20 0.27
40 30 0.40
41 21 0.28
ACGTcount: A:0.21, C:0.13, G:0.13, T:0.53
Consensus pattern (41 bp):
TCATATTTTTTGGTAGTCTCTCATATATTTTGATATACCCG
Found at i:88315112 original size:26 final size:26
Alignment explanation
Indices: 88315078--88315142 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
88315068 TGGCTATACA
*
88315078 CAGC-TCCTAATTAAAGGCTCTTTGT
1 CAGCTTCCTAATTAAAAGCTCTTTGT
*
88315103 CAGCTTCCTAATTAAAAGTTCTTTGT
1 CAGCTTCCTAATTAAAAGCTCTTTGT
* * *
88315129 GAACTTCCTGATTA
1 CAGCTTCCTAATTA
88315143 TGGCTCTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 4 0.12
26 30 0.88
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (26 bp):
CAGCTTCCTAATTAAAAGCTCTTTGT
Found at i:88318307 original size:19 final size:19
Alignment explanation
Indices: 88318283--88318380 Score: 137
Period size: 19 Copynumber: 5.2 Consensus size: 19
88318273 AATCTTTAAG
*
88318283 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
*
88318302 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
*
88318321 -A-ATACAATCTTAGATAT
1 GATATGCAATCTTAGATAT
88318338 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
88318357 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
88318378 GAT
1 GAT
88318381 CTTGTAATCT
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
17 14 0.19
18 2 0.03
19 47 0.65
21 9 0.12
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:88318334 original size:36 final size:38
Alignment explanation
Indices: 88318283--88318380 Score: 128
Period size: 36 Copynumber: 2.6 Consensus size: 38
88318273 AATCTTTAAG
* *
88318283 GATATGCAATATTAGATATGATATGCAATATTAGATAT
1 GATATACAATCTTAGATATGATATGCAATATTAGATAT
*
88318321 -A-ATACAATCTTAGATATGATATGCAATCTTAGATAT
1 GATATACAATCTTAGATATGATATGCAATATTAGATAT
*
88318357 GATATGCAATCTTGAAGATATGAT
1 GATATACAATCTT--AGATATGAT
88318381 CTTGTAATCT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
36 32 0.62
37 2 0.04
38 9 0.17
40 9 0.17
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (38 bp):
GATATACAATCTTAGATATGATATGCAATATTAGATAT
Found at i:88320576 original size:6 final size:6
Alignment explanation
Indices: 88320547--88320616 Score: 86
Period size: 6 Copynumber: 11.7 Consensus size: 6
88320537 ATATTGCAAG
* * * *
88320547 TTTTCG TTTTCG TTTTCA TTTTCA TTTTCA TTTCCA TTTCCA TTTTCA
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA
* *
88320595 TTTCCA TTTTCA TTTCCA TTTT
1 TTTTCA TTTTCA TTTTCA TTTT
88320617 TGGAAACCTA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 57 1.00
ACGTcount: A:0.13, C:0.21, G:0.03, T:0.63
Consensus pattern (6 bp):
TTTTCA
Found at i:88322821 original size:45 final size:44
Alignment explanation
Indices: 88322704--88322822 Score: 134
Period size: 43 Copynumber: 2.7 Consensus size: 44
88322694 GGTTTCATAA
* *
88322704 ATAAAATCTGCCACTGGGCTGTGGATACACAGAAAAAATTCGTAG
1 ATAAAATCTGCCACTGGGCTGT-GATGCACAGAAAAAATTCGCAG
* * *
88322749 ATGAAATTTGCCACTGGGCTG-GATGCACAG-CAAAATATCGCAG
1 ATAAAATCTGCCACTGGGCTGTGATGCACAGAAAAAAT-TCGCAG
* *
88322792 ATAAAATCTGTCACTAGGCTGTAGATGCACA
1 ATAAAATCTGCCACTGGGCTGT-GATGCACA
88322823 ACATTATTGC
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
42 5 0.08
43 30 0.48
45 27 0.44
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (44 bp):
ATAAAATCTGCCACTGGGCTGTGATGCACAGAAAAAATTCGCAG
Found at i:88323022 original size:138 final size:136
Alignment explanation
Indices: 88322774--88323060 Score: 364
Period size: 138 Copynumber: 2.1 Consensus size: 136
88322764 GGGCTGGATG
* * *
88322774 CACAGCAAAATATCGCAGATAAAATCTGTCACTAGGCTGTAGATGCACAACATTATTGCAGGTAA
1 CACAGCAAAATATCGCAGATAAAATCTGACACTAGGCTGTAAATGCAAAACATTATTGCAGGTAA
* * *
88322839 AATTTGTCAAAGGGTTATGGATGTATAGCAATTTTTTAGTTAAAGGATAAACACTACCACTAGGC
66 AATTTGT-AAA-GGTTATGGATGTACAGCAAATTTGTAGTTAAAGGATAAACACTACCACTAGGC
*
88322904 TGTGGGAA
129 TATGGGAA
* *
88322912 CACAGCAAAATATCGTAGATAAAATTTGACACTAGGCTGTAAATGCAAAACATTATTGCAGGTAA
1 CACAGCAAAATATCGCAGATAAAATCTGACACTAGGCTGTAAATGCAAAACATTATTGCAGGTAA
* * *
88322977 AAGCTATTG-ATAA-GTTGTGGATGTACA-CTAAATTTGTATTTAAAGGATAAACACTGCCACTA
66 AA--T-TTGTA-AAGGTTATGGATGTACAGC-AAATTTGTAGTTAAAGGATAAACACTACCACTA
* *
88323039 TGCTATGGGTA
126 GGCTATGGGAA
88323050 CACAGCAAAAT
1 CACAGCAAAAT
88323061 GTGTAAATAA
Statistics
Matches: 130, Mismatches: 14, Indels: 10
0.84 0.09 0.06
Matches are distributed among these distances:
137 1 0.01
138 122 0.94
139 1 0.01
140 3 0.02
141 3 0.02
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (136 bp):
CACAGCAAAATATCGCAGATAAAATCTGACACTAGGCTGTAAATGCAAAACATTATTGCAGGTAA
AATTTGTAAAGGTTATGGATGTACAGCAAATTTGTAGTTAAAGGATAAACACTACCACTAGGCTA
TGGGAA
Found at i:88323582 original size:84 final size:85
Alignment explanation
Indices: 88323480--88323674 Score: 209
Period size: 84 Copynumber: 2.3 Consensus size: 85
88323470 CTTTAGGGTC
* * * ** * *
88323480 AAAATTGTAAAGTTTGAAAAAATAAGGGCAAAACTATAGAATCTAA-AAATTAGGGGAAAATTGT
1 AAAATTGTAAAATCTGAAAAAATAAGGGCAAAACTATAAAATCTAAGAAACGAAGGCAAAATTGT
* *
88323544 AAAATTTGAGAAACCGAGGT
66 AAAATTTGAAAAACAGAGGT
* * *
88323564 AAAATTATAAAATCTG-AAAAAT-AGGAGGAAAACTATAAAATCTAAGAAACGAAGGCAAATTTG
1 AAAATTGTAAAATCTGAAAAAATAAGG-GCAAAACTATAAAATCTAAGAAACGAAGGCAAAATTG
* *
88323627 TAAAATTTGAAAAATAGGGGT
65 TAAAATTTGAAAAACAGAGGT
* *
88323648 AAAAATGTTAAATCT-AAAAAATAAGGG
1 AAAATTGTAAAATCTGAAAAAATAAGGG
88323675 AAATTTGTAA
Statistics
Matches: 90, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
82 3 0.03
83 23 0.26
84 61 0.68
85 3 0.03
ACGTcount: A:0.53, C:0.06, G:0.18, T:0.23
Consensus pattern (85 bp):
AAAATTGTAAAATCTGAAAAAATAAGGGCAAAACTATAAAATCTAAGAAACGAAGGCAAAATTGT
AAAATTTGAAAAACAGAGGT
Found at i:88323584 original size:56 final size:55
Alignment explanation
Indices: 88323506--88323664 Score: 160
Period size: 56 Copynumber: 2.9 Consensus size: 55
88323496 AAAAAATAAG
* * * * *
88323506 GGCAAAACTATAGAATCT-AAAAATTAGGGGAAAATTGTAAAATTTGAGAAACCG-A
1 GGCAAAATTATAAAATCTGAAAAA-TAGGGGAAAAATGTAAAATCTAAGAAA-CGAA
* * *
88323561 GGTAAAATTATAAAATCTGAAAAATAGGAGGAAAACTATAAAATCTAAGAAACGAA
1 GGCAAAATTATAAAATCTGAAAAATAGG-GGAAAAATGTAAAATCTAAGAAACGAA
* * * *
88323617 GGCAAATTTGTAAAATTTGAAAAATAGGGGTAAAAATGTTAAATCTAA
1 GGCAAAATTATAAAATCTGAAAAATAGGGG-AAAAATGTAAAATCTAA
88323665 AAAATAAGGG
Statistics
Matches: 86, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
55 23 0.27
56 63 0.73
ACGTcount: A:0.52, C:0.07, G:0.18, T:0.23
Consensus pattern (55 bp):
GGCAAAATTATAAAATCTGAAAAATAGGGGAAAAATGTAAAATCTAAGAAACGAA
Found at i:88323595 original size:28 final size:28
Alignment explanation
Indices: 88323509--88323606 Score: 85
Period size: 28 Copynumber: 3.5 Consensus size: 28
88323499 AAATAAGGGC
*
88323509 AAAACTATAGAATCT-AAAAATTAGG-GG
1 AAAACTATAAAATCTGAAAAA-TAGGAGG
* * * * **
88323536 AAAATTGTAAAATTTGAGAAA-CCGAGG
1 AAAACTATAAAATCTGAAAAATAGGAGG
*
88323563 TAAAATTATAAAATCTGAAAAATAGGAGG
1 -AAAACTATAAAATCTGAAAAATAGGAGG
88323592 AAAACTATAAAATCT
1 AAAACTATAAAATCT
88323607 AAGAAACGAA
Statistics
Matches: 54, Mismatches: 13, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
26 1 0.02
27 13 0.24
28 36 0.67
29 4 0.07
ACGTcount: A:0.53, C:0.07, G:0.16, T:0.23
Consensus pattern (28 bp):
AAAACTATAAAATCTGAAAAATAGGAGG
Found at i:88323698 original size:56 final size:55
Alignment explanation
Indices: 88323571--88323732 Score: 168
Period size: 56 Copynumber: 2.9 Consensus size: 55
88323561 GGTAAAATTA
* * * ** *
88323571 TAAAATCTGAAAAAT-AGGAGGAAAACTATAAAATCTAAGAAACGAAGGCAAATTTG
1 TAAAATTTGAAAAATAAGG-GAAAAACTGTAAAATCTAA-AAAATAAGGGAAATTTG
* *
88323627 TAAAATTTGAAAAATAGGGGTAAAAA-TGTTAAATCTAAAAAATAAGGGAAATTTG
1 TAAAATTTGAAAAATAAGGG-AAAAACTGTAAAATCTAAAAAATAAGGGAAATTTG
*
88323682 T-AAATTTTAATTAAATAAGGGAAAAACTGTAAAATCTAAAAAAATAAGGGA
1 TAAAATTTGAA--AAATAAGGGAAAAACTGTAAAATCT-AAAAAATAAGGGA
88323733 CACACAATCG
Statistics
Matches: 89, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
54 8 0.09
55 20 0.22
56 42 0.47
57 19 0.21
ACGTcount: A:0.54, C:0.05, G:0.17, T:0.24
Consensus pattern (55 bp):
TAAAATTTGAAAAATAAGGGAAAAACTGTAAAATCTAAAAAATAAGGGAAATTTG
Found at i:88323726 original size:29 final size:28
Alignment explanation
Indices: 88323636--88323732 Score: 97
Period size: 28 Copynumber: 3.4 Consensus size: 28
88323626 GTAAAATTTG
* *
88323636 AAAAATAGGGGTAAAAATGTTAAATCT-A
1 AAAAATAAGGG-AAAAATGTAAAATCTAA
** * *
88323664 AAAAATAAGGGAAATTTGTAAATTTTAA
1 AAAAATAAGGGAAAAATGTAAAATCTAA
**
88323692 TTAAATAAGGGAAAAACTGTAAAATCTAA
1 AAAAATAAGGGAAAAA-TGTAAAATCTAA
88323721 AAAAATAAGGGA
1 AAAAATAAGGGA
88323733 CACACAATCG
Statistics
Matches: 53, Mismatches: 14, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
27 10 0.19
28 23 0.43
29 20 0.38
ACGTcount: A:0.56, C:0.03, G:0.16, T:0.25
Consensus pattern (28 bp):
AAAAATAAGGGAAAAATGTAAAATCTAA
Found at i:88324896 original size:27 final size:26
Alignment explanation
Indices: 88324866--88324951 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 26
88324856 TTAAGAATGT
88324866 TATTAAATTATATATTTTTTTAAATA
1 TATTAAATTATATATTTTTTTAAATA
* * * *
88324892 GTATTTAATAATA-ATTATGTTAAAATA
1 -TATTAAATTATATATT-TTTTTAAATA
* *
88324919 TAATTAAAATATTTATTTTTCTTAAATTA
1 T-ATTAAATTATATATTTTT-TTAAA-TA
88324948 TATT
1 TATT
88324952 TAATAATAAT
Statistics
Matches: 44, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
26 4 0.09
27 27 0.61
28 10 0.23
29 3 0.07
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.53
Consensus pattern (26 bp):
TATTAAATTATATATTTTTTTAAATA
Found at i:88324899 original size:55 final size:55
Alignment explanation
Indices: 88324822--88324977 Score: 181
Period size: 55 Copynumber: 2.8 Consensus size: 55
88324812 ATATATTATG
* * * * *
88324822 ATTTTTATTAATTTATATTTTAATAATAATTATATTAAGAATGTTATTAAATTATAT
1 ATTTTTCTTAAATTATA-TTTAATAATAATTATATTAA-AATATAATTAAAATATAT
* *
88324879 ATTTTT-TTAAA-TAGTATTTAATAATAATTATGTTAAAATATAATTAAAATATTT
1 ATTTTTCTTAAATTA-TATTTAATAATAATTATATTAAAATATAATTAAAATATAT
** *
88324933 ATTTTTCTTAAATTATATTTAATAATAATCCTATTAAAATTTAAT
1 ATTTTTCTTAAATTATATTTAATAATAATTATATTAAAATATAAT
88324978 AATAATAACA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
54 20 0.23
55 52 0.60
56 8 0.09
57 6 0.07
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (55 bp):
ATTTTTCTTAAATTATATTTAATAATAATTATATTAAAATATAATTAAAATATAT
Found at i:88330979 original size:44 final size:46
Alignment explanation
Indices: 88330918--88331005 Score: 112
Period size: 44 Copynumber: 2.0 Consensus size: 46
88330908 TACAACATCT
*
88330918 ATTCCATTCAACTAAACACA-AGAA-TACT-ATTACAACTCTATTCC
1 ATTCCATTCAACCAAACA-ATAGAATTACTAATTACAACTCTATTCC
*
88330962 ATTCCA-TCAAACCAAACAATTGAATTACTAATTACAACTCTATT
1 ATTCCATTC-AACCAAACAATAGAATTACTAATTACAACTCTATT
88331006 ATATTACAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
43 3 0.08
44 17 0.45
45 4 0.11
46 14 0.37
ACGTcount: A:0.42, C:0.25, G:0.02, T:0.31
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAATAGAATTACTAATTACAACTCTATTCC
Found at i:88331519 original size:18 final size:18
Alignment explanation
Indices: 88331496--88331533 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
88331486 CAGAGCAGGG
88331496 AAAGAAAAAAAAAAGAAA
1 AAAGAAAAAAAAAAGAAA
* *
88331514 AAAGAAAAAGAAAGGAAA
1 AAAGAAAAAAAAAAGAAA
88331532 AA
1 AA
88331534 TAGGGTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (18 bp):
AAAGAAAAAAAAAAGAAA
Found at i:88332953 original size:2 final size:2
Alignment explanation
Indices: 88332946--88332976 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
88332936 TTGGGTATGA
88332946 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
88332977 AGTTTGATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:88334220 original size:12 final size:13
Alignment explanation
Indices: 88334198--88334222 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88334188 TTAGAAATAA
88334198 TTAGAAAAAAAAG
1 TTAGAAAAAAAAG
88334211 TTAGAAAAAAAA
1 TTAGAAAAAAAA
88334223 TTAAATTGGA
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:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (13 bp):
TTAGAAAAAAAAG
Found at i:88336160 original size:22 final size:21
Alignment explanation
Indices: 88336112--88336160 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
88336102 TGTCAATTTT
*
88336112 TTTAAATTTAAAAATAAAGAG
1 TTTAAATTTAAAAATAAAGAA
*
88336133 TCTAAATTCTAAAAATAAA-AA
1 TTTAAATT-TAAAAATAAAGAA
88336154 TATTAAA
1 T-TTAAA
88336161 CTAAATTCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (21 bp):
TTTAAATTTAAAAATAAAGAA
Found at i:88337806 original size:31 final size:31
Alignment explanation
Indices: 88337762--88337841 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 31
88337752 TATGAAGAAT
* *
88337762 TTTTAATTTTTTATATTTTCAAAAGGCTAGCA
1 TTTTAATTATTTATATTTTCAAAAGG-AAGCA
** *
88337794 TTTTAA-TATTTATAAATTCAAAATGAAGCA
1 TTTTAATTATTTATATTTTCAAAAGGAAGCA
88337824 TTTGTAATTATTT-TATTT
1 TTT-TAATTATTTATATTT
88337842 GAATAAATAA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
30 7 0.18
31 21 0.54
32 11 0.28
ACGTcount: A:0.35, C:0.06, G:0.07, T:0.51
Consensus pattern (31 bp):
TTTTAATTATTTATATTTTCAAAAGGAAGCA
Found at i:88337937 original size:19 final size:16
Alignment explanation
Indices: 88337895--88337945 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
88337885 TTTACTAATT
88337895 AAAAAATAATTATAAA
1 AAAAAATAATTATAAA
*
88337911 AAAGAATAATTATATTAA
1 AAAAAATAATTATA--AA
88337929 AAATAAATAA-TATAAA
1 AAA-AAATAATTATAAA
88337945 A
1 A
88337946 TATTCAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
16 16 0.53
18 9 0.30
19 5 0.17
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (16 bp):
AAAAAATAATTATAAA
Found at i:88338541 original size:14 final size:14
Alignment explanation
Indices: 88338522--88338549 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
88338512 ATATTAAACC
88338522 TATATATATACACA
1 TATATATATACACA
88338536 TATATATATACACA
1 TATATATATACACA
88338550 CATTTTGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (14 bp):
TATATATATACACA
Found at i:88338543 original size:16 final size:16
Alignment explanation
Indices: 88338522--88338552 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
88338512 ATATTAAACC
*
88338522 TATATATATACACATA
1 TATATATACACACATA
88338538 TATATATACACACAT
1 TATATATACACACAT
88338553 TTTGACTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.35
Consensus pattern (16 bp):
TATATATACACACATA
Found at i:88346886 original size:20 final size:20
Alignment explanation
Indices: 88346848--88346886 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
88346838 TTGCACCTCC
*
88346848 TTTTCTTTTATTCTTTTTCT
1 TTTTCTTTTATTCTATTTCT
88346868 TTTTCTTTT-TTCTGATTTC
1 TTTTCTTTTATTCT-ATTTC
88346887 ATCGTTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.05, C:0.15, G:0.03, T:0.77
Consensus pattern (20 bp):
TTTTCTTTTATTCTATTTCT
Found at i:88349039 original size:6 final size:6
Alignment explanation
Indices: 88349028--88349055 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
88349018 TAAAGATTTA
88349028 TTTGTG TTTGTG TTTGTG TTTGTG TTTG
1 TTTGTG TTTGTG TTTGTG TTTGTG TTTG
88349056 AGGTAGACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (6 bp):
TTTGTG
Found at i:88350536 original size:18 final size:18
Alignment explanation
Indices: 88350513--88350548 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
88350503 CTCACATTTT
88350513 CAACCCTAACCCTAAACC
1 CAACCCTAACCCTAAACC
* *
88350531 CAACCCTATCCTTAAACC
1 CAACCCTAACCCTAAACC
88350549 AAATATCCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.47, G:0.00, T:0.17
Consensus pattern (18 bp):
CAACCCTAACCCTAAACC
Found at i:88352846 original size:16 final size:16
Alignment explanation
Indices: 88352821--88352862 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
88352811 ATAAGCACCA
*
88352821 GCACAAAGCCTGCTAG
1 GCACATAGCCTGCTAG
*
88352837 GCACATAGCCTGTTAG
1 GCACATAGCCTGCTAG
88352853 GCACATAGCC
1 GCACATAGCC
88352863 CGAATAATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.29, C:0.31, G:0.24, T:0.17
Consensus pattern (16 bp):
GCACATAGCCTGCTAG
Found at i:88352847 original size:39 final size:39
Alignment explanation
Indices: 88352738--88352848 Score: 134
Period size: 39 Copynumber: 2.8 Consensus size: 39
88352728 ATTTTCAATA
* * *
88352738 CACCAGCATATAGTCTGCTAGGCACATAGCCCGAATAGT
1 CACCAGCATAAAGCCTGCTAGGCACATAGCCTGAATAGT
* * * *
88352777 CACCGGCATAAAGCTTGCTAAGTACATAGCCTGAATAAG-
1 CACCAGCATAAAGCCTGCTAGGCACATAGCCTGAAT-AGT
*
88352816 CACCAGCACAAAGCCTGCTAGGCACATAGCCTG
1 CACCAGCATAAAGCCTGCTAGGCACATAGCCTG
88352849 TTAGGCACAT
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
39 57 0.97
40 2 0.03
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.18
Consensus pattern (39 bp):
CACCAGCATAAAGCCTGCTAGGCACATAGCCTGAATAGT
Found at i:88352879 original size:39 final size:39
Alignment explanation
Indices: 88352836--88352952 Score: 180
Period size: 39 Copynumber: 3.0 Consensus size: 39
88352826 AAGCCTGCTA
* * *
88352836 GGCACATAGCCTGTTAGGCACATAGCCCGAATAATCATC
1 GGCACAAAGCCTGTTAGGCACATAGCCCAAATAATCACC
*
88352875 GGCACAAAGCCTATTAGGCACATAGCCCAAATAATCACC
1 GGCACAAAGCCTGTTAGGCACATAGCCCAAATAATCACC
* *
88352914 GGCACAAAGCCTGCTAGGCACATAGCCCAAATAGTCACC
1 GGCACAAAGCCTGTTAGGCACATAGCCCAAATAATCACC
88352953 ATATTTTTAT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.34, C:0.31, G:0.19, T:0.16
Consensus pattern (39 bp):
GGCACAAAGCCTGTTAGGCACATAGCCCAAATAATCACC
Found at i:88352919 original size:94 final size:94
Alignment explanation
Indices: 88352747--88352940 Score: 262
Period size: 94 Copynumber: 2.1 Consensus size: 94
88352737 ACACCAGCAT
* * * * * * **
88352747 ATAGTCTGCTAGGCACATAGCCCGAATAGTCACCGGCATAAAGCTTGCTAAGTACATAGCCTGAA
1 ATAGCCTGCTAGGCACATAGCCCGAATAATCACCGGCACAAAGCCTACTAAGCACATAGCCCAAA
88352812 TAAGCACCAGCACAAAGCCTGCTAGGCAC
66 TAAGCACCAGCACAAAGCCTGCTAGGCAC
* * * *
88352841 ATAGCCTGTTAGGCACATAGCCCGAATAATCATCGGCACAAAGCCTATTAGGCACATAGCCCAAA
1 ATAGCCTGCTAGGCACATAGCCCGAATAATCACCGGCACAAAGCCTACTAAGCACATAGCCCAAA
* *
88352906 TAATCACCGGCACAAAGCCTGCTAGGCAC
66 TAAGCACCAGCACAAAGCCTGCTAGGCAC
88352935 ATAGCC
1 ATAGCC
88352941 CAAATAGTCA
Statistics
Matches: 86, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
94 86 1.00
ACGTcount: A:0.34, C:0.29, G:0.20, T:0.18
Consensus pattern (94 bp):
ATAGCCTGCTAGGCACATAGCCCGAATAATCACCGGCACAAAGCCTACTAAGCACATAGCCCAAA
TAAGCACCAGCACAAAGCCTGCTAGGCAC
Found at i:88358685 original size:12 final size:12
Alignment explanation
Indices: 88358668--88358693 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
88358658 GAGTATGTAC
88358668 CATTAATATTAT
1 CATTAATATTAT
88358680 CATTAATATTAT
1 CATTAATATTAT
88358692 CA
1 CA
88358694 AAATCTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (12 bp):
CATTAATATTAT
Found at i:88362903 original size:27 final size:27
Alignment explanation
Indices: 88362868--88362922 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
88362858 TTTTATTGTC
88362868 TAAGCCGCATTTATCATATAGGTTTTG
1 TAAGCCGCATTTATCATATAGGTTTTG
88362895 TAAGCCGCATTTATCATATAGGTTTTG
1 TAAGCCGCATTTATCATATAGGTTTTG
88362922 T
1 T
88362923 GCATCGGTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (27 bp):
TAAGCCGCATTTATCATATAGGTTTTG
Found at i:88364899 original size:13 final size:15
Alignment explanation
Indices: 88364870--88364905 Score: 58
Period size: 13 Copynumber: 2.5 Consensus size: 15
88364860 TGTAGTGTTT
88364870 TTTTTATAAATTATA
1 TTTTTATAAATTATA
88364885 TTTTTA-AAATT-TA
1 TTTTTATAAATTATA
88364898 TTTTTATA
1 TTTTTATA
88364906 TAAAAACAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 8 0.40
14 6 0.30
15 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTTTATAAATTATA
Found at i:88366278 original size:21 final size:22
Alignment explanation
Indices: 88366237--88366287 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
88366227 ACCATTGTTT
** *
88366237 TTTTTTTCCTCCATTTTTTCCC
1 TTTTTTTCCTCCATTAATTCCA
88366259 TTTTTTTCC-CCATTAATTCCA
1 TTTTTTTCCTCCATTAATTCCA
88366280 TTATTTTT
1 TT-TTTTT
88366288 ACTAGTGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.12, C:0.25, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTTTTTCCTCCATTAATTCCA
Found at i:88369568 original size:41 final size:41
Alignment explanation
Indices: 88369523--88369604 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
88369513 TCAGCTACTG
88369523 TTATGAAATTTCATTTTGTTTGTTTTAGGTCAGATTTTATA
1 TTATGAAATTTCATTTTGTTTGTTTTAGGTCAGATTTTATA
*
88369564 TTATGAAATTTCATTTTGTTTGTTTTAGGTCGGATTTTATA
1 TTATGAAATTTCATTTTGTTTGTTTTAGGTCAGATTTTATA
88369605 CAAGGAAAGC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.23, C:0.05, G:0.16, T:0.56
Consensus pattern (41 bp):
TTATGAAATTTCATTTTGTTTGTTTTAGGTCAGATTTTATA
Found at i:88373167 original size:105 final size:105
Alignment explanation
Indices: 88373021--88373441 Score: 456
Period size: 104 Copynumber: 4.0 Consensus size: 105
88373011 ATATTTTTAT
* * * * * *
88373021 ATATAATATATTGATTGATGCACACTT-CAAGGAGGGAATGATTTTTGAAGTTCTAGATATTGTT
1 ATATAATATATTGGTAGATGCACA-TTGCAAGAAGGGAATGATTTCTGAAGCTCAAGATATTGTT
* * *
88373085 AACACAATGGGAAAGCAAGGCATCGAGCCTGATGTTGTCAC
65 GACACAATGAGAAAGCAAGGCATTGAGCCTGATGTTGTCAC
* * * *
88373126 ATATAGTATATTGGTAGATGCATATTGCAAGAAGGGAATGATTTCTAAAGCTGAAGATATTGTTG
1 ATATAATATATTGGTAGATGCACATTGCAAGAAGGGAATGATTTCTGAAGCTCAAGATATTGTTG
** * *
88373191 ACAGTATGAAAAAGCTAGGCATTGAGCCTGATGTTGTCAC
66 ACACAATGAGAAAGCAAGGCATTGAGCCTGATGTTGTCAC
* * * * * *
88373231 ATATAACATATTGGTTA-ATGCGCATTGCAAGGAGGGAATGGTTCCT-AAGCTGAAGATATTGTT
1 ATATAATATATTGG-TAGATGCACATTGCAAGAAGGGAATGATTTCTGAAGCTCAAGATATTGTT
* * * *
88373294 GACACGATGAGAAAGCAAGGTATTGAGCCTGACGTTGACAC
65 GACACAATGAGAAAGCAAGGCATTGAGCCTGATGTTGTCAC
* * * * * * *
88373335 -TCATAGTATATTGGTTGATGCACATTGAAAGAAGGGGATGGTTT-TGAAGCACCAGATATTGTT
1 AT-ATAATATATTGGTAGATGCACATTGCAAGAAGGGAATGATTTCTGAAGCTCAAGATATTGTT
* *
88373398 GACACAATGAGAAAGCAAGGCATTGAGCCTAAAGTTGTCAC
65 GACACAATGAGAAAGCAAGGCATTGAGCCTGATGTTGTCAC
88373439 ATA
1 ATA
88373442 CAACACTCTT
Statistics
Matches: 263, Mismatches: 47, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
103 3 0.01
104 136 0.52
105 122 0.46
106 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.29
Consensus pattern (105 bp):
ATATAATATATTGGTAGATGCACATTGCAAGAAGGGAATGATTTCTGAAGCTCAAGATATTGTTG
ACACAATGAGAAAGCAAGGCATTGAGCCTGATGTTGTCAC
Found at i:88381166 original size:48 final size:48
Alignment explanation
Indices: 88381058--88381282 Score: 308
Period size: 48 Copynumber: 4.7 Consensus size: 48
88381048 ATGTGTAACC
* * * *
88381058 GTGTAAGACCATATCTGGGATATGACATCGGCATTGTTATGTG-GCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTACGTGAGCCA
* * *
88381105 GTGTAAGACCATGTTTGGGACATGGCATTGACATTGTTACGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTACGTGAGCCA
* * *
88381153 ATGTAAGACCATGTCTGGAACATGGCATCGGCATTGTTACGTGAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTACGTGAGCCA
* * *
88381201 GTGTAATACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTACGTGAGCCA
* *
88381249 GTGTAAGACCATGTCTAGGACATGACATCGGCAT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCAT
88381283 GAGGCATCGT
Statistics
Matches: 155, Mismatches: 22, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
47 36 0.23
48 119 0.77
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTACGTGAGCCA
Found at i:88384908 original size:19 final size:20
Alignment explanation
Indices: 88384876--88384915 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
88384866 ATCTTTTCTG
88384876 AGTATTCTGAGTATATATTC
1 AGTATTCTGAGTATATATTC
88384896 AGTATTC-GAGTATATATTC
1 AGTATTCTGAGTATATATTC
88384915 A
1 A
88384916 TTCATCCTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (20 bp):
AGTATTCTGAGTATATATTC
Found at i:88385180 original size:44 final size:44
Alignment explanation
Indices: 88385117--88385205 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
88385107 ATTTTACTAG
88385117 ATGTTGTTCTATCTATATAAATAATTGGAATGTGTCTTAATACA
1 ATGTTGTTCTATCTATATAAATAATTGGAATGTGTCTTAATACA
*
88385161 ATGTTGTTCTGTCTATATAAATAATTGGAATGTGTCTTAATACA
1 ATGTTGTTCTATCTATATAAATAATTGGAATGTGTCTTAATACA
88385205 A
1 A
88385206 GAATGTAAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.43
Consensus pattern (44 bp):
ATGTTGTTCTATCTATATAAATAATTGGAATGTGTCTTAATACA
Found at i:88385196 original size:23 final size:23
Alignment explanation
Indices: 88385128--88385197 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
88385118 TGTTGTTCTA
88385128 TCTATATAAATAATTGGAATGTG
1 TCTATATAAATAATTGGAATGTG
* * *
88385151 TCT-TAATACAAT-GTT-G-TTCTG
1 TCTAT-ATA-AATAATTGGAATGTG
88385172 TCTATATAAATAATTGGAATGTG
1 TCTATATAAATAATTGGAATGTG
88385195 TCT
1 TCT
88385198 TAATACAAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
20 3 0.09
21 11 0.31
22 4 0.11
23 14 0.40
24 3 0.09
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.43
Consensus pattern (23 bp):
TCTATATAAATAATTGGAATGTG
Found at i:88387208 original size:48 final size:48
Alignment explanation
Indices: 88387148--88387404 Score: 361
Period size: 48 Copynumber: 5.3 Consensus size: 48
88387138 TAGGACTATA
* * *
88387148 TCTGGGATATGGCATCAGCTTTGCTATGTGAGCCAGTGTAAGACCATG
1 TCTGGGACATGGCATCAGCATTGTTATGTGAGCCAGTGTAAGACCATG
*
88387196 TCTGGGACATGGCATCAGCATTGTTATGTGAGCCAGTGTAACACCCATG
1 TCTGGGACATGGCATCAGCATTGTTATGTGAGCCAGTGTAAGA-CCATG
* * * * * *
88387245 TCTAGGACATGGTATCGGTATTGTTACGTGAGCCAGTGTAATACCATG
1 TCTGGGACATGGCATCAGCATTGTTATGTGAGCCAGTGTAAGACCATG
* * * *
88387293 TCTGGGACATGGCATCGGCATCGTTACGTGAGCCAGTGTAAGACCATA
1 TCTGGGACATGGCATCAGCATTGTTATGTGAGCCAGTGTAAGACCATG
* *
88387341 TCTGGGACATGGCATCAGCATCGTTATGTGAGCCAGAGTAAGACCATG
1 TCTGGGACATGGCATCAGCATTGTTATGTGAGCCAGTGTAAGACCATG
88387389 TCTGGGACATGGCATC
1 TCTGGGACATGGCATC
88387405 GGATGAGGCA
Statistics
Matches: 188, Mismatches: 20, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
48 146 0.78
49 42 0.22
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (48 bp):
TCTGGGACATGGCATCAGCATTGTTATGTGAGCCAGTGTAAGACCATG
Found at i:88387435 original size:41 final size:43
Alignment explanation
Indices: 88387378--88387488 Score: 104
Period size: 44 Copynumber: 2.6 Consensus size: 43
88387368 GTGAGCCAGA
*
88387378 GTAAGACCAT-GTCTGGGACATGGCATCG-GATGAG-GCATCGT
1 GTAAGACCATAG-CTGGGACATGGCATCGAGATGAGAGCATCAT
* ***
88387419 GTAAGACCATAGCTGGG-CTATTGGCATCGATATGAGATTTTCAT
1 GTAAGACCATAGCTGGGAC-A-TGGCATCGAGATGAGAGCATCAT
* *
88387463 GTAAGACCATATCTGGGACATCGCAT
1 GTAAGACCATAGCTGGGACATGGCAT
88387489 TGGTACGATA
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
40 1 0.02
41 16 0.28
42 9 0.16
43 10 0.18
44 20 0.35
45 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (43 bp):
GTAAGACCATAGCTGGGACATGGCATCGAGATGAGAGCATCAT
Found at i:88391275 original size:131 final size:131
Alignment explanation
Indices: 88391041--88391342 Score: 365
Period size: 131 Copynumber: 2.3 Consensus size: 131
88391031 AATGATTGGA
* * * * * *
88391041 AAATCAGGTAACACAAATGAGATTGTTCATGATATTGAATAGAATGAACTTAGGTTGTGATATTA
1 AAATCAGCTAACTCAAATAAGATTGTTCATGATATTAAATAGAATGAACTTAGGTTGTCAAATTA
* * * * ** **
88391106 AATTAATGAACTTTAATGATATCAGCTGCGATATTAAATCAGTGAGCTGTTTGGTGTAGCGATAT
66 AATTAATGAACCTTAACGATATCAACTACGATATTAAATCAACGAGCTGTTTGAAGTAGCGATAT
88391171 T
131 T
* *
88391172 AAATCAGCTAACTCAAATAAGATTGTTCATGATATTAAATCGAATGAACTTAGGTTG-CAAATTT
1 AAATCAGCTAACTCAAATAAGATTGTTCATGATATTAAATAGAATGAACTTAGGTTGTCAAATTA
* * * *
88391236 AATTCA-GCAAACCTTACCGATATCAACTACGATCTTAAATCAACGAGCTGTTTGAAGTAGTGAT
66 AATTAATG--AACCTTAACGATATCAACTACGATATTAAATCAACGAGCTGTTTGAAGTAGCGAT
*
88391300 CTT
129 ATT
*
88391303 AAATCATCTAACTCAAATAAGATTGTTCATGATATATAAA
1 AAATCAGCTAACTCAAATAAGATTGTTCATGATAT-TAAA
88391343 GTAAAATATA
Statistics
Matches: 146, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
129 1 0.01
130 9 0.06
131 132 0.90
132 4 0.03
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (131 bp):
AAATCAGCTAACTCAAATAAGATTGTTCATGATATTAAATAGAATGAACTTAGGTTGTCAAATTA
AATTAATGAACCTTAACGATATCAACTACGATATTAAATCAACGAGCTGTTTGAAGTAGCGATAT
T
Found at i:88394655 original size:31 final size:32
Alignment explanation
Indices: 88394620--88394682 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
88394610 ATCCGAATAT
88394620 TATGTTATAA-AATAATAATATAT-TAATTATA
1 TATGTTA-AATAATAATAATATATATAATTATA
* *
88394651 TATGTTAAATAATAATCATATATATATTTATA
1 TATGTTAAATAATAATAATATATATAATTATA
88394683 CTTATATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 2 0.07
31 19 0.68
32 7 0.25
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (32 bp):
TATGTTAAATAATAATAATATATATAATTATA
Found at i:88394845 original size:39 final size:40
Alignment explanation
Indices: 88394792--88394882 Score: 103
Period size: 39 Copynumber: 2.2 Consensus size: 40
88394782 AAAATTTATA
* * *
88394792 TTTAATACAATAAAATATATATTATATATAT-TTGTGTTT
1 TTTAATATAATAAAACATATATTATATATATGTAGTGTTT
* * *
88394831 TTTAATATAGTAAAACATTTATTATATTTATGGTAGTGTTT
1 TTTAATATAATAAAACATATATTATATATAT-GTAGTGTTT
88394872 TATTAATATAA
1 T-TTAATATAA
88394883 ATACTTTTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
39 26 0.62
41 8 0.19
42 8 0.19
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.51
Consensus pattern (40 bp):
TTTAATATAATAAAACATATATTATATATATGTAGTGTTT
Found at i:88408980 original size:42 final size:40
Alignment explanation
Indices: 88408901--88408980 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 40
88408891 AGGTTTTTGC
* *
88408901 ACACAGGCTAGGACACGGGCATTTCATGGCCGTGTGAAGG
1 ACACAGGCCAGGACACAGGCATTTCATGGCCGTGTGAAGG
88408941 ACACAGGCCAGGGACACAGGCATGTGTCA-GGCCGTGTGAA
1 ACACAGGCCA-GGACACAGGCAT-T-TCATGGCCGTGTGAA
88408981 AACTCCTGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 9 0.26
41 11 0.31
42 12 0.34
43 3 0.09
ACGTcount: A:0.26, C:0.24, G:0.35, T:0.15
Consensus pattern (40 bp):
ACACAGGCCAGGACACAGGCATTTCATGGCCGTGTGAAGG
Found at i:88412571 original size:105 final size:105
Alignment explanation
Indices: 88412400--88412605 Score: 290
Period size: 105 Copynumber: 2.0 Consensus size: 105
88412390 TCACGTATAA
* * *
88412400 TATATTGATAGATGCACATTGCAAGAAGAGGATGATTTCTGAAGCTGTAGATACTGTTGATGCAA
1 TATATTGATAGATGCACATTGCAAGAAGAGGATGATTTCTAAAGCTGAAGATACTGTTGATACAA
*
88412465 TGAGAAAGCAAGGCATTGAACCTAATGTTGTCACATTCAG
66 TGAGAAAGAAAGGCATTGAACCTAATGTTGTCACATTCAG
* * * *
88412505 TATATTGGTTGATGCACATTGC-A-AAGAGGGAATGGTTTCTAAAGCTGAAGATATTGTTGATAC
1 TATATTGATAGATGCACATTGCAAGAAGA-GG-ATGATTTCTAAAGCTGAAGATACTGTTGATAC
* *
88412568 AATGAGAAAGAAAGGCATTGAGCCTGATGTTGTCACAT
64 AATGAGAAAGAAAGGCATTGAACCTAATGTTGTCACAT
88412606 ATAATGCATT
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
103 4 0.04
104 3 0.03
105 82 0.92
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (105 bp):
TATATTGATAGATGCACATTGCAAGAAGAGGATGATTTCTAAAGCTGAAGATACTGTTGATACAA
TGAGAAAGAAAGGCATTGAACCTAATGTTGTCACATTCAG
Found at i:88420423 original size:33 final size:33
Alignment explanation
Indices: 88420338--88420525 Score: 87
Period size: 33 Copynumber: 5.6 Consensus size: 33
88420328 TCCTTTGTGT
*
88420338 CATAGTCCAACTATGGTCTTACA-T-ATATGTTGC
1 CATAGCCCAACTATGGTCTTACATTAATA-G-TGC
* *** * * **
88420371 CATGGCCTTGCCATAGTCTTACATTTGTAGTGC
1 CATAGCCCAACTATGGTCTTACATTAATAGTGC
* *
88420404 CATAGCCCAATTATGGTCTTATCATCAGA-A-TGC
1 CATAGCCCAACTATGGTCTTA-CATTA-ATAGTGC
* * * *
88420437 CATAGCCCAGCTATGGCCTTACATATAAACACTGC
1 CATAGCCCAACTATGGTCTTACAT-T-AATAGTGC
* * * * * *
88420472 CATGGTCCAACCATGGTCTTACGTTTATAGTGT
1 CATAGCCCAACTATGGTCTTACATTAATAGTGC
* *
88420505 CATAACCCAATTATGGTCTTA
1 CATAGCCCAACTATGGTCTTA
88420526 TCTATCAATT
Statistics
Matches: 110, Mismatches: 37, Indels: 16
0.67 0.23 0.10
Matches are distributed among these distances:
32 3 0.03
33 75 0.68
34 9 0.08
35 23 0.21
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (33 bp):
CATAGCCCAACTATGGTCTTACATTAATAGTGC
Found at i:88422166 original size:41 final size:41
Alignment explanation
Indices: 88422109--88422186 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
88422099 ATAGTGATAT
88422109 TCGGGCTTTGAGCCTAGCAAGCTT-TATGCTGGTGAATGTAA
1 TCGGGCTTTGAGCCTAGCAAGCTTAT-TGCTGGTGAATGTAA
* *
88422150 TCGGGCTTT-ATGCCTAGCAGGCTTATTGTTGGTGAAT
1 TCGGGCTTTGA-GCCTAGCAAGCTTATTGCTGGTGAAT
88422187 AGTATCAGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 1 0.03
41 31 0.94
42 1 0.03
ACGTcount: A:0.19, C:0.17, G:0.29, T:0.35
Consensus pattern (41 bp):
TCGGGCTTTGAGCCTAGCAAGCTTATTGCTGGTGAATGTAA
Found at i:88422426 original size:50 final size:50
Alignment explanation
Indices: 88422360--88422457 Score: 133
Period size: 50 Copynumber: 2.0 Consensus size: 50
88422350 TCGACCACAT
* * * * *
88422360 AGGTATGTACATATGTGATGTTATATTGGATTTTGAATATTCGGCCATGA
1 AGGTATGCACAAATGTGATATTATATTGGAATTTGAATATTCCGCCATGA
* *
88422410 AGGTATGCACAAATGTGATATTATATTTGAATTTGTATATTCCGCCAT
1 AGGTATGCACAAATGTGATATTATATTGGAATTTGAATATTCCGCCAT
88422458 ATAAGTAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (50 bp):
AGGTATGCACAAATGTGATATTATATTGGAATTTGAATATTCCGCCATGA
Found at i:88423483 original size:2 final size:2
Alignment explanation
Indices: 88423447--88423475 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
88423437 GTTGATTGTG
88423447 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
88423476 GCATATATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:88425410 original size:30 final size:30
Alignment explanation
Indices: 88425376--88425438 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
88425366 ACTTAACAAG
* *
88425376 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAAAAAAATTAA
*
88425406 CAAATACCTTTAAAATAATAAAAAAATTAA
1 CAAATACCTCTAAAATAATAAAAAAATTAA
88425436 CAA
1 CAA
88425439 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAAAAAAATTAA
Found at i:88432277 original size:18 final size:18
Alignment explanation
Indices: 88432254--88432289 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
88432244 CTATATTAAG
88432254 AAAACAAAAAATTTGAGA
1 AAAACAAAAAATTTGAGA
88432272 AAAACAAAAAATTTGAGA
1 AAAACAAAAAATTTGAGA
88432290 TTATTCTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.06, G:0.11, T:0.17
Consensus pattern (18 bp):
AAAACAAAAAATTTGAGA
Found at i:88434080 original size:33 final size:32
Alignment explanation
Indices: 88434037--88434104 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 32
88434027 GTAAGGTTAG
* *
88434037 GTATATTTTGTGTATACCA-TATGGAAAGGAAAT
1 GTATACTTTGTGTATACCACT-TGAAAAGG-AAT
*
88434070 GTATACTTTGTGTGTACCACTTGAAAAGGAAT
1 GTATACTTTGTGTATACCACTTGAAAAGGAAT
88434102 GTA
1 GTA
88434105 CACCTCAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 6 0.19
33 24 0.77
34 1 0.03
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.35
Consensus pattern (32 bp):
GTATACTTTGTGTATACCACTTGAAAAGGAAT
Found at i:88435908 original size:40 final size:40
Alignment explanation
Indices: 88435843--88436023 Score: 249
Period size: 40 Copynumber: 4.5 Consensus size: 40
88435833 CCAAACCAAG
* ** *
88435843 TGCCTTCGGG-CTTTA-ACCGGATATAGCCACTCGCTCAAA
1 TGCCTTCGGGAC-TTAGCCCGGATATAGTAACTCGCACAAA
** *
88435882 TGCCTTCGGGACTTAGCCCGGATATAGTAGTTCGTACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
* * *
88435922 TGTCTTTGAGACTTAGCCCGGATATAGTAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
88435962 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
88436002 TGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAGCCCGGA
88436024 ATTATCATCC
Statistics
Matches: 124, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 13 0.10
40 111 0.90
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
Found at i:88443225 original size:40 final size:40
Alignment explanation
Indices: 88443178--88443342 Score: 244
Period size: 40 Copynumber: 4.1 Consensus size: 40
88443168 CGGGCTTTAA
* *
88443178 CCGGATATAGCCACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
* *
88443218 CCGGATATAGT-AGTTCGCACAAATGTCTTCGGGACTTAGC
1 CCGGATATAGTCA-CTCGCACAAATGCCTTCGGGACTTAGC
*
88443258 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
*
88443298 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTCACTCGCACAAATGCCTTCGGGACTTAGC
88443338 CCGGA
1 CCGGA
88443343 ATTATCATCC
Statistics
Matches: 114, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
39 2 0.02
40 111 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:88445035 original size:15 final size:15
Alignment explanation
Indices: 88445015--88445045 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
88445005 AAAAGGAAAG
88445015 AATTTCTACAATTAA
1 AATTTCTACAATTAA
*
88445030 AATTTCTAGAATTAA
1 AATTTCTACAATTAA
88445045 A
1 A
88445046 GCAGGGGAAT
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:0.48, C:0.10, G:0.03, T:0.39
Consensus pattern (15 bp):
AATTTCTACAATTAA
Found at i:88449354 original size:16 final size:17
Alignment explanation
Indices: 88449322--88449354 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
88449312 TGAATTCTAG
*
88449322 TAGTTATAAGGATTAAA
1 TAGTTATAAGAATTAAA
88449339 TAGTTAT-AGAATTAAA
1 TAGTTATAAGAATTAAA
88449355 AGTGAGAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
TAGTTATAAGAATTAAA
Found at i:88450483 original size:33 final size:32
Alignment explanation
Indices: 88450441--88450554 Score: 104
Period size: 33 Copynumber: 3.4 Consensus size: 32
88450431 TACCCAAGTG
* *
88450441 GTACAACTTGAAAAAGGTTATGTACACTTTGTGT
1 GTAC-ACTTG-AAAAGGTTAGGTATACTTTGTGT
** *
88450475 GTACACTTGGTAAGGTTAGGTATATTTTGTGT
1 GTACACTTGAAAAGGTTAGGTATACTTTGTGT
* **
88450507 ATAC-CATATGAAAAGGAAAGGTATACTTTGTGT
1 GTACAC-T-TGAAAAGGTTAGGTATACTTTGTGT
88450540 GTACCACTTGAAAAG
1 GTA-CACTTGAAAAG
88450555 CAATGTACAC
Statistics
Matches: 64, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
31 1 0.02
32 22 0.34
33 34 0.53
34 6 0.09
35 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (32 bp):
GTACACTTGAAAAGGTTAGGTATACTTTGTGT
Found at i:88456954 original size:22 final size:22
Alignment explanation
Indices: 88456929--88456970 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
88456919 TAGTCATATA
88456929 ATAAATTATTAATATAATAAAC
1 ATAAATTATTAATATAATAAAC
* * *
88456951 ATAATTTATTATTTTAATAA
1 ATAAATTATTAATATAATAA
88456971 TTTATTTAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAC
Found at i:88457008 original size:13 final size:14
Alignment explanation
Indices: 88456992--88457033 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
88456982 TTTCAATTTT
88456992 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
88457005 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
88457020 ATTTTAAATAATAT
1 ATTTT-AATAATAT
88457034 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:88457018 original size:16 final size:16
Alignment explanation
Indices: 88456996--88457032 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
88456986 AATTTTATTT
88456996 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
88457013 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
88457028 TAATA
1 TAATA
88457033 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Done.