Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 392 of 444
Found at i:113810055 original size:43 final size:41
Alignment explanation
Indices: 113810007--113810148 Score: 124
Period size: 43 Copynumber: 3.3 Consensus size: 41
113809997 ATGCCACGTT
113810007 TGGGACGTTGGCATCGATTTGAAATTACGTGTAAGACCATGTC
1 TGGGACGTTGGCATCGATTTG--ATTACGTGTAAGACCATGTC
* * * * *
113810050 TGGGACATAGTCATCGTATTTGATTTCGTGTAAGACCCTGTC
1 TGGGACGTTGGCATCG-ATTTGATTACGTGTAAGACCATGTC
* * * **
113810092 TAGGACAG-TGGCATCGATACTTGAGTACATGTAAGACCACATC
1 TGGGAC-GTTGGCATCGAT--TTGATTACGTGTAAGACCATGTC
*
113810135 TGGGACCTTGGCAT
1 TGGGACGTTGGCAT
113810149 TGTACGAGCT
Statistics
Matches: 77, Mismatches: 17, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
41 2 0.03
42 29 0.38
43 41 0.53
44 5 0.06
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (41 bp):
TGGGACGTTGGCATCGATTTGATTACGTGTAAGACCATGTC
Found at i:113810107 original size:42 final size:41
Alignment explanation
Indices: 113810015--113810109 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 41
113810005 TTTGGGACGT
*
113810015 TGGCATCGATTTGAAATTACGTGTAAGACCATGTCTGGGACA
1 TGGCATCGATTTG-AATTACGTGTAAGACCATGTCTAGGACA
* * *
113810057 TAGTCATCGTATTTG-ATTTCGTGTAAGACCCTGTCTAGGACA
1 T-GGCATCG-ATTTGAATTACGTGTAAGACCATGTCTAGGACA
113810099 GTGGCATCGAT
1 -TGGCATCGAT
113810110 ACTTGAGTAC
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
41 2 0.04
42 31 0.69
43 7 0.16
44 5 0.11
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (41 bp):
TGGCATCGATTTGAATTACGTGTAAGACCATGTCTAGGACA
Found at i:113810905 original size:10 final size:10
Alignment explanation
Indices: 113810871--113810913 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
113810861 TGAATCTTAT
113810871 TTTTGGTATG
1 TTTTGGTATG
*
113810881 ACTTTGGCTTATG
1 -TTTTGG--TATG
113810894 TTTTGGTATG
1 TTTTGGTATG
113810904 TTTTGGTATG
1 TTTTGGTATG
113810914 AATTAATAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
10 14 0.50
11 5 0.18
12 5 0.18
13 4 0.14
ACGTcount: A:0.12, C:0.05, G:0.28, T:0.56
Consensus pattern (10 bp):
TTTTGGTATG
Found at i:113812722 original size:16 final size:17
Alignment explanation
Indices: 113812696--113812729 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
113812686 CTAAACTCCC
*
113812696 TAAATACCTAAGAGAGA
1 TAAATACCTAAGACAGA
113812713 TAAA-ACCTAAGACAGA
1 TAAATACCTAAGACAGA
113812729 T
1 T
113812730 CTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.53, C:0.15, G:0.15, T:0.18
Consensus pattern (17 bp):
TAAATACCTAAGACAGA
Found at i:113819628 original size:30 final size:30
Alignment explanation
Indices: 113819592--113819692 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
113819582 GACAAGATTG
* * *
113819592 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
113819622 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
113819650 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
113819679 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
113819693 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:113819704 original size:29 final size:28
Alignment explanation
Indices: 113819621--113819696 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
113819611 AAAATTGTAC
* *
113819621 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
113819649 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
113819678 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
113819697 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:113826712 original size:30 final size:30
Alignment explanation
Indices: 113826676--113826776 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
113826666 GACAAGATTG
* * *
113826676 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
113826706 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
113826734 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
113826763 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
113826777 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:113826788 original size:29 final size:28
Alignment explanation
Indices: 113826705--113826780 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
113826695 AAAATTGTAC
* *
113826705 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
113826733 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
113826762 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
113826781 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:113837997 original size:12 final size:12
Alignment explanation
Indices: 113837977--113838042 Score: 68
Period size: 12 Copynumber: 5.7 Consensus size: 12
113837967 TTTTGAGGCC
113837977 ATTTATTTTTCT
1 ATTTATTTTTCT
*
113837989 ATTTGTTTTTCT
1 ATTTATTTTTCT
113838001 -TTT-TCTTTTCT
1 ATTTAT-TTTTCT
*
113838012 -TTTATTTTTGT
1 ATTTATTTTTCT
113838023 ATTTATTTTT-T
1 ATTTATTTTTCT
113838034 ACTTTATTT
1 A-TTTATTT
113838043 ATCATTTTCT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
10 1 0.02
11 19 0.40
12 28 0.58
ACGTcount: A:0.12, C:0.08, G:0.03, T:0.77
Consensus pattern (12 bp):
ATTTATTTTTCT
Found at i:113847634 original size:17 final size:18
Alignment explanation
Indices: 113847601--113847634 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
113847591 GTCGCTTATC
*
113847601 AGTTAGAGCTACCTCCAG
1 AGTTAGAGCTACATCCAG
113847619 AGTTAGA-CTACATCCA
1 AGTTAGAGCTACATCCA
113847635 TGATGTGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (18 bp):
AGTTAGAGCTACATCCAG
Found at i:113852777 original size:39 final size:39
Alignment explanation
Indices: 113852734--113852945 Score: 119
Period size: 39 Copynumber: 5.4 Consensus size: 39
113852724 CAACTATTAA
* *
113852734 TAAAATTCCTATTGGGAAATCAATTTTATAACTAAATAC
1 TAAAATTCTTATTGGGAAATCAATTTTCTAACTAAATAC
* * * *
113852773 TAAAATTCTTAATT-GGAAATCATAATCTCTCAACT-ACTAA
1 TAAAATTCTT-ATTGGGAAATCA-ATTTTCT-AACTAAATAC
* * * * * *
113852813 TAAATTTTTTAATGGAAAATCAATTTTGTAACCAAATAC
1 TAAAATTCTTATTGGGAAATCAATTTTCTAACTAAATAC
* * * *
113852852 TAAAATTCTTAATT-GGAAACCATAATCTCTCAACT-ATTAC
1 TAAAATTCTT-ATTGGGAAATCA-ATTTTCT-AACTAAATAC
* * * * *
113852892 TATAATTCCTATTGGAAAACCAATTTTGC-AACAAAATAC
1 TAAAATTCTTATTGGGAAATCAATTTT-CTAACTAAATAC
* *
113852931 TAAAAATATTATTGG
1 TAAAATTCTTATTGG
113852946 AAACACAACT
Statistics
Matches: 125, Mismatches: 37, Indels: 22
0.68 0.20 0.12
Matches are distributed among these distances:
38 6 0.05
39 61 0.49
40 51 0.41
41 7 0.06
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (39 bp):
TAAAATTCTTATTGGGAAATCAATTTTCTAACTAAATAC
Found at i:113852814 original size:79 final size:77
Alignment explanation
Indices: 113852689--113852950 Score: 317
Period size: 79 Copynumber: 3.3 Consensus size: 77
113852679 TAAAAAACCC
* * *
113852689 AAATACAAAAAATCTTATTGTAAACAATAATCTCTCAACTATTAATAAAATTCCTATTGGGAAAT
1 AAATACTAAAAATCTTATTGGAAAC-ATAATCTCTCAACTATTAATAAAATTCCTATTGGAAAAT
* *
113852754 CAATTTTATAACT
65 CAATTTTGTAACA
* * * ** *
113852767 AAATACTAAAATTCTTAATTGGAAATCATAATCTCTCAACTACTAATAAATTTTTTAATGGAAAA
1 AAATACTAAAAATCTT-ATTGGAAA-CATAATCTCTCAACTATTAATAAAATTCCTATTGGAAAA
*
113852832 TCAATTTTGTAACC
64 TCAATTTTGTAACA
* * *
113852846 AAATACTAAAATTCTTAATTGGAAACCATAATCTCTCAACTATTACTATAATTCCTATTGGAAAA
1 AAATACTAAAAATCTT-ATTGGAAA-CATAATCTCTCAACTATTAATAAAATTCCTATTGGAAAA
* *
113852911 CCAATTTTGCAACA
64 TCAATTTTGTAACA
*
113852925 AAATACTAAAAATATTATTGGAAACA
1 AAATACTAAAAATCTTATTGGAAACA
113852951 CAACTTTGTA
Statistics
Matches: 158, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
77 2 0.01
78 22 0.14
79 133 0.84
80 1 0.01
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.34
Consensus pattern (77 bp):
AAATACTAAAAATCTTATTGGAAACATAATCTCTCAACTATTAATAAAATTCCTATTGGAAAATC
AATTTTGTAACA
Found at i:113852825 original size:40 final size:40
Alignment explanation
Indices: 113852715--113852909 Score: 134
Period size: 39 Copynumber: 5.0 Consensus size: 40
113852705 ATTGTAAACA
* *
113852715 ATAATCTCTCAACTATTAATAAAATTCCT-ATTGGGAAATC
1 ATAATCTCTCAACTAATAATAAAATTCTTAATT-GGAAATC
* * * *
113852755 A-ATTTTAT-AACTAAATACTAAAATTCTTAATTGGAAATC
1 ATAATCTCTCAACT-AATAATAAAATTCTTAATTGGAAATC
* * *
113852794 ATAATCTCTCAACTACTAATAAATTTTTTAA-TGGAAAATC
1 ATAATCTCTCAACTAATAATAAAATTCTTAATTGG-AAATC
* * * * * *
113852834 A-ATTTTGT-AACCAAATACTAAAATTCTTAATTGGAAACC
1 ATAATCTCTCAA-CTAATAATAAAATTCTTAATTGGAAATC
* * * *
113852873 ATAATCTCTCAACTATTACTATAATTCCT-ATTGGAAA
1 ATAATCTCTCAACTAATAATAAAATTCTTAATTGGAAA
113852910 ACCAATTTTG
Statistics
Matches: 117, Mismatches: 29, Indels: 19
0.71 0.18 0.12
Matches are distributed among these distances:
38 6 0.05
39 58 0.50
40 47 0.40
41 6 0.05
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.36
Consensus pattern (40 bp):
ATAATCTCTCAACTAATAATAAAATTCTTAATTGGAAATC
Found at i:113853539 original size:2 final size:2
Alignment explanation
Indices: 113853534--113853567 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
113853524 TAACCATGTC
113853534 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
113853568 TCTAATTATT
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):
AT
Found at i:113853765 original size:2 final size:2
Alignment explanation
Indices: 113853760--113853785 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
113853750 GAGAACCTTA
113853760 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
113853786 GAAACAACTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:113854245 original size:6 final size:7
Alignment explanation
Indices: 113854229--113854254 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
113854219 CAAAAATAAG
113854229 TTTTTCT
1 TTTTTCT
113854236 TTTTTCT
1 TTTTTCT
113854243 TTTTTCT
1 TTTTTCT
113854250 TTTTT
1 TTTTT
113854255 AGTTTTAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:113854260 original size:14 final size:14
Alignment explanation
Indices: 113854227--113854260 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
113854217 ATCAAAAATA
113854227 AGTTTTTCTTTTTT
1 AGTTTTTCTTTTTT
**
113854241 CTTTTTTCTTTTTT
1 AGTTTTTCTTTTTT
113854255 AGTTTT
1 AGTTTT
113854261 AGTTTTGAGT
Statistics
Matches: 16, Mismatches: 4, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.06, C:0.09, G:0.06, T:0.79
Consensus pattern (14 bp):
AGTTTTTCTTTTTT
Found at i:113865012 original size:27 final size:27
Alignment explanation
Indices: 113864961--113865013 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
113864951 ACAATTCCAC
*
113864961 TTGGGTCTCAGCCTTCATCAGAATCAA
1 TTGGGTCTCAGCCTTCATCAAAATCAA
113864988 TTGGGTCT-AGCCCATTC-TCAAAATCA
1 TTGGGTCTCAG-CC-TTCATCAAAATCA
113865014 GTAACAGTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 2 0.09
27 18 0.78
28 3 0.13
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (27 bp):
TTGGGTCTCAGCCTTCATCAAAATCAA
Found at i:113865068 original size:27 final size:27
Alignment explanation
Indices: 113865022--113865074 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
113865012 CAGTAACAGT
*
113865022 TGGGCCTAGCCCATTAACAGAATCAGG
1 TGGGCCTAGCCCAGTAACAGAATCAGG
113865049 TGGGCCTAAGCCCAGT-ACAGAATCAG
1 TGGGCCT-AGCCCAGTAACAGAATCAG
113865075 TATCAGATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.17
Consensus pattern (27 bp):
TGGGCCTAGCCCAGTAACAGAATCAGG
Found at i:113865226 original size:22 final size:22
Alignment explanation
Indices: 113865194--113865236 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
113865184 CACTAAGTCA
*
113865194 ACAGGACGGCTCAACGCCGTAG
1 ACAGGACGGCTAAACGCCGTAG
* *
113865216 ACAGGATGGCTAAAGGCCGTA
1 ACAGGACGGCTAAACGCCGTA
113865237 AATATCGCAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.26, G:0.33, T:0.12
Consensus pattern (22 bp):
ACAGGACGGCTAAACGCCGTAG
Found at i:113877685 original size:29 final size:29
Alignment explanation
Indices: 113877580--113877685 Score: 79
Period size: 29 Copynumber: 3.6 Consensus size: 29
113877570 ATTTTCTTCT
*
113877580 TTTGGTCACCCGACTATC-AATTTGTTTAA
1 TTTGGTCACCCAACTATCAAATTT-TTTAA
* ** **
113877609 TTTGGTCACCCAACTATTACCTCTTTTCTTT
1 TTTGGTCACCCAACTATCAAAT-TTTT-TAA
* **
113877640 TTTGGATTACTTAACTATCAAATTTTTTAA
1 TTTGG-TCACCCAACTATCAAATTTTTTAA
*
113877670 TTTGGTCACCTAACTA
1 TTTGGTCACCCAACTA
113877686 ATTGAGATTA
Statistics
Matches: 57, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
29 25 0.44
30 9 0.16
31 12 0.21
32 11 0.19
ACGTcount: A:0.25, C:0.21, G:0.09, T:0.45
Consensus pattern (29 bp):
TTTGGTCACCCAACTATCAAATTTTTTAA
Found at i:113877925 original size:43 final size:43
Alignment explanation
Indices: 113877878--113877959 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
113877868 GCTCTTTCCC
113877878 TAAAAACGCCGCTAAAAGTCATGTTCTTTAGCAACGTTTTTAG
1 TAAAAACGCCGCTAAAAGTCATGTTCTTTAGCAACGTTTTTAG
* * * * *
113877921 TAAAAGCGCTGCTAAAAGTTATGTTCTTTGGCAGCGTTT
1 TAAAAACGCCGCTAAAAGTCATGTTCTTTAGCAACGTTT
113877960 GTGGAAAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (43 bp):
TAAAAACGCCGCTAAAAGTCATGTTCTTTAGCAACGTTTTTAG
Found at i:113883970 original size:43 final size:43
Alignment explanation
Indices: 113883923--113884062 Score: 191
Period size: 43 Copynumber: 3.4 Consensus size: 43
113883913 ATCCAAAATT
113883923 TTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAG
1 TTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAG
113883966 TTATGTAAGTTATGATATGATATATA--TA--T-TTATGTAAG
1 TTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAG
* * * * * *
113884004 TTATGTAATTTATGATATAATACATATTTTTGTATTATATAAA
1 TTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAG
113884047 TTATGTAAGTTATGAT
1 TTATGTAAGTTATGAT
113884063 CCAAAGTTTT
Statistics
Matches: 85, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
38 32 0.38
39 1 0.01
40 1 0.01
41 2 0.02
42 1 0.01
43 48 0.56
ACGTcount: A:0.36, C:0.01, G:0.14, T:0.49
Consensus pattern (43 bp):
TTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAG
Found at i:113883971 original size:9 final size:9
Alignment explanation
Indices: 113883923--113884017 Score: 61
Period size: 9 Copynumber: 10.6 Consensus size: 9
113883913 ATCCAAAATT
113883923 TTATGTAAG
1 TTATGTAAG
*
113883932 TTATGATATG
1 TTATG-TAAG
* * *
113883942 ATATAT-AT
1 TTATGTAAG
113883950 TTATGT-A-
1 TTATGTAAG
113883957 TTATGTAAG
1 TTATGTAAG
113883966 TTATGTAAG
1 TTATGTAAG
*
113883975 TTATGATATG
1 TTATG-TAAG
* * *
113883985 ATATATATAT
1 TTATGTA-AG
113883995 TTATGTAAG
1 TTATGTAAG
*
113884004 TTATGTAAT
1 TTATGTAAG
113884013 TTATG
1 TTATG
113884018 ATATAATACA
Statistics
Matches: 65, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
7 6 0.09
8 6 0.09
9 36 0.55
10 17 0.26
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:113883999 original size:38 final size:38
Alignment explanation
Indices: 113883923--113884037 Score: 144
Period size: 38 Copynumber: 2.9 Consensus size: 38
113883913 ATCCAAAATT
113883923 TTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAG
1 TTATGTAAGTTATGATATGATATATA--TA--T-TTATGTAAG
113883966 TTATGTAAGTTATGATATGATATATATATTTATGTAAG
1 TTATGTAAGTTATGATATGATATATATATTTATGTAAG
* * *
113884004 TTATGTAATTTATGATAT-A-ATACATATTTTTGTA
1 TTATGTAAGTTATGATATGATATATATATTTATGTA
113884038 TTATATAAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
36 13 0.19
37 1 0.01
38 26 0.38
39 1 0.01
41 2 0.03
43 26 0.38
ACGTcount: A:0.36, C:0.01, G:0.14, T:0.50
Consensus pattern (38 bp):
TTATGTAAGTTATGATATGATATATATATTTATGTAAG
Found at i:113884130 original size:13 final size:13
Alignment explanation
Indices: 113884112--113884138 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
113884102 TGATTATCAT
113884112 CTTTAAATTTTAA
1 CTTTAAATTTTAA
113884125 CTTTAAATTTTAA
1 CTTTAAATTTTAA
113884138 C
1 C
113884139 CCTTTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (13 bp):
CTTTAAATTTTAA
Found at i:113884592 original size:28 final size:27
Alignment explanation
Indices: 113884561--113884616 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
113884551 AATTTTAATG
*
113884561 TTAAAACTA-AATATTAAAATTAATGAAT
1 TTAAAACTAGAAT-TTAAAA-TAATAAAT
*
113884589 TTAAAATTAGAATTTAAAATAATAAAT
1 TTAAAACTAGAATTTAAAATAATAAAT
113884616 T
1 T
113884617 AATAATACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 8 0.32
28 14 0.56
29 3 0.12
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.38
Consensus pattern (27 bp):
TTAAAACTAGAATTTAAAATAATAAAT
Found at i:113884603 original size:13 final size:13
Alignment explanation
Indices: 113884561--113884608 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
113884551 AATTTTAATG
*
113884561 TTAAAACTA-AAT
1 TTAAAATTAGAAT
113884573 ATTAAAATTAATGAAT
1 -TTAAAATT-A-GAAT
113884589 TTAAAATTAGAAT
1 TTAAAATTAGAAT
113884602 TTAAAAT
1 TTAAAAT
113884609 AATAAATTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
13 18 0.58
14 2 0.06
15 8 0.26
16 3 0.10
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (13 bp):
TTAAAATTAGAAT
Found at i:113884990 original size:28 final size:28
Alignment explanation
Indices: 113884947--113885027 Score: 78
Period size: 28 Copynumber: 3.0 Consensus size: 28
113884937 TTATTTTAGA
* *
113884947 TAAATTTAAAATTATAAAAAATTAAAAT
1 TAAAATTAAAAATATAAAAAATTAAAAT
* *
113884975 TAAAATTAAAAATATAAAAAGTT--CAT
1 TAAAATTAAAAATATAAAAAATTAAAAT
* * *
113885001 TGAAATTCAAAATAT-TAAAATTAAAAT
1 TAAAATTAAAAATATAAAAAATTAAAAT
113885028 GCATTCATAT
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
25 5 0.12
26 15 0.36
27 2 0.05
28 20 0.48
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (28 bp):
TAAAATTAAAAATATAAAAAATTAAAAT
Found at i:113888347 original size:20 final size:20
Alignment explanation
Indices: 113888309--113888347 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
113888299 AATGACTAAA
* *
113888309 TTAAAAAATTAATAGTTAAG
1 TTAAAAAAATAATAATTAAG
*
113888329 TTAAAAAAATATTAATTAA
1 TTAAAAAAATAATAATTAA
113888348 ATGATCTACG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
TTAAAAAAATAATAATTAAG
Found at i:113893619 original size:2 final size:2
Alignment explanation
Indices: 113893612--113893648 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
113893602 TTTAATTCTA
113893612 AT AT AT AT AT AT 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 AT AT AT AT AT AT A
113893649 AGAAAAATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:113895744 original size:7 final size:7
Alignment explanation
Indices: 113895732--113895764 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
113895722 GAAAGTGAAA
113895732 AAAAAAG
1 AAAAAAG
113895739 AAAAAAG
1 AAAAAAG
113895746 AAAAAAG
1 AAAAAAG
*
113895753 AAAGAAG
1 AAAAAAG
113895760 AAAAA
1 AAAAA
113895765 GAGCTTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:113895756 original size:18 final size:18
Alignment explanation
Indices: 113895717--113895763 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
113895707 ATGGGTTTTC
*
113895717 AAGAAGAAAGTGAAAAAAA
1 AAGAAGAAA-AGAAAAAAA
113895736 AAGAA-AAAAGAAAAAAGA
1 AAGAAGAAAAGAAAAAA-A
113895754 AAGAAGAAAA
1 AAGAAGAAAA
113895764 AGAGCTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 7 0.28
18 9 0.36
19 9 0.36
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (18 bp):
AAGAAGAAAAGAAAAAAA
Found at i:113897398 original size:22 final size:24
Alignment explanation
Indices: 113897373--113897417 Score: 67
Period size: 22 Copynumber: 1.9 Consensus size: 24
113897363 TAAGATTAAA
113897373 TATATTTTA-ATTT-TTAATTTAT
1 TATATTTTATATTTATTAATTTAT
113897395 TATATTTTATATTTAGTTAATTT
1 TATATTTTATATTTA-TTAATTT
113897418 TAATTTTAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
23 4 0.20
25 7 0.35
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TATATTTTATATTTATTAATTTAT
Found at i:113897408 original size:16 final size:15
Alignment explanation
Indices: 113897379--113897423 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
113897369 TAAATATATT
113897379 TTAATTTTTAATTTA-
1 TTAA-TTTTAATTTAG
113897394 TTATATTTTATATTTAG
1 TTA-ATTTTA-ATTTAG
113897411 TTAATTTTAATTT
1 TTAATTTTAATTT
113897424 TAGCTGATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 12 0.44
16 12 0.44
17 3 0.11
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TTAATTTTAATTTAG
Found at i:113898586 original size:21 final size:21
Alignment explanation
Indices: 113898538--113898579 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
113898528 AACAGTCTAT
*
113898538 TAACAAAATTACAAGCCCAAA
1 TAACAAAAGTACAAGCCCAAA
113898559 TAACAAAAGTACAAGCCCAAA
1 TAACAAAAGTACAAGCCCAAA
113898580 ATACAAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.57, C:0.24, G:0.07, T:0.12
Consensus pattern (21 bp):
TAACAAAAGTACAAGCCCAAA
Found at i:113899148 original size:13 final size:14
Alignment explanation
Indices: 113899130--113899158 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
113899120 AAATCGGGAT
113899130 AAAA-GGGTTTTAA
1 AAAAGGGGTTTTAA
113899143 AAAAGGGGTTTTAA
1 AAAAGGGGTTTTAA
113899157 AA
1 AA
113899159 CGATTTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (14 bp):
AAAAGGGGTTTTAA
Found at i:113900015 original size:15 final size:17
Alignment explanation
Indices: 113899977--113900017 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
113899967 ATTATATATA
113899977 TTATTT-TTATTTCTTG
1 TTATTTATTATTTCTTG
113899993 TTATTTTATTATTTC-T-
1 TTA-TTTATTATTTCTTG
113900009 TTATTTATT
1 TTATTTATT
113900018 TTTGATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 6 0.26
16 6 0.26
17 4 0.17
18 7 0.30
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (17 bp):
TTATTTATTATTTCTTG
Found at i:113901152 original size:19 final size:19
Alignment explanation
Indices: 113901128--113901225 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
113901118 AATCTTTAAG
*
113901128 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
113901147 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
113901166 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
113901183 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
113901202 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
113901223 GAT
1 GAT
113901226 CTTGTAATCT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
21 9 0.12
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:113901158 original size:36 final size:35
Alignment explanation
Indices: 113901118--113901203 Score: 106
Period size: 36 Copynumber: 2.4 Consensus size: 35
113901108 ATGGAAATAT
113901118 AATCTTTAAGGATATG-CAATATTAGATATGATATGC
1 AATCTTT-A-GATATGACAATATTAGATATGATATGC
*
113901154 AATC-TTAGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAGATATG--ACAATATTAGATATGATATGC
113901190 AATC-TTAGATATGA
1 AATCTTTAGATATGA
113901204 TATGCAATCT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
33 6 0.13
34 2 0.04
35 2 0.04
36 36 0.78
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (35 bp):
AATCTTTAGATATGACAATATTAGATATGATATGC
Found at i:113901164 original size:14 final size:15
Alignment explanation
Indices: 113901147--113901203 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
113901137 TATTAGATAT
113901147 GATATG-CAATCTTA
1 GATATGACAATCTTA
113901161 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
113901178 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
113901197 GATATGA
1 GATATGA
113901204 TATGCAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:113901204 original size:36 final size:37
Alignment explanation
Indices: 113901128--113901225 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
113901118 AATCTTTAAG
*
113901128 GATATGCAATATTAGATATGATATGCAATCTTAGATAT
1 GATA-GCAATCTTAGATATGATATGCAATCTTAGATAT
113901166 GATA-CAATCTTAGATATGATATGCAATCTTAGATAT
1 GATAGCAATCTTAGATATGATATGCAATCTTAGATAT
113901202 GATATGCAATCTTGAAGATATGAT
1 GATA-GCAATCTT--AGATATGAT
113901226 CTTGTAATCT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
40 9 0.16
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (37 bp):
GATAGCAATCTTAGATATGATATGCAATCTTAGATAT
Found at i:113904075 original size:26 final size:26
Alignment explanation
Indices: 113904046--113904129 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
113904036 TGATACAAAT
* *
113904046 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
113904072 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
113904098 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
113904124 TGATAA
1 TGATAA
113904130 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:113906160 original size:137 final size:137
Alignment explanation
Indices: 113905914--113906200 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
113905904 GAGTAGTCTC
113905914 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
113905979 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
113906044 ACTGTTA
131 ACTGTTA
113906051 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
113906116 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
113906181 ACTGTTA
131 ACTGTTA
**
113906188 CCTGAATGGGCTT
1 CCCAAATGGGCTT
113906201 AGGCCCAATG
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:113907540 original size:75 final size:74
Alignment explanation
Indices: 113907307--113907549 Score: 251
Period size: 75 Copynumber: 3.2 Consensus size: 74
113907297 CACACAGCCG
* * * * * * *
113907307 TCGGTTTATCCGACTAGCACTGGGTGTAATTTTTGTTGGTTTATCCAACTAGAGCTAGGCTCAGA
1 TCGGTTAATCCGACTAGCACTGGGTGAAAATATCGTTGGTTTATCCAAATAGAGCTAGGCTCA-C
*
113907372 ATT--ATAATCG
65 ATTCAAT-AT-T
* * * *
113907382 TCGG-TATACCCGACTAGCACTGGGTGCAAATATCGTTGGTTTAT-CAAACTATAGCTGGGCTCA
1 TCGGTTA-ATCCGACTAGCACTGGGTGAAAATATCGTTGGTTTATCCAAA-TAGAGCTAGGCTCA
113907445 CATTCAATATT
64 CATTCAATATT
* * *
113907456 GTCGATTAATCCGAGTAGCACTGGATGAAAATATCGTTGGTTTATCCAAATAGAGCTAGGCTCAC
1 -TCGGTTAATCCGACTAGCACTGGGTGAAAATATCGTTGGTTTATCCAAATAGAGCTAGGCTCAC
113907521 ATTCAATACTT
65 ATTCAATA-TT
*
113907532 TCGGTTAATTCGACTAGC
1 TCGGTTAATCCGACTAGC
113907550 GCTAGGAGCA
Statistics
Matches: 139, Mismatches: 21, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
74 7 0.05
75 122 0.88
76 10 0.07
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (74 bp):
TCGGTTAATCCGACTAGCACTGGGTGAAAATATCGTTGGTTTATCCAAATAGAGCTAGGCTCACA
TTCAATATT
Found at i:113907767 original size:28 final size:28
Alignment explanation
Indices: 113907726--113907788 Score: 101
Period size: 28 Copynumber: 2.2 Consensus size: 28
113907716 ACCTATTAAT
*
113907726 GATAAATTGGTTTACATGTT-CAAGGTTA
1 GATAAATTGATTTACATGTTGC-AGGTTA
113907754 GATAAATTGATTTACATGTTGCAGGTTA
1 GATAAATTGATTTACATGTTGCAGGTTA
113907782 GATAAAT
1 GATAAAT
113907789 AGTAGTATCA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
28 32 0.97
29 1 0.03
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (28 bp):
GATAAATTGATTTACATGTTGCAGGTTA
Found at i:113916564 original size:21 final size:21
Alignment explanation
Indices: 113916539--113916593 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
113916529 GTGAAGGTCT
**
113916539 CACACACCCGTGTGCCCACCA
1 CACACACCCGTGTGCCCAAAA
* ** *
113916560 GACACAGTCGTGTGTCCAAAA
1 CACACACCCGTGTGCCCAAAA
113916581 CACACACCCGTGT
1 CACACACCCGTGT
113916594 AGGATCCCTA
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.40, G:0.18, T:0.15
Consensus pattern (21 bp):
CACACACCCGTGTGCCCAAAA
Found at i:113918723 original size:18 final size:18
Alignment explanation
Indices: 113918700--113918735 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
113918690 AAAAAAATAA
113918700 AATGATTCAATTTTTATC
1 AATGATTCAATTTTTATC
113918718 AATGATTCAATTTTTATC
1 AATGATTCAATTTTTATC
113918736 GAACATATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.50
Consensus pattern (18 bp):
AATGATTCAATTTTTATC
Found at i:113922873 original size:55 final size:54
Alignment explanation
Indices: 113922758--113922875 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 54
113922748 GACAGGTTCG
* *
113922758 ACCACGGGTTCTAGACACGGGCGTGGCAAATGCCCGTGCTATTTTCTTAGGTTTA
1 ACCAC-GGTTCTAGACACGGGCGTGGCAAATGCCCGTGCTATTTTCGTAGATTTA
* ** * * * *
113922813 ACCACGGTTCTATGACACGGGCGTGTCGTATGCCCGTGTTGTTTTGGTAGATTTG
1 ACCACGGTTCTA-GACACGGGCGTGGCAAATGCCCGTGCTATTTTCGTAGATTTA
*
113922868 CCCACGGT
1 ACCACGGT
113922876 CCAACGCACG
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 7 0.13
55 45 0.87
ACGTcount: A:0.17, C:0.24, G:0.29, T:0.31
Consensus pattern (54 bp):
ACCACGGTTCTAGACACGGGCGTGGCAAATGCCCGTGCTATTTTCGTAGATTTA
Found at i:113925803 original size:12 final size:13
Alignment explanation
Indices: 113925778--113925806 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
113925768 AGGGAAAAAG
113925778 AAAAATTAGTAAT
1 AAAAATTAGTAAT
113925791 AAAAATTAG-AAT
1 AAAAATTAGTAAT
113925803 AAAA
1 AAAA
113925807 TTTAAATTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (13 bp):
AAAAATTAGTAAT
Found at i:113930640 original size:48 final size:48
Alignment explanation
Indices: 113930581--113930712 Score: 165
Period size: 48 Copynumber: 2.8 Consensus size: 48
113930571 GTGTGAGTTA
* ** *
113930581 TACCTTGATTTGGCTTCGGGCCATGGTATAGGTATTTTAAAGATAATT
1 TACCTTGATTTGGCTTCGGGCCATGGTATAGGTACTCCAAAGATAAGT
* * ***
113930629 TACCTTAATTTGGCTTCGGGACATGGTATAGGTACTCCGGGGATAAGT
1 TACCTTGATTTGGCTTCGGGCCATGGTATAGGTACTCCAAAGATAAGT
* *
113930677 TACCTTGATTTAGCTTCAGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTTCGGGCCATGGTATAGGTACT
113930713 TATCCTGTGA
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (48 bp):
TACCTTGATTTGGCTTCGGGCCATGGTATAGGTACTCCAAAGATAAGT
Found at i:113936883 original size:40 final size:40
Alignment explanation
Indices: 113936827--113936902 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
113936817 GATGCTATGA
*
113936827 GAAAAAAATACCCGAACCTATTCACTAGTAATATTTTAGG
1 GAAAAAAATACCCGAACCTATTCACTAGTAAGATTTTAGG
* * *
113936867 GAAAACAATACTCGAACCTATTCACTGGTAAGATTT
1 GAAAAAAATACCCGAACCTATTCACTAGTAAGATTT
113936903 CCGGGGACGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (40 bp):
GAAAAAAATACCCGAACCTATTCACTAGTAAGATTTTAGG
Found at i:113938320 original size:48 final size:49
Alignment explanation
Indices: 113938223--113938354 Score: 160
Period size: 48 Copynumber: 2.7 Consensus size: 49
113938213 GTACGAGTTA
* *** *
113938223 TACCTTGATTTGGCTTCGGGCCATTGTATAGGTA-TTTTAGAGATGAGT
1 TACCTTGATTTGGCTTCGGGCCATGGTATAGGTACTCCGAGAGATAAGT
* *
113938271 TACCTTGATTTGGCTTCGGGCCATGGTATAAGTACTCCGGGA-ATAAGT
1 TACCTTGATTTGGCTTCGGGCCATGGTATAGGTACTCCGAGAGATAAGT
* * *
113938319 TACCTTGATTCGGATTTGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTTCGGGCCATGGTATAGGTACT
113938355 TATCATGTGA
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
48 69 0.96
49 3 0.04
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.36
Consensus pattern (49 bp):
TACCTTGATTTGGCTTCGGGCCATGGTATAGGTACTCCGAGAGATAAGT
Found at i:113941743 original size:35 final size:35
Alignment explanation
Indices: 113941697--113941768 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
113941687 TATTTTTAAG
*
113941697 ATTTGATTTTTTGTCACCTTGTCGTAAAGTTAATA
1 ATTTGATTTTTTGTCACCTTATCGTAAAGTTAATA
* *
113941732 ATTTGATTTTTTGTCATCTTATCGTTAAGTTAATA
1 ATTTGATTTTTTGTCACCTTATCGTAAAGTTAATA
113941767 AT
1 AT
113941769 GAAAATTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.51
Consensus pattern (35 bp):
ATTTGATTTTTTGTCACCTTATCGTAAAGTTAATA
Found at i:113945503 original size:17 final size:17
Alignment explanation
Indices: 113945461--113945509 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
113945451 TTAAAACCAT
113945461 AACCCT-AAACCCTAAC
1 AACCCTAAAACCCTAAC
**
113945477 -ACAATAAAAACCCTAAC
1 AACCCT-AAAACCCTAAC
113945494 AACCCTAAAACCCTAA
1 AACCCTAAAACCCTAA
113945510 TATAACACAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
15 3 0.12
17 20 0.77
18 3 0.12
ACGTcount: A:0.51, C:0.37, G:0.00, T:0.12
Consensus pattern (17 bp):
AACCCTAAAACCCTAAC
Found at i:113945694 original size:26 final size:27
Alignment explanation
Indices: 113945661--113945713 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
113945651 TAAATATTCC
113945661 AAAAATAGC-CTATTCTGGTAATTTAA
1 AAAAATAGCACTATTCTGGTAATTTAA
* * *
113945687 AAAAATAGCATTTTTTTGGTAATTTAA
1 AAAAATAGCACTATTCTGGTAATTTAA
113945714 TATAAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.40
Consensus pattern (27 bp):
AAAAATAGCACTATTCTGGTAATTTAA
Found at i:113946994 original size:10 final size:10
Alignment explanation
Indices: 113946979--113947008 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
113946969 CAATCAATGG
113946979 CACTTCATCA
1 CACTTCATCA
113946989 CACTTCATCA
1 CACTTCATCA
113946999 CACTTCATCA
1 CACTTCATCA
113947009 TACAATGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.30, C:0.40, G:0.00, T:0.30
Consensus pattern (10 bp):
CACTTCATCA
Found at i:113947844 original size:13 final size:13
Alignment explanation
Indices: 113947803--113947855 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 13
113947793 TGGTTCACAC
*
113947803 ATTGAGCT-TCAT
1 ATTGAGCTCGCAT
* *
113947815 ATTGAGCTTGCAC
1 ATTGAGCTCGCAT
*
113947828 ATTGGGCTCGCAT
1 ATTGAGCTCGCAT
113947841 ATTGAGCTCGCAT
1 ATTGAGCTCGCAT
113947854 AT
1 AT
113947856 CATACTTGCA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
12 8 0.24
13 26 0.76
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (13 bp):
ATTGAGCTCGCAT
Found at i:113949739 original size:17 final size:18
Alignment explanation
Indices: 113949698--113949733 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
113949688 TTTCGCCCCA
113949698 AATATTTTGTTTTTAGTT
1 AATATTTTGTTTTTAGTT
113949716 AATATTTTGTTTTTAGTT
1 AATATTTTGTTTTTAGTT
113949734 CAATTTAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (18 bp):
AATATTTTGTTTTTAGTT
Found at i:113949949 original size:13 final size:11
Alignment explanation
Indices: 113949916--113950190 Score: 111
Period size: 11 Copynumber: 23.6 Consensus size: 11
113949906 CTCTAATAAG
113949916 TATATATTATGTA
1 TATATATT-T-TA
*
113949929 TATTTATTTTAA
1 TATATATTTT-A
* *
113949941 TACTATATTGTG
1 TA-TATATTTTA
113949953 TATATATTTTA
1 TATATATTTTA
*
113949964 TATATATTATA
1 TATATATTTTA
*
113949975 TGTAT-TTTTAA
1 TATATATTTT-A
113949986 TATTATATTTTA
1 TA-TATATTTTA
*
113949998 -ATAT-TTTAA
1 TATATATTTTA
113950007 TACTATATTATGTA
1 TA-TATATT-T-TA
113950021 TATATATTTATA
1 TATATATTT-TA
*
113950033 TATATATATATA
1 TATATAT-TTTA
*
113950045 TATATATTGTA
1 TATATATTTTA
* *
113950056 CATATATTTTC
1 TATATATTTTA
*
113950067 TA-ATATTTTT
1 TATATATTTTA
* *
113950077 TTTATATTATCATG
1 TATATATT-T--TA
113950091 TATATATTTTA
1 TATATATTTTA
113950102 -ATATTATTAGTTA
1 TATA-TATT--TTA
113950115 TATAT-TTTT-
1 TATATATTTTA
*
113950124 TATACTATTTCGTG
1 TATA-TATTT--TA
*
113950138 TATATATACTTA
1 TATATAT-TTTA
*
113950150 TAT-TATCCTTA
1 TATATAT-TTTA
113950161 T-TATTATTATTAA
1 TATA-TATT-TT-A
113950174 TATATATTTTA
1 TATATATTTTA
113950185 T-TATAT
1 TATATAT
113950191 ACGTATAAAC
Statistics
Matches: 204, Mismatches: 28, Indels: 63
0.69 0.09 0.21
Matches are distributed among these distances:
9 8 0.04
10 27 0.13
11 63 0.31
12 45 0.22
13 40 0.20
14 21 0.10
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (11 bp):
TATATATTTTA
Found at i:113949973 original size:48 final size:46
Alignment explanation
Indices: 113949916--113950125 Score: 157
Period size: 46 Copynumber: 4.5 Consensus size: 46
113949906 CTCTAATAAG
*
113949916 TATATATTATGTATATTTATTTTAATACTATATTGTGTATATATTTTA
1 TATATATTATGTATATTT-TTTTAATA-TATATTATGTATATATTTTA
* *
113949964 TATATATTA--TATGTATTTTTAATATTATATT-T-TA-ATATTTTAA
1 TATATATTATGTATATTTTTTTAATA-TATATTATGTATATATTTT-A
* * * *
113950007 TACTATATTATGTATATATATTTATATATATATATATATATATATTGTA
1 TA-TATATTATGTATATTTTTTTA-ATATATAT-TATGTATATATTTTA
* * * * *
113950056 CATATATTTTCTAATATTTTTTTTATAT-TATCATGTATATATTTTA
1 TATATATTATGT-ATATTTTTTTAATATATATTATGTATATATTTTA
113950102 -ATATTATTA-GTTATATATTTTTTA
1 TATA-TATTATG-TATAT-TTTTTTA
113950126 TACTATTTCG
Statistics
Matches: 131, Mismatches: 18, Indels: 28
0.74 0.10 0.16
Matches are distributed among these distances:
42 7 0.05
43 5 0.04
44 8 0.06
45 21 0.16
46 43 0.33
47 7 0.05
48 22 0.17
49 12 0.09
50 6 0.05
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (46 bp):
TATATATTATGTATATTTTTTTAATATATATTATGTATATATTTTA
Found at i:113949996 original size:14 final size:13
Alignment explanation
Indices: 113949928--113950002 Score: 51
Period size: 13 Copynumber: 6.4 Consensus size: 13
113949918 TATATTATGT
113949928 ATATT-TATTTTA
1 ATATTATATTTTA
* *
113949940 ATACTATATTGT-
1 ATATTATATTTTA
*
113949952 GTA-TATATTTT-
1 ATATTATATTTTA
113949963 ATA-TATA--TT-
1 ATATTATATTTTA
113949972 ATATGTAT-TTTTA
1 ATAT-TATATTTTA
113949985 ATATTATATTTTA
1 ATATTATATTTTA
113949998 ATATT
1 ATATT
113950003 TTAATACTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
9 5 0.10
11 16 0.31
12 11 0.22
13 19 0.37
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (13 bp):
ATATTATATTTTA
Found at i:113950044 original size:20 final size:19
Alignment explanation
Indices: 113949953--113950051 Score: 69
Period size: 18 Copynumber: 5.8 Consensus size: 19
113949943 CTATATTGTG
113949953 TATATAT-TTTATATATAT
1 TATATATATTTATATATAT
*
113949971 TATATGTATTT-T-TA-A-
1 TATATATATTTATATATAT
113949986 TAT-TATATTT-TA-ATAT
1 TATATATATTTATATATAT
* *
113950002 TTTA-ATA-CTATAT-TAT
1 TATATATATTTATATATAT
113950018 GTATATATATTTATATATA-
1 -TATATATATTTATATATAT
*
113950037 TATATATATATATAT
1 TATATATATTTATAT
113950052 TGTACATATA
Statistics
Matches: 63, Mismatches: 7, Indels: 22
0.68 0.08 0.24
Matches are distributed among these distances:
14 8 0.13
15 5 0.08
16 11 0.17
17 5 0.08
18 24 0.38
19 8 0.13
20 2 0.03
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (19 bp):
TATATATATTTATATATAT
Found at i:113950062 original size:2 final size:2
Alignment explanation
Indices: 113950010--113950051 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
113950000 ATTTTAATAC
* *
113950010 TA TA T- TA TG TA TA TA TA TT 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
113950051 T
1 T
113950052 TGTACATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (2 bp):
TA
Found at i:113950446 original size:21 final size:18
Alignment explanation
Indices: 113950422--113950466 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
113950412 ACATTTCTAA
113950422 TATGTATTTCTAATACTATAT
1 TATGTATTTC--ATA-TATAT
113950443 TATGT-TTTCATATATAT
1 TATGTATTTCATATATAT
113950460 TATGTAT
1 TATGTAT
113950467 ATACTTTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 10 0.43
18 4 0.17
20 4 0.17
21 5 0.22
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.56
Consensus pattern (18 bp):
TATGTATTTCATATATAT
Found at i:113954068 original size:29 final size:29
Alignment explanation
Indices: 113954031--113954089 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
113954021 AAAGAGGAAG
113954031 AACGCCGAATATGAAATTATGTCTGTCGA
1 AACGCCGAATATGAAATTATGTCTGTCGA
*
113954060 AACGTCGAATATGAAATTATGTCTGTCGA
1 AACGCCGAATATGAAATTATGTCTGTCGA
113954089 A
1 A
113954090 CTTATGACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (29 bp):
AACGCCGAATATGAAATTATGTCTGTCGA
Found at i:113963003 original size:73 final size:74
Alignment explanation
Indices: 113962867--113963255 Score: 283
Period size: 73 Copynumber: 5.1 Consensus size: 74
113962857 ATATTTTTAT
* * * *
113962867 TTCTGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATT
1 TTCTGTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGCTAAGCCTCAGGACACACTGAGGTATG
113962932 TTCAATTTC
66 TTCAATTTC
* * * *
113962941 TTCT-TTTCAAAAAGCGACTCTTATTGCGAGAGGTGAGCTAAGCCTCA-GAGCACGCTGGGGTAT
1 TTCTGTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGCTAAGCCTCAGGA-CACACTGAGGTAT
* *
113963004 GTTCAGTTTTTGTTTTTTAAT
65 GTTCA---------ATTT--C
* * * * **
113963025 TTATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAT
1 TTCTGTTTC-AAAAAGCAACTCATATTGCGAGAGGTGAGCTAAGCCTCAGGACACACTGAGGTAT
*
113963090 TTTCAATTTC
65 GTTCAATTTC
* * * *
113963100 TGT-T-TTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAA
1 T-TCTGTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGCTAAGCCTCAGGACACACTGAGGT-A
113963163 T-TTCGAA-TTC
64 TGTTC-AATTTC
* * * * * * * *
113963173 TGT-T-TGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGAAT
1 T-TCTGTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGCTAAGCCTCAGGACACACTGAGGTAT
*
113963236 TTTCAATTTC
65 GTTCAATTTC
*
113963246 TGCT-TTTCAA
1 TTCTGTTTCAA
113963256 TTTTTTCTTT
Statistics
Matches: 262, Mismatches: 32, Indels: 43
0.78 0.09 0.13
Matches are distributed among these distances:
72 6 0.02
73 177 0.68
74 12 0.05
75 2 0.01
76 1 0.00
77 3 0.01
82 3 0.01
84 3 0.01
85 4 0.02
86 49 0.19
87 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.33
Consensus pattern (74 bp):
TTCTGTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGCTAAGCCTCAGGACACACTGAGGTATG
TTCAATTTC
Found at i:113963177 original size:159 final size:156
Alignment explanation
Indices: 113962851--113963255 Score: 496
Period size: 159 Copynumber: 2.6 Consensus size: 156
113962841 TTGTTTTGGT
113962851 ATTCTGATATTTTTATTTCTGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
1 ATTCTG-T-TTTTTATTT-TGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* *
113962916 GACACACTGAGGTATTTTCAATTTCT-TCTTTTCAAAAAGCGACTCTTATTGCGAGAGGTGAGCT
63 GACACGCTGAGGTATTTTCAATTTCTGT-TTTTCAAAAAGCGACTCATATTGCGAGAGGTGAGCT
* *
113962980 AAGCCTCAGAGCACGCTGGGGTATGTTCAG
127 AAGCCTCAGAGCACACTGAGGTATGTTCAG
* *
113963010 TTTTTGTTTTTTAATTTATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
1 ATTCTGTTTTTT-ATTT-TGTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* * * *
113963075 GACACGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTG
63 GACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAGCGACTCATATTGCGAGAGGTGAGCTA
113963140 AGCCTCAG-GACACACTGAGGTAAT-TTC-G
128 AGCCTCAGAG-CACACTGAGGT-ATGTTCAG
* *
113963168 AATTCTG--------TTTG--TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGG
1 -ATTCTGTTTTTTATTTTGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
* *
113963223 CACGCTGAGGAATTTTCAATTTCTGCTTTTCAA
65 CACGCTGAGGTATTTTCAATTTCTGTTTTTCAA
113963256 TTTTTTCTTT
Statistics
Matches: 222, Mismatches: 18, Indels: 25
0.84 0.07 0.09
Matches are distributed among these distances:
146 70 0.32
147 2 0.01
149 2 0.01
150 2 0.01
157 5 0.02
158 13 0.06
159 125 0.56
160 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (156 bp):
ATTCTGTTTTTTATTTTGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
ACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAGCGACTCATATTGCGAGAGGTGAGCTAAGC
CTCAGAGCACACTGAGGTATGTTCAG
Found at i:113963254 original size:14 final size:14
Alignment explanation
Indices: 113963235--113963283 Score: 80
Period size: 14 Copynumber: 3.5 Consensus size: 14
113963225 CGCTGAGGAA
113963235 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
* *
113963249 TTTTCAATTTTTTC
1 TTTTCAATTTCTGC
113963263 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
113963277 TTTTCAA
1 TTTTCAA
113963284 AAAAATCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.16, C:0.18, G:0.04, T:0.61
Consensus pattern (14 bp):
TTTTCAATTTCTGC
Found at i:113963420 original size:91 final size:93
Alignment explanation
Indices: 113963257--113963436 Score: 240
Period size: 91 Copynumber: 1.9 Consensus size: 93
113963247 GCTTTTCAAT
* *
113963257 TTTTTCTTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCCC
1 TTTTTCTTTTCAATTTATACTTTTC-AAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCCC
*
113963322 AGCTCACATG-CTGAGGTATTTTCAGTTTC
65 AGCTCACATGTC-AAGGTATTTTCAGTTTC
* * * * *
113963351 TTTTT-TTTTCAATTTATATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGATCCTCG
1 TTTTTCTTTTCAATTTATACTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCCCA
*
113963414 GGTCACATGTCAAGGTATTTTCA
66 GCTCACATGTCAAGGTATTTTCA
113963437 AAATCTGCTT
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
91 54 0.71
92 1 0.01
93 16 0.21
94 5 0.07
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (93 bp):
TTTTTCTTTTCAATTTATACTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCCCA
GCTCACATGTCAAGGTATTTTCAGTTTC
Found at i:113964833 original size:24 final size:24
Alignment explanation
Indices: 113964796--113964853 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
113964786 GCCACCGTAT
* *
113964796 ACGGCGGTCGCTGGCGACGGACGG
1 ACGGCGGTCCCTGGCGAAGGACGG
*
113964820 ATGGCGGTCCCTGGCGAAGGACGG
1 ACGGCGGTCCCTGGCGAAGGACGG
113964844 ACGGCGGTCC
1 ACGGCGGTCC
113964854 GATTGCCGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.14, C:0.29, G:0.47, T:0.10
Consensus pattern (24 bp):
ACGGCGGTCCCTGGCGAAGGACGG
Found at i:113965472 original size:11 final size:11
Alignment explanation
Indices: 113965456--113965510 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 11
113965446 TATCTAATAA
113965456 GTATATATTGT
1 GTATATATTGT
*
113965467 GTATATATTTT
1 GTATATATTGT
*
113965478 AATACTATATTGT
1 -GTA-TATATTGT
*
113965491 GTATATATTTT
1 GTATATATTGT
*
113965502 ATATATATT
1 GTATATATT
113965511 ATATGTATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
11 25 0.69
12 4 0.11
13 7 0.19
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (11 bp):
GTATATATTGT
Found at i:113965486 original size:24 final size:24
Alignment explanation
Indices: 113965459--113965590 Score: 125
Period size: 24 Copynumber: 5.7 Consensus size: 24
113965449 CTAATAAGTA
*
113965459 TATATTGTGTATATATTTTAATAC
1 TATATTATGTATATATTTTAATAC
*
113965483 TATATTGTGTATATATTTT-ATA-
1 TATATTATGTATATATTTTAATAC
* * *
113965505 TATATTATATGTAT-TTTTAATAT
1 TATATTATGTATATATTTTAATAC
*
113965528 TATATT-T-TA-ATTTTTTAATAC
1 TATATTATGTATATATTTTAATAC
113965549 TATATTATGTATATATTTATATATA-
1 TATATTATGTATATATTT-TA-ATAC
*
113965574 TATATATATATATATAT
1 TATAT-TATGTATATAT
113965591 ATATATTGTG
Statistics
Matches: 92, Mismatches: 7, Indels: 16
0.80 0.06 0.14
Matches are distributed among these distances:
20 2 0.02
21 19 0.21
22 16 0.17
23 11 0.12
24 24 0.26
25 7 0.08
26 13 0.14
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.58
Consensus pattern (24 bp):
TATATTATGTATATATTTTAATAC
Found at i:113965504 original size:9 final size:9
Alignment explanation
Indices: 113965492--113965597 Score: 66
Period size: 8 Copynumber: 12.1 Consensus size: 9
113965482 CTATATTGTG
*
113965492 TATATATTT
1 TATATATAT
113965501 TATATATAT
1 TATATATAT
*
113965510 TATATGTAT
1 TATATATAT
*
113965519 T-TTTAATAT
1 TATAT-ATAT
113965528 TATAT-T-T
1 TATATATAT
* *
113965535 TA-ATTTTT
1 TATATATAT
113965543 TAATACTATAT
1 T-ATA-TATAT
113965554 TATGTATATAT
1 TA--TATATAT
113965565 T-TATATA-
1 TATATATAT
113965572 TATATATA-
1 TATATATAT
113965580 TATATATA-
1 TATATATAT
113965588 TATATATAT
1 TATATATAT
113965597 T
1 T
113965598 GTGTACATAT
Statistics
Matches: 79, Mismatches: 7, Indels: 22
0.73 0.06 0.20
Matches are distributed among these distances:
6 2 0.03
7 5 0.06
8 33 0.42
9 23 0.29
10 4 0.05
11 10 0.13
12 2 0.03
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (9 bp):
TATATATAT
Found at i:113965508 original size:22 final size:22
Alignment explanation
Indices: 113965457--113965692 Score: 117
Period size: 22 Copynumber: 10.8 Consensus size: 22
113965447 ATCTAATAAG
113965457 TATATATTGTGTATATATTTTAA
1 TATATATTGTGTATATATTTT-A
113965480 TACTATATTGTGTATATATTTTA
1 TA-TATATTGTGTATATATTTTA
* * *
113965503 TATATATTATATGTAT-TTTTAA
1 TATATATTGTGTATATATTTT-A
*
113965525 TATTATATT-T-TA-ATTTTTTAA
1 TA-TATATTGTGTATATATTTT-A
*
113965546 TACTATATTATGTATATA-TTTA
1 TA-TATATTGTGTATATATTTTA
* * *
113965568 TATATA-TATATATATATATATA
1 TATATATTGTGTATATAT-TTTA
*
113965590 TATATATTGTGTACATATATTTTC
1 TATATATTGTGT--ATATATTTTA
*
113965614 TA-ATA-T-T-T-T-T-TTATA
1 TATATATTGTGTATATATTTTA
**
113965629 TAT-TATCATGTATATATTTTA
1 TATATATTGTGTATATATTTTA
*
113965650 -ATATTATTAGT-TATATATTTTT
1 TATA-TATT-GTGTATATATTTTA
113965672 TATACTATTTCGTGTATATAT
1 TATA-TA-TT-GTGTATATAT
113965693 ACTTATATTA
Statistics
Matches: 167, Mismatches: 21, Indels: 48
0.71 0.09 0.20
Matches are distributed among these distances:
15 7 0.04
16 1 0.01
17 2 0.01
18 1 0.01
19 1 0.01
20 15 0.09
21 28 0.17
22 42 0.25
23 28 0.17
24 29 0.17
25 13 0.08
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (22 bp):
TATATATTGTGTATATATTTTA
Found at i:113965513 original size:18 final size:18
Alignment explanation
Indices: 113965492--113965597 Score: 65
Period size: 21 Copynumber: 5.4 Consensus size: 18
113965482 CTATATTGTG
113965492 TATATATTTTATATATAT
1 TATATATTTTATATATAT
113965510 TATATGTATTTTTAATATTATAT
1 TATA--TA-TTTT-ATA-TATAT
* *
113965533 TTTAATTTTTTAATACTATAT
1 TAT-ATATTTT-ATA-TATAT
113965554 TATGTATATATTTATATATA-
1 TA--TATAT-TTTATATATAT
*
113965574 TATATA-TATATATATA-
1 TATATATTTTATATATAT
113965590 TATATATT
1 TATATATT
113965598 GTGTACATAT
Statistics
Matches: 72, Mismatches: 6, Indels: 21
0.73 0.06 0.21
Matches are distributed among these distances:
16 15 0.21
17 1 0.01
18 8 0.11
20 4 0.06
21 22 0.31
22 10 0.14
23 11 0.15
24 1 0.01
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (18 bp):
TATATATTTTATATATAT
Found at i:113965514 original size:66 final size:65
Alignment explanation
Indices: 113965434--113965612 Score: 186
Period size: 66 Copynumber: 2.7 Consensus size: 65
113965424 TGTATGTACG
* * *
113965434 TATATTTATT-TATATCTAATAAGTATATATTGTGTATATATTTTAATACTATATTGTGTATATA
1 TATATATATTATATATAT-ATAA-TATATATTGTGTATATATTTTAATACTATATTATGTATATA
113965498 TTT
64 -TT
* * *
113965501 TATATATATTATATGTATTTTTAATATTATATT-T-TA-ATTTTTTAATACTATATTATGTATAT
1 TATATATATTATA--TATATATAATA-TATATTGTGTATATATTTTAATACTATATTATGTATAT
113965563 ATT
63 ATT
113965566 TATATATATATATATATATATATATATATATTGTGTACATATATTTT
1 TATATATAT-TATATATATATA-ATATATATTGTGT--ATATATTTT
113965613 CTAATATTTT
Statistics
Matches: 93, Mismatches: 8, Indels: 20
0.77 0.07 0.17
Matches are distributed among these distances:
64 12 0.13
65 15 0.16
66 30 0.32
67 11 0.12
68 6 0.06
69 15 0.16
70 4 0.04
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.56
Consensus pattern (65 bp):
TATATATATTATATATATATAATATATATTGTGTATATATTTTAATACTATATTATGTATATATT
Found at i:113965609 original size:2 final size:2
Alignment explanation
Indices: 113965549--113965596 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
113965539 TTTTTAATAC
* *
113965549 TA TA T- TA TG TA TA TA TT 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
113965590 TA TA TA T
1 TA TA TA T
113965597 TGTGTACATA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (2 bp):
TA
Found at i:113965998 original size:21 final size:18
Alignment explanation
Indices: 113965974--113966018 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
113965964 ACATTTCTAA
113965974 TATGTATTTCTAATACTATAT
1 TATGTATTTC--ATA-TATAT
113965995 TATGT-TTTCATATATAT
1 TATGTATTTCATATATAT
113966012 TATGTAT
1 TATGTAT
113966019 ATACTTTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 10 0.43
18 4 0.17
20 4 0.17
21 5 0.22
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.56
Consensus pattern (18 bp):
TATGTATTTCATATATAT
Found at i:113966359 original size:2 final size:2
Alignment explanation
Indices: 113966352--113966381 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
113966342 ATTACTATTC
113966352 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
113966382 GTTTTACGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:113967356 original size:39 final size:39
Alignment explanation
Indices: 113967291--113967365 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
113967281 TTAATTCACA
*
113967291 CAATTATTTTAATTAAAGTAACTAAATTAAGAAAAATTT
1 CAATTATTTTAATTAAAGTAACTAAATGAAGAAAAATTT
* * * *
113967330 CAATTATTTTAATTAGATTAATTAAATGGAGAAAAA
1 CAATTATTTTAATTAAAGTAACTAAATGAAGAAAAA
113967366 AAATTAAGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (39 bp):
CAATTATTTTAATTAAAGTAACTAAATGAAGAAAAATTT
Found at i:113967863 original size:22 final size:20
Alignment explanation
Indices: 113967838--113967885 Score: 78
Period size: 22 Copynumber: 2.3 Consensus size: 20
113967828 AAGATGTAAT
113967838 TTTAAATATATTTATTTTTTTA
1 TTTAAATATATTTA--TTTTTA
113967860 TTTAAATATATTTATTTTTA
1 TTTAAATATATTTATTTTTA
113967880 TTTAAA
1 TTTAAA
113967886 GATTAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 12 0.46
22 14 0.54
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTAAATATATTTATTTTTA
Found at i:113968696 original size:12 final size:12
Alignment explanation
Indices: 113968679--113968711 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
113968669 CAAATCTAAC
113968679 CAAAACCCATTA
1 CAAAACCCATTA
113968691 CAAAACCCATTA
1 CAAAACCCATTA
113968703 CAAAACCCA
1 CAAAACCCA
113968712 AATATTTGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.52, C:0.36, G:0.00, T:0.12
Consensus pattern (12 bp):
CAAAACCCATTA
Found at i:113969209 original size:18 final size:19
Alignment explanation
Indices: 113969186--113969225 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
113969176 ACTTATATAT
*
113969186 ATTATA-AATACAAAAAAA
1 ATTATATAATAAAAAAAAA
*
113969204 ATTATATATTAAAAAAAAA
1 ATTATATAATAAAAAAAAA
113969223 ATT
1 ATT
113969226 TACCTTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (19 bp):
ATTATATAATAAAAAAAAA
Found at i:113969852 original size:22 final size:21
Alignment explanation
Indices: 113969801--113969852 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
113969791 TTATATTACT
*
113969801 TTTACCATT-TTTTTATTATT
1 TTTACCATTATTTTTATTATA
**
113969821 TTTAATATTATTTATTATTATA
1 TTTACCATTATTT-TTATTATA
113969843 TTTACCATTA
1 TTTACCATTA
113969853 CCATTATCGT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 7 0.28
21 3 0.12
22 15 0.60
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTACCATTATTTTTATTATA
Found at i:113970045 original size:24 final size:24
Alignment explanation
Indices: 113969989--113970048 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
113969979 AATAAATATA
* *
113969989 TGTATACATATTTAAATACTATAT
1 TGTATACATATTTAAATACCACAT
* * * *
113970013 TATACACATATTTTAATACCACGT
1 TGTATACATATTTAAATACCACAT
113970037 TGTATACATATT
1 TGTATACATATT
113970049 ATTATTATAT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.43
Consensus pattern (24 bp):
TGTATACATATTTAAATACCACAT
Found at i:113970596 original size:31 final size:28
Alignment explanation
Indices: 113970522--113970598 Score: 73
Period size: 31 Copynumber: 2.6 Consensus size: 28
113970512 TGTATACATC
*
113970522 TTTAATACTATATTATTTATATATATTTT
1 TTTAATACTATATTATTTACATATA-TTT
* **
113970551 TTTATTTTTCATATTATCTTACATATATATT
1 TTTAATACT-ATATTAT-TTACATATAT-TT
113970582 TTTAATAACTATATTAT
1 TTTAAT-ACTATATTAT
113970599 GTATAACTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
29 6 0.16
30 8 0.22
31 22 0.59
32 1 0.03
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (28 bp):
TTTAATACTATATTATTTACATATATTT
Found at i:113970702 original size:21 final size:21
Alignment explanation
Indices: 113970676--113970718 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
113970666 CCTAGTATAT
*
113970676 ATACTATGTATACATTTTTTA
1 ATACTATATATACATTTTTTA
*
113970697 ATACTATATATATATTTTTTA
1 ATACTATATATACATTTTTTA
113970718 A
1 A
113970719 ATACCGTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (21 bp):
ATACTATATATACATTTTTTA
Found at i:113970844 original size:18 final size:17
Alignment explanation
Indices: 113970810--113970851 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
113970800 ATTATACGTG
113970810 TATATATATATACTTTT
1 TATATATATATACTTTT
113970827 TATATATAATATTA-TTTT
1 TATATAT-ATA-TACTTTT
113970845 TATATAT
1 TATATAT
113970852 CATTATGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.30
18 14 0.61
19 2 0.09
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
TATATATATATACTTTT
Found at i:113973882 original size:31 final size:32
Alignment explanation
Indices: 113973847--113973923 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 32
113973837 ATGATGCTAG
* *
113973847 AGATATTTTAATATTTTA-TAATTA-TTTAATT
1 AGATATTTTATTATTTTATTAA-TACTTTAATA
**
113973878 AGATA-AATATTATTTTATTAATACTTTAATA
1 AGATATTTTATTATTTTATTAATACTTTAATA
113973909 AGATATTTTATTATT
1 AGATATTTTATTATT
113973924 ATTTTATTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
30 11 0.30
31 19 0.51
32 7 0.19
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (32 bp):
AGATATTTTATTATTTTATTAATACTTTAATA
Found at i:113973887 original size:27 final size:27
Alignment explanation
Indices: 113973856--113973939 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 27
113973846 GAGATATTTT
*
113973856 AATATTTTATAATTATTTAATTAGATA
1 AATATTTTATTATTATTTAATTAGATA
* *
113973883 AATATTATT-TTATTA-ATACTTTA-ATA
1 AATATT-TTATTATTATTTA-ATTAGATA
*
113973909 AGATATTTTATTATTATTTTATTAG-TA
1 A-ATATTTTATTATTATTTAATTAGATA
113973936 AATA
1 AATA
113973940 AAGAAAGAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
26 11 0.24
27 31 0.69
28 3 0.07
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.54
Consensus pattern (27 bp):
AATATTTTATTATTATTTAATTAGATA
Found at i:113976177 original size:46 final size:46
Alignment explanation
Indices: 113976110--113976410 Score: 395
Period size: 46 Copynumber: 6.7 Consensus size: 46
113976100 TGGCAACCTG
113976110 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAA
113976156 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG--------
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAA
* *
113976194 TGTGTAAGACAATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAA
* *
113976240 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAA
* *
113976286 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT-AAAA
** * * *
113976333 -GAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAA
* * * *
113976378 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
113976411 TCACGTCAAA
Statistics
Matches: 230, Mismatches: 15, Indels: 20
0.87 0.06 0.08
Matches are distributed among these distances:
38 37 0.16
45 4 0.02
46 187 0.81
47 2 0.01
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAA
Found at i:113976196 original size:84 final size:84
Alignment explanation
Indices: 113976061--113976366 Score: 461
Period size: 84 Copynumber: 3.5 Consensus size: 84
113976051 AGTGTGCTCT
*
113976061 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
113976126 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
*
113976145 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACAATGGT
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
113976210 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
*
113976229 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAG
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G-TGTGTAAG
113976294 ACCATGGTTGAAAGATACCATGGCAAC
58 ACCATGGTTGAAAGATACCATGGCAAC
* * **
113976321 GTGACATGAAAA-GAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATAT-AAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
113976367 ATGACAGAAA
Statistics
Matches: 204, Mismatches: 9, Indels: 10
0.91 0.04 0.04
Matches are distributed among these distances:
84 128 0.63
89 1 0.00
91 1 0.00
92 71 0.35
93 3 0.01
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.23
Consensus pattern (84 bp):
CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
TGAAAGATACCATGGCAAC
Found at i:113976716 original size:23 final size:25
Alignment explanation
Indices: 113976671--113976717 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
113976661 AATAAATATT
*
113976671 CATAAAATATATAGAAATGATGAAG
1 CATAAAATATATAGAAATAATGAAG
*
113976696 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATAGAAATAATGAA
113976718 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.55, C:0.04, G:0.13, T:0.28
Consensus pattern (25 bp):
CATAAAATATATAGAAATAATGAAG
Found at i:113977627 original size:23 final size:24
Alignment explanation
Indices: 113977601--113977650 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
113977591 ATAATTCGTG
113977601 TTTAAAATTAATGACAAAACAA-A
1 TTTAAAATTAATGACAAAACAACA
*
113977624 TTTAAAATTAATGAGAAAACAACA
1 TTTAAAATTAATGACAAAACAACA
113977648 TTT
1 TTT
113977651 TTTTTAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.56, C:0.08, G:0.06, T:0.30
Consensus pattern (24 bp):
TTTAAAATTAATGACAAAACAACA
Found at i:113978368 original size:17 final size:19
Alignment explanation
Indices: 113978339--113978381 Score: 63
Period size: 17 Copynumber: 2.3 Consensus size: 19
113978329 TCATTAAAAG
113978339 AAAATATTAAATATAT-TT
1 AAAATATTAAATATATCTT
113978357 AAAATA-TAAATATATGCTT
1 AAAATATTAAATATAT-CTT
113978376 AAAATA
1 AAAATA
113978382 ATTTCTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 6 0.26
19 8 0.35
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAATATTAAATATATCTT
Found at i:113980806 original size:26 final size:26
Alignment explanation
Indices: 113980769--113980904 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
113980759 TGATACAAAT
* *
113980769 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
113980795 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
113980821 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
113980847 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
113980873 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
113980899 TGATAA
1 TGATAA
113980905 GAATATCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:113982935 original size:136 final size:136
Alignment explanation
Indices: 113982690--113983111 Score: 799
Period size: 136 Copynumber: 3.1 Consensus size: 136
113982680 GAGTAGTCTC
113982690 CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
113982755 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
113982820 ACTGTTA
130 ACTGTTA
113982827 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
113982892 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
113982957 CTGTTA
131 CTGTTA
113982963 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
* *
113983028 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCTAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
113983093 CTGTTA
131 CTGTTA
**
113983099 CCTGAATGGGCTT
1 CCCAAATGGGCTT
113983112 AGGCCCAATA
Statistics
Matches: 281, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
136 261 0.93
137 20 0.07
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:113985705 original size:129 final size:123
Alignment explanation
Indices: 113985480--113985732 Score: 452
Period size: 129 Copynumber: 2.0 Consensus size: 123
113985470 AGACTAATTC
113985480 ATCCTATATACATCATGTCTATAATTACACTAATCAAATTTCATGTATTTACGCATTAGATCAAT
1 ATCCTATATACATCATGTCTATAATTACACTAATCAAATTTCATGTATTTACGCATTAGATCAAT
113985545 ATTCATATATAATTTTGATATTTATTCTTACAAATATAAAATTAATAAAAATGTGCATT
66 ATTCATATATAATTTTGATATTTATTCTTACAAATATAAAATTAAT-AAAATGTGCATT
113985604 ATCCTATATACATCATGTCTATAATTACACTAAATCAAATTTCATGTATCAAATTACGCATTAGA
1 ATCCTATATACATCATGTCTATAATTACACT-AATCAAATTTCATGTAT----TTACGCATTAGA
113985669 TCAATATTCATATATAATTTTGATATTTATTCTTACAAATATAAAATTAATAAAATGTGCATT
61 TCAATATTCATATATAATTTTGATATTTATTCTTACAAATATAAAATTAATAAAATGTGCATT
113985732 A
1 A
113985733 AAAATGAATC
Statistics
Matches: 124, Mismatches: 0, Indels: 6
0.95 0.00 0.05
Matches are distributed among these distances:
124 31 0.25
125 17 0.14
128 13 0.10
129 63 0.51
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.40
Consensus pattern (123 bp):
ATCCTATATACATCATGTCTATAATTACACTAATCAAATTTCATGTATTTACGCATTAGATCAAT
ATTCATATATAATTTTGATATTTATTCTTACAAATATAAAATTAATAAAATGTGCATT
Found at i:113992512 original size:20 final size:21
Alignment explanation
Indices: 113992487--113992527 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
113992477 CCTTAGCGAG
113992487 CAAATATGAATAT-AAATAAA
1 CAAATATGAATATAAAATAAA
**
113992507 CAAATATTTATATAAAATAAA
1 CAAATATGAATATAAAATAAA
113992528 ATAAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.29
Consensus pattern (21 bp):
CAAATATGAATATAAAATAAA
Found at i:113992536 original size:22 final size:20
Alignment explanation
Indices: 113992496--113992541 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 20
113992486 GCAAATATGA
113992496 ATATAAATAAACAAATATTT
1 ATATAAATAAACAAATATTT
*
113992516 ATATAAAATAAAATAAATATTT
1 ATAT-AAAT-AAACAAATATTT
113992538 ATAT
1 ATAT
113992542 TTATATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.17
21 4 0.17
22 15 0.65
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
ATATAAATAAACAAATATTT
Found at i:113992793 original size:19 final size:19
Alignment explanation
Indices: 113992755--113992794 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
113992745 TAGCACAACT
* *
113992755 GCAGTGATCAACGAATAAA
1 GCAGTGATCAACAAACAAA
113992774 GCAGTGATCAACAAACAAA
1 GCAGTGATCAACAAACAAA
113992793 GC
1 GC
113992795 TTGCCTTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.12
Consensus pattern (19 bp):
GCAGTGATCAACAAACAAA
Found at i:113994726 original size:16 final size:18
Alignment explanation
Indices: 113994694--113994731 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
113994684 ATACATACTC
113994694 TTTTTTCTTCACTAAGAT
1 TTTTTTCTTCACTAAGAT
113994712 TTTTTTC-TCAC-AAGAT
1 TTTTTTCTTCACTAAGAT
113994728 TTTT
1 TTTT
113994732 ATTTTAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 9 0.45
17 4 0.20
18 7 0.35
ACGTcount: A:0.21, C:0.16, G:0.05, T:0.58
Consensus pattern (18 bp):
TTTTTTCTTCACTAAGAT
Found at i:113995746 original size:58 final size:53
Alignment explanation
Indices: 113995635--113995746 Score: 152
Period size: 58 Copynumber: 2.0 Consensus size: 53
113995625 GTGTTGAACC
* * *
113995635 TATAATGAAATTGTTCAATTTTTTTAATTTTTTAATTAATAAATATTTTATTT
1 TATAATAAAATTATTCAATTTTTTTAATTTTTTAATTAATAAATATATTATTT
113995688 TATAATAAAATTATTCAATTTTTCTAATTAATGTTTTTAATTAATAAATATATTATTT
1 TATAATAAAATTATTCAA-TTTT-T--TTAAT-TTTTTAATTAATAAATATATTATTT
113995746 T
1 T
113995747 CAAGTGTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
53 16 0.31
54 4 0.08
55 1 0.02
57 5 0.10
58 25 0.49
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (53 bp):
TATAATAAAATTATTCAATTTTTTTAATTTTTTAATTAATAAATATATTATTT
Found at i:113995956 original size:92 final size:96
Alignment explanation
Indices: 113995783--113995956 Score: 221
Period size: 96 Copynumber: 1.9 Consensus size: 96
113995773 TAATAGCTAT
* * *
113995783 TTTATTTATATAAATAAAATAATAAATATGTAATTGTATAATAAAATATATATTATATATATCAT
1 TTTATTTATATAAATAAAATAATAAAAATATAATTATATAATAAAATATATATTATATATATCAT
* *
113995848 TATGTTAAAAATATTTTTAATTAATAAATCC
66 TATCTCAAAAATATTTTTAATTAATAAATCC
* * * *
113995879 TTTATTTATATAAATAAATTAATAAAAATATAGTTATATAAT-GAA-AT-T-TTATATTTATCAT
1 TTTATTTATATAAATAAAATAATAAAAATATAATTATATAATAAAATATATATTATATATATCAT
* *
113995940 TTTCTCAAATATATTTT
66 TATCTCAAAAATATTTT
113995957 ATTTATCATT
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
92 25 0.37
93 1 0.01
94 2 0.03
95 2 0.03
96 37 0.55
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (96 bp):
TTTATTTATATAAATAAAATAATAAAAATATAATTATATAATAAAATATATATTATATATATCAT
TATCTCAAAAATATTTTTAATTAATAAATCC
Found at i:113996120 original size:17 final size:17
Alignment explanation
Indices: 113996087--113996119 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
113996077 TATATTATTT
113996087 TATTTATATAAATAAAA
1 TATTTATATAAATAAAA
*
113996104 TATTTAT-TAATTAAAA
1 TATTTATATAAATAAAA
113996120 AGATGAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TATTTATATAAATAAAA
Found at i:113996158 original size:22 final size:22
Alignment explanation
Indices: 113996096--113996164 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
113996086 TTATTTATAT
*
113996096 AAATAAAATATTTATTAATTAA
1 AAATAATATATTTATTAATTAA
* *
113996118 AAA-GATGA-A-TTATAAAATTAA
1 AAATAAT-ATATTTAT-TAATTAA
113996139 AAATAATATATTTATTAATTAA
1 AAATAATATATTTATTAATTAA
113996161 AAAT
1 AAAT
113996165 TTTTAAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
20 4 0.11
21 12 0.32
22 17 0.46
23 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (22 bp):
AAATAATATATTTATTAATTAA
Found at i:113997795 original size:18 final size:18
Alignment explanation
Indices: 113997772--113997808 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
113997762 GGATTGTGGG
113997772 TGGCAGCAATTTATGAAA
1 TGGCAGCAATTTATGAAA
*
113997790 TGGCAGCAATTTCTGAAA
1 TGGCAGCAATTTATGAAA
113997808 T
1 T
113997809 ATCTATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.30
Consensus pattern (18 bp):
TGGCAGCAATTTATGAAA
Found at i:114012666 original size:49 final size:50
Alignment explanation
Indices: 114012546--114012667 Score: 126
Period size: 49 Copynumber: 2.5 Consensus size: 50
114012536 AATTAATTTA
* * *
114012546 AATTAAGTGATAAATAATAAAATTTTATATTATCACTAATTTAATTAAATT
1 AATTAAATGATAAATAAT-AAATATTATATTATCACTAATTTAATTAAAAT
* * *
114012597 AATTAAATGAT-AATATTAAATGATTATTTTATCTCTAA-TTAATTAAAAT
1 AATTAAATGATAAATAATAAAT-ATTATATTATCACTAATTTAATTAAAAT
*
114012646 AA-TAGGA-GATAAATAATAAATA
1 AATTA-AATGATAAATAATAAATA
114012668 AAAAAATTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
48 6 0.10
49 26 0.43
50 18 0.30
51 10 0.17
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (50 bp):
AATTAAATGATAAATAATAAATATTATATTATCACTAATTTAATTAAAAT
Found at i:114023504 original size:9 final size:9
Alignment explanation
Indices: 114023490--114023522 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
114023480 GCTTACTATC
114023490 GAGAAATAA
1 GAGAAATAA
114023499 GAGAAATAA
1 GAGAAATAA
114023508 GAGAAATAA
1 GAGAAATAA
114023517 GAGAAA
1 GAGAAA
114023523 ATGATGCGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.24, T:0.09
Consensus pattern (9 bp):
GAGAAATAA
Found at i:114024748 original size:21 final size:21
Alignment explanation
Indices: 114024718--114024758 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
114024708 ATCATAAAAT
* *
114024718 AGGGCTACACACTCGTGTGGA
1 AGGGCAACACACCCGTGTGGA
*
114024739 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACACCCGTGTGG
114024759 CCATTCTGAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.27, G:0.37, T:0.15
Consensus pattern (21 bp):
AGGGCAACACACCCGTGTGGA
Found at i:114025715 original size:25 final size:25
Alignment explanation
Indices: 114025685--114025735 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
114025675 GACCTCTCTA
114025685 TCTTATTCTTCATTTCATTTACACT
1 TCTTATTCTTCATTTCATTTACACT
*
114025710 TCTTATTCTTCATTTCATTTGCACT
1 TCTTATTCTTCATTTCATTTACACT
114025735 T
1 T
114025736 AATTGCTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.18, C:0.24, G:0.02, T:0.57
Consensus pattern (25 bp):
TCTTATTCTTCATTTCATTTACACT
Found at i:114027858 original size:18 final size:18
Alignment explanation
Indices: 114027835--114027872 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
114027825 TATCTGTATG
*
114027835 TATGTTTTCTCTGGGGAT
1 TATGTTTTCTCTGAGGAT
*
114027853 TATGTTTTCTGTGAGGAT
1 TATGTTTTCTCTGAGGAT
114027871 TA
1 TA
114027873 CACACTGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.08, G:0.26, T:0.50
Consensus pattern (18 bp):
TATGTTTTCTCTGAGGAT
Found at i:114033134 original size:12 final size:12
Alignment explanation
Indices: 114033105--114033137 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
114033095 GACTTTGGTC
*
114033105 ATTTTGGTTATG
1 ATTTTGGTAATG
114033117 -TTTTGGTAATG
1 ATTTTGGTAATG
114033128 ATTTTGGTAA
1 ATTTTGGTAA
114033138 ATGGAATTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.55
Consensus pattern (12 bp):
ATTTTGGTAATG
Found at i:114037170 original size:55 final size:54
Alignment explanation
Indices: 114037034--114037179 Score: 179
Period size: 55 Copynumber: 2.7 Consensus size: 54
114037024 TGTAGAAAGG
* * *
114037034 CGCACACCCATGTTGTTTTGGCAGGTTCACCCACGGTTGCTTGGCACGGGCGTGT
1 CGCACGCCCGTGTTGTTTTGGCAGGTTCAGCCACGGTT-CTTGGCACGGGCGTGT
** *
114037089 CGCACGCCCGTGTTAATTTGACAGGTTCAGCCACGGTT-TTAAGGCACGGGCGTGT
1 CGCACGCCCGTGTTGTTTTGGCAGGTTCAGCCACGGTTCTT--GGCACGGGCGTGT
*
114037144 CGCACGCCCGTGTTGTTTTGGTAGGTTC-GCCCACGG
1 CGCACGCCCGTGTTGTTTTGGCAGGTTCAG-CCACGG
114037180 CCATGGCGAT
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
53 2 0.03
54 1 0.01
55 75 0.96
ACGTcount: A:0.14, C:0.28, G:0.32, T:0.27
Consensus pattern (54 bp):
CGCACGCCCGTGTTGTTTTGGCAGGTTCAGCCACGGTTCTTGGCACGGGCGTGT
Found at i:114056113 original size:110 final size:110
Alignment explanation
Indices: 114055920--114056136 Score: 398
Period size: 110 Copynumber: 2.0 Consensus size: 110
114055910 TTGGGTAAGT
*
114055920 CCAGTACAGGTTGTCCCTAAGAAAGGAGGCATGATGGTTGTGACCGACGAGAAGAATGAATTAAT
1 CCAGTACAGGTTGTCCCTAAGAAAGGAGGCATGACGGTTGTGACCGACGAGAAGAATGAATTAAT
** *
114055985 CCCAATAAGGACAGTCATAGGATGGAGAGTTTTTATTGACTATAG
66 CCCAATAAGGACAGTCATAAAATGGAGAGTTTGTATTGACTATAG
114056030 CCAGTACAGGTTGTCCCTAAGAAAGGAGGCATGACGGTTGTGACCGACGAGAAGAATGAATTAAT
1 CCAGTACAGGTTGTCCCTAAGAAAGGAGGCATGACGGTTGTGACCGACGAGAAGAATGAATTAAT
114056095 CCCAATAAGGACAGTCATAAAATGGAGAGTTTGTATTGACTA
66 CCCAATAAGGACAGTCATAAAATGGAGAGTTTGTATTGACTA
114056137 CAGGAAACTG
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
110 103 1.00
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.24
Consensus pattern (110 bp):
CCAGTACAGGTTGTCCCTAAGAAAGGAGGCATGACGGTTGTGACCGACGAGAAGAATGAATTAAT
CCCAATAAGGACAGTCATAAAATGGAGAGTTTGTATTGACTATAG
Found at i:114061197 original size:26 final size:26
Alignment explanation
Indices: 114061161--114061242 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
114061151 TGAAATTCCA
114061161 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
114061187 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
114061213 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
114061239 ATCA
1 ATCA
114061243 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:114062203 original size:16 final size:16
Alignment explanation
Indices: 114062171--114062203 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
114062161 ATTATCTATC
*
114062171 TTATTTTATTTTATTT
1 TTATTTTATTATATTT
114062187 TTATTTTATTA-ATTT
1 TTATTTTATTATATTT
114062202 TT
1 TT
114062204 GAATATTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
TTATTTTATTATATTT
Found at i:114068791 original size:9 final size:9
Alignment explanation
Indices: 114068777--114068805 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
114068767 AAATAAGACA
114068777 ATATAATAT
1 ATATAATAT
114068786 ATATAATAT
1 ATATAATAT
114068795 ATAT-ATAT
1 ATATAATAT
114068803 ATA
1 ATA
114068806 CAAACAGGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.35
9 13 0.65
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
ATATAATAT
Found at i:114069405 original size:183 final size:183
Alignment explanation
Indices: 114069094--114069459 Score: 691
Period size: 183 Copynumber: 2.0 Consensus size: 183
114069084 CACAAGCAAT
114069094 AATTTTAAAATGTTTTTGTTATTCTTTTTAATGTTTATTTTAATATTTTATTATAATTTTACGAG
1 AATTTTAAAATG-TTTTGTTATTCTTTTTAATGTTTATTTTAATATTTTATTATAATTTTACGAG
114069159 GCCCTTATCTGCTCCTTAACCTTATTTGAGACTTTATTCCTCTAACAATGTATCAAATATTTTTT
65 GCCCTTATCTGCTCCTTAACCTTATTTGAGACTTTATTCCTCTAACAATGTATCAAATATTTTTT
114069224 TCTATATTTAATACA-TAATATTTATATTTAATGTATTGATAATATATGAATTC
130 TCTATATTTAATACATTAATATTTATATTTAATGTATTGATAATATATGAATTC
114069277 AATTTTAAAATG-TTTGTTATTCTTTTTAATGTTTATTTTTAATATTTTATTATAATTTTACGAG
1 AATTTTAAAATGTTTTGTTATTCTTTTTAATGTTTA-TTTTAATATTTTATTATAATTTTACGAG
114069341 GCCCTTATCTGCTCCTTAACCTTATTTGTAGACTTTATTCCTCTAACAATGTATCAAATATTTTT
65 GCCCTTATCTGCTCCTTAACCTTATTTG-AGACTTTATTCCTCTAACAATGTATCAAATATTTTT
114069406 TTCTATATTTAATACATTAATATTTATATTTAATGTATTGATAATATATGAATT
129 TTCTATATTTAATACATTAATATTTATATTTAATGTATTGATAATATATGAATT
114069460 TAATATTATT
Statistics
Matches: 180, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
181 23 0.13
182 56 0.31
183 64 0.36
184 37 0.21
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.52
Consensus pattern (183 bp):
AATTTTAAAATGTTTTGTTATTCTTTTTAATGTTTATTTTAATATTTTATTATAATTTTACGAGG
CCCTTATCTGCTCCTTAACCTTATTTGAGACTTTATTCCTCTAACAATGTATCAAATATTTTTTT
CTATATTTAATACATTAATATTTATATTTAATGTATTGATAATATATGAATTC
Done.