Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 197 of 318
Found at i:61798821 original size:40 final size:38
Alignment explanation
Indices: 61798772--61798879 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
61798762 ATCACGATTT
*
61798772 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
61798812 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
61798852 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
61798880 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:61806932 original size:80 final size:80
Alignment explanation
Indices: 61806848--61806996 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
61806838 TATGGTAACC
* * * *
61806848 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
61806912 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
61806928 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
61806993 CCGG
66 CCGG
61806997 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:61806938 original size:40 final size:38
Alignment explanation
Indices: 61806889--61806996 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
61806879 ATCACGATTT
*
61806889 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
61806929 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
61806969 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
61806997 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:61811056 original size:41 final size:40
Alignment explanation
Indices: 61810895--61811056 Score: 150
Period size: 41 Copynumber: 3.9 Consensus size: 40
61810885 GCTAATCGGG
*
61810895 GTCTAAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 GTCT-AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
* *
61810936 G-CTAATAACCGAACTTAGTTTCGAAGGGCTTTTTAGAGCCAGT
1 GTCTAAT--CCGAGCTTAGTCTCGAAGGGC-TTTT-GAGCCAGT
* * * *
61810979 GTCAAAACCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGT
1 GTCTAATCCGAG-CTTAGTCT-CGAAGGGCTTTTGAGCCAGT
* *
61811019 GGTCTAATTCGAGCTTGGTCTCGAAGGGCTTTTGAGCC
1 -GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCC
61811057 GATGCTAAGA
Statistics
Matches: 97, Mismatches: 14, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
39 3 0.03
40 10 0.10
41 49 0.51
42 23 0.24
43 9 0.09
44 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
Found at i:61816799 original size:18 final size:19
Alignment explanation
Indices: 61816761--61816803 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
61816751 CATATTTCAA
61816761 TTCACAATTCACATTTCTT
1 TTCACAATTCACATTTCTT
* *
61816780 TTCATAATTC-CATTTTTT
1 TTCACAATTCACATTTCTT
61816798 TTCACA
1 TTCACA
61816804 CTTTCAATAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.51
Consensus pattern (19 bp):
TTCACAATTCACATTTCTT
Found at i:61817025 original size:23 final size:22
Alignment explanation
Indices: 61816958--61817043 Score: 106
Period size: 21 Copynumber: 4.0 Consensus size: 22
61816948 CCTGATCAGT
*
61816958 ATACGACACATAA-GTGCCTGA
1 ATACGACACACAAGGTGCCTGA
*
61816979 A-ACGACACACGAGGTGCCTG-
1 ATACGACACACAAGGTGCCTGA
61816999 ATACGACACACAAGGTGCCTGAA
1 ATACGACACACAAGGTGCCTG-A
* *
61817022 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAGGTGCCTGA
61817044 TCAGTATAGC
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
20 10 0.18
21 26 0.46
22 1 0.02
23 19 0.34
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (22 bp):
ATACGACACACAAGGTGCCTGA
Found at i:61817040 original size:44 final size:41
Alignment explanation
Indices: 61816958--61817044 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 41
61816948 CCTGATCAGT
* * *
61816958 ATACGACACATAAGTGCCTGAAACGACACACGAGGTGCCTG
1 ATACGACACACAAGTGCCTGAAACGACACACAAAGTGCCTG
*
61816999 ATACGACACACAAGGTGCCTGAAATACGACACATAAAGTGCCTG
1 ATACGACACACAA-GTGCCTG-AA-ACGACACACAAAGTGCCTG
61817043 AT
1 AT
61817045 CAGTATAGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
41 12 0.31
42 7 0.18
43 2 0.05
44 18 0.46
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (41 bp):
ATACGACACACAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:61823065 original size:46 final size:46
Alignment explanation
Indices: 61823015--61823190 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
61823005 TGGTTGAGCA
61823015 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
61823061 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
61823106 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
61823154 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61823191 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:61823171 original size:93 final size:93
Alignment explanation
Indices: 61823012--61823183 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
61823002 GGATGGTTGA
* *
61823012 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
61823077 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
61823105 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
61823170 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
61823184 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:61830158 original size:46 final size:46
Alignment explanation
Indices: 61830108--61830282 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
61830098 TGGTTGAGCA
*
61830108 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * * *
61830154 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG--CGA-ACG
*
61830200 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
61830246 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61830283 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
43 4 0.04
45 4 0.04
46 91 0.85
47 4 0.04
49 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:61830262 original size:92 final size:92
Alignment explanation
Indices: 61830105--61830274 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
61830095 GGATGGTTGA
* * *
61830105 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
61830170 TGAGTCCGAGTTCGTGAGATGTACTAG
66 TGAGTCCGAGTTCGTGAGATGTACTAG
*
61830197 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
61830262 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
61830275 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (92 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTACTAG
Found at i:61835128 original size:2 final size:2
Alignment explanation
Indices: 61835121--61835148 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
61835111 ATTAGAGAAA
61835121 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61835149 GCGTATGGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61835675 original size:2 final size:2
Alignment explanation
Indices: 61835627--61835667 Score: 73
Period size: 2 Copynumber: 20.0 Consensus size: 2
61835617 TCCAGATGTG
61835627 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61835668 GCATATATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 36 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:61835846 original size:41 final size:40
Alignment explanation
Indices: 61835694--61835855 Score: 150
Period size: 41 Copynumber: 3.9 Consensus size: 40
61835684 GCTAATCGGG
*
61835694 GTCTAAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 GTCT-AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
* * *
61835735 G-CTAATAACCGAACTTAGTTTCGAAGGGCTTTTTAGAGCTAGT
1 GTCTAAT--CCGAGCTTAGTCTCGAAGGGC-TTTT-GAGCCAGT
* * * *
61835778 GTCAAAACCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGT
1 GTCTAATCCGAG-CTTAGTCT-CGAAGGGCTTTTGAGCCAGT
*
61835818 GGTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCC
1 -GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCC
61835856 GATGCTAAGA
Statistics
Matches: 96, Mismatches: 15, Indels: 20
0.73 0.11 0.15
Matches are distributed among these distances:
39 3 0.03
40 9 0.09
41 50 0.52
42 23 0.24
43 8 0.08
44 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
Found at i:61840925 original size:44 final size:44
Alignment explanation
Indices: 61840845--61842078 Score: 490
Period size: 44 Copynumber: 26.8 Consensus size: 44
61840835 TCAAACTAAC
* * *
61840845 CCACTGCAACTTCAGGG-TATAAGATTTGTTATCTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTCAATCTGCT
* * * *
61840889 CCATTGAAACTTCAGGGAGATAAGATTTGTAGCTTCAACCCGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
* * * * *
61840933 CCACTGTAACTTCAGAGAGATAAGGTTTATAGCTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
* * * * * * *
61840977 CTACCGCAACTTCAGAGAGATAAGGTTTGCTATCTTTAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTCAATCTGCT
* * * *
61841022 CTACTGCAACTTTAGGGAGATAATG-TTTGAAGCCTT-AATATGCT
1 CCACTGCAACTTCAGGGAGATAA-GATTTGTAG-CTTCAATCTGCT
* * * * *
61841066 CTACTGTAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTCAATCTGCT
* * * * *
61841111 CCATTGCAACTTCAGGGAGATAAGATTCGTGGCTTTAATCTTCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
* *
61841155 CCACTACAACTTCAGGGAGATAAGATTTGTAGCCTGTCTTCAATCTTCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTA----G-CTTCAATCTGCT
* * * ** * *
61841204 ACACTGCAACTTCAGAGAGATAAAATTTGTTTTATTTTAAACCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTG---TAGCTTCAATCTGCT
* ** * ** *
61841251 TCTTTGCAACTTCAGGGAGATAAGGTTTGTTTATTTTTATAT-TGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTG--TAGCTTCA-ATCTGCT
* * *
61841297 CCACTGTAACTTCAGGGAGATAAGATTAGTGGCTTCAATCT-CTT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGC-T
* * ** **
61841341 CCATTGCAACTTCAGGGAGATAAGATTCGCAATGGTAGATTTGATCCAACT
1 CCACTGCAACTTCAGGGAGATAAGATT-----T-GTAGCTTCAAT-CTGCT
* * * * * **
61841392 -TACTACAACTTCAGAGGTATAGGATTTATGACTTGTAGCTT-GATCTATT
1 CCACTGCAACTTCAG-GG---A-GA--TAAGATTTGTAGCTTCAATCTGCT
* ** * ** *
61841441 CCACTGCAACTTCAGGGAAATAAGATTCACTATCTTTGATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATT-TGTAGCTTCAATCTGCT
* * * * * * * *
61841486 CTACTACAACTTTAGAGAGATAAGATCTATAACTTCAATCTGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
** * * *
61841530 CCACTATAACTTCAAGGAGATAAGATTTTCCATTTGTATCATT-AATCTTGTT
1 CCACTGCAACTTCAGGGAGATAAG-------ATTTGTAGC-TTCAATC-TGCT
* * * * * * *
61841582 CCACTGCAACTTCAGGAAAATAAGATTCGCCATCTTTAGTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTCAATCTGCT
* * * * * * * *
61841627 CAATTGCAACTTTAGGGAGATAAGACTCGTAACTTCAACCTGCC
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
* * * *
61841671 CCACTGCAACTTCAGGGAGATAAGGTTTATAACGTT-AATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGC-TTCAATCTGCT
* * * ** * * * * *
61841715 CTATTGTAACTTCAAAGAGATGATATTTTATATCTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGA-TTTGTAGCTTCAATCTGCT
* * * * *
61841760 CCACTGCAAATTCAGGGAGATAAAATCTGTAACTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
* * * *
61841804 TCACTGCAACTTCAAGGG-GATAAGATCTATGGCTTCAATCTGCT
1 CCACTGCAACTTC-AGGGAGATAAGATTTGTAGCTTCAATCTGCT
* * *
61841848 CTACTGCAACTTCAGGGAGATAAGATTTGCCATGATAACTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGA-TT----TG-TAGCTTCAATCTGCT
* * * * * * *
61841898 CCACTGGAAATTTAGGAAGATAAGATTTGTAACTTTTAGCTTTAATTTGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-------TAGCTTCAATCTGCT
* * * * *
61841949 CCACTGTAAGTTCAGGGAAATAAGACTCGTAACTTGTAGCTTTAATCTGTT
1 CCACTGCAACTTCAGGGAGATAAGA----T---TTGTAGCTTCAATCTGCT
* * * * *
61842000 CCACTGCAACTTCAGGGAAAGAAGATTAGCATCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
* * * *
61842044 CCATTGCAATTTCAGAGAGATAAGATTTATAGCTT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTT
61842079 GTAGCTTTAG
Statistics
Matches: 898, Mismatches: 221, Indels: 142
0.71 0.18 0.11
Matches are distributed among these distances:
43 13 0.01
44 388 0.43
45 183 0.20
46 44 0.05
47 33 0.04
48 1 0.00
49 44 0.05
50 65 0.07
51 86 0.10
52 29 0.03
54 1 0.00
55 3 0.00
57 5 0.01
58 3 0.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
Found at i:61841066 original size:89 final size:89
Alignment explanation
Indices: 61840896--61841226 Score: 315
Period size: 89 Copynumber: 3.7 Consensus size: 89
61840886 ACTCCATTGA
* * * ** * *
61840896 AACTTCAGGGAGATAAGATTTG-TAGCTTCAACCCGCTCCACTGTAACTTCAGAGAGATAAGGTT
1 AACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGGTT
* *
61840960 TATAGCTTTAATCTGCTCTACCGC
66 TATAGCCTTAATATGCTCTACCGC
* * * * *
61840984 AACTTCAGAGAGATAAGGTTTGCTATCTTTAATCTACTCTACTGCAACTTTAGGGAGATAATGTT
1 AACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGGTT
* *
61841049 TGA-AGCCTTAATATGCTCTACTGT
66 T-ATAGCCTTAATATGCTCTACCGC
* *
61841073 AACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCATTGCAACTTCAGGGAGATAAGATT
1 AACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGGTT
** * * * * * **
61841138 CGTGGCTTTAATCTTCTCCACTAC
66 TATAGCCTTAATATGCTCTACCGC
* * * * *
61841162 AACTTCAGGGAGATAAGATTTGTAGCCTGTCTTCAATCTTCTACACTGCAACTTCAGAGAGATAA
1 AACTTCAGAGAGATAAGA-TT-T-G-CTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
61841227 AATTTGTTTT
Statistics
Matches: 198, Mismatches: 38, Indels: 9
0.81 0.16 0.04
Matches are distributed among these distances:
88 20 0.10
89 139 0.70
90 3 0.02
91 1 0.01
92 1 0.01
93 34 0.17
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (89 bp):
AACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGGTT
TATAGCCTTAATATGCTCTACCGC
Found at i:61841189 original size:133 final size:134
Alignment explanation
Indices: 61840845--61841189 Score: 353
Period size: 133 Copynumber: 2.6 Consensus size: 134
61840835 TCAAACTAAC
* * * * * *
61840845 CCACTGCAACTTCAG-G-GTATAAGATTTGTTATCTTCAATCTACTCCATTGA-AACTTCAGGGA
1 CCACCGCAACTTCAGAGAG-ATAAGATTCGCTAGCTTTAATCTACTCCACT-ACAACTTCAGGGA
* * *
61840907 GATAAGATTTGTAG-CTTCAACCCGCTCCACTGTAACTTCAGAGAGATAAGGTTTATAGCTTTAA
64 GATAAGATTTGTAGCCTTCAACACGCTCCACTGTAACTTCAGAGAGATAAGATTTATAGCTTCAA
*
61840971 TCTGCT
129 TCTACT
* * * * * * *
61840977 CTACCGCAACTTCAGAGAGATAAGGTTTGCTATCTTTAATCTACTCTACTGCAACTTTAGGGAGA
1 CCACCGCAACTTCAGAGAGATAAGATTCGCTAGCTTTAATCTACTCCACTACAACTTCAGGGAGA
* * * * * *
61841042 TAATG-TTTGAAGCCTT-AATATGCTCTACTGTAACTTCAGAGAGATAAGATTTGCTATCTTCAA
66 TAA-GATTTGTAGCCTTCAACACGCTCCACTGTAACTTCAGAGAGATAAGATTT-ATAGCTTCAA
61841105 TCTACT
129 TCTACT
** * * *
61841111 CCATTGCAACTTCAGGGAGATAAGATTCG-TGGCTTTAATCTTCTCCACTACAACTTCAGGGAGA
1 CCACCGCAACTTCAGAGAGATAAGATTCGCTAGCTTTAATCTACTCCACTACAACTTCAGGGAGA
61841175 TAAGATTTGTAGCCT
66 TAAGATTTGTAGCCT
61841190 GTCTTCAATC
Statistics
Matches: 174, Mismatches: 32, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
132 14 0.08
133 120 0.69
134 40 0.23
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (134 bp):
CCACCGCAACTTCAGAGAGATAAGATTCGCTAGCTTTAATCTACTCCACTACAACTTCAGGGAGA
TAAGATTTGTAGCCTTCAACACGCTCCACTGTAACTTCAGAGAGATAAGATTTATAGCTTCAATC
TACT
Found at i:61841603 original size:141 final size:141
Alignment explanation
Indices: 61841439--61841694 Score: 345
Period size: 141 Copynumber: 1.8 Consensus size: 141
61841429 GCTTGATCTA
* * *
61841439 TTCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTT-GATCTACTCTACTACAACTTTAGAG
1 TTCCACTGCAACTTCAGGAAAATAAGATTCACCATCTTTAG-TCTACTCAACTACAACTTTAGAG
* ** *
61841503 AGATAAGA-TCTATAACTTCAATCTGTTCCACTATAACTTCAAGGAGATAAGATTTTCCATTTGT
65 AGATAAGACTC-ATAACTTCAACCTGCCCCACTACAACTTCAAGGAGATAAGATTTTCCATTTGT
61841567 ATCATTAATCTTG
129 ATCATTAATCTTG
* * * * *
61841580 TTCCACTGCAACTTCAGGAAAATAAGATTCGCCATCTTTAGTCTGCTCAATTGCAACTTTAGGGA
1 TTCCACTGCAACTTCAGGAAAATAAGATTCACCATCTTTAGTCTACTCAACTACAACTTTAGAGA
* * *
61841645 GATAAGACTCGTAACTTCAACCTGCCCCACTGCAACTTCAGGGAGATAAG
66 GATAAGACTCATAACTTCAACCTGCCCCACTACAACTTCAAGGAGATAAG
61841695 GTTTATAACG
Statistics
Matches: 98, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
141 95 0.97
142 3 0.03
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (141 bp):
TTCCACTGCAACTTCAGGAAAATAAGATTCACCATCTTTAGTCTACTCAACTACAACTTTAGAGA
GATAAGACTCATAACTTCAACCTGCCCCACTACAACTTCAAGGAGATAAGATTTTCCATTTGTAT
CATTAATCTTG
Found at i:61841815 original size:89 final size:88
Alignment explanation
Indices: 61841671--61841870 Score: 215
Period size: 89 Copynumber: 2.3 Consensus size: 88
61841661 TCAACCTGCC
** * * *
61841671 CCACTGCAACTTCAGGGAGATAAGGTTTATAACGTTAATCTACTCTATTGTAACTTCAAAGAGAT
1 CCACTGCAACTTCAGGGAGATAAAATCTATAACGTTAATCTACTCTACTGCAACTTCAAAGAGAT
* * * *
61841736 GATATTTTATATCTTCAATCTACT
66 AAGA-TCTATAGCTTCAATCTACT
* * * *
61841760 CCACTGCAAATTCAGGGAGATAAAATCTGTAAC-TTCAATCTACT-TCACTGCAACTTCAAGGGG
1 CCACTGCAACTTCAGGGAGATAAAATCTATAACGTT-AATCTACTCT-ACTGCAACTTCAAAGAG
* *
61841823 ATAAGATCTATGGCTTCAATCTGCT
64 ATAAGATCTATAGCTTCAATCTACT
*
61841848 CTACTGCAACTTCAGGGAGATAA
1 CCACTGCAACTTCAGGGAGATAA
61841871 GATTTGCCAT
Statistics
Matches: 92, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
88 39 0.42
89 53 0.58
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (88 bp):
CCACTGCAACTTCAGGGAGATAAAATCTATAACGTTAATCTACTCTACTGCAACTTCAAAGAGAT
AAGATCTATAGCTTCAATCTACT
Found at i:61841844 original size:133 final size:135
Alignment explanation
Indices: 61841631--61841932 Score: 317
Period size: 133 Copynumber: 2.2 Consensus size: 135
61841621 TCTGCTCAAT
* *
61841631 TGCAACTTTAGGGAGATAAGA-CTCGTAACTTCAACCTGCCCCACTGCAACTTCAGGGAGATAAG
1 TGCAAATTTAGGGAGATAAGATCT-GTAACTTCAACCTACCCCACTGCAACTTCAGGGAGATAAG
* * * * * * *
61841695 GTTTATAACGTTAATCTACTCTATTGTAACTTCAAAGAGATGATATTT-T-ATATCTTCAATCTA
65 ATCTATAACGTTAATCTACTCTACTGCAACTTCAAAGAGATAAGATTTCTGATAACTTCAATCTA
61841758 CTCCAC
130 CTCCAC
* * * **
61841764 TGCAAATTCAGGGAGATAAAATCTGTAACTTCAATCTACTTCACTGCAACTTCAAGGG-GATAAG
1 TGCAAATTTAGGGAGATAAGATCTGTAACTTCAACCTACCCCACTGCAACTTC-AGGGAGATAAG
** * **
61841828 ATCTATGGC-TTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGCCATGATAACTTCAA
65 ATCTATAACGTT-AATCTACTCTACTGCAACTTCAAAGAGATAAGATTT--C-TGATAACTTCAA
61841892 TCTACTCCAC
126 TCTACTCCAC
* * *
61841902 TGGAAATTTAGGAAGATAAGATTTGTAACTT
1 TGCAAATTTAGGGAGATAAGATCTGTAACTT
61841933 TTAGCTTTAA
Statistics
Matches: 137, Mismatches: 24, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
132 2 0.01
133 83 0.61
134 6 0.04
137 1 0.01
138 45 0.33
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (135 bp):
TGCAAATTTAGGGAGATAAGATCTGTAACTTCAACCTACCCCACTGCAACTTCAGGGAGATAAGA
TCTATAACGTTAATCTACTCTACTGCAACTTCAAAGAGATAAGATTTCTGATAACTTCAATCTAC
TCCAC
Found at i:61841972 original size:51 final size:51
Alignment explanation
Indices: 61841912--61842026 Score: 158
Period size: 51 Copynumber: 2.2 Consensus size: 51
61841902 TGGAAATTTA
* * * * *
61841912 GGAAGATAAGATTTGTAACTTTTAGCTTTAATTTGTTCCACTGTAAGTTCAG
1 GGAA-ATAAGATTCGTAACTTGTAGCTTTAATCTGTTCCACTGCAACTTCAG
*
61841964 GGAAATAAGACTCGTAACTTGTAGCTTTAATCTGTTCCACTGCAACTTCAG
1 GGAAATAAGATTCGTAACTTGTAGCTTTAATCTGTTCCACTGCAACTTCAG
*
61842015 GGAAAGAAGATT
1 GGAAATAAGATT
61842027 AGCATCTTCA
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
51 51 0.93
52 4 0.07
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (51 bp):
GGAAATAAGATTCGTAACTTGTAGCTTTAATCTGTTCCACTGCAACTTCAG
Found at i:61842263 original size:145 final size:144
Alignment explanation
Indices: 61841915--61842264 Score: 363
Period size: 145 Copynumber: 2.4 Consensus size: 144
61841905 AAATTTAGGA
* *
61841915 AGATAAGATTTGTAACTTT-TAGCTTTAATTTGTTCCACTGTAAGTTCAGGGAAATAAGACTCGT
1 AGATAAGATTTGTAA-TTTGTAGCTTTAATTTGTTCCACTGCAACTTCAGGGAAATAAGACTCGT
* ***
61841979 AACTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAAGAAGATTAGCATCTTCAATCTGCT
65 -ACTTGTAGATTTAATCTCAACCACTGCAACTTCAGGGAAAG-AGATTAGCATCTTCAATCTGCT
*
61842044 CCATTGCAATTTCAGAG
128 CCATTGCAACTTCAGAG
* ** * * * *
61842061 AGATAAGATTTATAGCTTGTAGCTTTAGTTTATTCCATTGCAAC-TCTAGGGAGATAAGACTC-T
1 AGATAAGATTTGTAATTTGTAGCTTTAATTTGTTCCACTGCAACTTC-AGGGAAATAAGACTCGT
* * *
61842124 -CTATGGTAGATTTAAT-TCAACCTACTGCAATTTCAGAGGTATAG-GACTTATCAT-TTCAATC
65 ACT-T-GTAGATTTAATCTCAACC-ACTGCAACTTCAG-GG-AAAGAGA-TTAGCATCTTCAATC
** *
61842185 TGCTCTGTTGCAACTTCAGGG
124 TGCTCCATTGCAACTTCAGAG
* *
61842206 AGATAAGATTTGTAATTTGTAGCTTTAATTTGTTCCACTACAACTTCAAGGAAATAAGA
1 AGATAAGATTTGTAATTTGTAGCTTTAATTTGTTCCACTGCAACTTCAGGGAAATAAGA
61842265 TTCGCATATT
Statistics
Matches: 166, Mismatches: 29, Indels: 19
0.78 0.14 0.09
Matches are distributed among these distances:
143 2 0.01
144 4 0.02
145 100 0.60
146 57 0.34
147 3 0.02
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.35
Consensus pattern (144 bp):
AGATAAGATTTGTAATTTGTAGCTTTAATTTGTTCCACTGCAACTTCAGGGAAATAAGACTCGTA
CTTGTAGATTTAATCTCAACCACTGCAACTTCAGGGAAAGAGATTAGCATCTTCAATCTGCTCCA
TTGCAACTTCAGAG
Found at i:61845900 original size:40 final size:40
Alignment explanation
Indices: 61845871--61846022 Score: 198
Period size: 40 Copynumber: 3.8 Consensus size: 40
61845861 TTATAGTGAT
* * * * *
61845871 TCGCATGATTGCCTTCGGGTCTTAACCCGGATTTGGT-AAC
1 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT-ATCAAC
* * *
61845911 TTGCACAAAGGCCTTCGGGTCTTAGCCCGGATATATCAAC
1 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAAC
61845951 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAAC
1 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAAC
* *
61845991 TCGCATGAATGCCTTCGAGTCTTAGCCCGGAT
1 TCGCACGAATGCCTTCGGGTCTTAGCCCGGAT
61846023 GTAATTACTA
Statistics
Matches: 98, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
39 1 0.01
40 97 0.99
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.28
Consensus pattern (40 bp):
TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAAC
Found at i:61846044 original size:40 final size:39
Alignment explanation
Indices: 61845871--61846064 Score: 185
Period size: 40 Copynumber: 4.8 Consensus size: 39
61845861 TTATAGTGAT
* * * *
61845871 TCGCATGATTGCCTTCGGGTCTTAACCCGGATTTGGT-AAC
1 TCGCAT-AATGCCTTCGGGTCTTAGCCCGGATAT-ATCAAC
* * *
61845911 TTGCACAAAGGCCTTCGGGTCTTAGCCCGGATATATCAAC
1 TCGCA-TAATGCCTTCGGGTCTTAGCCCGGATATATCAAC
*
61845951 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAAC
1 TCGCA-TAATGCCTTCGGGTCTTAGCCCGGATATATCAAC
* * *
61845991 TCGCATGAATGCCTTCGAGTCTTAGCCCGGATGTAAT-TAC
1 TCGCAT-AATGCCTTCGGGTCTTAGCCCGGATAT-ATCAAC
* * *
61846031 TAGCATAATTGCCTTCGGGACTTAGCCCAGATAT
1 TCGCATAA-TGCCTTCGGGTCTTAGCCCGGATAT
61846065 CATTCCAATG
Statistics
Matches: 130, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.02
40 125 0.96
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (39 bp):
TCGCATAATGCCTTCGGGTCTTAGCCCGGATATATCAAC
Found at i:61848514 original size:2 final size:2
Alignment explanation
Indices: 61848507--61848531 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
61848497 TATTATTGTC
61848507 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
61848532 AAAGAAACAA
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:61849319 original size:2 final size:2
Alignment explanation
Indices: 61849314--61849355 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
61849304 TATATATATA
61849314 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
61849356 AATGAGATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:61849529 original size:15 final size:15
Alignment explanation
Indices: 61849511--61849567 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
61849501 TATTTGTTTT
61849511 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
61849526 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
61849541 ATTGAATTTATATTG
1 ATTGAATTTATATTG
61849556 ATTGAA-TTATAT
1 ATTGAATTTATAT
61849568 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:61849546 original size:30 final size:28
Alignment explanation
Indices: 61849507--61849565 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
61849497 TGAATATTTG
61849507 TTTTATTGAATTTATATTGATTGAAATTA
1 TTTTATTGAATTTATATTGATTG-AATTA
61849536 TTTTGATTGAATTTATATTGATTGAATTA
1 TTTT-ATTGAATTTATATTGATTGAATTA
61849565 T
1 T
61849566 ATAATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (28 bp):
TTTTATTGAATTTATATTGATTGAATTA
Found at i:61849970 original size:23 final size:23
Alignment explanation
Indices: 61849940--61850025 Score: 90
Period size: 21 Copynumber: 3.9 Consensus size: 23
61849930 GCTTTATCGA
*
61849940 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTTATGTGTCGTATT
**
61849963 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTTATGTGTCGTATT
*
61849984 TCAGGCACCTTGTGTGTCGT-TT
1 TCAGGCACCTTATGTGTCGTATT
* *
61850006 T-AGGCACTTTATGTGCCGTA
1 TCAGGCACCTTATGTGTCGTA
61850026 CTCTGATCAG
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
21 34 0.64
22 1 0.02
23 18 0.34
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (23 bp):
TCAGGCACCTTATGTGTCGTATT
Found at i:61850209 original size:18 final size:19
Alignment explanation
Indices: 61850188--61850228 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
61850178 AATGAAATGA
61850188 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
61850206 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
61850225 GAAA
1 GAAA
61850229 ATATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:61854060 original size:36 final size:36
Alignment explanation
Indices: 61854019--61854093 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
61854009 AAATGATCAC
61854019 ATAGATTGCGTATTGGAACGATAAAATATAAAATAG
1 ATAGATTGCGTATTGGAACGATAAAATATAAAATAG
61854055 ATAGATTGCGTATTGGAACGATAAAATATAAAATAG
1 ATAGATTGCGTATTGGAACGATAAAATATAAAATAG
61854091 ATA
1 ATA
61854094 AAGGCCTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.48, C:0.05, G:0.19, T:0.28
Consensus pattern (36 bp):
ATAGATTGCGTATTGGAACGATAAAATATAAAATAG
Found at i:61855194 original size:11 final size:11
Alignment explanation
Indices: 61855180--61855224 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
61855170 AGATAAATAT
61855180 TATTTTATTAA
1 TATTTTATTAA
*
61855191 TATTTTAATAATA
1 TATTTT-ATTA-A
*
61855204 TATTTTATTAT
1 TATTTTATTAA
61855215 TATTTTATTA
1 TATTTTATTA
61855225 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:61855207 original size:24 final size:24
Alignment explanation
Indices: 61855175--61855230 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
61855165 TAATTAGATA
61855175 AATATTATTTTATTAATATTTTAAT
1 AATA-TATTTTATTAATATTTTAAT
* *
61855200 AATATATTTTATTATTATTTTATT
1 AATATATTTTATTAATATTTTAAT
*
61855224 AGTATAT
1 AATATAT
61855231 AAAGAAAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AATATATTTTATTAATATTTTAAT
Found at i:61857407 original size:46 final size:46
Alignment explanation
Indices: 61857355--61857582 Score: 314
Period size: 46 Copynumber: 5.0 Consensus size: 46
61857345 AGTGTACTCT
*
61857355 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
61857401 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
61857447 GTGATATGAAATGAATAAGACCATGGTTGAAAGATAGCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
61857493 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
61857539 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
61857583 TCATGTCAAA
Statistics
Matches: 168, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 167 0.99
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:61860966 original size:48 final size:48
Alignment explanation
Indices: 61860905--61861062 Score: 205
Period size: 48 Copynumber: 3.3 Consensus size: 48
61860895 GGAATTGAGC
* *
61860905 TAATGTA-CGTAATTTATATTACAAAGTTTTTTCCTCGTTTTAATGTTG
1 TAATGTATC-TAATTTATATTACAAAGTTTGTTCCTAGTTTTAATGTTG
*
61860953 TAATGTATCTAATTTATATTACAAAGTTTGTTCTTTA-TTTTAATGTTG
1 TAATGTATCTAATTTATATTACAAAGTTTGTTC-CTAGTTTTAATGTTG
* * *
61861001 TAATTTATCTAATTTATATTACAAAGTTTGTTCCAAGTTTGAATGTTG
1 TAATGTATCTAATTTATATTACAAAGTTTGTTCCTAGTTTTAATGTTG
*
61861049 CAAT-TAATCTAATT
1 TAATGT-ATCTAATT
61861063 AAATAAATAC
Statistics
Matches: 98, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
47 2 0.02
48 94 0.96
49 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.50
Consensus pattern (48 bp):
TAATGTATCTAATTTATATTACAAAGTTTGTTCCTAGTTTTAATGTTG
Found at i:61862222 original size:14 final size:14
Alignment explanation
Indices: 61862203--61862238 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
61862193 AAATTTCTTG
61862203 TTAGAAAAGTATCA
1 TTAGAAAAGTATCA
* *
61862217 TTAGAATAGTATTA
1 TTAGAAAAGTATCA
61862231 TTAGAAAA
1 TTAGAAAA
61862239 AAAAAAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.50, C:0.03, G:0.14, T:0.33
Consensus pattern (14 bp):
TTAGAAAAGTATCA
Found at i:61865111 original size:2 final size:2
Alignment explanation
Indices: 61865104--61865159 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
61865094 ATGATATCTT
61865104 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
61865146 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
61865160 ACACAATCAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:61868972 original size:96 final size:96
Alignment explanation
Indices: 61868806--61868988 Score: 251
Period size: 96 Copynumber: 1.9 Consensus size: 96
61868796 TTCTTTTTGC
* *
61868806 TCCTCTTTGCCCTCTTGGCTTCGATTTTTATCTTGCTCGAACCAAACTTCTTGGGCTCCTTGTCT
1 TCCTCTTTGCCCTCTTGGCTTCGATTTTCATCTTGCTCGAACCAAACTTCTTGGGCCCCTTGTCT
* * *
61868871 GCTCTATCGTTCCCTTCGATGACAGGCTTGT
66 ACTCTATCATTCCCTTAGATGACAGGCTTGT
* * * * *
61868902 TCCTCTTTGCTCTCTTGGCTTCGGCTTTTCCT-TTGCTCGAACCAAGCTTTTTGGGCCCCTTGTC
1 TCCTCTTTGCCCTCTTGGCTTC-GATTTTCATCTTGCTCGAACCAAACTTCTTGGGCCCCTTGTC
*
61868966 TACTCTATCATTCCTTTAGATGA
65 TACTCTATCATTCCCTTAGATGA
61868989 TAGACTTCCT
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
96 69 0.92
97 6 0.08
ACGTcount: A:0.11, C:0.30, G:0.17, T:0.42
Consensus pattern (96 bp):
TCCTCTTTGCCCTCTTGGCTTCGATTTTCATCTTGCTCGAACCAAACTTCTTGGGCCCCTTGTCT
ACTCTATCATTCCCTTAGATGACAGGCTTGT
Found at i:61870323 original size:26 final size:26
Alignment explanation
Indices: 61870294--61870401 Score: 153
Period size: 26 Copynumber: 4.2 Consensus size: 26
61870284 TGATACAAAT
* *
61870294 TGATAATGGGTTAGGTAATTGTTCGA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
61870320 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
61870346 TGATGATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
61870372 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
61870398 TGAT
1 TGAT
61870402 GGGAATTTCA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:61872040 original size:27 final size:27
Alignment explanation
Indices: 61872001--61872140 Score: 162
Period size: 27 Copynumber: 5.2 Consensus size: 27
61871991 GGAAGCGTCT
*
61872001 TGGTGGCTATGCCACAATTATCTGATC
1 TGGTGGCTCTGCCACAATTATCTGATC
61872028 TGGTGGCTCTGCCAC-ATATATCTG-TCC
1 TGGTGGCTCTGCCACAAT-TATCTGAT-C
*
61872055 TGGTGGCTATGCCACAATTATCTGATC
1 TGGTGGCTCTGCCACAATTATCTGATC
* *
61872082 TGGTGGCTCTGCCA-TATATATCTGTTC
1 TGGTGGCTCTGCCACAAT-TATCTGATC
* *
61872109 TGGTGGCTCTGCCATAA-TATCTATATC
1 TGGTGGCTCTGCCACAATTATCT-GATC
61872136 TGGTG
1 TGGTG
61872141 ACTTCGTCAC
Statistics
Matches: 98, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
26 10 0.10
27 84 0.86
28 4 0.04
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATTATCTGATC
Found at i:61872083 original size:54 final size:54
Alignment explanation
Indices: 61872001--61872140 Score: 219
Period size: 54 Copynumber: 2.6 Consensus size: 54
61871991 GGAAGCGTCT
61872001 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCC
* *
61872055 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCATATATATCTGTTC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCC
* * *
61872109 TGGTGGCTCTGCCATAA-TATCTATATCTGGTG
1 TGGTGGCTATGCCACAATTATCT-GATCTGGTG
61872141 ACTTCGTCAC
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 5 0.06
54 75 0.94
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.36
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCC
Found at i:61872152 original size:81 final size:80
Alignment explanation
Indices: 61872001--61872159 Score: 189
Period size: 81 Copynumber: 2.0 Consensus size: 80
61871991 GGAAGCGTCT
* *
61872001 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTATG
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATCCTGGTGACTATG
61872066 CCACAATTATCTGATC
66 CCACAA-TATCTGATC
* * * * *
61872082 TGGTGGCTCTGCCA-TATATATCTGTTCTGGTGGCTCTGCCATA-ATATCTATATCTGGTGACT-
1 TGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTAT-CCTGGTGACTA
*
61872144 TCGTCACAATATCTGA
64 T-GCCACAATATCTGA
61872160 CAGCCTCGCT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
80 17 0.25
81 50 0.75
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.35
Consensus pattern (80 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATCCTGGTGACTATG
CCACAATATCTGATC
Found at i:61876348 original size:86 final size:86
Alignment explanation
Indices: 61876187--61876354 Score: 189
Period size: 86 Copynumber: 2.0 Consensus size: 86
61876177 TTTTGTTTTC
* * * *
61876187 AAATTAAAAGTAAATAAAATCTGTTTCAAGATTTATTCCTGCTGTTTAATGGATTTTATTCTATT
1 AAATTAAAAGTAAATAAAATCCGTTTCAAGATTTATTCCTGCTGTTCAATAGATTTTATTCAATT
** *
61876252 TTTTTATTATTTTCAAACGGG
66 TAATTATTATTTCCAAACGGG
* ** *
61876273 AAATT-AAAGTTAAATATAATCCGTTTCGGGATTTATT-CTCGTTGTTCAATAGATTTTATTCCA
1 AAATTAAAAG-TAAATAAAATCCGTTTCAAGATTTATTCCT-GCTGTTCAATAGATTTTATT-CA
61876336 ATTTAATT-TTATTTCCAAA
63 ATTTAATTATTATTTCCAAA
61876355 ACAAGTATTA
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
85 6 0.09
86 55 0.81
87 7 0.10
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.46
Consensus pattern (86 bp):
AAATTAAAAGTAAATAAAATCCGTTTCAAGATTTATTCCTGCTGTTCAATAGATTTTATTCAATT
TAATTATTATTTCCAAACGGG
Found at i:61880909 original size:10 final size:10
Alignment explanation
Indices: 61880894--61881023 Score: 58
Period size: 10 Copynumber: 13.1 Consensus size: 10
61880884 TTTTATTAAC
61880894 TTTATAATTT
1 TTTATAATTT
61880904 TTTATAA-TT
1 TTTATAATTT
* *
61880913 ATTAGAATTT
1 TTTATAATTT
* **
61880923 ATTA-AGA-AA
1 TTTATA-ATTT
61880932 TTTATAACTTT
1 TTTATAA-TTT
*
61880943 TTTATAA-TA
1 TTTATAATTT
61880952 TTTATAAGTTAAT
1 TTTATAA-TT--T
61880965 TTTATAA-TT
1 TTTATAATTT
*
61880974 TTTATAAGTT
1 TTTATAATTT
*
61880984 TATATAA-TT
1 TTTATAATTT
*
61880993 TTAATAATTT
1 TTTATAATTT
*
61881003 TTCT-TAATAT
1 TT-TATAATTT
*
61881013 TTTAAAATTT
1 TTTATAATTT
61881023 T
1 T
61881024 ATTTTTTTAA
Statistics
Matches: 91, Mismatches: 16, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
9 36 0.40
10 39 0.43
11 9 0.10
13 7 0.08
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.58
Consensus pattern (10 bp):
TTTATAATTT
Found at i:61880970 original size:22 final size:22
Alignment explanation
Indices: 61880942--61880983 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
61880932 TTTATAACTT
61880942 TTTTATAATATTTATAAGTTAA
1 TTTTATAATATTTATAAGTTAA
*
61880964 TTTTATAATTTTTATAAGTT
1 TTTTATAATATTTATAAGTT
61880984 TATATAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (22 bp):
TTTTATAATATTTATAAGTTAA
Found at i:61880974 original size:8 final size:8
Alignment explanation
Indices: 61880961--61881003 Score: 50
Period size: 9 Copynumber: 4.9 Consensus size: 8
61880951 ATTTATAAGT
61880961 TAATTTTA
1 TAATTTTA
61880969 TAATTTTTA
1 TAA-TTTTA
61880978 TAAGTTTATA
1 TAA-TTT-TA
61880988 TAATTTTAA
1 TAATTTT-A
61880997 TAATTTT
1 TAATTTT
61881004 TCTTAATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
8 4 0.13
9 22 0.71
10 5 0.16
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (8 bp):
TAATTTTA
Found at i:61881308 original size:17 final size:16
Alignment explanation
Indices: 61881267--61881302 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
61881257 TAAGCCTAAT
*
61881267 AATAACAAATAAATAA
1 AATAAAAAATAAATAA
61881283 AATAAAAAATCAAATAA
1 AATAAAAAAT-AAATAA
61881300 AAT
1 AAT
61881303 TTAAAAAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (16 bp):
AATAAAAAATAAATAA
Found at i:61886874 original size:26 final size:26
Alignment explanation
Indices: 61886838--61886888 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
61886828 AGGGGTATAC
61886838 ATATTGGCTACAGTTCTTTATTTAAA
1 ATATTGGCTACAGTTCTTTATTTAAA
61886864 ATATTGGCTACAGTTCTTTATTTAA
1 ATATTGGCTACAGTTCTTTATTTAA
61886889 CAGCTACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (26 bp):
ATATTGGCTACAGTTCTTTATTTAAA
Found at i:61888379 original size:25 final size:25
Alignment explanation
Indices: 61888350--61888429 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
61888340 TTTTTTATAA
61888350 ACTTTAAATTAAAAATTCTATTAGG
1 ACTTTAAATTAAAAATTCTATTAGG
* * *
61888375 GCTTTAAATTAAGAATTCTATTAGT
1 ACTTTAAATTAAAAATTCTATTAGG
** **
61888400 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAAAAATTCTATTAGG
61888425 ACTTT
1 ACTTT
61888430 CTCTTTGTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.41
Consensus pattern (25 bp):
ACTTTAAATTAAAAATTCTATTAGG
Found at i:61893529 original size:16 final size:17
Alignment explanation
Indices: 61893499--61893531 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
61893489 AAGCAGTTGT
61893499 GAAGTTAGACTGTTAAA
1 GAAGTTAGACTGTTAAA
61893516 GAAGTTAG-CTGTTAAA
1 GAAGTTAGACTGTTAAA
61893532 AAGCTGTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.30
Consensus pattern (17 bp):
GAAGTTAGACTGTTAAA
Found at i:61894841 original size:2 final size:2
Alignment explanation
Indices: 61894834--61894871 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
61894824 GAGAGCCATT
61894834 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
61894872 ATTGGCAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:61895563 original size:4 final size:4
Alignment explanation
Indices: 61895554--61895593 Score: 53
Period size: 4 Copynumber: 9.5 Consensus size: 4
61895544 AGAAGGGGAG
*
61895554 AAGA AAGA AAAA AAGAA AAGA GAAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAG-A AAGA -AAGA AAGA AAGA AAGA AA
61895594 ATGCATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 24 0.75
5 8 0.25
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:61895578 original size:22 final size:22
Alignment explanation
Indices: 61895551--61895594 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
61895541 AGAAGAAGGG
61895551 GAGAAGAAAGAAAAAAAGAAAA
1 GAGAAGAAAGAAAAAAAGAAAA
*
61895573 GAGAAGAAAGAAAGAAAGAAAA
1 GAGAAGAAAGAAAAAAAGAAAA
61895595 TGCATTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (22 bp):
GAGAAGAAAGAAAAAAAGAAAA
Found at i:61899389 original size:49 final size:49
Alignment explanation
Indices: 61899326--61899465 Score: 235
Period size: 49 Copynumber: 2.9 Consensus size: 49
61899316 AATTTATATT
*
61899326 ATAAAGTTTGTTCCAAGTTTTAATGTTGCAAATAATCTAATTTATGACC
1 ATAAAGTTTGTTCCAAGTTTTAATGTTGCAATTAATCTAATTTATGACC
*
61899375 ATAAAGTTTATTCCAAGTTTTAATGTTGCAATTAATCTAATTTATGACC
1 ATAAAGTTTGTTCCAAGTTTTAATGTTGCAATTAATCTAATTTATGACC
* * *
61899424 ACAAAGTTTGTTCCAAGTTTTAATATTTCAATTAATCTAATT
1 ATAAAGTTTGTTCCAAGTTTTAATGTTGCAATTAATCTAATT
61899466 AAATAAATAC
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 85 1.00
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (49 bp):
ATAAAGTTTGTTCCAAGTTTTAATGTTGCAATTAATCTAATTTATGACC
Found at i:61901773 original size:40 final size:40
Alignment explanation
Indices: 61901714--61901855 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
61901704 AAATTGAATG
* * *
61901714 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
61901754 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
61901794 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
61901834 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
61901856 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:61901856 original size:40 final size:39
Alignment explanation
Indices: 61901753--61901881 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
61901743 TGCTGGAAAT
* * *
61901753 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
61901793 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
61901833 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
61901873 TATATCCGG
1 TATATCCGG
61901882 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:61909783 original size:40 final size:40
Alignment explanation
Indices: 61909724--61909865 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
61909714 AAATTGAATG
* * *
61909724 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
61909764 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
61909804 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
61909844 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
61909866 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:61909866 original size:40 final size:39
Alignment explanation
Indices: 61909763--61909891 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
61909753 TGCTGGAAAT
* * *
61909763 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
61909803 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
61909843 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
61909883 TATATCCGG
1 TATATCCGG
61909892 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:61912234 original size:40 final size:40
Alignment explanation
Indices: 61912188--61912371 Score: 253
Period size: 40 Copynumber: 4.6 Consensus size: 40
61912178 CTCGCACAAG
* *
61912188 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
61912228 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
61912268 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * * *
61912308 GCCTTCGGATCTTAGTCCAGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
61912348 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
61912372 CATTCGAATA
Statistics
Matches: 125, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 123 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:61914608 original size:18 final size:18
Alignment explanation
Indices: 61914582--61914638 Score: 78
Period size: 18 Copynumber: 3.2 Consensus size: 18
61914572 GTATGCGACA
*
61914582 GCTTGGGCTCTAGCTCTG
1 GCTTTGGCTCTAGCTCTG
* * *
61914600 GCTTTGGCTTTGGCTCGG
1 GCTTTGGCTCTAGCTCTG
61914618 GCTTTGGCTCTAGCTCTG
1 GCTTTGGCTCTAGCTCTG
61914636 GCT
1 GCT
61914639 CGGGCTCTGG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.04, C:0.26, G:0.33, T:0.37
Consensus pattern (18 bp):
GCTTTGGCTCTAGCTCTG
Found at i:61914644 original size:6 final size:6
Alignment explanation
Indices: 61914587--61914650 Score: 65
Period size: 6 Copynumber: 10.7 Consensus size: 6
61914577 CGACAGCTTG
* * * * * *
61914587 GGCTCT AGCTCT GGCTTT GGCTTT GGCTCG GGCTTT GGCTCT AGCTCT
1 GGCTCT GGCTCT GGCTCT GGCTCT GGCTCT GGCTCT GGCTCT GGCTCT
*
61914635 GGCTCG GGCTCT GGCT
1 GGCTCT GGCTCT GGCT
61914651 TGTATGCCCC
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.03, C:0.28, G:0.34, T:0.34
Consensus pattern (6 bp):
GGCTCT
Found at i:61914644 original size:18 final size:18
Alignment explanation
Indices: 61914582--61914646 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 18
61914572 GTATGCGACA
61914582 GCTTGGGCTCTAGCTCTG
1 GCTTGGGCTCTAGCTCTG
* * * *
61914600 GCTTTGGCTTTGGCTCGG
1 GCTTGGGCTCTAGCTCTG
*
61914618 GCTTTGGCTCTAGCTCTG
1 GCTTGGGCTCTAGCTCTG
*
61914636 GCTCGGGCTCT
1 GCTTGGGCTCT
61914647 GGCTTGTATG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.03, C:0.28, G:0.34, T:0.35
Consensus pattern (18 bp):
GCTTGGGCTCTAGCTCTG
Found at i:61915280 original size:14 final size:14
Alignment explanation
Indices: 61915261--61915288 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
61915251 AAAAATTACA
61915261 TGTTAGAATAGTAT
1 TGTTAGAATAGTAT
61915275 TGTTAGAATAGTAT
1 TGTTAGAATAGTAT
61915289 CATTAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (14 bp):
TGTTAGAATAGTAT
Found at i:61915294 original size:14 final size:14
Alignment explanation
Indices: 61915263--61915296 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
61915253 AAATTACATG
**
61915263 TTAGAATAGTATTG
1 TTAGAATAGTATCA
61915277 TTAGAATAGTATCA
1 TTAGAATAGTATCA
61915291 TTAGAA
1 TTAGAA
61915297 AAAAATGTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.18, T:0.38
Consensus pattern (14 bp):
TTAGAATAGTATCA
Found at i:61918026 original size:43 final size:43
Alignment explanation
Indices: 61917965--61918058 Score: 134
Period size: 43 Copynumber: 2.2 Consensus size: 43
61917955 GATTTCTGAC
**
61917965 ATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCATCGAT
1 ATGTGATTACGTGTAAGACCACATCTAAGACGTTGGCATCGAT
** * *
61918008 ATGTGATTACGTGTAAGACCATGTTTAATACGTTGGCATCGAT
1 ATGTGATTACGTGTAAGACCACATCTAAGACGTTGGCATCGAT
61918051 ATGTGATT
1 ATGTGATT
61918059 CTGATATGTG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.33
Consensus pattern (43 bp):
ATGTGATTACGTGTAAGACCACATCTAAGACGTTGGCATCGAT
Found at i:61918127 original size:55 final size:56
Alignment explanation
Indices: 61918020--61918249 Score: 311
Period size: 55 Copynumber: 4.1 Consensus size: 56
61918010 GTGATTACGT
* *
61918020 GTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTCTGATATGTGTGTGCAA
1 GTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTCCGATATGTGTGTGCGA
* * * *
61918076 GTAAGACTATGTTTAATACGTTGACAT-GATATGTGATACCGATATGTGTGTGTGA
1 GTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTCCGATATGTGTGTGCGA
* * * *
61918131 GTAAGACCACGTTTGACACGTTGGCATCGATATGTGATTCTGATATGTGTGTGCGA
1 GTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTCCGATATGTGTGTGCGA
* * * * *
61918187 GTAAGGCCA-CTTTAATACGTTGGCATCGATAGGTGATTCCGATATGTGTTTACGA
1 GTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTCCGATATGTGTGTGCGA
61918242 GTAAGACC
1 GTAAGACC
61918250 CTGTCTGGGA
Statistics
Matches: 150, Mismatches: 23, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
55 92 0.61
56 58 0.39
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (56 bp):
GTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTCCGATATGTGTGTGCGA
Found at i:61918223 original size:111 final size:111
Alignment explanation
Indices: 61918004--61918249 Score: 334
Period size: 111 Copynumber: 2.2 Consensus size: 111
61917994 ACGTTGGCAT
* * *
61918004 CGATATGTGAT-TACGTGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTCTGATATGT
1 CGATATGTG-TGTACGAGTAAGACCACGTTTAACACGTTGGCATCGATATGTGATTCTGATATGT
* * *
61918068 GTGTGCAAGTAAGACTATGTTTAATACGTTGACATGATATGTGATAC
65 GTGTGCAAGTAAGACCATCTTTAATACGTTGACATGATAGGTGATAC
** *
61918115 CGATATGTGTGTGTGAGTAAGACCACGTTTGACACGTTGGCATCGATATGTGATTCTGATATGTG
1 CGATATGTGTGTACGAGTAAGACCACGTTTAACACGTTGGCATCGATATGTGATTCTGATATGTG
* * * *
61918180 TGTGCGAGTAAGGCCA-CTTTAATACGTTGGCATCGATAGGTGATTC
66 TGTGCAAGTAAGACCATCTTTAATACGTTGACAT-GATAGGTGATAC
*
61918226 CGATATGTGTTTACGAGTAAGACC
1 CGATATGTGTGTACGAGTAAGACC
61918250 CTGTCTGGGA
Statistics
Matches: 117, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
110 16 0.14
111 101 0.86
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (111 bp):
CGATATGTGTGTACGAGTAAGACCACGTTTAACACGTTGGCATCGATATGTGATTCTGATATGTG
TGTGCAAGTAAGACCATCTTTAATACGTTGACATGATAGGTGATAC
Found at i:61919651 original size:2 final size:2
Alignment explanation
Indices: 61919638--61919680 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
61919628 CTTGCTATGT
*
61919638 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
61919680 T
1 T
61919681 TCGTGATGTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:61922087 original size:15 final size:15
Alignment explanation
Indices: 61922067--61922132 Score: 53
Period size: 15 Copynumber: 4.2 Consensus size: 15
61922057 ATAACATGCC
61922067 AAATAAATTACATAA
1 AAATAAATTACATAA
61922082 AAATAAATCTA-ATAA
1 AAATAAAT-TACATAA
** **
61922097 ACCTAAAACACACATAA
1 AAAT-AAA-TTACATAA
61922114 CAAATAAATTACATAA
1 -AAATAAATTACATAA
61922130 AAA
1 AAA
61922133 AATAAAACAT
Statistics
Matches: 38, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
15 17 0.45
16 12 0.32
17 7 0.18
18 2 0.05
ACGTcount: A:0.65, C:0.14, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATAAATTACATAA
Found at i:61922888 original size:2 final size:2
Alignment explanation
Indices: 61922881--61922909 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
61922871 TATTTAGATG
61922881 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
61922910 TTTGCAGTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:61923163 original size:15 final size:16
Alignment explanation
Indices: 61923143--61923175 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
61923133 ATATATATTT
61923143 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
61923158 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
61923175 T
1 T
61923176 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:61923261 original size:22 final size:22
Alignment explanation
Indices: 61923222--61923280 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
61923212 GTTTTAAGAA
*
61923222 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
61923243 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
61923265 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
61923281 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:61923297 original size:26 final size:24
Alignment explanation
Indices: 61923251--61923310 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
61923241 ATTTGTTTTA
*
61923251 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
61923275 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
61923301 TTTTTTATTT
1 ATATTTATTT
61923311 AATGAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:61923848 original size:20 final size:19
Alignment explanation
Indices: 61923825--61923868 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
61923815 ATCACTTAGG
*
61923825 TTTTTATAGGAAAAATTGAA
1 TTTTTATAGAAAAAATT-AA
61923845 TTTTTATAGAAAAAATTAA
1 TTTTTATAGAAAAAATTAA
61923864 TTTTT
1 TTTTT
61923869 CTTTTCATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (19 bp):
TTTTTATAGAAAAAATTAA
Found at i:61930835 original size:12 final size:12
Alignment explanation
Indices: 61930818--61930850 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
61930808 TGGCCCGCCC
61930818 ATATTAATTTTT
1 ATATTAATTTTT
61930830 ATATT-ATTTTT
1 ATATTAATTTTT
61930841 ATA-TAATTTT
1 ATATTAATTTT
61930851 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:61931088 original size:22 final size:22
Alignment explanation
Indices: 61931063--61931105 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
61931053 TATCCAAACA
61931063 ATAAAAATAAAAT-AGTAGCAAC
1 ATAAAAATAAAATGA-TAGCAAC
* *
61931085 ATAATAGTAAAATGATAGCAA
1 ATAAAAATAAAATGATAGCAA
61931106 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.60, C:0.07, G:0.12, T:0.21
Consensus pattern (22 bp):
ATAAAAATAAAATGATAGCAAC
Found at i:61944855 original size:46 final size:48
Alignment explanation
Indices: 61944765--61944882 Score: 136
Period size: 47 Copynumber: 2.5 Consensus size: 48
61944755 GTGCCGATGG
** * *
61944765 CATGTCCCAGACATGGTCTTACACCGACTTGTGTCTCGAGGCCAATG-
1 CATGTCCCAGACATGGTCTTACACCGACTTGCATCTCAAGGCCAAAGC
* *
61944812 TATGTCCCAGACAT-GTCTTACACCAGCAC-T-CATCTCAATGCCAAAGC
1 CATGTCCCAGACATGGTCTTACACC-G-ACTTGCATCTCAAGGCCAAAGC
61944859 CATGTCCCAGACATGGTCTTACAC
1 CATGTCCCAGACATGGTCTTACAC
61944883 TGGCTCTCAT
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
46 21 0.35
47 28 0.47
48 11 0.18
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACCGACTTGCATCTCAAGGCCAAAGC
Found at i:61947884 original size:42 final size:42
Alignment explanation
Indices: 61947772--61947936 Score: 140
Period size: 43 Copynumber: 3.9 Consensus size: 42
61947762 GTTCGGTACG
* * *
61947772 TGATTTCATGTAAGACCATGTCTGGGACGTTGGCATCG-ATT
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGTATA
*
61947813 TGAGATTT-GATTGTAAGACCATGTCTGGGACATTGGCCTCGTATA
1 T--GATTTCG--TGTAAGACCATGTCTGGGACATTGGCATCGTATA
* * *
61947858 TGATTTCGTGTAAGACCTTGTTTGGGACAGTGGCATC-TATA
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGTATA
*** *
61947899 TTTGATTAAATGTAAGA-CATCGTCTGGGACGTTGGCAT
1 --TGATTTCGTGTAAGACCAT-GTCTGGGACATTGGCAT
61947937 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 15, Indels: 16
0.76 0.11 0.12
Matches are distributed among these distances:
41 5 0.05
42 27 0.27
43 36 0.36
44 29 0.29
45 3 0.03
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.35
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGTATA
Found at i:61947927 original size:43 final size:41
Alignment explanation
Indices: 61947779--61947936 Score: 99
Period size: 42 Copynumber: 3.7 Consensus size: 41
61947769 ACGTGATTTC
* *
61947779 ATGTAAGACCATGTCTGGGAC-GTTGGCATCG-ATTTGAGATTTGA
1 ATGTAAGA-CATGTCTGGGACAG-TGGCATCGTATAT--GA-TTAA
* * * **
61947823 TTGTAAGACCATGTCTGGGACATTGGCCTCGTATATGATTTC
1 ATGTAAGA-CATGTCTGGGACAGTGGCATCGTATATGATTAA
* * *
61947865 GTGTAAGACCTTGTTTGGGACAGTGGCATC-TATATTTGATTAA
1 ATGTAAGA-CATGTCTGGGACAGTGGCATCGTATA--TGATTAA
61947908 ATGTAAGACATCGTCTGGGAC-GTTGGCAT
1 ATGTAAGACAT-GTCTGGGACAG-TGGCAT
61947937 TGTACGAGCT
Statistics
Matches: 92, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
41 4 0.04
42 30 0.33
43 28 0.30
44 27 0.29
45 3 0.03
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (41 bp):
ATGTAAGACATGTCTGGGACAGTGGCATCGTATATGATTAA
Found at i:61964299 original size:93 final size:96
Alignment explanation
Indices: 61964130--61964353 Score: 273
Period size: 93 Copynumber: 2.4 Consensus size: 96
61964120 ATAAATTTCT
* * *
61964130 GATGCCGTGTCCTAGACATGGTCTTATACTGG-ATCTCATATATGTGTGCCGATGCATGTCCCAG
1 GATGCCATGTCCTAGACATGGTCTTATACTGGCA-CTCATATATATGTGCCGAAGCATGTCCCAG
61964194 ACACGTCTTACACTAGCTATC-TCTGTCGAGGCC
65 ACACGTCTTACACTAGCTATCGTCTG--GAGGCC
* *
61964227 GATG-CATGTCCTAGACAT-GTCTTACT-CTGGCACTCATA-ATATG-GCTGAAGCATGTCCTAG
1 GATGCCATGTCCTAGACATGGTCTTA-TACTGGCACTCATATATATGTGCCGAAGCATGTCCCAG
* * * *
61964287 ACATGTCTTACACTAGCTGTCGTCTGGATGCT
65 ACACGTCTTACACTAGCTATCGTCTGGAGGCC
*
61964319 GATGCCATGTCCCAGACATGGTCTTATACTGGCAC
1 GATGCCATGTCCTAGACATGGTCTTATACTGGCAC
61964354 ACAAATCACC
Statistics
Matches: 111, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
92 8 0.07
93 47 0.42
94 21 0.19
95 16 0.14
96 15 0.14
97 4 0.04
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (96 bp):
GATGCCATGTCCTAGACATGGTCTTATACTGGCACTCATATATATGTGCCGAAGCATGTCCCAGA
CACGTCTTACACTAGCTATCGTCTGGAGGCC
Found at i:61964320 original size:46 final size:45
Alignment explanation
Indices: 61964180--61964344 Score: 145
Period size: 47 Copynumber: 3.5 Consensus size: 45
61964170 TATGTGTGCC
* * *
61964180 GATGCATGTCCCAGACACGTCTTACACTAGCTATCTCTGTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTATCTCTG--GATGCT
* * * **
61964227 GATGCATGTCCTAGACATGTCTTACTCTGGC-A-CTCATAATATGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTATCTC-T-GGAT-GCT
* * *
61964273 GAAGCATGTCCTAGACATGTCTTACACTAGCTGTCGTCTGGATGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTATC-TCTGGATGCT
61964319 GATGCCATGTCCCAGACATGGTCTTA
1 GATG-CATGTCCCAGACAT-GTCTTA
61964345 TACTGGCACA
Statistics
Matches: 94, Mismatches: 16, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
45 4 0.04
46 38 0.40
47 42 0.45
48 8 0.09
49 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTATCTCTGGATGCT
Found at i:61964481 original size:15 final size:17
Alignment explanation
Indices: 61964461--61964492 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
61964451 TATAACTTAA
61964461 CAATTT-GT-ACAATAT
1 CAATTTAGTGACAATAT
61964476 CAATTTAGTGACAATAT
1 CAATTTAGTGACAATAT
61964493 GAATACGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (17 bp):
CAATTTAGTGACAATAT
Found at i:61972193 original size:50 final size:51
Alignment explanation
Indices: 61972074--61972202 Score: 152
Period size: 52 Copynumber: 2.5 Consensus size: 51
61972064 GTTGTGAGAA
* * ** *
61972074 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGG-TTTAGGC
* * * *
61972126 CACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATGG-TTAGGC
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGGTTTAGGC
*
61972176 CGCATGTGTAGTACTAAGTGCAGGCTA
1 CACATGTGTAGTACTAAGTGCAGGCTA
61972203 TTATGCATAC
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 29 0.45
52 36 0.55
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGGTTTAGGC
Found at i:61975748 original size:15 final size:15
Alignment explanation
Indices: 61975731--61975788 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
61975721 TTTCTTGTTT
61975731 TGGATTTCTTTATGT-
1 TGGATTTCTTTAT-TA
*
61975746 TGGATTT-TTATATTC
1 TGGATTTCTT-TATTA
*
61975761 TGGATTTCTCTATTA
1 TGGATTTCTTTATTA
*
61975776 TGGATTTCCTTAT
1 TGGATTTCTTTAT
61975789 CTTGAATTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
14 3 0.08
15 32 0.89
16 1 0.03
ACGTcount: A:0.17, C:0.10, G:0.16, T:0.57
Consensus pattern (15 bp):
TGGATTTCTTTATTA
Found at i:61975871 original size:2 final size:2
Alignment explanation
Indices: 61975864--61975891 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
61975854 TTAGCTTGCG
61975864 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61975892 CAAGTATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61978567 original size:50 final size:51
Alignment explanation
Indices: 61978492--61978677 Score: 185
Period size: 51 Copynumber: 3.7 Consensus size: 51
61978482 GTTGTGAGAA
* * *
61978492 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAT-GGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTTAGGT
** * * *
61978542 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTTAGGT
* * * * ** *
61978593 CACATGTGTGGCACTAAGTGCAAGCCACTATGTGTAAAAGATAGCTTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTTAGGT
* * * * *
61978644 CACAAGTGTGGTACTATGTGAAGGCTACTTTGTG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTG
61978678 AAGAAGTTAG
Statistics
Matches: 109, Mismatches: 26, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
50 37 0.34
51 72 0.66
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTTAGGT
Found at i:61978609 original size:51 final size:50
Alignment explanation
Indices: 61978492--61978624 Score: 149
Period size: 50 Copynumber: 2.6 Consensus size: 50
61978482 GTTGTGAGAA
* * ** * *
61978492 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATGCTTAGAT
* *
61978542 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGAT-GCTTAGAT
* * * *
61978593 CACATGTGTGGCACTAAGTGCAAGCCACTATG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATG
61978625 TGTAAAAGAT
Statistics
Matches: 70, Mismatches: 12, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
50 37 0.53
51 33 0.47
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATGCTTAGAT
Found at i:61980292 original size:40 final size:40
Alignment explanation
Indices: 61980243--61980383 Score: 160
Period size: 40 Copynumber: 3.5 Consensus size: 40
61980233 CGGATGTAAC
61980243 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
61980283 AACCCGCACGAATGCTTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
** ** * *
61980323 AACTGGCAC-AATTGCCTTC-GGATCTTAGTCCGGATATAGT
1 AACCAGCACGAA-TGCCTTCGGGA-CTTAACCCGGTTATAAT
* *
61980363 AACTAGCACAAATGCCTTCGG
1 AACCAGCACGAATGCCTTCGG
61980384 ATCTTAGTCT
Statistics
Matches: 87, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
39 5 0.06
40 79 0.91
41 3 0.03
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:61980384 original size:40 final size:40
Alignment explanation
Indices: 61980233--61980399 Score: 140
Period size: 40 Copynumber: 4.2 Consensus size: 40
61980223 GAATTTGGCT
* * * * **
61980233 CGGATGTAACAACCAGCACGAATGCCTTCGGGA-CTTAACC
1 CGGATATAATAACTAGCACAAATGCCTTC-GGATCTTAGTC
* ** * * **
61980273 CGGTTATAATAACCCGCACGAATGCTTTCGGGA-CTTAACC
1 CGGATATAATAACTAGCACAAATGCCTTC-GGATCTTAGTC
* * *
61980313 CGGTTATAATAACTGGCACAATTGCCTTCGGATCTTAGTC
1 CGGATATAATAACTAGCACAAATGCCTTCGGATCTTAGTC
*
61980353 CGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTC
1 CGGATATAATAACTAGCACAAATGCCTTCGGATCTTAGTC
*
61980393 TGGATAT
1 CGGATAT
61980400 CATCTGAATA
Statistics
Matches: 109, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 3 0.03
40 106 0.97
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (40 bp):
CGGATATAATAACTAGCACAAATGCCTTCGGATCTTAGTC
Found at i:61986101 original size:80 final size:80
Alignment explanation
Indices: 61985737--61986102 Score: 387
Period size: 80 Copynumber: 4.6 Consensus size: 80
61985727 GTGTTATACT
* * ** ** * * *
61985737 TTCTGTTTGGCGTGCTTCGATTGGATTTACTCTTATGAGCTTCTGTTTGGCATGTTTC-GATTGG
1 TTCTGTCTGGTGTGCTTCGGGTGGATCAACTCTTATGAGCTTCTGTTTGGTATGCTTCAG-GTGG
61985801 ATCAGCTCTTATGAGC
65 ATCAGCTCTTATGAGC
* ** * * ** * **
61985817 TTCTGTTTGGTGTG-TTACGATTGGATCAACTCTTGTGAGCTTTTGCCTAGTGCGCTTCAGGTGG
1 TTCTGTCTGGTGTGCTT-CGGGTGGATCAACTCTTATGAGCTTCTGTTTGGTATGCTTCAGGTGG
61985881 ATCAGCTCTTATGAGC
65 ATCAGCTCTTATGAGC
* * * * * * *
61985897 TTTTGTCTGGTGTCCTTCAGGTGGATCAGCTCTTATAAGCTTCTATTTGGTGTGCTTCAGGTGGA
1 TTCTGTCTGGTGTGCTTCGGGTGGATCAACTCTTATGAGCTTCTGTTTGGTATGCTTCAGGTGGA
61985962 TCAGCTCTTATGAGC
66 TCAGCTCTTATGAGC
* * * * *
61985977 TTCTGACTGGTGTGCTTCGGGTGAATTACCTCTTATGAGCTTCTGTTTGGTATG-TTACAGTTGG
1 TTCTGTCTGGTGTGCTTCGGGTGGATCAACTCTTATGAGCTTCTGTTTGGTATGCTT-CAGGTGG
*
61986041 ATTAGCTCTTATGAGC
65 ATCAGCTCTTATGAGC
*
61986057 TTCTGTCTGGTGTGCTTCGGGTGCATCAACTCTTATGAGCTTCTGT
1 TTCTGTCTGGTGTGCTTCGGGTGGATCAACTCTTATGAGCTTCTGT
61986103 CTAGTGTGTT
Statistics
Matches: 238, Mismatches: 44, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
79 4 0.02
80 231 0.97
81 3 0.01
ACGTcount: A:0.14, C:0.18, G:0.26, T:0.41
Consensus pattern (80 bp):
TTCTGTCTGGTGTGCTTCGGGTGGATCAACTCTTATGAGCTTCTGTTTGGTATGCTTCAGGTGGA
TCAGCTCTTATGAGC
Found at i:61986103 original size:40 final size:40
Alignment explanation
Indices: 61985766--61986115 Score: 346
Period size: 40 Copynumber: 8.8 Consensus size: 40
61985756 ATTGGATTTA
* ** * **
61985766 CTCTTATGAGCTTCTGTTTGGCATGTTTCGATTGGATCAG
1 CTCTTATGAGCTTCTGTCTGGTGTGCTTCGGGTGGATCAG
* ** *
61985806 CTCTTATGAGCTTCTGTTTGGTGTG-TTACGATTGGATCAA
1 CTCTTATGAGCTTCTGTCTGGTGTGCTT-CGGGTGGATCAG
* * * * * *
61985846 CTCTTGTGAGCTTTTGCCTAGTGCGCTTCAGGTGGATCAG
1 CTCTTATGAGCTTCTGTCTGGTGTGCTTCGGGTGGATCAG
* * *
61985886 CTCTTATGAGCTTTTGTCTGGTGTCCTTCAGGTGGATCAG
1 CTCTTATGAGCTTCTGTCTGGTGTGCTTCGGGTGGATCAG
* * * *
61985926 CTCTTATAAGCTTCTATTTGGTGTGCTTCAGGTGGATCAG
1 CTCTTATGAGCTTCTGTCTGGTGTGCTTCGGGTGGATCAG
* * * *
61985966 CTCTTATGAGCTTCTGACTGGTGTGCTTCGGGTGAATTAC
1 CTCTTATGAGCTTCTGTCTGGTGTGCTTCGGGTGGATCAG
* * * * *
61986006 CTCTTATGAGCTTCTGTTTGGTATG-TTACAGTTGGATTAG
1 CTCTTATGAGCTTCTGTCTGGTGTGCTT-CGGGTGGATCAG
* *
61986046 CTCTTATGAGCTTCTGTCTGGTGTGCTTCGGGTGCATCAA
1 CTCTTATGAGCTTCTGTCTGGTGTGCTTCGGGTGGATCAG
*
61986086 CTCTTATGAGCTTCTGTCTAGTGTG-TTCGG
1 CTCTTATGAGCTTCTGTCTGGTGTGCTTCGG
61986116 TAGATCTAAC
Statistics
Matches: 260, Mismatches: 46, Indels: 9
0.83 0.15 0.03
Matches are distributed among these distances:
39 9 0.03
40 247 0.95
41 4 0.02
ACGTcount: A:0.15, C:0.19, G:0.27, T:0.40
Consensus pattern (40 bp):
CTCTTATGAGCTTCTGTCTGGTGTGCTTCGGGTGGATCAG
Found at i:61986110 original size:120 final size:119
Alignment explanation
Indices: 61985766--61986115 Score: 409
Period size: 120 Copynumber: 2.9 Consensus size: 119
61985756 ATTGGATTTA
*
61985766 CTCTTATGAGCTTCTGTTTGGCATGTTTC-GATTGGATCAGCTCTTATGAGCTTCTGTTTGGTGT
1 CTCTTATGAGCTTCTGTTTGGTATG-TTCAG-TTGGATCAGCTCTTATGAGCTTCTGTTTGGTGT
** * * * * * * *
61985830 G-TTACGATTGGATCAACTCTTGTGAGCTTTTGCCTAGTGCGCTTCAGGTGGATCAG
64 GCTT-CGGGTGGATCAACTCTTATGAGCTTCTGACTAGTGTGCTTCGGGTGAATCAC
* * * * * * *
61985886 CTCTTATGAGCTTTTGTCTGGTGTCCTTCAGGTGGATCAGCTCTTATAAGCTTCTATTTGGTGTG
1 CTCTTATGAGCTTCTGTTTGGTAT-GTTCAGTTGGATCAGCTCTTATGAGCTTCTGTTTGGTGTG
* * * *
61985951 CTTCAGGTGGATCAGCTCTTATGAGCTTCTGACTGGTGTGCTTCGGGTGAATTAC
65 CTTCGGGTGGATCAACTCTTATGAGCTTCTGACTAGTGTGCTTCGGGTGAATCAC
* *
61986006 CTCTTATGAGCTTCTGTTTGGTATGTTACAGTTGGATTAGCTCTTATGAGCTTCTGTCTGGTGTG
1 CTCTTATGAGCTTCTGTTTGGTATGTT-CAGTTGGATCAGCTCTTATGAGCTTCTGTTTGGTGTG
* *
61986071 CTTCGGGTGCATCAACTCTTATGAGCTTCTGTCTAGTGTG-TTCGG
65 CTTCGGGTGGATCAACTCTTATGAGCTTCTGACTAGTGTGCTTCGG
61986116 TAGATCTAAC
Statistics
Matches: 191, Mismatches: 35, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
119 7 0.04
120 181 0.95
121 3 0.02
ACGTcount: A:0.15, C:0.19, G:0.27, T:0.40
Consensus pattern (119 bp):
CTCTTATGAGCTTCTGTTTGGTATGTTCAGTTGGATCAGCTCTTATGAGCTTCTGTTTGGTGTGC
TTCGGGTGGATCAACTCTTATGAGCTTCTGACTAGTGTGCTTCGGGTGAATCAC
Found at i:62005249 original size:14 final size:14
Alignment explanation
Indices: 62005230--62005271 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
62005220 AAATACTATT
62005230 AATATTTTTACATA
1 AATATTTTTACATA
62005244 AATATTTTATA-A-A
1 AATATTTT-TACATA
*
62005257 TATATTTTTACATA
1 AATATTTTTACATA
62005271 A
1 A
62005272 TTTTTTTCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
12 2 0.09
13 9 0.39
14 10 0.43
15 2 0.09
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (14 bp):
AATATTTTTACATA
Found at i:62005278 original size:13 final size:13
Alignment explanation
Indices: 62005229--62005277 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
62005219 AAAATACTAT
62005229 TAATATTTTTACA
1 TAATATTTTTACA
*
62005242 TAAATATTTTATAAA
1 T-AATATTTT-TACA
62005257 T-ATATTTTTACA
1 TAATATTTTTACA
62005269 TAAT-TTTTT
1 TAATATTTTT
62005278 TCCTTTCAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
12 9 0.29
13 10 0.32
14 8 0.26
15 4 0.13
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (13 bp):
TAATATTTTTACA
Found at i:62009991 original size:17 final size:18
Alignment explanation
Indices: 62009961--62009995 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
62009951 TTAAGTTTTA
62009961 TTAAACTATTTTGGATTT
1 TTAAACTATTTTGGATTT
62009979 TTAAACT-TTTTGGATTT
1 TTAAACTATTTTGGATTT
62009996 AGTTTCTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.26, C:0.06, G:0.11, T:0.57
Consensus pattern (18 bp):
TTAAACTATTTTGGATTT
Found at i:62011830 original size:17 final size:18
Alignment explanation
Indices: 62011788--62011836 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
62011778 AGTGGAAAAG
62011788 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
62011807 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
62011824 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
62011837 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:62012740 original size:40 final size:40
Alignment explanation
Indices: 62012696--62012823 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 40
62012686 TGCTGGAAAT
* * **
62012696 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGAA
* *
62012736 TATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCAAGTTAA
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGAA
* * * *
62012776 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGAA
62012816 TA-ATCCGG
1 TATATCCGG
62012824 TTATATTCCG
Statistics
Matches: 73, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
39 9 0.12
40 62 0.85
41 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGAA
Found at i:62016068 original size:46 final size:48
Alignment explanation
Indices: 62015885--62016198 Score: 246
Period size: 46 Copynumber: 6.7 Consensus size: 48
62015875 AAGGTGTAAT
* * * *
62015885 GCCGATGCCACGTCCCAGACATGGTCTTACACTAGCTCATCCA--TC-AA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTC-TACATCTCGTA
* * *
62015932 GTCGATGCCATGTCCCAGAAATGGTTTTACACTGGCTCTCACATCTCCGTA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCT-ACATCT-CGTA
* *
62015983 -CCGATGCCATGTCCCAGATATGGTCTTACACT-G-AC-ACATCTCGTA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTA
*
62016028 GCCGTTGCATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTCG-A
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTA
* * * *
62016073 GGCTGATGCATGTCCCAGACAT-GTCTTACACTAGCTCT-CGTCTC-AA
1 -GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTA
* * * *
62016119 TCCTGATGCCATGTCCCAGACATGGTCTTACACTGACTCT-CATAAT-GTG
1 GCC-GATG-CATGTCCCAGACATGGTCTTACACTGGCTCTACAT-CTCGTA
* *
62016168 GCCGATGGATGTTCCAGACAT-GTCTTACACT
1 GCCGATGCATGTCCCAGACATGGTCTTACACT
62016199 AGCGCACAAA
Statistics
Matches: 221, Mismatches: 29, Indels: 35
0.78 0.10 0.12
Matches are distributed among these distances:
44 10 0.05
45 20 0.09
46 72 0.33
47 62 0.28
48 21 0.10
49 5 0.02
50 30 0.14
51 1 0.00
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTA
Found at i:62016147 original size:94 final size:94
Alignment explanation
Indices: 62015885--62016201 Score: 293
Period size: 94 Copynumber: 3.4 Consensus size: 94
62015875 AAGGTGTAAT
*
62015885 GCCGATGCCACGTCCCAGACATGGTCTTACACTAGCTCATC-CATCAAGT-CGATGCCATGTCCC
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTC-TCTC-TCAA-TCCGATGCCATGTCCC
* *
62015948 AGAAATGGTTTTACACTGGCTCTCACATCTCCGTA-
62 AGACATGGTCTTACACTGGCTCT-ACATCT-CG-AG
* * * *
62015983 -CCGATGCCATGTCCCAGATATGGTCTTACACT-GACACATCTCGT--AGCCGTTG-CATGTCCC
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAG-CTC-TCTC-TCAATCCGATGCCATGTCCC
62016043 AGACAT-GTCTTACACTGGCT-TACATCTCGAG
62 AGACATGGTCTTACACTGGCTCTACATCTCGAG
*
62016074 GCTGATGCATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATCCTGATGCCATGTCCCAG
1 GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTC-TCTCAATCC-GATGCCATGTCCCAG
* * *
62016138 ACATGGTCTTACACTGACTCT-CATAAT-GTG
64 ACATGGTCTTACACTGGCTCTACAT-CTCGAG
* *
62016168 GCCGATGGATGTTCCAGACAT-GTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGGTCTTACACTAGC
62016202 GCACAAATGA
Statistics
Matches: 186, Mismatches: 19, Indels: 32
0.78 0.08 0.14
Matches are distributed among these distances:
89 3 0.02
90 15 0.08
91 19 0.10
92 14 0.08
93 15 0.08
94 62 0.33
95 15 0.08
96 6 0.03
97 35 0.19
98 2 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (94 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCTCTCAATCCGATGCCATGTCCCAGAC
ATGGTCTTACACTGGCTCTACATCTCGAG
Found at i:62023298 original size:49 final size:49
Alignment explanation
Indices: 62023241--62023339 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
62023231 TTATATTTGT
62023241 AAAGTTAGATCAAGAAAATCGAAATTCGGGCCTAAATCGAGAAAATGCG
1 AAAGTTAGATCAAGAAAATCGAAATTCGGGCCTAAATCGAGAAAATGCG
*
62023290 AAAGTTAGATCAAGAAAATCGAAATTCGGGTCTAAATCGAGAAAATGCG
1 AAAGTTAGATCAAGAAAATCGAAATTCGGGCCTAAATCGAGAAAATGCG
62023339 A
1 A
62023340 GATTATGGAC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.45, C:0.13, G:0.22, T:0.19
Consensus pattern (49 bp):
AAAGTTAGATCAAGAAAATCGAAATTCGGGCCTAAATCGAGAAAATGCG
Found at i:62023332 original size:27 final size:27
Alignment explanation
Indices: 62023253--62023335 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
62023243 AGTTAGATCA
*
62023253 AGAAAATCGAAATTCGGGCCTAAATCG
1 AGAAAATCGAAATTCGGGTCTAAATCG
* *
62023280 AGAAAATGCGAAA-----GT-TAGATCA
1 AGAAAAT-CGAAATTCGGGTCTAAATCG
62023302 AGAAAATCGAAATTCGGGTCTAAATCG
1 AGAAAATCGAAATTCGGGTCTAAATCG
62023329 AGAAAAT
1 AGAAAAT
62023336 GCGAGATTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
21 5 0.11
22 12 0.27
23 1 0.02
26 2 0.05
27 19 0.43
28 5 0.11
ACGTcount: A:0.46, C:0.13, G:0.22, T:0.19
Consensus pattern (27 bp):
AGAAAATCGAAATTCGGGTCTAAATCG
Found at i:62025153 original size:16 final size:16
Alignment explanation
Indices: 62025128--62025159 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
62025118 TTAATAAATC
*
62025128 TTAAGTGTTTTCAAGT
1 TTAAGGGTTTTCAAGT
62025144 TTAAGGGTTTTCAAGT
1 TTAAGGGTTTTCAAGT
62025160 GAGTGACATG
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:0.25, C:0.06, G:0.22, T:0.47
Consensus pattern (16 bp):
TTAAGGGTTTTCAAGT
Found at i:62026098 original size:13 final size:13
Alignment explanation
Indices: 62026080--62026105 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
62026070 GGGATTTAGT
62026080 TTAACTAAACTAA
1 TTAACTAAACTAA
62026093 TTAACTAAACTAA
1 TTAACTAAACTAA
62026106 GAATGCACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACTAAACTAA
Found at i:62026929 original size:13 final size:13
Alignment explanation
Indices: 62026911--62026938 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
62026901 GCTCGACAGG
62026911 GACATGCCCGTGT
1 GACATGCCCGTGT
62026924 GACATGCCCGTGT
1 GACATGCCCGTGT
62026937 GA
1 GA
62026939 GGTGGCTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.29, G:0.32, T:0.21
Consensus pattern (13 bp):
GACATGCCCGTGT
Found at i:62029053 original size:20 final size:20
Alignment explanation
Indices: 62029028--62029067 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
62029018 TTTAAGAAGG
* *
62029028 CAAATAAAGATAAAAGTAAA
1 CAAATAAAAATAAAAATAAA
62029048 CAAATAAAAATAAAAATAAA
1 CAAATAAAAATAAAAATAAA
62029068 GTAAAGTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.15
Consensus pattern (20 bp):
CAAATAAAAATAAAAATAAA
Found at i:62035050 original size:14 final size:14
Alignment explanation
Indices: 62035033--62035062 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
62035023 TTAAAACAAG
*
62035033 AATTAAGAACACAT
1 AATTAAGAACAAAT
62035047 AATTAAGAACAAAT
1 AATTAAGAACAAAT
62035061 AA
1 AA
62035063 AGTATTTATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.10, G:0.07, T:0.20
Consensus pattern (14 bp):
AATTAAGAACAAAT
Found at i:62037262 original size:40 final size:40
Alignment explanation
Indices: 62037194--62037418 Score: 400
Period size: 40 Copynumber: 5.7 Consensus size: 40
62037184 GCTACTCGCT
*
62037194 ATGCC-TCGGGACTTAG-CCGGATATAGTAACTCGTACAA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAA
*
62037232 AGGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAA
62037272 ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAA
62037312 ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAA
*
62037352 ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAAAA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAA
*
62037392 ATGCCTTCGGGACTTAGCCCGGTTATA
1 ATGCCTTCGGGACTTAGCCCGGATATA
62037419 ATCCAAATAT
Statistics
Matches: 180, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
38 4 0.02
39 11 0.06
40 165 0.92
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.23
Consensus pattern (40 bp):
ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAA
Found at i:62045393 original size:40 final size:40
Alignment explanation
Indices: 62045344--62045556 Score: 340
Period size: 40 Copynumber: 5.3 Consensus size: 40
62045334 AAATTCGGTT
*
62045344 TTAG-CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGAC
* *
62045383 TTAGCCCGGATATAGTAACTCGCACAAAGGCCTTCGAGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
62045423 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
62045463 TTAGTCCGGATATAGTAACTCGCACAAATGCCTTTGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
62045503 TTAGCCCGGATATAGTAACTCGCAAAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
62045543 TTAGCCCGGTTATA
1 TTAGCCCGGATATA
62045557 ATCCGAATAT
Statistics
Matches: 161, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 5 0.03
40 156 0.97
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:62051670 original size:9 final size:9
Alignment explanation
Indices: 62051658--62051690 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
62051648 GAATTATTCG
62051658 AATCGAGTT
1 AATCGAGTT
62051667 AATCGAGTT
1 AATCGAGTT
*
62051676 AATCGAATT
1 AATCGAGTT
62051685 AATCGA
1 AATCGA
62051691 ATCAACTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (9 bp):
AATCGAGTT
Found at i:62051691 original size:9 final size:9
Alignment explanation
Indices: 62051658--62051703 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
62051648 GAATTATTCG
*
62051658 AATCGAGTT
1 AATCGAATT
*
62051667 AATCGAGTT
1 AATCGAATT
62051676 AATCGAATT
1 AATCGAATT
*
62051685 AATCGAATC
1 AATCGAATT
62051694 AACTCGAATT
1 AA-TCGAATT
62051704 TTTTTTTCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (9 bp):
AATCGAATT
Found at i:62052094 original size:24 final size:24
Alignment explanation
Indices: 62052065--62052112 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
62052055 TTATTCAAAC
62052065 CCCTTACCCCCCATTTCAACGAAA
1 CCCTTACCCCCCATTTCAACGAAA
*
62052089 CCCTTACCCCCCATTTCTACGAAA
1 CCCTTACCCCCCATTTCAACGAAA
62052113 GACGAAACCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.46, G:0.04, T:0.23
Consensus pattern (24 bp):
CCCTTACCCCCCATTTCAACGAAA
Found at i:62056774 original size:2 final size:2
Alignment explanation
Indices: 62056769--62056802 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
62056759 ATGTTTCTTT
62056769 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
62056803 AAATAGAGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:62057655 original size:6 final size:6
Alignment explanation
Indices: 62057644--62057668 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
62057634 AAACGCCTTC
62057644 TCCCCT TCCCCT TCCCCT TCCCCT T
1 TCCCCT TCCCCT TCCCCT TCCCCT T
62057669 GGGTTGCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (6 bp):
TCCCCT
Found at i:62059259 original size:23 final size:23
Alignment explanation
Indices: 62059229--62059276 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
62059219 ATTTGAGGCA
62059229 ATCTTTCTCTATAAACAAGGATC
1 ATCTTTCTCTATAAACAAGGATC
62059252 ATCTTTCTCTATAAACAAGGATC
1 ATCTTTCTCTATAAACAAGGATC
62059275 AT
1 AT
62059277 GGTTATCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.35
Consensus pattern (23 bp):
ATCTTTCTCTATAAACAAGGATC
Found at i:62062207 original size:29 final size:28
Alignment explanation
Indices: 62062175--62062248 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
62062165 GATTCAAGCC
* *
62062175 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACAC-TAGTGCCATACAGTACAAACT
* *
62062204 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACAC-TAGTGCCATACAGTACAAACT
62062233 CGCACACTCAGTGCCA
1 CGCACACT-AGTGCCA
62062249 ATCTCGTCAC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 1 0.03
29 38 0.97
ACGTcount: A:0.31, C:0.34, G:0.15, T:0.20
Consensus pattern (28 bp):
CGCACACTAGTGCCATACAGTACAAACT
Found at i:62065643 original size:27 final size:27
Alignment explanation
Indices: 62065472--62065644 Score: 109
Period size: 27 Copynumber: 6.4 Consensus size: 27
62065462 GGACTATCTT
* * * *
62065472 ATGTTTACTGTCTTAGCGAACTACCAC
1 ATGTTTACTATCCTAACGAACTACCCC
* **
62065499 GTGTTTACTATCCTAATTAACTACCCC
1 ATGTTTACTATCCTAACGAACTACCCC
* * * *
62065526 ATGTTTACTGTCCTAATGAACTACTCT
1 ATGTTTACTATCCTAACGAACTACCCC
* * *
62065553 ACGTTTACTGTAT-C-GATGAACTACCCC
1 ATGTTTAC--TATCCTAACGAACTACCCC
** * *
62065580 ACATTTACTGT-CTCAACGGACTACCCC
1 ATGTTTACTATCCT-AACGAACTACCCC
* *
62065607 ATGCTTACTATCCTGACGAACTACCCC
1 ATGTTTACTATCCTAACGAACTACCCC
*
62065634 GTGTTTACTAT
1 ATGTTTACTAT
62065645 TCCAAAGGAC
Statistics
Matches: 111, Mismatches: 30, Indels: 10
0.74 0.20 0.07
Matches are distributed among these distances:
25 3 0.03
27 103 0.93
28 3 0.03
29 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (27 bp):
ATGTTTACTATCCTAACGAACTACCCC
Found at i:62067846 original size:19 final size:19
Alignment explanation
Indices: 62067813--62067879 Score: 77
Period size: 19 Copynumber: 3.6 Consensus size: 19
62067803 TGTCTCAACA
*
62067813 AAAAT-TTTAAAAAAATTC
1 AAAATATTTATAAAAATTC
*
62067831 AAAATAATTT-TTAAAATTC
1 AAAAT-ATTTATAAAAATTC
62067850 AAAATATTTATAAAAATTC
1 AAAATATTTATAAAAATTC
*
62067869 CAAA-ATTTATA
1 AAAATATTTATA
62067880 TTTTAAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
18 16 0.38
19 23 0.55
20 3 0.07
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATATTTATAAAAATTC
Found at i:62076815 original size:28 final size:28
Alignment explanation
Indices: 62076784--62076837 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
62076774 TTTAATTATT
*
62076784 TAAATTTA-AAAATTATTAAATATTATAA
1 TAAATTTATAAAATTA-TAAAAATTATAA
62076812 TAAATTTATAAAATTATAAAAATTAT
1 TAAATTTATAAAATTATAAAAATTAT
62076838 TTTGAAACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
TAAATTTATAAAATTATAAAAATTATAA
Found at i:62076833 original size:9 final size:9
Alignment explanation
Indices: 62076785--62076837 Score: 56
Period size: 9 Copynumber: 5.8 Consensus size: 9
62076775 TTAATTATTT
62076785 AAATT-TAA
1 AAATTATAA
62076793 AAATTATTAA
1 AAATTA-TAA
*
62076803 ATATTATAA
1 AAATTATAA
62076812 TAAATT-TATA
1 -AAATTATA-A
62076822 AAATTATAA
1 AAATTATAA
62076831 AAATTAT
1 AAATTAT
62076838 TTTGAAACTA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
8 5 0.13
9 18 0.47
10 15 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AAATTATAA
Found at i:62076839 original size:21 final size:21
Alignment explanation
Indices: 62076785--62076852 Score: 58
Period size: 19 Copynumber: 3.5 Consensus size: 21
62076775 TTAATTATTT
62076785 AAATT-TAAAAATTA-TTA-A
1 AAATTATAAAAATTATTTATA
* *
62076803 ATATTATAATAA--ATTTATA
1 AAATTATAAAAATTATTTATA
*
62076822 AAATTATAAAAATTATTT-TG
1 AAATTATAAAAATTATTTATA
*
62076842 AAACTATAAAA
1 AAATTATAAAA
62076853 TAGAAATTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
17 1 0.03
18 7 0.18
19 16 0.41
20 11 0.28
21 4 0.10
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (21 bp):
AAATTATAAAAATTATTTATA
Done.