Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 244 of 427
Found at i:69411684 original size:20 final size:19
Alignment explanation
Indices: 69411661--69411711 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
69411651 TATGATATAC
*
69411661 ATAACATATATAAAATAATA
1 ATAA-ATATATAAAATAAAA
* *
69411681 ATAAGTAATATAGAATAAAA
1 ATAAAT-ATATAAAATAAAA
69411701 ATAAA-ATATAA
1 ATAAATATATAA
69411712 TAAATGTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
18 5 0.20
19 1 0.04
20 19 0.76
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (19 bp):
ATAAATATATAAAATAAAA
Found at i:69411714 original size:30 final size:31
Alignment explanation
Indices: 69411611--69411733 Score: 88
Period size: 30 Copynumber: 3.7 Consensus size: 31
69411601 TTTAAAATTT
*
69411611 TAAATAATATAATGAATAATAAATAATATAATAGA
1 TAAATAATAT-A-GAATAA-AAATAAAATAATA-A
*
69411646 TAATATATGATATA-CATAACATATATAAAATAATAA
1 TAA-ATA--ATATAGAATAA-A-A-ATAAAATAATAA
*
69411682 TAAGTAATATAGAATAAAAATAAAAT-ATAA
1 TAAATAATATAGAATAAAAATAAAATAATAA
** *
69411712 TAAATGTTATATAATAAAAATA
1 TAAATAATATAGAATAAAAATA
69411734 TAATTTGGAT
Statistics
Matches: 73, Mismatches: 9, Indels: 17
0.74 0.09 0.17
Matches are distributed among these distances:
30 22 0.30
31 7 0.10
32 1 0.01
33 6 0.08
34 4 0.05
35 10 0.14
36 8 0.11
37 11 0.15
38 4 0.05
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (31 bp):
TAAATAATATAGAATAAAAATAAAATAATAA
Found at i:69411928 original size:37 final size:35
Alignment explanation
Indices: 69411843--69411946 Score: 113
Period size: 35 Copynumber: 2.9 Consensus size: 35
69411833 TAATACAAGT
*
69411843 AAAAT-ATAATAATAATATATAAAAATAATGATGG
1 AAAATAATAATAATAATATATAAAAATAATGATCG
* *
69411877 AAAATAATAATAATAATTTGTAAAAAATAAT-ATACG
1 AAAATAATAATAATAATATAT-AAAAATAATGAT-CG
69411913 ATAAATAATAATAATATATATATGATAAAATAAT
1 A-AAATAATAATAATA-ATATAT-A-AAAATAAT
69411947 CTTATAGTGT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
34 5 0.09
35 15 0.26
36 11 0.19
37 14 0.24
38 5 0.09
39 8 0.14
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.32
Consensus pattern (35 bp):
AAAATAATAATAATAATATATAAAAATAATGATCG
Found at i:69418338 original size:23 final size:24
Alignment explanation
Indices: 69418215--69418342 Score: 79
Period size: 23 Copynumber: 5.4 Consensus size: 24
69418205 GGACCCACCA
*
69418215 CAGCTCG-TATGAGCTTACCGATATAT
1 CAGCTCGATAAGAGCTTACC-A-AT-T
* * *
69418241 CAGCTTGA-AAGAGCTTACTATTTT
1 CAGCTCGATAAGAGCTTACCA-ATT
* ** *
69418265 TAGCTC-ATTGGAGCTTACCATTT
1 CAGCTCGATAAGAGCTTACCAATT
* **
69418288 AAGCTCG-TAAGAGCTTACTGA-T
1 CAGCTCGATAAGAGCTTACCAATT
69418310 CAGCTCGATAA-AGCTTACCAATT
1 CAGCTCGATAAGAGCTTACCAATT
69418333 CAGCTCGATA
1 CAGCTCGATA
69418343 GAACTTATTG
Statistics
Matches: 79, Mismatches: 18, Indels: 13
0.72 0.16 0.12
Matches are distributed among these distances:
22 15 0.19
23 32 0.41
24 14 0.18
25 3 0.04
26 15 0.19
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (24 bp):
CAGCTCGATAAGAGCTTACCAATT
Found at i:69419222 original size:28 final size:28
Alignment explanation
Indices: 69419190--69419254 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
69419180 TATGTCTATA
69419190 GCCCGTGTCCCTCACACAGCCATGACAC
1 GCCCGTGTCCCTCACACAGCCATGACAC
*
69419218 GCCCGTGTCCCTCACACGGCCATGACAC
1 GCCCGTGTCCCTCACACAGCCATGACAC
*
69419246 ACCCGTGTC
1 GCCCGTGTC
69419255 ACAGCCCTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.18, C:0.46, G:0.20, T:0.15
Consensus pattern (28 bp):
GCCCGTGTCCCTCACACAGCCATGACAC
Found at i:69420489 original size:49 final size:49
Alignment explanation
Indices: 69420420--69420553 Score: 166
Period size: 49 Copynumber: 2.7 Consensus size: 49
69420410 GCACATCAAA
* **
69420420 GTCGATGCCGTGTCCTAGACAGGTCTTACACTGACTTTCATATATCGA-
1 GTCGATGCCATGTCCTAGACAGGTCTTACACTGACAATCATATATCGAT
*
69420468 GATCGATGCCATGTTCC-AGACAGGTCTTACACT-AGCAATCATCTATCGAT
1 G-TCGATGCCATG-TCCTAGACAGGTCTTACACTGA-CAATCATATATCGAT
* *
69420518 GCCGATGCCATGTCCTAGACAGGTCTTACAATGACA
1 GTCGATGCCATGTCCTAGACAGGTCTTACACTGACA
69420554 CACAACAAAC
Statistics
Matches: 74, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
48 5 0.07
49 64 0.86
50 5 0.07
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (49 bp):
GTCGATGCCATGTCCTAGACAGGTCTTACACTGACAATCATATATCGAT
Found at i:69427075 original size:59 final size:59
Alignment explanation
Indices: 69427011--69427137 Score: 227
Period size: 59 Copynumber: 2.2 Consensus size: 59
69427001 CAATCATATT
*
69427011 ATTAAATTAACTTTAAAAATAATATAAAATTACAGTTAAAAAGTTGTCCTACTTTTTAA
1 ATTAAATTAACTTTAAAAATAATATAAAATTACAGTTAAAAAGTTGTCCTACTTTTAAA
* *
69427070 TTTAAATTAACTTTAAAAATAATATAAAATTATAGTTAAAAAGTTGTCCTACTTTTAAA
1 ATTAAATTAACTTTAAAAATAATATAAAATTACAGTTAAAAAGTTGTCCTACTTTTAAA
69427129 ATTAAATTA
1 ATTAAATTA
69427138 TTACTTGAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 64 1.00
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (59 bp):
ATTAAATTAACTTTAAAAATAATATAAAATTACAGTTAAAAAGTTGTCCTACTTTTAAA
Found at i:69427470 original size:15 final size:15
Alignment explanation
Indices: 69427450--69427483 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
69427440 ACATACATGC
*
69427450 TCTACTCTATTCTGT
1 TCTACTCAATTCTGT
*
69427465 TCTACTCAATTTTGT
1 TCTACTCAATTCTGT
69427480 TCTA
1 TCTA
69427484 TTCTGTTCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.24, G:0.06, T:0.53
Consensus pattern (15 bp):
TCTACTCAATTCTGT
Found at i:69429768 original size:42 final size:42
Alignment explanation
Indices: 69429719--69429903 Score: 244
Period size: 42 Copynumber: 4.4 Consensus size: 42
69429709 CCACACGACC
* * * * *
69429719 AAGGACATAGACGTGTACCCAGGTCGTGTGAGCCACACAGGT
1 AAGGACATGGGCGTGTGCCCAGGTCGTGTAAGCCACACGGGT
*
69429761 AAGGACATGGGCGTGTGCCCAGGTCGTGTGAGCCACACGGGT
1 AAGGACATGGGCGTGTGCCCAGGTCGTGTAAGCCACACGGGT
* * *
69429803 AAAGACATGGGCATGTGCCCAGGTTGTGTAAGCCACACGGGT
1 AAGGACATGGGCGTGTGCCCAGGTCGTGTAAGCCACACGGGT
* * *
69429845 AAGGACATGGGCGTGTGCCCGGGTCATATAAGCCACACGGGT
1 AAGGACATGGGCGTGTGCCCAGGTCGTGTAAGCCACACGGGT
* *
69429887 AAAGACATGGGCATGTG
1 AAGGACATGGGCGTGTG
69429904 TTCAGGCTGT
Statistics
Matches: 127, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 127 1.00
ACGTcount: A:0.25, C:0.22, G:0.35, T:0.17
Consensus pattern (42 bp):
AAGGACATGGGCGTGTGCCCAGGTCGTGTAAGCCACACGGGT
Found at i:69429850 original size:84 final size:84
Alignment explanation
Indices: 69429736--69429917 Score: 274
Period size: 84 Copynumber: 2.2 Consensus size: 84
69429726 TAGACGTGTA
* * * * *
69429736 CCCAGGTCGTGTGAGCCACACAGGTAAGGACATGGGCGTGTGCCCAGGTCGTGTGAGCCACACGG
1 CCCAGGTTGTGTAAGCCACACAGGTAAGGACATGGGCGTGTGCCCAGGTCATATAAGCCACACGG
69429801 GTAAAGACATGGGCATGTG
66 GTAAAGACATGGGCATGTG
* *
69429820 CCCAGGTTGTGTAAGCCACACGGGTAAGGACATGGGCGTGTGCCCGGGTCATATAAGCCACACGG
1 CCCAGGTTGTGTAAGCCACACAGGTAAGGACATGGGCGTGTGCCCAGGTCATATAAGCCACACGG
69429885 GTAAAGACATGGGCATGTG
66 GTAAAGACATGGGCATGTG
** *
69429904 TTCAGGCTGTGTAA
1 CCCAGGTTGTGTAA
69429918 CTCACTGTTT
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 88 1.00
ACGTcount: A:0.24, C:0.23, G:0.35, T:0.19
Consensus pattern (84 bp):
CCCAGGTTGTGTAAGCCACACAGGTAAGGACATGGGCGTGTGCCCAGGTCATATAAGCCACACGG
GTAAAGACATGGGCATGTG
Found at i:69430024 original size:42 final size:42
Alignment explanation
Indices: 69429954--69430041 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
69429944 CAAGTAGATA
*
69429954 ACATAGGCGTGTGCCCAGGCCGTATGAGCCACACGAGCAAGG
1 ACATAGGCGTGTGCCCAAGCCGTATGAGCCACACGAGCAAGG
*
69429996 ACATAGGCGTGTGCCCAAGCTC-TGTGAGCCACACGAGCAAGG
1 ACATAGGCGTGTGCCCAAGC-CGTATGAGCCACACGAGCAAGG
69430038 ACAT
1 ACAT
69430042 GAACGTGTGT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
42 42 0.98
43 1 0.02
ACGTcount: A:0.27, C:0.28, G:0.31, T:0.14
Consensus pattern (42 bp):
ACATAGGCGTGTGCCCAAGCCGTATGAGCCACACGAGCAAGG
Found at i:69432804 original size:23 final size:23
Alignment explanation
Indices: 69432782--69432826 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
69432772 GACATGATTA
*
69432782 ATCAAATA-TATATATTTTTATT
1 ATCAAATACAATATATTTTTATT
* *
69432804 ATTAACTACAATATATTTTTATT
1 ATCAAATACAATATATTTTTATT
69432827 TTTTACTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (23 bp):
ATCAAATACAATATATTTTTATT
Found at i:69432968 original size:16 final size:16
Alignment explanation
Indices: 69432935--69432984 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
69432925 TACCAACTTC
69432935 TTTTATTTATAAATTATT
1 TTTTATTT-TAAA-TATT
*
69432953 TTTTATTTTGAATATT
1 TTTTATTTTAAATATT
* *
69432969 ATTTATATTAAATATT
1 TTTTATTTTAAATATT
69432985 AAATATTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 17 0.61
17 3 0.11
18 8 0.29
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
TTTTATTTTAAATATT
Found at i:69433154 original size:20 final size:21
Alignment explanation
Indices: 69433107--69433154 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
69433097 TATAATTTAT
69433107 TTTTA-TTTTTTACTTGGCAC
1 TTTTATTTTTTTACTTGGCAC
* *
69433127 TATT-TTTTTTTACTTGGTA-
1 TTTTATTTTTTTACTTGGCAC
69433146 TTTTATTTT
1 TTTTATTTT
69433155 ATTGTTAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (21 bp):
TTTTATTTTTTTACTTGGCAC
Found at i:69439301 original size:26 final size:26
Alignment explanation
Indices: 69439265--69439348 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
69439255 CATGAAATTC
69439265 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
69439291 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
69439317 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
69439343 TTATCA
1 TTATCA
69439349 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:69440302 original size:30 final size:31
Alignment explanation
Indices: 69440268--69440334 Score: 102
Period size: 30 Copynumber: 2.2 Consensus size: 31
69440258 ACCACTAACA
69440268 ATTTTTC-GTTACAAACATAACGGAGCTACC
1 ATTTTTCTGTTACAAACATAACGGAGCTACC
* *
69440298 A-TTTTCTGTTACAAACTTAACGGAGCTGCC
1 ATTTTTCTGTTACAAACATAACGGAGCTACC
69440328 ATTTTTC
1 ATTTTTC
69440335 ATCCCACTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 5 0.15
30 23 0.70
31 5 0.15
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.36
Consensus pattern (31 bp):
ATTTTTCTGTTACAAACATAACGGAGCTACC
Found at i:69453809 original size:31 final size:31
Alignment explanation
Indices: 69453774--69453834 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
69453764 AATGAAAAAA
69453774 CACCTCTGACTGATTTTTCATAAAATATATT
1 CACCTCTGACTGATTTTTCATAAAATATATT
*
69453805 CACCTCTGAGTGATTTTTCATAAAATATAT
1 CACCTCTGACTGATTTTTCATAAAATATAT
69453835 CCATGTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (31 bp):
CACCTCTGACTGATTTTTCATAAAATATATT
Found at i:69455507 original size:31 final size:31
Alignment explanation
Indices: 69455470--69455579 Score: 85
Period size: 31 Copynumber: 3.4 Consensus size: 31
69455460 CTTCTCCCTC
69455470 TTTTTCATTCTCACGTCTGAAGCAACTTCTT
1 TTTTTCATTCTCACGTCTGAAGCAACTTCTT
* * * **** *
69455501 TTTTTCATTCTTCCCATTTCCTTCCAACCTCTCCCTC
1 TTTTTCATTC-TCACGTCT-GAAGCAA-CT-T--CTT
*
69455538 TTTTTCATTCTCACGTCTGAAGCATCTTCTT
1 TTTTTCATTCTCACGTCTGAAGCAACTTCTT
69455569 TTTTTCATTCT
1 TTTTTCATTCT
69455580 TCTTCCCATT
Statistics
Matches: 56, Mismatches: 17, Indels: 12
0.66 0.20 0.14
Matches are distributed among these distances:
31 23 0.41
32 5 0.09
33 4 0.07
34 4 0.07
35 3 0.05
36 5 0.09
37 12 0.21
ACGTcount: A:0.15, C:0.31, G:0.05, T:0.49
Consensus pattern (31 bp):
TTTTTCATTCTCACGTCTGAAGCAACTTCTT
Found at i:69455542 original size:68 final size:70
Alignment explanation
Indices: 69455459--69455617 Score: 268
Period size: 68 Copynumber: 2.3 Consensus size: 70
69455449 TCAACTTTAC
69455459 CCTTCTCCCTCTTTTTCATTCTCACGTCTGAAGCAACTTCTTTTTTTCA-TTCTTCCCATTTCCT
1 CCTTCTCCCTCTTTTTCATTCTCACGTCTGAAGCAACTTCTTTTTTTCATTTCTTCCCATTTCCT
69455523 TCCAA
66 TCCAA
*
69455528 CC-TCTCCCTCTTTTTCATTCTCACGTCTGAAGCATCTTCTTTTTTTCATTCTTCTTCCCATTTC
1 CCTTCTCCCTCTTTTTCATTCTCACGTCTGAAGCAACTTCTTTTTTTCA-T-TTCTTCCCATTTC
69455592 CTTCCAA
64 CTTCCAA
*
69455599 CCTTCTCACTCTTTTTCAT
1 CCTTCTCCCTCTTTTTCAT
69455618 GCTTCTATCC
Statistics
Matches: 84, Mismatches: 2, Indels: 5
0.92 0.02 0.05
Matches are distributed among these distances:
68 45 0.54
69 2 0.02
71 22 0.26
72 15 0.18
ACGTcount: A:0.13, C:0.35, G:0.04, T:0.48
Consensus pattern (70 bp):
CCTTCTCCCTCTTTTTCATTCTCACGTCTGAAGCAACTTCTTTTTTTCATTTCTTCCCATTTCCT
TCCAA
Found at i:69460863 original size:33 final size:33
Alignment explanation
Indices: 69460821--69460908 Score: 176
Period size: 33 Copynumber: 2.7 Consensus size: 33
69460811 CATGAATCTA
69460821 TTTGGATTTGATCAAATTGGTTCATCATGGATG
1 TTTGGATTTGATCAAATTGGTTCATCATGGATG
69460854 TTTGGATTTGATCAAATTGGTTCATCATGGATG
1 TTTGGATTTGATCAAATTGGTTCATCATGGATG
69460887 TTTGGATTTGATCAAATTGGTT
1 TTTGGATTTGATCAAATTGGTT
69460909 GGTTTAATCA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (33 bp):
TTTGGATTTGATCAAATTGGTTCATCATGGATG
Found at i:69460990 original size:44 final size:43
Alignment explanation
Indices: 69460925--69461011 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 43
69460915 ATCAGGAATT
*
69460925 GGTTGAGTATCAAGTTAGAAAAGACATCAAATTGGTTGCCTTA
1 GGTTGAGTATCAAGTTAGAAAAGACATCAAATTGGTCGCCTTA
* * *
69460968 GGTTGGGTATCCAAGTTGGAAAAGGCATCAAATTGGTCGCCTTA
1 GGTTGAGTAT-CAAGTTAGAAAAGACATCAAATTGGTCGCCTTA
69461012 TGTATTTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 9 0.23
44 30 0.77
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (43 bp):
GGTTGAGTATCAAGTTAGAAAAGACATCAAATTGGTCGCCTTA
Found at i:69461525 original size:57 final size:55
Alignment explanation
Indices: 69461394--69461527 Score: 155
Period size: 57 Copynumber: 2.4 Consensus size: 55
69461384 TTAATTCATA
* * ** *
69461394 TAATAATAATTAGATTAAGAATGTTATTAAATTATATTTTTTTATTAAATTATATT
1 TAATAATAATTATATTAA-AATATGGTTAAATTATATTATTTTATTAAATTATATT
*
69461450 TAATAATAATTATGTTAAAATATGGTTAAATTATTTATTATTTTATTAAATTAT-TT
1 TAATAATAATTATATTAAAATATGGTTAAATTA--TATTATTTTATTAAATTATATT
69461506 TCAATAATAATCT-TATTAAAAT
1 T-AATAATAAT-TATATTAAAAT
69461528 TTAATAACAA
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
55 12 0.18
56 19 0.28
57 35 0.52
58 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (55 bp):
TAATAATAATTATATTAAAATATGGTTAAATTATATTATTTTATTAAATTATATT
Found at i:69471062 original size:40 final size:40
Alignment explanation
Indices: 69471003--69471110 Score: 189
Period size: 40 Copynumber: 2.7 Consensus size: 40
69470993 AACCAGTACA
* *
69471003 AATGCCTTTGGGACGTAACCCGGTTATAATAACCCGCACG
1 AATGCCTTCGGGACTTAACCCGGTTATAATAACCCGCACG
69471043 AATGCCTTCGGGACTTAACCCGGTTATAATAACCCGCACG
1 AATGCCTTCGGGACTTAACCCGGTTATAATAACCCGCACG
*
69471083 AATGCCTTCGGGACTTAACCCGATTATA
1 AATGCCTTCGGGACTTAACCCGGTTATA
69471111 TTTTTTTTTC
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGTTATAATAACCCGCACG
Found at i:69478130 original size:20 final size:19
Alignment explanation
Indices: 69478093--69478132 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
69478083 CTATATACAA
*
69478093 TTCAGTGTCTCTATTTGCAC
1 TTCAGTGCCTCTA-TTGCAC
69478113 TTCAGTGCCTCTGATTGCAC
1 TTCAGTGCCTCT-ATTGCAC
69478133 ATTTGTGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.15, C:0.28, G:0.17, T:0.40
Consensus pattern (19 bp):
TTCAGTGCCTCTATTGCAC
Found at i:69478164 original size:20 final size:20
Alignment explanation
Indices: 69478117--69478164 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
69478107 TTGCACTTCA
*
69478117 GTGCCTCTGATTGCACATTT
1 GTGCCTCTGATTGCACATTG
* *
69478137 GTGGCTCTGGTTGCAC-TATG
1 GTGCCTCTGATTGCACAT-TG
69478157 GTGCCTCT
1 GTGCCTCT
69478165 ATATAGCATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.10, C:0.25, G:0.27, T:0.38
Consensus pattern (20 bp):
GTGCCTCTGATTGCACATTG
Found at i:69488135 original size:42 final size:42
Alignment explanation
Indices: 69488083--69488167 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 42
69488073 GAGACATGGC
*
69488083 CGTGACTGGAGCCGTGTGAGGCAC-TGAGCCTGTTCATACGAG
1 CGTGACTGGAGCCGTGTGAGGCACATG-GCCTGTTCACACGAG
* *
69488125 CGTGTCTGGAGTCGTGTGAGGCACATGGCCTGTTCACACGAG
1 CGTGACTGGAGCCGTGTGAGGCACATGGCCTGTTCACACGAG
69488167 C
1 C
69488168 ATTCGTATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
42 37 0.95
43 2 0.05
ACGTcount: A:0.18, C:0.25, G:0.35, T:0.22
Consensus pattern (42 bp):
CGTGACTGGAGCCGTGTGAGGCACATGGCCTGTTCACACGAG
Found at i:69490873 original size:30 final size:30
Alignment explanation
Indices: 69490832--69490930 Score: 126
Period size: 30 Copynumber: 3.3 Consensus size: 30
69490822 GTTGCTCTAA
* **
69490832 GTGAAATGAACTCGAACCGCTTATGTTCGG
1 GTGATATGAACTCGAACCGCCAATGTTCGG
* * * *
69490862 GTGATATGAACTCGAGCCGCCCATGTCCGA
1 GTGATATGAACTCGAACCGCCAATGTTCGG
*
69490892 GTGATATGAACTTGAACCGCCAATGTTCGG
1 GTGATATGAACTCGAACCGCCAATGTTCGG
69490922 GTGATATGA
1 GTGATATGA
69490931 TGTGCTCTGC
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (30 bp):
GTGATATGAACTCGAACCGCCAATGTTCGG
Found at i:69493516 original size:19 final size:17
Alignment explanation
Indices: 69493482--69493552 Score: 70
Period size: 19 Copynumber: 3.8 Consensus size: 17
69493472 AACCTTTTTT
*
69493482 AATATATGTATTTTAAAA
1 AATATAT-TTTTTTAAAA
69493500 AAGTCATATTTTTTTAAAA
1 AA-T-ATATTTTTTTAAAA
*
69493519 AATAAATCCTTTTTTAAAAA
1 AATATAT--TTTTTT-AAAA
69493539 AATATATTTTTTTA
1 AATATATTTTTTTA
69493553 TTTTTTAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
17 4 0.09
18 9 0.20
19 18 0.40
20 14 0.31
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (17 bp):
AATATATTTTTTTAAAA
Found at i:69493598 original size:25 final size:24
Alignment explanation
Indices: 69493527--69493599 Score: 58
Period size: 25 Copynumber: 3.0 Consensus size: 24
69493517 AAAATAAATC
*
69493527 CTTTTTTAAA-AAAATATATTTTT
1 CTTTTTTAAATAAAATATATTTTA
* * * * *
69493550 TTATTTTTTAATTAATTAAGATTTTA
1 CT-TTTTTAAATAAAAT-ATATTTTA
69493576 CTTTTTTAAATAAAATATCATTTT
1 CTTTTTTAAATAAAATAT-ATTTT
69493600 TTAAAATTTT
Statistics
Matches: 35, Mismatches: 11, Indels: 6
0.67 0.21 0.12
Matches are distributed among these distances:
23 1 0.03
24 8 0.23
25 19 0.54
26 7 0.20
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (24 bp):
CTTTTTTAAATAAAATATATTTTA
Found at i:69493695 original size:24 final size:25
Alignment explanation
Indices: 69493668--69493716 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
69493658 ATCATAATTT
* *
69493668 AAATAATT-ATATGTAAAATTAAAA
1 AAATAATTAAAATATAAAATTAAAA
69493692 AAATAATTAAAATATAAAATTAAAA
1 AAATAATTAAAATATAAAATTAAAA
69493717 TATACATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (25 bp):
AAATAATTAAAATATAAAATTAAAA
Found at i:69493727 original size:13 final size:13
Alignment explanation
Indices: 69493681--69493720 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
69493671 TAATTATATG
69493681 TAAAATTAAAA-A
1 TAAAATTAAAATA
69493693 -AATAATTAAAATA
1 TAA-AATTAAAATA
69493706 TAAAATTAAAATA
1 TAAAATTAAAATA
69493719 TA
1 TA
69493721 CATTTAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.08
12 8 0.32
13 13 0.52
14 2 0.08
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
TAAAATTAAAATA
Found at i:69493809 original size:12 final size:12
Alignment explanation
Indices: 69493792--69493879 Score: 59
Period size: 12 Copynumber: 7.8 Consensus size: 12
69493782 TGTTTTATAT
69493792 TATTTAAAAATA
1 TATTTAAAAATA
69493804 TATTT--AAA-A
1 TATTTAAAAATA
69493813 T-TTTAAAAATAA
1 TATTTAAAAAT-A
69493825 TATTT-AAAAT-
1 TATTTAAAAATA
*
69493835 T-TTAAAAAATA
1 TATTTAAAAATA
69493846 -ATTTCAAAAATA
1 TATTT-AAAAATA
*
69493858 TATATTCAAAAT-
1 TAT-TTAAAAATA
*
69493870 TTTTTAAAAA
1 TATTTAAAAA
69493880 AAATTATAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 23
0.68 0.06 0.26
Matches are distributed among these distances:
8 3 0.05
9 4 0.07
10 12 0.20
11 8 0.13
12 21 0.35
13 10 0.17
14 2 0.03
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (12 bp):
TATTTAAAAATA
Found at i:69493845 original size:22 final size:21
Alignment explanation
Indices: 69493794--69493847 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
69493784 TTTTATATTA
69493794 TTTAAAAAT-ATATTTAAAAT
1 TTTAAAAATAATATTTAAAAT
69493814 TTTAAAAATAATATTTAAAAT
1 TTTAAAAATAATATTTAAAAT
69493835 TTTAAAAAATAAT
1 TTT-AAAAATAAT
69493848 TTCAAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 9 0.28
21 14 0.44
22 9 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TTTAAAAATAATATTTAAAAT
Found at i:69493856 original size:22 final size:19
Alignment explanation
Indices: 69493794--69493854 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 19
69493784 TTTTATATTA
69493794 TTTAAAAATATATTTAAAAT
1 TTTAAAAATA-ATTTAAAAT
69493814 TTTAAAAATAATATTTAAAAT
1 TTTAAAAAT-A-ATTTAAAAT
69493835 TTTAAAAAATAATTTCAAAA
1 TTT-AAAAATAATTT-AAAA
69493855 ATATATATTC
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
20 13 0.34
21 19 0.50
22 6 0.16
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
TTTAAAAATAATTTAAAAT
Found at i:69493891 original size:35 final size:33
Alignment explanation
Indices: 69493809--69493893 Score: 84
Period size: 37 Copynumber: 2.5 Consensus size: 33
69493799 AAATATATTT
* *
69493809 AAAATTTTAAAA-ATAATATTTAAAATTTTAAA
1 AAAAATTTAAAATATAATATTCAAAATTTTAAA
69493841 AAATAATTTCAAAA-ATATATATTCAAAATTTTTTAAA
1 AAA-AATTT-AAAATATA-ATATTCAAAA--TTTTAAA
69493878 AAAAATTATAAAATAT
1 AAAAATT-TAAAATAT
69493894 TTCAAATATA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
32 3 0.07
33 4 0.09
34 7 0.16
35 9 0.20
36 8 0.18
37 13 0.30
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (33 bp):
AAAAATTTAAAATATAATATTCAAAATTTTAAA
Found at i:69493933 original size:44 final size:47
Alignment explanation
Indices: 69493827--69493933 Score: 116
Period size: 44 Copynumber: 2.4 Consensus size: 47
69493817 AAAAATAATA
* *
69493827 TTTAAAATT-TTAA-AAAATAATTTCAAAAATATATATTCAAAATTT
1 TTTAAAATTAATAATAAAATAATTTCAAAAATACATATTCAAAATTT
** * * *
69493872 TTTAAAAAAAATTATAAAAT-ATTTCAAATATACAT-TTC-AAGTTT
1 TTTAAAATTAATAATAAAATAATTTCAAAAATACATATTCAAAATTT
69493916 TTTAAAATTAATAATAAA
1 TTTAAAATTAATAATAAA
69493934 TAAATAAAAT
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
44 20 0.40
45 10 0.20
46 15 0.30
47 5 0.10
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (47 bp):
TTTAAAATTAATAATAAAATAATTTCAAAAATACATATTCAAAATTT
Found at i:69493937 original size:4 final size:4
Alignment explanation
Indices: 69493928--69493965 Score: 67
Period size: 4 Copynumber: 9.2 Consensus size: 4
69493918 TAAAATTAAT
69493928 AATA AATA AATAA AATA AATA AATA AATA AATA AATA A
1 AATA AATA AAT-A AATA AATA AATA AATA AATA AATA A
69493966 GAAGAATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 29 0.88
5 4 0.12
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:69493954 original size:21 final size:20
Alignment explanation
Indices: 69493918--69493962 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
69493908 TCAAGTTTTT
*
69493918 TAAAATTAATAATAAATAAA
1 TAAAATAAATAATAAATAAA
69493938 TAAAATAAATAAATAAATAAA
1 TAAAATAAAT-AATAAATAAA
69493959 TAAA
1 TAAA
69493963 TAAGAAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (20 bp):
TAAAATAAATAATAAATAAA
Found at i:69493997 original size:12 final size:12
Alignment explanation
Indices: 69493930--69493998 Score: 52
Period size: 13 Copynumber: 5.7 Consensus size: 12
69493920 AAATTAATAA
*
69493930 TAAATAAATAAAA
1 TAAATAAA-AAAG
69493943 TAAATAAATAAA-
1 TAAATAAA-AAAG
*
69493955 TAAATAAATAAG
1 TAAATAAAAAAG
* *
69493967 AAGAATAAAAAAC
1 TA-AATAAAAAAG
*
69493980 T-TATAAAAAAG
1 TAAATAAAAAAG
69493991 TAAATAAA
1 TAAATAAA
69493999 TATAAACTTA
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
11 11 0.24
12 14 0.31
13 20 0.44
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.22
Consensus pattern (12 bp):
TAAATAAAAAAG
Found at i:69494015 original size:44 final size:44
Alignment explanation
Indices: 69493937--69494022 Score: 104
Period size: 44 Copynumber: 1.9 Consensus size: 44
69493927 TAATAAATAA
* *
69493937 ATAAAATAAATAAATAAATAAATAAATAAGAAGAATAAAAAACTT
1 ATAAAATAAATAAATAAAT-AATAAATAAAAAGAAGAAAAAACTT
*
69493982 ATAAAA-AAGTAAATAAAT-ATAAACTTAAAAAGAAGAAAAAA
1 ATAAAATAAATAAATAAATAATAAA--TAAAAAGAAGAAAAAA
69494023 ATAATAAGCC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
42 5 0.14
44 25 0.69
45 6 0.17
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.20
Consensus pattern (44 bp):
ATAAAATAAATAAATAAATAATAAATAAAAAGAAGAAAAAACTT
Found at i:69494024 original size:25 final size:26
Alignment explanation
Indices: 69493976--69494025 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
69493966 GAAGAATAAA
*
69493976 AAACTTATAAAAAAGTAAATAAATAT
1 AAACTTATAAAAAAGTAAAAAAATAT
69494002 AAACTTA-AAAAGAAG-AAAAAAATA
1 AAACTTATAAAA-AAGTAAAAAAATA
69494026 ATAAGCCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.20
Consensus pattern (26 bp):
AAACTTATAAAAAAGTAAAAAAATAT
Found at i:69494029 original size:26 final size:27
Alignment explanation
Indices: 69493970--69494029 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
69493960 AAATAAGAAG
* *
69493970 AATAAAAAACTTATAAAAAAGTAAATA
1 AATAATAAACTTATAAAAAAGTAAAAA
69493997 AAT-ATAAACTTA-AAAAGAAG-AAAAA
1 AATAATAAACTTATAAAA-AAGTAAAAA
69494022 AATAATAA
1 AATAATAA
69494030 GCCAATTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 11 0.38
26 15 0.52
27 3 0.10
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (27 bp):
AATAATAAACTTATAAAAAAGTAAAAA
Found at i:69497301 original size:18 final size:18
Alignment explanation
Indices: 69497280--69497342 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
69497270 ATTAATATAT
*
69497280 TAATTATGATTATAATTA
1 TAATTATGATTACAATTA
69497298 TAATTATGAGTTACGAATTA
1 TAATTATGA-TTAC-AATTA
* *
69497318 TGATTGATGA-TGCAATTA
1 TAATT-ATGATTACAATTA
69497336 TAATTAT
1 TAATTAT
69497343 TAGAATTAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
17 2 0.05
18 18 0.47
19 5 0.13
20 9 0.24
21 4 0.11
ACGTcount: A:0.40, C:0.03, G:0.13, T:0.44
Consensus pattern (18 bp):
TAATTATGATTACAATTA
Found at i:69498564 original size:12 final size:12
Alignment explanation
Indices: 69498549--69498592 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
69498539 TATATATATG
69498549 TATATTTAATTT
1 TATATTTAATTT
*
69498561 TATA-TAAATTT
1 TATATTTAATTT
69498572 TATAATTTAATTT
1 TAT-ATTTAATTT
*
69498585 TTTATTTA
1 TATATTTA
69498593 TAATATGATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 9 0.33
12 10 0.37
13 8 0.30
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TATATTTAATTT
Found at i:69506083 original size:23 final size:22
Alignment explanation
Indices: 69506047--69506107 Score: 63
Period size: 23 Copynumber: 2.8 Consensus size: 22
69506037 ACTGACGTAT
* *
69506047 AATAATTAATTTTTAATAGTAAA
1 AATAAATAAATTTTAATAG-AAA
69506070 AATAAATAAATTTTTAATAGAAA
1 AATAAATAAA-TTTTAATAGAAA
*
69506093 AAT-CA-AAATTTTAAT
1 AATAAATAAATTTTAAT
69506108 CTAAGGTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 7 0.21
21 3 0.09
22 1 0.03
23 14 0.41
24 9 0.26
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (22 bp):
AATAAATAAATTTTAATAGAAA
Found at i:69507235 original size:11 final size:11
Alignment explanation
Indices: 69507219--69507243 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
69507209 AATTTTACTA
69507219 TTAAAATTAGG
1 TTAAAATTAGG
69507230 TTAAAATTAGG
1 TTAAAATTAGG
69507241 TTA
1 TTA
69507244 TATTCAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (11 bp):
TTAAAATTAGG
Found at i:69507321 original size:17 final size:17
Alignment explanation
Indices: 69507270--69507323 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
69507260 TAGCTAAAAA
69507270 TGATTGATATTCAGTTT
1 TGATTGATATTCAGTTT
* * * *
69507287 TGAGTCAAATGT-AATTT
1 TGATTGATAT-TCAGTTT
69507304 TGATTGATATTCAGTTT
1 TGATTGATATTCAGTTT
69507321 TGA
1 TGA
69507324 GTCAAATTCA
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
16 1 0.04
17 25 0.93
18 1 0.04
ACGTcount: A:0.28, C:0.06, G:0.19, T:0.48
Consensus pattern (17 bp):
TGATTGATATTCAGTTT
Found at i:69507332 original size:17 final size:17
Alignment explanation
Indices: 69507278--69507333 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
69507268 AATGATTGAT
69507278 ATTCAGTTTTGAGTCAA
1 ATTCAGTTTTGAGTCAA
* * * *
69507295 ATGT-AATTTTGATTGAT
1 AT-TCAGTTTTGAGTCAA
69507312 ATTCAGTTTTGAGTCAA
1 ATTCAGTTTTGAGTCAA
69507329 ATTCA
1 ATTCA
69507334 ATTTAAGAAT
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
16 1 0.03
17 27 0.93
18 1 0.03
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (17 bp):
ATTCAGTTTTGAGTCAA
Found at i:69512194 original size:50 final size:50
Alignment explanation
Indices: 69511948--69512278 Score: 325
Period size: 50 Copynumber: 6.7 Consensus size: 50
69511938 CCAACCACAT
* * * *
69511948 TATGGGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCATTG--A
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTTGATA
* * * * * * * *
69511996 GATGAGAGCTAGTGTAATACAATGTCTGGGACATGGCATCGGCCTCGAGA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTTGATA
* * * **
69512046 TATGAAAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-AATACCGATA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACT-TTGATA
* * *
69512096 GATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGATA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTTGATA
* * *
69512146 TATGAGAGTCAGTGTAAGACCATGTCTGAGACATGGCATCGACTTTGATG
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTTGATA
* ** *
69512196 TGT-A-AGCCAGTGTAAGACCATGTCCAGGACATAGCATCGACTTTG--A
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTTGATA
* * * *
69512242 TATGTGAGCCAGTGTGAGACCATGTCCGAGACATGGC
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGC
69512279 GTCGGCATCT
Statistics
Matches: 233, Mismatches: 44, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
46 2 0.01
48 102 0.44
49 1 0.00
50 128 0.55
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (50 bp):
TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTTGATA
Found at i:69512208 original size:148 final size:146
Alignment explanation
Indices: 69511948--69512286 Score: 380
Period size: 148 Copynumber: 2.3 Consensus size: 146
69511938 CCAACCACAT
* *
69511948 TATGGGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGAGCTAGTGTAA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGAGCTAGTGTAA
* * * * **
69512013 TACAATGTCTGGGACATGGCATCGGCCTCGAGATATGAAAGCTAGTGTAAGACCATGTCTGGGAC
66 GACAATGTCTGAGACATGGCATCGGACTCGAGATATGAAAGCCAGTGTAAGACCATGTCCAGGAC
*
69512078 ATGGCATC-AATACCGA
131 ATAGCATCGAAT-CCGA
* *
69512094 TAGATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGATATATGAGAG-TCAG
1 T--ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG--AGATGAGAGCT-AG
* ** * *
69512158 TGTAAGACCATGTCTGAGACATGGCATC-GACT-TTGATGTGTAAGCCAGTGTAAGACCATGTCC
61 TGTAAGACAATGTCTGAGACATGGCATCGGACTCGAGATATGAAAGCCAGTGTAAGACCATGTCC
* **
69512221 AGGACATAGCATCGACTTTGA
126 AGGACATAGCATCGAATCCGA
* * * * *
69512242 TATGTGAGCCAGTGTGAGACCATGTCCGAGACATGGCGTCGGCAT
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
69512287 CTTACCCTAT
Statistics
Matches: 162, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
146 39 0.24
148 82 0.51
149 6 0.04
150 35 0.22
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (146 bp):
TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGAGCTAGTGTAA
GACAATGTCTGAGACATGGCATCGGACTCGAGATATGAAAGCCAGTGTAAGACCATGTCCAGGAC
ATAGCATCGAATCCGA
Found at i:69514448 original size:42 final size:42
Alignment explanation
Indices: 69514391--69514555 Score: 138
Period size: 42 Copynumber: 3.9 Consensus size: 42
69514381 ACATTAGGGT
* *
69514391 TATGAG-TTTACGTGTAAGACCATATCTGGGATATGTCATCGT
1 TATGAGATTT-CGTGTAAGACCATATCTGGGATATGGCATCGA
* * * *
69514433 TATGAGATTTCGTGT-AGTACCATGTTTGGGACATGGCATAGA
1 TATGAGATTTCGTGTAAG-ACCATATCTGGGATATGGCATCGA
* * * * * *
69514475 TATGAGA-ATCGTGTAAGACCATAGCTAGGCTATTGGCGTCAA
1 TATGAGATTTCGTGTAAGACCATATCTGGGATA-TGGCATCGA
** * *
69514517 TATGAGATCCCATGTAAGACCATATCAGGGATATGGCAT
1 TATGAGATTTCGTGTAAGACCATATCTGGGATATGGCAT
69514556 TGGTATAATT
Statistics
Matches: 94, Mismatches: 24, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
41 17 0.18
42 56 0.60
43 21 0.22
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (42 bp):
TATGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGA
Found at i:69514837 original size:25 final size:25
Alignment explanation
Indices: 69514809--69514859 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
69514799 GTGTATGTTT
69514809 AAAGTTGATTATTATTTACATGCTA
1 AAAGTTGATTATTATTTACATGCTA
69514834 AAAGTTGATTATTATTTACATGCTA
1 AAAGTTGATTATTATTTACATGCTA
69514859 A
1 A
69514860 CTTACTAAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (25 bp):
AAAGTTGATTATTATTTACATGCTA
Found at i:69521633 original size:46 final size:46
Alignment explanation
Indices: 69521531--69521697 Score: 165
Period size: 46 Copynumber: 3.6 Consensus size: 46
69521521 TGATATGTGT
* * * * *
69521531 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCAC-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GAAGAAA
* * * * *
69521577 GCCAGAGTAAGACATGTCTGGGACATGCATTGGCTTCGAGACGAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAAGAAA
* *
69521623 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA-AGA-AA
* * *
69521671 GTTAGTGTAAGACCTGTCTAGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
69521698 GCGTCAGCTT
Statistics
Matches: 99, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
46 71 0.72
47 2 0.02
48 26 0.26
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAAGAAA
Found at i:69521768 original size:93 final size:96
Alignment explanation
Indices: 69521622--69521846 Score: 275
Period size: 93 Copynumber: 2.4 Consensus size: 96
69521612 TCGAGACGAA
* *
69521622 AGCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCTCGAGATATACAAGTTAGTGTAAGACCT
1 AGCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGAGATATACAAGTTAGTGTAAGACCT
* *
69521686 GTCTAGG-ACATGGCGTC-AGC-TTGTTGTG-T
66 GTCT-GGTACATGGCATCGA-CTTTGATGTGCT
* * * *
69521715 -GTTAGTATAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGA-AAGTTAGTGTAAGACT
1 AGCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGAGATAT-ACAAGTTAGTGTAAGACC
69521778 TGTCTGGTACATGGCATCGACTTTGATGTGCT
65 TGTCTGGTACATGGCATCGACTTTGATGTGCT
* *
69521810 AGCCAGTGTAAGACCATGTCTGGGACATGGCGTCGGC
1 AGCTAGTGTAAGACC-TGTCTGGGACATGGCATCGGC
69521847 ATCTTATCCC
Statistics
Matches: 112, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
92 25 0.22
93 46 0.41
94 9 0.08
95 1 0.01
96 11 0.10
97 20 0.18
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (96 bp):
AGCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGAGATATACAAGTTAGTGTAAGACCT
GTCTGGTACATGGCATCGACTTTGATGTGCT
Found at i:69523793 original size:4 final size:4
Alignment explanation
Indices: 69523784--69523841 Score: 71
Period size: 4 Copynumber: 13.5 Consensus size: 4
69523774 AGAGAGGGAG
*
69523784 AAGA AAGA AAGA AAGAA AAGAA AATA AAGA AAGAA AAGA GAAGA AAGA
1 AAGA AAGA AAGA AAG-A AAG-A AAGA AAGA AAG-A AAGA -AAGA AAGA
69523832 AAGA AAGA AA
1 AAGA AAGA AA
69523842 ATGTATTTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
4 33 0.67
5 16 0.33
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (4 bp):
AAGA
Found at i:69523814 original size:18 final size:18
Alignment explanation
Indices: 69523791--69523843 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
69523781 GAGAAGAAAG
69523791 AAAGAAAGAAAAGAAAAT
1 AAAGAAAGAAAAGAAAAT
* *
69523809 AAAGAAAGAAAAGAGAAG
1 AAAGAAAGAAAAGAAAAT
69523827 AAAGAAAG-AAAGAAAAT
1 AAAGAAAGAAAAGAAAAT
69523844 GTATTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 7 0.23
18 24 0.77
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (18 bp):
AAAGAAAGAAAAGAAAAT
Found at i:69523841 original size:22 final size:22
Alignment explanation
Indices: 69523781--69523842 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
69523771 AGAAGAGAGG
69523781 GAGAAGAAAGAAAGAAAG-AAA
1 GAGAAGAAAGAAAGAAAGAAAA
*
69523802 -AG-A-AAATAAAGAAAGAAAA
1 GAGAAGAAAGAAAGAAAGAAAA
69523821 GAGAAGAAAGAAAGAAAGAAAA
1 GAGAAGAAAGAAAGAAAGAAAA
69523843 TGTATTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
18 11 0.31
19 4 0.11
20 4 0.11
21 1 0.03
22 15 0.43
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (22 bp):
GAGAAGAAAGAAAGAAAGAAAA
Found at i:69526821 original size:17 final size:17
Alignment explanation
Indices: 69526799--69526833 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
69526789 ACATATACAG
69526799 TGCACGAGTTAGAGCCA
1 TGCACGAGTTAGAGCCA
69526816 TGCACGAGTTAGAGCCA
1 TGCACGAGTTAGAGCCA
69526833 T
1 T
69526834 ACATTTTCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.23, G:0.29, T:0.20
Consensus pattern (17 bp):
TGCACGAGTTAGAGCCA
Found at i:69527615 original size:14 final size:14
Alignment explanation
Indices: 69527592--69527624 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
69527582 TAATGTATTT
*
69527592 AATTTGTATTACAA
1 AATTTATATTACAA
69527606 AATTTATATTACAA
1 AATTTATATTACAA
69527620 AATTT
1 AATTT
69527625 GTTCTAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (14 bp):
AATTTATATTACAA
Found at i:69527645 original size:62 final size:62
Alignment explanation
Indices: 69527544--69527668 Score: 214
Period size: 62 Copynumber: 2.0 Consensus size: 62
69527534 CAATGTACCT
* * *
69527544 AATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATTTAATTTGTATTACAA
1 AATTTATATTACAAAATTTGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATTACAA
*
69527606 AATTTATATTACAAAATTTGTTCTAAGTTTTAATATTGTAATGTATTTAATTTATATTACAA
1 AATTTATATTACAAAATTTGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATTACAA
69527668 A
1 A
69527669 GTTTGTTCCA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.49
Consensus pattern (62 bp):
AATTTATATTACAAAATTTGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATTACAA
Found at i:69527659 original size:48 final size:48
Alignment explanation
Indices: 69527606--69527697 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 48
69527596 TGTATTACAA
*
69527606 AATTTATATTACAAAATTTGTTCTAAGTTTTAATATTGTAATGTATTT
1 AATTTATATTACAAAATTTGTTCCAAGTTTTAATATTGTAATGTATTT
* *
69527654 AATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGT
1 AATTTATATTACAAAATTTGTTCCAAGTTTTAATATTGTAATGT
69527698 TGTAATGTTG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (48 bp):
AATTTATATTACAAAATTTGTTCCAAGTTTTAATATTGTAATGTATTT
Found at i:69528116 original size:33 final size:32
Alignment explanation
Indices: 69528029--69528117 Score: 79
Period size: 33 Copynumber: 2.7 Consensus size: 32
69528019 AAACTTGAGT
* * * *
69528029 TGAGATGAGTGCTGTACTGTGATGGATACGAC
1 TGAGAGGAGTGCTGTACTGCGGTAGATACGAC
** * * *
69528061 TGAGGAGGAGTGGAGTAATGCGGTAGATATGGGC
1 TGA-GAGGAGTGCTGTACTGCGGTAGATA-CGAC
69528095 TGAGAGGAGTGCTGTACTGCGGT
1 TGAGAGGAGTGCTGTACTGCGGT
69528118 GGTATTGGAA
Statistics
Matches: 43, Mismatches: 12, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
32 3 0.07
33 35 0.81
34 5 0.12
ACGTcount: A:0.24, C:0.10, G:0.42, T:0.25
Consensus pattern (32 bp):
TGAGAGGAGTGCTGTACTGCGGTAGATACGAC
Found at i:69528897 original size:14 final size:14
Alignment explanation
Indices: 69528878--69528912 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
69528868 TAAATTACAT
*
69528878 GTTAGAATAGTATC
1 GTTAGAATAATATC
69528892 GTTAGAATAATATC
1 GTTAGAATAATATC
*
69528906 ATTAGAA
1 GTTAGAA
69528913 AAAATGTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (14 bp):
GTTAGAATAATATC
Found at i:69531163 original size:31 final size:32
Alignment explanation
Indices: 69531097--69531163 Score: 75
Period size: 31 Copynumber: 2.1 Consensus size: 32
69531087 TGTGGAATCA
* *
69531097 GCATGACCAACAGTGTGCCGCCTCTAGAGTGG
1 GCATGACCAACAGTGTGCCGCCTCTAGACTAG
* *
69531129 GCATGACCAACCG-GTGCCGCCTGT-GAACTAG
1 GCATGACCAACAGTGTGCCGCCTCTAG-ACTAG
69531160 GCAT
1 GCAT
69531164 TTTCAGTGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
30 1 0.03
31 17 0.57
32 12 0.40
ACGTcount: A:0.22, C:0.30, G:0.30, T:0.18
Consensus pattern (32 bp):
GCATGACCAACAGTGTGCCGCCTCTAGACTAG
Found at i:69547497 original size:78 final size:81
Alignment explanation
Indices: 69547384--69547565 Score: 237
Period size: 78 Copynumber: 2.3 Consensus size: 81
69547374 TACTCGTTCA
* * *
69547384 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTTGGAACTTAACCCAGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGAACTTAACCCAGA
*
69547448 TTTAATAAC-TCGCAC
66 TTTAATAACTTAGCAC
* ** *
69547463 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGAACTTAACCCAGA
* *
69547526 TTTAGTCACTTAGCAC
66 TTTAATAACTTAGCAC
*
69547542 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
69547566 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
78 49 0.55
79 29 0.33
80 11 0.12
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGAACTTAACCCAGA
TTTAATAACTTAGCAC
Found at i:69547565 original size:40 final size:40
Alignment explanation
Indices: 69547382--69547565 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
69547372 GCTACTCGTT
*
69547382 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * * * *
69547422 CAAATGCCTTTGGAACTTAACCCAGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
69547462 C-AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
69547500 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
69547541 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
69547566 CATCATTCGA
Statistics
Matches: 121, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 24 0.20
39 19 0.16
40 65 0.54
41 13 0.11
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:69551413 original size:40 final size:40
Alignment explanation
Indices: 69551358--69551515 Score: 271
Period size: 40 Copynumber: 4.0 Consensus size: 40
69551348 GGAAAAAAAA
*
69551358 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
69551398 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
*
69551438 TATAACTGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* * *
69551478 TATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
69551516 GTTACATCCG
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 112 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:69553389 original size:19 final size:20
Alignment explanation
Indices: 69553365--69553402 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
69553355 CTATTTTGTT
69553365 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
*
69553384 ATGGGCCCAACTGTGTTAA
1 ATGGGCCCAACTGTATTAA
69553403 TATAGGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:69556647 original size:27 final size:28
Alignment explanation
Indices: 69556591--69556660 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
69556581 AAATTTGTAC
69556591 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
* *
69556619 AGCAGTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
69556646 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
69556661 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:69556671 original size:27 final size:27
Alignment explanation
Indices: 69556591--69556672 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
69556581 AAATTTGTAC
* *
69556591 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * * *
69556619 AGCAGTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
69556646 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
69556673 GCTTTTGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.62
28 17 0.36
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:69562185 original size:39 final size:39
Alignment explanation
Indices: 69562138--69562223 Score: 129
Period size: 39 Copynumber: 2.2 Consensus size: 39
69562128 ACTTAATCTG
*
69562138 TAGCAGGCCTCGTGCCGGTGATAAATTTAG-GTTTATACC
1 TAGCAGGCCTCGTGCCGGTG-TAAAGTTAGAGTTTATACC
* *
69562177 TAGCAGGCCTCGTGCCGGTGTTAAGTTCGAGTTTATACC
1 TAGCAGGCCTCGTGCCGGTGTAAAGTTAGAGTTTATACC
69562216 TAGCAGGC
1 TAGCAGGC
69562224 AAATTGCCGG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 6 0.14
39 37 0.86
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (39 bp):
TAGCAGGCCTCGTGCCGGTGTAAAGTTAGAGTTTATACC
Found at i:69572219 original size:3 final size:3
Alignment explanation
Indices: 69572206--69572321 Score: 216
Period size: 3 Copynumber: 38.7 Consensus size: 3
69572196 AAAATGCATG
69572206 AAT AGAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
69572252 AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
69572299 AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
69572322 GAAACAACAC
Statistics
Matches: 111, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.02
3 106 0.95
4 3 0.03
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:69573253 original size:21 final size:21
Alignment explanation
Indices: 69573228--69573267 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
69573218 GATGCTCTGT
69573228 TTTTTTGTATTCGA-AATCTA
1 TTTTTTGTATTCGATAATCTA
*
69573248 TTTTTTGTATTTGATAATCT
1 TTTTTTGTATTCGATAATCT
69573268 CATCCGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.23, C:0.07, G:0.10, T:0.60
Consensus pattern (21 bp):
TTTTTTGTATTCGATAATCTA
Found at i:69574160 original size:143 final size:142
Alignment explanation
Indices: 69573934--69574682 Score: 710
Period size: 143 Copynumber: 5.3 Consensus size: 142
69573924 GATTTGCTAT
* * * *
69573934 CTTCAGTCTGCTCCTACTGCAACTTAAGGGAGATAAGA-CT-CGTA-ACTTT-TAGCTTCAATCT
1 CTTCAATCTGCTCC-ACTACAACTTAAGGAAGATAAGATCTGC-TATAATTTGTAGCTTCAATCT
* * * * * * *
69573995 GCTCTACTGCAACTTCAGGGAAATAAGA-TCTGCTATCTTTAGTTTACTCCGCTGCAACTTTAGA
64 GTTCCACTGCAACTTCAGGGAAATAAGATTC-GCTGTCTTCAGTCTGCTCCGCTGCAACTTTAGG
69574059 ATGATAAGGCTGATGG
128 A-GATAAGGCTGATGG
* * * * * * * *
69574075 CTTCAGTCTGCTCCACTGCAACTTTAGGAAGATAAGATCTGCCACAATTTGTAACTTTAATCTAT
1 CTTCAATCTGCTCCACTACAACTTAAGGAAGATAAGATCTGCTATAATTTGTAGCTTCAATCTGT
* * * *
69574140 TCCACTGCAACGTCAAGGAAATAAGATTCGCTGTCTTCAGTCTGCTCTGCTGCAACTTCAGGGAG
66 TCCACTGCAACTTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTTA-GGAG
69574205 ATAAGGCT-AGTGG
130 ATAAGGCTGA-TGG
* * * *
69574218 CTTCAATCTGCTCCACTACAACTTGAGAAAGATAATATTTGCTATAATTTGTAGCTTCAATCTGT
1 CTTCAATCTGCTCCACTACAACTTAAGGAAGATAAGATCTGCTATAATTTGTAGCTTCAATCTGT
* * * * * **
69574283 TCCATTGCAACTTTAAGGAAATAAAATTCGCTGTCTTCAGTCTGCTCCTCTATAACTTTAGGGAG
66 TCCACTGCAACTTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTTA-GGAG
*
69574348 ACAAGGCT-AGTGG
130 ATAAGGCTGA-TGG
* * * * ** ** * *
69574361 ATTCAATGTGCTCCACTACAACTTCAGGGAGATAAGAT-TCGCCGTGGTTTGCAGCTTGAATCTG
1 CTTCAATCTGCTCCACTACAACTTAAGGAAGATAAGATCT-GCTATAATTTGTAGCTTCAATCTG
* * * * *
69574425 TTCCAGTGCAATTTTAGGGAAATAAGATTCGCTGTCTTTAGTCTGCTCCGCTGCAACTTCAAGGA
65 TTCCACTGCAACTTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTT-TAGGA
*
69574490 GATAAGGCTGGTGG
129 GATAAGGCTGATGG
* * * *
69574504 CTTCAATTTGCTCCACTACAAGTTAAGGAAGATAAGATCTACTATAATTTGTAGCTTTAATCTGT
1 CTTCAATCTGCTCCACTACAACTTAAGGAAGATAAGATCTGCTATAATTTGTAGCTTCAATCTGT
* * ** * * * * *
69574569 TCCACTGCAACATCAGGG-AA-AATATTTTCTGTATTCAGTCAGCTCCACTACAACTTGAGAGAG
66 TCCACTGCAACTTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTTAG-GAG
*
69574632 ATAAGGCTGGTGG
130 ATAAGGCTGATGG
* *
69574645 CTTCAATCTGCTCCACTGCAACTTTA-GAGAGATAAGAT
1 CTTCAATCTGCTCCACTACAACTTAAGGA-AGATAAGAT
69574683 TCGCCATGGT
Statistics
Matches: 504, Mismatches: 91, Indels: 26
0.81 0.15 0.04
Matches are distributed among these distances:
140 25 0.05
141 92 0.18
142 9 0.02
143 372 0.74
144 6 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (142 bp):
CTTCAATCTGCTCCACTACAACTTAAGGAAGATAAGATCTGCTATAATTTGTAGCTTCAATCTGT
TCCACTGCAACTTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTTAGGAGA
TAAGGCTGATGG
Found at i:69574240 original size:44 final size:44
Alignment explanation
Indices: 69574174--69574396 Score: 104
Period size: 44 Copynumber: 4.8 Consensus size: 44
69574164 GATTCGCTGT
* ** *
69574174 CTTCAGTCTGCTCTGCTGCAACTTCAGGGAGATAAGGCTAGTGG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGCTAGTGG
* ** * *
69574218 CTTCAATCTGCTCCACTACAACTTGAGAAAGATAATATTTGCTATAATTTGTAG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGAT-A-A--GGC--T-A---GTGG
* * * * * * *** * *
69574272 CTTCAATCTGTTCCATTGCAACTTTAAGGAAATAAAATTCGCTGT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGCTAG-TGG
* * * * *
69574317 CTTCAGTCTGCTCCTCTATAACTTTAGGGAGACAAGGCTAGTGG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGCTAGTGG
* *
69574361 ATTCAATGTGCTCCACTACAACTTCAGGGAGATAAG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAG
69574397 ATTCGCCGTG
Statistics
Matches: 124, Mismatches: 44, Indels: 22
0.65 0.23 0.12
Matches are distributed among these distances:
44 58 0.47
45 30 0.24
46 1 0.01
48 3 0.02
50 1 0.01
51 1 0.01
52 1 0.01
53 1 0.01
54 28 0.23
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGCTAGTGG
Found at i:69574821 original size:45 final size:45
Alignment explanation
Indices: 69574757--69574872 Score: 135
Period size: 44 Copynumber: 2.6 Consensus size: 45
69574747 TGCTCTACTG
* **
69574757 CAACTTCAGAGAGATAAGATTCGCTATCTTCAATTTGGTCCACTA
1 CAACTTCAGAGAGATAAGATTAGCTATCTTCAATTTACTCCACTA
* ** *
69574802 CAACTTCAGGGAGATAAGATTAG-TGGCTTTAATTTACTCCACTA
1 CAACTTCAGAGAGATAAGATTAGCTATCTTCAATTTACTCCACTA
* * *
69574846 CAATTTTAGAGAGATAAGATTTGCTAT
1 CAACTTCAGAGAGATAAGATTAGCTAT
69574873 GATGACCTCA
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
44 35 0.61
45 22 0.39
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (45 bp):
CAACTTCAGAGAGATAAGATTAGCTATCTTCAATTTACTCCACTA
Found at i:69575831 original size:58 final size:58
Alignment explanation
Indices: 69575715--69575831 Score: 126
Period size: 58 Copynumber: 2.0 Consensus size: 58
69575705 AAATTCCTTT
* * * * * * *** * *
69575715 GGTCTCAAGGCGCCCTTTGCGAGTTTTTGCCTTGGCCTTTCCTTTTTTTTTTGTTGAA
1 GGTCTCAAAGCACCCTTTGCGAGTTTTCGCATTGGCCTCTCATCCCTTTTTAGGTGAA
*
69575773 GGTCTCAAAGCACCCTTTGCGGGTTTTCGCATTGGCCTCTCATCCCTTTTTAGGTGAA
1 GGTCTCAAAGCACCCTTTGCGAGTTTTCGCATTGGCCTCTCATCCCTTTTTAGGTGAA
69575831 G
1 G
69575832 TATTTCTTGA
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
58 47 1.00
ACGTcount: A:0.12, C:0.25, G:0.23, T:0.40
Consensus pattern (58 bp):
GGTCTCAAAGCACCCTTTGCGAGTTTTCGCATTGGCCTCTCATCCCTTTTTAGGTGAA
Found at i:69582352 original size:3 final size:3
Alignment explanation
Indices: 69582339--69582421 Score: 157
Period size: 3 Copynumber: 27.3 Consensus size: 3
69582329 AAAATGCATC
69582339 AAT AGAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
69582385 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
69582422 GTAAGAAAAA
Statistics
Matches: 79, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
3 76 0.96
4 3 0.04
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:69587036 original size:30 final size:29
Alignment explanation
Indices: 69587002--69587066 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
69586992 ATACTCATAC
* *
69587002 TAGTCCATATATTTCATCTA-TTTTACATTT
1 TAGTCCATAAATTT-AT-TATTTTTACAATT
*
69587032 TAGTCCCTAAATTTATTATTTTTACAATT
1 TAGTCCATAAATTTATTATTTTTACAATT
69587061 TAGTCC
1 TAGTCC
69587067 TAATTACTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 2 0.06
29 17 0.55
30 12 0.39
ACGTcount: A:0.28, C:0.17, G:0.05, T:0.51
Consensus pattern (29 bp):
TAGTCCATAAATTTATTATTTTTACAATT
Found at i:69607969 original size:39 final size:40
Alignment explanation
Indices: 69607892--69608074 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
69607882 TCGAATGATG
* * *
69607892 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
69607932 T-CGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
69607971 TCCAGG-CTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCC-GGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
69608009 TCCGAATTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
69608050 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
69608075 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 12, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
37 1 0.01
38 23 0.19
39 44 0.36
40 50 0.41
41 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:69608026 original size:78 final size:79
Alignment explanation
Indices: 69607896--69608072 Score: 218
Period size: 78 Copynumber: 2.3 Consensus size: 79
69607886 ATGATGTCCG
* *
69607896 GGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCGGACTAAGATCCGAAGGCATTTGTGCG
1 GGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCGAACTAAGATCCGAAGGCATTTGTGCG
69607961 AGTTACTAATTCCA
66 AGTTACTAATTCCA
* * *
69607975 GGCTAAG-CCCGAAGGCATTGTGC-GAGTTACTAAATCCGAATTAAG-TCCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAAT-CGAACTAAGAT-CCGAAGGCATTTGTG
* * *
69608037 CGAGTTGCT-ATAACCG
64 CGAGTTACTAAT-TCCA
*
69608053 GGCTATGTCCCGAAGGCATT
1 GGCTAAGTCCCGAAGGCATT
69608073 TGAACGAGTA
Statistics
Matches: 85, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
77 13 0.15
78 53 0.62
79 19 0.22
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCGAACTAAGATCCGAAGGCATTTGTGCG
AGTTACTAATTCCA
Found at i:69610052 original size:29 final size:29
Alignment explanation
Indices: 69610024--69610126 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
69610014 CCTCCGAGCT
** * * *
69610024 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
69610053 TGCACACTTAGTGCTATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
69610082 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
69610111 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
69610127 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:69610066 original size:58 final size:58
Alignment explanation
Indices: 69609995--69610126 Score: 131
Period size: 58 Copynumber: 2.3 Consensus size: 58
69609985 AATTTAAGCC
** * * * * *
69609995 CGCACACACAGTGCCATA-CCCTCCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATACCTCC-AGCACGCACACCCAGTGCCATATATTTCCAGCA
* * ** **
69610053 TGCACACTTAGTGCTATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATACCTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
69610111 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
69610127 ATCTCGTCAC
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
58 55 0.95
59 3 0.05
ACGTcount: A:0.24, C:0.35, G:0.16, T:0.25
Consensus pattern (58 bp):
CGCACACTTAGTGCCATATACCTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:69618009 original size:29 final size:29
Alignment explanation
Indices: 69617981--69618082 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
69617971 CCTCCGAGCT
** * * *
69617981 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
69618010 TGCACACTTAGTG-CATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
69618038 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
69618067 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
69618083 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
28 24 0.37
29 41 0.63
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:69627097 original size:39 final size:39
Alignment explanation
Indices: 69627020--69627200 Score: 235
Period size: 39 Copynumber: 4.6 Consensus size: 39
69627010 TCGAATGATG
* *
69627020 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
69627060 TCC-GACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
69627099 TCCGGGCTAAGCCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
69627137 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTA-AA
*
69627177 -CCGGGCTATGTCCGAAGGCATTTG
1 TCCGGGCTAAGTCCGAAGGCATTTG
69627201 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
38 35 0.28
39 71 0.57
40 19 0.15
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:69627152 original size:77 final size:78
Alignment explanation
Indices: 69627020--69627198 Score: 238
Period size: 77 Copynumber: 2.3 Consensus size: 78
69627010 TCGAATGATG
*
69627020 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGACTAAGATCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTGTGCTAAGTGACTAAATCCGACTAAGATCCGAAGGCATTTG
69627085 TGCGAGTTACTA-A
65 TGCGAGTTACTATA
* * **
69627098 TTCCGGGCTAAGCCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCGAAGGCATTT
1 -TCCGGGCTAAGCCCGAAGGCATTGTGCTAAGTGACTAAATCC-GACTAAGATCCGAAGGCATTT
69627161 GTGCGAGTTACTATA
64 GTGCGAGTTACTATA
* * *
69627176 ACCGGGCTATGTCCGAAGGCATT
1 TCCGGGCTAAGCCCGAAGGCATT
69627199 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
77 58 0.64
78 21 0.23
79 11 0.12
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (78 bp):
TCCGGGCTAAGCCCGAAGGCATTGTGCTAAGTGACTAAATCCGACTAAGATCCGAAGGCATTTGT
GCGAGTTACTATA
Found at i:69629837 original size:43 final size:42
Alignment explanation
Indices: 69629772--69629853 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 42
69629762 CATAAGCTCG
69629772 TACAATGCCATATCCCAGACATGGTCTTACACGTAATCATAA
1 TACAATGCCATATCCCAGACATGGTCTTACACGTAATCATAA
* * *
69629814 TACAATGCCAATGTCCCATACATGGTCTTACATGTAATCA
1 TACAATGCC-ATATCCCAGACATGGTCTTACACGTAATCA
69629854 CATCTTGGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 9 0.25
43 27 0.75
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (42 bp):
TACAATGCCATATCCCAGACATGGTCTTACACGTAATCATAA
Found at i:69630044 original size:35 final size:35
Alignment explanation
Indices: 69629978--69630044 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
69629968 TTCATAACAG
* *
69629978 TTTAATGACAAATAAACATTTATAATTCAATTCAA
1 TTTAATAACAAATAAACATTTATAATACAATTCAA
* *
69630013 TTTAATAATAAATAAGCATTTATAATACAATT
1 TTTAATAACAAATAAACATTTATAATACAATT
69630045 TAAATACGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.39
Consensus pattern (35 bp):
TTTAATAACAAATAAACATTTATAATACAATTCAA
Found at i:69641198 original size:19 final size:19
Alignment explanation
Indices: 69641174--69641229 Score: 112
Period size: 19 Copynumber: 2.9 Consensus size: 19
69641164 AAGTCTAGGG
69641174 ACAAAATGGTCATTTAGCT
1 ACAAAATGGTCATTTAGCT
69641193 ACAAAATGGTCATTTAGCT
1 ACAAAATGGTCATTTAGCT
69641212 ACAAAATGGTCATTTAGC
1 ACAAAATGGTCATTTAGC
69641230 CCAATTGTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (19 bp):
ACAAAATGGTCATTTAGCT
Found at i:69641724 original size:46 final size:46
Alignment explanation
Indices: 69641670--69641794 Score: 157
Period size: 46 Copynumber: 2.7 Consensus size: 46
69641660 TGAGACGAGT
* * *
69641670 GCTAGTGTAAGACATGTCTAGGACATGCTTCAGCCT-CAAGACG-TAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CTACAAGAGGAT-A
69641716 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGAGGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGAGGATA
69641762 G-TCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATC
69641795 GACTTGAGAT
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
45 3 0.04
46 48 0.68
47 15 0.21
48 5 0.07
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGAGGATA
Found at i:69641818 original size:47 final size:47
Alignment explanation
Indices: 69641621--69641842 Score: 181
Period size: 47 Copynumber: 4.7 Consensus size: 47
69641611 ACATTTTGAG
* **
69641621 AGCCAATGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TCAAGACGA-T
* * * *
69641670 -GCTAGTGTAAGA-CATGTCTAGGACAT-GCTTCAGCCTCAAGACG-T
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTCAAGACGAT
* *
69641714 AAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATC-AGCTACAAGAGGAT
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CT-CAAGACGAT
* ** *
69641761 AGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGA-TAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCAAGACGAT
* * *
69641807 AAGCCACTGTAAGACCGTGTCTAGGACATGGCATCG
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
69641843 GCACCTTACC
Statistics
Matches: 143, Mismatches: 20, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 58 0.41
47 64 0.45
48 17 0.12
49 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCAAGACGAT
Found at i:69642807 original size:40 final size:41
Alignment explanation
Indices: 69642763--69642842 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 41
69642753 AGGTTTTTGC
*
69642763 ACACGGGCTA-GGACACGAGCA-TGTCATGGCCGTGTGAAGG
1 ACACGGGCCAGGGACACGAGCAGTGTCA-GGCCGTGTGAAGG
*
69642803 ACACGGGCCAGGGACACGGGCATGTGTCAGGCCGTGTGAA
1 ACACGGGCCAGGGACACGAGCA-GTGTCAGGCCGTGTGAA
69642843 AACCCTTGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 9 0.26
41 10 0.29
42 11 0.31
43 5 0.14
ACGTcount: A:0.24, C:0.24, G:0.39, T:0.14
Consensus pattern (41 bp):
ACACGGGCCAGGGACACGAGCAGTGTCAGGCCGTGTGAAGG
Found at i:69648071 original size:103 final size:103
Alignment explanation
Indices: 69647948--69648157 Score: 375
Period size: 103 Copynumber: 2.0 Consensus size: 103
69647938 ACGTGACTTA
* *
69647948 TATGGGTGAGGGCTTGTAAGCCTATTTAACCAAGCTATGTATTGATGCCTGGCGATGTGGTCATG
1 TATGGGTGAAGGCTTGTAAGCCTATTTAACCAAGCTATGTATTGATGCCTGGCGATGTGGCCATG
69648013 TGATTATATTTGTTTGATATGAATGGTTAGTGTTACGG
66 TGATTATATTTGTTTGATATGAATGGTTAGTGTTACGG
* *
69648051 TATGGGTGAAGGCTTGTAAGCCTATTTAACCAAGCTATGTATTGATTCTTGGCGATGTGGCCATG
1 TATGGGTGAAGGCTTGTAAGCCTATTTAACCAAGCTATGTATTGATGCCTGGCGATGTGGCCATG
*
69648116 TGATTATATTTGTTTGATATGAATGGTTAGTGTTATGG
66 TGATTATATTTGTTTGATATGAATGGTTAGTGTTACGG
69648154 TATG
1 TATG
69648158 TATGCTTGAT
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 102 1.00
ACGTcount: A:0.23, C:0.10, G:0.28, T:0.39
Consensus pattern (103 bp):
TATGGGTGAAGGCTTGTAAGCCTATTTAACCAAGCTATGTATTGATGCCTGGCGATGTGGCCATG
TGATTATATTTGTTTGATATGAATGGTTAGTGTTACGG
Found at i:69649344 original size:13 final size:13
Alignment explanation
Indices: 69649326--69649350 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69649316 TTCGGTAGGG
69649326 ACACGCCCGTGTA
1 ACACGCCCGTGTA
69649339 ACACGCCCGTGT
1 ACACGCCCGTGT
69649351 GCGATTTTTG
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:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
ACACGCCCGTGTA
Found at i:69649892 original size:12 final size:12
Alignment explanation
Indices: 69649875--69649908 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
69649865 TGATTTAATT
*
69649875 ATTATTATTATC
1 ATTATTATTATA
69649887 ATTATTATTATA
1 ATTATTATTATA
*
69649899 ATTATAATTA
1 ATTATTATTA
69649909 AGTATGTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTATTATTATA
Found at i:69651990 original size:28 final size:28
Alignment explanation
Indices: 69651953--69652042 Score: 130
Period size: 28 Copynumber: 3.3 Consensus size: 28
69651943 GGGGGAAGTG
*
69651953 TTCTGGTGGCTATGCTACAAATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
*
69651981 TTCTGGTGGCTATGCCACAAATATTTG-
1 TTCTGGTGGCTATGCCACAAATATCTGT
*
69652008 TTCTGGTGGCTCTGCCAC-AATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
*
69652035 ATCTGGTG
1 TTCTGGTG
69652043 ACTCTGTCAC
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
26 7 0.12
27 24 0.43
28 25 0.45
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (28 bp):
TTCTGGTGGCTATGCCACAAATATCTGT
Found at i:69652023 original size:27 final size:26
Alignment explanation
Indices: 69651951--69652066 Score: 133
Period size: 27 Copynumber: 4.3 Consensus size: 26
69651941 ATGGGGGAAG
*
69651951 TGTTCTGGTGGCTATGCTACAAATATC
1 TGTTCTGGTGGCTATGCCAC-AATATC
*
69651978 TGTTTCTGGTGGCTATGCCACAAATATT
1 TG-TTCTGGTGGCTATGCCAC-AATATC
*
69652006 TGTTCTGGTGGCTCTGCCACAATATC
1 TGTTCTGGTGGCTATGCCACAATATC
* * * *
69652032 TGTATCTGGTGACTCTGTCACAATATT
1 TGT-TCTGGTGGCTATGCCACAATATC
69652059 TGTTCTGG
1 TGTTCTGG
69652067 CAGCCCTGCT
Statistics
Matches: 80, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
26 13 0.16
27 42 0.52
28 25 0.31
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (26 bp):
TGTTCTGGTGGCTATGCCACAATATC
Found at i:69652040 original size:54 final size:54
Alignment explanation
Indices: 69651951--69652066 Score: 162
Period size: 54 Copynumber: 2.1 Consensus size: 54
69651941 ATGGGGGAAG
* * *
69651951 TGTTCTGGTGGCTATGCTACAAATATCTGTTTCTGGTGGCTATGCCACAAATATT
1 TGTTCTGGTGGCTATGCCACAAATATCTGTATCTGGTGACTATGCCAC-AATATT
* * *
69652006 TGTTCTGGTGGCTCTGCCAC-AATATCTGTATCTGGTGACTCTGTCACAATATT
1 TGTTCTGGTGGCTATGCCACAAATATCTGTATCTGGTGACTATGCCACAATATT
69652059 TGTTCTGG
1 TGTTCTGG
69652067 CAGCCCTGCT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 14 0.25
54 23 0.42
55 18 0.33
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (54 bp):
TGTTCTGGTGGCTATGCCACAAATATCTGTATCTGGTGACTATGCCACAATATT
Found at i:69652087 original size:53 final size:54
Alignment explanation
Indices: 69651965--69652087 Score: 135
Period size: 53 Copynumber: 2.3 Consensus size: 54
69651955 CTGGTGGCTA
* * ** *
69651965 TGCTACAAATATCTGTTTCTGGTGGCTATGCCACAAATATTTGTTCTGGTGGCTC
1 TGCT-CAAATATCTGTATCTGGTGACTATGCCACAAATATTTGTTCTGGCAGCCC
* *
69652020 TGC-CACAATATCTGTATCTGGTGACTCTGTCAC-AATATTTGTTCTGGCAGCCC
1 TGCTCA-AATATCTGTATCTGGTGACTATGCCACAAATATTTGTTCTGGCAGCCC
69652073 TGCTGCAAAT-TCTGT
1 TGCT-CAAATATCTGT
69652088 GGCATTTAGC
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
53 27 0.47
54 26 0.45
55 5 0.09
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (54 bp):
TGCTCAAATATCTGTATCTGGTGACTATGCCACAAATATTTGTTCTGGCAGCCC
Found at i:69655705 original size:76 final size:76
Alignment explanation
Indices: 69655579--69655730 Score: 295
Period size: 76 Copynumber: 2.0 Consensus size: 76
69655569 AATATCAGGT
*
69655579 TCAACTCTCTACGGTGACATATTAACAACAGTTTATCCCACATAAGCATCTAAGCTGGGGTTGGG
1 TCAACTCTCTACGGTGACATATTAACAACAATTTATCCCACATAAGCATCTAAGCTGGGGTTGGG
69655644 TGCCTGCTTTC
66 TGCCTGCTTTC
69655655 TCAACTCTCTACGGTGACATATTAACAACAATTTATCCCACATAAGCATCTAAGCTGGGGTTGGG
1 TCAACTCTCTACGGTGACATATTAACAACAATTTATCCCACATAAGCATCTAAGCTGGGGTTGGG
69655720 TGCCTGCTTTC
66 TGCCTGCTTTC
69655731 AGAGCTTTCT
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (76 bp):
TCAACTCTCTACGGTGACATATTAACAACAATTTATCCCACATAAGCATCTAAGCTGGGGTTGGG
TGCCTGCTTTC
Found at i:69661042 original size:28 final size:28
Alignment explanation
Indices: 69661005--69661084 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
69660995 GGGGGAAGTG
* *
69661005 TTCTGGTGGCTATGCTACAAATATCTGT
1 TTCTGCTGGCTATGCCACAAATATCTGT
69661033 TTCTGCTGGCTATGCCACAAATATCTG-
1 TTCTGCTGGCTATGCCACAAATATCTGT
* * *
69661060 TTCTGGTAGCTCTGCCAC-AATATCT
1 TTCTGCTGGCTATGCCACAAATATCT
69661085 ATATCTAGTG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 7 0.15
27 15 0.32
28 25 0.53
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (28 bp):
TTCTGCTGGCTATGCCACAAATATCTGT
Found at i:69661075 original size:27 final size:26
Alignment explanation
Indices: 69661003--69661127 Score: 108
Period size: 27 Copynumber: 4.7 Consensus size: 26
69660993 ATGGGGGAAG
* * *
69661003 TGTTCTGGTGGCTATGCTACAAATATC
1 TGTTCTGGTAGCTCTGCCAC-AATATC
* * *
69661030 TGTTTCTGCTGGCTATGCCACAAATATC
1 TG-TTCTGGTAGCTCTGCCAC-AATATC
69661058 TGTTCTGGTAGCTCTGCCACAATATC
1 TGTTCTGGTAGCTCTGCCACAATATC
* * *
69661084 TATATCTAGT-GACTCTGTCACAATATC
1 TGT-TCTGGTAG-CTCTGCCACAATATC
*
69661111 TGTTCTGGTAGCCCTGC
1 TGTTCTGGTAGCTCTGC
69661128 TGCAAATTCT
Statistics
Matches: 82, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
26 18 0.22
27 39 0.48
28 25 0.30
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (26 bp):
TGTTCTGGTAGCTCTGCCACAATATC
Found at i:69672777 original size:40 final size:40
Alignment explanation
Indices: 69672732--69672898 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
69672722 CGGAATATAA
69672732 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
69672772 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
69672812 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
69672852 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
69672891 CCGGATAT
1 CCGGATAT
69672899 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:69672882 original size:80 final size:79
Alignment explanation
Indices: 69672748--69672898 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
69672738 ATAATCACGT
*
69672748 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
69672813 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
69672828 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
69672891 CCGGATAT
64 CCGGATAT
69672899 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:69680774 original size:40 final size:40
Alignment explanation
Indices: 69680729--69680895 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
69680719 CGGAATATAA
69680729 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
69680769 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
69680809 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
69680849 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
69680888 CCGGATAT
1 CCGGATAT
69680896 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:69680879 original size:80 final size:79
Alignment explanation
Indices: 69680745--69680895 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
69680735 ATAATCACGT
*
69680745 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
69680810 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
69680825 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
69680888 CCGGATAT
64 CCGGATAT
69680896 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:69685628 original size:40 final size:40
Alignment explanation
Indices: 69685583--69685749 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
69685573 CGGAATATAA
69685583 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
69685623 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
69685663 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
69685703 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
69685742 CCGGATAT
1 CCGGATAT
69685750 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:69685733 original size:80 final size:79
Alignment explanation
Indices: 69685599--69685749 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
69685589 ATAATCACGT
*
69685599 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
69685664 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
69685679 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
69685742 CCGGATAT
64 CCGGATAT
69685750 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:69693622 original size:46 final size:49
Alignment explanation
Indices: 69693516--69693637 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 49
69693506 TGTCTTCGAC
** * *
69693516 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCA-ATATATATATAAT
* * *
69693566 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATATAAT
*
69693612 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
69693638 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 27 0.43
47 1 0.02
48 5 0.08
50 30 0.48
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (49 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATATAAT
Found at i:69704551 original size:31 final size:31
Alignment explanation
Indices: 69704508--69704586 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
69704498 TTTAACGGTT
*
69704508 ACTGGGCTGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
69704539 ATTGGGCCGAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
69704570 ACTAGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
69704587 ACTGTAAACG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:69704662 original size:42 final size:42
Alignment explanation
Indices: 69704615--69704697 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
69704605 CATAGGCCTA
* ** * *
69704615 TTTCAATATCACATGTAATGTCACTGGATGTATGCAAGCCCT
1 TTTCAATATCACATGAAATACCAATGAATGTATGCAAGCCCT
*
69704657 TTTCAATATCATATGAAATACCAATGAATGTATGCAAGCCC
1 TTTCAATATCACATGAAATACCAATGAATGTATGCAAGCCC
69704698 ATTTGGGGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (42 bp):
TTTCAATATCACATGAAATACCAATGAATGTATGCAAGCCCT
Found at i:69704917 original size:26 final size:26
Alignment explanation
Indices: 69704839--69704968 Score: 162
Period size: 26 Copynumber: 5.2 Consensus size: 26
69704829 GGCCTAACCT
69704839 CTTTT-AAT-AACTGGGGCA-AAG-C
1 CTTTTCAATAAACTGGGGCATAAGCC
** *
69704861 CTTTTCGGTAAACTGAGGCA-AAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
69704886 CTTTTCAATAAACTGGGGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
** *
69704912 CTTTTCGGTAAACTGGGACATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
*
69704938 CTTTTCAATAAACTGGAGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
69704964 CTTTT
1 CTTTT
69704969 GCACTTCCTC
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
22 5 0.05
23 1 0.01
24 12 0.13
25 18 0.20
26 55 0.60
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (26 bp):
CTTTTCAATAAACTGGGGCATAAGCC
Found at i:69704948 original size:52 final size:51
Alignment explanation
Indices: 69704839--69704968 Score: 198
Period size: 52 Copynumber: 2.6 Consensus size: 51
69704829 GGCCTAACCT
69704839 CTTTT-AAT-AACTGGGGCA-AAG-CCTTTTCGGTAAACTGAGGCAAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGAGGCAAAGCC
69704886 CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTG-GGACATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGAGG-CA-AAGCC
*
69704938 CTTTTCAATAAACTGGAGCATAAGCCCTTTT
1 CTTTTCAATAAACTGGGGCATAAGCCCTTTT
69704969 GCACTTCCTC
Statistics
Matches: 76, Mismatches: 1, Indels: 7
0.90 0.01 0.08
Matches are distributed among these distances:
47 5 0.07
48 3 0.04
49 10 0.13
50 5 0.07
51 18 0.24
52 35 0.46
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (51 bp):
CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGAGGCAAAGCC
Found at i:69705918 original size:27 final size:27
Alignment explanation
Indices: 69705888--69706167 Score: 176
Period size: 27 Copynumber: 10.3 Consensus size: 27
69705878 GTAAATCTAA
* **
69705888 AAACTAAGGGTATTTCAGTAATTTTGT
1 AAACTAAGGGTATTTCGGTAATTTTAC
* * ** *
69705915 AAACCAATGGTATTTCTATAATTTTTAG
1 AAACTAAGGGTATTTCGGTAA-TTTTAC
* **
69705943 AAAGTCAAGGGTATTTTTGTAACTTTGTA-
1 AAACT-AAGGGTATTTCGGTAA-TTT-TAC
* * *
69705972 AATC-AGGGGTATTTTGGTAATTTTAC
1 AAACTAAGGGTATTTCGGTAATTTTAC
* *
69705998 AAATTGAA-GGTATTTCGGTAATTTCAC
1 AAACT-AAGGGTATTTCGGTAATTTTAC
* *
69706025 AAAC-CAGTGGTATTTTGGTAATTTTAC
1 AAACTAAG-GGTATTTCGGTAATTTTAC
* *
69706052 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACTAAGGGTATTTCGGTAATTTTAC
* * * *
69706079 AAGTCGAA-GGAATTTCAGTAATTTTAC
1 AA-ACTAAGGGTATTTCGGTAATTTTAC
* ** *
69706106 AAA-TCGAGGGTATTTTAGTATTTTTAC
1 AAACT-AAGGGTATTTCGGTAATTTTAC
*
69706133 AAACTAAGGGTATTTCGGTAATTTTAGT
1 AAACTAAGGGTATTTCGGTAATTTTA-C
69706161 AAACTAA
1 AAACTAA
69706168 AGTATTCTAA
Statistics
Matches: 195, Mismatches: 44, Indels: 27
0.73 0.17 0.10
Matches are distributed among these distances:
25 3 0.02
26 6 0.03
27 147 0.75
28 19 0.10
29 18 0.09
30 2 0.01
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
AAACTAAGGGTATTTCGGTAATTTTAC
Found at i:69706070 original size:81 final size:81
Alignment explanation
Indices: 69705950--69706158 Score: 262
Period size: 81 Copynumber: 2.6 Consensus size: 81
69705940 TAGAAAGTCA
* * * *
69705950 AGGGTATTTTTGTAACTTTGTA-AATC-AGGGGTATTTTGGTAATTTTACAAATTGAAGGTATTT
1 AGGGTATTTTAGTAA-TTT-TACAAACTAGGGGTATTTTGGTAATTTTACAAATCGAAGGAATTT
*
69706013 CGGTAATTTCACAAA-CC
64 CAGTAATTTCACAAATCC
* *
69706030 AGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAGTCGAAGGAATTTC
1 AG-GGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATCGAAGGAATTTC
* *
69706095 AGTAATTTTACAAATCG
65 AGTAATTTCACAAATCC
* * *
69706112 AGGGTATTTTAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTA
69706159 GTAAACTAAA
Statistics
Matches: 113, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
79 2 0.02
80 8 0.07
81 100 0.88
82 3 0.03
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATCGAAGGAATTTCA
GTAATTTCACAAATCC
Found at i:69706148 original size:54 final size:53
Alignment explanation
Indices: 69705894--69706158 Score: 194
Period size: 54 Copynumber: 4.9 Consensus size: 53
69705884 CTAAAAACTA
** ** * ** * *
69705894 AGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAATTTTTAGAAAGTCA
1 AGGGTATTTTGGTAATTTTACAAA-CAAGGGTATTTCGGTAA-TTTTACAAA-TCG
* * * * *
69705950 AGGGTATTTTTGTAACTTTGTA-AATCAGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTTGGTAA-TTT-TACAAACAAGGGTATTTCGGTAATTTTACAAATCG
* * * * * *
69706004 AAGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAA-CT
1 AGGGTATTTTGGTAATTTTACAAACAAG-GGTATTTCGGTAATTTTACAAATCG
* * *
69706057 AGGGGTATTTTGGTAATTTTACAAGTCGAA-GGAATTTCAGTAATTTTACAAATCG
1 A-GGGTATTTTGGTAATTTTACAA-AC-AAGGGTATTTCGGTAATTTTACAAATCG
* *
69706112 AGGGTATTTTAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AGGGTATTTTGGTAATTTTACAAAC-AAGGGTATTTCGGTAATTTTA
69706159 GTAAACTAAA
Statistics
Matches: 164, Mismatches: 36, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
52 1 0.01
53 11 0.07
54 109 0.66
55 11 0.07
56 26 0.16
57 5 0.03
58 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (53 bp):
AGGGTATTTTGGTAATTTTACAAACAAGGGTATTTCGGTAATTTTACAAATCG
Found at i:69709506 original size:32 final size:32
Alignment explanation
Indices: 69709470--69709581 Score: 125
Period size: 32 Copynumber: 3.5 Consensus size: 32
69709460 TGGGCCAGGT
* *
69709470 CATGTGGGCCACACGGGCAAGGCCAATTTGGG
1 CATGTAGGCCACACGGGCAAGGCCAATCTGGG
* * *
69709502 CATGTAGGCCACAAGAGCAAGGGCAATCTGGG
1 CATGTAGGCCACACGGGCAAGGCCAATCTGGG
** * *
69709534 TGTGTAGGCCACATGGGTAAGGCCAATCTGGG
1 CATGTAGGCCACACGGGCAAGGCCAATCTGGG
* *
69709566 CTTGCAGGCCACACGG
1 CATGTAGGCCACACGG
69709582 TCATGTGGGC
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 65 1.00
ACGTcount: A:0.24, C:0.24, G:0.36, T:0.16
Consensus pattern (32 bp):
CATGTAGGCCACACGGGCAAGGCCAATCTGGG
Found at i:69710355 original size:20 final size:19
Alignment explanation
Indices: 69710319--69710369 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
69710309 CAGGGCCATT
*
69710319 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
69710338 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
69710358 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
69710370 GTTGCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:69711164 original size:49 final size:49
Alignment explanation
Indices: 69711014--69711285 Score: 227
Period size: 49 Copynumber: 5.7 Consensus size: 49
69711004 TATGTGTGCT
* * * *
69711014 AGTGTATGACATGTTTGGGACAT-GCATCGGCCAC-AT-TATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGCC
* * * * **
69711060 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCTAGATATGCAAGAT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGCC
* * *
69711108 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGC-CTCGATATATGAAAGCC
* * *
69711157 AGTGTAAGACCTATCTGGGACATGGCATTGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGCC
* * * * * * * *
69711206 AGTGTAAGACTTGTCTGGAACATGACATCCAG-TTAGATATGTG--AGCT
1 AGTGTAAGACCTGTCTGGGACATGGCAT-CGGCCTCGATATATGAAAGCC
* *
69711253 AGTGTAAGACCATGTTTGGAACATGGCATCGGC
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGGC
69711286 ATCGTACTCT
Statistics
Matches: 181, Mismatches: 37, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
46 31 0.17
47 15 0.08
48 45 0.25
49 88 0.49
50 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGCC
Found at i:69711174 original size:97 final size:98
Alignment explanation
Indices: 69711051--69711234 Score: 255
Period size: 98 Copynumber: 1.9 Consensus size: 98
69711041 CGGCCACATT
* * *
69711051 ATGAAAGCCAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCTAGATATGCAAGAT-AGTGTA
1 ATGAAAGCCAGTGTAAGACATATCTGGGACATGGCATCGGCCTCGAGATATGAAAG-TCAGTGTA
* *
69711114 AGACCTGTCTGGGACATGGCATCGACACCGATAG
65 AGACCTGTCTGGAACATGACATCGACACCGATAG
* * * *
69711148 ATGAGAGCCAGTGTAAGACCTATCTGGGACATGGCATTGGCCTCGATATATGAAAGTCAGTGTAA
1 ATGAAAGCCAGTGTAAGACATATCTGGGACATGGCATCGGCCTCGAGATATGAAAGTCAGTGTAA
*
69711213 GACTTGTCTGGAACATGACATC
66 GACCTGTCTGGAACATGACATC
69711235 CAGTTAGATA
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
97 30 0.40
98 45 0.60
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (98 bp):
ATGAAAGCCAGTGTAAGACATATCTGGGACATGGCATCGGCCTCGAGATATGAAAGTCAGTGTAA
GACCTGTCTGGAACATGACATCGACACCGATAG
Done.