Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 93 of 129
Found at i:16609311 original size:21 final size:20
Alignment explanation
Indices: 16609287--16609326 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
16609277 GATTAATGAT
*
16609287 ATTATTTAATCTAATCATATA
1 ATTAATTAATCTAA-CATATA
*
16609308 ATTAATTAATTTAACATAT
1 ATTAATTAATCTAACATAT
16609327 CATTTGTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTAATTAATCTAACATATA
Found at i:16610482 original size:12 final size:12
Alignment explanation
Indices: 16610451--16610490 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 12
16610441 ATTATTAAAG
16610451 TATAAATTATTATA
1 TATAAA-TATT-TA
16610465 TAATAAATATTTA
1 T-ATAAATATTTA
16610478 TATAAATATTTA
1 TATAAATATTTA
16610490 T
1 T
16610491 TTATCTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 12 0.48
13 3 0.12
14 5 0.20
15 5 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TATAAATATTTA
Found at i:16613610 original size:10 final size:10
Alignment explanation
Indices: 16613595--16613635 Score: 50
Period size: 9 Copynumber: 4.2 Consensus size: 10
16613585 AATACAGTTT
16613595 AAATTAATAA
1 AAATTAATAA
16613605 AAATTAATATA
1 AAATTAATA-A
*
16613616 AATTTAAT-A
1 AAATTAATAA
16613625 AAATTAA-AA
1 AAATTAATAA
16613634 AA
1 AA
16613636 TCTATTTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 10 0.37
10 9 0.33
11 8 0.30
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AAATTAATAA
Found at i:16613617 original size:20 final size:20
Alignment explanation
Indices: 16613594--16613631 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16613584 TAATACAGTT
16613594 TAAA-TTAATAAAAATTAATA
1 TAAATTTAAT-AAAATTAATA
16613614 TAAATTTAATAAAATTAA
1 TAAATTTAATAAAATTAA
16613632 AAAATCTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAATTTAATAAAATTAATA
Found at i:16622904 original size:14 final size:14
Alignment explanation
Indices: 16622885--16622924 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
16622875 TTTTTCATCT
16622885 TTTTGAAAAAATAA
1 TTTTGAAAAAATAA
*
16622899 TTTTGACAAAAT-A
1 TTTTGAAAAAATAA
16622912 -TTT-AAAAAATAA
1 TTTTGAAAAAATAA
16622924 T
1 T
16622925 AAATCACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
11 6 0.27
12 4 0.18
13 1 0.05
14 11 0.50
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (14 bp):
TTTTGAAAAAATAA
Found at i:16622958 original size:17 final size:18
Alignment explanation
Indices: 16622922--16622965 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
16622912 TTTAAAAAAT
* *
16622922 AATAAATCACTTAATGAA
1 AATAAATAACTTAATAAA
16622940 AATAAATAAC-TAATAAA
1 AATAAATAACTTAATAAA
*
16622957 AATCAATAA
1 AATAAATAA
16622966 AATCAAATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.25
Consensus pattern (18 bp):
AATAAATAACTTAATAAA
Found at i:16623856 original size:19 final size:20
Alignment explanation
Indices: 16623834--16623900 Score: 75
Period size: 19 Copynumber: 3.4 Consensus size: 20
16623824 AAAAAACAAA
*
16623834 AATAATAACAATA-AATAAT
1 AATAATAATAATAGAATAAT
16623853 AATAATAATAATAGAAT-AT
1 AATAATAATAATAGAATAAT
*
16623872 AATAATGATATAATATAATAAT
1 AATAAT-A-ATAATAGAATAAT
*
16623894 GATAATA
1 AATAATA
16623901 GTAGTAAGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
19 20 0.49
20 4 0.10
21 10 0.24
22 7 0.17
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (20 bp):
AATAATAATAATAGAATAAT
Found at i:16623894 original size:16 final size:16
Alignment explanation
Indices: 16623848--16623897 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
16623838 ATAACAATAA
*
16623848 ATAATAATAATAATAAT
1 ATAAT-ATAATAATGAT
*
16623865 AGAATATAATAATGAT
1 ATAATATAATAATGAT
16623881 ATAATATAATAATGAT
1 ATAATATAATAATGAT
16623897 A
1 A
16623898 ATAGTAGTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 26 0.87
17 4 0.13
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (16 bp):
ATAATATAATAATGAT
Found at i:16623920 original size:3 final size:3
Alignment explanation
Indices: 16623834--16623900 Score: 61
Period size: 3 Copynumber: 23.3 Consensus size: 3
16623824 AAAAAACAAA
* *
16623834 AAT AAT AAC AAT AAAT AAT AAT AAT AAT AAT -AG AAT -AT AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
16623878 GAT -AT AAT -AT AAT AAT GAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
16623901 GTAGTAAGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
2 7 0.13
3 42 0.81
4 3 0.06
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:16624316 original size:56 final size:55
Alignment explanation
Indices: 16624198--16624321 Score: 140
Period size: 56 Copynumber: 2.2 Consensus size: 55
16624188 AGTCTTAGGT
* * * * **
16624198 AACTGACCTGAACTGAGTGAGGTCAGGTGACCAGGATTAAATCGCAAGTCTGGAG
1 AACTGACTTGGACTGAGTGAGGTCAGATGACCAGGATTAAATCGCAAGTATAAAG
* * * * *
16624253 AATTGACTTGGACTGAGTCGAGGTCAGATGATCAGGATTGAATTGTAAGTATAAAG
1 AACTGACTTGGACTGAGT-GAGGTCAGATGACCAGGATTAAATCGCAAGTATAAAG
16624309 AACTGACTTGGAC
1 AACTGACTTGGAC
16624322 CAAGTTGAGG
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
55 15 0.27
56 41 0.73
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (55 bp):
AACTGACTTGGACTGAGTGAGGTCAGATGACCAGGATTAAATCGCAAGTATAAAG
Found at i:16624373 original size:31 final size:31
Alignment explanation
Indices: 16624338--16624403 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
16624328 GAGGTTGAAC
*
16624338 GATCGAGATTGAACCGA-AAGTTTAGAAGAAT
1 GATCGAGATTGAACC-ATAAGTTTAGAAAAAT
* *
16624369 GATCGGGATTGAACCATAAGTTTGGAAAAAT
1 GATCGAGATTGAACCATAAGTTTAGAAAAAT
16624400 GATC
1 GATC
16624404 TGGACGGAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 1 0.03
31 30 0.97
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (31 bp):
GATCGAGATTGAACCATAAGTTTAGAAAAAT
Found at i:16624605 original size:57 final size:57
Alignment explanation
Indices: 16624535--16624667 Score: 185
Period size: 57 Copynumber: 2.3 Consensus size: 57
16624525 GCTAAAATTG
*
16624535 AACGACTGGGATTGAATTACAAGTCTAAAAAAATTGACCCAGACTGAGTCGAGGTCA
1 AACGACTGGGATTGAACTACAAGTCTAAAAAAATTGACCCAGACTGAGTCGAGGTCA
* * * ** * *
16624592 AACGACCGAGATTGAACTGCAAGTCTAGGAAAATTGACCTAGACTGAGTTGAGGTCA
1 AACGACTGGGATTGAACTACAAGTCTAAAAAAATTGACCCAGACTGAGTCGAGGTCA
*
16624649 AATGACTGGGATTGAACTA
1 AACGACTGGGATTGAACTA
16624668 GGATTTTGGA
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
57 64 1.00
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.22
Consensus pattern (57 bp):
AACGACTGGGATTGAACTACAAGTCTAAAAAAATTGACCCAGACTGAGTCGAGGTCA
Found at i:16630709 original size:38 final size:38
Alignment explanation
Indices: 16630657--16630733 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
16630647 TAAGCAATGC
* *
16630657 ATGGCAAAACTCCCCCTTAATTTATGCATCCTAATCCA
1 ATGGCAAAAATCCCCCTCAATTTATGCATCCTAATCCA
16630695 ATGGCAAAAATCCCCCTCAATTTATGCATCCTAATCCA
1 ATGGCAAAAATCCCCCTCAATTTATGCATCCTAATCCA
16630733 A
1 A
16630734 CACAACTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.34, C:0.31, G:0.08, T:0.27
Consensus pattern (38 bp):
ATGGCAAAAATCCCCCTCAATTTATGCATCCTAATCCA
Found at i:16630790 original size:23 final size:25
Alignment explanation
Indices: 16630758--16630810 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 25
16630748 CATATGCTAG
*
16630758 TCAAATATATGAAT-T-AAGCACAA
1 TCAAACATATGAATGTCAAGCACAA
*
16630781 TCAAACATATGCATGTCAAGCACAA
1 TCAAACATATGAATGTCAAGCACAA
*
16630806 GCAAA
1 TCAAA
16630811 TTTGTCTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 12 0.48
24 1 0.04
25 12 0.48
ACGTcount: A:0.49, C:0.19, G:0.11, T:0.21
Consensus pattern (25 bp):
TCAAACATATGAATGTCAAGCACAA
Found at i:16634129 original size:20 final size:20
Alignment explanation
Indices: 16634091--16634133 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
16634081 TTTTCATTCA
16634091 TCAAATCATCAAATTTCTTTT
1 TCAAATCA-CAAATTTCTTTT
16634112 TCAAATCA-AAATTTTCTTTT
1 TCAAATCACAAA-TTTCTTTT
16634132 TC
1 TC
16634134 TAAAAATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.14
20 10 0.48
21 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TCAAATCACAAATTTCTTTT
Found at i:16643686 original size:24 final size:23
Alignment explanation
Indices: 16643659--16643719 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 23
16643649 AGCAAAATAA
*
16643659 AAAATGAAAATAAAGACAAAAATC
1 AAAATGAAAATAAAGA-AAAAACC
*
16643683 AAAATGTAAAATAAATAAAAAACC
1 AAAATG-AAAATAAAGAAAAAACC
*
16643707 AAAATCAAAATAA
1 AAAATGAAAATAA
16643720 TAAAATCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 7 0.21
24 17 0.52
25 9 0.27
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (23 bp):
AAAATGAAAATAAAGAAAAAACC
Found at i:16643686 original size:31 final size:30
Alignment explanation
Indices: 16643651--16643742 Score: 89
Period size: 30 Copynumber: 3.0 Consensus size: 30
16643641 AATAAAATAG
*
16643651 CAAAATAAAAAATGAAAATAAAGACAAAAAT
1 CAAAATAAAAAAT-AAAATAAAAACAAAAAT
** *
16643682 CAAAATGTAAAAT-AAATAAAAAACCAAAAT
1 CAAAATAAAAAATAAAAT-AAAAACAAAAAT
16643712 CAAAATAATAAAATCAAAATAATAAA-AAAAA
1 CAAAATAA-AAAAT-AAAATAA-AAACAAAAA
16643743 GAAAACTTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
29 4 0.08
30 16 0.33
31 16 0.33
32 6 0.12
33 7 0.14
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.15
Consensus pattern (30 bp):
CAAAATAAAAAATAAAATAAAAACAAAAAT
Found at i:16643724 original size:14 final size:14
Alignment explanation
Indices: 16643707--16643738 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
16643697 ATAAAAAACC
16643707 AAAATCAAAATAAT
1 AAAATCAAAATAAT
16643721 AAAATCAAAATAAT
1 AAAATCAAAATAAT
16643735 AAAA
1 AAAA
16643739 AAAAGAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATCAAAATAAT
Found at i:16644155 original size:121 final size:121
Alignment explanation
Indices: 16643936--16644180 Score: 427
Period size: 121 Copynumber: 2.0 Consensus size: 121
16643926 CTTTGAACTC
* * *
16643936 AACCAAGCACACCCACCAAAATTTGGAAATTCTTGCTGGTTTTTAGAAAATTACTGAAAGTTCAT
1 AACCAAGCACACCCACCAAAATTTGGAAATTCTTGCTAGTTTTTAGAAAATCACCGAAAGTTCAT
16644001 CAAAAAATTCAAACCCCCATCGAAAAATTCATTGAAAAATTCATATGTTCTTAAAA
66 CAAAAAATTCAAACCCCCATCGAAAAATTCATTGAAAAATTCATATGTTCTTAAAA
* * *
16644057 AACCTAGCACACCTACCAAAATTTGGAAATTCTTGCTAGTTTTTAGTAAATCACCGAAAGTTCAT
1 AACCAAGCACACCCACCAAAATTTGGAAATTCTTGCTAGTTTTTAGAAAATCACCGAAAGTTCAT
*
16644122 CAGAAAATTCAAACCCCCATCGAAAAATTCATTGAAAAATTCATATGTTCTTAAAA
66 CAAAAAATTCAAACCCCCATCGAAAAATTCATTGAAAAATTCATATGTTCTTAAAA
16644178 AAC
1 AAC
16644181 TTAGATTTCT
Statistics
Matches: 117, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
121 117 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (121 bp):
AACCAAGCACACCCACCAAAATTTGGAAATTCTTGCTAGTTTTTAGAAAATCACCGAAAGTTCAT
CAAAAAATTCAAACCCCCATCGAAAAATTCATTGAAAAATTCATATGTTCTTAAAA
Found at i:16644732 original size:3 final size:3
Alignment explanation
Indices: 16644636--16644713 Score: 86
Period size: 3 Copynumber: 26.3 Consensus size: 3
16644626 GGAAGAAGAA
* *
16644636 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
16644684 GAT GAT AAG AAT AGT AAT -AT AGT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
16644714 TACTATACCA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
2 2 0.03
3 62 0.97
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16644778 original size:42 final size:44
Alignment explanation
Indices: 16644732--16644813 Score: 109
Period size: 42 Copynumber: 1.9 Consensus size: 44
16644722 CAAGATAATA
*
16644732 ATATAATAT-CATATA-TCATAATAGTAATA-A-AATAACAATATC
1 ATATAATATGC-TATACT-ATAATAATAATATATAATAACAATATC
16644774 ATATAATATGCTATACTATAATAATAATATATAATAACAA
1 ATATAATATGCTATACTATAATAATAATATATAATAACAA
16644814 ACTATCTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
42 24 0.69
43 3 0.09
44 8 0.23
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (44 bp):
ATATAATATGCTATACTATAATAATAATATATAATAACAATATC
Found at i:16645145 original size:28 final size:32
Alignment explanation
Indices: 16645084--16645150 Score: 88
Period size: 29 Copynumber: 2.2 Consensus size: 32
16645074 AATAGTTTTT
*
16645084 AATTTATAATAAAATATTTAATATAATATTTA
1 AATTTATAATAAAATATTTAATATAATATATA
*
16645116 AATTT-TAA-AAAAT-TTTAATATGAT-TATA
1 AATTTATAATAAAATATTTAATATAATATATA
16645144 AATTTAT
1 AATTTAT
16645151 TAATTAATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 8 0.25
29 11 0.34
30 5 0.16
31 3 0.09
32 5 0.16
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (32 bp):
AATTTATAATAAAATATTTAATATAATATATA
Found at i:16645285 original size:12 final size:12
Alignment explanation
Indices: 16645243--16645298 Score: 58
Period size: 12 Copynumber: 4.2 Consensus size: 12
16645233 AATTTATAAT
16645243 TTAAATATTATA
1 TTAAATATTATA
16645255 TTTAAATATTTTATATA
1 -TTAAATA---T-TATA
16645272 TTAAATATTATA
1 TTAAATATTATA
*
16645284 TTAAATATTTTA
1 TTAAATATTATA
16645296 TTA
1 TTA
16645299 TAATTTAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
12 18 0.47
13 8 0.21
16 8 0.21
17 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TTAAATATTATA
Found at i:16645288 original size:28 final size:28
Alignment explanation
Indices: 16645205--16645296 Score: 102
Period size: 29 Copynumber: 3.4 Consensus size: 28
16645195 ATGAAATAAT
* *
16645205 AATATTTTATATA-T-CACATTA-ATTA
1 AATATTTTATATATTAAATATTATATTA
* *
16645230 AAAAATTTATA-ATTTAAATATTATATTTA
1 AATATTTTATATA-TTAAATATTATA-TTA
16645259 AATATTTTATATATTAAATATTATATTA
1 AATATTTTATATATTAAATATTATATTA
16645287 AATATTTTAT
1 AATATTTTAT
16645297 TATAATTTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
24 1 0.02
25 9 0.16
26 1 0.02
27 5 0.09
28 14 0.25
29 24 0.44
30 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (28 bp):
AATATTTTATATATTAAATATTATATTA
Found at i:16657850 original size:22 final size:22
Alignment explanation
Indices: 16657809--16657851 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
16657799 TTTTTTGTCT
*
16657809 TTAATTCTAAGAATATAAATAC
1 TTAATTCTAAGAATACAAATAC
* *
16657831 TTAATTCTTAGGATACAAATA
1 TTAATTCTAAGAATACAAATA
16657852 TAAATATATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.37
Consensus pattern (22 bp):
TTAATTCTAAGAATACAAATAC
Found at i:16661481 original size:18 final size:19
Alignment explanation
Indices: 16661458--16661493 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
16661448 TTCCTTTTAT
16661458 TCATTTTGGC-TTGGGCTC
1 TCATTTTGGCTTTGGGCTC
16661476 TCATTTTGGCTTTGGGCT
1 TCATTTTGGCTTTGGGCT
16661494 TCTTCCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.06, C:0.19, G:0.28, T:0.47
Consensus pattern (19 bp):
TCATTTTGGCTTTGGGCTC
Found at i:16661929 original size:50 final size:48
Alignment explanation
Indices: 16661852--16662060 Score: 225
Period size: 50 Copynumber: 4.3 Consensus size: 48
16661842 ATAAAAAACA
* *
16661852 TTGAAACTTTAAAAGTTCTTGTTTGAAAATGGCTTCCCCTAAATAAAAGG-T
1 TTGAAAC-TTAAAA-ATCTTGTATGAAAATGGC-TCCCCTAAAT-AAAGGCT
*
16661903 TTGAAACTTAAAGAATCTTGTATGAAAATGGCTCCCTCTAAATAGAGGCT
1 TTGAAACTTAAA-AATCTTGTATGAAAATGGCTCCC-CTAAATAAAGGCT
*
16661953 TTGAAACTT-AAAA--TT-TA--AAAATGGCTCCCCTTAAACAAAGGCT
1 TTGAAACTTAAAAATCTTGTATGAAAATGGCTCCCC-TAAATAAAGGCT
*
16661996 TTGAAACTTTAAAAAAATCTTGTTTGAAAATGGCTCCCCCTAAATAAAGGCT
1 TTGAAAC-TT--AAAAATCTTGTATGAAAATGGCT-CCCCTAAATAAAGGCT
16662048 TTGAAACTTAAAA
1 TTGAAACTTAAAA
16662061 TATTTTTTTT
Statistics
Matches: 137, Mismatches: 7, Indels: 30
0.79 0.04 0.17
Matches are distributed among these distances:
42 1 0.01
43 29 0.21
44 2 0.01
45 2 0.01
46 2 0.01
47 4 0.03
48 2 0.01
49 16 0.12
50 38 0.28
51 10 0.07
52 27 0.20
53 4 0.03
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (48 bp):
TTGAAACTTAAAAATCTTGTATGAAAATGGCTCCCCTAAATAAAGGCT
Found at i:16661995 original size:43 final size:43
Alignment explanation
Indices: 16661927--16662061 Score: 137
Period size: 52 Copynumber: 2.9 Consensus size: 43
16661917 ATCTTGTATG
*
16661927 AAAATGGCT-CCCTCTAAATAGAGGCTTTGAAACTTAAAATTTA
1 AAAATGGCTCCCCT-TAAATAAAGGCTTTGAAACTTAAAATTTA
* *
16661970 AAAATGGCTCCCCTTAAACAAAGGCTTTGAAACTTTAAAAAAATCTTGTTTG
1 AAAATGGCTCCCCTTAAATAAAGGCTTTGAAAC-TT---AAAA-----TTTA
*
16662022 AAAATGGCTCCCCCTAAATAAAGGCTTTGAAACTTAAAAT
1 AAAATGGCTCCCCTTAAATAAAGGCTTTGAAACTTAAAAT
16662062 ATTTTTTTTA
Statistics
Matches: 77, Mismatches: 5, Indels: 20
0.75 0.05 0.20
Matches are distributed among these distances:
43 27 0.35
44 6 0.08
47 4 0.05
48 4 0.05
51 2 0.03
52 34 0.44
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (43 bp):
AAAATGGCTCCCCTTAAATAAAGGCTTTGAAACTTAAAATTTA
Found at i:16662030 original size:95 final size:93
Alignment explanation
Indices: 16661877--16662061 Score: 275
Period size: 95 Copynumber: 2.0 Consensus size: 93
16661867 TTCTTGTTTG
* *
16661877 AAAATGGCTTCCCCTAAATAAAAGGTTTGAAACTTAAAGAATCTTGTATGAAAATGGCTCCCTCT
1 AAAATGGCTTCCCCTAAATAAAAGGTTTGAAACTTAAAAAATCTTGTATGAAAATGGCTCCCCCT
*
16661942 AAATAGAGGCTTTGAAACTTAAAATTTA
66 AAATAAAGGCTTTGAAACTTAAAATTTA
* *
16661970 AAAATGGC-TCCCCTTAAA-CAAAGGCTTTGAAACTTTAAAAAAATCTTGTTTGAAAATGGCTCC
1 AAAATGGCTTCCCC-TAAATAAAAGG-TTTGAAAC-TT-AAAAAATCTTGTATGAAAATGGCTCC
16662033 CCCTAAATAAAGGCTTTGAAACTTAAAAT
62 CCCTAAATAAAGGCTTTGAAACTTAAAAT
16662062 ATTTTTTTTA
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
92 10 0.12
93 20 0.24
94 2 0.02
95 51 0.61
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (93 bp):
AAAATGGCTTCCCCTAAATAAAAGGTTTGAAACTTAAAAAATCTTGTATGAAAATGGCTCCCCCT
AAATAAAGGCTTTGAAACTTAAAATTTA
Found at i:16663026 original size:9 final size:9
Alignment explanation
Indices: 16663012--16663061 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
16663002 TTGATTCATT
*
16663012 TTTTCTTTC
1 TTTTCTTTA
*
16663021 TTTTCTTTT
1 TTTTCTTTA
16663030 TTTTCTTTA
1 TTTTCTTTA
* *
16663039 TTTTTTTTGT
1 TTTTCTTT-A
16663049 TTTTCTTTA
1 TTTTCTTTA
16663058 TTTT
1 TTTT
16663062 TTTCTCTTTC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 27 0.79
10 7 0.21
ACGTcount: A:0.04, C:0.10, G:0.02, T:0.84
Consensus pattern (9 bp):
TTTTCTTTA
Found at i:16663043 original size:19 final size:18
Alignment explanation
Indices: 16663010--16663064 Score: 83
Period size: 18 Copynumber: 3.0 Consensus size: 18
16663000 TTTTGATTCA
* *
16663010 TTTTTTCTTTCTTTTCTT
1 TTTTTTCTTTATTTTTTT
16663028 TTTTTTCTTTATTTTTTT
1 TTTTTTCTTTATTTTTTT
16663046 TGTTTTTCTTTATTTTTTT
1 T-TTTTTCTTTATTTTTTT
16663065 CTCTTTCTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
18 17 0.50
19 17 0.50
ACGTcount: A:0.04, C:0.09, G:0.02, T:0.85
Consensus pattern (18 bp):
TTTTTTCTTTATTTTTTT
Found at i:16667373 original size:81 final size:81
Alignment explanation
Indices: 16667238--16667400 Score: 308
Period size: 81 Copynumber: 2.0 Consensus size: 81
16667228 TTTTATGAGG
*
16667238 TCGGAGTGTGCACTTTCGATCTTTCTCCCATATAAGTTACATTAATGAATTCAAAGGATCTGAAA
1 TCGGAGTGTGCACTTTCGATCTTTCTCCCATATAAGTTACATTAATGAATTCAAAAGATCTGAAA
16667303 GAGCACTCCAATGCCT
66 GAGCACTCCAATGCCT
16667319 TCGGAGTGTGCACTTTCGATCTTTCTCCCATATAAGTTACATTAATGAATTCAAAAGATCTGAAA
1 TCGGAGTGTGCACTTTCGATCTTTCTCCCATATAAGTTACATTAATGAATTCAAAAGATCTGAAA
*
16667384 GAGCACTCTAATGCCT
66 GAGCACTCCAATGCCT
16667400 T
1 T
16667401 TTCTATAACC
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (81 bp):
TCGGAGTGTGCACTTTCGATCTTTCTCCCATATAAGTTACATTAATGAATTCAAAAGATCTGAAA
GAGCACTCCAATGCCT
Found at i:16673862 original size:3 final size:3
Alignment explanation
Indices: 16673854--16673880 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
16673844 ATTACCGTTG
16673854 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
16673881 GAAAGAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:16677701 original size:50 final size:51
Alignment explanation
Indices: 16677605--16677789 Score: 191
Period size: 48 Copynumber: 3.7 Consensus size: 51
16677595 TGTTCCTCTA
* ** * *
16677605 AGGCATTGAAACTTTAAAAGTTCTTGTTTGAAATTGGCT-TCCTCTAAATAG
1 AGGCTTTGAAACTTTAAAAAATCTTGTTTGAAAATGGCTCT-CTCTAAACAG
** * * *
16677656 AGATTTTG-AACTTTAAAAAATCTTGTTTGAAAATAGCTCTGTCTAAACAA
1 AGGCTTTGAAACTTTAAAAAATCTTGTTTGAAAATGGCTCTCTCTAAACAG
* *
16677706 AGGCTTTGAAACTTT---AAATCTTGTTTGAAAATGGCTCCCTTTAAACAG
1 AGGCTTTGAAACTTTAAAAAATCTTGTTTGAAAATGGCTCTCTCTAAACAG
* *
16677754 AGGCTTTGAAACTTTAAAAAAATCTTTTTTTAAAAT
1 AGGCTTTGAAACTTT-AAAAAATCTTGTTTGAAAAT
16677790 CTGGTTTGGA
Statistics
Matches: 109, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
48 43 0.39
50 39 0.36
51 12 0.11
52 15 0.14
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (51 bp):
AGGCTTTGAAACTTTAAAAAATCTTGTTTGAAAATGGCTCTCTCTAAACAG
Found at i:16677741 original size:98 final size:102
Alignment explanation
Indices: 16677604--16677789 Score: 254
Period size: 98 Copynumber: 1.9 Consensus size: 102
16677594 ATGTTCCTCT
* * * *
16677604 AAGGCATTGAAACTTTAAAAGTTCTTGTTTGAAATTGGCTTCCTCTAAATAGAGATTTTG-AACT
1 AAGGCATTGAAACTTTAAAAG-TCTTGTTTGAAAATGGCTCCCTCTAAACAGAGACTTTGAAACT
16677668 TT-AAAAAATCTTGTTTGAAAATAGCTCTGTCTAAACA
65 TTAAAAAAATCTTGTTTGAAAATAGCTCTGTCTAAACA
* * *
16677705 AAGGCTTTGAAACTTT-AAA-TCTTGTTTGAAAATGGCTCCCTTTAAACAGAGGCTTTGAAACTT
1 AAGGCATTGAAACTTTAAAAGTCTTGTTTGAAAATGGCTCCCTCTAAACAGAGACTTTGAAACTT
* *
16677768 TAAAAAAATCTTTTTTTAAAAT
66 TAAAAAAATCTTGTTTGAAAAT
16677790 CTGGTTTGGA
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
98 32 0.43
99 6 0.08
100 21 0.28
101 15 0.20
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (102 bp):
AAGGCATTGAAACTTTAAAAGTCTTGTTTGAAAATGGCTCCCTCTAAACAGAGACTTTGAAACTT
TAAAAAAATCTTGTTTGAAAATAGCTCTGTCTAAACA
Found at i:16678743 original size:10 final size:10
Alignment explanation
Indices: 16678707--16678784 Score: 77
Period size: 10 Copynumber: 7.5 Consensus size: 10
16678697 CATCTTTCAT
*
16678707 TTTTTATTTA
1 TTTTTCTTTA
*
16678717 TCTTTTCTTTCCT
1 T-TTTTCTTT--A
16678730 TTTTTCTTTA
1 TTTTTCTTTA
16678740 TTTTTCTTTA
1 TTTTTCTTTA
*
16678750 TTTTTTCCTTA
1 -TTTTTCTTTA
16678761 TTTTTCTTTA
1 TTTTTCTTTA
*
16678771 TTTTT-TTTG
1 TTTTTCTTTA
16678780 TTTTT
1 TTTTT
16678785 TGTCTCTTTC
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
9 8 0.14
10 25 0.43
11 16 0.28
12 8 0.14
13 1 0.02
ACGTcount: A:0.08, C:0.12, G:0.01, T:0.79
Consensus pattern (10 bp):
TTTTTCTTTA
Found at i:16678744 original size:22 final size:22
Alignment explanation
Indices: 16678699--16678776 Score: 106
Period size: 21 Copynumber: 3.6 Consensus size: 22
16678689 TTATAAGTCA
*
16678699 TCTTTCATTTTTTATTTATCTTT
1 TCTTTCATTTTTTCTTTAT-TTT
*
16678722 TCTTTCCTTTTTTCTTTATTTT
1 TCTTTCATTTTTTCTTTATTTT
*
16678744 TCTTT-ATTTTTTCCTTATTTT
1 TCTTTCATTTTTTCTTTATTTT
16678765 TCTTT-ATTTTTT
1 TCTTTCATTTTTT
16678777 TTGTTTTTTG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
21 26 0.51
22 8 0.16
23 17 0.33
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (22 bp):
TCTTTCATTTTTTCTTTATTTT
Found at i:16678754 original size:11 final size:11
Alignment explanation
Indices: 16678699--16678776 Score: 88
Period size: 11 Copynumber: 7.1 Consensus size: 11
16678689 TTATAAGTCA
16678699 TCTTTCATTTTT
1 TCTTT-ATTTTT
* *
16678711 TATTTATCTTT
1 TCTTTATTTTT
*
16678722 TCTTTCCTTTTT
1 TCTTT-ATTTTT
16678734 TCTTTA-TTTT
1 TCTTTATTTTT
16678744 TCTTTATTTTT
1 TCTTTATTTTT
*
16678755 TCCTTA-TTTT
1 TCTTTATTTTT
16678765 TCTTTATTTTT
1 TCTTTATTTTT
16678776 T
1 T
16678777 TTGTTTTTTG
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
10 19 0.35
11 23 0.42
12 13 0.24
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (11 bp):
TCTTTATTTTT
Found at i:16689485 original size:3 final size:3
Alignment explanation
Indices: 16689479--16689530 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
16689469 TTATTATCGC
16689479 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
16689527 TAT T
1 TAT T
16689531 GGAAAGAATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:16697983 original size:19 final size:20
Alignment explanation
Indices: 16697947--16697985 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
16697937 TATATTTAAT
16697947 TTATATTTATCAAATATTCA
1 TTATATTTATCAAATATTCA
* *
16697967 TTAT-TTTATTAACTATTCA
1 TTATATTTATCAAATATTCA
16697986 ATATGACACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.54
Consensus pattern (20 bp):
TTATATTTATCAAATATTCA
Found at i:16707493 original size:3 final size:3
Alignment explanation
Indices: 16707485--16707516 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
16707475 TGAATGAATG
16707485 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
16707517 ATAGAGCGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:16709196 original size:25 final size:25
Alignment explanation
Indices: 16709167--16709214 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
16709157 CTCTTAAGAT
16709167 AGAAGTAATTTTA-TGTTTATTTTCC
1 AGAAGT-ATTTTATTGTTTATTTTCC
* *
16709192 AGAAGTCTTTTATTTTTTATTTT
1 AGAAGTATTTTATTGTTTATTTT
16709215 TATGAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.25, C:0.06, G:0.10, T:0.58
Consensus pattern (25 bp):
AGAAGTATTTTATTGTTTATTTTCC
Found at i:16711113 original size:123 final size:123
Alignment explanation
Indices: 16710969--16711220 Score: 343
Period size: 123 Copynumber: 2.0 Consensus size: 123
16710959 GGGTAACGAT
* * * * *
16710969 AGCAAATTTGATCTAAGTTTTTATGAAATATCAAAAATACA-CTC-ATGCTTTCAGTTATTTATT
1 AGCAAATTTGATCTAAATTTTTATGAAATATCAAAAA-ACACCCCAATGCTTT-AGTTACTAATG
* *
16711032 CAAATTTAAATTGA-AATTAGTTTTAAAAATCTAAGTTTTTT-CCTAAACACAAAAATTCAA
64 CAAATTTAAA-TCACAATTAGTGTTAAAAATCTAA-TTTTTTCCCTAAACACAAAAATTCAA
*
16711092 AGCAAATTTGAT-TCAAATTTTTATGAAATATCAAAAACCACCCCAATGCTTTAGTTACTAATGC
1 AGCAAATTTGATCT-AAATTTTTATGAAATATCAAAAAACACCCCAATGCTTTAGTTACTAATGC
*
16711156 AAATTTAAATCACAATTAGTGTTAAAAATCTAATTTTTTCCCTAAACATAAAAATTCAA
65 AAATTTAAATCACAATTAGTGTTAAAAATCTAATTTTTTCCCTAAACACAAAAATTCAA
16711215 AGCAAA
1 AGCAAA
16711221 ATCATCAAAG
Statistics
Matches: 115, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
122 11 0.10
123 97 0.84
124 7 0.06
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (123 bp):
AGCAAATTTGATCTAAATTTTTATGAAATATCAAAAAACACCCCAATGCTTTAGTTACTAATGCA
AATTTAAATCACAATTAGTGTTAAAAATCTAATTTTTTCCCTAAACACAAAAATTCAA
Found at i:16715020 original size:17 final size:16
Alignment explanation
Indices: 16714998--16715031 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
16714988 AGCAATTTGG
*
16714998 TCAAGCTGAGCTCTTTA
1 TCAAGCTAAGCT-TTTA
16715015 TCAAGCTAAGCTTTTA
1 TCAAGCTAAGCTTTTA
16715031 T
1 T
16715032 AACATCACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (16 bp):
TCAAGCTAAGCTTTTA
Found at i:16715576 original size:19 final size:18
Alignment explanation
Indices: 16715560--16715609 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
16715550 AATTTGACTG
16715560 AGCTAATCTTTTTTGACCA
1 AGCTAATCTTTTTTGA-CA
* *
16715579 AGCTAAACTCTTTTGGACA
1 AGCTAATCT-TTTTTGACA
16715598 AGCTAATCTTTT
1 AGCTAATCTTTT
16715610 ATTAAGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 3 0.11
19 18 0.67
20 6 0.22
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (18 bp):
AGCTAATCTTTTTTGACA
Found at i:16715681 original size:98 final size:98
Alignment explanation
Indices: 16715579--16715952 Score: 291
Period size: 98 Copynumber: 3.8 Consensus size: 98
16715569 TTTTTGACCA
* * *
16715579 AGCTAAACTCTTTTGGAC-AAGCTAATCTTTTATTAAGA-AAATATGGCAAAGTTAATACTTTAT
1 AGCTAATCTCTTTTGGACTAAGCTAATCATTTATTAA-ACAAATATGGCAAAGCTAATACTTTAT
*
16715642 TAAAGACTTTTACCCAAGATGAGCTCTTTAGGTTG
65 TAAAGAATTTTA-CCAAGATGAGCTCTTTAGGTTG
* * * * * ** *
16715677 AGCTAATCTATTTTGGTC-AAGCTAATAATTCATTAAACAAATATAGTGAAGCTAATATTTTATT
1 AGCTAATCTCTTTTGGACTAAGCTAATCATTTATTAAACAAATATGGCAAAGCTAATACTTTATT
* ** * * ***
16715741 AATGAAATTTGGCCAA-ATTGAACTCTTTTGGCCA
66 AAAG-AATTTTACCAAGA-TGAGCTCTTTAGGTTG
* *
16715775 AGTTAATCTCTTTTGG-CTAAGCTAATCATTTATTAAGA-AAATAT-GCGAAGCTAATACTTTAT
1 AGCTAATCTCTTTTGGACTAAGCTAATCATTTATTAA-ACAAATATGGCAAAGCTAATACTTTAT
* * * * *
16715837 TAATAAAATTTGAACGAGTTGAGCTCTTTTA-GTTG
65 TAA-AGAATTTTACCAAGATGAGCTC-TTTAGGTTG
* * * * * *
16715872 AGTTGATCACTTTT-GACTGAGCTAATCTTTTATTAAAGAAATATGGCAAAGCTAATACTTTATT
1 AGCTAATCTCTTTTGGACTAAGCTAATCATTTATTAAACAAATATGGCAAAGCTAATACTTTATT
*
16715936 CATAA-AATTTGACCAAG
66 -A-AAGAATTTTACCAAG
16715953 CTGATCTATT
Statistics
Matches: 219, Mismatches: 44, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
96 2 0.01
97 73 0.33
98 136 0.62
99 7 0.03
100 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (98 bp):
AGCTAATCTCTTTTGGACTAAGCTAATCATTTATTAAACAAATATGGCAAAGCTAATACTTTATT
AAAGAATTTTACCAAGATGAGCTCTTTAGGTTG
Found at i:16715772 original size:19 final size:19
Alignment explanation
Indices: 16715748--16715791 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
16715738 ATTAATGAAA
16715748 TTTGGCCAAATTGAA-CTCT
1 TTTGGCCAAATT-AATCTCT
*
16715767 TTTGGCCAAGTTAATCTCT
1 TTTGGCCAAATTAATCTCT
16715786 TTTGGC
1 TTTGGC
16715792 TAAGCTAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.41
Consensus pattern (19 bp):
TTTGGCCAAATTAATCTCT
Found at i:16715800 original size:19 final size:19
Alignment explanation
Indices: 16715763--16715801 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
16715753 CCAAATTGAA
*
16715763 CTCTTTTGGCCAAGTTAAT
1 CTCTTTTGGCCAAGCTAAT
*
16715782 CTCTTTTGGCTAAGCTAAT
1 CTCTTTTGGCCAAGCTAAT
16715801 C
1 C
16715802 ATTTATTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (19 bp):
CTCTTTTGGCCAAGCTAAT
Found at i:16715946 original size:195 final size:196
Alignment explanation
Indices: 16715532--16715981 Score: 457
Period size: 195 Copynumber: 2.3 Consensus size: 196
16715522 TGTGATGAAT
* * ** * * * *
16715532 CTAATATTTTATCAATAAAATTTGACTGAGCT-AATCTTTTTTGACCAAGCTAAACTCTTTTGGA
1 CTAATACTTTATTAATAAAATTTGACCAAACTGAA-CTATTTTGGCCAAGCTAATCTCTTTTGGA
* * * * * *
16715596 CAAGCTAATCTTTTATTAAGAAAATATGGCAAAGTTAATACTTTATTAAAGACTTTTACCCAAGA
65 CAAGCTAATCATTTATTAAGAAAATATGGCAAAGCTAATACTTTATTAAAAAATTTGACACAAGA
* **
16715661 TGAGCTCTTTAGGTTGAGCTAATCTATTTTGGTCAAGCTAATAATTCATTAAACAAATATAGTGA
130 TGAGCTCTTTAGGTTGAGCTAATCTATTTTGCTCAAGCTAATAATTCATTAAACAAATATAGCAA
16715726 AG
195 AG
* * * * * *
16715728 CTAATATTTTATTAATGAAATTTGGCCAAATTGAACTCTTTTGGCCAAGTTAATCTCTTTTGG-C
1 CTAATACTTTATTAATAAAATTTGACCAAACTGAACTATTTTGGCCAAGCTAATCTCTTTTGGAC
* *
16715792 TAAGCTAATCATTTATTAAGAAAATAT-GCGAAGCTAATACTTTATTAATAAAATTTGA-ACGAG
66 -AAGCTAATCATTTATTAAGAAAATATGGCAAAGCTAATACTTTATTAA-AAAATTTGACACAAG
* * * * ** * * *
16715855 TTGAGCTCTTTTA-GTTGAGTTGATC-ACTTTTGACT-GAGCTAATCTTTTATTAAAGAAATATG
129 ATGAGCTC-TTTAGGTTGAGCTAATCTA-TTTTG-CTCAAGCTAATAATTCATTAAACAAATATA
16715917 GCAAAG
191 GCAAAG
* * *
16715923 CTAATACTTTATTCATAAAATTTGACCAAGCTGATCTATTTTGGCCAAGCTAATC-CTTT
1 CTAATACTTTATTAATAAAATTTGACCAAACTGAACTATTTTGGCCAAGCTAATCTCTTT
16715982 CTTAAAAATA
Statistics
Matches: 208, Mismatches: 40, Indels: 14
0.79 0.15 0.05
Matches are distributed among these distances:
194 5 0.02
195 116 0.56
196 85 0.41
197 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (196 bp):
CTAATACTTTATTAATAAAATTTGACCAAACTGAACTATTTTGGCCAAGCTAATCTCTTTTGGAC
AAGCTAATCATTTATTAAGAAAATATGGCAAAGCTAATACTTTATTAAAAAATTTGACACAAGAT
GAGCTCTTTAGGTTGAGCTAATCTATTTTGCTCAAGCTAATAATTCATTAAACAAATATAGCAAA
G
Found at i:16716186 original size:79 final size:78
Alignment explanation
Indices: 16715871--16716180 Score: 279
Period size: 79 Copynumber: 3.9 Consensus size: 78
16715861 TCTTTTAGTT
* * * *
16715871 GAGTTGATCACTTTTGACTGAGCTAATCTTTTATTAAAGAAATATGGC-AAAGCTAATACTTTAT
1 GAGTTGATCTCTTTTGCCTGAGCTAATCCTTTATT-AAGAAATATGACGAAA-CTAATACTTTA-
16715935 TC-ATAAAATTTGACC
63 TCAATAAAATTTGACC
* * * * * * *
16715950 AAGCTGATCTATTTTGGCC-AAGCTAATCCTTTCTTAA-AAATATGATGAAATTAATACTTTATC
1 GAGTTGATCTCTTTT-GCCTGAGCTAATCCTTTATTAAGAAATATGACGAAACTAATACTTTATC
*
16716013 AATAAAATTTGACT
65 AATAAAATTTGACC
* * * ** * * * *
16716027 AAGTTGTTCTTTTTTGGTTGAGTTAATCTTTTATTATGAAAATAT-AGTGAAACTAATACTTTAT
1 GAGTTGATCTCTTTTGCCTGAGCTAATCCTTTATTAAG-AAATATGA-CGAAACTAATACTTTAT
* *
16716091 CAACAAAATTTGGCC
64 CAATAAAATTTGACC
* ** *
16716106 GAGTTGATCTCTTTTGCCTGTGCTAATCCTTTATTAAAGAAATATGACGAAGTTAATATTTTATC
1 GAGTTGATCTCTTTTGCCTGAGCTAATCCTTTATT-AAGAAATATGACGAAACTAATACTTTATC
16716171 AATAAAATTT
65 AATAAAATTT
16716181 AGCCGAAGTT
Statistics
Matches: 182, Mismatches: 40, Indels: 18
0.76 0.17 0.08
Matches are distributed among these distances:
76 3 0.02
77 54 0.30
78 6 0.03
79 114 0.63
80 5 0.03
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (78 bp):
GAGTTGATCTCTTTTGCCTGAGCTAATCCTTTATTAAGAAATATGACGAAACTAATACTTTATCA
ATAAAATTTGACC
Found at i:16716378 original size:47 final size:47
Alignment explanation
Indices: 16716324--16716420 Score: 126
Period size: 47 Copynumber: 2.1 Consensus size: 47
16716314 CCAAAGTGGT
*
16716324 TGAGTTAA-CCTTTTATGAAGATAATTTATT-AAGCTAAGCTCTTTTAA
1 TGAGTTAAGCC-TTTATGAAAATAATTTATTGAA-CTAAGCTCTTTTAA
* * *
16716371 TGAGTTAAGCCTTTATGAAAATAATTTGTTGAACTAAGCTTTTTTTA
1 TGAGTTAAGCCTTTATGAAAATAATTTATTGAACTAAGCTCTTTTAA
16716418 TGA
1 TGA
16716421 AAGTAATTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
47 40 0.91
48 4 0.09
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.43
Consensus pattern (47 bp):
TGAGTTAAGCCTTTATGAAAATAATTTATTGAACTAAGCTCTTTTAA
Found at i:16717291 original size:48 final size:47
Alignment explanation
Indices: 16717221--16717329 Score: 132
Period size: 48 Copynumber: 2.3 Consensus size: 47
16717211 TTTACTAAGC
16717221 TGAGCCTTTATGAAGGTAATTTG-TAAATATGAACTCTTTTGTCAAAT
1 TGAGCCTTTATGAAGGTAATTTGTTAAA-ATGAACTCTTTTGTCAAAT
* * * * *
16717268 TGAGCCTTTTATGAAGGTGATTTGTTGAACTGAACTCTTTTGTCGAAG
1 TGAGCC-TTTATGAAGGTAATTTGTTAAAATGAACTCTTTTGTCAAAT
16717316 T-AGGCCTTTATGAA
1 TGA-GCCTTTATGAA
16717330 AATAATTTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
47 15 0.28
48 36 0.67
49 3 0.06
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (47 bp):
TGAGCCTTTATGAAGGTAATTTGTTAAAATGAACTCTTTTGTCAAAT
Found at i:16717349 original size:47 final size:47
Alignment explanation
Indices: 16717249--16717350 Score: 109
Period size: 47 Copynumber: 2.1 Consensus size: 47
16717239 ATTTGTAAAT
* ** * *
16717249 ATGAACTCTTTTGTCAAATTGAGCCTTTTATGAAGGTGATTTGTTGA
1 ATGAACTCTTTTGTCAAATAGAGCCTTTTATGAAAATAATTTATTGA
*
16717296 ACTGAACTCTTTTGTCGAAGTAG-GCC-TTTATGAAAATAATTTATTGA
1 A-TGAACTCTTTTGTC-AAATAGAGCCTTTTATGAAAATAATTTATTGA
16717343 GATGAACT
1 -ATGAACT
16717351 ATTTGGTTGA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
47 24 0.52
48 18 0.39
49 4 0.09
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (47 bp):
ATGAACTCTTTTGTCAAATAGAGCCTTTTATGAAAATAATTTATTGA
Found at i:16717635 original size:85 final size:82
Alignment explanation
Indices: 16717417--16717704 Score: 235
Period size: 85 Copynumber: 3.4 Consensus size: 82
16717407 TTTTGCCAAT
* * **
16717417 CTGGGCTTTTATGAAAGCAATTTGTCTAGATGAGCACTTTGGCT-GAGAAAGTCAAGCTAAGTTT
1 CTGGGCCTTTATGAAAGCAATTTGTCTAGATGAG-ACTTTGG-TAGAG-ATGTCAAGCTAAGCCT
** * *
16717481 TTAGGAAAAAAATTTGTTAAG
63 TTAGG-AAGCAATTTGCTGAG
** * * * **
16717502 CTGAACC-TTATGAAGGTAATTTGTCTAAATGA-ACTCATTATCTA-AGATGCTCGAA-CTAAGC
1 CTGGGCCTTTATGAAAGCAATTTGTCTAGATGAGACT--TT-GGTAGAGATG-TC-AAGCTAAGC
16717563 CTTTAGGAATGCAATTTGCTGAG
61 CTTTAGGAA-GCAATTTGCTGAG
* *
16717586 CTGGGCCTTTATGAAAGTAATTTGTCTAGATGAGGACTTTGGTAGAGATGGTTAAGCTAAGCCTT
1 CTGGGCCTTTATGAAAGCAATTTGTCTAGATGA-GACTTTGGTAGAGAT-GTCAAGCTAAGCCTT
*
16717651 TAAGAAGTCAATTTGCTGAG
64 TAGGAAG-CAATTTGCTGAG
* * *
16717671 CTAGGCATTTATGAAAGCAATTTGTCGAGATGAG
1 CTGGGCCTTTATGAAAGCAATTTGTCTAGATGAG
16717705 TTATTTCGCT
Statistics
Matches: 162, Mismatches: 27, Indels: 29
0.74 0.12 0.13
Matches are distributed among these distances:
82 3 0.02
83 4 0.02
84 60 0.37
85 91 0.56
86 1 0.01
87 3 0.02
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (82 bp):
CTGGGCCTTTATGAAAGCAATTTGTCTAGATGAGACTTTGGTAGAGATGTCAAGCTAAGCCTTTA
GGAAGCAATTTGCTGAG
Found at i:16717728 original size:85 final size:85
Alignment explanation
Indices: 16717557--16717736 Score: 195
Period size: 85 Copynumber: 2.1 Consensus size: 85
16717547 GATGCTCGAA
* * * * *
16717557 CTAAGCCTTTAGGAATGCAATTTGCTGAGCTGGGCCTTTATGAAAGTAATTTGTCTAGATGAGGA
1 CTAAGCCTTTAAGAATGCAATTTGCTGAGCTAGGCATTTATGAAAGCAATTTGTCGAGATGAGGA
* ****
16717622 CTTTGGTAGAGATGGTTAAG
66 CTTTGCTAGAGATCACAAAG
16717642 CTAAGCCTTTAAGAA-GTCAATTTGCTGAGCTAGGCATTTATGAAAGCAATTTGTCGAGATGAGT
1 CTAAGCCTTTAAGAATG-CAATTTGCTGAGCTAGGCATTTATGAAAGCAATTTGTCGAGATGAG-
* *
16717706 TA-TTTCGCT-GAGGTCACAAAG
64 GACTTT-GCTAGAGATCACAAAG
*
16717727 CTAAGTCTTT
1 CTAAGCCTTT
16717737 GTAAAGGCAA
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
84 1 0.01
85 75 0.95
86 3 0.04
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (85 bp):
CTAAGCCTTTAAGAATGCAATTTGCTGAGCTAGGCATTTATGAAAGCAATTTGTCGAGATGAGGA
CTTTGCTAGAGATCACAAAG
Found at i:16720104 original size:25 final size:25
Alignment explanation
Indices: 16720070--16720117 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
16720060 AACATCACAT
* *
16720070 TGTAATCTATGTTCTGCTAGCTTAA
1 TGTAACCTATGTTCTACTAGCTTAA
16720095 TGTAACCTATGTTCTACTAGCTT
1 TGTAACCTATGTTCTACTAGCTT
16720118 GTTTGTTACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.44
Consensus pattern (25 bp):
TGTAACCTATGTTCTACTAGCTTAA
Found at i:16727285 original size:18 final size:19
Alignment explanation
Indices: 16727262--16727299 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
16727252 TAATTTTGTT
*
16727262 AAAAATAA-TAAAAAATAA
1 AAAAATAACGAAAAAATAA
16727280 AAAAATAACGAAAAAATAA
1 AAAAATAACGAAAAAATAA
16727299 A
1 A
16727300 TGATTGAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (19 bp):
AAAAATAACGAAAAAATAA
Found at i:16728230 original size:26 final size:24
Alignment explanation
Indices: 16728176--16728230 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
16728166 CCAATGATGG
*
16728176 AATTTCTAGAAATTTCAAATGGTA
1 AATTTCTAGAAATTTCAAATGGGA
* *
16728200 AATTTCTATAAATTTCTTAGATGGGA
1 AATTTCTAGAAATTTC--AAATGGGA
16728226 AATTT
1 AATTT
16728231 TTTTAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 15 0.58
26 11 0.42
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (24 bp):
AATTTCTAGAAATTTCAAATGGGA
Found at i:16733120 original size:16 final size:16
Alignment explanation
Indices: 16733086--16733128 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
16733076 ACAATACCTC
16733086 ACCTA-CCTAT-ATCA
1 ACCTACCCTATAATCA
16733100 ACCTACCCTATAATCA
1 ACCTACCCTATAATCA
*
16733116 TCCTACCC-ATAAT
1 ACCTACCCTATAAT
16733129 ATATCAACCC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 5 0.19
15 10 0.38
16 11 0.42
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
ACCTACCCTATAATCA
Found at i:16734665 original size:20 final size:18
Alignment explanation
Indices: 16734644--16734711 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 18
16734634 TAATGGATGA
16734644 AAAAAATGAAAAAAAAATG
1 AAAAAA-GAAAAAAAAATG
16734663 AAAAAAG-AAAAAAAA-G
1 AAAAAAGAAAAAAAAATG
16734679 AAAAAAGAAAAAGGAAAAATG
1 AAAAAAG-AAAA--AAAAATG
*
16734700 AAAAATGAAAAA
1 AAAAAAGAAAAA
16734712 TGAAAAAATA
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
16 8 0.19
17 8 0.19
18 5 0.12
19 6 0.14
20 9 0.21
21 7 0.16
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (18 bp):
AAAAAAGAAAAAAAAATG
Found at i:16734666 original size:7 final size:7
Alignment explanation
Indices: 16734645--16734736 Score: 82
Period size: 7 Copynumber: 13.1 Consensus size: 7
16734635 AATGGATGAA
16734645 AAAAATG
1 AAAAATG
16734652 -AAAA--
1 AAAAATG
16734656 AAAAATG
1 AAAAATG
*
16734663 AAAAAAG
1 AAAAATG
*
16734670 AAAAAAAAG
1 --AAAAATG
*
16734679 AAAAAAG
1 AAAAATG
*
16734686 AAAAAGG
1 AAAAATG
16734693 AAAAATG
1 AAAAATG
16734700 AAAAATG
1 AAAAATG
16734707 AAAAATG
1 AAAAATG
*
16734714 AAAAAATA
1 -AAAAATG
*
16734722 AAAAATA
1 AAAAATG
16734729 AAAAATG
1 AAAAATG
16734736 A
1 A
16734737 GAGAAAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 12
0.81 0.05 0.13
Matches are distributed among these distances:
5 4 0.05
6 4 0.05
7 53 0.72
8 6 0.08
9 7 0.09
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (7 bp):
AAAAATG
Found at i:16734733 original size:14 final size:14
Alignment explanation
Indices: 16734655--16734734 Score: 63
Period size: 15 Copynumber: 5.5 Consensus size: 14
16734645 AAAAATGAAA
*
16734655 AAAAAATGAAAAAAG
1 AAAAAAT-AAAAAAT
*
16734670 AAAAAA-AAGAAAAA
1 AAAAAATAA-AAAAT
**
16734684 AGAAAAAGGAAAAAT
1 A-AAAAATAAAAAAT
* *
16734699 GAAAAATGAAAAAT
1 AAAAAATAAAAAAT
16734713 GAAAAAATAAAAAAT
1 -AAAAAATAAAAAAT
16734728 AAAAAAT
1 AAAAAAT
16734735 GAGAGAAAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
13 2 0.04
14 24 0.44
15 27 0.50
16 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (14 bp):
AAAAAATAAAAAAT
Found at i:16734736 original size:22 final size:22
Alignment explanation
Indices: 16734655--16734733 Score: 81
Period size: 22 Copynumber: 3.6 Consensus size: 22
16734645 AAAAATGAAA
*
16734655 AAAAAATGAAAAAAGAAAAAA-
1 AAAAAATAAAAAAAGAAAAAAT
*
16734676 AAGAAAA-AAGAAAAAGGAAAAAT
1 AA-AAAATAA-AAAAAGAAAAAAT
* * *
16734699 GAAAAATGAAAAATGAAAAAAT
1 AAAAAATAAAAAAAGAAAAAAT
16734721 AAAAAATAAAAAA
1 AAAAAATAAAAAA
16734734 TGAGAGAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
21 3 0.07
22 41 0.89
23 2 0.04
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.08
Consensus pattern (22 bp):
AAAAAATAAAAAAAGAAAAAAT
Found at i:16736144 original size:44 final size:43
Alignment explanation
Indices: 16736094--16736475 Score: 338
Period size: 43 Copynumber: 8.7 Consensus size: 43
16736084 GATTTACTTA
* * *
16736094 TTTTCAAAAGTCATTGAACCTTTGTTTAAAGGAGCCTTATTTAT
1 TTTTC-AAAGTCATTGAACCTCTGTTTAGAGGAGCATTATTTAT
** * * *
16736138 TTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAACTTTATTTAT
1 TTTTCAAAGTCATTGAACCTCTGTTTAGAGGAGCATTATTTAT
* * * *
16736181 TTTTCAAAGTTATTGAGCCTCTATTTAGATGAGCCA-TATTTAT
1 TTTTCAAAGTCATTGAACCTCTGTTTAGAGGAG-CATTATTTAT
** * * *
16736224 TTTTCAAAGTTGTTGAGCTTCTGTTTAGATGAGCATTATTTATTT
1 TTTTCAAAGTCATTGAACCTCTGTTTAGAGGAGCATTATTTA--T
*
16736269 TTTTCAAAGTCATTGAACCTTTGTTTAGAGGAGCATTATTTAT
1 TTTTCAAAGTCATTGAACCTCTGTTTAGAGGAGCATTATTTAT
* * * *
16736312 TTTTCTAAAGTC-GTCAAGTCTCTGTTTAGATGAGCATTATTTATTT
1 TTTTC-AAAGTCATTGAA-CCTCTGTTTAGAGGAGCATTATTTA--T
* * * *
16736358 TTTTCAAAAT-AGTCAAGCCTCTGTTTAGAAGAGCATTATTTATT
1 TTTTCAAAGTCATTGAA-CCTCTGTTTAGAGGAGCATTATTTA-T
** * * * * *
16736402 TTTTCAAAGTCATTGAGTCTTTGCTTAGAAGAGCCTTGTTTTAT
1 TTTTCAAAGTCATTGAACCTCTGTTTAGAGGAGCATT-ATTTAT
*
16736446 TTTTCAAAGTCATTGAGCCTCTGTTTAGAG
1 TTTTCAAAGTCATTGAACCTCTGTTTAGAG
16736476 ATGTTTTTAT
Statistics
Matches: 285, Mismatches: 42, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
42 2 0.01
43 112 0.39
44 88 0.31
45 77 0.27
46 6 0.02
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (43 bp):
TTTTCAAAGTCATTGAACCTCTGTTTAGAGGAGCATTATTTAT
Found at i:16736383 original size:89 final size:86
Alignment explanation
Indices: 16736116--16736475 Score: 325
Period size: 89 Copynumber: 4.1 Consensus size: 86
16736106 ATTGAACCTT
* * * * * *
16736116 TGTTTAAAGGAGCCTTATTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAACTTTATTTA-
1 TGTTTAGAGGAGCATTATTTATTTTTCAAAGTCGTTGAG-CTCTGTTTAGATGAGCATTATTTAT
* **
16736180 -TTTTTCAAAGTTATTGAGCCTC
65 TTTTTTCAAA-ATATCAAGCCTC
* * *
16736202 TATTTAGATGAGCCA-TATTTATTTTTCAAAGTTGTTGAGCTTCTGTTTAGATGAGCATTATTTA
1 TGTTTAGAGGAG-CATTATTTATTTTTCAAAGTCGTTGAGC-TCTGTTTAGATGAGCATTATTTA
* * *
16736266 TTTTTTTCAAAGTCATTGAA-CCTT
64 TTTTTTTCAAAAT-A-TCAAGCCTC
**
16736290 TGTTTAGAGGAGCATTATTTATTTTTCTAAAGTCGTCAAGTCTCTGTTTAGATGAGCATTATTTA
1 TGTTTAGAGGAGCATTATTTATTTTTC-AAAGTCGTTGAG-CTCTGTTTAGATGAGCATTATTTA
16736355 TTTTTTTCAAAATAGTCAAGCCTC
64 TTTTTTTCAAAATA-TCAAGCCTC
* * * * * * *
16736379 TGTTTAGAAGAGCATTATTTATTTTTTCAAAGTCATTGAGTCTTTGCTTAGAAGAGCCTTGTTT-
1 TGTTTAGAGGAGCATTATTTA-TTTTTCAAAGTCGTTGAG-CTCTGTTTAGATGAGCATTATTTA
* * **
16736443 TATTTTTCAAAGTCATTGAGCCTC
64 TTTTTTTCAAAAT-ATCAAGCCTC
16736467 TGTTTAGAG
1 TGTTTAGAG
16736476 ATGTTTTTAT
Statistics
Matches: 228, Mismatches: 34, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
85 1 0.00
86 53 0.23
87 4 0.02
88 65 0.29
89 98 0.43
90 7 0.03
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.45
Consensus pattern (86 bp):
TGTTTAGAGGAGCATTATTTATTTTTCAAAGTCGTTGAGCTCTGTTTAGATGAGCATTATTTATT
TTTTTCAAAATATCAAGCCTC
Found at i:16736668 original size:17 final size:18
Alignment explanation
Indices: 16736646--16736682 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
16736636 TTAATTTTGT
16736646 TAAAAAATAAT-AAAAAA
1 TAAAAAATAATGAAAAAA
16736663 TAAAAAATAATGAAAAAA
1 TAAAAAATAATGAAAAAA
16736681 TA
1 TA
16736683 GGTGGTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (18 bp):
TAAAAAATAATGAAAAAA
Found at i:16742360 original size:2 final size:2
Alignment explanation
Indices: 16742353--16742404 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
16742343 AAAAGTGAAA
16742353 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16742395 AG AG AG AG AG
1 AG AG AG AG AG
16742405 GGAGGGAGGG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16748786 original size:2 final size:2
Alignment explanation
Indices: 16748779--16748803 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16748769 AGATACATAC
16748779 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
16748804 CACTCTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16752360 original size:45 final size:45
Alignment explanation
Indices: 16752296--16752425 Score: 129
Period size: 45 Copynumber: 2.9 Consensus size: 45
16752286 ACTAACCTCT
** *
16752296 AGGAAGAATCAATGAACCCAACCATGGTAGCCACCATTGATCCCG
1 AGGAAGAATTGATGAACCCAACCATGGTAGCCACCATTGATCCCA
* * * *
16752341 AGGAAGAATTGATGAACCCAAACATCGCAGCCACCTTTGA--CCA
1 AGGAAGAATTGATGAACCCAACCATGGTAGCCACCATTGATCCCA
* ** * * *
16752384 AGGAAGAATTGGTCCATCCAACCATGGTAACCACCATCGATC
1 AGGAAGAATTGATGAACCCAACCATGGTAGCCACCATTGATC
16752426 GTTCTCCCAT
Statistics
Matches: 66, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
43 32 0.48
45 34 0.52
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.17
Consensus pattern (45 bp):
AGGAAGAATTGATGAACCCAACCATGGTAGCCACCATTGATCCCA
Found at i:16758987 original size:50 final size:50
Alignment explanation
Indices: 16758931--16759031 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
16758921 TCAGTTATAG
* *
16758931 AAAGATATTTTGATGTTAGTTGGATTACTATTATGGAAGATCATGTTTCT
1 AAAGATATTTTGATATTAGTTGGATTACTATTATGGAAGATCATGCTTCT
16758981 AAAGATATTTTGATATTAGTTGGATTACTATTATGGAAGATCATGCTTCT
1 AAAGATATTTTGATATTAGTTGGATTACTATTATGGAAGATCATGCTTCT
16759031 A
1 A
16759032 TAAGCGAGTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.43
Consensus pattern (50 bp):
AAAGATATTTTGATATTAGTTGGATTACTATTATGGAAGATCATGCTTCT
Found at i:16762858 original size:16 final size:17
Alignment explanation
Indices: 16762817--16762860 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
16762807 TGAAGTAATG
16762817 CAAACTCAAAATAGCTT
1 CAAACTCAAAATAGCTT
* *
16762834 CGATC-CAAAATAG-TT
1 CAAACTCAAAATAGCTT
16762849 CAAACTCAAAAT
1 CAAACTCAAAAT
16762861 TTTTTGAACT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
15 5 0.23
16 14 0.64
17 3 0.14
ACGTcount: A:0.48, C:0.23, G:0.07, T:0.23
Consensus pattern (17 bp):
CAAACTCAAAATAGCTT
Found at i:16763409 original size:709 final size:711
Alignment explanation
Indices: 16762458--16763749 Score: 1970
Period size: 710 Copynumber: 1.8 Consensus size: 711
16762448 ATATTTAATA
* * *
16762458 TCAAATATATTACAATTTAAAAATATAAAGTATATAACCTTTGACAAATAATAAAAATATTAAAA
1 TCAAATATATTAAAATTTAAAAATATAAAGTATAAAACCATTGACAAATAATAAAAATATTAAAA
* *
16762523 TGTGCACATTCTTTTTTATTCATACTATAAGTACATTTGTTGAGCTTATATATTTTAACTTATCA
66 TGTGCAAATTCTTTTTTATTCATACTATAAGTACATTTGTTGAACTTATATATTTTAACTTATCA
*
16762588 AAAACTAGAAAACTAATGAAAAATATTCAAATACAAAATTATTATATAATTTATTTTTATATAAA
131 AAAACTAGAAAACTAATGAAAAATATTCAAATACAAAATTATTATATAATTTATATTTATATAAA
*
16762653 TATTTATTAAAATTTAAAATTTTAACTTTAATATTTTAGTCATATTTTTATTTTACTATATAAAA
196 TATTTATTAAAATTTAAAATTTTAACTTTAATATTTTAGTCATATTTTTATTTAACTATATAAAA
16762718 AGAAAAATTAATTATCAACTTCGAAATTAC-AAAAAATGTATACAATTTATAAAATTCCAAAATT
261 AGAAAAATTAATTATCAACTTCGAAATTACAAAAAAATGTATACAATTTATAAAATTCCAAAATT
* * * *
16762782 ATCATAACTTGAACAAAATAAAACCTGAAGTAATGC-AAACTCAAAATAGCTTCGATCCAAAATA
326 ATCACAACTAGAAAAAAATAAAACCTGAAATAAT-CTAAACTCAAAATAGCTTCGATCCAAAATA
* * *
16762846 GTTCAAACTCAAAATTTTTTGAACTAAAAAAAAAATTGAATCCGAGATTATCTAAATAAAAAAAA
390 GTTCAAACTCAAAATTATTTGAACT-AAAAAAAAATTGAATCCGAAATTATCTAAACAAAAAAAA
* * *
16762911 TCCAA-TTTTAAATGATTTAAATTCAAAATGATCAAATCCTAAGACATCTCAATTCAGATAAGCC
454 TCCAAGTTTTAAATGATTCAAATTCAAAATGATCAAATCCAAAGACATCTCAATTCAAATAAGCC
** *
16762975 TAAATTGATCATTTTCCACCTCTAGTTATG-CACGGTACATACTAAGTATCATAATATATAAGTC
519 TAAATCAATCATGTTCCACCTCTAGTTATGACACGG--CATACTAAGTATCATAATATATAAGTC
16763039 TGTAAATTTGATTGTTAGACGTAAGTTAGGAGTTGCTACCAATTTTTTTTTAATACGTGTGATTG
582 TGTAAATTTGATTGTTAGACGTAAGTTAGGAGTTGCTACCAATTTTTTTTTAATACGTGTGATTG
16763104 GTTACTTAAGTGAATTTATTCATTAAAAGTGTCTTGACTAAGGATTCCTAAAAGAACCAACTGTG
647 GTTACTTAAGTGAATTTATTCATTAAAAGTGTCTTGACTAAGGATTCCTAAAAGAACCAACTGTG
* * *
16763169 TCAAATATCA-TAAAATTTTAAAATAT-AAGTATAAAATCATTGACAAATAATAAATATATTAAA
1 TCAAATAT-ATTAAAATTTAAAAATATAAAGTATAAAACCATTGACAAATAATAAAAATATTAAA
16763232 ATGTGCAAATTCTTTTTTATTCATACTATAAGTACATTTGTTGAACTTATATATTTTAACTTATC
65 ATGTGCAAATTCTTTTTTATTCATACTATAAGTACATTTGTTGAACTTATATATTTTAACTTATC
*
16763297 -AAAACT-GAAAAACTAATGAAAAATATTCAAATACAAAATTATTATATATTTTATATTTATATA
130 AAAAACTAG-AAAACTAATGAAAAATATTCAAATACAAAATTATTATATAATTTATATTTATATA
**
16763360 AATATTTATTAATTTTTAAAATTTTAACTTTAATATTTTAGTCATATTTTTATTTAACTATATAA
194 AATATTTATTAAAATTTAAAATTTTAACTTTAATATTTTAGTCATATTTTTATTTAACTATATAA
* * * * * *
16763425 AAAGTAAAATTAATTATTACCTTTGAAATTACAAAAAAATGTATATAGTTTATAAAATTCCAAAA
259 AAAGAAAAATTAATTATCAACTTCGAAATTACAAAAAAATGTATACAATTTATAAAATTCCAAAA
* * * * * *
16763490 TTATCACACCTAGAAAAAAATCAAACGTGAAATAATCTAAACTTAAAATAGCTTTGATTCAAAAT
324 TTATCACAACTAGAAAAAAATAAAACCTGAAATAATCTAAACTCAAAATAGCTTCGATCCAAAAT
* * * * * * ** *
16763555 AGTTCGAACTCAAAATTATTTGAACTCAAAAAAATTTGAATTCGAAATTATTTGAACCCAAAAAG
389 AGTTCAAACTCAAAATTATTTGAACTAAAAAAAAATTGAATCCGAAATTATCTAAACAAAAAAAA
** * * *
16763620 TCCAAGTTTTAAATGATTCAAATTCAAAATGATTGAATCCAAAGTCATTTCGATTCAAATAAGCC
454 TCCAAGTTTTAAATGATTCAAATTCAAAATGATCAAATCCAAAGACATCTCAATTCAAATAAGCC
* * *
16763685 TAAATCAATCATGTTCCACTTCTATTTATGCACACGGCATACTAAGTATCATAATGTATAAGTCT
519 TAAATCAATCATGTTCCACCTCTAGTTATG-ACACGGCATACTAAGTATCATAATATATAAGTCT
16763750 ATGAATTCGA
Statistics
Matches: 519, Mismatches: 55, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
708 1 0.00
709 184 0.35
710 306 0.59
711 22 0.04
712 6 0.01
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.37
Consensus pattern (711 bp):
TCAAATATATTAAAATTTAAAAATATAAAGTATAAAACCATTGACAAATAATAAAAATATTAAAA
TGTGCAAATTCTTTTTTATTCATACTATAAGTACATTTGTTGAACTTATATATTTTAACTTATCA
AAAACTAGAAAACTAATGAAAAATATTCAAATACAAAATTATTATATAATTTATATTTATATAAA
TATTTATTAAAATTTAAAATTTTAACTTTAATATTTTAGTCATATTTTTATTTAACTATATAAAA
AGAAAAATTAATTATCAACTTCGAAATTACAAAAAAATGTATACAATTTATAAAATTCCAAAATT
ATCACAACTAGAAAAAAATAAAACCTGAAATAATCTAAACTCAAAATAGCTTCGATCCAAAATAG
TTCAAACTCAAAATTATTTGAACTAAAAAAAAATTGAATCCGAAATTATCTAAACAAAAAAAATC
CAAGTTTTAAATGATTCAAATTCAAAATGATCAAATCCAAAGACATCTCAATTCAAATAAGCCTA
AATCAATCATGTTCCACCTCTAGTTATGACACGGCATACTAAGTATCATAATATATAAGTCTGTA
AATTTGATTGTTAGACGTAAGTTAGGAGTTGCTACCAATTTTTTTTTAATACGTGTGATTGGTTA
CTTAAGTGAATTTATTCATTAAAAGTGTCTTGACTAAGGATTCCTAAAAGAACCAACTGTG
Found at i:16763567 original size:16 final size:16
Alignment explanation
Indices: 16763548--16763617 Score: 52
Period size: 16 Copynumber: 4.4 Consensus size: 16
16763538 TAGCTTTGAT
16763548 TCAAAA-TAGTTCGAAC
1 TCAAAATTA-TTCGAAC
*
16763564 TCAAAATTATTTGAAC
1 TCAAAATTATTCGAAC
** * *
16763580 TCAAAAAAATTTGAAT
1 TCAAAATTATTCGAAC
* *
16763596 TCGAAATTATTTGAAC
1 TCAAAATTATTCGAAC
*
16763612 CCAAAA
1 TCAAAA
16763618 AGTCCAAGTT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
16 41 0.95
17 2 0.05
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.30
Consensus pattern (16 bp):
TCAAAATTATTCGAAC
Found at i:16763584 original size:32 final size:32
Alignment explanation
Indices: 16763548--16763618 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
16763538 TAGCTTTGAT
* *
16763548 TCAAAATAGTTCGAACTCAAAATTATTTGAAC
1 TCAAAAAAATTCGAACTCAAAATTATTTGAAC
* * *
16763580 TCAAAAAAATTTGAATTCGAAATTATTTGAAC
1 TCAAAAAAATTCGAACTCAAAATTATTTGAAC
*
16763612 CCAAAAA
1 TCAAAAA
16763619 GTCCAAGTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.48, C:0.14, G:0.08, T:0.30
Consensus pattern (32 bp):
TCAAAAAAATTCGAACTCAAAATTATTTGAAC
Found at i:16767218 original size:66 final size:66
Alignment explanation
Indices: 16767038--16767287 Score: 168
Period size: 66 Copynumber: 3.8 Consensus size: 66
16767028 TAAGTCGGAT
* * * *
16767038 TTTGAAAATGAAATGATTTAGACTAAGTCAAAATCTAAAAATGAAATGACTTGAATTGAATCAAA
1 TTTGAAAATAAAATGATTTAGATTAAGTCAAAGTCTAAAAATGAAATGACTTAAATTGAATCAAA
16767103 A
66 A
* * * * * * * *
16767104 TTT-AATAACAAACA-GATTTGGATTGAGCCCAAGTTTGAAAAT-ATAATGACTTAAATTG-AGC
1 TTTGAA-AATAAA-ATGATTTAGATTAAGTCAAAGTCTAAAAATGA-AATGACTTAAATTGAATC
*
16767165 TTAAA
63 -AAAA
* * * * **
16767170 TTTGAAAATAAAATGATCTAGATTAAGTTAAAGTCTAAAAATGAAATGAGC-TATATTGAGTGGA
1 TTTGAAAATAAAATGATTTAGATTAAGTCAAAGTCTAAAAATGAAATGA-CTTAAATTGAATCAA
*
16767234 AG
65 AA
* * * * * * * *
16767236 TCTGACAATGAAATGAATTAAATTGAGTCGAAGTTTAAAAATGAAATGACTT
1 TTTGAAAATAAAATGATTTAGATTAAGTCAAAGTCTAAAAATGAAATGACTT
16767288 GGACTAAGCT
Statistics
Matches: 136, Mismatches: 38, Indels: 20
0.70 0.20 0.10
Matches are distributed among these distances:
65 7 0.05
66 124 0.91
67 5 0.04
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (66 bp):
TTTGAAAATAAAATGATTTAGATTAAGTCAAAGTCTAAAAATGAAATGACTTAAATTGAATCAAA
A
Found at i:16767237 original size:33 final size:33
Alignment explanation
Indices: 16767200--16767449 Score: 114
Period size: 33 Copynumber: 7.6 Consensus size: 33
16767190 GATTAAGTTA
* * *
16767200 AAGTCTAAAAATGAAATGAGCTATATTGAGTGG
1 AAGTCTAAAAATGAAATGAACTAAATTGAGTCG
* * *
16767233 AAGTCTGACAATGAAATGAATTAAATTGAGTCG
1 AAGTCTAAAAATGAAATGAACTAAATTGAGTCG
* ** * * *
16767266 AAGTTTAAAAATGAAATG-ACTTGGACTAAG-CTA
1 AAGTCTAAAAATGAAATGAAC-TAAATTGAGTC-G
* * * ** * *
16767299 AAATTTGAAAATGAAATGGCCTGAATTGAGTGG
1 AAGTCTAAAAATGAAATGAACTAAATTGAGTCG
** *
16767332 ACA-TCTAAAAATGAAAT-AACATGGATTAAGTCG
1 A-AGTCTAAAAATGAAATGAAC-TAAATTGAGTCG
* * * * * * *
16767365 AAATCTGAAAATAAAATTACCTATATTGAGTTG
1 AAGTCTAAAAATGAAATGAACTAAATTGAGTCG
* * * *
16767398 AAGTCTAAAAAAGAAATG-ACTTGAACTGAGTTG
1 AAGTCTAAAAATGAAATGAAC-TAAATTGAGTCG
*
16767431 AAGTCTGAAAATGAAATGA
1 AAGTCTAAAAATGAAATGA
16767450 TCCGAATTGA
Statistics
Matches: 159, Mismatches: 48, Indels: 19
0.70 0.21 0.08
Matches are distributed among these distances:
32 5 0.03
33 150 0.94
34 4 0.03
ACGTcount: A:0.45, C:0.08, G:0.20, T:0.27
Consensus pattern (33 bp):
AAGTCTAAAAATGAAATGAACTAAATTGAGTCG
Found at i:16767277 original size:99 final size:98
Alignment explanation
Indices: 16767134--16767449 Score: 243
Period size: 99 Copynumber: 3.2 Consensus size: 98
16767124 GATTGAGCCC
* * *
16767134 AAGTTTGAAAAT-ATAATGACTTAAATTGAG-CTTAAATTTGAAAATAAAATGATCTAGATTAAG
1 AAGTCTGAAAATGA-AATGAATTAAATTGAGTC-GAAATTTGAAAATAAAATGA-CTAGATTAAG
16767197 TTAAAGTCTAAAAATGAAATGAGCTATATTGAGTGG
63 TTAAAGTCTAAAAATGAAATGAGCTATATTGAGTGG
* * * * * * *
16767233 AAGTCTGACAATGAAATGAATTAAATTGAGTCGAAGTTTAAAAATGAAATGACTTGGACTAAGCT
1 AAGTCTGAAAATGAAATGAATTAAATTGAGTCGAAATTTGAAAATAAAATGAC-TAGATTAAGTT
* * *
16767298 AAAATTTGAAAATGAAATG-GCCTGA-ATTGAGTGG
65 AAAGTCTAAAAATGAAATGAG-CT-ATATTGAGTGG
* * ** * * * * *
16767332 ACA-TCTAAAAATGAAAT-AACATGGATTAAGTCGAAATCTGAAAATAAAATTACCTATATTGAG
1 A-AGTCTGAAAATGAAATGAA-TTAAATTGAGTCGAAATTTGAAAATAAAATGA-CTAGATTAAG
* * * *
16767395 TTGAAGTCTAAAAAAGAAATGA-CT-TGAACTGAGTTG
63 TTAAAGTCTAAAAATGAAATGAGCTAT--ATTGAGTGG
16767431 AAGTCTGAAAATGAAATGA
1 AAGTCTGAAAATGAAATGA
16767450 TCCGAATTGA
Statistics
Matches: 166, Mismatches: 37, Indels: 27
0.72 0.16 0.12
Matches are distributed among these distances:
98 7 0.04
99 153 0.92
100 6 0.04
ACGTcount: A:0.45, C:0.08, G:0.19, T:0.28
Consensus pattern (98 bp):
AAGTCTGAAAATGAAATGAATTAAATTGAGTCGAAATTTGAAAATAAAATGACTAGATTAAGTTA
AAGTCTAAAAATGAAATGAGCTATATTGAGTGG
Found at i:16767312 original size:66 final size:66
Alignment explanation
Indices: 16767236--16767751 Score: 235
Period size: 66 Copynumber: 7.8 Consensus size: 66
16767226 TGAGTGGAAG
* * *
16767236 TCTGACAATGAAATGAATTAAATTGAGTCGAAGTTTAAAAATGAAATGACTTGGACTAAG-CTAA
1 TCTGAAAATGAAATGAATTGAATTGAGTCGAAGTCTAAAAATGAAATGACTTGGACTAAGTC-AA
16767300 AA
65 AA
* *** * * * * *
16767302 TTTGAAAATGAAATGGCCTGAATTGAGTGGACA-TCTAAAAATGAAATAACATGGATTAAGTCGA
1 TCTGAAAATGAAATGAATTGAATTGAGTCGA-AGTCTAAAAATGAAATGACTTGGACTAAGTCAA
16767366 AA
65 AA
* * ** * * * * **
16767368 TCTGAAAATAAAATTACCT-ATATTGAGTTGAAGTCTAAAAAAGAAATGACTTGAACTGAGTTGA
1 TCTGAAAATGAAATGAATTGA-ATTGAGTCGAAGTCTAAAAATGAAATGACTTGGACTAAGTCAA
*
16767432 AG
65 AA
* * * * * * * *
16767434 TCTGAAAATGAAATG-ATCCGAATTGA-ACCAAGTTCTGAAAATGAAATAACCTGAACTAAGCCA
1 TCTGAAAATGAAATGAAT-TGAATTGAGTCGAAG-TCTAAAAATGAAATGACTTGGACTAAGTCA
16767497 AAA
64 AAA
* * * * * * * *
16767500 TCTAAAAATGAAAT-TATCT-TATTGAATCAAAGTCTAAAAATGAGATGACTTGAAC-AGAGTGA
1 TCTGAAAATGAAATGAAT-TGAATTGAGTCGAAGTCTAAAAATGAAATGACTTGGACTA-AGTCA
*
16767562 AAG
64 AAA
* * * * * * * * * *
16767565 TTTAAAAATTAAATGATTTGGATTGAG-CTGAAATCTGAAAATAAAATGACTTGGATTAAATCAA
1 TCTGAAAATGAAATGAATTGAATTGAGTC-GAAGTCTAAAAATGAAATGACTTGGACTAAGTCAA
*
16767629 AG
65 AA
* * * * ** * * * * * * *
16767631 TTTGAAAATGAAAT-AACCTAAACTGAACCAAAGTTTGAAAATGAATTGACTTAGATTGAGTCAA
1 TCTGAAAATGAAATGAA-TTGAATTGAGTCGAAGTCTAAAAATGAAATGACTTGGACTAAGTCAA
*
16767695 AC
65 AA
* * * * *
16767697 TCTAAAAATGAAATGAAATGGATTGAATTGAAGT-TGAAAAATGAAATGACTTGGA
1 TCTGAAAATGAAATGAATTGAATTGAGTCGAAGTCT-AAAAATGAAATGACTTGGA
16767752 TTGAGTCGAA
Statistics
Matches: 334, Mismatches: 98, Indels: 36
0.71 0.21 0.08
Matches are distributed among these distances:
64 1 0.00
65 50 0.15
66 276 0.83
67 7 0.02
ACGTcount: A:0.46, C:0.09, G:0.18, T:0.27
Consensus pattern (66 bp):
TCTGAAAATGAAATGAATTGAATTGAGTCGAAGTCTAAAAATGAAATGACTTGGACTAAGTCAAA
A
Found at i:16767457 original size:132 final size:131
Alignment explanation
Indices: 16767257--16767581 Score: 330
Period size: 132 Copynumber: 2.5 Consensus size: 131
16767247 AATGAATTAA
* * * * * *
16767257 ATTGAGTCGAAGTTTAAAAATGAAATGACTTGGACTAAGCTAAAATTTGAAAATGAAATG-GCCT
1 ATTGAGTCGAAGTCTAAAAATGAAATGACTTGAACTGAG-TGAAGTTTGAAAATGAAATGATCCT
**** * * * * *
16767321 GAATTGAGTGGACATCTAAAAATGAAATAACATGGATTAAGTCGAAATCTGAAAATAAAATTACC
65 GAATTGAACCAACATCTAAAAATGAAATAACATGAACTAAGCCAAAATCTAAAAATAAAATTACC
16767386 TAT
130 T-T
* * *
16767389 ATTGAGTTGAAGTCTAAAAAAGAAATGACTTGAACTGAGTTGAAGTCTGAAAATGAAATGATCC-
1 ATTGAGTCGAAGTCTAAAAATGAAATGACTTGAACTGAG-TGAAGTTTGAAAATGAAATGATCCT
** * * * *
16767453 GAATTGAACCAAGTTCTGAAAATGAAATAACCTGAACTAAGCCAAAATCTAAAAATGAAATTATC
65 GAATTGAACCAACATCTAAAAATGAAATAACATGAACTAAGCCAAAATCTAAAAATAAAATTACC
16767518 TT
130 TT
* * * * * *
16767520 ATTGAATCAAAGTCTAAAAATGAGATGACTTGAACAGAGTGAAAGTTTAAAAATTAAATGAT
1 ATTGAGTCGAAGTCTAAAAATGAAATGACTTGAACTGAGTG-AAGTTTGAAAATGAAATGAT
16767582 TTGGATTGAG
Statistics
Matches: 157, Mismatches: 34, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
130 2 0.01
131 51 0.32
132 102 0.65
133 2 0.01
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.27
Consensus pattern (131 bp):
ATTGAGTCGAAGTCTAAAAATGAAATGACTTGAACTGAGTGAAGTTTGAAAATGAAATGATCCTG
AATTGAACCAACATCTAAAAATGAAATAACATGAACTAAGCCAAAATCTAAAAATAAAATTACCT
T
Found at i:16767590 original size:131 final size:132
Alignment explanation
Indices: 16767339--16767581 Score: 310
Period size: 131 Copynumber: 1.8 Consensus size: 132
16767329 TGGACATCTA
* * * * * * **
16767339 AAAATGAAATAACATGGATTAAGTCGAAATCTGAAAATAAAATTACCTATATTGAGTTGAAGTCT
1 AAAATGAAATAACATGAACTAAGCCAAAATCTAAAAATAAAATTACCTATATTGAATCAAAGTCT
* *
16767404 AAAAAAGAAATGACTTGAACTGAGTTGAAGTCTGAAAATGAAATGATCCGAATTGAACCAAGTTC
66 AAAAAAGAAATGACTTGAACAGAGTTGAAGTCTAAAAATGAAATGATCCGAATTGAACCAAGTTC
16767469 TG
131 TG
* * *
16767471 AAAATGAAATAACCTGAACTAAGCCAAAATCTAAAAATGAAATTATCT-TATTGAATCAAAGTCT
1 AAAATGAAATAACATGAACTAAGCCAAAATCTAAAAATAAAATTACCTATATTGAATCAAAGTCT
* * * *
16767535 AAAAATGAGATGACTTGAACAGAG-TGAAAGTTTAAAAATTAAATGAT
66 AAAAAAGAAATGACTTGAACAGAGTTG-AAGTCTAAAAATGAAATGAT
16767582 TTGGATTGAG
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
130 2 0.02
131 51 0.55
132 40 0.43
ACGTcount: A:0.47, C:0.10, G:0.16, T:0.26
Consensus pattern (132 bp):
AAAATGAAATAACATGAACTAAGCCAAAATCTAAAAATAAAATTACCTATATTGAATCAAAGTCT
AAAAAAGAAATGACTTGAACAGAGTTGAAGTCTAAAAATGAAATGATCCGAATTGAACCAAGTTC
TG
Found at i:16767637 original size:33 final size:33
Alignment explanation
Indices: 16767504--16767781 Score: 152
Period size: 33 Copynumber: 8.5 Consensus size: 33
16767494 CCAAAATCTA
* * *
16767504 AAAATGAAATTATCTT--ATTGAATCAAAGTCTA
1 AAAATGAAATGA-CTTGGATTGAATCAAAGTTTG
* * ** * * *
16767536 AAAATGAGATGACTTGAACAGAGTGAAAGTTTA
1 AAAATGAAATGACTTGGATTGAATCAAAGTTTG
* * * * *
16767569 AAAATTAAATGATTTGGATTGAGCTGAAA-TCTG
1 AAAATGAAATGACTTGGATTGA-ATCAAAGTTTG
* *
16767602 AAAATAAAATGACTTGGATTAAATCAAAGTTTG
1 AAAATGAAATGACTTGGATTGAATCAAAGTTTG
* * ** * *
16767635 AAAATGAAATAACCTAAACTGAACCAAAGTTTG
1 AAAATGAAATGACTTGGATTGAATCAAAGTTTG
* * * * * *
16767668 AAAATGAATTGACTTAGATTGAGTCAAACTCTA
1 AAAATGAAATGACTTGGATTGAATCAAAGTTTG
** **
16767701 AAAATGAAATGAAATGGATTGAATTGAAG-TTG
1 AAAATGAAATGACTTGGATTGAATCAAAGTTTG
* * ***
16767733 AAAAATGAAATGACTTGGATTGAGTCGAAG-CCA
1 -AAAATGAAATGACTTGGATTGAATCAAAGTTTG
16767766 AAAATGAAATGACTTG
1 AAAATGAAATGACTTG
16767782 AATTAAACTG
Statistics
Matches: 184, Mismatches: 57, Indels: 10
0.73 0.23 0.04
Matches are distributed among these distances:
31 3 0.02
32 31 0.17
33 145 0.79
34 5 0.03
ACGTcount: A:0.46, C:0.08, G:0.18, T:0.28
Consensus pattern (33 bp):
AAAATGAAATGACTTGGATTGAATCAAAGTTTG
Found at i:16767664 original size:99 final size:99
Alignment explanation
Indices: 16767561--16767743 Score: 217
Period size: 99 Copynumber: 1.8 Consensus size: 99
16767551 GAACAGAGTG
* * * * * **
16767561 AAAGTTTAAAAATTAAATGATTTGGATTGAGCTGAAA-TCTGAAAATAAAATGACTTGGATTAAA
1 AAAGTTTAAAAATGAAATGACTTAGATTGAG-TCAAACTCTAAAAATAAAATGAAATGGATTAAA
16767625 TCAAAGTTTG-AAAATGAAATAACCTAAACTGAACC
65 TCAAAG-TTGAAAAATGAAATAACCTAAACTGAACC
* * * *
16767660 AAAGTTTGAAAATGAATTGACTTAGATTGAGTCAAACTCTAAAAATGAAATGAAATGGATTGAAT
1 AAAGTTTAAAAATGAAATGACTTAGATTGAGTCAAACTCTAAAAATAAAATGAAATGGATTAAAT
**
16767725 TGAAGTTGAAAAATGAAAT
66 CAAAGTTGAAAAATGAAAT
16767744 GACTTGGATT
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
98 7 0.10
99 62 0.90
ACGTcount: A:0.48, C:0.07, G:0.17, T:0.28
Consensus pattern (99 bp):
AAAGTTTAAAAATGAAATGACTTAGATTGAGTCAAACTCTAAAAATAAAATGAAATGGATTAAAT
CAAAGTTGAAAAATGAAATAACCTAAACTGAACC
Found at i:16767794 original size:65 final size:66
Alignment explanation
Indices: 16767668--16767806 Score: 174
Period size: 65 Copynumber: 2.1 Consensus size: 66
16767658 CCAAAGTTTG
* * * * *
16767668 AAAATGAATTGACTTAGATTGAGTCAAACTCTAAAAATGAAATGAAATGGATTGAATTGAAGTTG
1 AAAATGAAATGACTTAGATTGAGTCAAACTCTAAAAATGAAATGAAATGAATTAAACTGAAGTCG
16767733 A
66 A
* * **
16767734 AAAATGAAATGACTTGGATTGAGTCGAAGC-C-AAAAATGAAATGACTTGAATTAAACTGAAGTC
1 AAAATGAAATGACTTAGATTGAGTC-AAACTCTAAAAATGAAATGAAATGAATTAAACTGAAGTC
16767797 GA
65 GA
16767799 AAAATGAA
1 AAAATGAA
16767807 TTTGAAGATC
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
65 36 0.57
66 24 0.38
67 3 0.05
ACGTcount: A:0.47, C:0.08, G:0.20, T:0.25
Consensus pattern (66 bp):
AAAATGAAATGACTTAGATTGAGTCAAACTCTAAAAATGAAATGAAATGAATTAAACTGAAGTCG
A
Found at i:16768535 original size:25 final size:25
Alignment explanation
Indices: 16768507--16768571 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
16768497 TATTGGGGTT
* **
16768507 ATGGGCCTAAGACTTGATTGTGGCC
1 ATGGGCTTAAGACTTGATTAAGGCC
16768532 ATGGGCTTAAGACTTGATTAAGGCC
1 ATGGGCTTAAGACTTGATTAAGGCC
*
16768557 ATGGGTTTAAGACTT
1 ATGGGCTTAAGACTT
16768572 AACTAAGGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (25 bp):
ATGGGCTTAAGACTTGATTAAGGCC
Found at i:16768578 original size:25 final size:25
Alignment explanation
Indices: 16768528--16768579 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
16768518 ACTTGATTGT
* *
16768528 GGCCATGGGCTTAAGACTTGATTAA
1 GGCCATGGGCTTAAGACTTAACTAA
*
16768553 GGCCATGGGTTTAAGACTTAACTAA
1 GGCCATGGGCTTAAGACTTAACTAA
16768578 GG
1 GG
16768580 TTATAGGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (25 bp):
GGCCATGGGCTTAAGACTTAACTAA
Found at i:16771644 original size:27 final size:27
Alignment explanation
Indices: 16771604--16771656 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
16771594 AAATCTACTA
*
16771604 GAAAAATTTTCACC-CTTTTTTGTTAG
1 GAAAAATTATCACCACTTTTTTGTTAG
*
16771630 GAAAAGATTATCACCATTTTTTTGTTA
1 GAAAA-ATTATCACCACTTTTTTGTTA
16771657 TGGTATGATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 5 0.22
27 8 0.35
28 10 0.43
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.45
Consensus pattern (27 bp):
GAAAAATTATCACCACTTTTTTGTTAG
Found at i:16775253 original size:156 final size:156
Alignment explanation
Indices: 16775048--16775516 Score: 744
Period size: 156 Copynumber: 3.0 Consensus size: 156
16775038 GATATGCAAT
*
16775048 AAATGCAATGTCTATTATAGGGATGGTGAAATATGTTCACATAAAATGCAATTTGTATAATGCAA
1 AAATGCAATGTCTATTATAGGGATGGTGCAATATGTTCACATAAAATGCAATTTGTATAATGCAA
* * * *
16775113 GTTTTATCATAACCATATCATTCTTGAGTTCTTATACATAAACTCAATTATATTCTAGATGAGGA
66 GTTTTATCAGAACCATATCATTCTTGAGTTCCTATACATAAACTCAATTATATTCTATATGAGCA
16775178 ATGAGATGTAATTATATGAATGATGA
131 ATGAGATGTAATTATATGAATGATGA
16775204 AAATGCAATGTCTATTATAGGGATGGTGCAATATGTTCACATAAAATGCAATTTGTATAATGCAA
1 AAATGCAATGTCTATTATAGGGATGGTGCAATATGTTCACATAAAATGCAATTTGTATAATGCAA
* * *
16775269 GTTTTATCAGAACCATATCATTCTTGAGTTCCTATACATAAACTCAATTATATACCATATGAGTA
66 GTTTTATCAGAACCATATCATTCTTGAGTTCCTATACATAAACTCAATTATATTCTATATGAGCA
*
16775334 ATGATATGTAATTATATGAATGATGA
131 ATGAGATGTAATTATATGAATGATGA
* * * * *
16775360 AAATGCAATGTCTATTATAGGAATGGTGCAATGTGTTCACATAAAATGCAATTGGTGTAATGTAA
1 AAATGCAATGTCTATTATAGGGATGGTGCAATATGTTCACATAAAATGCAATTTGTATAATGCAA
* * * * *
16775425 G-TTTATTAGAACCATATCATTCTCGAGTTCCTATGCATGAACTCAATTATATAT-TATATAAGC
66 GTTTTATCAGAACCATATCATTCTTGAGTTCCTATACATAAACTCAATTATAT-TCTATATGAGC
16775488 AATGAGATGTAATTATATGAATGATGA
130 AATGAGATGTAATTATATGAATGATGA
16775515 AA
1 AA
16775517 GATGTTTATG
Statistics
Matches: 290, Mismatches: 22, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
155 81 0.28
156 209 0.72
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (156 bp):
AAATGCAATGTCTATTATAGGGATGGTGCAATATGTTCACATAAAATGCAATTTGTATAATGCAA
GTTTTATCAGAACCATATCATTCTTGAGTTCCTATACATAAACTCAATTATATTCTATATGAGCA
ATGAGATGTAATTATATGAATGATGA
Found at i:16775906 original size:16 final size:16
Alignment explanation
Indices: 16775885--16775916 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16775875 AAAACCTCCC
*
16775885 ATTTTTTATTTTTTTG
1 ATTTTTGATTTTTTTG
16775901 ATTTTTGATTTTTTTG
1 ATTTTTGATTTTTTTG
16775917 TTTGATGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.78
Consensus pattern (16 bp):
ATTTTTGATTTTTTTG
Found at i:16778124 original size:20 final size:20
Alignment explanation
Indices: 16778091--16778132 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
16778081 ATGACTCAAT
*
16778091 TTTGATCAAATTTGGCCAAA
1 TTTGAACAAATTTGGCCAAA
* *
16778111 TTTGAACAAGTTTGGCTAAA
1 TTTGAACAAATTTGGCCAAA
16778131 TT
1 TT
16778133 GGCTTCTAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (20 bp):
TTTGAACAAATTTGGCCAAA
Found at i:16780993 original size:23 final size:22
Alignment explanation
Indices: 16780943--16780993 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 22
16780933 TTAATTATTA
*
16780943 TTTATATTTGCATAATTTATAT
1 TTTATATTTACATAATTTATAT
16780965 TATTATATTTACATGATATTT-TAT
1 T-TTATATTTACAT-A-ATTTATAT
16780989 TTTAT
1 TTTAT
16780994 TTGATGTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 1 0.04
23 15 0.60
24 5 0.20
25 4 0.16
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (22 bp):
TTTATATTTACATAATTTATAT
Found at i:16781107 original size:19 final size:19
Alignment explanation
Indices: 16781024--16781110 Score: 77
Period size: 21 Copynumber: 4.4 Consensus size: 19
16781014 TGATTTATTG
*
16781024 CATGATAAATTATATTAATTA
1 CATGATAATTTATATT--TTA
*
16781045 CATGATAATTTATATTAATA
1 CATGATAATTTATATT-TTA
* *
16781065 GCATGATTATATTATA-TTTG
1 -CATGATAAT-TTATATTTTA
*
16781085 CATGGTAATTTATATTTTA
1 CATGATAATTTATATTTTA
16781104 CATGATA
1 CATGATA
16781111 TTTTTGCATG
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
18 5 0.09
19 16 0.30
20 4 0.07
21 24 0.44
22 5 0.09
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (19 bp):
CATGATAATTTATATTTTA
Found at i:16784871 original size:13 final size:11
Alignment explanation
Indices: 16784855--16784900 Score: 56
Period size: 11 Copynumber: 3.9 Consensus size: 11
16784845 AAATAGGGAA
16784855 AAAAAAAGAAACG
1 AAAAAAA-AAA-G
*
16784868 AAAAAAAAGAG
1 AAAAAAAAAAG
16784879 AAAAAAAAAAG
1 AAAAAAAAAAG
16784890 AAAAATAAAAA
1 AAAAA-AAAAA
16784901 AAGATGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
11 16 0.53
12 7 0.23
13 7 0.23
ACGTcount: A:0.85, C:0.02, G:0.11, T:0.02
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:16784883 original size:27 final size:26
Alignment explanation
Indices: 16784836--16784911 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 26
16784826 GTGGAAACAT
*
16784836 GAAAGAAAAAAATAG-GGAAAAAAAAA
1 GAAAGAAAAAAA-AGAGAAAAAAAAAA
16784862 GAAACGAAAAAAAAGAGAAAAAAAAAA
1 GAAA-GAAAAAAAAGAGAAAAAAAAAA
*
16784889 GAAAAATAAAAAAAGATGAAAAA
1 GAAAGA-AAAAAAAGA-GAAAAA
16784912 TGTGGAAAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
26 7 0.16
27 31 0.70
28 6 0.14
ACGTcount: A:0.79, C:0.01, G:0.16, T:0.04
Consensus pattern (26 bp):
GAAAGAAAAAAAAGAGAAAAAAAAAA
Found at i:16784899 original size:14 final size:13
Alignment explanation
Indices: 16784853--16784904 Score: 68
Period size: 14 Copynumber: 3.8 Consensus size: 13
16784843 AAAAATAGGG
16784853 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
* *
16784866 CGAAAAAAAAGAGA
1 -AAAAAAAAAGAAA
16784880 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
16784893 AATAAAAAAAGA
1 AA-AAAAAAAGA
16784905 TGAAAAATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
13 13 0.39
14 20 0.61
ACGTcount: A:0.85, C:0.02, G:0.12, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAGAAA
Found at i:16784901 original size:13 final size:12
Alignment explanation
Indices: 16784853--16784901 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 12
16784843 AAAAATAGGG
16784853 AAAAAAAAAGAA
1 AAAAAAAAAGAA
16784865 ACGAAAAAAAAGAGA
1 A--AAAAAAAAGA-A
16784880 AAAAAAAAAGAA
1 AAAAAAAAAGAA
16784892 AAATAAAAAA
1 AAA-AAAAAA
16784902 AGATGAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
12 5 0.15
13 16 0.48
14 10 0.30
15 2 0.06
ACGTcount: A:0.86, C:0.02, G:0.10, T:0.02
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:16784909 original size:17 final size:17
Alignment explanation
Indices: 16784879--16784912 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16784869 AAAAAAAGAG
16784879 AAAAAAAAAAGAAAAAT
1 AAAAAAAAAAGAAAAAT
* *
16784896 AAAAAAAGATGAAAAAT
1 AAAAAAAAAAGAAAAAT
16784913 GTGGAAAGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (17 bp):
AAAAAAAAAAGAAAAAT
Found at i:16786865 original size:84 final size:84
Alignment explanation
Indices: 16786758--16786959 Score: 201
Period size: 84 Copynumber: 2.4 Consensus size: 84
16786748 TCTTCCAAGC
* * * * * * * *
16786758 TGAATCTATTTTAGTTTTGTGATTTGTAAGACTTTCGGGTATAGTCTCTAA-GTTCT-TCGGGTA
1 TGAATCTGTTTCAATTTTATGATTTGTAAGACCTTCGGATATAATCTCTAAGGTT-TAT-GGGCA
16786821 AGATTTGTAAGTCTTATGAGT
64 AGATTTGTAAGTCTTATGAGT
* * * *
16786842 TGACTTTGTTTCAATTTTATGATTTGTAAGACCTTCGGATATAATTTCTAAGGTTTATTGGCAAG
1 TGAATCTGTTTCAATTTTATGATTTGTAAGACCTTCGGATATAATCTCTAAGGTTTATGGGCAAG
* * *
16786907 ATTTGTAAGTTTTTTTAGT
66 ATTTGTAAGTCTTATGAGT
* * * *
16786926 TGAATCTGTTTTAGTTTCATGATTTGTAAAACCT
1 TGAATCTGTTTCAATTTTATGATTTGTAAGACCT
16786960 ATGGCATAGT
Statistics
Matches: 95, Mismatches: 21, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
84 91 0.96
85 4 0.04
ACGTcount: A:0.24, C:0.09, G:0.19, T:0.47
Consensus pattern (84 bp):
TGAATCTGTTTCAATTTTATGATTTGTAAGACCTTCGGATATAATCTCTAAGGTTTATGGGCAAG
ATTTGTAAGTCTTATGAGT
Found at i:16787163 original size:69 final size:69
Alignment explanation
Indices: 16787036--16787168 Score: 160
Period size: 69 Copynumber: 1.9 Consensus size: 69
16787026 TTTGTAAGAC
** * * * *
16787036 CTTCGAGTATAGTCTCTAAGTCCTTCGGGCAAGATTCATAAGTTCTTTGAGCTGAATCTATTTTT
1 CTTCGAGTATAGTCTCTAAACCCTTCGAGCAAGATTCATAAGTTCTTTCAACTAAATCTATTTTT
16787101 ATGT
66 ATGT
* ** *
16787105 CTTCGAGTATAGTCTTTAAACCCTTCGAGCAAGATTTGTAAG-TCTTTCCAATTAAATCTATTTT
1 CTTCGAGTATAGTCTCTAAACCCTTCGAGCAAGATTCATAAGTTCTTT-CAACTAAATCTATTTT
16787169 AATGCTAAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
68 5 0.09
69 48 0.91
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.41
Consensus pattern (69 bp):
CTTCGAGTATAGTCTCTAAACCCTTCGAGCAAGATTCATAAGTTCTTTCAACTAAATCTATTTTT
ATGT
Found at i:16787537 original size:44 final size:44
Alignment explanation
Indices: 16787480--16787628 Score: 140
Period size: 44 Copynumber: 3.4 Consensus size: 44
16787470 ACCTCTGGGA
* * * * ** *
16787480 ATAATCACCAAGACTTCTAACCATGATTTGTTAGACCTCTTAGC
1 ATAATCTCTAAGACTTCTAAACATGATTTGTAAGACCTCCAAAC
* **** * *
16787524 ATAATCTCTAAGACCTCCGGGCATGGTTTATAAGACCTCCAAAC
1 ATAATCTCTAAGACTTCTAAACATGATTTGTAAGACCTCCAAAC
16787568 ATAATCTCTAAGACCTT-TAAACATGATTTGTAAGACCTCCAAAC
1 ATAATCTCTAAGA-CTTCTAAACATGATTTGTAAGACCTCCAAAC
16787612 ATAATCT-TCAAGACTTC
1 ATAATCTCT-AAGACTTC
16787629 CAGGTTTGAT
Statistics
Matches: 82, Mismatches: 20, Indels: 6
0.76 0.19 0.06
Matches are distributed among these distances:
43 4 0.05
44 76 0.93
45 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (44 bp):
ATAATCTCTAAGACTTCTAAACATGATTTGTAAGACCTCCAAAC
Found at i:16787547 original size:22 final size:22
Alignment explanation
Indices: 16787512--16787618 Score: 70
Period size: 22 Copynumber: 4.9 Consensus size: 22
16787502 ATGATTTGTT
**
16787512 AGACCTCTTAGCATAATCTCTA
1 AGACCTCCAAGCATAATCTCTA
** ** * *
16787534 AGACCTCCGGGCATGGTTTATA
1 AGACCTCCAAGCATAATCTCTA
*
16787556 AGACCTCCAAACATAATCTCTA
1 AGACCTCCAAGCATAATCTCTA
** * * * *
16787578 AGACCTTTAAACATGATTTGTA
1 AGACCTCCAAGCATAATCTCTA
*
16787600 AGACCTCCAAACATAATCT
1 AGACCTCCAAGCATAATCT
16787619 TCAAGACTTC
Statistics
Matches: 62, Mismatches: 23, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 62 1.00
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.28
Consensus pattern (22 bp):
AGACCTCCAAGCATAATCTCTA
Found at i:16787624 original size:22 final size:22
Alignment explanation
Indices: 16787555--16787630 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 22
16787545 CATGGTTTAT
16787555 AAGACCTCCAAACATAATC-TC
1 AAGACCTCCAAACATAATCTTC
** * *
16787576 TAAGACCTTTAAACATGAT-TTGT
1 -AAGACCTCCAAACATAATCTT-C
16787599 AAGACCTCCAAACATAATCTTC
1 AAGACCTCCAAACATAATCTTC
*
16787621 AAGACTTCCA
1 AAGACCTCCA
16787631 GGTTTGATTT
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
22 40 0.95
23 2 0.05
ACGTcount: A:0.39, C:0.26, G:0.08, T:0.26
Consensus pattern (22 bp):
AAGACCTCCAAACATAATCTTC
Found at i:16787660 original size:88 final size:88
Alignment explanation
Indices: 16787458--16787672 Score: 213
Period size: 88 Copynumber: 2.4 Consensus size: 88
16787448 AAAGCTAAGA
* ** * * * ** *
16787458 ATGATTTATAGGACCTCTGGGAATAATCACCAAGACTTCTAACCATGATTTGTTAGACCTCTTAG
1 ATGATTTATAAGACCTCAAGGAATAATCTCCAAGACTTCTAAACATGATTTGTAAGACCTCCAAA
*
16787523 CATAATCTCTAAGACCTCCGGGC
66 CATAATCTCTAAGACCTCCAGGC
* *
16787546 ATGGTTTATAAGACCTCCAA--ACATAATCTCTAAGACCTT-TAAACATGATTTGTAAGACCTCC
1 ATGATTTATAAGACCT-CAAGGA-ATAATCTCCAAGA-CTTCTAAACATGATTTGTAAGACCTCC
* *
16787608 AAACATAATCT-TCAAGACTTCCAGGT
63 AAACATAATCTCT-AAGACCTCCAGGC
* * *
16787634 TTGATTTGTAAGACCTCAAGGAATAATCTTCAAGACTTC
1 ATGATTTATAAGACCTCAAGGAATAATCTCCAAGACTTC
16787673 CGGGCATAAT
Statistics
Matches: 101, Mismatches: 19, Indels: 14
0.75 0.14 0.10
Matches are distributed among these distances:
87 8 0.08
88 88 0.87
89 5 0.05
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.30
Consensus pattern (88 bp):
ATGATTTATAAGACCTCAAGGAATAATCTCCAAGACTTCTAAACATGATTTGTAAGACCTCCAAA
CATAATCTCTAAGACCTCCAGGC
Found at i:16787681 original size:22 final size:22
Alignment explanation
Indices: 16787656--16787706 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
16787646 ACCTCAAGGA
*
16787656 ATAATCTTCAAGACTTCCGGGC
1 ATAATCTTCAAGACTTCAGGGC
*
16787678 ATAATCTTTAAGACTTCAGGGC
1 ATAATCTTCAAGACTTCAGGGC
*
16787700 ATGATCT
1 ATAATCT
16787707 CTGAAACATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (22 bp):
ATAATCTTCAAGACTTCAGGGC
Found at i:16792132 original size:47 final size:48
Alignment explanation
Indices: 16792072--16792163 Score: 107
Period size: 47 Copynumber: 1.9 Consensus size: 48
16792062 TATTAGTCAT
* * *
16792072 ACTTGTAGCTAGTATGAT-AGGGTCAA-AAAATCAAATTTAATGGTTCC
1 ACTTGAAGCTAGTAAGATGA-GGTCAAGAAAACCAAATTTAATGGTTCC
* * *
16792119 ACTTGAAGGTAGTAAGATGAGGTCAAGAGAACCAAATTTGATGGT
1 ACTTGAAGCTAGTAAGATGAGGTCAAGAAAACCAAATTTAATGGT
16792164 CCTACCCAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
47 21 0.57
48 16 0.43
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.28
Consensus pattern (48 bp):
ACTTGAAGCTAGTAAGATGAGGTCAAGAAAACCAAATTTAATGGTTCC
Found at i:16793334 original size:24 final size:25
Alignment explanation
Indices: 16793288--16793334 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
16793278 ATTAAGTTTT
* *
16793288 TGTTGAGAATCTTTGTCAACTTCTA
1 TGTTGAGAATCCTTATCAACTTCTA
*
16793313 TGTTG-GAATCCTTATCATCTTC
1 TGTTGAGAATCCTTATCAACTTC
16793335 CTGAAGGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.45
Consensus pattern (25 bp):
TGTTGAGAATCCTTATCAACTTCTA
Found at i:16794804 original size:18 final size:17
Alignment explanation
Indices: 16794777--16794823 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
16794767 ATAATAAAGG
* *
16794777 AAAAACAGAAAACTGAAA
1 AAAAAAAGAAAA-GGAAA
16794795 AAAAAAAG-AAAGGAAA
1 AAAAAAAGAAAAGGAAA
16794811 AATAAAAAGAAAA
1 AA-AAAAAGAAAA
16794824 AAAATTGGCG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 6 0.24
17 9 0.36
18 10 0.40
ACGTcount: A:0.79, C:0.04, G:0.13, T:0.04
Consensus pattern (17 bp):
AAAAAAAGAAAAGGAAA
Found at i:16795918 original size:24 final size:23
Alignment explanation
Indices: 16795882--16795945 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 23
16795872 TTTAGTTTTA
16795882 TATTTTTTACTTATTTACTAATTT
1 TATTTTTT-CTTATTTACTAATTT
* **
16795906 TATTTTTGTCTTATTTATTCGTTT
1 TATTTTT-TCTTATTTACTAATTT
16795930 TATTTATTTCTTATTT
1 TATTT-TTTCTTATTT
16795946 TTATATATGT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 32 0.91
25 3 0.09
ACGTcount: A:0.19, C:0.08, G:0.03, T:0.70
Consensus pattern (23 bp):
TATTTTTTCTTATTTACTAATTT
Found at i:16798932 original size:15 final size:15
Alignment explanation
Indices: 16798893--16798933 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
16798883 ACATGTAAGG
*
16798893 AAAAAAAATTGAAAA
1 AAAAAAAAATGAAAA
**
16798908 AAAATTAAATGAAAA
1 AAAAAAAAATGAAAA
16798923 AAAAAAAAATG
1 AAAAAAAAATG
16798934 GTTCTTGGTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (15 bp):
AAAAAAAAATGAAAA
Found at i:16800834 original size:16 final size:17
Alignment explanation
Indices: 16800809--16800841 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
16800799 AAATAGGGAC
16800809 GGTAGCAAGTG-GAAAA
1 GGTAGCAAGTGTGAAAA
*
16800825 GGTAGTAAGTGTGAAAA
1 GGTAGCAAGTGTGAAAA
16800842 TGTTGATAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.42, C:0.03, G:0.36, T:0.18
Consensus pattern (17 bp):
GGTAGCAAGTGTGAAAA
Found at i:16804487 original size:21 final size:19
Alignment explanation
Indices: 16804453--16804500 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
16804443 AATTTGTGCC
16804453 AAAAATTTCCAAAATTTTT
1 AAAAATTTCCAAAATTTTT
**
16804472 AAAAATCTTGCCAAAATTTCA
1 AAAAAT-TT-CCAAAATTTTT
16804493 AAAAATTT
1 AAAAATTT
16804501 TGAAAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 6 0.24
20 4 0.16
21 15 0.60
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAAATTTCCAAAATTTTT
Found at i:16804487 original size:31 final size:30
Alignment explanation
Indices: 16804449--16804507 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
16804439 ACACAATTTG
* *
16804449 TGCCAAAAATTTCCAAAATTTTTAAAAATCT
1 TGCC-AAAATTTCAAAAAATTTTAAAAATCT
*
16804480 TGCCAAAATTTCAAAAAATTTTGAAAAT
1 TGCCAAAATTTCAAAAAATTTTAAAAAT
16804508 TTATTGTGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (30 bp):
TGCCAAAATTTCAAAAAATTTTAAAAATCT
Found at i:16807095 original size:188 final size:188
Alignment explanation
Indices: 16806778--16807143 Score: 642
Period size: 188 Copynumber: 1.9 Consensus size: 188
16806768 AACTTGAAAT
* * *
16806778 TCTTCAAATGAAGTTTATATTCTTCTTGAATTTGAAATGGTCAAATGATAGAGTCTTTGTGCCTT
1 TCTTCAAATGAAGCTTATATTCTTCTTGAATTTGAAATGGTCAAATGATAGAGTCCTTGTACCTT
* *
16806843 TAAACTTGCATGAAACTCTCCTTAAAATTAGTGTGGTTGAATAAGATAATGTGATGGACTCCTTA
66 TAAAATTGCATGAAACTCTCATTAAAATTAGTGTGGTTGAATAAGATAATGTGATGGACTCCTTA
16806908 AAGTTGCAAACTCTTTCAAAATTGCATTATCCTTTCTTACAAATGTCTTAGCCGAATG
131 AAGTTGCAAACTCTTTCAAAATTGCATTATCCTTTCTTACAAATGTCTTAGCCGAATG
*
16806966 TCTTCAAATGATGCTTATATTCTTCTTGAATTTGAAATGGTCAAATGATAGAGTCCTTGTACCTT
1 TCTTCAAATGAAGCTTATATTCTTCTTGAATTTGAAATGGTCAAATGATAGAGTCCTTGTACCTT
* * *
16807031 TAAAATTGCATGAAACTCTCATTATAATTGGTGTGGTTGAATAGGATAATGTGATGGACTCCTTA
66 TAAAATTGCATGAAACTCTCATTAAAATTAGTGTGGTTGAATAAGATAATGTGATGGACTCCTTA
*
16807096 AAGTTGTAAACTCTTTCAAAATTGCATTATCCTTTCTTACAAATGTCT
131 AAGTTGCAAACTCTTTCAAAATTGCATTATCCTTTCTTACAAATGTCT
16807144 CGGTCGAATG
Statistics
Matches: 168, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
188 168 1.00
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.39
Consensus pattern (188 bp):
TCTTCAAATGAAGCTTATATTCTTCTTGAATTTGAAATGGTCAAATGATAGAGTCCTTGTACCTT
TAAAATTGCATGAAACTCTCATTAAAATTAGTGTGGTTGAATAAGATAATGTGATGGACTCCTTA
AAGTTGCAAACTCTTTCAAAATTGCATTATCCTTTCTTACAAATGTCTTAGCCGAATG
Found at i:16807695 original size:25 final size:25
Alignment explanation
Indices: 16807661--16807719 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
16807651 TATTCATTCA
16807661 AGGCAAAAATAACCTAAGAAAGTAT
1 AGGCAAAAATAACCTAAGAAAGTAT
16807686 AGGCAAAAATAACCTAAGAAAGTAT
1 AGGCAAAAATAACCTAAGAAAGTAT
*
16807711 AAGCAAAAA
1 AGGCAAAAA
16807720 CTTGAGAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.59, C:0.12, G:0.15, T:0.14
Consensus pattern (25 bp):
AGGCAAAAATAACCTAAGAAAGTAT
Found at i:16816434 original size:121 final size:121
Alignment explanation
Indices: 16816297--16816526 Score: 343
Period size: 121 Copynumber: 1.9 Consensus size: 121
16816287 GCAAATAGAC
* * * * * * *
16816297 ATGCAATTAAATATATAATCTTGCAATTAACAATATAAAATAAGTAATTAAATATCTAATCATGC
1 ATGCAATTAAACATATAATCATGCAATTAACAATATAAAACAAGCAACTAAATATATAATCAAGC
* * *
16816362 AATTAACAATGTAAAACATGTAATTAAATATATGATCATGCAATTAAATATAAATT
66 AATTAACAATATAAAACATGCAATTAAATATATAATCATGCAATTAAATATAAATT
*
16816418 ATGCAATTAAACATATAATCATGCAATTAACAATATAAAACATGCAACTAAATATATAATCAAGC
1 ATGCAATTAAACATATAATCATGCAATTAACAATATAAAACAAGCAACTAAATATATAATCAAGC
* *
16816483 AATTAACAATATAAAATATGCCATTAAATATATAATCATGCAAT
66 AATTAACAATATAAAACATGCAATTAAATATATAATCATGCAAT
16816527 CACACAAATA
Statistics
Matches: 96, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
121 96 1.00
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.31
Consensus pattern (121 bp):
ATGCAATTAAACATATAATCATGCAATTAACAATATAAAACAAGCAACTAAATATATAATCAAGC
AATTAACAATATAAAACATGCAATTAAATATATAATCATGCAATTAAATATAAATT
Found at i:16816438 original size:80 final size:82
Alignment explanation
Indices: 16816295--16816526 Score: 342
Period size: 80 Copynumber: 2.9 Consensus size: 82
16816285 ATGCAAATAG
* * * *
16816295 ACATGCAATTAAATATATAATCTTGCAATTAACAATATAAAATAAGTAATTAAATATCTAATCAT
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAAAATATGCAATTAAATATATAATCAT
*
16816360 GCAATTAACAATGTAAA
66 GCAATTAACAATATAAA
* * * *
16816377 ACATGTAATTAAATATATGATCATGCAATT-A-AATATAAATTATGCAATTAAACATATAATCAT
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAAAATATGCAATTAAATATATAATCAT
16816440 GCAATTAACAATATAAA
66 GCAATTAACAATATAAA
* * *
16816457 ACATGCAACTAAATATATAATCAAGCAATTAACAATATAAAATATGCCATTAAATATATAATCAT
1 ACATGCAATTAAATATATAATCATGCAATTAACAATATAAAATATGCAATTAAATATATAATCAT
16816522 GCAAT
66 GCAAT
16816527 CACACAAATA
Statistics
Matches: 132, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
80 69 0.52
81 2 0.02
82 61 0.46
ACGTcount: A:0.51, C:0.12, G:0.06, T:0.31
Consensus pattern (82 bp):
ACATGCAATTAAATATATAATCATGCAATTAACAATATAAAATATGCAATTAAATATATAATCAT
GCAATTAACAATATAAA
Found at i:16816515 original size:21 final size:20
Alignment explanation
Indices: 16816297--16816526 Score: 143
Period size: 20 Copynumber: 11.3 Consensus size: 20
16816287 GCAAATAGAC
*
16816297 ATGCAATT-AAATATATAAT
1 ATGCAATTAAAATATAAAAT
*
16816316 CTTGCAATTAACAATATAAAAT
1 -ATGCAATTAA-AATATAAAAT
* * **
16816338 AAGTAATT-AAATATCTAAT
1 ATGCAATTAAAATATAAAAT
* *
16816357 CATGCAATTAACAATGTAAAAC
1 -ATGCAATTAA-AATATAAAAT
* **
16816379 ATGTAATT-AAATATATGAT
1 ATGCAATTAAAATATAAAAT
*
16816398 CATGCAATT-AAATATAAATT
1 -ATGCAATTAAAATATAAAAT
16816418 ATGCAATTAAACATAT--AAT
1 ATGCAATTAAA-ATATAAAAT
*
16816437 CATGCAATTAACAATATAAAAC
1 -ATGCAATTAA-AATATAAAAT
* *
16816459 ATGCAACT-AAATATATAAT
1 ATGCAATTAAAATATAAAAT
*
16816478 CAAGCAATTAACAATATAAAAT
1 -ATGCAATTAA-AATATAAAAT
* *
16816500 ATGCCATT-AAATATATAAT
1 ATGCAATTAAAATATAAAAT
16816519 CATGCAAT
1 -ATGCAAT
16816527 CACACAAATA
Statistics
Matches: 160, Mismatches: 34, Indels: 32
0.71 0.15 0.14
Matches are distributed among these distances:
19 41 0.26
20 60 0.38
21 33 0.21
22 26 0.16
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.31
Consensus pattern (20 bp):
ATGCAATTAAAATATAAAAT
Found at i:16816538 original size:41 final size:41
Alignment explanation
Indices: 16816297--16816526 Score: 320
Period size: 41 Copynumber: 5.7 Consensus size: 41
16816287 GCAAATAGAC
*
16816297 ATGCAATTAAATATATAATCTTGCAATTAACAATATAAAAT
1 ATGCAATTAAATATATAATCATGCAATTAACAATATAAAAT
* * * * *
16816338 AAGTAATTAAATATCTAATCATGCAATTAACAATGTAAAAC
1 ATGCAATTAAATATATAATCATGCAATTAACAATATAAAAT
* * *
16816379 ATGTAATTAAATATATGATCATGCAATT-A-AATATAAATT
1 ATGCAATTAAATATATAATCATGCAATTAACAATATAAAAT
* *
16816418 ATGCAATTAAACATATAATCATGCAATTAACAATATAAAAC
1 ATGCAATTAAATATATAATCATGCAATTAACAATATAAAAT
* *
16816459 ATGCAACTAAATATATAATCAAGCAATTAACAATATAAAAT
1 ATGCAATTAAATATATAATCATGCAATTAACAATATAAAAT
*
16816500 ATGCCATTAAATATATAATCATGCAAT
1 ATGCAATTAAATATATAATCATGCAAT
16816527 CACACAAATA
Statistics
Matches: 163, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.20
40 2 0.01
41 129 0.79
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.31
Consensus pattern (41 bp):
ATGCAATTAAATATATAATCATGCAATTAACAATATAAAAT
Found at i:16816593 original size:20 final size:20
Alignment explanation
Indices: 16816536--16816609 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
16816526 TCACACAAAT
**
16816536 AAATAAATCGATAATCATGC
1 AAATAAATTAATAATCATGC
* *
16816556 AAATAAATTGATAATCATGA
1 AAATAAATTAATAATCATGC
**
16816576 AAATAAATTAATTGTCATGC
1 AAATAAATTAATAATCATGC
*
16816596 AAATATATTAATAA
1 AAATAAATTAATAA
16816610 ACCACACAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.31
Consensus pattern (20 bp):
AAATAAATTAATAATCATGC
Found at i:16816654 original size:16 final size:16
Alignment explanation
Indices: 16816633--16816678 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
16816623 ATTAATCATA
16816633 CAAATAAAATATTAAG
1 CAAATAAAATATTAAG
* * *
16816649 CAAATAAATTATCATG
1 CAAATAAAATATTAAG
*
16816665 CAAATATAATATTA
1 CAAATAAAATATTA
16816679 GTTATGCAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (16 bp):
CAAATAAAATATTAAG
Found at i:16816669 original size:32 final size:33
Alignment explanation
Indices: 16816616--16816678 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
16816606 ATAAACCACA
*
16816616 CAAATATATTAATCATACAAATAAAATATTAAG
1 CAAATAAATTAATCATACAAATAAAATATTAAG
* *
16816649 CAAATAAATT-ATCATGCAAATATAATATTA
1 CAAATAAATTAATCATACAAATAAAATATTA
16816679 GTTATGCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 18 0.67
33 9 0.33
ACGTcount: A:0.56, C:0.10, G:0.03, T:0.32
Consensus pattern (33 bp):
CAAATAAATTAATCATACAAATAAAATATTAAG
Done.