Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 270 of 332
Found at i:90335743 original size:22 final size:22
Alignment explanation
Indices: 90335675--90335763 Score: 83
Period size: 22 Copynumber: 4.0 Consensus size: 22
90335665 GATACTTTTA
90335675 ATGTGGTGTAATATTAGTTATGC
1 ATGTGGTGTAATATTAGTTAT-C
** *
90335698 ACT-TGG-ACAATATTGTTGTTATC
1 A-TGTGGTGTAATA-T-TAGTTATC
90335721 ATGTGGTGTAATATTAGTTATC
1 ATGTGGTGTAATATTAGTTATC
* *
90335743 ATATAGTGTAATATTAGTTAT
1 ATGTGGTGTAATATTAGTTAT
90335764 GCACTTGGAT
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
22 31 0.58
23 11 0.21
24 11 0.21
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.45
Consensus pattern (22 bp):
ATGTGGTGTAATATTAGTTATC
Found at i:90335776 original size:22 final size:21
Alignment explanation
Indices: 90335683--90335776 Score: 50
Period size: 22 Copynumber: 4.2 Consensus size: 21
90335673 TAATGTGGTG
90335683 TAATATTAGTTATGCACT-TGGA
1 TAATATTAGTTAT-CA-TATGGA
* * * *
90335705 CAATATTGTTGTTATCATGTGGTG
1 TAATA-T-TAGTTATCATATGG-A
90335729 TAATATTAGTTATCATATAGTG-
1 TAATATTAGTTATCATAT-G-GA
90335751 TAATATTAGTTATGCACT-TGGA
1 TAATATTAGTTAT-CA-TATGGA
90335773 TAAT
1 TAAT
90335777 GTTGTTGTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
21 1 0.02
22 33 0.58
23 11 0.19
24 12 0.21
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (21 bp):
TAATATTAGTTATCATATGGA
Found at i:90335826 original size:68 final size:68
Alignment explanation
Indices: 90335680--90335809 Score: 224
Period size: 68 Copynumber: 1.9 Consensus size: 68
90335670 TTTTAATGTG
* *
90335680 GTGTAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATATTAGTTATCAT
1 GTGTAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAATTATCAT
90335745 ATA
66 ATA
* *
90335748 GTGTAATATTAGTTATGCACTTGGATAATGTTGTTGTTATCATGTGGTGTAATACTAATTAT
1 GTGTAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAATTAT
90335810 GTATTTGGAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 58 1.00
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.45
Consensus pattern (68 bp):
GTGTAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAATTATCAT
ATA
Found at i:90336095 original size:55 final size:60
Alignment explanation
Indices: 90336036--90336153 Score: 183
Period size: 61 Copynumber: 2.0 Consensus size: 60
90336026 ATGTAAAAAT
90336036 AATTTAAAATATAAA-T-TT-AT-TA-ATATATATAAAGTAAACTCAATCAAACAAAGAA
1 AATTTAAAATATAAATTATTAATATATATATATATAAAGTAAACTCAATCAAACAAAGAA
*
90336091 AATTTAAAATATAAATTTATTAATATATATATATATAAAGTAAACTCAATCAAATAAAGAA
1 AATTTAAAATATAAA-TTATTAATATATATATATATAAAGTAAACTCAATCAAACAAAGAA
90336152 AA
1 AA
90336154 GATAATAAAT
Statistics
Matches: 56, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
55 15 0.27
57 1 0.02
58 2 0.04
59 2 0.04
60 2 0.04
61 34 0.61
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.32
Consensus pattern (60 bp):
AATTTAAAATATAAATTATTAATATATATATATATAAAGTAAACTCAATCAAACAAAGAA
Found at i:90336304 original size:15 final size:14
Alignment explanation
Indices: 90336274--90336340 Score: 73
Period size: 14 Copynumber: 4.7 Consensus size: 14
90336264 CCAAAAAAGT
* *
90336274 AAATCATTTTTCAG
1 AAATTATTTTTCAA
90336288 AAATTATTTTTCAA
1 AAATTATTTTTCAA
90336302 GAAATTA-TTTTCTAA
1 -AAATTATTTTTC-AA
*
90336317 AAATTATTTTTTAA
1 AAATTATTTTTCAA
*
90336331 AAAATATTTT
1 AAATTATTTT
90336341 ACCTGAAAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
14 34 0.74
15 12 0.26
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.49
Consensus pattern (14 bp):
AAATTATTTTTCAA
Found at i:90336311 original size:29 final size:29
Alignment explanation
Indices: 90336274--90336340 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
90336264 CCAAAAAAGT
* *
90336274 AAATCATTTTTC-AGAAATTATTTTTCAA
1 AAATTATTTTTCTAAAAATTATTTTTCAA
*
90336302 GAAATTA-TTTTCTAAAAATTATTTTTTAA
1 -AAATTATTTTTCTAAAAATTATTTTTCAA
*
90336331 AAAATATTTT
1 AAATTATTTT
90336341 ACCTGAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 10 0.31
29 22 0.69
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.49
Consensus pattern (29 bp):
AAATTATTTTTCTAAAAATTATTTTTCAA
Found at i:90340765 original size:14 final size:15
Alignment explanation
Indices: 90340748--90340776 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
90340738 GAGTATGGTA
90340748 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
90340762 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
90340777 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:90346231 original size:18 final size:17
Alignment explanation
Indices: 90346184--90346231 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
90346174 ACTCATATTC
*
90346184 AATTGTAAATTTAAGCA
1 AATTGTAAATTTAAGAA
90346201 AATTGTAAATTTAAGAA
1 AATTGTAAATTTAAGAA
*
90346218 AATTTTACAATTTA
1 AATTGTA-AATTTA
90346232 TTCAATTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
17 22 0.79
18 6 0.21
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (17 bp):
AATTGTAAATTTAAGAA
Found at i:90356490 original size:39 final size:40
Alignment explanation
Indices: 90356385--90356592 Score: 235
Period size: 40 Copynumber: 5.2 Consensus size: 40
90356375 TATTCGAATG
* * *
90356385 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
*
90356426 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
*
90356466 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACT
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
90356505 AAATCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * * *
90356545 ATAACCGAGCTATGTCTCGAAGGCATTTGAGCGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
90356585 ATATCCGG
1 ATATCCGG
90356593 TTAAATTCCG
Statistics
Matches: 142, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
39 37 0.26
40 76 0.54
41 28 0.20
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:90356525 original size:79 final size:81
Alignment explanation
Indices: 90356388--90356571 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
90356378 TCGAATGATA
* * *
90356388 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
90356453 TGTGCGAGTTACTAAT
66 TGTGCGAGTTACTAAT
* * **
90356469 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
*
90356531 TTGTGTGAGTTACT-AT
65 TTGTGCGAGTTACTAAT
* * * *
90356547 AACCGAGCTATGTCTCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATT
90356572 TGAGCGAGTA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 48 0.55
80 26 0.30
81 11 0.12
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTAAT
Found at i:90356595 original size:79 final size:77
Alignment explanation
Indices: 90356423--90356606 Score: 192
Period size: 79 Copynumber: 2.3 Consensus size: 77
90356413 GTGCTAAGTG
* * *
90356423 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATACCGAGCTAAGCCCGAAGG
*
90356488 CATTGGTGCGAGTT
64 CATTGGAGCGAGTT
* * * *
90356502 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACT-ATAACCGAGCTATGTCTCGAA
1 ACTATATCC-GGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGAGCTAAG-CCCGAA
*
90356566 GGCATTTGAGCGAG-T
62 GGCATTGGAGCGAGTT
*
90356581 AGCTATATCCGGTTAAATTCCGAAGG
1 A-CTATATCCGGTT-AAGTCCGAAGG
90356607 TATGTGATTC
Statistics
Matches: 88, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
78 3 0.03
79 56 0.64
80 29 0.33
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (77 bp):
ACTATATCCGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAATACCGAGCTAAGCCCGAAGGCA
TTGGAGCGAGTT
Found at i:90359956 original size:136 final size:137
Alignment explanation
Indices: 90359708--90359974 Score: 389
Period size: 136 Copynumber: 2.0 Consensus size: 137
90359698 GAGCCATAAA
* *
90359708 TGGGTTTGCTCACACAAGCTGACGATCGGAATGTAGCTACACAATGCTGCTCACACAAGCTGACT
1 TGGGTTTACTCACACAAGCTGACGATCGGAATGTAGCTACACAATACTGCTCACACAAGCTGACT
* *
90359773 AGTATCCGCAACAAATGTCGAAACTCAACCATCGGTAGGACACTCAGGACCAACACCCTG-AACA
66 AGTATCCGCAACAAATGCCGAAACTCAACCATCGGTAGAACACTCAGGACCAACACCC-GAAACA
90359837 TGGTAACT
130 TGGTAACT
* * *
90359845 TGGGTTTACTCACACAAGTTGA-GGTCGGAATGTAAGCTAC-CGATACTGCTCACACAAGCTGA-
1 TGGGTTTACTCACACAAGCTGACGATCGGAATGT-AGCTACACAATACTGCTCACACAAGCTGAC
* * *
90359907 TAAGTATCCGCAACAAATGCCGAACCTCAACTATCGGTAGAACATTCAGGACCAACACCCGAAAC
65 T-AGTATCCGCAACAAATGCCGAAACTCAACCATCGGTAGAACACTCAGGACCAACACCCGAAAC
90359972 ATG
129 ATG
90359975 AAAACTCTAA
Statistics
Matches: 117, Mismatches: 10, Indels: 7
0.87 0.07 0.05
Matches are distributed among these distances:
135 2 0.02
136 89 0.76
137 26 0.22
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (137 bp):
TGGGTTTACTCACACAAGCTGACGATCGGAATGTAGCTACACAATACTGCTCACACAAGCTGACT
AGTATCCGCAACAAATGCCGAAACTCAACCATCGGTAGAACACTCAGGACCAACACCCGAAACAT
GGTAACT
Found at i:90360837 original size:63 final size:62
Alignment explanation
Indices: 90360749--90360867 Score: 220
Period size: 63 Copynumber: 1.9 Consensus size: 62
90360739 AAAATGGCTT
*
90360749 ACCATGCATGAATTGAAGCATGGATGAAGCTTGAATATGCTTCCATGGAAGTTCGGTGACGA
1 ACCATGCATGAATTGAAGCATGGATGAAGCTTGAATATGCTTCCACGGAAGTTCGGTGACGA
90360811 ACCATGCATGAATTTGAAGCATGGATGAAGCTTGAATATGCTTCCACGGAAGTTCGG
1 ACCATGCATGAA-TTGAAGCATGGATGAAGCTTGAATATGCTTCCACGGAAGTTCGG
90360868 ATGAAGCTTG
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
62 12 0.22
63 43 0.78
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (62 bp):
ACCATGCATGAATTGAAGCATGGATGAAGCTTGAATATGCTTCCACGGAAGTTCGGTGACGA
Found at i:90360875 original size:33 final size:33
Alignment explanation
Indices: 90360833--90360900 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
90360823 TTTGAAGCAT
90360833 GGATGAAGCTTGAATATGCTTCCACGGAAGTTC
1 GGATGAAGCTTGAATATGCTTCCACGGAAGTTC
90360866 GGATGAAGCTTGAATATGCTTCCACGGAAGTTC
1 GGATGAAGCTTGAATATGCTTCCACGGAAGTTC
90360899 GG
1 GG
90360901 TGACGAACCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (33 bp):
GGATGAAGCTTGAATATGCTTCCACGGAAGTTC
Found at i:90361371 original size:16 final size:16
Alignment explanation
Indices: 90361350--90361380 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
90361340 TGTTCATTCA
90361350 AATATAAAAAATTATC
1 AATATAAAAAATTATC
*
90361366 AATATAAAAATTTAT
1 AATATAAAAAATTAT
90361381 TTTAATACTA
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:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
AATATAAAAAATTATC
Found at i:90369663 original size:40 final size:40
Alignment explanation
Indices: 90369619--90369698 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
90369609 ATATGACATG
*
90369619 TTATTAAATCTTATAAGTGTCTATATGGTCTTCTGAATGT
1 TTATTAAATCTTATAAGTGTCTATATAGTCTTCTGAATGT
90369659 TTATTAAATCTTATAAGTGTCTATATAGTCTTCTGAATGT
1 TTATTAAATCTTATAAGTGTCTATATAGTCTTCTGAATGT
90369699 ATATCGTGAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (40 bp):
TTATTAAATCTTATAAGTGTCTATATAGTCTTCTGAATGT
Found at i:90371799 original size:19 final size:19
Alignment explanation
Indices: 90371747--90371802 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
90371737 ATAAATATAA
*
90371747 GTTCAATATAAACTCACAT
1 GTTCAATATAAATTCACAT
** *
90371766 G-T-AA-CCAAATACACAT
1 GTTCAATATAAATTCACAT
90371782 GTTCAATATAAATTCACAT
1 GTTCAATATAAATTCACAT
90371801 GT
1 GT
90371803 AATCGAATGC
Statistics
Matches: 27, Mismatches: 7, Indels: 6
0.68 0.17 0.15
Matches are distributed among these distances:
16 9 0.33
17 3 0.11
18 3 0.11
19 12 0.44
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (19 bp):
GTTCAATATAAATTCACAT
Found at i:90379657 original size:35 final size:35
Alignment explanation
Indices: 90379611--90379682 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
90379601 TCGTATCATA
*
90379611 TTCTAAAAATTGAATGATAAAGTTCCCAAATTGAT
1 TTCTAAAAATTGAACGATAAAGTTCCCAAATTGAT
* *
90379646 TTCTAAAAATTGAACGATGAAGTTCCCGAATTGAT
1 TTCTAAAAATTGAACGATAAAGTTCCCAAATTGAT
90379681 TT
1 TT
90379683 GCCATTCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (35 bp):
TTCTAAAAATTGAACGATAAAGTTCCCAAATTGAT
Found at i:90380296 original size:16 final size:15
Alignment explanation
Indices: 90380275--90380304 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
90380265 ACCAAGACAT
90380275 TTTTTTTTTGTTTTTC
1 TTTTTTTTT-TTTTTC
90380291 TTTTTTTTTTTTTT
1 TTTTTTTTTTTTTT
90380305 GAATTGCTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.00, C:0.03, G:0.03, T:0.93
Consensus pattern (15 bp):
TTTTTTTTTTTTTTC
Found at i:90380876 original size:15 final size:14
Alignment explanation
Indices: 90380849--90380878 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
90380839 TAAATAAATT
90380849 ATTAAAAATAAAAA
1 ATTAAAAATAAAAA
90380863 ATTAAAATATAAAAA
1 ATTAAAA-ATAAAAA
90380878 A
1 A
90380879 GAAACATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
ATTAAAAATAAAAA
Found at i:90384876 original size:15 final size:15
Alignment explanation
Indices: 90384856--90384909 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
90384846 ATACTACAAA
90384856 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
90384871 ATATTTATAATTTTAAT
1 ATATTTAT--TATTAAT
*
90384888 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
90384905 ATATT
1 ATATT
90384910 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 13 0.41
17 11 0.34
19 8 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:90384907 original size:19 final size:17
Alignment explanation
Indices: 90384854--90384903 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
90384844 TTATACTACA
90384854 AAATATTTATTATTAAT
1 AAATATTTATTATTAAT
*
90384871 --ATATTTATAATTTTAAT
1 AAATATTTAT--TATTAAT
90384888 AAATATTTATTATTAA
1 AAATATTTATTATTAA
90384904 AATATTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
15 8 0.30
17 11 0.41
19 8 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AAATATTTATTATTAAT
Found at i:90391362 original size:18 final size:17
Alignment explanation
Indices: 90391324--90391362 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
90391314 GGTTTGAAAA
90391324 TTTTAATTAATTAAATTT
1 TTTTAATTAA-TAAATTT
90391342 TTTTAATTAA-AAATTT
1 TTTTAATTAATAAATTT
90391358 ATTTT
1 -TTTT
90391363 CATTCCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.30
17 4 0.20
18 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTAATTAATAAATTT
Found at i:90391519 original size:29 final size:29
Alignment explanation
Indices: 90391479--90391559 Score: 153
Period size: 29 Copynumber: 2.8 Consensus size: 29
90391469 ACAAAATAAT
90391479 AACATAAGTGACTAAAACGTAACATTTTA
1 AACATAAGTGACTAAAACGTAACATTTTA
90391508 AACATAAGTGACTAAAACGTAACATTTTA
1 AACATAAGTGACTAAAACGTAACATTTTA
*
90391537 AACATAAGTGACTAAAATGTAAC
1 AACATAAGTGACTAAAACGTAAC
90391560 TTGAGGCAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATTTTA
Found at i:90394549 original size:24 final size:25
Alignment explanation
Indices: 90394513--90394560 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
90394503 TCAAACATGC
90394513 ATTTAGGTCAATTTAACCCTAGGGT
1 ATTTAGGTCAATTTAACCCTAGGGT
* * *
90394538 ATTTCGGT-AATTTATCTCTAGGG
1 ATTTAGGTCAATTTAACCCTAGGG
90394561 GTAAAACTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (25 bp):
ATTTAGGTCAATTTAACCCTAGGGT
Found at i:90396069 original size:25 final size:26
Alignment explanation
Indices: 90396035--90396140 Score: 175
Period size: 25 Copynumber: 4.2 Consensus size: 26
90396025 CATGAAATTC
90396035 TTATCAT-GAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
90396060 TTATCAT-GAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
90396085 TTATCATGGAACATTTACCTAA-CC-
1 TTATCATGGAACATTTACCTAACCCA
*
90396109 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
90396135 TTATCA
1 TTATCA
90396141 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
24 22 0.29
25 35 0.45
26 20 0.26
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:90403188 original size:26 final size:26
Alignment explanation
Indices: 90403152--90403261 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
90403142 CATGAAATTC
90403152 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
90403178 TTATCATGAAAAATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
90403204 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
90403230 TTATGATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
90403256 TTATCA
1 TTATCA
90403262 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:90412964 original size:23 final size:24
Alignment explanation
Indices: 90412936--90412981 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
90412926 AAGGAGTTTA
*
90412936 AAGAGCC-ATGTCAGGAAGCTCAT
1 AAGAGCCTATATCAGGAAGCTCAT
*
90412959 AAGAGCCTATATCAGGACGCTCA
1 AAGAGCCTATATCAGGAAGCTCA
90412982 CGAAGAGCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (24 bp):
AAGAGCCTATATCAGGAAGCTCAT
Found at i:90416027 original size:14 final size:14
Alignment explanation
Indices: 90416008--90416039 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
90415998 CAATAGCCAG
90416008 AGATTGGTTTTAAT
1 AGATTGGTTTTAAT
90416022 AGATTGGTTTTAAT
1 AGATTGGTTTTAAT
90416036 AGAT
1 AGAT
90416040 GGGCTATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
AGATTGGTTTTAAT
Found at i:90416713 original size:42 final size:42
Alignment explanation
Indices: 90416654--90416835 Score: 208
Period size: 42 Copynumber: 4.3 Consensus size: 42
90416644 GCTATAACAC
*
90416654 ACGCCGCTAAAGATCGGGACCTTTAGC-AGCGCTTTCCCAGAA
1 ACGCCGCTAAAGATCGGGACCTTTAGCGA-CGCTTTCCCAAAA
*
90416696 ACGCCGCTAAAGATCGGGACCTTTAGCGACGC-TTCCTCAGAA
1 ACGCCGCTAAAGATCGGGACCTTTAGCGACGCTTTCC-CAAAA
* * * *
90416738 ACGCCGCTAAAAATCGTGACCTTTAGCGGCGTTTTCCCCAAAA
1 ACGCCGCTAAAGATCGGGACCTTTAGCGACGCTTT-CCCAAAA
* * * *
90416781 ACGCCGTTAAAAATCGTGA-CTTATAACGACGCTTTCCCAAAA
1 ACGCCGCTAAAGATCGGGACCTT-TAGCGACGCTTTCCCAAAA
*
90416823 ACGCCGTTAAAGA
1 ACGCCGCTAAAGA
90416836 CCATATATAT
Statistics
Matches: 125, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
41 4 0.03
42 85 0.68
43 34 0.27
44 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (42 bp):
ACGCCGCTAAAGATCGGGACCTTTAGCGACGCTTTCCCAAAA
Found at i:90417330 original size:23 final size:23
Alignment explanation
Indices: 90417304--90417407 Score: 172
Period size: 23 Copynumber: 4.5 Consensus size: 23
90417294 CTACACAAAG
90417304 AACATTTAAACACTTCAATTTAC
1 AACATTTAAACACTTCAATTTAC
** *
90417327 AACATTTAAATTCTTCAGTTTAC
1 AACATTTAAACACTTCAATTTAC
90417350 AACATTTAAACACTTCAATTTAC
1 AACATTTAAACACTTCAATTTAC
*
90417373 AGCATTTAAACACTTCAATTTAC
1 AACATTTAAACACTTCAATTTAC
90417396 AACATTTAAACA
1 AACATTTAAACA
90417408 GCAGCAACCA
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 73 1.00
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.36
Consensus pattern (23 bp):
AACATTTAAACACTTCAATTTAC
Found at i:90420636 original size:64 final size:62
Alignment explanation
Indices: 90420562--90420692 Score: 183
Period size: 64 Copynumber: 2.1 Consensus size: 62
90420552 CAGGAAACTA
90420562 GAAAACTAATATAATAG-AAATAAGAAACCCAAACAAAAAAAAATCAAAAATTTCTAAGACGATT
1 GAAAACTAATATAATAGAAAATAAGAAACCC-AA-AAAAAAAAATCAAAAATTT-TAAGACGATT
** ** *
90420626 GAAAACTAATATAATAGAAAATAAGAAACCCAAATTAAAATTTCTAAAATTTTAAGACGATT
1 GAAAACTAATATAATAGAAAATAAGAAACCCAAAAAAAAAAATCAAAAATTTTAAGACGATT
90420688 GAAAA
1 GAAAA
90420693 TTACAGGAAG
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
62 15 0.25
63 14 0.23
64 19 0.31
65 13 0.21
ACGTcount: A:0.59, C:0.11, G:0.08, T:0.22
Consensus pattern (62 bp):
GAAAACTAATATAATAGAAAATAAGAAACCCAAAAAAAAAAATCAAAAATTTTAAGACGATT
Found at i:90421317 original size:24 final size:26
Alignment explanation
Indices: 90421256--90421337 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 26
90421246 AATATTTTCT
* *
90421256 AAAAATTTAAGTAATATTTAAAAGAATTA
1 AAAAATTT-A-TAATATTTTAAATAA-TA
90421285 GATAAAATTT-TAA-ATTTTAAATAATA
1 -A-AAAATTTATAATATTTTAAATAATA
90421311 AAAAATTTATAATTATTTTAAATAATA
1 AAAAATTTATAA-TATTTTAAATAATA
90421338 GTATTTTAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
24 7 0.15
25 4 0.09
26 2 0.04
27 22 0.48
28 3 0.07
30 1 0.02
31 7 0.15
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (26 bp):
AAAAATTTATAATATTTTAAATAATA
Found at i:90421730 original size:21 final size:21
Alignment explanation
Indices: 90421687--90421730 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
90421677 CCTACCACTT
* * *
90421687 AACCCCTACCCCTAAGCCTTA
1 AACCCCAACCCCTAAACCATA
*
90421708 AACCCCAACCCTTAAACCATA
1 AACCCCAACCCCTAAACCATA
90421729 AA
1 AA
90421731 TCATAATCCC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.43, G:0.02, T:0.16
Consensus pattern (21 bp):
AACCCCAACCCCTAAACCATA
Found at i:90421752 original size:15 final size:15
Alignment explanation
Indices: 90421714--90421765 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
90421704 CTTAAACCCC
* *
90421714 AACCCTTAAACCATA
1 AACCCATAATCCATA
* *
90421729 AA-TCATAATCCCTA
1 AACCCATAATCCATA
90421743 AACCCATAATCCATA
1 AACCCATAATCCATA
90421758 AACCCATA
1 AACCCATA
90421766 TTTCATTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
14 10 0.33
15 20 0.67
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:90421837 original size:23 final size:19
Alignment explanation
Indices: 90421790--90421852 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
90421780 TTGTATTTCA
*
90421790 TTTTTATTTGTTATCAATG
1 TTTTTATTTATTATCAATG
90421809 TTTTTATTTATTATCAATG
1 TTTTTATTTATTATCAATG
90421828 TTTTTATTTATTTATCAATG
1 TTTTTATTTA-TTATCAATG
90421848 TTTTT
1 TTTTT
90421853 TAAATCTAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
19 28 0.67
20 14 0.33
ACGTcount: A:0.22, C:0.05, G:0.06, T:0.67
Consensus pattern (19 bp):
TTTTTATTTATTATCAATG
Found at i:90422243 original size:21 final size:22
Alignment explanation
Indices: 90422219--90422269 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
90422209 AAGCCCCAAC
90422219 CCTTAAACCA-TAATACATAAA
1 CCTTAAACCAGTAATACATAAA
** *
90422240 CCTTAAAATAGTAATTCATAAA
1 CCTTAAACCAGTAATACATAAA
90422262 -CTTAAACC
1 CCTTAAACC
90422270 CTTAACCATA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.49, C:0.22, G:0.02, T:0.27
Consensus pattern (22 bp):
CCTTAAACCAGTAATACATAAA
Found at i:90422422 original size:14 final size:13
Alignment explanation
Indices: 90422403--90422446 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
90422393 TAATTAACTA
90422403 AACCCTAAACTCCT
1 AACCCTAAAC-CCT
*
90422417 AACCCTTAACCACT
1 AACCCTAAACC-CT
90422431 AACCCATAAACCCT
1 AACCC-TAAACCCT
90422445 AA
1 AA
90422447 ATCTTAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 1 0.04
14 20 0.77
15 5 0.19
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.18
Consensus pattern (13 bp):
AACCCTAAACCCT
Found at i:90422741 original size:21 final size:23
Alignment explanation
Indices: 90422711--90422752 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
90422701 GGTTTAAAGT
90422711 TTTAGAGG-TTA-TATTTTAGTG
1 TTTAGAGGTTTAGTATTTTAGTG
*
90422732 TTTAGGGGTTTAGTATTTTAG
1 TTTAGAGGTTTAGTATTTTAG
90422753 GGGTTATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 3 0.17
23 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.52
Consensus pattern (23 bp):
TTTAGAGGTTTAGTATTTTAGTG
Found at i:90422745 original size:15 final size:16
Alignment explanation
Indices: 90422725--90422757 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
90422715 GAGGTTATAT
90422725 TTTAGT-GTTTAGGGG
1 TTTAGTAGTTTAGGGG
*
90422740 TTTAGTATTTTAGGGG
1 TTTAGTAGTTTAGGGG
90422756 TT
1 TT
90422758 ATAGATTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.52
Consensus pattern (16 bp):
TTTAGTAGTTTAGGGG
Found at i:90422854 original size:41 final size:41
Alignment explanation
Indices: 90422809--90423067 Score: 328
Period size: 41 Copynumber: 6.4 Consensus size: 41
90422799 GGGTTATGAC
* * *
90422809 TTTTAGAGGCATTTTATCGAAAGCGCCGCTAATGCTCCAGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCCAGT
*
90422850 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCCGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCCAGT
* * * *
90422891 TTTTAGTGGTGTTTTACCAAAAGCGCCGCTATTGCTCCTA-T
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCC-AGT
* *
90422932 TTTTAGCGGCGTTTTACCGAAAG-GCCGCTATTGCT-CTGAT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCCAG-T
**
90422972 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCCAGT
* * *
90423013 TTTTAGCGGCGTTTTACCGAAAGCTCCGCTATTGCT-CTGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCCAGT
*
90423053 TTTTAGCGGCATTTT
1 TTTTAGCGGCGTTTT
90423068 TGGTAAAATG
Statistics
Matches: 192, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 52 0.27
41 138 0.72
42 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCCAGT
Found at i:90423008 original size:81 final size:81
Alignment explanation
Indices: 90422809--90423067 Score: 353
Period size: 81 Copynumber: 3.2 Consensus size: 81
90422799 GGGTTATGAC
* *
90422809 TTTTAGAGGCATTTTATCGAAAGCGCCGCTAATGCTCC-AGTTTTTAGCGGCGTTTTACCGAAAG
1 TTTTAGCGGCATTTTACCGAAAGCGCCGCTAATGCTCCTA-TTTTTAGCGGCGTTTTACCGAAAG
* *
90422873 CGCCGCTAATGCTCCGGT
65 CGCCGCTATTGCT-CTGT
* ** * *
90422891 TTTTAGTGGTGTTTTACCAAAAGCGCCGCTATTGCTCCTATTTTTAGCGGCGTTTTACCGAAAG-
1 TTTTAGCGGCATTTTACCGAAAGCGCCGCTAATGCTCCTATTTTTAGCGGCGTTTTACCGAAAGC
90422955 GCCGCTATTGCTCTGAT
66 GCCGCTATTGCTCTG-T
* *
90422972 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCT-CTGGTTTTTAGCGGCGTTTTACCGAAAG
1 TTTTAGCGGCATTTTACCGAAAGCGCCGCTAATGCTCCT-ATTTTTAGCGGCGTTTTACCGAAAG
*
90423036 CTCCGCTATTGCTCTGT
65 CGCCGCTATTGCTCTGT
90423053 TTTTAGCGGCATTTT
1 TTTTAGCGGCATTTT
90423068 TGGTAAAATG
Statistics
Matches: 158, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
80 4 0.03
81 83 0.53
82 70 0.44
83 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (81 bp):
TTTTAGCGGCATTTTACCGAAAGCGCCGCTAATGCTCCTATTTTTAGCGGCGTTTTACCGAAAGC
GCCGCTATTGCTCTGT
Found at i:90423098 original size:81 final size:78
Alignment explanation
Indices: 90422850--90423098 Score: 229
Period size: 81 Copynumber: 3.1 Consensus size: 78
90422840 ATGCTCCAGT
* * * *
90422850 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCCGGTTTTTAGTGG-TGTTTTACCAAAAG
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCT-CTGTTTTTAGCGGCT-TTTTA-GAAAAG
* *
90422914 CGCCGCTATTGCTCCTAT-
63 CG--GCTATTG-TTCTGTG
*
90422932 TTTTAGCGGCGTTTTACCGAAAG-GCCGCTATTGCTCTGATTTTTAGCGGCGTTTTACCG-AAAG
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCTCTG-TTTTTAGCGGCTTTTTA--GAAAAG
* *
90422995 CGCCGCTAATGCTCTG-G
63 CG--GCTATTGTTCTGTG
* *
90423012 TTTTTAGCGGCGTTTTACCGAAAGCTCCGCTATTGCTCTGTTTTTAGCGGCATTTTTGGTAAAAT
1 -TTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCTCTGTTTTTAGCGGC-TTTTTAG-AAAA-
90423077 GCGGCTATTGTTCTGTG
62 GCGGCTATTGTTCTGTG
90423094 TTTTA
1 TTTTA
90423099 CAATTTATGC
Statistics
Matches: 142, Mismatches: 14, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
80 5 0.04
81 88 0.62
82 46 0.32
83 3 0.02
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (78 bp):
TTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCTCTGTTTTTAGCGGCTTTTTAGAAAAGCGG
CTATTGTTCTGTG
Found at i:90423098 original size:122 final size:122
Alignment explanation
Indices: 90422809--90423067 Score: 387
Period size: 122 Copynumber: 2.1 Consensus size: 122
90422799 GGGTTATGAC
* * * *
90422809 TTTTAGAGGCATTTTATCGAAAGCGCCGCTAATGCTC-CAGTTTTTAGCGGCGTTTTACCGAAAG
1 TTTTAGCGGCATTTTACCGAAAG-GCCGCTATTGCTCTGA-TTTTTAGCGGCGTTTTACCGAAAG
* *
90422873 CGCCGCTAATGCTCCGGTTTTTAGTGGTGTTTTACCAAAAGCGCCGCTATTGCTCCTAT
64 CGCCGCTAATGCTCCGGTTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCCTAT
*
90422932 TTTTAGCGGCGTTTTACCGAAAGGCCGCTATTGCTCTGATTTTTAGCGGCGTTTTACCGAAAGCG
1 TTTTAGCGGCATTTTACCGAAAGGCCGCTATTGCTCTGATTTTTAGCGGCGTTTTACCGAAAGCG
* * * *
90422997 CCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCGAAAGCTCCGCTATTGCT-CTGT
66 CCGCTAATGCTCCGGTTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCCTAT
90423053 TTTTAGCGGCATTTT
1 TTTTAGCGGCATTTT
90423068 TGGTAAAATG
Statistics
Matches: 123, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
121 17 0.14
122 85 0.69
123 21 0.17
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (122 bp):
TTTTAGCGGCATTTTACCGAAAGGCCGCTATTGCTCTGATTTTTAGCGGCGTTTTACCGAAAGCG
CCGCTAATGCTCCGGTTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCCTAT
Found at i:90435279 original size:24 final size:23
Alignment explanation
Indices: 90435252--90435336 Score: 75
Period size: 24 Copynumber: 3.6 Consensus size: 23
90435242 GTTTCGAATG
*
90435252 AATAATGTATAAAATTTTAAAATA
1 AATAAT-TATAAAACTTTAAAATA
* *
90435276 AATAA-TAAAAAGAGCTTAAAAATA
1 AATAATTATAAA-A-CTTTAAAATA
90435300 AATAATT-TAAAAACTTTAAAATA
1 AATAATTAT-AAAACTTTAAAATA
*
90435323 AATAACATATAAAA
1 AATAA-TTATAAAA
90435337 TGGTTTAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
22 5 0.10
23 15 0.31
24 24 0.49
25 5 0.10
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.29
Consensus pattern (23 bp):
AATAATTATAAAACTTTAAAATA
Found at i:90435296 original size:23 final size:23
Alignment explanation
Indices: 90435252--90435327 Score: 82
Period size: 24 Copynumber: 3.2 Consensus size: 23
90435242 GTTTCGAATG
* *
90435252 AATAATGTATAAAATTTTAAAATA
1 AATAAT-TAAAAAACTTTAAAATA
*
90435276 AATAA-TAAAAAGAGCTTAAAAATA
1 AATAATTAAAAA-A-CTTTAAAATA
*
90435300 AATAATTTAAAAACTTTAAAATA
1 AATAATTAAAAAACTTTAAAATA
90435323 AATAA
1 AATAA
90435328 CATATAAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
22 5 0.11
23 15 0.34
24 19 0.43
25 5 0.11
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (23 bp):
AATAATTAAAAAACTTTAAAATA
Found at i:90436699 original size:10 final size:10
Alignment explanation
Indices: 90436684--90436719 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
90436674 TTTTTTACAT
90436684 AAAAAAGAAA
1 AAAAAAGAAA
90436694 AAAAAAGAAA
1 AAAAAAGAAA
* *
90436704 AGAAAACAAA
1 AAAAAAGAAA
90436714 AAAAAA
1 AAAAAA
90436720 CAGAAACTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:90436706 original size:15 final size:16
Alignment explanation
Indices: 90436684--90436725 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
90436674 TTTTTTACAT
90436684 AAAAAAGAAAA-AAAA
1 AAAAAAGAAAACAAAA
*
90436699 AGAAAAGAAAACAAAA
1 AAAAAAGAAAACAAAA
90436715 AAAAACAGAAA
1 AAAAA-AGAAA
90436726 CTTAAGAGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
16 8 0.35
17 5 0.22
ACGTcount: A:0.86, C:0.05, G:0.10, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAACAAAA
Found at i:90438180 original size:82 final size:82
Alignment explanation
Indices: 90438043--90438213 Score: 270
Period size: 82 Copynumber: 2.1 Consensus size: 82
90438033 ACAAGTGAAA
* *
90438043 ATTTACAAATAGGGAGAGAGAACAATGCCCTAGGTAAAGAATAATAAATGCGGGATGATTCAAAT
1 ATTTATAAATAGGGAGAGAGAACAATGCCCTAGGTAAAGAATAATAAATACGGGATGATTCAAAT
* *
90438108 GAGAAATGGTTAGGCCT
66 AAAAAATGGTTAGGCCT
* * * *
90438125 ATTTATAAATAGGGAGAGAGAACAATGCCTTAGGTAGAGAATAATAAATATGGGATTATTCAAAT
1 ATTTATAAATAGGGAGAGAGAACAATGCCCTAGGTAAAGAATAATAAATACGGGATGATTCAAAT
90438190 AAAAAATGGTTAGGCCT
66 AAAAAATGGTTAGGCCT
90438207 ATTTATA
1 ATTTATA
90438214 GTTGAGATTC
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.43, C:0.09, G:0.23, T:0.26
Consensus pattern (82 bp):
ATTTATAAATAGGGAGAGAGAACAATGCCCTAGGTAAAGAATAATAAATACGGGATGATTCAAAT
AAAAAATGGTTAGGCCT
Found at i:90439058 original size:37 final size:37
Alignment explanation
Indices: 90439008--90439084 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
90438998 GACAGTAGAG
*
90439008 ATAGTTTTCTTCAATAGATGTAGCGTAACAAGCTCAA
1 ATAGTTTTCTTCAATAGATGTAGCATAACAAGCTCAA
90439045 ATAGTTTTCTTCAATAGATGTAGCATAACAAGCTCAA
1 ATAGTTTTCTTCAATAGATGTAGCATAACAAGCTCAA
90439082 ATA
1 ATA
90439085 ATCTCCCTAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (37 bp):
ATAGTTTTCTTCAATAGATGTAGCATAACAAGCTCAA
Found at i:90441237 original size:10 final size:9
Alignment explanation
Indices: 90441218--90441252 Score: 52
Period size: 10 Copynumber: 3.7 Consensus size: 9
90441208 TATTTTTCTC
90441218 TTTATTTAT
1 TTTATTTAT
90441227 TTTATTTTAT
1 TTTA-TTTAT
90441237 TTTATTTAT
1 TTTATTTAT
90441246 TATTATT
1 T-TTATT
90441253 AACTTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 10 0.42
10 14 0.58
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTTAT
Found at i:90441412 original size:29 final size:29
Alignment explanation
Indices: 90441380--90441435 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
90441370 TTATTATTAG
90441380 TTTTATAATAATTTAAA-TATTATTTAATT
1 TTTTATAATAATTTAAATTATT-TTTAATT
*
90441409 TTTTATAATATTTTAAATTATTTTTAA
1 TTTTATAATAATTTAAATTATTTTTAA
90441436 AGATAGTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (29 bp):
TTTTATAATAATTTAAATTATTTTTAATT
Found at i:90441534 original size:11 final size:12
Alignment explanation
Indices: 90441508--90441532 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
90441498 GTGAAATTTG
90441508 AATTAATAAAAA
1 AATTAATAAAAA
90441520 AATTAATAAAAA
1 AATTAATAAAAA
90441532 A
1 A
90441533 TTTCTTTTTC
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AATTAATAAAAA
Found at i:90441802 original size:12 final size:13
Alignment explanation
Indices: 90441753--90441802 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 13
90441743 TTTTAATAAC
90441753 TTTAAAATTA-AT
1 TTTAAAATTATAT
90441765 TTTAAAATTAATAAT
1 TTTAAAATT-AT-AT
90441780 TTATAAAAATTATA-
1 TT-T-AAAATTATAT
90441794 TTTAAAATT
1 TTTAAAATT
90441803 TAAAAAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
12 15 0.45
13 2 0.06
14 2 0.06
15 5 0.15
16 3 0.09
17 6 0.18
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTAAAATTATAT
Found at i:90441888 original size:24 final size:23
Alignment explanation
Indices: 90441860--90441958 Score: 100
Period size: 24 Copynumber: 4.3 Consensus size: 23
90441850 AATATATTTT
90441860 AAATAATTTCAAAATCATAATTAA
1 AAATAATTT-AAAATCATAATTAA
*
90441884 AAATAATTAAAAAATCATAATTAA
1 AAATAATT-TAAAATCATAATTAA
90441908 AAA-AATTATAAAA-CA-AATTAA
1 AAATAATT-TAAAATCATAATTAA
*
90441929 AATATACATTTAAAAT-ATTA-TAA
1 AA-ATA-ATTTAAAATCATAATTAA
90441952 AAATAAT
1 AAATAAT
90441959 AATAAATTTG
Statistics
Matches: 66, Mismatches: 3, Indels: 15
0.79 0.04 0.18
Matches are distributed among these distances:
21 10 0.15
22 6 0.09
23 21 0.32
24 29 0.44
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (23 bp):
AAATAATTTAAAATCATAATTAA
Found at i:90441918 original size:15 final size:14
Alignment explanation
Indices: 90441870--90441911 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
90441860 AAATAATTTC
90441870 AAAATCATAATT--
1 AAAATCATAATTAA
90441882 AAAA--ATAATTAA
1 AAAATCATAATTAA
90441894 AAAATCATAATTAA
1 AAAATCATAATTAA
90441908 AAAA
1 AAAA
90441912 ATTATAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 6 0.23
12 8 0.31
14 12 0.46
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAATCATAATTAA
Found at i:90442026 original size:21 final size:21
Alignment explanation
Indices: 90442002--90442052 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
90441992 TAAATGTTTT
90442002 ATATTATTAAAAAT-ATATCTA
1 ATATT-TTAAAAATAATATCTA
* *
90442023 ATATTTAAAAAATAATATTTA
1 ATATTTTAAAAATAATATCTA
90442044 A-ATTTTAAA
1 ATATTTTAAA
90442053 CAATGATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
ATATTTTAAAAATAATATCTA
Found at i:90442038 original size:14 final size:14
Alignment explanation
Indices: 90442021--90442078 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
90442011 AAAATATATC
90442021 TAATATTTAAAAAA
1 TAATATTTAAAAAA
90442035 TAATATTTAAATTTTAAA
1 TAATATTTAAA----AAA
*
90442053 CAATGATTT-AAAAA
1 TAAT-ATTTAAAAAA
90442067 TAATATTTAAAA
1 TAATATTTAAAA
90442079 TTTAGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 4 0.11
14 20 0.56
18 8 0.22
19 4 0.11
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (14 bp):
TAATATTTAAAAAA
Found at i:90442071 original size:32 final size:33
Alignment explanation
Indices: 90442025--90442138 Score: 122
Period size: 32 Copynumber: 3.4 Consensus size: 33
90442015 TATATCTAAT
* *
90442025 ATTTAAAAAATAATATTTAAATTTTAAACAATG
1 ATTTAAAAAATAATATTTAAATTTTAAAAAATA
*
90442058 ATTT-AAAAATAATATTTAAAATTTAGAAAAATA
1 ATTTAAAAAATAATATTTAAATTTTA-AAAAATA
* * *
90442091 ATTTCAAATATATATATTTAAATTTTAATAAATA
1 ATTTAAAAAATA-ATATTTAAATTTTAAAAAATA
*
90442125 TATATTATAAAATA
1 -AT-TTAAAAAATA
90442139 TTTCAAATAT
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
32 20 0.30
33 13 0.19
34 12 0.18
35 15 0.22
36 7 0.10
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (33 bp):
ATTTAAAAAATAATATTTAAATTTTAAAAAATA
Found at i:90442183 original size:4 final size:4
Alignment explanation
Indices: 90442174--90442203 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
90442164 TAAAATTAAT
90442174 AATA AATAA AATA AATA AATA AATA AATA A
1 AATA AAT-A AATA AATA AATA AATA AATA A
90442204 TGATAAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:90442185 original size:16 final size:17
Alignment explanation
Indices: 90442164--90442200 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
90442154 TCAAGTTTTT
*
90442164 TAAAATTAAT-AATAAA
1 TAAAATAAATAAATAAA
90442180 TAAAATAAATAAATAAA
1 TAAAATAAATAAATAAA
90442197 TAAA
1 TAAA
90442201 TAATGATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAAATAAATAAATAAA
Found at i:90442316 original size:22 final size:23
Alignment explanation
Indices: 90442265--90442317 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
90442255 AAAAAACAAA
* **
90442265 TTTAAAAAATATATATTCAATGT
1 TTTAAAAAATATAAATTCAAAAT
*
90442288 TTAAAAAAATA-AAATTCAAAAT
1 TTTAAAAAATATAAATTCAAAAT
90442310 TTTAAAAA
1 TTTAAAAA
90442318 TAATTTAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (23 bp):
TTTAAAAAATATAAATTCAAAAT
Found at i:90442466 original size:31 final size:31
Alignment explanation
Indices: 90442431--90442500 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
90442421 ATAAAATAAG
* *
90442431 AAAAATATAAAACTTAA-AAAAAATTTAAAAA
1 AAAAATACAAAACATAATAAAAAA-TTAAAAA
* *
90442462 AAAAAGACAAAAGATAATAAAAAATTAAAAA
1 AAAAATACAAAACATAATAAAAAATTAAAAA
90442493 AATAAATA
1 AA-AAATA
90442501 AGTAAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
31 22 0.69
32 10 0.31
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.19
Consensus pattern (31 bp):
AAAAATACAAAACATAATAAAAAATTAAAAA
Found at i:90442498 original size:16 final size:16
Alignment explanation
Indices: 90442477--90442510 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
90442467 GACAAAAGAT
*
90442477 AATAAAAAATTAAAAA
1 AATAAAAAAGTAAAAA
*
90442493 AATAAATAAGTAAAAA
1 AATAAAAAAGTAAAAA
90442509 AA
1 AA
90442511 AAGTGAAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (16 bp):
AATAAAAAAGTAAAAA
Found at i:90442847 original size:21 final size:22
Alignment explanation
Indices: 90442810--90442864 Score: 78
Period size: 21 Copynumber: 2.5 Consensus size: 22
90442800 GAAAGTTTAA
90442810 AATATTTAAATATTTAAAAAA-T
1 AATATTTAAA-ATTTAAAAAAGT
90442832 AATATTTAAAATTTAAAAAAGT
1 AATATTTAAAATTTAAAAAAGT
*
90442854 AAT-TTCAAAAT
1 AATATTTAAAAT
90442865 ATATATTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
AATATTTAAAATTTAAAAAAGT
Found at i:90447880 original size:17 final size:16
Alignment explanation
Indices: 90447839--90447880 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
90447829 TACATTCCTA
90447839 ATATAAAA-ATATATT
1 ATATAAAATATATATT
*
90447854 ATATATAATATATATT
1 ATATAAAATATATATT
*
90447870 GTTATAAAATA
1 -ATATAAAATA
90447881 AAGGACAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 7 0.32
16 7 0.32
17 8 0.36
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
ATATAAAATATATATT
Found at i:90453222 original size:14 final size:14
Alignment explanation
Indices: 90453203--90453231 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
90453193 ATAACATGTT
90453203 ATAAAATAAAGAAC
1 ATAAAATAAAGAAC
90453217 ATAAAATAAAGAAC
1 ATAAAATAAAGAAC
90453231 A
1 A
90453232 AAGAGAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (14 bp):
ATAAAATAAAGAAC
Found at i:90459938 original size:8 final size:8
Alignment explanation
Indices: 90459910--90459963 Score: 56
Period size: 8 Copynumber: 6.8 Consensus size: 8
90459900 ATTACTAAAT
90459910 ATAATATA
1 ATAATATA
*
90459918 ATAGTTATA
1 ATA-ATATA
*
90459927 ATAATTTA
1 ATAATATA
90459935 ATAATATA
1 ATAATATA
90459943 ATAATAT-
1 ATAATATA
**
90459950 ATGTTATA
1 ATAATATA
90459958 ATAATA
1 ATAATA
90459964 AAAGAATCAA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
7 5 0.14
8 24 0.67
9 7 0.19
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (8 bp):
ATAATATA
Found at i:90460919 original size:6 final size:6
Alignment explanation
Indices: 90460905--90460936 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
90460895 CCTGATTATG
*
90460905 ACTGTT ACTGCT ACTGTT ACTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
90460937 CCTACGGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.44
Consensus pattern (6 bp):
ACTGTT
Found at i:90461812 original size:20 final size:20
Alignment explanation
Indices: 90461787--90461836 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
90461777 CCCATGGCCT
* * *
90461787 GGCCACACGGGCATGTTCTA
1 GGCCACACGGCCATGTCCCA
90461807 GGCCACACGGCCATGTCCCA
1 GGCCACACGGCCATGTCCCA
90461827 GGCCACACGG
1 GGCCACACGG
90461837 ACGTGTGCCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.20, C:0.38, G:0.30, T:0.12
Consensus pattern (20 bp):
GGCCACACGGCCATGTCCCA
Found at i:90480259 original size:25 final size:25
Alignment explanation
Indices: 90480231--90480343 Score: 97
Period size: 25 Copynumber: 4.6 Consensus size: 25
90480221 GGACTCACCA
* *
90480231 CAGCTCGCATGAGCTTATCGTTATC
1 CAGCTCGCATGAGCTTACCGTTATT
* * *
90480256 CAGCTTGGA-GAAGCTTACCGATATT
1 CAGCTCGCATG-AGCTTACCGTTATT
* *
90480281 CAGCTCACATGAGCTTATCGTTATT
1 CAGCTCGCATGAGCTTACCGTTATT
* *
90480306 CAGCTCGGAGGAGCTTACCGATTA-T
1 CAGCTCGCATGAGCTTACCG-TTATT
*
90480331 C-GCTCGTATGAGC
1 CAGCTCGCATGAGC
90480344 ATATATGGAT
Statistics
Matches: 69, Mismatches: 16, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
24 11 0.16
25 54 0.78
26 4 0.06
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (25 bp):
CAGCTCGCATGAGCTTACCGTTATT
Found at i:90480310 original size:50 final size:50
Alignment explanation
Indices: 90480231--90480327 Score: 158
Period size: 50 Copynumber: 1.9 Consensus size: 50
90480221 GGACTCACCA
* *
90480231 CAGCTCGCATGAGCTTATCGTTATCCAGCTTGGAGAAGCTTACCGATATT
1 CAGCTCACATGAGCTTATCGTTATCCAGCTCGGAGAAGCTTACCGATATT
* *
90480281 CAGCTCACATGAGCTTATCGTTATTCAGCTCGGAGGAGCTTACCGAT
1 CAGCTCACATGAGCTTATCGTTATCCAGCTCGGAGAAGCTTACCGAT
90480328 TATCGCTCGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.29
Consensus pattern (50 bp):
CAGCTCACATGAGCTTATCGTTATCCAGCTCGGAGAAGCTTACCGATATT
Found at i:90482802 original size:25 final size:24
Alignment explanation
Indices: 90482774--90482823 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
90482764 TTCTCATTCC
90482774 TATTTTATACCCAT-TAAAATTTTGA
1 TATTTTAT--CCATGTAAAATTTTGA
90482799 TATTTTATCCATGGTAAAATTTTGA
1 TATTTTATCCAT-GTAAAATTTTGA
90482824 GAAAATACGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 4 0.17
25 19 0.83
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.48
Consensus pattern (24 bp):
TATTTTATCCATGTAAAATTTTGA
Found at i:90496563 original size:25 final size:26
Alignment explanation
Indices: 90496529--90496579 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
90496519 AATATAATAC
*
90496529 AAATATACAAATTC-TTCTTCTTTTT
1 AAATACACAAATTCTTTCTTCTTTTT
*
90496554 AAATACACAAATTCTTTTTTCTTTTT
1 AAATACACAAATTCTTTCTTCTTTTT
90496580 TTTTTTTACC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.31, C:0.16, G:0.00, T:0.53
Consensus pattern (26 bp):
AAATACACAAATTCTTTCTTCTTTTT
Found at i:90497516 original size:17 final size:18
Alignment explanation
Indices: 90497494--90497532 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
90497484 TTTTTAAGTG
90497494 ATTTTATAAAAATAT-TT
1 ATTTTATAAAAATATATT
* *
90497511 ATTTTATATATATATATT
1 ATTTTATAAAAATATATT
90497529 ATTT
1 ATTT
90497533 ATCTATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTTATAAAAATATATT
Found at i:90497576 original size:5 final size:5
Alignment explanation
Indices: 90497509--90497596 Score: 71
Period size: 5 Copynumber: 18.2 Consensus size: 5
90497499 ATAAAAATAT
* * * *
90497509 TTATT TTATA -TATA -TATA TTAT- TTATC TATATA TTA-A ATATA TTTTA
1 TTATA TTATA TTATA TTATA TTATA TTATA T-TATA TTATA TTATA TTATA
90497556 -TATA TCT-TA GTTATA TTATA TTATA TTATA TTATA TTATA T
1 TTATA T-TATA -TTATA TTATA TTATA TTATA TTATA TTATA T
90497597 GTTATATTGA
Statistics
Matches: 69, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
4 18 0.26
5 43 0.62
6 8 0.12
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:90497690 original size:17 final size:17
Alignment explanation
Indices: 90497668--90497706 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
90497658 CTGACTTCAT
*
90497668 TTTTAT-TTTCTAGTTTA
1 TTTTATATTT-TAGTATA
90497685 TTTTATATTTTAGTATA
1 TTTTATATTTTAGTATA
90497702 TTTTA
1 TTTTA
90497707 CATCTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTATATTTTAGTATA
Found at i:90499165 original size:26 final size:26
Alignment explanation
Indices: 90499134--90499185 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
90499124 TAATTTATAG
* * *
90499134 TGACTAGATTTAAAGTCGTCACTTGT
1 TGACTAAATTTAAAATCATCACTTGT
90499160 TGACTAAATTTAAAATCATCACTTGT
1 TGACTAAATTTAAAATCATCACTTGT
90499186 AGTTTTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (26 bp):
TGACTAAATTTAAAATCATCACTTGT
Found at i:90499415 original size:41 final size:41
Alignment explanation
Indices: 90499370--90499457 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 41
90499360 ATTTTTTGTG
* *
90499370 ATTAAATTTTTGACACA-AAAATCATAAGCAATTGTGACAAA
1 ATTAAATTTGTCACA-ATAAAATCATAAGCAATTGTGACAAA
*
90499411 ATTAAA-TTGTCACAATAAAATCTTAAGCAATTGTGACAAA
1 ATTAAATTTGTCACAATAAAATCATAAGCAATTGTGACAAA
*
90499451 TTTAAAT
1 ATTAAAT
90499458 GATCATAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
39 1 0.02
40 34 0.83
41 6 0.15
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (41 bp):
ATTAAATTTGTCACAATAAAATCATAAGCAATTGTGACAAA
Found at i:90500323 original size:26 final size:26
Alignment explanation
Indices: 90500294--90500401 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
90500284 TGGTACAAAT
90500294 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
90500320 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
90500346 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
90500372 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
90500398 TGAT
1 TGAT
90500402 GGGAATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:90503143 original size:16 final size:16
Alignment explanation
Indices: 90503112--90503142 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
90503102 AATGGGTTTA
90503112 CAAAAACAAAGATTTT
1 CAAAAACAAAGATTTT
90503128 CAAAAACAAA-ATTTT
1 CAAAAACAAAGATTTT
90503143 TATAAAGAAT
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:0.58, C:0.13, G:0.03, T:0.26
Consensus pattern (16 bp):
CAAAAACAAAGATTTT
Found at i:90507451 original size:26 final size:26
Alignment explanation
Indices: 90507417--90507524 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
90507407 TTGTACAAAT
90507417 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
90507443 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
90507469 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
90507495 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
90507521 TGAT
1 TGAT
90507525 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:90513365 original size:17 final size:17
Alignment explanation
Indices: 90513306--90513365 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
90513296 TAATAAATTT
90513306 AAAATATAATATATAATAA
1 AAAATATAAT-TAT-ATAA
90513325 AAAATAT-ATT-TAT-A
1 AAAATATAATTATATAA
*
90513339 AGAATAATAATTATATAA
1 AAAAT-ATAATTATATAA
90513357 AAAATATAA
1 AAAATATAA
90513366 AATATATTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 5 0.14
15 4 0.11
16 4 0.11
17 8 0.23
18 7 0.20
19 7 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATATAATTATATAA
Found at i:90513860 original size:17 final size:18
Alignment explanation
Indices: 90513838--90514039 Score: 288
Period size: 17 Copynumber: 11.3 Consensus size: 18
90513828 CAAGATTACA
90513838 ATCATATCTAAGATTG-T
1 ATCATATCTAAGATTGCT
90513855 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGC-T
* *
90513874 ATCACATCTAAGATTGCA
1 ATCATATCTAAGATTGCT
90513892 ATCATATCTAAGATTG-T
1 ATCATATCTAAGATTGCT
*
90513909 ATCATATCTAAGATTGCA
1 ATCATATCTAAGATTGCT
90513927 ATCATATCTAAGATTG-T
1 ATCATATCTAAGATTGCT
90513944 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGC-T
*
90513963 ATCACATCTAAGATTG-T
1 ATCATATCTAAGATTGCT
90513980 ATCATATCTAAGATTG-T
1 ATCATATCTAAGATTGCT
90513997 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGC-T
*
90514016 ATCACATCTAAGATTGCAT
1 ATCATATCTAAGATTGC-T
90514035 ATCAT
1 ATCAT
90514040 TGAAGATTAT
Statistics
Matches: 168, Mismatches: 10, Indels: 12
0.88 0.05 0.06
Matches are distributed among these distances:
17 81 0.48
18 31 0.18
19 56 0.33
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (18 bp):
ATCATATCTAAGATTGCT
Found at i:90514047 original size:53 final size:53
Alignment explanation
Indices: 90513838--90514039 Score: 302
Period size: 53 Copynumber: 3.8 Consensus size: 53
90513828 CAAGATTACA
* * *
90513838 ATCATATCTAAGATTGTATCATATCTAAGATTGCATATCACATCTAAGATTGCA
1 ATCATATCTAAGATTGTATCACATCTAAGATTGCATATCATATCTAAGATTG-T
*
90513892 ATCATATCTAAGATTGTATCATATCTAAGATTGCA-ATCATATCTAAGATTGT
1 ATCATATCTAAGATTGTATCACATCTAAGATTGCATATCATATCTAAGATTGT
90513944 ATCATATCTAAGATTGCATATCACATCTAAGATTG--TATCATATCTAAGATTGT
1 ATCATATCTAAGATTG--TATCACATCTAAGATTGCATATCATATCTAAGATTGT
90513997 ATCATATCTAAGATTGCATATCACATCTAAGATTGCATATCAT
1 ATCATATCTAAGATTG--TATCACATCTAAGATTGCATATCAT
90514040 TGAAGATTAT
Statistics
Matches: 140, Mismatches: 3, Indels: 9
0.92 0.02 0.06
Matches are distributed among these distances:
52 16 0.11
53 67 0.48
54 51 0.36
55 6 0.04
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (53 bp):
ATCATATCTAAGATTGTATCACATCTAAGATTGCATATCATATCTAAGATTGT
Found at i:90514047 original size:89 final size:89
Alignment explanation
Indices: 90513829--90514031 Score: 363
Period size: 89 Copynumber: 2.3 Consensus size: 89
90513819 TTAAATCTCC
*
90513829 AAGATTACAATCATATCTAAGATTGTATCATATCTAAGATTGCATATCACATCTAAGATTGCAAT
1 AAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTGCATATCACATCTAAGATTGCAAT
90513894 CATATCTAAGATTGTATCATATCT
66 CATATCTAAGATTGTATCATATCT
*
90513918 AAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTGCATATCACATCTAAGATTG-TAT
1 AAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTGCATATCACATCTAAGATTGCAAT
90513982 CATATCTAAGATTGTATCATATCT
66 CATATCTAAGATTGTATCATATCT
*
90514006 AAGATTGCATATCACATCTAAGATTG
1 AAGATTGCA-ATCATATCTAAGATTG
90514032 CATATCATTG
Statistics
Matches: 110, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
88 35 0.32
89 75 0.68
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (89 bp):
AAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTGCATATCACATCTAAGATTGCAAT
CATATCTAAGATTGTATCATATCT
Found at i:90519269 original size:18 final size:18
Alignment explanation
Indices: 90519248--90519314 Score: 53
Period size: 18 Copynumber: 3.5 Consensus size: 18
90519238 AGAAGGATAT
90519248 TTTAGATTTTTCATAGAG
1 TTTAGATTTTTCATAGAG
* * * *
90519266 TTTATATTTATACTTAGAATAT
1 TTTAGATTT-TTCATAG---AG
90519288 TTTAGATTTTTCATAGAG
1 TTTAGATTTTTCATAGAG
*
90519306 TTTATATTT
1 TTTAGATTT
90519315 ATACCTTAGA
Statistics
Matches: 36, Mismatches: 9, Indels: 8
0.68 0.17 0.15
Matches are distributed among these distances:
18 17 0.47
19 5 0.14
21 5 0.14
22 9 0.25
ACGTcount: A:0.30, C:0.04, G:0.10, T:0.55
Consensus pattern (18 bp):
TTTAGATTTTTCATAGAG
Found at i:90519299 original size:40 final size:41
Alignment explanation
Indices: 90519244--90519326 Score: 159
Period size: 40 Copynumber: 2.0 Consensus size: 41
90519234 CATAAGAAGG
90519244 ATATTTTAGATTTTTCATAGAGTTTATATTTATA-CTTAGA
1 ATATTTTAGATTTTTCATAGAGTTTATATTTATACCTTAGA
90519284 ATATTTTAGATTTTTCATAGAGTTTATATTTATACCTTAGA
1 ATATTTTAGATTTTTCATAGAGTTTATATTTATACCTTAGA
90519325 AT
1 AT
90519327 TTAAAATTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 34 0.81
41 8 0.19
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.52
Consensus pattern (41 bp):
ATATTTTAGATTTTTCATAGAGTTTATATTTATACCTTAGA
Found at i:90523405 original size:25 final size:25
Alignment explanation
Indices: 90523371--90523420 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
90523361 TCCTTTAAAA
90523371 GTTTGATAGATGAATGCATTCATGG
1 GTTTGATAGATGAATGCATTCATGG
90523396 GTTTGATAGATGAATGCATTCATGG
1 GTTTGATAGATGAATGCATTCATGG
90523421 ATTCAACAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (25 bp):
GTTTGATAGATGAATGCATTCATGG
Found at i:90525554 original size:24 final size:24
Alignment explanation
Indices: 90525526--90525577 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
90525516 TTTCTAGAAG
* *
90525526 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
*
90525550 ATTTAGCATTTATTAGCATAATTT
1 ATTTAGCATTTATTAGCATAATAT
90525574 ATTT
1 ATTT
90525578 GACCTACTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:90542709 original size:17 final size:18
Alignment explanation
Indices: 90542675--90542719 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
90542665 AATAAATAAA
90542675 AATAAAATAAAATTACATT
1 AATAAAA-AAAATTACATT
*
90542694 -ATAAAAAAATTTACATT
1 AATAAAAAAAATTACATT
90542711 AATAAAAAA
1 AATAAAAAA
90542720 TCACAAAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (18 bp):
AATAAAAAAAATTACATT
Found at i:90542928 original size:102 final size:105
Alignment explanation
Indices: 90542673--90542939 Score: 323
Period size: 102 Copynumber: 2.6 Consensus size: 105
90542663 CAAATAAATA
* * * * *
90542673 AAAATAA-AATAAAATTACATTATAAAAAAATTTACATTAATAAAAAATCACAAAA-CACTAAAC
1 AAAATAACTATAAAATT--ATTTTAAAAAAAATTAAATTATTAAAAAATCACAAAACCACTAAAC
* *
90542736 TAAACACTAACAATTTATATAACCTAATAATAAATTGCTAAC
64 TAAACACTAACAATTTATATAACCTAACAATAAATTACTAAC
90542778 AAAATAACTATAAAATTATTTTAAAAAAAATTAAATTATTAAAAAATCACAAAACCA-TAAACTA
1 AAAATAACTATAAAATTATTTTAAAAAAAATTAAATTATTAAAAAATCACAAAACCACTAAACTA
* * *
90542842 AACACTAACAATTTGTA-AA-CTAACCATAAATTACTAAT
66 AACACTAACAATTTATATAACCTAACAATAAATTACTAAC
* ** * *
90542880 AAAATAACTATAACATT-TTTTAAAAACAAATTAGGTTATTGATAAATCACAAAA-CACTAA
1 AAAATAACTATAAAATTATTTTAAAAA-AAATTAAATTATTAAAAAATCACAAAACCACTAA
90542940 CAATTTAAAA
Statistics
Matches: 143, Mismatches: 15, Indels: 11
0.85 0.09 0.07
Matches are distributed among these distances:
101 11 0.08
102 57 0.40
103 2 0.01
104 56 0.39
105 9 0.06
106 8 0.06
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (105 bp):
AAAATAACTATAAAATTATTTTAAAAAAAATTAAATTATTAAAAAATCACAAAACCACTAAACTA
AACACTAACAATTTATATAACCTAACAATAAATTACTAAC
Found at i:90543095 original size:76 final size:78
Alignment explanation
Indices: 90542998--90543157 Score: 211
Period size: 80 Copynumber: 2.1 Consensus size: 78
90542988 TTTTTTAAAA
* *
90542998 TTTACATTACTAAAAAATCAC-AA-A-AAACAAAACATTAACAATTTATAACCTAATCATAAATT
1 TTTACATTACTAAAAAATCACAAATACAAACAAAACA-CAACAATTTATAACATAATCATAAATT
90543060 ACTAACAAAATAAT
65 ACTAACAAAATAAT
* * *
90543074 TTTACATTAAC-AAAAAATCACAAAATACTAAACTAAACACAACAATTTATAACATAATCCTCAA
1 TTTACATT-ACTAAAAAATCAC-AAATAC-AAACAAAACACAACAATTTATAACATAATCATAAA
90543138 TTACTAACAAAATAAT
63 TTACTAACAAAATAAT
90543154 TTTA
1 TTTA
90543158 AAATAATTAT
Statistics
Matches: 73, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
76 18 0.25
77 2 0.03
78 2 0.03
79 1 0.01
80 41 0.56
81 9 0.12
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (78 bp):
TTTACATTACTAAAAAATCACAAATACAAACAAAACACAACAATTTATAACATAATCATAAATTA
CTAACAAAATAAT
Found at i:90550658 original size:17 final size:17
Alignment explanation
Indices: 90550603--90550660 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
90550593 TTAACCTATT
*
90550603 ATTACTTAATAAAATAA
1 ATTATTTAATAAAATAA
* **
90550620 ATT-TTATAAATAACATTT
1 ATTATT-T-AATAAAATAA
90550638 ATTATTTAATAAAATAA
1 ATTATTTAATAAAATAA
90550655 ATTATT
1 ATTATT
90550661 GAAATTTTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
16 1 0.03
17 17 0.55
18 11 0.35
19 2 0.06
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTATTTAATAAAATAA
Found at i:90556358 original size:186 final size:186
Alignment explanation
Indices: 90556044--90556418 Score: 732
Period size: 186 Copynumber: 2.0 Consensus size: 186
90556034 ATAGTTTGAC
90556044 TGATACATGATACCTGTACCAACCTTGTCCTATAGATTTTGTGACAAGTCGGTGAGACCAGAGAA
1 TGATACATGATACCTGTACCAACCTTGTCCTATAGATTTTGTGACAAGTCGGTGAGACCAGAGAA
90556109 GATGGTAAGGACAAAAAAATTTGCACCACTAGTAAACCTTGCACCTCGAGTCCCAACTATAGCAG
66 GATGGTAAGGACAAAAAAATTTGCACCACTAGTAAACCTTGCACCTCGAGTCCCAACTATAGCAG
90556174 TGCCTAGAGAGGACCCGTTGGAAGTCATCCGCAAGAAAGGTACCAAGGAGGTTAGA
131 TGCCTAGAGAGGACCCGTTGGAAGTCATCCGCAAGAAAGGTACCAAGGAGGTTAGA
90556230 TGATACATGATACCTGTACCAACCTTGTCCTATAGATTTTGTGACAAGTCGGTGAGACCAGAGAA
1 TGATACATGATACCTGTACCAACCTTGTCCTATAGATTTTGTGACAAGTCGGTGAGACCAGAGAA
*
90556295 GATGGTAAGGACAACAAAATTTGCACCACTAGTAAACCTTGCACCTCGAGTCCCAACTATAGCAG
66 GATGGTAAGGACAAAAAAATTTGCACCACTAGTAAACCTTGCACCTCGAGTCCCAACTATAGCAG
*
90556360 TGCCTAGAGAGGACCCGTTGGAAGTCATCCGCAAGAAAGGTACCAATGAGGTTAGA
131 TGCCTAGAGAGGACCCGTTGGAAGTCATCCGCAAGAAAGGTACCAAGGAGGTTAGA
90556416 TGA
1 TGA
90556419 GGCAAGGAAG
Statistics
Matches: 187, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
186 187 1.00
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (186 bp):
TGATACATGATACCTGTACCAACCTTGTCCTATAGATTTTGTGACAAGTCGGTGAGACCAGAGAA
GATGGTAAGGACAAAAAAATTTGCACCACTAGTAAACCTTGCACCTCGAGTCCCAACTATAGCAG
TGCCTAGAGAGGACCCGTTGGAAGTCATCCGCAAGAAAGGTACCAAGGAGGTTAGA
Found at i:90563804 original size:12 final size:12
Alignment explanation
Indices: 90563787--90563811 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
90563777 AGAACTTTTG
90563787 ATTTCTAAGTGA
1 ATTTCTAAGTGA
90563799 ATTTCTAAGTGA
1 ATTTCTAAGTGA
90563811 A
1 A
90563812 ATCAAGTTTC
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:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
ATTTCTAAGTGA
Found at i:90564144 original size:14 final size:15
Alignment explanation
Indices: 90564110--90564147 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
90564100 GGTTTTTGTA
90564110 ATAATAAAATAAAAG
1 ATAATAAAATAAAAG
* *
90564125 ATAATAACATAAAGG
1 ATAATAAAATAAAAG
90564140 A-AATAAAA
1 ATAATAAAA
90564148 GTTCAAAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.71, C:0.03, G:0.08, T:0.18
Consensus pattern (15 bp):
ATAATAAAATAAAAG
Found at i:90566661 original size:17 final size:17
Alignment explanation
Indices: 90566639--90566671 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
90566629 CACTAATGCT
*
90566639 AAAATGTAATGACAATA
1 AAAATGCAATGACAATA
90566656 AAAATGCAATGACAAT
1 AAAATGCAATGACAAT
90566672 GTATACTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:90567165 original size:17 final size:18
Alignment explanation
Indices: 90567142--90567182 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
90567132 CTATTCTTCA
90567142 GCAACAACTTCCT-CTTTT
1 GCAACAACTT-CTGCTTTT
90567160 -CAACAACTTCTGCTTTT
1 GCAACAACTTCTGCTTTT
90567177 GCAACA
1 GCAACA
90567183 TCAACTTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 2 0.10
17 14 0.67
18 5 0.24
ACGTcount: A:0.27, C:0.32, G:0.07, T:0.34
Consensus pattern (18 bp):
GCAACAACTTCTGCTTTT
Found at i:90577406 original size:40 final size:38
Alignment explanation
Indices: 90577338--90577472 Score: 94
Period size: 41 Copynumber: 3.4 Consensus size: 38
90577328 ACCAGAATGG
* * *
90577338 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATAGTGA
1 CACCCAGTACCTCATCGGCTAG-CCGAAG-AATATAGTGA
** * *
90577378 CACCCAGTGTCTCATCGGCCTAGCCGAAG--TAAAGTGG
1 CACCCAGTACCTCATCGG-CTAGCCGAAGAATATAGTGA
* * * *
90577415 TACCCAGTACCTTATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTACCTCATCG--GCTAGCCGAAG-AATATAGTGA
*
90577456 CACCCAGTATCTCATCG
1 CACCCAGTACCTCATCG
90577473 ACTTGAGGTC
Statistics
Matches: 73, Mismatches: 16, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
37 19 0.26
38 9 0.12
40 22 0.30
41 23 0.32
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (38 bp):
CACCCAGTACCTCATCGGCTAGCCGAAGAATATAGTGA
Found at i:90578379 original size:20 final size:21
Alignment explanation
Indices: 90578356--90578400 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
90578346 AATTATTTAT
*
90578356 TTAATAAATATCT-TTTATAA
1 TTAATAAATATCTATTAATAA
90578376 TTAATAAATATCTATTAATAA
1 TTAATAAATATCTATTAATAA
90578397 TTAA
1 TTAA
90578401 ATACATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAATAAATATCTATTAATAA
Found at i:90585738 original size:22 final size:22
Alignment explanation
Indices: 90585678--90585757 Score: 56
Period size: 27 Copynumber: 3.4 Consensus size: 22
90585668 TTGAACTATC
90585678 TTTATTTTTATT-TGT-TTTTAT
1 TTTA-TTTTATTATGTATTTTAT
90585699 TTTATTTTCCAAACTTATGTATTTTAT
1 TTTATTTT----A-TTATGTATTTTAT
* *
90585726 TTTATTTTATTATGCACTTTAT
1 TTTATTTTATTATGTATTTTAT
*
90585748 TGTTTTTTTA
1 T-TTATTTTA
90585758 CTATTTTTCT
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
20 4 0.08
21 4 0.08
22 12 0.25
23 8 0.17
24 1 0.02
25 2 0.04
26 3 0.06
27 14 0.29
ACGTcount: A:0.20, C:0.06, G:0.05, T:0.69
Consensus pattern (22 bp):
TTTATTTTATTATGTATTTTAT
Found at i:90587569 original size:49 final size:49
Alignment explanation
Indices: 90587485--90587591 Score: 144
Period size: 49 Copynumber: 2.2 Consensus size: 49
90587475 GAGCAAGCTT
* *
90587485 AACATGGTCATACCACACGGTCATATGATCTACACAGGTTGAACCATTC
1 AACATGGCCATACCACACGGTCATATGATCTACACAGGTTGAACCACTC
* * *
90587534 AACATGGCCATACCACACGGTCGTGTGA-CTCACACATGTTGAACCACTC
1 AACATGGCCATACCACACGGTCATATGATCT-ACACAGGTTGAACCACTC
*
90587583 CACATGGCC
1 AACATGGCC
90587592 GTGTGGTAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
48 2 0.04
49 49 0.96
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (49 bp):
AACATGGCCATACCACACGGTCATATGATCTACACAGGTTGAACCACTC
Found at i:90592366 original size:25 final size:24
Alignment explanation
Indices: 90592322--90592380 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
90592312 TTTGTAAAAA
* * *
90592322 ATGATAATAATAATAATAATATTT
1 ATGATAATAATAACAATAATAGTG
* *
90592346 ACTGATAATAATAGCAGTAATAGTG
1 A-TGATAATAATAACAATAATAGTG
90592371 ATGATAATAA
1 ATGATAATAA
90592381 CAATTTGGGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 10 0.34
25 19 0.66
ACGTcount: A:0.51, C:0.03, G:0.12, T:0.34
Consensus pattern (24 bp):
ATGATAATAATAACAATAATAGTG
Found at i:90592810 original size:42 final size:42
Alignment explanation
Indices: 90592758--90593015 Score: 291
Period size: 42 Copynumber: 6.1 Consensus size: 42
90592748 TCATATACAG
* * *
90592758 TGCAATGAAAAGTAAATGGACCTCTACACTTGGGCCTTTAAA
1 TGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAA
* *
90592800 TGCAATGAAAAGTAAATGGAACTCCACACCTGGGCCTTTAAA
1 TGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAA
* * * * ** *
90592842 TGCAATGAATAGTGAATTGATCTCCACACCTGGGTGTCTATA
1 TGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAA
* * * * **
90592884 TGCAATGAAAAGTGAATGGACCTCTATACCTAGGTTTCTAAA
1 TGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAA
* * * *
90592926 TTCAATGAAAAGTAAATGGACCTCTACACTTAGGCCTCTAAA
1 TGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAA
* * *
90592968 TGTAATGAAAAGTAAACGAACCTCCACACCTGGGCCTCTAAA
1 TGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAA
90593010 TGCAAT
1 TGCAAT
90593016 AAATGTTTTC
Statistics
Matches: 183, Mismatches: 33, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 183 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (42 bp):
TGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAA
Found at i:90594041 original size:34 final size:34
Alignment explanation
Indices: 90594003--90594068 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 34
90593993 CTTTTCTTTA
90594003 TTCTTACTC-CTTT-CTATTTCCTTTCTTTTTTTGT
1 TTCTTACTCGCTTTCCTATTT-C-TTCTTTTTTTGT
*
90594037 TTCTTATTCGCTTTCCCTATTTCTTCTTTTTT
1 TTCTTACTCGCTTT-CCTATTTCTTCTTTTTT
90594069 CTTTTTTCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
34 8 0.29
35 13 0.46
36 1 0.04
37 6 0.21
ACGTcount: A:0.06, C:0.24, G:0.03, T:0.67
Consensus pattern (34 bp):
TTCTTACTCGCTTTCCTATTTCTTCTTTTTTTGT
Found at i:90595592 original size:9 final size:9
Alignment explanation
Indices: 90595578--90595603 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
90595568 TGCGTAAATC
90595578 TGACATTTA
1 TGACATTTA
90595587 TGACATTTA
1 TGACATTTA
90595596 TGACATTT
1 TGACATTT
90595604 CTGAGCATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (9 bp):
TGACATTTA
Found at i:90628797 original size:17 final size:18
Alignment explanation
Indices: 90628767--90628822 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 18
90628757 AAAATTTATT
* *
90628767 TTTAAAATTTTTAAAACA
1 TTTAATATTATTAAAACA
*
90628785 -TTAATATTATTAAAATA
1 TTTAATATTATTAAAACA
90628802 TTTAATA-T-TTAAAA-A
1 TTTAATATTATTAAAACA
90628817 TTTAAT
1 TTTAAT
90628823 TAAACGCTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
15 7 0.21
16 6 0.18
17 15 0.44
18 6 0.18
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
TTTAATATTATTAAAACA
Found at i:90628819 original size:15 final size:17
Alignment explanation
Indices: 90628775--90628822 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
90628765 TTTTTAAAAT
90628775 TTTTAAAACA-TTAATA
1 TTTTAAAACATTTAATA
*
90628791 TTATTAAAATATTTAATA
1 TT-TTAAAACATTTAATA
90628809 -TTTAAAA-ATTTAAT
1 TTTTAAAACATTTAAT
90628823 TAAACGCTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 7 0.24
16 8 0.28
17 8 0.28
18 6 0.21
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTAAAACATTTAATA
Found at i:90634754 original size:28 final size:30
Alignment explanation
Indices: 90634693--90634754 Score: 76
Period size: 28 Copynumber: 2.1 Consensus size: 30
90634683 AATATAAAAT
* *
90634693 TTTTATTTATATTACTTAGTTAAAAATATG
1 TTTTATTTATATTAATTAGTTAAAAATAAG
90634723 TTTTATTT-TA-TAATTAG-TAAAAATAAG
1 TTTTATTTATATTAATTAGTTAAAAATAAG
90634750 ATTTT
1 -TTTT
90634755 CGCTAACTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 9 0.31
28 10 0.34
29 2 0.07
30 8 0.28
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (30 bp):
TTTTATTTATATTAATTAGTTAAAAATAAG
Found at i:90638215 original size:50 final size:50
Alignment explanation
Indices: 90638149--90638325 Score: 291
Period size: 50 Copynumber: 3.5 Consensus size: 50
90638139 CCATGACAAC
90638149 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
90638199 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
90638249 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATAA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
90638299 CAAGTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
90638326 TTGATCAGTG
Statistics
Matches: 118, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 94 0.80
51 24 0.20
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:90638339 original size:31 final size:31
Alignment explanation
Indices: 90638301--90638480 Score: 272
Period size: 31 Copynumber: 5.8 Consensus size: 31
90638291 ACAAATAACA
*
90638301 AGTGAAAAGTGGTAGCTTCGGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
90638332 AGTGAAAAGCGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
90638363 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
90638394 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
90638425 AGTGAAAAATGGTAGC-TCTGGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
*
90638456 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
90638481 AAGTGACAAG
Statistics
Matches: 136, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
30 1 0.01
31 133 0.98
32 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:90638687 original size:42 final size:43
Alignment explanation
Indices: 90638641--90638755 Score: 171
Period size: 42 Copynumber: 2.7 Consensus size: 43
90638631 ATGTGATTAC
*
90638641 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
90638683 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATCTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
90638725 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
90638756 GAAAACGAAG
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 64 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:90639427 original size:23 final size:23
Alignment explanation
Indices: 90639397--90639447 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
90639387 ATGATATTTC
90639397 AAATACTTTGGTGAATAAAGCTT
1 AAATACTTTGGTGAATAAAGCTT
*
90639420 AAATACTTTGGTGGATAAAGCTT
1 AAATACTTTGGTGAATAAAGCTT
90639443 AAATA
1 AAATA
90639448 TGAAATAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (23 bp):
AAATACTTTGGTGAATAAAGCTT
Found at i:90640289 original size:21 final size:21
Alignment explanation
Indices: 90640263--90640332 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
90640253 TAAATAGAAA
90640263 AAAAAACAAAGCAGATTGAAG
1 AAAAAACAAAGCAGATTGAAG
* *
90640284 AAAAAACAAA-TAGA---AAA
1 AAAAAACAAAGCAGATTGAAG
90640301 AAAAAACAAAGCAGATTGAAG
1 AAAAAACAAAGCAGATTGAAG
90640322 AAAAAACAAAG
1 AAAAAACAAAG
90640333 TTCTAAATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
17 12 0.29
18 3 0.07
20 3 0.07
21 23 0.56
ACGTcount: A:0.70, C:0.09, G:0.14, T:0.07
Consensus pattern (21 bp):
AAAAAACAAAGCAGATTGAAG
Found at i:90640295 original size:37 final size:38
Alignment explanation
Indices: 90640254--90640331 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
90640244 AGAGATTTTT
90640254 AAATAG-AAAAAAAAACAAAGCAGATTGAAGAAAAAAC
1 AAATAGAAAAAAAAAACAAAGCAGATTGAAGAAAAAAC
90640291 AAATAGAAAAAAAAAACAAAGCAGATTGAAGAAAAAAC
1 AAATAGAAAAAAAAAACAAAGCAGATTGAAGAAAAAAC
90640329 AAA
1 AAA
90640332 GTTCTAAATG
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 6 0.15
38 34 0.85
ACGTcount: A:0.72, C:0.08, G:0.13, T:0.08
Consensus pattern (38 bp):
AAATAGAAAAAAAAAACAAAGCAGATTGAAGAAAAAAC
Found at i:90640433 original size:41 final size:42
Alignment explanation
Indices: 90640366--90640447 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 42
90640356 TTATTTTTAT
*
90640366 TTTCTTTATTTTTCCTTTTTGAAACTGTTTATACATACAAATA
1 TTTCTTTA-TTTTCCTTTTTAAAACTGTTTATACATACAAATA
* *
90640409 TTTCTTTA-TTTCTTTTTTAAAACTGTTTATATATACAAA
1 TTTCTTTATTTTCCTTTTTAAAACTGTTTATACATACAAA
90640448 CGTACTTCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 28 0.78
43 8 0.22
ACGTcount: A:0.29, C:0.12, G:0.04, T:0.55
Consensus pattern (42 bp):
TTTCTTTATTTTCCTTTTTAAAACTGTTTATACATACAAATA
Found at i:90641268 original size:4 final size:4
Alignment explanation
Indices: 90641259--90641305 Score: 51
Period size: 4 Copynumber: 11.5 Consensus size: 4
90641249 TTTACTTGTC
* *
90641259 TTAT TTAT TTAT TTGT TTAT TT-T TTAT GTTAT TTGT TTGAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT TTAT TT-AT TTAT TT
90641306 TATTATTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
3 3 0.08
4 26 0.72
5 7 0.19
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:90641274 original size:17 final size:16
Alignment explanation
Indices: 90641248--90641305 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 16
90641238 ATTTAGAATC
*
90641248 ATTTACTTGTCTTATTT
1 ATTTATTTGT-TTATTT
90641265 ATTTATTTGTTTATTT
1 ATTTATTTGTTTATTT
* *
90641281 -TTTATGTTATTTGTTT
1 ATTTAT-TTGTTTATTT
90641297 GATTTATTT
1 -ATTTATTT
90641306 TATTATTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
15 5 0.14
16 14 0.40
17 11 0.31
18 5 0.14
ACGTcount: A:0.17, C:0.03, G:0.09, T:0.71
Consensus pattern (16 bp):
ATTTATTTGTTTATTT
Found at i:90641292 original size:20 final size:20
Alignment explanation
Indices: 90641262--90641301 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
90641252 ACTTGTCTTA
90641262 TTTATTTATTTGTTT-ATTT
1 TTTATTTATTTGTTTGATTT
90641281 TTTATGTTATTTGTTTGATTT
1 TTTAT-TTATTTGTTTGATTT
90641302 ATTTTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 10 0.53
21 4 0.21
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.75
Consensus pattern (20 bp):
TTTATTTATTTGTTTGATTT
Done.