Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 67 of 222
Found at i:20472523 original size:44 final size:43
Alignment explanation
Indices: 20472455--20472867 Score: 264
Period size: 44 Copynumber: 9.8 Consensus size: 43
20472445 AAAGATGACG
* *
20472455 AATCTTATCTCCCTAAAGTTGCAGTGGAGCTGATTGAAGTCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-TCAAT
* * * *
20472499 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAATCA-AT
* * * * * *
20472543 AGTCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCGCATC--C
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATCAAT
* * * *
20472583 AGTCTTATCTGCCTGAAGTTGCAGTGGAGCAGACTGAATAAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATCAAT
* * **
20472626 CAATCTTATCTCCCTGAAATTGTAGTGGAGCAGATTGAAGAAACT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATCAA-T
* * *
20472671 AATCCTATCTCTCTGAAGTTGCAGTGGAGCGGA-TGAA--AAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATCAAT
* ** * * *
20472711 CA-CAGATCT---T-AAGTTGCAG-AGAGCAGATCGCATC-A-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATCAAT
* * * * * * *
20472746 AGTCTTATCTCTCTAAAGTTGCAGTAGTGCAGATTGAATGAACC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATCAA-T
* *
20472790 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAA-AAACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATCAA-T
* ** * *
20472833 AATCCTATCTCTTTGAAGTTACAGTGGAGCGGATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
20472868 AAAATGATGG
Statistics
Matches: 289, Mismatches: 60, Indels: 41
0.74 0.15 0.11
Matches are distributed among these distances:
34 6 0.02
35 11 0.04
36 7 0.02
39 6 0.02
40 33 0.11
41 23 0.08
42 4 0.01
43 44 0.15
44 151 0.52
45 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATCAAT
Found at i:20472636 original size:128 final size:128
Alignment explanation
Indices: 20472457--20472694 Score: 313
Period size: 128 Copynumber: 1.9 Consensus size: 128
20472447 AGATGACGAA
* * * *
20472457 TCTTATCTCCCTAAAGTTGCAGTGGAGCTGATTGAAGTCAATAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGTAAATAATCCTATCTCCCTGAAATTGCA
* * *
20472522 GTGGAGCGGGTT-AA-AATCAC-AAGTCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCCA
66 GTGGAGCAGATTGAAGAA--ACTAA-TCCTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCCA
20472584 G
128 G
* * * *
20472585 TCTTATCTGCCTGAAGTTGCAGTGGAGCAGACTGAA-TAAATCAATCTTATCTCCCTGAAATTGT
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGTAAAT-AATCCTATCTCCCTGAAATTGC
20472649 AGTGGAGCAGATTGAAGAAACTAATCCTATCTCTCTGAAGTTGCAG
65 AGTGGAGCAGATTGAAGAAACTAATCCTATCTCTCTGAAGTTGCAG
20472695 TGGAGCGGAT
Statistics
Matches: 95, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
127 4 0.04
128 85 0.89
129 4 0.04
130 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (128 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGTAAATAATCCTATCTCCCTGAAATTGCA
GTGGAGCAGATTGAAGAAACTAATCCTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCCAG
Found at i:20472818 original size:163 final size:168
Alignment explanation
Indices: 20472455--20472872 Score: 564
Period size: 163 Copynumber: 2.5 Consensus size: 168
20472445 AAAGATGACG
* * * *
20472455 AATCTTATCTCCCTAAAGTTGCAGTGGAGCTGATTGAAGTCAA-TAATCCTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-AAACTAATCCTATCTCTCTGAAGTT
* *
20472519 GCAGTGGAGCGGGTTAAAATCACAAGTCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCCA
65 GCAGTGGAGCGGATTAAAATCACAAG---TA-CTCTCTGAAGTTGCAGAGAGCAGATCGCATCAA
* * *
20472584 GTCTTATCTGCCTGAAGTTGCAGTGGAGCAGACTGAATAAATC
126 GTCTTATCTGCCTAAAGTTGCAGTAGAGCAGACTGAATAAACC
* *
20472627 AATCTTATCTCCCTGAAATTGTAGTGGAGCAGATTGAAGAAACTAATCCTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACTAATCCTATCTCTCTGAAGTTG
*
20472692 CAGTGGAGCGGATGAAAATCAC-AG-A-TCT-T-AAGTTGCAGAGAGCAGATCGCATCAAGTCTT
66 CAGTGGAGCGGATTAAAATCACAAGTACTCTCTGAAGTTGCAGAGAGCAGATCGCATCAAGTCTT
* * *
20472752 ATCT-CTCTAAAGTTGCAGTAGTGCAGATTGAATGAACC
131 ATCTGC-CTAAAGTTGCAGTAGAGCAGACTGAATAAACC
* * *
20472790 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAA-AAACTAATCCTATCTCTTTGAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACTAATCCTATCTCTCTGAAGTTG
20472854 CAGTGGAGCGGATTAAAAT
66 CAGTGGAGCGGATTAAAAT
20472873 GATGGATCTT
Statistics
Matches: 223, Mismatches: 21, Indels: 14
0.86 0.08 0.05
Matches are distributed among these distances:
162 43 0.19
163 95 0.43
164 1 0.00
165 3 0.01
167 1 0.00
171 4 0.02
172 76 0.34
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (168 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACTAATCCTATCTCTCTGAAGTTG
CAGTGGAGCGGATTAAAATCACAAGTACTCTCTGAAGTTGCAGAGAGCAGATCGCATCAAGTCTT
ATCTGCCTAAAGTTGCAGTAGAGCAGACTGAATAAACC
Found at i:20478876 original size:34 final size:36
Alignment explanation
Indices: 20478793--20478904 Score: 115
Period size: 34 Copynumber: 3.1 Consensus size: 36
20478783 AAAATATTTT
* * *
20478793 ATTTCAAAATATAATATGAAATAAAATACTTTAATTTA
1 ATTT-AAAATAAAATATG-AATAAAATATTTTAATATA
* *
20478831 AATTAATATAAAA-A-GAA-AATAATATTTTAATATA
1 ATTTAAAATAAAATATGAATAA-AATATTTTAATATA
*
20478865 ATTTAAAATAAAATATTAATAAAATATTTT-ATATA
1 ATTTAAAATAAAATATGAATAAAATATTTTAATATA
20478900 ATTTA
1 ATTTA
20478905 GACTAAATGA
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
33 2 0.03
34 25 0.40
35 12 0.19
36 11 0.18
37 9 0.15
38 3 0.05
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (36 bp):
ATTTAAAATAAAATATGAATAAAATATTTTAATATA
Found at i:20488653 original size:9 final size:9
Alignment explanation
Indices: 20488639--20488663 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
20488629 CCATTGGTGT
20488639 ATTTTAGGA
1 ATTTTAGGA
20488648 ATTTTAGGA
1 ATTTTAGGA
20488657 ATTTTAG
1 ATTTTAG
20488664 CTCTTAAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (9 bp):
ATTTTAGGA
Found at i:20491996 original size:9 final size:9
Alignment explanation
Indices: 20491982--20492015 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
20491972 AATACTCACA
20491982 CTAAGCTTG
1 CTAAGCTTG
20491991 CTAAGCTTG
1 CTAAGCTTG
20492000 CTAAGCTTG
1 CTAAGCTTG
20492009 CTAAGCT
1 CTAAGCT
20492016 CACCCCATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (9 bp):
CTAAGCTTG
Found at i:20511348 original size:42 final size:43
Alignment explanation
Indices: 20511300--20511385 Score: 147
Period size: 42 Copynumber: 2.0 Consensus size: 43
20511290 ATTTATTTGC
*
20511300 CACACGGCCTGGACACATGCCCATGTCCT-TACCCATGTGGTT
1 CACACGGCCTCGACACATGCCCATGTCCTCTACCCATGTGGTT
*
20511342 CACACGGCCTCGACACATGCCCATGTCCTCTGCCCATGTGGTT
1 CACACGGCCTCGACACATGCCCATGTCCTCTACCCATGTGGTT
20511385 C
1 C
20511386 CGAAACATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 28 0.68
43 13 0.32
ACGTcount: A:0.17, C:0.38, G:0.21, T:0.23
Consensus pattern (43 bp):
CACACGGCCTCGACACATGCCCATGTCCTCTACCCATGTGGTT
Found at i:20511521 original size:105 final size:104
Alignment explanation
Indices: 20511301--20511525 Score: 222
Period size: 105 Copynumber: 2.1 Consensus size: 104
20511291 TTTATTTGCC
* * * ** *
20511301 ACACGGCCTGGACACATGCCCATGTCCTTACCCATGTGGTTCACACGGCCTCGACACATGCCCAT
1 ACAC-GCCTTGACACACGTCCATGTCCTTACCCATGTGCCTCACACGGCCTCGACACACGCCCAT
* * * *
20511366 GTCCTCTGCCCATGTGGTTCCGAAACATAAATAGTGAGTT
65 GTCCTCTGCCCATGTGGTTCCGAAAAAAAAACAGAGAGTT
** * * *
20511406 GGACGTCTTGAACACACGTCCATGTCCTTGCCCATGTGCCTCACACGGCCT-GAGCACACGCCTA
1 ACACGCCTTG-ACACACGTCCATGTCCTTACCCATGTGCCTCACACGGCCTCGA-CACACGCCCA
* * *
20511470 TGTCC-GTGGCCATGTGG-TCCTAAATAAAAAACAGAGAGTT
64 TGTCCTCTGCCCATGTGGTTCCGAAA-AAAAAACAGAGAGTT
20511510 ACACGACCTTGACACA
1 ACACG-CCTTGACACA
20511526 TGCATGTGTC
Statistics
Matches: 95, Mismatches: 21, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
103 6 0.06
104 35 0.37
105 54 0.57
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.22
Consensus pattern (104 bp):
ACACGCCTTGACACACGTCCATGTCCTTACCCATGTGCCTCACACGGCCTCGACACACGCCCATG
TCCTCTGCCCATGTGGTTCCGAAAAAAAAACAGAGAGTT
Found at i:20514672 original size:26 final size:27
Alignment explanation
Indices: 20514643--20514700 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
20514633 GGCTTCCCAG
* *
20514643 ATAACTTCACCAC-TAAGGC-TTTCCGA
1 ATAACTACACCACAT-AGGCTTTTCCAA
20514669 ATAA-TACACCACATAGGCTTTTCCAA
1 ATAACTACACCACATAGGCTTTTCCAA
20514695 ATAACT
1 ATAACT
20514701 CGCTATAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 11 0.41
26 15 0.56
27 1 0.04
ACGTcount: A:0.36, C:0.28, G:0.09, T:0.28
Consensus pattern (27 bp):
ATAACTACACCACATAGGCTTTTCCAA
Found at i:20514686 original size:25 final size:26
Alignment explanation
Indices: 20514650--20514698 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
20514640 CAGATAACTT
*
20514650 CACCACTAAGGC-TTTCCGAATAATA
1 CACCACTAAGGCTTTTCCAAATAATA
20514675 CACCAC-ATAGGCTTTTCCAAATAA
1 CACCACTA-AGGCTTTTCCAAATAA
20514699 CTCGCTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 1 0.05
25 10 0.48
26 10 0.48
ACGTcount: A:0.37, C:0.29, G:0.10, T:0.24
Consensus pattern (26 bp):
CACCACTAAGGCTTTTCCAAATAATA
Found at i:20522203 original size:50 final size:49
Alignment explanation
Indices: 20522149--20522725 Score: 286
Period size: 50 Copynumber: 11.6 Consensus size: 49
20522139 CCTAGGGAGT
* * *
20522149 AAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCCATGTTGGGGAAGC
1 AAGATTCACTGTTGTGGCTTTAATCTTTTTCACTGCCATG-TCGGGAAGC
* * * * * * *
20522199 AAGATTCACAGTTGTGGCGTTAATCTGTTCCACTG-CACCGCCAGGGAAGT
1 AAGATTCACTGTTGTGGCTTTAATCTTTTTCACTGCCA-TGTC-GGGAAGC
* * * *
20522249 AAGATTCATTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
1 AAGATTCACTGTTGTGGCTTTAATCTTTTTCACTGCCATGTC-GGGAAGC
* * * * * * * * * *
20522299 AAGGTTCGCCGTTGTGGCGTTAATCTGTTCCACTG-CACCGCTTGAGAAGT
1 AAGATTCACTGTTGTGGCTTTAATCTTTTTCACTGCCA-TG-TCGGGAAGC
* * * * * *
20522349 AAGATTCGCTGTGGTAGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGA
1 AAGATTCACTGTTGTGGCTTTAATCTTTTTCACTGCCATGTC-GGGAAGC
* * * * * * * * * * *
20522399 AAGGTTCGCTGTTATGGCGTTAATCTGTTCCACT-ACACCGCTTGAGAAGT
1 AAGATTCACTGTTGTGGCTTTAATCTTTTTCACTGCCA-TG-TCGGGAAGC
** * * * *
20522449 AAGATTTGCTGTGGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
1 AAGATTCACTGTTGTGGCTTTAATCTTTTTCACTGCCATGTC-GGGAAGC
* * * * * * * * *
20522499 AAGGTTCGCCGTTGTGGCGTTAATCTTTTCCACTG-CACCGCTTGAGAAGT
1 AAGATTCACTGTTGTGGCTTTAATCTTTTTCACTGCCA-TG-TCGGGAAGC
* * * *
20522549 AAGATTCACTGTGGTAGCTTTAATCTTTTTCACTACAATGTCAGGGAAGC
1 AAGATTCACTGTTGTGGCTTTAATCTTTTTCACTGCCATGTC-GGGAAGC
* * * * * ** *
20522599 AAGGTTCGCCGTTGTGG-TGTTAATCTATTCCACTGCACCACT-T-GACAAGT
1 AAGATTCACTGTTGTGGCT-TTAATCTTTTTCACTG--CCA-TGTCGGGAAGC
* * * *
20522649 AAGATTCACTGTTGTGGCTTTAATCATTTTAACGGCAATGTCGAGGAAGC
1 AAGATTCACTGTTGTGGCTTTAATCTTTTTCACTGCCATGTCG-GGAAGC
*
20522699 AAGATTCACTGTTGTGGCTTTCATCTT
1 AAGATTCACTGTTGTGGCTTTAATCTT
20522726 GTTCCATTGC
Statistics
Matches: 374, Mismatches: 130, Indels: 46
0.68 0.24 0.08
Matches are distributed among these distances:
47 1 0.00
48 3 0.01
49 10 0.03
50 348 0.93
51 8 0.02
52 3 0.01
53 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (49 bp):
AAGATTCACTGTTGTGGCTTTAATCTTTTTCACTGCCATGTCGGGAAGC
Found at i:20522250 original size:100 final size:100
Alignment explanation
Indices: 20522066--20522736 Score: 842
Period size: 100 Copynumber: 6.7 Consensus size: 100
20522056 TTACCCGTTA
* ** * * *** *
20522066 CTTTAATCTGTTTAACTGTGATGTCGAGGAAGCAAGATTCGTTATTGTAGC-TTCAATCTGTTCC
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTT-AATCTGTTCC
* * * * *
20522130 ACTACACTGCCT-AGGGAGTAAGATTCACTGTTGTAG
65 ACTGCACCGCTTGA-GAAGTAAGATTCACTGTGGTAG
* * * * *
20522166 CTTTAATCTTTTTAACTGCCATGTTGGGGAAGCAAGATTCACAGTTGTGGCGTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
** * * *
20522231 CTGCACCGCCAGGGAAGTAAGATTCATTGTTGTAG
66 CTGCACCGCTTGAGAAGTAAGATTCACTGTGGTAG
20522266 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
*
20522331 CTGCACCGCTTGAGAAGTAAGATTCGCTGTGGTAG
66 CTGCACCGCTTGAGAAGTAAGATTCACTGTGGTAG
* * * *
20522366 CTTTAATCTTTTTAACTGCAATGTCAGGGAAGAAAGGTTCGCTGTTATGGCGTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
* **
20522431 CTACACCGCTTGAGAAGTAAGATTTGCTGTGGTAG
66 CTGCACCGCTTGAGAAGTAAGATTCACTGTGGTAG
*
20522466 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTTTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
20522531 CTGCACCGCTTGAGAAGTAAGATTCACTGTGGTAG
66 CTGCACCGCTTGAGAAGTAAGATTCACTGTGGTAG
* * * * *
20522566 CTTTAATCTTTTTCACTACAATGTCAGGGAAGCAAGGTTCGCCGTTGTGGTGTTAATCTATTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
* * * *
20522631 CTGCACCACTTGACAAGTAAGATTCACTGTTGTGG
66 CTGCACCGCTTGAGAAGTAAGATTCACTGTGGTAG
* * * * * * * *
20522666 CTTTAATCATTTTAACGGCAATGTCGAGGAAGCAAGATTCACTGTTGTGGCTTTCATCTTGTTCC
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATC-TGTTCC
*
20522731 ATTGCA
65 ACTGCA
20522737 TTGCCAGGGA
Statistics
Matches: 504, Mismatches: 64, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
100 492 0.98
101 12 0.02
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (100 bp):
CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
CTGCACCGCTTGAGAAGTAAGATTCACTGTGGTAG
Found at i:20525300 original size:15 final size:16
Alignment explanation
Indices: 20525280--20525315 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
20525270 TTGACCTCTC
20525280 CTTTTTCTT-TTTTTT
1 CTTTTTCTTCTTTTTT
20525295 CTTTTTCTTCTTTTTT
1 CTTTTTCTTCTTTTTT
20525311 CTTTT
1 CTTTT
20525316 ATTTTTGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
CTTTTTCTTCTTTTTT
Found at i:20525340 original size:30 final size:31
Alignment explanation
Indices: 20525305--20525364 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
20525295 CTTTTTCTTC
*
20525305 TTTTTTCTTTTATTTTTGATTTTG-ATTTTGA
1 TTTTTT-TTCTATTTTTGATTTTGAATTTTGA
* *
20525336 TTTTTTTTCTTTTTTTTATTTTGAATTTT
1 TTTTTTTTCTATTTTTGATTTTGAATTTT
20525365 TTGAATTGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.12, C:0.03, G:0.07, T:0.78
Consensus pattern (31 bp):
TTTTTTTTCTATTTTTGATTTTGAATTTTGA
Found at i:20526083 original size:35 final size:35
Alignment explanation
Indices: 20526041--20526119 Score: 142
Period size: 35 Copynumber: 2.3 Consensus size: 35
20526031 GTATAAATTC
20526041 ATGAATAATTATTTGTACCATATGATTATGAATGA
1 ATGAATAATTATTTGTACCATATGATTATGAATGA
*
20526076 ATGAATAATAATTTGTACCATATGATTATGAATGA
1 ATGAATAATTATTTGTACCATATGATTATGAATGA
20526111 AT-AATAATT
1 ATGAATAATT
20526120 TGGAAGAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
34 6 0.14
35 36 0.86
ACGTcount: A:0.43, C:0.05, G:0.13, T:0.39
Consensus pattern (35 bp):
ATGAATAATTATTTGTACCATATGATTATGAATGA
Found at i:20545514 original size:6 final size:6
Alignment explanation
Indices: 20545505--20545534 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
20545495 CACCGATCTT
*
20545505 CCCTTT CCCTTC CCCTTC CCCTTC CCCTTC
1 CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC
20545535 GCTTGACACC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (6 bp):
CCCTTC
Found at i:20548576 original size:22 final size:24
Alignment explanation
Indices: 20548526--20548576 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
20548516 TTGCAATGCT
20548526 TTTATATTTTAATAATTGAGTATTA
1 TTTATATTTTAAT-ATTGAGTATTA
20548551 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATAT-TTTAATATTGAGTATTA
20548572 TTTAT
1 TTTAT
20548577 TTATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 4 0.17
24 6 0.25
25 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTATATTTTAATATTGAGTATTA
Found at i:20548726 original size:14 final size:15
Alignment explanation
Indices: 20548704--20548780 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
20548694 CAATCAAACA
20548704 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
20548718 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
20548733 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
20548753 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
20548767 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
20548781 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:20548745 original size:20 final size:20
Alignment explanation
Indices: 20548720--20548759 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
20548710 AATATTTTCC
*
20548720 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
20548740 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
20548760 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:20548765 original size:34 final size:35
Alignment explanation
Indices: 20548708--20548774 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
20548698 CAAACACCAG
*
20548708 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
20548743 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
20548775 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:20548781 original size:14 final size:14
Alignment explanation
Indices: 20548743--20548782 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
20548733 ACAGAAAAGT
*
20548743 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
20548757 AAATCATTTTACGG
1 AAAACATTTTACAG
20548771 AAAACATTTTAC
1 AAAACATTTTAC
20548783 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:20555054 original size:26 final size:27
Alignment explanation
Indices: 20554998--20555083 Score: 129
Period size: 27 Copynumber: 3.2 Consensus size: 27
20554988 ACAAAAGTCA
* * *
20554998 TTGTGGCGAACCATGAAAATAAAGGCT
1 TTGTGGTGAACCATGAAAAGAAAGCCT
*
20555025 TTGTGGTGAACCATG-AAAGAAAGCCC
1 TTGTGGTGAACCATGAAAAGAAAGCCT
20555051 TTGTGGTGAACCATGAAAAGAAAGCCT
1 TTGTGGTGAACCATGAAAAGAAAGCCT
20555078 TTGTGG
1 TTGTGG
20555084 CAAATCTTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
26 23 0.43
27 30 0.57
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (27 bp):
TTGTGGTGAACCATGAAAAGAAAGCCT
Found at i:20555214 original size:27 final size:27
Alignment explanation
Indices: 20555173--20555258 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 27
20555163 CCTCTGTGGA
* *
20555173 GAACTCTAAAAGAATAGTACTCATAGC
1 GAACTCTAAAAGAATGGTACTCATGGC
* *
20555200 GAACCCTAAAGGAATGGTACTCATGGC
1 GAACTCTAAAAGAATGGTACTCATGGC
* * *
20555227 GAACTATAAATGAATGGTATTCATGGC
1 GAACTCTAAAAGAATGGTACTCATGGC
20555254 GAACT
1 GAACT
20555259 ACGAAAGAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.23
Consensus pattern (27 bp):
GAACTCTAAAAGAATGGTACTCATGGC
Found at i:20574690 original size:21 final size:23
Alignment explanation
Indices: 20574666--20574709 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
20574656 TCCTACGGTT
20574666 TTCTT-AACATCAC-ATTTATAC
1 TTCTTAAACATCACAATTTATAC
20574687 TTCTTACAACATCACAATTTATA
1 TTCTTA-AACATCACAATTTATA
20574710 TAAAAAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.25
23 8 0.40
24 7 0.35
ACGTcount: A:0.36, C:0.23, G:0.00, T:0.41
Consensus pattern (23 bp):
TTCTTAAACATCACAATTTATAC
Found at i:20575405 original size:28 final size:28
Alignment explanation
Indices: 20575373--20575430 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
20575363 CAACATGTCC
*
20575373 TTAGTCTAATCGAAAATGAGCAAATTAA
1 TTAGTATAATCGAAAATGAGCAAATTAA
* *
20575401 TTAGTATAATTGGAAATGAGCAAATTAA
1 TTAGTATAATCGAAAATGAGCAAATTAA
20575429 TT
1 TT
20575431 GAAAGACTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.33
Consensus pattern (28 bp):
TTAGTATAATCGAAAATGAGCAAATTAA
Found at i:20581544 original size:6 final size:6
Alignment explanation
Indices: 20581533--20581562 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
20581523 TGAGGACTTC
20581533 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
20581563 TGAGATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:20594382 original size:6 final size:6
Alignment explanation
Indices: 20594371--20594404 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
20594361 ATGTATTAAA
20594371 ATATGT ATATGT ATATGT ATATGT ATATGT ATAT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATAT
20594405 ATGTACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:20594384 original size:18 final size:19
Alignment explanation
Indices: 20594361--20594402 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
20594351 TAAATTATGC
20594361 ATGTATTA-AAATATGTAT
1 ATGTATTATAAATATGTAT
**
20594379 ATGTA-TATGTATATGTAT
1 ATGTATTATAAATATGTAT
20594397 ATGTAT
1 ATGTAT
20594403 ATATGTACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (19 bp):
ATGTATTATAAATATGTAT
Found at i:20594531 original size:14 final size:13
Alignment explanation
Indices: 20594505--20594537 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
20594495 AAAACAAATG
20594505 TATA-AATATATA
1 TATATAATATATA
20594517 TATATAATATAATA
1 TATATAATAT-ATA
20594531 TATATAA
1 TATATAA
20594538 AAGTTAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.21
13 5 0.26
14 10 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
TATATAATATATA
Found at i:20596261 original size:45 final size:45
Alignment explanation
Indices: 20596215--20597140 Score: 925
Period size: 45 Copynumber: 20.7 Consensus size: 45
20596205 CACTACAGGA
* * * *
20596215 AGACAAGATCTGCTATCTTTGATCTACTTCGCCACCAGTATGGGA
1 AGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGG
* * * *** *
20596260 AGACAAGATCTGCTTTCTTCAATCTACTTCA-CGCCAATACATGA
1 AGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGG
* * * * * * *****
20596304 AGACAAGATCTGTTTTAC-TCAATCTGCTTTA-CGCCAATACATAA
1 AGACAAGATCTGCTTT-CTTCGATCTACTTCACCACCAGTATGGGG
* * * * *
20596348 AGATAAGATTTGCTCTCTTCGATCTACTTCGCCACCAGTATGGGA
1 AGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGG
* *
20596393 AGAAAAGATCTGCTTTCTTC-ACTCTACTCCACCACCAGTATGGGG
1 AGACAAGATCTGCTTTCTTCGA-TCTACTTCACCACCAGTATGGGG
* * *
20596438 AGACAAGATCTGATATCTTTGATCTACTTCACCACCAGTATGGGG
1 AGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGG
* *
20596483 AGACAAGATCTGCTTTCTTCAATCTACTCCACCACCAGTATGGGG
1 AGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGG
* * * * *** *
20596528 AGACAAGATCTGGTATCTTCGATCTACTTCA-CGCCAATACATGA
1 AGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGG
* * *
20596572 AGACAAGATCTGTTTTCTTCGATCTACTCCACCACCAATATGGGG
1 AGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGG
* * * * * *** *
20596617 AGACAATATCTGGTATCTTCGATCTACTTCA-CGCCAATACATGA
1 AGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGG
* * *
20596661 AGACAAGATCTGCTTTCTTCGATCTACTCCACCACTAGTATGGAG
1 AGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGG
* *
20596706 AGACAAGATCTGGTATCTTCGATCTACTTCACCACCAGTATGGGG
1 AGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGG
* *
20596751 AGACAAGATCTGCTTTCTTCAATCTACTCCACCACCAGTATGGGG
1 AGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGG
* * * *
20596796 AGATAAGATTTGCTTTCTTCAATCTACTCCACCACCAGTATGGGG
1 AGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGG
* * * * *** *
20596841 AGACAAGATCTGGTATCTTCGATCTACTTCA-CGCCAATACATGA
1 AGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGG
* * * *
20596885 AGACAATATTTGCTTTCTTCGATTTACTCCACCACCAGTATGGGG
1 AGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGG
* *
20596930 AGACAAGATCTGGTATCTTCGATCTACTTCACCACCAGTATGGGG
1 AGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGG
* *
20596975 AGACAAGATCTGCTTTCTTCAATCTACTCCACCACCAGTATGGGG
1 AGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGG
* * * * *** *
20597020 AGACAAGATCTGGTATCTTCGATCTACTTCA-CGCCAATACATGA
1 AGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGG
* *
20597064 AGACAAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGG
1 AGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGG
* *
20597109 AGACAAGATCTG-TTGACTTTGATCTACTTCAC
1 AGACAAGATCTGCTT-TCTTCGATCTACTTCAC
20597141 GCCGATACAT
Statistics
Matches: 722, Mismatches: 149, Indels: 20
0.81 0.17 0.02
Matches are distributed among these distances:
43 1 0.00
44 207 0.29
45 513 0.71
46 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (45 bp):
AGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGG
Found at i:20596600 original size:179 final size:178
Alignment explanation
Indices: 20596212--20597120 Score: 984
Period size: 179 Copynumber: 5.1 Consensus size: 178
20596202 TGCCACTACA
* * * * *
20596212 GGAAGACAAGATCTGCTATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTTTC
1 GGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGCTTTC
* * *** * * * * *
20596277 TTCAATCTACTTCA-CGCCAATACATGAAGACAAGATCTGTTTTAC-TCAATCTGCTTTACGCCA
66 TTCAATCTACTTCACCACCAGTATGGGGAGACAAGATCTGCTTT-CTTCGATCTACTTCACGCCA
* * * * * *
20596340 ATACATAAAGATAAGATTTGCTCTCTTCGATCTACTTCGCCACCAGTATG
130 ATACATGAAGACAAGATCTGGTATCTTCGATCTACTTC-ACACCAGTATG
* * *
20596390 GGAAGAAAAGATCTGCTTTCTTC-ACTCTACTCCACCACCAGTATGGGGAGACAAGATCTGATAT
1 GGAAGACAAGATCTGCTTTCTTCGA-TCTACTCCACCACCAGTATGGGGAGACAAGATCTGCTTT
** * * *
20596454 CTTTGATCTACTTCACCACCAGTATGGGGAGACAAGATCTGCTTTCTTCAATCTACTCCACCACC
65 CTTCAATCTACTTCACCACCAGTATGGGGAGACAAGATCTGCTTTCTTCGATCTACTTCA-CGCC
* *** * * * **
20596519 AGTATGGGGAGACAAGATCTGGTATCTTCGATCTACTTCACGCCAATACA
129 AATACATGAAGACAAGATCTGGTATCTTCGATCTACTTCACACCAGTATG
* * * * * *
20596569 TGAAGACAAGATCTGTTTTCTTCGATCTACTCCACCACCAATATGGGGAGACAATATCTGGTATC
1 GGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGCTTTC
* * * *** * * *
20596634 TTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTAC-TC-CACCAC
66 TTCAATCTACTTCACCACCAGTATGGGGAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAA
*
20596696 TAGTATGGAGAGACAAGATCTGGTATCTTCGATCTACTTCACCACCAGTATG
131 TA-CAT-GA-AGACAAGATCTGGTATCTTCGATCTACTTCA-CACCAGTATG
* * * *
20596748 GGGAGACAAGATCTGCTTTCTTCAATCTACTCCACCACCAGTATGGGGAGATAAGATTTGCTTTC
1 GGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGCTTTC
* * *
20596813 TTCAATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTCGATCTACTTCACGCCAA
66 TTCAATCTACTTCACCACCAGTATGGGGAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAA
* * * * * *
20596878 TACATGAAGACAATATTTGCTTTCTTCGATTTACTCCACCACCAGTATG
131 TACATGAAGACAAGATCTGGTATCTTCGATCTACTTCA-CACCAGTATG
* * * *
20596927 GGGAGACAAGATCTGGTATCTTCGATCTACTTCACCACCAGTATGGGGAGACAAGATCTGCTTTC
1 GGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGCTTTC
* * *
20596992 TTCAATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTCGATCTACTTCACGCCAA
66 TTCAATCTACTTCACCACCAGTATGGGGAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAA
* * *
20597057 TACATGAAGACAAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATG
131 TACATGAAGACAAGATCTGGTATCTTCGATCTACTTCA-CACCAGTATG
*
20597106 GGGAGACAAGATCTG
1 GGAAGACAAGATCTG
20597121 TTGACTTTGA
Statistics
Matches: 621, Mismatches: 98, Indels: 23
0.84 0.13 0.03
Matches are distributed among these distances:
175 7 0.01
176 1 0.00
177 3 0.00
178 132 0.21
179 401 0.65
180 67 0.11
181 4 0.01
182 6 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (178 bp):
GGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGCTTTC
TTCAATCTACTTCACCACCAGTATGGGGAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAA
TACATGAAGACAAGATCTGGTATCTTCGATCTACTTCACACCAGTATG
Found at i:20596759 original size:313 final size:312
Alignment explanation
Indices: 20596215--20597120 Score: 1199
Period size: 313 Copynumber: 2.9 Consensus size: 312
20596205 CACTACAGGA
* * * * * ***
20596215 AGACAAGATCTGCTATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTTTCTTC
1 AGACAAGATCTGGTATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTTC
* * * *** * * * * * *
20596280 AATCTACTTCA-CGCCAATACATGAAGACAAGATCTGTTTTAC-TCAATCTGCTTTACGCCAATA
65 GATCTACTCCACCACCAATATGGGGAGACAAGATCTGGTAT-CTTCGATCTACTTCACGCCAATA
* * * * * * * * *
20596343 CATAAAGATAAGATTTGCTCTCTTCGATCTACTTCGCCACCAGTATGGGAAGAAAAGATCTGCTT
129 CATGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACCAGTATGGG-AGACAAGATCTGGTA
* * * *
20596408 TCTTC-ACTCTACTCCACCACCAGTATGGGGAGACAAGATCTGATATCTTTGATCTACTTCACCA
193 TCTTCGA-TCTACTTCACCACCAGTATGGGGAGACAAGATCTGATTTCTTCGATCTACTCCACCA
20596472 CCAGTATGGGGAGACAAGATCTGCTTTCTTCAATCTACTCCACCACCAGTATGGGG
257 CCAGTATGGGGAGACAAGATCTGCTTTCTTCAATCTACTCCACCACCAGTATGGGG
*
20596528 AGACAAGATCTGGTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCG
1 AGACAAGATCTGGTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCG
*
20596593 ATCTACTCCACCACCAATATGGGGAGACAATATCTGGTATCTTCGATCTACTTCACGCCAATACA
66 ATCTACTCCACCACCAATATGGGGAGACAAGATCTGGTATCTTCGATCTACTTCACGCCAATACA
*
20596658 TGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACTAGTATGGAGAGACAAGATCTGGTATC
131 TGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACCAGTATGG-GAGACAAGATCTGGTATC
* *
20596723 TTCGATCTACTTCACCACCAGTATGGGGAGACAAGATCTGCTTTCTTCAATCTACTCCACCACCA
195 TTCGATCTACTTCACCACCAGTATGGGGAGACAAGATCTGATTTCTTCGATCTACTCCACCACCA
* *
20596788 GTATGGGGAGATAAGATTTGCTTTCTTCAATCTACTCCACCACCAGTATGGGG
260 GTATGGGGAGACAAGATCTGCTTTCTTCAATCTACTCCACCACCAGTATGGGG
* *
20596841 AGACAAGATCTGGTATCTTCGATCTACTTCACGCCAATACATGAAGACAATATTTGCTTTCTTCG
1 AGACAAGATCTGGTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCG
* * * * *
20596906 ATTTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCTTCGATCTACTTCACCACCAGTAT
66 ATCTACTCCACCACCAATATGGGGAGACAAGATCTGGTATCTTCGATCTACTTCA-CGCCAATAC
** * *
20596971 GGGGAGACAAGATCTGCTTTCTTCAATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTAT
130 ATGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACCAGTAT-GGGAGACAAGATCTGGTAT
* * *** * *
20597036 CTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTCCACCACC
194 CTTCGATCTACTTCACCACCAGTATGGGGAGACAAGATCTGATTTCTTCGATCTACTCCACCACC
20597100 AGTATGGGGAGACAAGATCTG
259 AGTATGGGGAGACAAGATCTG
20597121 TTGACTTTGA
Statistics
Matches: 523, Mismatches: 64, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
312 37 0.07
313 404 0.77
314 80 0.15
315 2 0.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (312 bp):
AGACAAGATCTGGTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCG
ATCTACTCCACCACCAATATGGGGAGACAAGATCTGGTATCTTCGATCTACTTCACGCCAATACA
TGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACCAGTATGGGAGACAAGATCTGGTATCT
TCGATCTACTTCACCACCAGTATGGGGAGACAAGATCTGATTTCTTCGATCTACTCCACCACCAG
TATGGGGAGACAAGATCTGCTTTCTTCAATCTACTCCACCACCAGTATGGGG
Found at i:20597250 original size:93 final size:88
Alignment explanation
Indices: 20596258--20597230 Score: 601
Period size: 89 Copynumber: 10.9 Consensus size: 88
20596248 ACCAGTATGG
* * * * * *** * * *
20596258 GAAGACAAGATCTGCTTTCTTCAATCTACTTCA-CGCCAATACATGAAGACAAGATCTGTTTTAC
1 GAAGACAAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTG-TATAT
* * *
20596322 TCAATCTGCTTTACGCCAATACAT
65 TCGATCTACTTCACGCCAATACAT
* * * * * * * * * * *
20596346 AAAGATAAGATTTGCTCTCTTCGATCTACTTCGCCACCAGTATGGGAAGAAAAGATCTGCTTTCT
1 GAAGACAAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTG-TATAT
* * * ***
20596411 TC-ACTCTACTCCACCACCAGTATGG
65 TCGA-TCTACTTCA-CGCCAATACAT
* * * * * * *
20596436 GGAGACAAGATCTGATATCTTTGATCTACTTCACCACCAGTATGGGGAGACAAGATCTGCTTTCT
1 GAAGACAAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTG-TATAT
* * * * ***
20596501 TCAATCTACTCCACCACCAGTATGG
65 TCGATCTACTTCA-CGCCAATACAT
* * * * * * *** * * *
20596526 GGAGACAAGATCTGGTATCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGTTTTCT
1 GAAGACAAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTG-TATAT
* * ***
20596590 TCGATCTACTCCACCACCAATATGG
65 TCGATCTACTTCA-CGCCAATACAT
* * * * * * * *** * * *
20596615 GGAGACAATATCTGGTATCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTTTCT
1 GAAGACAAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTG-TATAT
* * *
20596679 TCGATCTAC-TC-CACCACTAGTAT
65 TCGATCTACTTCACGCCAATA-CAT
* * * *
20596702 GGAGAGACAAGATCTGGTATCTTCGATCTACTTCACCACCAGTATGGGGAGACAAGATCTGCTTT
1 -GA-AGACAAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTG-TAT
* * * * * ***
20596767 CTTCAATCTACTCCACCACCAGTATGG
63 ATTCGATCTACTTCA-CGCCAATACAT
* * * * * *
20596794 GGAGATAAGATTTGCTTTCTTCAATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCT
1 GAAGACAAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCT-GTATAT
20596859 TCGATCTACTTCACGCCAATACAT
65 TCGATCTACTTCACGCCAATACAT
* * * * *
20596883 GAAGACAATATTTGCTTTCTTCGATTTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCT
1 GAAGACAAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCT-GTATAT
* * ***
20596948 TCGATCTACTTCACCACCAGTATGG
65 TCGATCTACTTCA-CGCCAATACAT
* * * *
20596973 GGAGACAAGATCTGCTTTCTTCAATCTACTCCACCACCAGTATGGGGAGACAAGATCTGGTATCT
1 GAAGACAAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCT-GTATAT
20597038 TCGATCTACTTCACGCCAATACAT
65 TCGATCTACTTCACGCCAATACAT
20597062 GAAGACAAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGT-TGAC
1 GAAGACAAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGTAT-A-
* *
20597126 TTTGATCTACTTCACGCCGATACAT
64 TTCGATCTACTTCACGCCAATACAT
* * * * * * *
20597151 GAAGACAAGATCTACTTTTTTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTA
1 GAAGACAAGA--T-CTGTTTT-CTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGTA
*
20597216 TATTCGATCCACTTC
62 TATTCGATCTACTTC
20597231 GCTACCAATA
Statistics
Matches: 752, Mismatches: 113, Indels: 36
0.83 0.13 0.04
Matches are distributed among these distances:
86 7 0.01
87 2 0.00
88 32 0.04
89 351 0.47
90 292 0.39
91 5 0.01
92 18 0.02
93 44 0.06
94 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (88 bp):
GAAGACAAGATCTGTTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGTATATT
CGATCTACTTCACGCCAATACAT
Found at i:20598616 original size:44 final size:44
Alignment explanation
Indices: 20598549--20598636 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
20598539 AGCCTCTCCA
* * * *
20598549 TTTTTTTTTACTCAAGGCTCCCTTTGTAGGGTTTCACCCTGGTC
1 TTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTC
*
20598593 TTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTC
1 TTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTC
20598637 CCACCTTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.12, C:0.25, G:0.18, T:0.44
Consensus pattern (44 bp):
TTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTC
Found at i:20606414 original size:16 final size:16
Alignment explanation
Indices: 20606393--20606444 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
20606383 TTTGGTTCGC
20606393 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
20606409 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
20606425 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
20606441 TGTA
1 TGTA
20606445 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:20606491 original size:45 final size:44
Alignment explanation
Indices: 20606425--20606515 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
20606415 GGATTAGAGG
*
20606425 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
20606470 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
20606514 TG
1 TG
20606516 AAATAGAGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 18 0.44
45 23 0.56
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:20606698 original size:16 final size:15
Alignment explanation
Indices: 20606668--20606704 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
20606658 TTTTAACATA
*
20606668 ATTATTATTAAATAT
1 ATTATAATTAAATAT
20606683 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
20606697 A-TATAATT
1 ATTATAATT
20606705 TTATAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 7 0.33
14 3 0.14
15 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:20607019 original size:24 final size:27
Alignment explanation
Indices: 20606968--20607020 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
20606958 TATATGTAAT
*
20606968 ATTATTAAAATAATATTTTTTATTTTA
1 ATTATTAAAATAATATTTTTTATATTA
*
20606995 ATTATTTAAA-AATA-TTTTTA-ATTA
1 ATTATTAAAATAATATTTTTTATATTA
20607019 AT
1 AT
20607021 GCGGTGTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.21
25 6 0.25
26 4 0.17
27 9 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
ATTATTAAAATAATATTTTTTATATTA
Found at i:20618243 original size:5 final size:5
Alignment explanation
Indices: 20618235--20618264 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
20618225 ATAATTATAT
20618235 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
20618265 GGTTAACATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:20619102 original size:30 final size:29
Alignment explanation
Indices: 20619057--20619124 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 29
20619047 AGCTTTGGCT
*
20619057 ATCGATTAGGAAAAGGGATGGTGACGACC
1 ATCGATTAGGAAAAGGGATGGTGACCACC
* *
20619086 ATCGATTAATGAAAAGGGATGGTTACCACC
1 ATCGATT-AGGAAAAGGGATGGTGACCACC
*
20619116 ATCGTTTAG
1 ATCGATTAG
20619125 CACACTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 8 0.24
30 25 0.76
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.24
Consensus pattern (29 bp):
ATCGATTAGGAAAAGGGATGGTGACCACC
Found at i:20628816 original size:26 final size:26
Alignment explanation
Indices: 20628755--20628821 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 26
20628745 AACCATAACA
* *
20628755 CAAATCAGTCATTTACCCACGAGGAG
1 CAAAACAGTCATTTACCCACCAGGAG
* * *
20628781 CAAAATAGTCATTTACCCTCCAGGGG
1 CAAAACAGTCATTTACCCACCAGGAG
**
20628807 CATTACAGTCATTTA
1 CAAAACAGTCATTTA
20628822 ACAACCTTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (26 bp):
CAAAACAGTCATTTACCCACCAGGAG
Found at i:20639135 original size:27 final size:27
Alignment explanation
Indices: 20639067--20639137 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
20639057 TGGCAACTAA
20639067 GAATAGCCTTTGTGGCAAACTTTGAAAG
1 GAAT-GCCTTTGTGGCAAACTTTGAAAG
* * *
20639095 GAATTCATTTGTGGCAAA-TTCTGAATG
1 GAATGCCTTTGTGGCAAACTT-TGAAAG
*
20639122 GAATGCCTTGGTGGCA
1 GAATGCCTTTGTGGCA
20639138 TACTCTATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
26 2 0.06
27 30 0.83
28 4 0.11
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (27 bp):
GAATGCCTTTGTGGCAAACTTTGAAAG
Found at i:20646705 original size:27 final size:27
Alignment explanation
Indices: 20646651--20646985 Score: 313
Period size: 27 Copynumber: 12.5 Consensus size: 27
20646641 GGTATAACAG
*
20646651 TCATTTTACCCTAT-GA-GGTATTACGA
1 TCATTTTACCC-ATCGAGGGTATTTCGA
* *
20646677 TCATTTTATCCTTCGAGGGTATTTCGA
1 TCATTTTACCCATCGAGGGTATTTCGA
* *
20646704 TCATTTTACCTATTGAGGGTATTTC-A
1 TCATTTTACCCATCGAGGGTATTTCGA
* * *
20646730 GTCATTTTACACATCAAAGGTATTTCGA
1 -TCATTTTACCCATCGAGGGTATTTCGA
* * *
20646758 TCATTTTACCCATTGAGGGTATCTCGG
1 TCATTTTACCCATCGAGGGTATTTCGA
* * *
20646785 TAATTTTACTCATCGAGGGTATTTTGA
1 TCATTTTACCCATCGAGGGTATTTCGA
* *
20646812 TTATTTTACCCATCGAGGGTATTTCAA
1 TCATTTTACCCATCGAGGGTATTTCGA
* * *
20646839 TGATTTTATCCATCGAGGATATTTCGA
1 TCATTTTACCCATCGAGGGTATTTCGA
* * * * *
20646866 CCATTTTACTCATCGAAGGTATTTTGG
1 TCATTTTACCCATCGAGGGTATTTCGA
* *
20646893 TCATTTTACCCATTGAGGGTATTTTGGA
1 TCATTTTACCCATCGAGGGTA-TTTCGA
* *
20646921 -AATTTTATCCATCGAGGGTATTTC-A
1 TCATTTTACCCATCGAGGGTATTTCGA
* * *
20646946 GTCATTTTACCCATTGAGGTTATTTCAA
1 -TCATTTTACCCATCGAGGGTATTTCGA
20646974 TCA-TTTACCCAT
1 TCATTTTACCCAT
20646986 GAATCGCAAG
Statistics
Matches: 247, Mismatches: 54, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
25 2 0.01
26 25 0.10
27 214 0.87
28 6 0.02
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCATCGAGGGTATTTCGA
Found at i:20653847 original size:28 final size:28
Alignment explanation
Indices: 20653815--20653925 Score: 159
Period size: 28 Copynumber: 4.0 Consensus size: 28
20653805 AGTAGCAAAC
* * * *
20653815 TGGGCCTGAGCCCTATACAGCAACGGTG
1 TGGGCCTTAGCCCAATACAGTAACAGTG
20653843 TGGGCCTTAGCCCAATACAGTAACAGTG
1 TGGGCCTTAGCCCAATACAGTAACAGTG
*
20653871 TGGGCCTTAGCCCAATACAATAACAGTG
1 TGGGCCTTAGCCCAATACAGTAACAGTG
* *
20653899 TGGGCCTTAGCCAAATATAGTAACAGT
1 TGGGCCTTAGCCCAATACAGTAACAGT
20653926 ACAATGCAGT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 75 1.00
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (28 bp):
TGGGCCTTAGCCCAATACAGTAACAGTG
Found at i:20654290 original size:27 final size:27
Alignment explanation
Indices: 20654257--20654674 Score: 324
Period size: 27 Copynumber: 15.5 Consensus size: 27
20654247 TGGTATAACA
20654257 GTCATTTTACCCTATAG-GGGTATTTTG
1 GTCATTTTACCC-ATAGAGGGTATTTTG
* * * * **
20654284 GTTATTTTACCCTTCGGGGGTATTTCA
1 GTCATTTTACCCATAGAGGGTATTTTG
* *
20654311 ATCATTTTACCCATGGAGGGTATTTTG
1 GTCATTTTACCCATAGAGGGTATTTTG
* * *
20654338 ATCATTTTACCCATTGATGGTATTTCT-
1 GTCATTTTACCCATAGAGGGTATTT-TG
* * *
20654365 GTCATTTTATCCATCGAGGGTATTTCG
1 GTCATTTTACCCATAGAGGGTATTTTG
* *
20654392 ATCATTTTACCCATCGAGGGTATTTTG
1 GTCATTTTACCCATAGAGGGTATTTTG
* * *
20654419 GTCAGTTTAACCATTGAGGGTATTTTG
1 GTCATTTTACCCATAGAGGGTATTTTG
* *
20654446 GTCATTTAACCCATCA-AGGGTATTTCG
1 GTCATTTTACCCAT-AGAGGGTATTTTG
* * * **
20654473 ATCATTTTATCCATCGAGGGTATTTCA
1 GTCATTTTACCCATAGAGGGTATTTTG
* * * * * **
20654500 ATTATTTTACCAATTGATGGTATTTCA
1 GTCATTTTACCCATAGAGGGTATTTTG
* * * *
20654527 GTCATTTTATCCATCGAGGGAATTTCG
1 GTCATTTTACCCATAGAGGGTATTTTG
* * **
20654554 ATCATTTTACCCATCGAGGGTATTTCC
1 GTCATTTTACCCATAGAGGGTATTTTG
* * *
20654581 ATTATTTTACCCATCGAGGGTATTTTG
1 GTCATTTTACCCATAGAGGGTATTTTG
* * *
20654608 GTCATTTTATCCATCGAGGGTATTTCG
1 GTCATTTTACCCATAGAGGGTATTTTG
* *
20654635 ATCATTTTACCCATCGAGGGT-TTTTCG
1 GTCATTTTACCCATAGAGGGTATTTT-G
20654662 GTCATTTT-CCCAT
1 GTCATTTTACCCAT
20654675 GAATCGCAAG
Statistics
Matches: 321, Mismatches: 64, Indels: 13
0.81 0.16 0.03
Matches are distributed among these distances:
26 10 0.03
27 310 0.97
28 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCATAGAGGGTATTTTG
Found at i:20654316 original size:54 final size:54
Alignment explanation
Indices: 20654258--20654674 Score: 457
Period size: 54 Copynumber: 7.7 Consensus size: 54
20654248 GGTATAACAG
* * * * * *
20654258 TCATTTTACCCTATAG-GGGTATTTTGGTTATTTTACCCTTCGGGGGTATTTCAA
1 TCATTTTACCC-ATCGAGGGTATTTTGATCATTTTACCCATCGAGGGTATTTCGA
* * *
20654312 TCATTTTACCCATGGAGGGTATTTTGATCATTTTACCCATTGATGGTATTTCTG-
1 TCATTTTACCCATCGAGGGTATTTTGATCATTTTACCCATCGAGGGTATTTC-GA
* * * *
20654366 TCATTTTATCCATCGAGGGTATTTCGATCATTTTACCCATCGAGGGTATTTTGG
1 TCATTTTACCCATCGAGGGTATTTTGATCATTTTACCCATCGAGGGTATTTCGA
* * * * * *
20654420 TCAGTTTAACCATTGAGGGTATTTTGGTCATTTAACCCATCAAGGGTATTTCGA
1 TCATTTTACCCATCGAGGGTATTTTGATCATTTTACCCATCGAGGGTATTTCGA
* ** * * * *
20654474 TCATTTTATCCATCGAGGGTATTTCAATTATTTTACCAATTGATGGTATTTC-A
1 TCATTTTACCCATCGAGGGTATTTTGATCATTTTACCCATCGAGGGTATTTCGA
* * * *
20654527 GTCATTTTATCCATCGAGGGAATTTCGATCATTTTACCCATCGAGGGTATTTCCA
1 -TCATTTTACCCATCGAGGGTATTTTGATCATTTTACCCATCGAGGGTATTTCGA
* * *
20654582 TTATTTTACCCATCGAGGGTATTTTGGTCATTTTATCCATCGAGGGTATTTCGA
1 TCATTTTACCCATCGAGGGTATTTTGATCATTTTACCCATCGAGGGTATTTCGA
*
20654636 TCATTTTACCCATCGAGGGT-TTTTCGGTCATTTT-CCCAT
1 TCATTTTACCCATCGAGGGTATTTT-GATCATTTTACCCAT
20654675 GAATCGCAAG
Statistics
Matches: 307, Mismatches: 50, Indels: 13
0.83 0.14 0.04
Matches are distributed among these distances:
53 13 0.04
54 293 0.95
55 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (54 bp):
TCATTTTACCCATCGAGGGTATTTTGATCATTTTACCCATCGAGGGTATTTCGA
Found at i:20654386 original size:81 final size:81
Alignment explanation
Indices: 20654258--20654674 Score: 527
Period size: 81 Copynumber: 5.2 Consensus size: 81
20654248 GGTATAACAG
* * * * * *
20654258 TCATTTTACCCTATAG-GGGTATTTTGGTTATTTTACCCTTCGGGGGTATTTCAATCATTTTACC
1 TCATTTTACCC-ATTGAGGGTATTTTGGTCATTTTATCCATCGAGGGTATTTCGATCATTTTACC
*
20654322 CATGGAGGGTATTTTGA
65 CATCGAGGGTATTTTGA
*
20654339 TCATTTTACCCATTGATGGTATTTCT-GTCATTTTATCCATCGAGGGTATTTCGATCATTTTACC
1 TCATTTTACCCATTGAGGGTATTT-TGGTCATTTTATCCATCGAGGGTATTTCGATCATTTTACC
*
20654403 CATCGAGGGTATTTTGG
65 CATCGAGGGTATTTTGA
* * * * * *
20654420 TCAGTTTAACCATTGAGGGTATTTTGGTCATTTAACCCATCAAGGGTATTTCGATCATTTTATCC
1 TCATTTTACCCATTGAGGGTATTTTGGTCATTTTATCCATCGAGGGTATTTCGATCATTTTACCC
**
20654485 ATCGAGGGTATTTCAA
66 ATCGAGGGTATTTTGA
* * * ** *
20654501 TTATTTTACCAATTGATGGTATTTCAGTCATTTTATCCATCGAGGGAATTTCGATCATTTTACCC
1 TCATTTTACCCATTGAGGGTATTTTGGTCATTTTATCCATCGAGGGTATTTCGATCATTTTACCC
**
20654566 ATCGAGGGTATTTCCA
66 ATCGAGGGTATTTTGA
* *
20654582 TTATTTTACCCATCGAGGGTATTTTGGTCATTTTATCCATCGAGGGTATTTCGATCATTTTACCC
1 TCATTTTACCCATTGAGGGTATTTTGGTCATTTTATCCATCGAGGGTATTTCGATCATTTTACCC
*
20654647 ATCGAGGGT-TTTTCGG
66 ATCGAGGGTATTTT-GA
20654663 TCATTTT-CCCAT
1 TCATTTTACCCAT
20654675 GAATCGCAAG
Statistics
Matches: 290, Mismatches: 42, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
80 12 0.04
81 277 0.96
82 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (81 bp):
TCATTTTACCCATTGAGGGTATTTTGGTCATTTTATCCATCGAGGGTATTTCGATCATTTTACCC
ATCGAGGGTATTTTGA
Found at i:20660131 original size:19 final size:19
Alignment explanation
Indices: 20660107--20660213 Score: 153
Period size: 19 Copynumber: 5.6 Consensus size: 19
20660097 AATCTTCAGG
20660107 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
20660126 GATATGCAATCTTAGATA-
1 GATATGCAATCTTAGATAT
**
20660144 GAATATATAATCTTAGATAT
1 G-ATATGCAATCTTAGATAT
*
20660164 GATACGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
20660183 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
20660202 GATATGCAATCT
1 GATATGCAATCT
20660214 CAGAAGATAT
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
18 1 0.01
19 74 0.97
20 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:20660157 original size:38 final size:38
Alignment explanation
Indices: 20660114--20660213 Score: 175
Period size: 38 Copynumber: 2.6 Consensus size: 38
20660104 AGGGATATGC
20660114 AATCTTAGATATGATATGCAATCTTAGATA-GAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATG-ATATAT
*
20660152 AATCTTAGATATGATACGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
20660190 AATCTTAGATATGATATGCAATCT
1 AATCTTAGATATGATATGCAATCT
20660214 CAGAAGATAT
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
38 58 0.98
39 1 0.02
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATGATATAT
Found at i:20663117 original size:24 final size:24
Alignment explanation
Indices: 20663090--20663135 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
20663080 AGAACAATCC
* *
20663090 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
20663114 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
20663136 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:20667976 original size:132 final size:132
Alignment explanation
Indices: 20667067--20667961 Score: 1481
Period size: 132 Copynumber: 6.8 Consensus size: 132
20667057 TTGACAGCGA
* * *
20667067 AGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGTCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* * *
20667132 TTTACTTCCCTCGACAACAGTGGAATAGATTAAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
20667197 GG
131 GG
* * *
20667199 AGCAGATCGAAGATGGCGGATTTTACCTTCCTGTGGTTATAGTGGAGTACATTGAAGCCAGCAAG
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* *
20667264 TCTACTTCCCTGGGCAACAATGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
20667329 GG
131 GG
20667331 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* *
20667396 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAACAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
20667461 GG
131 GG
20667463 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* * * *
20667528 TCTACTTCTCTGGACAACACTGGAATAGATTAAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
20667593 GG
131 GG
* *
20667595 AGCAGATCGAAGATGGCGGATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* *
20667660 TTTACTTCCCTGGACAACAGTGGAATAGATTAAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
20667725 GG
131 GG
*
20667727 AGCAGATCGAGGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
20667792 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
*
20667857 GT
131 GG
* *
20667859 AGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGT-CAATTGAAGCCAGTAA
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTAC-ATTGAAGCCAGTAA
* * * *
20667923 -CCATA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
65 TTC-TACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT
20667962 GTAAGTCCTA
Statistics
Matches: 719, Mismatches: 41, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
131 3 0.00
132 716 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (132 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
GG
Found at i:20668316 original size:19 final size:19
Alignment explanation
Indices: 20668287--20668378 Score: 130
Period size: 19 Copynumber: 4.8 Consensus size: 19
20668277 AATCTTCAGG
*
20668287 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
* *
20668306 AATATATAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
20668325 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
20668344 GATATATAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
20668363 GATATGCAATCTTAGA
1 GATATACAATCTTAGA
20668379 AGATATGATT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 63 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (19 bp):
GATATACAATCTTAGATAT
Found at i:20668332 original size:38 final size:38
Alignment explanation
Indices: 20668287--20668378 Score: 175
Period size: 38 Copynumber: 2.4 Consensus size: 38
20668277 AATCTTCAGG
20668287 GATATGCAATCTTAGATATAATATATAATCTTAGATAT
1 GATATGCAATCTTAGATATAATATATAATCTTAGATAT
*
20668325 GATATGCAATCTTAGATATGATATATAATCTTAGATAT
1 GATATGCAATCTTAGATATAATATATAATCTTAGATAT
20668363 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
20668379 AGATATGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (38 bp):
GATATGCAATCTTAGATATAATATATAATCTTAGATAT
Found at i:20675275 original size:50 final size:50
Alignment explanation
Indices: 20675200--20675335 Score: 211
Period size: 50 Copynumber: 2.7 Consensus size: 50
20675190 GTGAAGTTGC
* *
20675200 TAGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATG-A
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTAACAG-ATGAA
*
20675250 TAGGTCGCATGTGTAGTACTATGTGCAGGCTACTACGTGTAACAGATGAA
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTAACAGATGAA
*
20675300 AATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 TA-GGTCACATGTGTAGTACTATGTGCAGGCTACTA
20675336 TGTGAATCGG
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
49 3 0.04
50 44 0.56
51 32 0.41
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (50 bp):
TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTAACAGATGAA
Found at i:20675339 original size:26 final size:26
Alignment explanation
Indices: 20675258--20675339 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
20675248 GATAGGTCGC
20675258 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
* * ***
20675284 ACGTGTA--ACAGATGAAAATGG-TCAC-
1 ATGTGTAGTAC-TATGTGCA-GGCT-ACT
20675309 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
20675335 ATGTG
1 ATGTG
20675340 AATCGGGTAT
Statistics
Matches: 39, Mismatches: 10, Indels: 14
0.62 0.16 0.22
Matches are distributed among these distances:
24 2 0.05
25 15 0.38
26 20 0.51
27 2 0.05
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (26 bp):
ATGTGTAGTACTATGTGCAGGCTACT
Found at i:20685759 original size:12 final size:12
Alignment explanation
Indices: 20685742--20685766 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20685732 AGCCATAACC
20685742 CCGATACAACAG
1 CCGATACAACAG
20685754 CCGATACAACAG
1 CCGATACAACAG
20685766 C
1 C
20685767 AAAACTATCA
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:0.40, C:0.36, G:0.16, T:0.08
Consensus pattern (12 bp):
CCGATACAACAG
Found at i:20707157 original size:27 final size:27
Alignment explanation
Indices: 20707127--20707467 Score: 337
Period size: 27 Copynumber: 12.7 Consensus size: 27
20707117 TCATCTCCTA
** *
20707127 GGGGTATAACAGTCATTTTACCTTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
20707154 GGGGTATTTCGGTCATTTTATCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
**
20707181 AAGGTATTTC-GATCATTTTACCCTAT-
1 GGGGTATTTCAG-TCATTTTACCCTATG
* * * *
20707207 GGGGTATTTTAATTAATTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * * *
20707234 AGGGTATTTCGGTCATTTTACCTTATA
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
20707261 GGGGTATTCCAATCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
20707288 GGGGTATTTTAGTCATTTTACCCTATA
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
20707315 AGGGTATTTCAGTCATTTTACCCTATA
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
20707342 GGGGTATTTCGGTCATTTTACCTTACG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * * * *
20707369 AGGGTATTTCGGTTATTTTGCCCTATA
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
20707396 GGGGTATTTCGGTCATTTTATCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
*
20707423 GGAGTATTTC-GATCATTTTACCCTATG
1 GGGGTATTTCAG-TCATTTTACCCTATG
* *
20707450 AGGGTATTTCGGTCATTT
1 GGGGTATTTCAGTCATTT
20707468 ATCGACCTCT
Statistics
Matches: 255, Mismatches: 54, Indels: 10
0.80 0.17 0.03
Matches are distributed among these distances:
26 21 0.08
27 233 0.91
28 1 0.00
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTATG
Found at i:20707187 original size:54 final size:54
Alignment explanation
Indices: 20707138--20707467 Score: 371
Period size: 54 Copynumber: 6.1 Consensus size: 54
20707128 GGGTATAACA
** * *
20707138 GTCATTTTACCTTATGGGGGTATTTCGGTCATTTTATCCTATGAAGGTATTTCG
1 GTCATTTTACCTTATGGGGGTATTTCAATCATTTTACCCTATGAGGGTATTTCG
* * * * *
20707192 ATCATTTTACCCTAT-GGGGTATTTTAATTAATTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCTTATGGGGGTATTTCAATCATTTTACCCTATGAGGGTATTTCG
* * * **
20707245 GTCATTTTACCTTATAGGGGTATTCCAATCATTTTACCCTATGGGGGTATTTTA
1 GTCATTTTACCTTATGGGGGTATTTCAATCATTTTACCCTATGAGGGTATTTCG
* ** *
20707299 GTCATTTTACCCTATAAGGGTATTTCAGTCATTTTACCCTAT-AGGGGTATTTCG
1 GTCATTTTACCTTATGGGGGTATTTCAATCATTTTACCCTATGA-GGGTATTTCG
* * ** * *
20707353 GTCATTTTACCTTACGAGGGTATTTCGGTTATTTTGCCCTAT-AGGGGTATTTCG
1 GTCATTTTACCTTATGGGGGTATTTCAATCATTTTACCCTATGA-GGGTATTTCG
* *
20707407 GTCATTTTATCC-TATGGGAGTATTTCGATCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTA-CCTTATGGGGGTATTTCAATCATTTTACCCTATGAGGGTATTTCG
20707461 GTCATTT
1 GTCATTT
20707468 ATCGACCTCT
Statistics
Matches: 235, Mismatches: 37, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
53 44 0.19
54 188 0.80
55 3 0.01
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.43
Consensus pattern (54 bp):
GTCATTTTACCTTATGGGGGTATTTCAATCATTTTACCCTATGAGGGTATTTCG
Found at i:20707333 original size:81 final size:80
Alignment explanation
Indices: 20707136--20707467 Score: 398
Period size: 81 Copynumber: 4.1 Consensus size: 80
20707126 AGGGGTATAA
* ** *
20707136 CAGTCATTTTACCTTATGGGGGTATTTCGGTCATTTTATCCTATGAAGGTATTTCGATCATTTTA
1 CAGTCATTTTACCCTATAAGGGTATTTCGGTCATTTTATCCTATG-GGGTATTTCGATCATTTTA
20707201 CCCTATG-GGGTATTT
65 CCCTATGAGGGTATTT
* * * * * * *
20707216 TAATTAATTTACCCTATGAGGGTATTTCGGTCATTTTA-CCTTATAGGGGTATTCCAATCATTTT
1 CAGTCATTTTACCCTATAAGGGTATTTCGGTCATTTTATCC-TAT-GGGGTATTTCGATCATTTT
*
20707280 ACCCTATGGGGGTATTT
64 ACCCTATGAGGGTATTT
* * * *
20707297 TAGTCATTTTACCCTATAAGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTA
1 CAGTCATTTTACCCTATAAGGGTATTTCGGTCATTTTATCCTAT-GGGGTATTTCGATCATTTTA
* *
20707362 CCTTACGAGGGTATTT
65 CCCTATGAGGGTATTT
* * * *
20707378 CGGTTATTTTGCCCTATAGGGGTATTTCGGTCATTTTATCCTATGGGAGTATTTCGATCATTTTA
1 CAGTCATTTTACCCTATAAGGGTATTTCGGTCATTTTATCCTATGGG-GTATTTCGATCATTTTA
20707443 CCCTATGAGGGTATTT
65 CCCTATGAGGGTATTT
*
20707459 CGGTCATTT
1 CAGTCATTT
20707468 ATCGACCTCT
Statistics
Matches: 216, Mismatches: 31, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
79 2 0.01
80 61 0.28
81 151 0.70
82 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.43
Consensus pattern (80 bp):
CAGTCATTTTACCCTATAAGGGTATTTCGGTCATTTTATCCTATGGGGTATTTCGATCATTTTAC
CCTATGAGGGTATTT
Found at i:20711093 original size:33 final size:32
Alignment explanation
Indices: 20711022--20711097 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 32
20711012 ACTTTCCCCC
20711022 TCTCTA-TTTTCTCTCAATCTCTCTTTCAATT
1 TCTCTATTTTTCTCTCAATCTCTCTTTCAATT
* * *
20711053 TCTTCTATTTTTCTTTGCAGTCTCT-TTTCCATT
1 TC-TCTATTTTTCTCT-CAATCTCTCTTTCAATT
20711086 TGCTCTATTTTT
1 T-CTCTATTTTT
20711098 TATTTAGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
31 2 0.05
32 4 0.11
33 24 0.63
34 8 0.21
ACGTcount: A:0.12, C:0.25, G:0.04, T:0.59
Consensus pattern (32 bp):
TCTCTATTTTTCTCTCAATCTCTCTTTCAATT
Found at i:20719255 original size:31 final size:30
Alignment explanation
Indices: 20719220--20719286 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
20719210 ACGGTTGGCA
* * *
20719220 TGATTTAAGGAAGATTGGTGGACAGTTTTCT
1 TGATTTAAGGAAGA-GGGTGGAAAGTTTGCT
* *
20719251 TGATTCAAGGGAGAGGGTGGAAAGTTTGCT
1 TGATTTAAGGAAGAGGGTGGAAAGTTTGCT
20719281 TGATTT
1 TGATTT
20719287 GTTGAAAATG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
30 18 0.60
31 12 0.40
ACGTcount: A:0.25, C:0.06, G:0.33, T:0.36
Consensus pattern (30 bp):
TGATTTAAGGAAGAGGGTGGAAAGTTTGCT
Found at i:20728497 original size:11 final size:11
Alignment explanation
Indices: 20728483--20728519 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
20728473 CATATATAAC
20728483 AATATTAAAAT
1 AATATTAAAAT
20728494 AATATTAAAAT
1 AATATTAAAAT
20728505 AATA--AAAAT
1 AATATTAAAAT
20728514 AATATT
1 AATATT
20728520 TGTAATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 9 0.38
11 15 0.62
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AATATTAAAAT
Found at i:20729854 original size:29 final size:30
Alignment explanation
Indices: 20729802--20729891 Score: 96
Period size: 29 Copynumber: 3.0 Consensus size: 30
20729792 TATTATCATT
20729802 TATTATTAATATATTATGAAGAAAATATTAAAA
1 TATTATTAA-ATATTAT--AGAAAATATTAAAA
*
20729835 TATTATTAAA-ATTATAGAAATTA-TAGAAA
1 TATTATTAAATATTATAGAAAATATTA-AAA
* *
20729864 AATTATTAAATATGATA-AAAATATTAAA
1 TATTATTAAATATTATAGAAAATATTAAA
20729892 CAAATACAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
28 2 0.04
29 26 0.52
30 7 0.14
31 5 0.10
32 1 0.02
33 9 0.18
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.38
Consensus pattern (30 bp):
TATTATTAAATATTATAGAAAATATTAAAA
Found at i:20730515 original size:17 final size:17
Alignment explanation
Indices: 20730495--20730540 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
20730485 AGATTAATTA
20730495 TATAAATTATTTAAAAT
1 TATAAATTATTTAAAAT
* *
20730512 TATAAAATAATTAAAAT
1 TATAAATTATTTAAAAT
*
20730529 TACAAATTATTT
1 TATAAATTATTT
20730541 TATAAATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
TATAAATTATTTAAAAT
Found at i:20730545 original size:46 final size:43
Alignment explanation
Indices: 20730424--20730552 Score: 127
Period size: 46 Copynumber: 2.8 Consensus size: 43
20730414 TATTAAATAA
*
20730424 AAAAATAGAAATTATTAAAA-TATTATATAAATTTTAGAAAATTAT
1 AAAAATAGAAA--ATTAAAATTATTATATAAATTTT-TAAAATTAT
*
20730469 AAAAATAGAAAATTATAGATTAATTATATAAATTATTTAAAATTAT
1 AAAAATAGAAAATTA-AAATT-ATTATATAAATT-TTTAAAATTAT
* *
20730515 -AAAATAATTAAAATTACAAATTATTTTATAAATTTTTA
1 AAAAAT-A-GAAAATTA-AAATTATTATATAAATTTTTA
20730553 TCATTTTAAT
Statistics
Matches: 72, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
43 4 0.06
44 2 0.03
45 21 0.29
46 32 0.44
47 13 0.18
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (43 bp):
AAAAATAGAAAATTAAAATTATTATATAAATTTTTAAAATTAT
Found at i:20730558 original size:9 final size:9
Alignment explanation
Indices: 20730538--20730627 Score: 54
Period size: 9 Copynumber: 9.0 Consensus size: 9
20730528 TTACAAATTA
20730538 TTTTATAAAT
1 TTTTAT-AAT
*
20730548 TTTTATCAT
1 TTTTATAAT
*
20730557 TTTAATAAT
1 TTTTATAAT
*
20730566 TTTTATGTTAT
1 TTTTA--TAAT
20730577 TTTCTATAAAAT
1 TTT-TAT--AAT
*
20730589 TTTCTATATT
1 TTT-TATAAT
20730599 TTTTATAAT
1 TTTTATAAT
20730608 ATTTCTATAAT
1 -TTT-TATAAT
*
20730619 TTTAATAAT
1 TTTTATAAT
20730628 CAATCAATTG
Statistics
Matches: 64, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
9 23 0.36
10 18 0.28
11 12 0.19
12 11 0.17
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (9 bp):
TTTTATAAT
Found at i:20730598 original size:21 final size:20
Alignment explanation
Indices: 20730574--20730621 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
20730564 ATTTTTATGT
20730574 TATTTTCTATAAAATTTTCTA
1 TATTTTCTATAAAA-TTTCTA
* *
20730595 TATTTTTTATAATATTTCTA
1 TATTTTCTATAAAATTTCTA
20730615 TAATTTT
1 T-ATTTT
20730622 AATAATCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTCTATAAAATTTCTA
Found at i:20730614 original size:20 final size:21
Alignment explanation
Indices: 20730574--20730627 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
20730564 ATTTTTATGT
* *
20730574 TATTTTCTATAAAATTTTCTA
1 TATTTTTTATAATATTTTCTA
20730595 TATTTTTTATAATA-TTTCTA
1 TATTTTTTATAATATTTTCTA
* *
20730615 TAATTTTAATAAT
1 TATTTTTTATAAT
20730628 CAATCAATTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTTTTTATAATATTTTCTA
Found at i:20732580 original size:22 final size:24
Alignment explanation
Indices: 20732552--20732596 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
20732542 AAATAATATA
20732552 AAAATAAA-AA-TAAATAATTACG
1 AAAATAAAGAAGTAAATAATTACG
20732574 AAAATAAAGTAAGTAAATAATTA
1 AAAATAAAG-AAGTAAATAATTA
20732597 TTTACGAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (24 bp):
AAAATAAAGAAGTAAATAATTACG
Found at i:20736670 original size:27 final size:27
Alignment explanation
Indices: 20736640--20736817 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
20736630 ATATTGAGTC
* *
20736640 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
20736667 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
20736694 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
20736722 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
20736749 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
20736776 CGCACACTTAGTG-TAACATAGTCAAAT
1 CGCACACTTAGTGCT-ACATAATCAACT
20736803 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
20736818 GTACAATTTA
Statistics
Matches: 128, Mismatches: 18, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
27 103 0.80
28 25 0.20
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:20736779 original size:82 final size:81
Alignment explanation
Indices: 20736661--20736816 Score: 226
Period size: 82 Copynumber: 1.9 Consensus size: 81
20736651 TGCTATATAA
*
20736661 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCT-ACATAGTCAAACTCGC
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTG-TAACATAGTCAAA-TCGC
20736725 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * **
20736743 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGTAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGTAACATAGTCAAATCGCA
20736807 CACTTAGTGC
65 CACTTAGTGC
20736817 TGTACAATTT
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
81 17 0.25
82 50 0.75
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGTAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:20744726 original size:27 final size:27
Alignment explanation
Indices: 20744696--20744872 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
20744686 ATATTGAGTC
* *
20744696 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
20744723 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
20744750 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
20744778 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
20744805 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
20744832 CGCACGCTTAGTG-AACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
20744858 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
20744873 GTACAATTTA
Statistics
Matches: 125, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
26 20 0.16
27 82 0.66
28 23 0.18
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:20744788 original size:55 final size:54
Alignment explanation
Indices: 20744696--20744872 Score: 196
Period size: 55 Copynumber: 3.3 Consensus size: 54
20744686 ATATTGAGTC
* * * * *
20744696 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
20744750 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* ** *
20744805 CGCACACTTAGTGC-ATCATATTCATTTCGCACGCTTAGTG-AACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
20744858 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
20744873 GTACAATTTA
Statistics
Matches: 103, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
53 23 0.22
54 35 0.34
55 45 0.44
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:20744835 original size:82 final size:80
Alignment explanation
Indices: 20744717--20744871 Score: 213
Period size: 82 Copynumber: 1.9 Consensus size: 80
20744707 TGCTATATAA
* *
20744717 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTG-AACATAGTCAAA-TCGCA
20744782 CACTTAGTGCCGCATGG
64 CACTTAGTGCCGCATGG
* * ** *
20744799 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACGCTTAGTGAACATAGTCAAATCGCAC
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGAACATAGTCAAATCGCAC
20744863 ACTTAGTGC
65 ACTTAGTGC
20744872 TGTACAATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 15 0.23
81 12 0.18
82 38 0.58
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (80 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGAACATAGTCAAATCGCACA
CTTAGTGCCGCATGG
Found at i:20750602 original size:13 final size:13
Alignment explanation
Indices: 20750584--20750617 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
20750574 AAGCAACCGT
20750584 AAATGGGAATGGG
1 AAATGGGAATGGG
20750597 AAATGGGAATGGG
1 AAATGGGAATGGG
20750610 AAATGGGA
1 AAATGGGA
20750618 GGAGGGGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.44, T:0.15
Consensus pattern (13 bp):
AAATGGGAATGGG
Found at i:20750603 original size:7 final size:7
Alignment explanation
Indices: 20750584--20750617 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
20750574 AAGCAACCGT
20750584 AAATGGG
1 AAATGGG
20750591 -AATGGG
1 AAATGGG
20750597 AAATGGG
1 AAATGGG
20750604 -AATGGG
1 AAATGGG
20750610 AAATGGG
1 AAATGGG
20750617 A
1 A
20750618 GGAGGGGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 12 0.48
7 13 0.52
ACGTcount: A:0.41, C:0.00, G:0.44, T:0.15
Consensus pattern (7 bp):
AAATGGG
Found at i:20750710 original size:60 final size:58
Alignment explanation
Indices: 20750584--20750719 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 58
20750574 AAGCAACCGT
* *
20750584 AAATGGGAATGGGAAATGGGAATGGGAAATGGGAGGAGGGGAATCGATGAAAGAGGAG
1 AAATGGGAATGGGAAATGGGAATGGGAAAGGGGAAGAGGGGAATCGATGAAAGAGGAG
* *
20750642 AAATGGGAATGGGAAATGGGAGGA-GGGCACGGTGGAAGAGGGGAATCGATGGAAA-AGG-G
1 AAATGGGAATGGGAAATGGGA--ATGGGAAAGG-GGAAGAGGGGAATCGAT-GAAAGAGGAG
20750701 AAGATGGGAATGGGGAAAT
1 AA-ATGGGAAT-GGGAAAT
20750720 TGCATTGTAT
Statistics
Matches: 68, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
58 21 0.31
59 8 0.12
60 28 0.41
61 11 0.16
ACGTcount: A:0.38, C:0.03, G:0.47, T:0.12
Consensus pattern (58 bp):
AAATGGGAATGGGAAATGGGAATGGGAAAGGGGAAGAGGGGAATCGATGAAAGAGGAG
Found at i:20750814 original size:29 final size:29
Alignment explanation
Indices: 20750735--20750974 Score: 408
Period size: 29 Copynumber: 8.1 Consensus size: 29
20750725 TGTATTTGTA
*
20750735 TATTTTAAAAATAAAAAAATATATGTAATG
1 TATTTTAAAAAT-AAAAAATATATGTAGTG
20750765 TATTTTAAAAATAAAGAAATATATGTAGTG
1 TATTTTAAAAATAAA-AAATATATGTAGTG
20750795 TATTTTAAAAATAAAAAATATATGTAGTG
1 TATTTTAAAAATAAAAAATATATGTAGTG
20750824 TATTTTAAAAATAAAAAAATATATGTAGTG
1 TATTTTAAAAAT-AAAAAATATATGTAGTG
*
20750854 TATTTTAAAAATAAAAAATATATTTAGTG
1 TATTTTAAAAATAAAAAATATATGTAGTG
*
20750883 TATTTTAAAAATAAAAAATATATGTACTG
1 TATTTTAAAAATAAAAAATATATGTAGTG
20750912 TATTTTAAAAATAAAAAATATATGTAGTG
1 TATTTTAAAAATAAAAAATATATGTAGTG
*
20750941 TATTTTAAAAATAAAAAAATATATGTACTG
1 TATTTTAAAAAT-AAAAAATATATGTAGTG
20750971 TATT
1 TATT
20750975 CGGTTTATTC
Statistics
Matches: 201, Mismatches: 6, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
29 112 0.56
30 89 0.44
ACGTcount: A:0.52, C:0.01, G:0.09, T:0.38
Consensus pattern (29 bp):
TATTTTAAAAATAAAAAATATATGTAGTG
Found at i:20750828 original size:59 final size:59
Alignment explanation
Indices: 20750735--20750974 Score: 419
Period size: 59 Copynumber: 4.1 Consensus size: 59
20750725 TGTATTTGTA
* * *
20750735 TATTTTAAAAATAAAAAAATATATGTAATGTATTTTAAAAATAAAGAAATATATGTAGTG
1 TATTTTAAAAAT-AAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTACTG
*
20750795 TATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTG
1 TATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTACTG
*
20750854 TATTTTAAAAATAAAAAATATATTTAGTGTATTTTAAAAAT-AAAAAATATATGTACTG
1 TATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTACTG
20750912 TATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTACTG
1 TATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTACTG
20750971 TATT
1 TATT
20750975 CGGTTTATTC
Statistics
Matches: 174, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
58 56 0.32
59 106 0.61
60 12 0.07
ACGTcount: A:0.52, C:0.01, G:0.09, T:0.38
Consensus pattern (59 bp):
TATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTACTG
Found at i:20751813 original size:16 final size:16
Alignment explanation
Indices: 20751778--20751834 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
20751768 TTTAAATAAC
*
20751778 TTCTATTATATATCAA
1 TTCTAATATATATCAA
20751794 TTCTAATATGA-AT-AA
1 TTCTAATAT-ATATCAA
*
20751809 CTTCTATTATATATCAA
1 -TTCTAATATATATCAA
20751826 TTCTAATAT
1 TTCTAATAT
20751835 GATGTCCTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
15 3 0.09
16 28 0.82
17 3 0.09
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.47
Consensus pattern (16 bp):
TTCTAATATATATCAA
Found at i:20751813 original size:32 final size:32
Alignment explanation
Indices: 20751772--20751836 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
20751762 AAATAATTTA
20751772 AATAACTTCTATTATATATCAATTCTAATATG
1 AATAACTTCTATTATATATCAATTCTAATATG
20751804 AATAACTTCTATTATATATCAATTCTAATATG
1 AATAACTTCTATTATATATCAATTCTAATATG
20751836 A
1 A
20751837 TGTCCTTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.43
Consensus pattern (32 bp):
AATAACTTCTATTATATATCAATTCTAATATG
Found at i:20751942 original size:21 final size:21
Alignment explanation
Indices: 20751918--20751973 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
20751908 CATTGTTTCT
* *
20751918 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCCACAGTAACC
*
20751939 AATCTCACCGCCACAGTAACT
1 AATCTCACCGCCACAGTAACC
20751960 AATCTCACCGCCAC
1 AATCTCACCGCCAC
20751974 CGCTGTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.30, C:0.43, G:0.09, T:0.18
Consensus pattern (21 bp):
AATCTCACCGCCACAGTAACC
Found at i:20752301 original size:20 final size:20
Alignment explanation
Indices: 20752276--20752317 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
20752266 AACTATTTAA
* *
20752276 ATAATATTACTTGAATAGTT
1 ATAATATTAATTGAATAATT
20752296 ATAATATTAATTGAATAATT
1 ATAATATTAATTGAATAATT
20752316 AT
1 AT
20752318 GTGTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAATTGAATAATT
Found at i:20753927 original size:6 final size:6
Alignment explanation
Indices: 20753918--20753954 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
20753908 AGAGAATTCA
20753918 AGATGC AGATGC AGATGC AGATGC AGATGC AGATGC A
1 AGATGC AGATGC AGATGC AGATGC AGATGC AGATGC A
20753955 ACTTTGATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.35, C:0.16, G:0.32, T:0.16
Consensus pattern (6 bp):
AGATGC
Found at i:20755018 original size:17 final size:17
Alignment explanation
Indices: 20754998--20755030 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20754988 AAAATAAATA
*
20754998 AAGACATAAAAAATAAC
1 AAGAAATAAAAAATAAC
20755015 AAGAAATAAAAAATAA
1 AAGAAATAAAAAATAA
20755031 TAATATAATA
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:0.76, C:0.06, G:0.06, T:0.12
Consensus pattern (17 bp):
AAGAAATAAAAAATAAC
Found at i:20755117 original size:4 final size:4
Alignment explanation
Indices: 20755108--20755141 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
20755098 AAAAGGGAGT
*
20755108 AATA AATA AATA AATG AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AA
20755142 ATTTGTAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:20758426 original size:5 final size:5
Alignment explanation
Indices: 20758405--20758477 Score: 80
Period size: 5 Copynumber: 14.4 Consensus size: 5
20758395 TTACTTTATT
20758405 TAATA TATATAA TAATA TAATA TAATA TAATA TAAT- TAATA TAATA TATTATA
1 TAATA TA-AT-A TAATA TAATA TAATA TAATA TAATA TAATA TAATA TA--ATA
*
20758458 TTATA TAATA -AA-A TAATA TA
1 TAATA TAATA TAATA TAATA TA
20758478 CATAACATAA
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
3 1 0.02
4 8 0.14
5 39 0.66
6 4 0.07
7 7 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAATA
Found at i:20758464 original size:36 final size:36
Alignment explanation
Indices: 20758404--20758472 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
20758394 TTTACTTTAT
*
20758404 TTAATATATATAATAATATAATATAATATAATATAA
1 TTAATATATATAATAATATAATATAATAAAATATAA
* *
20758440 TTAATATA-ATATATTATATTATATAATAAAATA
1 TTAATATATATA-ATAATATAATATAATAAAATA
20758473 ATATACATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 3 0.10
36 26 0.90
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (36 bp):
TTAATATATATAATAATATAATATAATAAAATATAA
Found at i:20758487 original size:14 final size:13
Alignment explanation
Indices: 20758405--20758487 Score: 62
Period size: 14 Copynumber: 6.2 Consensus size: 13
20758395 TTACTTTATT
*
20758405 TAATAT-ATATAA
1 TAATATAATAAAA
20758417 TAATATAATATAATA
1 TAATATAATA-AA-A
*
20758432 TAATATAATTAATA
1 TAATATAA-TAAAA
* *
20758446 TAATAT-ATTATA
1 TAATATAATAAAA
*
20758458 TTATATAATAAAA
1 TAATATAATAAAA
*
20758471 TAATATACATAACA
1 TAATATA-ATAAAA
20758485 TAA
1 TAA
20758488 AAATCTCATA
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
12 15 0.26
13 14 0.25
14 16 0.28
15 10 0.18
16 2 0.04
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (13 bp):
TAATATAATAAAA
Found at i:20759610 original size:42 final size:41
Alignment explanation
Indices: 20759476--20759631 Score: 147
Period size: 43 Copynumber: 3.7 Consensus size: 41
20759466 CTCGGTGGAT
*
20759476 TCAACACTTAGCAACCACC-ATAAATTCAGTGATACGAGGAA
1 TCAACACTTAGCAACC-CCTTTAAATTCAGTGATACGAGGAA
* * * *
20759517 TCAACACATAGCAACCCCTTTCACAATTAAG-GATTCGGTGGAA
1 TCAACACTTAGCAACCCCTTT-A-AATTCAGTGATAC-GAGGAA
*
20759560 TCAACACTTAGCAACCACCTTTATATTCAGTGATAC-AGGGAA
1 TCAACACTTAGCAACC-CCTTTAAATTCAGTGATACGA-GGAA
** * *
20759602 TCGGCACTTAGCAACCCTTTTATATTCAGT
1 TCAACACTTAGCAACCCCTTTAAATTCAGT
20759632 ATATTCCGGC
Statistics
Matches: 95, Mismatches: 13, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
40 2 0.02
41 29 0.31
42 28 0.29
43 31 0.33
44 5 0.05
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.26
Consensus pattern (41 bp):
TCAACACTTAGCAACCCCTTTAAATTCAGTGATACGAGGAA
Found at i:20759774 original size:26 final size:26
Alignment explanation
Indices: 20759744--20759793 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
20759734 GTCAATAATC
*
20759744 CGGGGAATCAACATTTAGCAACCCCT
1 CGGGGAATCAACACTTAGCAACCCCT
*
20759770 CGGGGAATCAGCACTTAGCAACCC
1 CGGGGAATCAACACTTAGCAACCC
20759794 TTTTAGAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.30, C:0.32, G:0.22, T:0.16
Consensus pattern (26 bp):
CGGGGAATCAACACTTAGCAACCCCT
Found at i:20759818 original size:67 final size:67
Alignment explanation
Indices: 20759708--20759865 Score: 244
Period size: 67 Copynumber: 2.3 Consensus size: 67
20759698 ATACGGTGGG
* * * *
20759708 ATCAGCACTTAGCAACCACCTTTAGAGTCAATAATCCGGGGAATCAACATTTAGCAACCCCTCGG
1 ATCAGCACTTAGCAACC-CTTTTAGAGTCAATAATCCGCGGAATCAACACTTAGCAACCCCTCAG
*
20759773 GGA
65 GAA
* *
20759776 ATCAGCACTTAGCAACCCTTTTAGAGTCAATAATTCGCGGAATCAGCACTTAGCAACCCCTCAGG
1 ATCAGCACTTAGCAACCCTTTTAGAGTCAATAATCCGCGGAATCAACACTTAGCAACCCCTCAGG
20759841 AA
66 AA
20759843 ATCAGCACTTAGCAACCCTTTTA
1 ATCAGCACTTAGCAACCCTTTTA
20759866 TATTCAGTAT
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
67 66 0.80
68 17 0.20
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (67 bp):
ATCAGCACTTAGCAACCCTTTTAGAGTCAATAATCCGCGGAATCAACACTTAGCAACCCCTCAGG
AA
Found at i:20766975 original size:8 final size:7
Alignment explanation
Indices: 20766955--20766989 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
20766945 GGTATTCTAC
20766955 TTTTTCT
1 TTTTTCT
20766962 TTTTTCT
1 TTTTTCT
20766969 TTGTTTCTT
1 TT-TTTC-T
20766978 TTTTTCT
1 TTTTTCT
20766985 TTTTT
1 TTTTT
20766990 AGAATCTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 15 0.58
8 8 0.31
9 3 0.12
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (7 bp):
TTTTTCT
Found at i:20766977 original size:15 final size:16
Alignment explanation
Indices: 20766957--20766986 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20766947 TATTCTACTT
20766957 TTTC-TTTTTTCTTTG
1 TTTCTTTTTTTCTTTG
20766972 TTTCTTTTTTTCTTT
1 TTTCTTTTTTTCTTT
20766987 TTTAGAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.83
Consensus pattern (16 bp):
TTTCTTTTTTTCTTTG
Found at i:20769909 original size:59 final size:57
Alignment explanation
Indices: 20769843--20770031 Score: 152
Period size: 59 Copynumber: 3.2 Consensus size: 57
20769833 ATTTTATTAA
20769843 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTAT-TTTTATAGT
* * ** * *
20769902 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * * *
20769963 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
20770022 ATCATATATT
1 ATCATATATT
20770032 ATTATTTGAG
Statistics
Matches: 99, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
59 20 0.20
60 8 0.08
61 10 0.10
63 4 0.04
64 5 0.05
65 6 0.06
66 17 0.17
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATTTTTATAGT
Found at i:20769940 original size:66 final size:64
Alignment explanation
Indices: 20769870--20770068 Score: 186
Period size: 66 Copynumber: 3.2 Consensus size: 64
20769860 AAATATATTT
*
20769870 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
20769935 G
64 G
* * * * **
20769936 AATATTAATTATTAAGAATT-TTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTATTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAG
* *
20769990 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
20770055 G
64 G
*
20770056 AATATTGATTATT
1 AATATTAATTATT
20770069 AAGAATTTTA
Statistics
Matches: 102, Mismatches: 17, Indels: 29
0.69 0.11 0.20
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
58 1 0.01
59 10 0.10
60 9 0.09
61 10 0.10
62 1 0.01
63 3 0.03
64 5 0.05
65 7 0.07
66 27 0.26
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (64 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAG
Found at i:20769962 original size:120 final size:120
Alignment explanation
Indices: 20769832--20770129 Score: 483
Period size: 120 Copynumber: 2.5 Consensus size: 120
20769822 AATTATTTTA
* * *
20769832 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTATATTT
20769896 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
20769952 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
20770017 ATAGTATCATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
20770072 AATTTTATTAAATTC-TATATTTTAATTATAATATATCTAATAATAATTATGTTTAAAT
1 AATTTTATTAAA-TCATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
20770130 ATGATTAAAT
Statistics
Matches: 165, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
120 157 0.95
121 8 0.05
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:20769972 original size:61 final size:61
Alignment explanation
Indices: 20769905--20770092 Score: 183
Period size: 61 Copynumber: 3.1 Consensus size: 61
20769895 TTATAGTATC
*
20769905 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * *
20769966 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATTATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
20770024 C
61 T
*
20770025 ATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
*
20770086 CTATATT
1 ATATATT
20770093 TTAATTATAA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 18 0.19
60 17 0.18
61 24 0.25
62 7 0.07
63 11 0.11
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:20769992 original size:15 final size:15
Alignment explanation
Indices: 20769957--20770008 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
20769947 TTAAGAATTT
*
20769957 TATTAAATTAT-ATA
1 TATTTAATTATAATA
20769971 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
20769985 TATTTAATAATAAT-
1 TATTTAATTATAATA
20769999 TATGTTAATT
1 TAT-TTAATT
20770009 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:20770367 original size:16 final size:16
Alignment explanation
Indices: 20770343--20770394 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
20770333 GATTTGCTAT
20770343 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
20770359 TACAACTCTAATCCAA
1 TACACCTCTAATCCAA
20770375 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
20770391 TACA
1 TACA
20770395 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.40, C:0.35, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:20771178 original size:17 final size:17
Alignment explanation
Indices: 20771164--20771230 Score: 107
Period size: 17 Copynumber: 3.9 Consensus size: 17
20771154 TAATTCAATT
20771164 CCTAGAGTTCATCAAAC
1 CCTAGAGTTCATCAAAC
20771181 CCTAGAGTTCATCAAAC
1 CCTAGAGTTCATCAAAC
*
20771198 CCTAGAGTTCACCAAAC
1 CCTAGAGTTCATCAAAC
* *
20771215 CTTAGAGTTCACCAAA
1 CCTAGAGTTCATCAAA
20771231 TGAAAAATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 48 1.00
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.22
Consensus pattern (17 bp):
CCTAGAGTTCATCAAAC
Found at i:20775410 original size:22 final size:23
Alignment explanation
Indices: 20775385--20775435 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
20775375 CACGTATATT
*
20775385 TTAAAAT-ATATCAAACATTT-CA
1 TTAAAATGA-ATCAAACATTTGAA
*
20775407 TTAAAATGAGTCAAACATTTGAA
1 TTAAAATGAATCAAACATTTGAA
20775430 TTAAAA
1 TTAAAA
20775436 CCATCAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.33
Consensus pattern (23 bp):
TTAAAATGAATCAAACATTTGAA
Found at i:20775442 original size:22 final size:21
Alignment explanation
Indices: 20775394--20775443 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
20775384 TTTAAAATAT
* **
20775394 ATCAAACATTTCATTAAAATG
1 ATCAAACATTTAATTAAAACC
20775415 AGTCAAACATTTGAATTAAAACC
1 A-TCAAACATTT-AATTAAAACC
20775438 ATCAAA
1 ATCAAA
20775444 ATTGATGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 15 0.62
23 8 0.33
ACGTcount: A:0.50, C:0.16, G:0.06, T:0.28
Consensus pattern (21 bp):
ATCAAACATTTAATTAAAACC
Found at i:20777085 original size:50 final size:50
Alignment explanation
Indices: 20776967--20777247 Score: 269
Period size: 50 Copynumber: 5.5 Consensus size: 50
20776957 ATGCCAAATC
* ** * *
20776967 CATGTCCCAGACATGGTCTTACATGGAATGTTTCATGTAC--TGCCAATGT
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGGTGCCAATGT
* * * ** * *
20777016 CATATCCCAGATATAGTCTTACATGGGAGTTCTCATATCGGTGCCCATGT
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGT
* ** * *
20777066 CATGTCCCAAACATGGTCTTACGGGGGACCTCTTATCTCGGTGCCAATGC
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGT
* * *
20777116 CATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGATGCCAACGT
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGT
* * * *
20777166 CATGTCCCAGACATGGTTTTACATGAGACCTCTCATGATCTCAAGGATACCAATGC
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG-TGCCAATGT
20777222 CATGTCCCAGACATGGTCTTACATGG
1 CATGTCCCAGACATGGTCTTACATGG
20777248 AATCTCTTTA
Statistics
Matches: 186, Mismatches: 38, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
48 1 0.01
49 30 0.16
50 120 0.65
53 4 0.02
55 1 0.01
56 30 0.16
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGT
Found at i:20779837 original size:28 final size:28
Alignment explanation
Indices: 20779806--20779909 Score: 88
Period size: 28 Copynumber: 3.8 Consensus size: 28
20779796 TAAAAAATAA
*
20779806 AATAAACATACATTACCAAAACTATCTT
1 AATAAACATACACTACCAAAACTATCTT
* ** ** ** *
20779834 AATACACA-ATTCTAATAATTCTA-CTAA
1 AATAAACATACACTACCAAAACTATCT-T
*
20779861 AATAAACATGCACTACCAAAACTATCTT
1 AATAAACATACACTACCAAAACTATCTT
20779889 AATAAACATACACTA-CAAAAC
1 AATAAACATACACTACCAAAAC
20779910 AAACATACAT
Statistics
Matches: 54, Mismatches: 19, Indels: 7
0.68 0.24 0.09
Matches are distributed among these distances:
26 2 0.04
27 21 0.39
28 29 0.54
29 2 0.04
ACGTcount: A:0.51, C:0.22, G:0.01, T:0.26
Consensus pattern (28 bp):
AATAAACATACACTACCAAAACTATCTT
Found at i:20779921 original size:28 final size:28
Alignment explanation
Indices: 20779861--20779921 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
20779851 ATTCTACTAA
* * * *
20779861 AATAAACATGCACTACCAAAACTATCTT
1 AATAAACATACACTACCAAAACAAACAT
20779889 AATAAACATACACTA-CAAAACAAACAT
1 AATAAACATACACTACCAAAACAAACAT
20779916 ACATAA
1 A-ATAA
20779922 TTCTAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 10 0.36
28 18 0.64
ACGTcount: A:0.56, C:0.23, G:0.02, T:0.20
Consensus pattern (28 bp):
AATAAACATACACTACCAAAACAAACAT
Found at i:20781585 original size:19 final size:19
Alignment explanation
Indices: 20781561--20781597 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
20781551 TCATTTAAAA
20781561 ATTTTAAAAAATAAAAATC
1 ATTTTAAAAAATAAAAATC
* *
20781580 ATTTTAGAAAATTAAAAT
1 ATTTTAAAAAATAAAAAT
20781598 TATTAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (19 bp):
ATTTTAAAAAATAAAAATC
Found at i:20786439 original size:29 final size:30
Alignment explanation
Indices: 20786374--20786439 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
20786364 TACAAACTCC
*
20786374 ACTTGATTGCATTAATATAAGTAAATTATT
1 ACTTGATTGCATTAATATAAATAAATTATT
** *
20786404 TGTTGATTGTATTAATATAAAT-AATTATT
1 ACTTGATTGCATTAATATAAATAAATTATT
20786433 ACTTGAT
1 ACTTGAT
20786440 AGACGTAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 12 0.40
30 18 0.60
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.47
Consensus pattern (30 bp):
ACTTGATTGCATTAATATAAATAAATTATT
Found at i:20787384 original size:18 final size:19
Alignment explanation
Indices: 20787363--20787409 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
20787353 GTCATTTATA
20787363 AAAATATTTTAATT-CAAT
1 AAAATATTTTAATTACAAT
20787381 AAAA-ATATTTAATTACAAT
1 AAAATAT-TTTAATTACAAT
*
20787400 GAAAT-TTTTA
1 AAAATATTTTA
20787410 TTATTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 2 0.08
18 15 0.60
19 8 0.32
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (19 bp):
AAAATATTTTAATTACAAT
Found at i:20787384 original size:19 final size:19
Alignment explanation
Indices: 20787360--20787399 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
20787350 AAAGTCATTT
20787360 ATAAAAATATTTTAATT-CA
1 ATAAAAATA-TTTAATTACA
20787379 ATAAAAATATTTAATTACA
1 ATAAAAATATTTAATTACA
20787398 AT
1 AT
20787400 GAAATTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAAAAATATTTAATTACA
Found at i:20789436 original size:13 final size:13
Alignment explanation
Indices: 20789403--20789448 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
20789393 TTTTACAAAA
*
20789403 TTTTCTTTCTT-T
1 TTTTCTTTATTAT
*
20789415 ATTTCTTTATTAT
1 TTTTCTTTATTAT
20789428 TTTTCTTTATTAT
1 TTTTCTTTATTAT
20789441 TTGTTCTT
1 TT-TTCTT
20789449 AAAATTCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 9 0.31
13 15 0.52
14 5 0.17
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.76
Consensus pattern (13 bp):
TTTTCTTTATTAT
Found at i:20795847 original size:12 final size:11
Alignment explanation
Indices: 20795806--20795863 Score: 54
Period size: 11 Copynumber: 5.6 Consensus size: 11
20795796 AAAAAAGGAC
20795806 TTTAAAAATAT
1 TTTAAAAATAT
20795817 TTT--AAA-A-
1 TTTAAAAATAT
*
20795824 -TTAAAAAAAT
1 TTTAAAAATAT
20795834 TTTAAAAAGTAT
1 TTTAAAAA-TAT
*
20795846 TTGAAAAATAT
1 TTTAAAAATAT
20795857 TTTAAAA
1 TTTAAAA
20795864 TTAAAAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
6 2 0.05
8 4 0.11
9 4 0.11
11 19 0.50
12 9 0.24
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (11 bp):
TTTAAAAATAT
Found at i:20795912 original size:16 final size:16
Alignment explanation
Indices: 20795850--20795935 Score: 56
Period size: 16 Copynumber: 5.6 Consensus size: 16
20795840 AAGTATTTGA
*
20795850 AAAATATTTTAAAATT
1 AAAATATTTTAAAAAT
* **
20795866 AAAAAATAATAAAAAT
1 AAAATATTTTAAAAAT
*
20795882 AAAGTATTTT----A-
1 AAAATATTTTAAAAAT
*
20795893 AAAATATTTTAAAATT
1 AAAATATTTTAAAAAT
*
20795909 AAAAAAATTTTAAAAAT
1 -AAAATATTTTAAAAAT
20795926 AAATATATTT
1 AAA-ATATTT
20795936 ATTATATCGG
Statistics
Matches: 50, Mismatches: 13, Indels: 13
0.66 0.17 0.17
Matches are distributed among these distances:
11 9 0.18
12 1 0.02
16 21 0.42
17 19 0.38
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (16 bp):
AAAATATTTTAAAAAT
Found at i:20796977 original size:9 final size:9
Alignment explanation
Indices: 20796965--20797031 Score: 50
Period size: 9 Copynumber: 7.3 Consensus size: 9
20796955 ATTTAGACTA
20796965 TTTTTATAT
1 TTTTTATAT
20796974 TTTTTATAT
1 TTTTTATAT
20796983 TTCTTT-T-T
1 TT-TTTATAT
20796991 TTTTGTA-ATT
1 TTTT-TATA-T
* *
20797001 TTTTTAAAA
1 TTTTTATAT
*
20797010 TTTTAACTAT
1 TTTTTA-TAT
20797020 TTTTTATAT
1 TTTTTATAT
20797029 TTT
1 TTT
20797032 GAAATATACA
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
7 2 0.04
8 4 0.09
9 25 0.54
10 15 0.33
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.73
Consensus pattern (9 bp):
TTTTTATAT
Found at i:20798362 original size:7 final size:7
Alignment explanation
Indices: 20798350--20798385 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
20798340 GACTGTCGGT
20798350 CCTTTTA
1 CCTTTTA
20798357 CCTTTTA
1 CCTTTTA
20798364 CCTTTTA
1 CCTTTTA
20798371 CCTTTTA
1 CCTTTTA
20798378 CCTTTTA
1 CCTTTTA
20798385 C
1 C
20798386 TTTCAAGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.14, C:0.31, G:0.00, T:0.56
Consensus pattern (7 bp):
CCTTTTA
Found at i:20811726 original size:18 final size:19
Alignment explanation
Indices: 20811688--20811726 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
20811678 GGAACTGATA
* *
20811688 CATAAAATTTTATAATGTT
1 CATAAAATTTTAAAATATT
20811707 CATAAAA-TTTAAAATATT
1 CATAAAATTTTAAAATATT
20811725 CA
1 CA
20811727 ATGAGCGCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (19 bp):
CATAAAATTTTAAAATATT
Found at i:20814393 original size:16 final size:18
Alignment explanation
Indices: 20814372--20814405 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
20814362 CTTTGAGAAG
20814372 CTCAAG-TC-TGTTCTGA
1 CTCAAGCTCTTGTTCTGA
20814388 CTCAAGCTCTTGTTCTGA
1 CTCAAGCTCTTGTTCTGA
20814406 TACAACCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 2 0.12
18 8 0.50
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (18 bp):
CTCAAGCTCTTGTTCTGA
Found at i:20829706 original size:13 final size:13
Alignment explanation
Indices: 20829688--20829712 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20829678 TCCCAATCAA
20829688 TTTCTTTACTATC
1 TTTCTTTACTATC
20829701 TTTCTTTACTAT
1 TTTCTTTACTAT
20829713 TTGTGATAAC
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:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTCTTTACTATC
Found at i:20830901 original size:44 final size:44
Alignment explanation
Indices: 20830782--20831046 Score: 140
Period size: 44 Copynumber: 5.8 Consensus size: 44
20830772 GGAAATGGTG
* * *
20830782 AATCTTATCTCCCTGATGTTACAGTGGAGCAAATTGAAGCCAGA
1 AATCTTATCTCCCTGAGGTTACTGTGGAGCAGATTGAAGCCAGA
* * * * * *
20830826 AATCTTATCTCCATGAGATTA-TAGCGAAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGGTTACT-GTGGAGCAGATTGAAGCCAGA
* ***
20830870 AATCCTATCTCCCTGAGGTTACTGTGGAGCAGATT-AAAATA-A
1 AATCTTATCTCCCTGAGGTTACTGTGGAGCAGATTGAAGCCAGA
* * *
20830912 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGA
1 A--ATCTTATCTCCCTGAGGTTAC--T---GT-G---G-AGCAGATTGAAGCCAGA
* * *** * * *
20830968 AATCTTATCTCTCTGAGATTACAACGGAGCAGATTTAAGCTAGT
1 AATCTTATCTCCCTGAGGTTACTGTGGAGCAGATTGAAGCCAGA
* ** *
20831012 AATCCTATCTCCCAAAGGTTACAGTGGAGCAGATT
1 AATCTTATCTCCCTGAGGTTACTGTGGAGCAGATT
20831047 AAAATAAATG
Statistics
Matches: 165, Mismatches: 40, Indels: 32
0.70 0.17 0.14
Matches are distributed among these distances:
42 1 0.01
43 4 0.02
44 121 0.73
45 2 0.01
46 1 0.01
48 1 0.01
49 2 0.01
50 1 0.01
53 1 0.01
54 26 0.16
55 3 0.02
56 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGGTTACTGTGGAGCAGATTGAAGCCAGA
Found at i:20831001 original size:142 final size:142
Alignment explanation
Indices: 20830814--20831120 Score: 492
Period size: 142 Copynumber: 2.2 Consensus size: 142
20830804 AGTGGAGCAA
* *
20830814 ATTGAAGCCAGAAATCTTATCTCCATGAGATTATAGCGAAGCAGATTGAAGCTAGTAATCCTATC
1 ATTGAAGCCAGAAATCTTATCTCCATGAGATTACAACGAAGCAGATTGAAGCTAGTAATCCTATC
** *
20830879 TCCCTGAGGTTACTGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
66 TCCCAAAGGTTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
20830944 AGATCGCATCAG
131 AGATCGCATCAG
* *
20830956 ATTGAAGCCAGAAATCTTATCTCTC-TGAGATTACAACGGAGCAGATTTAAGCTAGTAATCCTAT
1 ATTGAAGCCAGAAATCTTATCTC-CATGAGATTACAACGAAGCAGATTGAAGCTAGTAATCCTAT
*
20831020 CTCCCAAAGGTTACAGTGGAGCAGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGTAGAG
65 CTCCCAAAGGTTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAG
* *
20831085 TAGATCGTATTAG
130 TAGATCGCATCAG
*
20831098 ATTGAAGCCAGGAATCTTA-CTCC
1 ATTGAAGCCAGAAATCTTATCTCC
20831121 CCAAGCGGTG
Statistics
Matches: 153, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
140 1 0.01
141 3 0.02
142 148 0.97
143 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29
Consensus pattern (142 bp):
ATTGAAGCCAGAAATCTTATCTCCATGAGATTACAACGAAGCAGATTGAAGCTAGTAATCCTATC
TCCCAAAGGTTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
AGATCGCATCAG
Done.