Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 357 of 427
Found at i:103774635 original size:53 final size:54
Alignment explanation
Indices: 103774428--103774634 Score: 222
Period size: 53 Copynumber: 3.9 Consensus size: 54
103774418 TTGGTAAGAT
* * *
103774428 AAGGATATCATGTAAGA-TATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * * * *
103774481 AAGGAAATCATGTAAGAACATGTCAAGACATGGCATTGATGAGTTACTATAAGGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAA-GGC
* * * *
103774537 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * *
103774589 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
103774635 AGAAAGGAAA
Statistics
Matches: 130, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
52 6 0.05
53 55 0.42
54 24 0.18
55 39 0.30
56 6 0.05
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:103774653 original size:108 final size:108
Alignment explanation
Indices: 103774436--103774658 Score: 281
Period size: 108 Copynumber: 2.1 Consensus size: 108
103774426 ATAAGGATAT
* * *
103774436 CATGTAAGATATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGAACA
1 CATGTAAGACATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGAACA
* * * *
103774501 TGTCAAGACATGGCATTGATGAGTTACTATAAGGGAAAGGTCC
66 TGTCAAGACATGGCAATGATAAGTTACTAAAAGGAAAAGGTCC
* * * *
103774544 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATACCACGTAAGACC
1 CATGTAAGA-CATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGAAC
*
103774608 ATGTCAAGACATGGCAATGGTAAGTT-C-AGAAAGGAAAAGGTTCC
65 ATGTCAAGACATGGCAATGATAAGTTACTA-AAAGGAAAAGG-TCC
*
103774652 CAAGTAA
1 CATGTAA
103774659 TCCAAAGAGT
Statistics
Matches: 99, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
106 1 0.01
107 10 0.10
108 63 0.64
109 25 0.25
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.22
Consensus pattern (108 bp):
CATGTAAGACATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGAACA
TGTCAAGACATGGCAATGATAAGTTACTAAAAGGAAAAGGTCC
Found at i:103779212 original size:21 final size:21
Alignment explanation
Indices: 103779164--103779214 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
103779154 ATTTATTTTA
*
103779164 CATTTTAACCCCTCAATTTCT
1 CATTTTCACCCCTCAATTTCT
103779185 CATTTTCACCCCTCAATTTCT
1 CATTTTCACCCCTCAATTTCT
103779206 CATTTTCAC
1 CATTTTCAC
103779215 AAATTAGTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.22, C:0.35, G:0.00, T:0.43
Consensus pattern (21 bp):
CATTTTCACCCCTCAATTTCT
Found at i:103783339 original size:23 final size:23
Alignment explanation
Indices: 103783309--103783355 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
103783299 AAAGGTACAA
103783309 GGGCCAACCAATCTTTAGAACTT
1 GGGCCAACCAATCTTTAGAACTT
103783332 GGGCCAACCAATCTTTAGAACTT
1 GGGCCAACCAATCTTTAGAACTT
103783355 G
1 G
103783356 TGCAAACTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (23 bp):
GGGCCAACCAATCTTTAGAACTT
Found at i:103790544 original size:17 final size:17
Alignment explanation
Indices: 103790522--103790561 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
103790512 TCCTTTATTA
103790522 CGTTTTTAAAATTCATT
1 CGTTTTTAAAATTCATT
*
103790539 CGTTTTTAAGATTCATT
1 CGTTTTTAAAATTCATT
*
103790556 TGTTTT
1 CGTTTT
103790562 CCTTTTCAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.57
Consensus pattern (17 bp):
CGTTTTTAAAATTCATT
Found at i:103795540 original size:17 final size:17
Alignment explanation
Indices: 103795518--103795550 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
103795508 GATATTTTTT
103795518 TTGGTTTACAACTTGAA
1 TTGGTTTACAACTTGAA
103795535 TTGGTTTACAACTTGA
1 TTGGTTTACAACTTGA
103795551 CCTGAAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.42
Consensus pattern (17 bp):
TTGGTTTACAACTTGAA
Found at i:103798487 original size:13 final size:14
Alignment explanation
Indices: 103798464--103798493 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
103798454 TTTAAAAAAA
103798464 AAAGAAAAAGAAAG
1 AAAGAAAAAGAAAG
103798478 AAAG-AAAAGAAAG
1 AAAGAAAAAGAAAG
103798491 AAA
1 AAA
103798494 TATAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAGAAAG
Found at i:103801674 original size:9 final size:9
Alignment explanation
Indices: 103801660--103801704 Score: 76
Period size: 9 Copynumber: 5.2 Consensus size: 9
103801650 GGTATATGCA
103801660 AATTTTGTG
1 AATTTTGTG
103801669 AATTTTGTG
1 AATTTTGTG
103801678 -ATTTTGTG
1 AATTTTGTG
103801686 AATTTTGTG
1 AATTTTGTG
103801695 -ATTTTGTG
1 AATTTTGTG
103801703 AA
1 AA
103801705 ATAGGGACTA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 16 0.47
9 18 0.53
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (9 bp):
AATTTTGTG
Found at i:103801683 original size:8 final size:8
Alignment explanation
Indices: 103801661--103801703 Score: 68
Period size: 8 Copynumber: 5.1 Consensus size: 8
103801651 GTATATGCAA
103801661 ATTTTGTG
1 ATTTTGTG
103801669 AATTTTGTG
1 -ATTTTGTG
103801678 ATTTTGTG
1 ATTTTGTG
103801686 AATTTTGTG
1 -ATTTTGTG
103801695 ATTTTGTG
1 ATTTTGTG
103801703 A
1 A
103801704 AATAGGGACT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
8 17 0.52
9 16 0.48
ACGTcount: A:0.19, C:0.00, G:0.23, T:0.58
Consensus pattern (8 bp):
ATTTTGTG
Found at i:103801683 original size:17 final size:17
Alignment explanation
Indices: 103801661--103801704 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
103801651 GTATATGCAA
103801661 ATTTTGTGAATTTTGTG
1 ATTTTGTGAATTTTGTG
103801678 ATTTTGTGAATTTTGTG
1 ATTTTGTGAATTTTGTG
103801695 ATTTTGTGAA
1 ATTTTGTGAA
103801705 ATAGGGACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (17 bp):
ATTTTGTGAATTTTGTG
Found at i:103805011 original size:17 final size:17
Alignment explanation
Indices: 103804989--103805023 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
103804979 GATATGATAC
103804989 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
103805006 TAAAATATATAAAAAAT
1 TAAAATATATAAAAAAT
103805023 T
1 T
103805024 CGGGAAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:103805311 original size:22 final size:21
Alignment explanation
Indices: 103805276--103805370 Score: 65
Period size: 18 Copynumber: 4.7 Consensus size: 21
103805266 AAAAGGTATC
* *
103805276 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
103805297 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* * *
103805320 TGCATATCATA--TCTAAGCT
1 TACAAATCATATCTCTAAGAT
*
103805339 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
103805357 TGCATATCATATCT
1 TACAAATCATATCT
103805371 AAGATTGCAT
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
18 16 0.26
19 16 0.26
21 4 0.07
22 15 0.25
23 10 0.16
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:103805319 original size:23 final size:22
Alignment explanation
Indices: 103805276--103805333 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
103805266 AAAAGGTATC
* *
103805276 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
103805297 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
103805320 TGCATATCATATCT
1 TACAAATCATATCT
103805334 AAGCTTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:103805336 original size:19 final size:19
Alignment explanation
Indices: 103805312--103805385 Score: 132
Period size: 19 Copynumber: 3.9 Consensus size: 19
103805302 AATCATATCT
103805312 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
103805331 TCTAAGCTTGCA-ATCATA
1 TCTAAGATTGCATATCATA
103805349 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
103805368 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
103805386 TGAAGATTAT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
18 17 0.33
19 35 0.67
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:103805358 original size:37 final size:38
Alignment explanation
Indices: 103805305--103805385 Score: 132
Period size: 37 Copynumber: 2.2 Consensus size: 38
103805295 ATTACAAAAT
*
103805305 CATATC-T-TCTAAGATTGCATATCATATCTAAGCTTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
103805341 CA-ATCATATCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
103805378 CATATCAT
1 CATATCAT
103805386 TGAAGATTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
35 3 0.07
36 3 0.07
37 30 0.73
38 5 0.12
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.37
Consensus pattern (38 bp):
CATATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:103806047 original size:44 final size:42
Alignment explanation
Indices: 103805984--103806295 Score: 180
Period size: 41 Copynumber: 7.5 Consensus size: 42
103805974 CAAATTTAAC
103805984 CTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCGTCGAT
1 CTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T-GTCGAT
*
103806028 CTGTT-CCGCTACTGCTTAGGGAGA-TAA---GA-TCTG-CGAAC
1 CTGTTACC-CTACTGCTTAGGG-GATTAAGGCGAGTCTGTCG-AT
*
103806066 CTGTTACCCTACTGCTTAGGGGATTAAGGCTAGTCT-TCGAT
1 CTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTGTCGAT
* * * * *
103806107 CTGCT-CCACTACTGCTTAGGGAGA-TAAGATCTGCAAAT-T-T-AAC
1 CTGTTACC-CTACTGCTTAGGG-GATTAAG----GCGAGTCTGTCGAT
*
103806150 CTGTTACCCTACCGCTTAGGGGATTAAGGCGAGTCT-TCGAT
1 CTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTGTCGAT
* * * * *
103806191 CTGCT-CCACTACTGCTTAGGGAGA-TAAGATCTGCAAAT-T-T-AAC
1 CTGTTACC-CTACTGCTTAGGG-GATTAAG----GCGAGTCTGTCGAT
103806234 CTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCT-TCGAT
1 CTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTGTCGAT
* *
103806275 CTGCT-CCACTACTACTTAGGG
1 CTGTTACC-CTACTGCTTAGGG
103806296 AGATAAGATC
Statistics
Matches: 210, Mismatches: 27, Indels: 65
0.70 0.09 0.22
Matches are distributed among these distances:
37 4 0.02
38 23 0.11
39 11 0.05
40 12 0.06
41 63 0.30
42 13 0.06
43 45 0.21
44 29 0.14
45 10 0.05
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (42 bp):
CTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTGTCGAT
Found at i:103806185 original size:84 final size:84
Alignment explanation
Indices: 103805949--103806347 Score: 646
Period size: 84 Copynumber: 4.8 Consensus size: 84
103805939 ACCTGTTACC
*
103805949 CTACTGCTTAGGGAGATAAGGTCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGC
1 CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGC
* *
103806014 GAGTCGTCGTCGATCTGTTCCG
66 GAGTC-T--TCGATCTGCTCCA
*
103806036 CTACTGCTTAGGGAGATAAGATCTGC-----GAACCTGTTACCCTACTGCTTAGGGGATTAAGGC
1 CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGC
*
103806096 TAGTCTTCGATCTGCTCCA
66 GAGTCTTCGATCTGCTCCA
*
103806115 CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACCGCTTAGGGGATTAAGGC
1 CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGC
103806180 GAGTCTTCGATCTGCTCCA
66 GAGTCTTCGATCTGCTCCA
103806199 CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGC
1 CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGC
103806264 GAGTCTTCGATCTGCTCCA
66 GAGTCTTCGATCTGCTCCA
* * * *
103806283 CTACTACTTAGGGAGATAAGATCTGTAAATTTAACTTGTTACCCTACTACTTAGGGGATTAAGGC
1 CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGC
103806348 ACTGAATTTT
Statistics
Matches: 294, Mismatches: 13, Indels: 13
0.92 0.04 0.04
Matches are distributed among these distances:
79 37 0.13
81 1 0.00
82 37 0.13
84 194 0.66
87 25 0.09
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (84 bp):
CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGC
GAGTCTTCGATCTGCTCCA
Found at i:103807316 original size:17 final size:16
Alignment explanation
Indices: 103807294--103807353 Score: 75
Period size: 17 Copynumber: 3.6 Consensus size: 16
103807284 GGCCTCTCCA
*
103807294 TTTTTTTTCTTTTTTC
1 TTTTTTTTTTTTTTTC
103807310 TTTTTTTTTATTTTTTC
1 TTTTTTTTT-TTTTTTC
*
103807327 TTTTTCTTTTTTTTTCCC
1 TTTTT-TTTTTTTTT-TC
103807345 TTTTTTTTT
1 TTTTTTTTT
103807354 GAAATAGAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
16 8 0.21
17 21 0.54
18 10 0.26
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTTTTTTTTTTTC
Found at i:103807323 original size:24 final size:23
Alignment explanation
Indices: 103807296--103807341 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
103807286 CCTCTCCATT
103807296 TTTTTTCTTTTTTCTTTTTTTTTA
1 TTTTTTC-TTTTTCTTTTTTTTTA
103807320 TTTTTTCTTTTTCTTTTTTTTT
1 TTTTTTCTTTTTCTTTTTTTTT
103807342 CCCTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.02, C:0.09, G:0.00, T:0.89
Consensus pattern (23 bp):
TTTTTTCTTTTTCTTTTTTTTTA
Found at i:103807348 original size:23 final size:23
Alignment explanation
Indices: 103807298--103807353 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
103807288 TCTCCATTTT
**
103807298 TTTTCTTTTTTCTTTTTTTTTATT
1 TTTTC-TTTTTCTTTTTTTTTACC
*
103807322 TTTTCTTTTTCTTTTTTTTTCCC
1 TTTTCTTTTTCTTTTTTTTTACC
103807345 TTTT-TTTTT
1 TTTTCTTTTT
103807354 GAAATAGAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 5 0.17
23 19 0.66
24 5 0.17
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (23 bp):
TTTTCTTTTTCTTTTTTTTTACC
Found at i:103807353 original size:1 final size:1
Alignment explanation
Indices: 103807294--103807341 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
103807284 GGCCTCTCCA
* * * * *
103807294 TTTTTTTTCTTTTTTCTTTTTTTTTATTTTTTCTTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
103807342 CCCTTTTTTT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.02, C:0.08, G:0.00, T:0.90
Consensus pattern (1 bp):
T
Found at i:103813003 original size:22 final size:21
Alignment explanation
Indices: 103812973--103813038 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
103812963 TACAAATTAA
103812973 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
103812995 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
103813016 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
103813035 ATCT
1 ATCT
103813039 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:103813025 original size:19 final size:19
Alignment explanation
Indices: 103812990--103813068 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
103812980 AGATTACAAG
103812990 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
103813011 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
103813030 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
103813047 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
103813066 ATC
1 ATC
103813069 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:103813032 original size:14 final size:15
Alignment explanation
Indices: 103813012--103813068 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
103813002 AGATTGCATA
103813012 TCATATCTAAGATTG
1 TCATATCTAAGATTG
103813027 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
103813046 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
103813063 -CATATC
1 TCATATC
103813069 CTTAAAGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:103813054 original size:36 final size:39
Alignment explanation
Indices: 103812990--103813068 Score: 128
Period size: 36 Copynumber: 2.1 Consensus size: 39
103812980 AGATTACAAG
103812990 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTG-ATATCATATCTAAGATTGCAT
103813030 ATCATATC-T-AAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
103813066 ATC
1 ATC
103813069 CTTAAAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 23 0.59
38 7 0.18
39 1 0.03
40 8 0.21
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (39 bp):
ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
Found at i:103813368 original size:21 final size:21
Alignment explanation
Indices: 103813283--103813379 Score: 66
Period size: 21 Copynumber: 4.8 Consensus size: 21
103813273 ATAAATATTA
*
103813283 TATTAAATATAATATTAAATC
1 TATTAAATATAATATTAAATT
*
103813304 TATTAAAT-TAA-A-GAATATT
1 TATTAAATATAATATTAA-ATT
*
103813323 TATCTATAAGA-AAGTATT-AA--
1 TAT-TA-AATATAA-TATTAAATT
103813343 -ATTAAATATAATATTAAATT
1 TATTAAATATAATATTAAATT
*
103813363 TATTAAAAATAATATTA
1 TATTAAATATAATATTA
103813380 TTTTTGGAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 24
0.66 0.07 0.27
Matches are distributed among these distances:
17 7 0.12
18 8 0.14
19 8 0.14
20 5 0.09
21 27 0.47
22 1 0.02
23 2 0.03
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (21 bp):
TATTAAATATAATATTAAATT
Found at i:103814941 original size:29 final size:29
Alignment explanation
Indices: 103814908--103814965 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
103814898 CTACGGAAGT
103814908 AAGTTGTCTTTCTTGCAATGTAAACGTTC
1 AAGTTGTCTTTCTTGCAATGTAAACGTTC
103814937 AAGTTGTCTTTCTTGCAATGTAAACGTTC
1 AAGTTGTCTTTCTTGCAATGTAAACGTTC
103814966 TTACAGTGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (29 bp):
AAGTTGTCTTTCTTGCAATGTAAACGTTC
Found at i:103816746 original size:18 final size:18
Alignment explanation
Indices: 103816725--103816764 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
103816715 GAGTCCAGTA
103816725 ATGAAGAACAGTCCGACC
1 ATGAAGAACAGTCCGACC
** *
103816743 ATGAAGAGTAGTCCGAGC
1 ATGAAGAACAGTCCGACC
103816761 ATGA
1 ATGA
103816765 TATTGAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.20, G:0.28, T:0.15
Consensus pattern (18 bp):
ATGAAGAACAGTCCGACC
Found at i:103819141 original size:47 final size:47
Alignment explanation
Indices: 103819015--103819274 Score: 332
Period size: 47 Copynumber: 5.6 Consensus size: 47
103819005 ATATCCAATT
* *
103819015 ATTAAATAAATAAATTATTCAATTATTATATAGTGTAAAGTAAACAA
1 ATTAAATAAATAAATTATTAAATTATTATATAGTGTAAAGTAAATAA
* * * **
103819062 ATTAAA-AAAAAAATTATTAAGTTATTATATAGTGTAAAATAAATGT
1 ATTAAATAAATAAATTATTAAATTATTATATAGTGTAAAGTAAATAA
*
103819108 TTTAAATAAATAAATTATTAAATTATTATATAGTGTAAAGT--A-AA
1 ATTAAATAAATAAATTATTAAATTATTATATAGTGTAAAGTAAATAA
* * * **
103819152 A-TAAATAAATAAATTATTCAATTATTATATAGTGCAAAATAAATGT
1 ATTAAATAAATAAATTATTAAATTATTATATAGTGTAAAGTAAATAA
* * *
103819198 TTTAAATAAATAAATTGTTAAGTTATTATATAGTGTAAAGTAAATAA
1 ATTAAATAAATAAATTATTAAATTATTATATAGTGTAAAGTAAATAA
*
103819245 ATTAAATAAATAAATTATTCAATTATTATA
1 ATTAAATAAATAAATTATTAAATTATTATA
103819275 ATTTAATACA
Statistics
Matches: 177, Mismatches: 31, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
43 36 0.20
45 2 0.01
46 38 0.21
47 101 0.57
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (47 bp):
ATTAAATAAATAAATTATTAAATTATTATATAGTGTAAAGTAAATAA
Found at i:103819194 original size:90 final size:93
Alignment explanation
Indices: 103819016--103819274 Score: 402
Period size: 90 Copynumber: 2.8 Consensus size: 93
103819006 TATCCAATTA
* *
103819016 TTAAATAAATAAATTATTCAATTATTATATAGTGTAAAGTAAACAAATTAAA-AAAAAAATTATT
1 TTAAATAAATAAATTATTAAATTATTATATAGTGTAAAGT-AACAAATTAAATAAATAAATTATT
*
103819080 -AAGTTATTATATAGTGTAAAATAAATGTT
65 CAA-TTATTATATAGTGCAAAATAAATGTT
103819109 TTAAATAAATAAATTATTAAATTATTATATAGTGTAAAGT-A-AAA-TAAATAAATAAATTATTC
1 TTAAATAAATAAATTATTAAATTATTATATAGTGTAAAGTAACAAATTAAATAAATAAATTATTC
103819171 AATTATTATATAGTGCAAAATAAATGTT
66 AATTATTATATAGTGCAAAATAAATGTT
* * *
103819199 TTAAATAAATAAATTGTTAAGTTATTATATAGTGTAAAGTAAATAAATTAAATAAATAAATTATT
1 TTAAATAAATAAATTATTAAATTATTATATAGTGTAAAGT-AACAAATTAAATAAATAAATTATT
103819264 CAATTATTATA
65 CAATTATTATA
103819275 ATTTAATACA
Statistics
Matches: 155, Mismatches: 5, Indels: 11
0.91 0.03 0.06
Matches are distributed among these distances:
89 4 0.03
90 77 0.50
91 3 0.02
92 1 0.01
93 42 0.27
94 28 0.18
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (93 bp):
TTAAATAAATAAATTATTAAATTATTATATAGTGTAAAGTAACAAATTAAATAAATAAATTATTC
AATTATTATATAGTGCAAAATAAATGTT
Found at i:103819251 original size:137 final size:136
Alignment explanation
Indices: 103819017--103819274 Score: 390
Period size: 137 Copynumber: 1.9 Consensus size: 136
103819007 ATCCAATTAT
* *
103819017 TAAATAAATAAATTATTCAATTATTATATAGTGTAAAGTAAACAAATTAAAAAAAAAATTATTAA
1 TAAATAAATAAATTATTCAATTATTATATAGTGCAAAATAAACAAATTAAAAAAAAAATTATTAA
***
103819082 GTTATTATATAGTGTAAAATAAATGTTTTAAATAAATAAATTATTAAATTATTATATAGTGTAAA
66 GTTATTATATAGTGTAAAATAAATAAATTAAATAAATAAATTATTAAATTATTATATAGTGTAAA
103819147 GTAAAA
131 GTAAAA
**** * *
103819153 TAAATAAATAAATTATTCAATTATTATATAGTGCAAAATAAATGTTTTAAATAAATAAATTGTTA
1 TAAATAAATAAATTATTCAATTATTATATAGTGCAAAATAAACAAATTAAA-AAAAAAATTATTA
* *
103819218 AGTTATTATATAGTGTAAAGTAAATAAATTAAATAAATAAATTATTCAATTATTATA
65 AGTTATTATATAGTGTAAAATAAATAAATTAAATAAATAAATTATTAAATTATTATA
103819275 ATTTAATACA
Statistics
Matches: 108, Mismatches: 13, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
136 45 0.42
137 63 0.58
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (136 bp):
TAAATAAATAAATTATTCAATTATTATATAGTGCAAAATAAACAAATTAAAAAAAAAATTATTAA
GTTATTATATAGTGTAAAATAAATAAATTAAATAAATAAATTATTAAATTATTATATAGTGTAAA
GTAAAA
Found at i:103819256 original size:13 final size:14
Alignment explanation
Indices: 103819233--103819261 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
103819223 TTATATAGTG
103819233 TAAAGTAAATAAAT
1 TAAAGTAAATAAAT
103819247 TAAA-TAAATAAAT
1 TAAAGTAAATAAAT
103819260 TA
1 TA
103819262 TTCAATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
TAAAGTAAATAAAT
Found at i:103819421 original size:19 final size:19
Alignment explanation
Indices: 103819391--103819443 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
103819381 ATCAATTTTA
103819391 AAATTAAATAATTAAAGTTT
1 AAATT-AATAATTAAAGTTT
* *
103819411 AACTTAATAATTATAGTTT
1 AAATTAATAATTAAAGTTT
*
103819430 AAATTAAAAATTAA
1 AAATTAATAATTAA
103819444 TTGAATTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 24 0.86
20 4 0.14
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.40
Consensus pattern (19 bp):
AAATTAATAATTAAAGTTT
Found at i:103819481 original size:90 final size:90
Alignment explanation
Indices: 103819313--103819481 Score: 216
Period size: 90 Copynumber: 1.9 Consensus size: 90
103819303 ATTAATTACA
*
103819313 TAAAGTTTAACTTGATAATTAAAGTATAAACTAAAAATGAAATGAAATTCTTAATTTTAATTTAA
1 TAAAGTTTAACTTAATAATTAAAGTATAAACTAAAAATGAAATGAAATTCTTAATTTTAATTTAA
*
103819378 AAAATCAATTTTAAAATTAAATAAT
66 AAAATCAAATTTAAAATTAAATAAT
* * * * * * * *
103819403 TAAAGTTTAACTTAATAATTATAGTTTAAATTAAAAATTAATTGAATTTTTTATTTTTAA-TTAA
1 TAAAGTTTAACTTAATAATTAAAGTATAAACTAAAAATGAAATGAAATTCTTAATTTTAATTTAA
103819467 TAGAAAT-AAATTTAA
66 -A-AAATCAAATTTAA
103819482 TATTTAATTG
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
89 4 0.06
90 59 0.88
91 4 0.06
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (90 bp):
TAAAGTTTAACTTAATAATTAAAGTATAAACTAAAAATGAAATGAAATTCTTAATTTTAATTTAA
AAAATCAAATTTAAAATTAAATAAT
Found at i:103822279 original size:21 final size:21
Alignment explanation
Indices: 103822253--103822307 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
103822243 AATTTATGAA
*
103822253 AAAATATATAATTTATATACG
1 AAAATATAAAATTTATATACG
103822274 AAAATATAAAATTTATATACG
1 AAAATATAAAATTTATATACG
103822295 AAAATATAAAATT
1 AAAATATAAAATT
103822308 CGACCAACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (21 bp):
AAAATATAAAATTTATATACG
Found at i:103822376 original size:110 final size:110
Alignment explanation
Indices: 103822260--103822615 Score: 626
Period size: 110 Copynumber: 3.2 Consensus size: 110
103822250 GAAAAAATAT
* *
103822260 ATAATTTATATACGAAAATATAAAATTTATATACGAAAATATAAAATTCGACCAACAAATACGGA
1 ATAATTTATTTACGAAAATATAAAATTTATATACGAAAATATAAAATTTGACCAACAAATACGGA
*
103822325 TTAAAATATTTTTACAGCATCCCAAAATAATTCAAACATTTTAGA
66 TTAAAATATTTTTACAGCACCCCAAAATAATTCAAACATTTTAGA
*
103822370 ATAATTTATTTATGAAAATATAAAATTTATATACGAAAATATAAAATTTGACCAACAAATACGGA
1 ATAATTTATTTACGAAAATATAAAATTTATATACGAAAATATAAAATTTGACCAACAAATACGGA
*
103822435 TTAAAATATTTTTACAGCACCCCAAAATAATTCAAATATTTTAGA
66 TTAAAATATTTTTACAGCACCCCAAAATAATTCAAACATTTTAGA
* *
103822480 ATAATTTATTTACGAAAATATAAAATTTATATACGAAAATATAAAATTTGACCAACAAATAAGAA
1 ATAATTTATTTACGAAAATATAAAATTTATATACGAAAATATAAAATTTGACCAACAAATACGGA
103822545 TTAAAATA-TTTTACAGCACCCCAAAATAATAT-AAACATTTTAGA
66 TTAAAATATTTTTACAGCACCCCAAAATAAT-TCAAACATTTTAGA
103822589 ATAATTTATTTACGAAAATATAAAATT
1 ATAATTTATTTACGAAAATATAAAATT
103822616 CAGCTAACAA
Statistics
Matches: 236, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
109 60 0.25
110 176 0.75
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.33
Consensus pattern (110 bp):
ATAATTTATTTACGAAAATATAAAATTTATATACGAAAATATAAAATTTGACCAACAAATACGGA
TTAAAATATTTTTACAGCACCCCAAAATAATTCAAACATTTTAGA
Found at i:103822396 original size:21 final size:21
Alignment explanation
Indices: 103822372--103822418 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
103822362 ATTTTAGAAT
* *
103822372 AATTTATTTATGAAAATATAA
1 AATTTATATACGAAAATATAA
103822393 AATTTATATACGAAAATATAA
1 AATTTATATACGAAAATATAA
103822414 AATTT
1 AATTT
103822419 GACCAACAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (21 bp):
AATTTATATACGAAAATATAA
Found at i:103822506 original size:21 final size:21
Alignment explanation
Indices: 103822482--103822528 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
103822472 ATTTTAGAAT
*
103822482 AATTTATTTACGAAAATATAA
1 AATTTATATACGAAAATATAA
103822503 AATTTATATACGAAAATATAA
1 AATTTATATACGAAAATATAA
103822524 AATTT
1 AATTT
103822529 GACCAACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.38
Consensus pattern (21 bp):
AATTTATATACGAAAATATAA
Found at i:103823132 original size:54 final size:55
Alignment explanation
Indices: 103823013--103823145 Score: 169
Period size: 54 Copynumber: 2.4 Consensus size: 55
103823003 CTAAGTGGGT
* * * * **
103823013 GCCGGCCATTAGTGTCCCAGCATCCAATTTTTTTTTTTCAAATTTGGTACAAGGGT
1 GCCGGCCATCAGTGTCCCAGCA-CCAATATTTTTTTCTCAAATCTGGTACAAGGAA
*
103823069 GCCGGCCATCAGTGTCCTAGCACCAA-ATTTTTTTCTCAAATCTGGTACAAGGAA
1 GCCGGCCATCAGTGTCCCAGCACCAATATTTTTTTCTCAAATCTGGTACAAGGAA
* *
103823123 GCCGACCATCAATGTCCCAGCAC
1 GCCGGCCATCAGTGTCCCAGCAC
103823146 ACGAAAAAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
54 43 0.64
55 4 0.06
56 20 0.30
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (55 bp):
GCCGGCCATCAGTGTCCCAGCACCAATATTTTTTTCTCAAATCTGGTACAAGGAA
Found at i:103832793 original size:3 final size:3
Alignment explanation
Indices: 103832785--103832831 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
103832775 AGGGAATACT
103832785 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
103832832 TATTATTATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:103833076 original size:22 final size:21
Alignment explanation
Indices: 103833049--103833101 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
103833039 ATAAATTTTA
*
103833049 AAATAAAAAGTAAGACAATAAT
1 AAATAAAAAGTAA-ACAATAAC
* *
103833071 AAATAAATAAGTAAATAATAGC
1 AAATAAA-AAGTAAACAATAAC
103833093 AAATAAAAA
1 AAATAAAAA
103833102 AAATGCATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.07
22 19 0.70
23 6 0.22
ACGTcount: A:0.70, C:0.04, G:0.08, T:0.19
Consensus pattern (21 bp):
AAATAAAAAGTAAACAATAAC
Found at i:103833358 original size:16 final size:16
Alignment explanation
Indices: 103833337--103833371 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
103833327 TTCTAGGGAC
103833337 TAAAATAAAAAAAAAT
1 TAAAATAAAAAAAAAT
103833353 TAAAATAAAAAAAAAT
1 TAAAATAAAAAAAAAT
103833369 TAA
1 TAA
103833372 GTAGATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
TAAAATAAAAAAAAAT
Found at i:103838407 original size:18 final size:19
Alignment explanation
Indices: 103838370--103838407 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
103838360 TCTCAAACCT
*
103838370 AATATTTATCTATTTCTTA
1 AATATTTATCTATCTCTTA
*
103838389 AATATTTATGTA-CTCTTA
1 AATATTTATCTATCTCTTA
103838407 A
1 A
103838408 TTTATTTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.53
Consensus pattern (19 bp):
AATATTTATCTATCTCTTA
Found at i:103838874 original size:13 final size:13
Alignment explanation
Indices: 103838852--103838885 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
103838842 AATTTTAAAT
*
103838852 AAAT-AATTAATC
1 AAATCAATTAATA
103838864 AAATCAATTAATA
1 AAATCAATTAATA
103838877 AAATCAATT
1 AAATCAATT
103838886 GATTAAACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATCAATTAATA
Found at i:103841681 original size:13 final size:13
Alignment explanation
Indices: 103841663--103841687 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
103841653 ACTTAAACCC
103841663 ATAACTGAATGAA
1 ATAACTGAATGAA
103841676 ATAACTGAATGA
1 ATAACTGAATGA
103841688 CTAAAATATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (13 bp):
ATAACTGAATGAA
Found at i:103847694 original size:17 final size:18
Alignment explanation
Indices: 103847672--103847708 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
103847662 TAATTTCTCC
*
103847672 TTCTTTCTTTC-TTTTCT
1 TTCTTTCCTTCTTTTTCT
103847689 TTCTTTCCTTCTTTTTCT
1 TTCTTTCCTTCTTTTTCT
103847707 TT
1 TT
103847709 TCTGTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
TTCTTTCCTTCTTTTTCT
Found at i:103847781 original size:10 final size:10
Alignment explanation
Indices: 103847766--103847808 Score: 70
Period size: 10 Copynumber: 4.3 Consensus size: 10
103847756 TTATTATTAT
103847766 TAAACTAATA
1 TAAACTAATA
103847776 TAAACTAATA
1 TAAACTAATA
103847786 TAAACTAATA
1 TAAACTAATA
103847796 TAATA-TAATA
1 TAA-ACTAATA
103847806 TAA
1 TAA
103847809 TATGAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 31 0.97
11 1 0.03
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (10 bp):
TAAACTAATA
Found at i:103847801 original size:5 final size:5
Alignment explanation
Indices: 103847771--103847821 Score: 54
Period size: 5 Copynumber: 10.2 Consensus size: 5
103847761 ATTATTAAAC
103847771 TAATA TAA-A CTAATA TAA-A CTAATA TAATA TAATA TAATA TGAA-A
1 TAATA TAATA -TAATA TAATA -TAATA TAATA TAATA TAATA T-AATA
103847816 TAATA T
1 TAATA T
103847822 GTATAAATAC
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
4 4 0.10
5 32 0.80
6 4 0.10
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (5 bp):
TAATA
Found at i:103848534 original size:23 final size:23
Alignment explanation
Indices: 103848508--103848551 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
103848498 TTTTGGTTAT
103848508 CTTATGAT-GCATGTTTTGAATGG
1 CTTAT-ATGGCATGTTTTGAATGG
*
103848531 CTTATATGGTATGTTTTGAAT
1 CTTATATGGCATGTTTTGAAT
103848552 TGGTATGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.23, C:0.07, G:0.23, T:0.48
Consensus pattern (23 bp):
CTTATATGGCATGTTTTGAATGG
Found at i:103849328 original size:27 final size:26
Alignment explanation
Indices: 103849280--103849344 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
103849270 AGTTATTAGA
* *
103849280 AAGAA-AAAATAAAAAGAGCAAAAAG
1 AAGAAGAAAAGAAAAAGAACAAAAAG
**
103849305 AAGAAGAATAAGAAAAAGAACAAACGG
1 AAGAAGAA-AAGAAAAAGAACAAAAAG
103849332 AAGAAGAAAAGAA
1 AAGAAGAAAAGAA
103849345 CAAACGCTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 5 0.15
26 7 0.21
27 22 0.65
ACGTcount: A:0.72, C:0.05, G:0.20, T:0.03
Consensus pattern (26 bp):
AAGAAGAAAAGAAAAAGAACAAAAAG
Found at i:103852558 original size:23 final size:23
Alignment explanation
Indices: 103852527--103852595 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
103852517 ATTTTATCAC
*
103852527 ATATATTTATATTATATTTTATT
1 ATATTTTTATATTATATTTTATT
*
103852550 ATATTTTTAT-TATATATTACCTATT
1 ATATTTTTATAT-TATATT--TTATT
*
103852575 AT-TTTTTATATTATATGTTAT
1 ATATTTTTATATTATATTTTAT
103852596 ATCATATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
22 4 0.11
23 15 0.39
24 12 0.32
25 7 0.18
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (23 bp):
ATATTTTTATATTATATTTTATT
Found at i:103852567 original size:7 final size:7
Alignment explanation
Indices: 103852527--103852635 Score: 52
Period size: 7 Copynumber: 16.3 Consensus size: 7
103852517 ATTTTATCAC
103852527 ATATATT
1 ATATATT
103852534 -TATATT
1 ATATATT
*
103852540 ATATTTT
1 ATATATT
103852547 ATTATATT
1 A-TATATT
*
103852555 -TTTATT
1 ATATATT
103852561 ATATATT
1 ATATATT
**
103852568 ACCTATT
1 ATATATT
103852575 AT-T-TT
1 ATATATT
*
103852580 TTATATT
1 ATATATT
*
103852587 ATAT-GT
1 ATATATT
*
103852593 -TATATC
1 ATATATT
103852599 ATATATT
1 ATATATT
**
103852606 ACCTATT
1 ATATATT
103852613 ATATTATT
1 ATA-TATT
*
103852621 -TATGTT
1 ATATATT
*
103852627 TTATATT
1 ATATATT
103852634 AT
1 AT
103852636 CCATTATATT
Statistics
Matches: 73, Mismatches: 20, Indels: 18
0.66 0.18 0.16
Matches are distributed among these distances:
5 6 0.08
6 17 0.23
7 41 0.56
8 9 0.12
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (7 bp):
ATATATT
Found at i:103852595 original size:12 final size:11
Alignment explanation
Indices: 103852528--103852635 Score: 78
Period size: 12 Copynumber: 9.3 Consensus size: 11
103852518 TTTTATCACA
103852528 TATATTTATAT
1 TATATTTATAT
103852539 TATATTT-TAT
1 TATATTTATAT
*
103852549 TATATTTTTAT
1 TATATTTATAT
103852560 TATATATTACCTAT
1 TATAT-TTA--TAT
*
103852574 TATTTTTTATAT
1 TA-TATTTATAT
103852586 TATATGTTATAT
1 TATAT-TTATAT
*
103852598 CATATATTACCTAT
1 TATAT-TTA--TAT
103852612 TATA-TTAT-T
1 TATATTTATAT
*
103852621 TATGTTTTATAT
1 TAT-ATTTATAT
103852633 TAT
1 TAT
103852636 CCATTATATT
Statistics
Matches: 79, Mismatches: 7, Indels: 21
0.74 0.07 0.20
Matches are distributed among these distances:
9 4 0.05
10 11 0.14
11 21 0.27
12 27 0.34
14 14 0.18
15 2 0.03
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (11 bp):
TATATTTATAT
Found at i:103852610 original size:38 final size:39
Alignment explanation
Indices: 103852533--103852623 Score: 123
Period size: 38 Copynumber: 2.3 Consensus size: 39
103852523 TCACATATAT
* * *
103852533 TTATATTATATTTTATTATATTTTTATTATATATTACCTA
1 TTATATTAT-TTATATTATATTTATATCATATATTACCTA
103852573 TTAT-TT-TTTATATTATATGTTATATCATATATTACCTA
1 TTATATTATTTATATTATAT-TTATATCATATATTACCTA
103852611 TTATATTATTTAT
1 TTATATTATTTAT
103852624 GTTTTATATT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
37 10 0.22
38 22 0.49
39 4 0.09
40 9 0.20
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (39 bp):
TTATATTATTTATATTATATTTATATCATATATTACCTA
Found at i:103852614 original size:19 final size:19
Alignment explanation
Indices: 103852561--103852616 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
103852551 TATTTTTATT
* *
103852561 ATATATTACCTATTATTTT
1 ATATATTACCTATTATATC
* ** *
103852580 TTATATTATATGTTATATC
1 ATATATTACCTATTATATC
103852599 ATATATTACCTATTATAT
1 ATATATTACCTATTATAT
103852617 TATTTATGTT
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (19 bp):
ATATATTACCTATTATATC
Found at i:103856565 original size:14 final size:14
Alignment explanation
Indices: 103856546--103856575 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
103856536 AAGATATTAT
103856546 TTTTCTAAATAAAG
1 TTTTCTAAATAAAG
*
103856560 TTTTCTAAATGAAG
1 TTTTCTAAATAAAG
103856574 TT
1 TT
103856576 GAACCAGAAT
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:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (14 bp):
TTTTCTAAATAAAG
Found at i:103856614 original size:14 final size:16
Alignment explanation
Indices: 103856595--103856631 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
103856585 TCGATATCCT
103856595 TTTGCAT-TCAT-GCA
1 TTTGCATCTCATAGCA
103856609 TTTGCATCTCATAGCA
1 TTTGCATCTCATAGCA
103856625 TTT-CATC
1 TTTGCATC
103856632 GCATCGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (16 bp):
TTTGCATCTCATAGCA
Found at i:103856631 original size:15 final size:15
Alignment explanation
Indices: 103856595--103856644 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
103856585 TCGATATCCT
103856595 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
103856609 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
* *
103856625 TTT-CATCGCAT-CG
1 TTTGCATCTCATGCA
103856638 TTTGCAT
1 TTTGCAT
103856645 TCAAAGTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 4 0.13
14 10 0.32
15 11 0.35
16 6 0.19
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:103866561 original size:25 final size:25
Alignment explanation
Indices: 103866493--103866568 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 25
103866483 TTATTTTATA
*
103866493 TATATAATTTATTTATTTAAAAAAAAC
1 TATAT-ATATATTTA-TTAAAAAAAAC
* *
103866520 TATATATATGTCATTATTAAAAAATAC
1 TATATATATAT--TTATTAAAAAAAAC
*
103866547 TATTTATATATTTATATAAAAA
1 TATATATATATTTAT-TAAAAA
103866569 TTTTATCACA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
25 4 0.10
26 10 0.24
27 24 0.59
28 3 0.07
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (25 bp):
TATATATATATTTATTAAAAAAAAC
Found at i:103866618 original size:18 final size:18
Alignment explanation
Indices: 103866597--103866653 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
103866587 TATTATATTT
103866597 TATTATATTTTTATTATA
1 TATTATATTTTTATTATA
**
103866615 TATTA-CCTTTT-TT-TA
1 TATTATATTTTTATTATA
* *
103866630 TATTATATGTTTATCATA
1 TATTATATTTTTATTATA
103866648 TATTAT
1 TATTAT
103866654 CTATTATATT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
15 7 0.23
16 5 0.17
17 5 0.17
18 13 0.43
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TATTATATTTTTATTATA
Found at i:103866676 original size:33 final size:32
Alignment explanation
Indices: 103866577--103866697 Score: 85
Period size: 28 Copynumber: 3.8 Consensus size: 32
103866567 AATTTTATCA
*
103866577 CATATATT-TATATTATATTTTATTATATTTTTAT
1 CATATATTATCTATTATA--TTATT-TATTTTTAT
* * *
103866611 TATATATTACCT-TT-TTTTATATTATATGTTTAT
1 CATATATTATCTATTATATTAT-TTAT-T-TTTAT
*
103866644 CATATATTATCTATTATATTATTTA-TGTT-T
1 CATATATTATCTATTATATTATTTATTTTTAT
*
103866674 --TATATTATCCATTATATTATTTAT
1 CATATATTATCTATTATATTATTTAT
103866698 AATTTTAAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 19
0.72 0.09 0.19
Matches are distributed among these distances:
28 22 0.31
30 1 0.01
31 9 0.13
32 3 0.04
33 16 0.23
34 14 0.20
35 6 0.08
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.62
Consensus pattern (32 bp):
CATATATTATCTATTATATTATTTATTTTTAT
Found at i:103866998 original size:13 final size:13
Alignment explanation
Indices: 103866962--103866999 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
103866952 ATGTATTGTA
*
103866962 TATTAAATACTAT
1 TATTAAATATTAT
*
103866975 T-TTAAAAATTAT
1 TATTAAATATTAT
103866987 TATTAAATATTAT
1 TATTAAATATTAT
103867000 ATTTGTATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
TATTAAATATTAT
Found at i:103867002 original size:12 final size:12
Alignment explanation
Indices: 103866960--103867002 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
103866950 TTATGTATTG
*
103866960 TATATTAAATAC
1 TATATTAAATAT
* *
103866972 TATTTTAAAAAT
1 TATATTAAATAT
103866984 TATTATTAAATAT
1 TA-TATTAAATAT
103866997 TATATT
1 TATATT
103867003 TGTATTATAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (12 bp):
TATATTAAATAT
Found at i:103868329 original size:20 final size:20
Alignment explanation
Indices: 103868304--103868341 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
103868294 ATCAAGTTTA
*
103868304 TTTTTTGAATTTTAAAATTT
1 TTTTTTAAATTTTAAAATTT
103868324 TTTTTTAAATTTTAAAAT
1 TTTTTTAAATTTTAAAAT
103868342 GTAACACTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTTTAAATTTTAAAATTT
Found at i:103870524 original size:30 final size:30
Alignment explanation
Indices: 103870485--103870542 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
103870475 TATGTTAACA
*
103870485 ATTTGTAAAATTAGATC-AAATCAAAATTTT
1 ATTTATAAAATTAGA-CAAAATCAAAATTTT
*
103870515 ATTTATAAAATTATACAAAATCAAAATT
1 ATTTATAAAATTAGACAAAATCAAAATT
103870543 GATATATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.38
Consensus pattern (30 bp):
ATTTATAAAATTAGACAAAATCAAAATTTT
Found at i:103870675 original size:2 final size:2
Alignment explanation
Indices: 103870668--103870693 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
103870658 CTAAACTGTC
103870668 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
103870694 TCTTAATGAT
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:103871990 original size:6 final size:7
Alignment explanation
Indices: 103871972--103871997 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
103871962 GTCTCACAGT
103871972 ATTTTTA
1 ATTTTTA
103871979 ATTTTTA
1 ATTTTTA
103871986 ATTTTTA
1 ATTTTTA
103871993 ATTTT
1 ATTTT
103871998 GCAAATTTGC
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:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
ATTTTTA
Found at i:103875047 original size:20 final size:20
Alignment explanation
Indices: 103875014--103875061 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
103875004 TGTCTTAAAA
* **
103875014 AATA-TATAATTATTCATTT
1 AATATTATAACTATTCAAAT
103875033 AATATTATAACTATTCAAAT
1 AATATTATAACTATTCAAAT
103875053 AATATTATA
1 AATATTATA
103875062 GCCAATGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (20 bp):
AATATTATAACTATTCAAAT
Found at i:103875362 original size:20 final size:20
Alignment explanation
Indices: 103875339--103875377 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
103875329 CCCTTATATC
103875339 ATTACATAATTGAAACTTTG
1 ATTACATAATTGAAACTTTG
103875359 ATTACATAATTGAAACTTT
1 ATTACATAATTGAAACTTT
103875378 TTAGAGAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (20 bp):
ATTACATAATTGAAACTTTG
Found at i:103875470 original size:22 final size:23
Alignment explanation
Indices: 103875438--103875480 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
103875428 ATTATTCATG
103875438 TGCCAGAGAAT-CTTACTGTTCT
1 TGCCAGAGAATACTTACTGTTCT
* *
103875460 TGCCAGGGAATATTTACTGTT
1 TGCCAGAGAATACTTACTGTT
103875481 TACGCTAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (23 bp):
TGCCAGAGAATACTTACTGTTCT
Found at i:103878903 original size:49 final size:49
Alignment explanation
Indices: 103878850--103879031 Score: 188
Period size: 49 Copynumber: 3.7 Consensus size: 49
103878840 TTGGTACCCA
103878850 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* ** * *
103878899 TAGTAGCCTGC-CTTAGTACTACACACT-TGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACA-TGCGACC-AATTATCCGGTACACG
* * * * * * ***
103878948 TAGTAGCCTGCACTTAGTATTACATACGTGATCGAAGTTATCGGGTACGTA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACACG
103878999 TAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC
103879032 TCACAATAAA
Statistics
Matches: 106, Mismatches: 21, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
48 18 0.17
49 35 0.33
50 18 0.17
51 35 0.33
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:103889546 original size:24 final size:23
Alignment explanation
Indices: 103889508--103889553 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
103889498 TTGGTGATTG
*
103889508 AGGAGATATTGATGGAGGGATTTT
1 AGGAGAAATTGATGG-GGGATTTT
*
103889532 AGGAGAAATTTATGGGGGATTT
1 AGGAGAAATTGATGGGGGATTT
103889554 GTGGTTGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (23 bp):
AGGAGAAATTGATGGGGGATTTT
Found at i:103891066 original size:27 final size:27
Alignment explanation
Indices: 103891028--103891216 Score: 263
Period size: 27 Copynumber: 7.0 Consensus size: 27
103891018 CGTACCTAGA
103891028 CCCTTA-ATTGGTAAAATGACTGTTTTG
1 CCCTTATA-TGGTAAAATGACTGTTTTG
* *
103891055 TCCTTATATGGTAAAATGGCTGTTTTTG
1 CCCTTATATGGTAAAATGACTG-TTTTG
* *
103891083 CCCTTATGTGGTAAAATGACTATTTTG
1 CCCTTATATGGTAAAATGACTGTTTTG
*
103891110 CCCTTATATGGTAAAATGATTGTTTTG
1 CCCTTATATGGTAAAATGACTGTTTTG
*
103891137 CCCTTATGTGGTAAAATGACTGTTTTG
1 CCCTTATATGGTAAAATGACTGTTTTG
* *
103891164 CCCTTATGTGGTAAAATGACTATTTTG
1 CCCTTATATGGTAAAATGACTGTTTTG
* *
103891191 CTCTTATATGGTAAGATGACTGTTTT
1 CCCTTATATGGTAAAATGACTGTTTT
103891217 TCCTATGTGA
Statistics
Matches: 144, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
27 120 0.83
28 24 0.17
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (27 bp):
CCCTTATATGGTAAAATGACTGTTTTG
Found at i:103891200 original size:81 final size:82
Alignment explanation
Indices: 103891028--103891216 Score: 301
Period size: 81 Copynumber: 2.3 Consensus size: 82
103891018 CGTACCTAGA
* *
103891028 CCCTTA-ATTGGTAAAATGACTGTTTTGTCCTTATATGGTAAAATGGCTGTTTTTGCCCTTATGT
1 CCCTTATA-TGGTAAAATGACTGTTTTGCCCTTATATGGTAAAATGACTGTTTTTGCCCTTATGT
103891092 GGTAAAATGACTATTTTG
65 GGTAAAATGACTATTTTG
* *
103891110 CCCTTATATGGTAAAATGATTGTTTTGCCCTTATGTGGTAAAATGACTG-TTTTGCCCTTATGTG
1 CCCTTATATGGTAAAATGACTGTTTTGCCCTTATATGGTAAAATGACTGTTTTTGCCCTTATGTG
103891174 GTAAAATGACTATTTTG
66 GTAAAATGACTATTTTG
* *
103891191 CTCTTATATGGTAAGATGACTGTTTT
1 CCCTTATATGGTAAAATGACTGTTTT
103891217 TCCTATGTGA
Statistics
Matches: 99, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
81 55 0.56
82 43 0.43
83 1 0.01
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (82 bp):
CCCTTATATGGTAAAATGACTGTTTTGCCCTTATATGGTAAAATGACTGTTTTTGCCCTTATGTG
GTAAAATGACTATTTTG
Found at i:103891513 original size:23 final size:24
Alignment explanation
Indices: 103891481--103891525 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
103891471 ATATCCCCAC
*
103891481 ATGGAATGTAG-GGTTGGATGGAG
1 ATGGAATGTAGAGGCTGGATGGAG
*
103891504 ATGGAGTGTAGAGGCTGGATGG
1 ATGGAATGTAGAGGCTGGATGG
103891526 GTAGGATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.24, C:0.02, G:0.49, T:0.24
Consensus pattern (24 bp):
ATGGAATGTAGAGGCTGGATGGAG
Found at i:103891571 original size:18 final size:18
Alignment explanation
Indices: 103891548--103891592 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
103891538 TACTGTTTAA
103891548 ACTGTTACTACACTGA-TT
1 ACTGTTACTACACT-ATTT
103891566 ACTGTTACTACACTATTT
1 ACTGTTACTACACTATTT
*
103891584 ATTGTTACT
1 ACTGTTACT
103891593 GTAATAGGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 1 0.04
18 24 0.96
ACGTcount: A:0.27, C:0.20, G:0.09, T:0.44
Consensus pattern (18 bp):
ACTGTTACTACACTATTT
Found at i:103895462 original size:64 final size:64
Alignment explanation
Indices: 103895384--103895514 Score: 226
Period size: 64 Copynumber: 2.0 Consensus size: 64
103895374 TAACATTGTC
* * *
103895384 ACTGAATGTGATTGTACTATCTGACTGGAAGGCACTTGTACCCATGAGAATTTCGTTGACTGTG
1 ACTGAATGTAATTGTACTATCTGACTGGAAGGCACTTGTACCCATGAGAATTTCGTAGACTATG
*
103895448 ACTGAATGTAATTGTACTATCTGACTGGAAGGTACTTGTACCCATGAGAATTTCGTAGACTATG
1 ACTGAATGTAATTGTACTATCTGACTGGAAGGCACTTGTACCCATGAGAATTTCGTAGACTATG
103895512 ACT
1 ACT
103895515 ACGACTGACT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (64 bp):
ACTGAATGTAATTGTACTATCTGACTGGAAGGCACTTGTACCCATGAGAATTTCGTAGACTATG
Found at i:103900935 original size:41 final size:42
Alignment explanation
Indices: 103900871--103900991 Score: 156
Period size: 41 Copynumber: 2.9 Consensus size: 42
103900861 TATATCCAGG
* * * * *
103900871 GGTACCGTAGTATAATCAGGGGCATGTATGTGCAATTCAAG-
1 GGTACCGAAGTACAAACAAGGGCACGTATGTGCAATTCAAGA
*
103900912 GGTATCGAAGTACAAACAAGGGCACGTATGTGCAATTC-AGA
1 GGTACCGAAGTACAAACAAGGGCACGTATGTGCAATTCAAGA
* *
103900953 GGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCA
1 GGTACCGAAGTACAAACAAGGGCACGTATGTGCAATTCA
103900992 TCATTAATCT
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
40 2 0.03
41 67 0.97
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.21
Consensus pattern (42 bp):
GGTACCGAAGTACAAACAAGGGCACGTATGTGCAATTCAAGA
Found at i:103901151 original size:41 final size:42
Alignment explanation
Indices: 103901092--103901193 Score: 145
Period size: 41 Copynumber: 2.5 Consensus size: 42
103901082 GTATAATCAG
* * *
103901092 GGGCATGTATGTGTAATTCAAG-GGTATCGAAGTACAAACAA
1 GGGCACGTATGTGCAATTCAAGAGGTACCGAAGTACAAACAA
*
103901133 GGGCACGTATGTGCAATTC-AGAGGTACCGAAGTACAAACAG
1 GGGCACGTATGTGCAATTCAAGAGGTACCGAAGTACAAACAA
*
103901174 GGGCACATATGTGCAATTCA
1 GGGCACGTATGTGCAATTCA
103901194 TCATTAATCT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
40 2 0.04
41 52 0.96
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (42 bp):
GGGCACGTATGTGCAATTCAAGAGGTACCGAAGTACAAACAA
Found at i:103901224 original size:202 final size:203
Alignment explanation
Indices: 103900878--103901284 Score: 762
Period size: 202 Copynumber: 2.0 Consensus size: 203
103900868 AGGGGTACCG
103900878 TAGTATAATCAGGGGCATGTATGTGCAATTCAAGGGTATCGAAGTACAAACAAGGGCACGTATGT
1 TAGTATAATCAGGGGCATGTATGTGCAATTCAAGGGTATCGAAGTACAAACAAGGGCACGTATGT
103900943 GCAATTCAGAGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCATCATTAATCTTCTAAA
66 GCAATTCAGAGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCATCATTAATCTTCTAAA
* * *
103901008 AAATTAATAATTAAAGCATCATAGTACAAGTGCGCAAATAAAAATTTGTTACGTATT-AAAACAC
131 AAATTAATAATTAAAACATCATAGTACAAGTGCACAAATAAAAATTTGTTACGTATTAAAAAAAC
*
103901072 TATGAACT
196 TACGAACT
*
103901080 TAGTATAATCAGGGGCATGTATGTGTAATTCAAGGGTATCGAAGTACAAACAAGGGCACGTATGT
1 TAGTATAATCAGGGGCATGTATGTGCAATTCAAGGGTATCGAAGTACAAACAAGGGCACGTATGT
103901145 GCAATTCAGAGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCATCATTAATCTTCTAAA
66 GCAATTCAGAGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCATCATTAATCTTCTAAA
103901210 AAATTAATAATTAAAACATCATAGTACAAGTGCACAAATAAAAATTTGTTACGTATTAAAAAAAC
131 AAATTAATAATTAAAACATCATAGTACAAGTGCACAAATAAAAATTTGTTACGTATTAAAAAAAC
103901275 TACGAACT
196 TACGAACT
103901283 TA
1 TA
103901285 CCTCAATAAT
Statistics
Matches: 199, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
202 184 0.92
203 15 0.08
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (203 bp):
TAGTATAATCAGGGGCATGTATGTGCAATTCAAGGGTATCGAAGTACAAACAAGGGCACGTATGT
GCAATTCAGAGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCATCATTAATCTTCTAAA
AAATTAATAATTAAAACATCATAGTACAAGTGCACAAATAAAAATTTGTTACGTATTAAAAAAAC
TACGAACT
Found at i:103904973 original size:46 final size:46
Alignment explanation
Indices: 103904921--103905142 Score: 227
Period size: 46 Copynumber: 4.8 Consensus size: 46
103904911 GATATTTGGG
*
103904921 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
1 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* *
103904967 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
1 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* ** * * * *
103905013 CGTTTGAACTCGTTGAGTTGAGTACGAGTTCA-TGA--GATG-TAA
1 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* *
103905055 CTAGGCGGCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 C-A----TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
*** *
103905106 TGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTAT
1 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAT
103905143 AGGCGGGTTA
Statistics
Matches: 145, Mismatches: 22, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
42 3 0.02
43 4 0.03
45 2 0.01
46 104 0.72
47 24 0.17
48 2 0.01
50 4 0.03
51 2 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:103907230 original size:3 final size:3
Alignment explanation
Indices: 103907224--103907264 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
103907214 AGAAAGTATT
103907224 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
103907265 GACAAAGATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:103907297 original size:12 final size:12
Alignment explanation
Indices: 103907224--103907303 Score: 74
Period size: 12 Copynumber: 6.8 Consensus size: 12
103907214 AGAAAGTATT
*
103907224 ATAATAATAATA
1 ATAATAATAAAA
*
103907236 ATAATAATAATA
1 ATAATAATAAAA
*
103907248 ATAATAATAATA
1 ATAATAATAAAA
* * *
103907260 ATAATGACAAAG
1 ATAATAATAAAA
*
103907272 AT-ATAA-AGAA
1 ATAATAATAAAA
103907282 ATAATAATAAAA
1 ATAATAATAAAA
*
103907294 ATAATGATAA
1 ATAATAATAA
103907304 CCATAAAAGT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
10 4 0.07
11 7 0.12
12 46 0.81
ACGTcount: A:0.66, C:0.01, G:0.05, T:0.28
Consensus pattern (12 bp):
ATAATAATAAAA
Found at i:103907318 original size:34 final size:34
Alignment explanation
Indices: 103907247--103907322 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
103907237 TAATAATAAT
* *
103907247 AATAATAATAATAATAATGACAAAGATATAAAGA
1 AATAATAATAAAAATAATGACAAACATATAAAGA
* *
103907281 AATAATAATAAAAATAATGATAACCATA-AAAGTA
1 AATAATAATAAAAATAATGACAAACATATAAAG-A
103907315 AAT-ATAAT
1 AATAATAAT
103907323 TACAGTATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 9 0.24
34 28 0.76
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.25
Consensus pattern (34 bp):
AATAATAATAAAAATAATGACAAACATATAAAGA
Found at i:103908024 original size:3 final size:3
Alignment explanation
Indices: 103908018--103908064 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
103908008 AGAAAGTATT
103908018 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
103908065 GACAAAGATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:103908097 original size:12 final size:12
Alignment explanation
Indices: 103908020--103908103 Score: 82
Period size: 12 Copynumber: 6.9 Consensus size: 12
103908010 AAAGTATTAT
*
103908020 AATAATAATAAT
1 AATAATAATAAA
*
103908032 AATAATAATAAT
1 AATAATAATAAA
*
103908044 AATAATAATAAT
1 AATAATAATAAA
103908056 AATAATAATGACAA
1 AATAATAAT-A-AA
*
103908070 AGAT-ATAA-AGA
1 A-ATAATAATAAA
103908081 AATAATAATAAA
1 AATAATAATAAA
*
103908093 AATAATGATAA
1 AATAATAATAA
103908104 CCATAAAAGT
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
10 2 0.03
11 6 0.10
12 46 0.73
13 1 0.02
14 6 0.10
15 2 0.03
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.27
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:103908118 original size:34 final size:34
Alignment explanation
Indices: 103908047--103908122 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
103908037 TAATAATAAT
* *
103908047 AATAATAATAATAATAATGACAAAGATATAAAGA
1 AATAATAATAAAAATAATGACAAACATATAAAGA
* *
103908081 AATAATAATAAAAATAATGATAACCATA-AAAGTA
1 AATAATAATAAAAATAATGACAAACATATAAAG-A
103908115 AAT-ATAAT
1 AATAATAAT
103908123 TATAGTATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 9 0.24
34 28 0.76
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.25
Consensus pattern (34 bp):
AATAATAATAAAAATAATGACAAACATATAAAGA
Found at i:103908560 original size:798 final size:795
Alignment explanation
Indices: 103907017--103909407 Score: 4379
Period size: 798 Copynumber: 3.0 Consensus size: 795
103907007 TTTTTTAAAA
*
103907017 AAAAACTAGTATCCATTCAAGATAAAATAATATATAAAACTTTTCAGAAGTAATATACAAAATAA
1 AAAAACTAGTATCCATTCAAGATAAAATAATATATAAAACTTTTTAGAAGTAATATACAAAATAA
103907082 TATAATTCTAAAATGCTATACATGAAATGAAAAACTTATTATAAATATATATATATATATAGAAT
66 TATAATTCTAAAATGCTATACATGAAATGAAAAACTTATTAT--ATATATATATATATATAGAAT
103907147 AATAGCAGTAATAATATTGCAAAAATAATTAATATGATAATAAAACAAATATAGTAAGTAAAAAA
129 AATAGCAGTAATAATATTGCAAAAATAATTAATATGATAATAAAACAAATATAGTAAGT-AAAAA
103907212 AAAGAAAGTAT-TATAATAATAATAATAATAATAATAATAATAATAATAATAATGACAAAGATAT
193 AAAGAAAGTATATATAATAATAATAATAATAATAATAATAATAATAATAATAATGACAAAGATAT
*
103907276 AAAGAAATAATAATAAAAATAATGATAACCATAAAAGTAAATATAATTACAGTATAAAAAAATAA
258 AAAGAAATAATAATAAAAATAATGATAACCATAAAAGTAAATATAATTATAGTATAAAAAAATAA
*
103907341 TAATAATAGTGGTAATAATATTAATAAAAAGAATATAAAAAAATGAATGTAATAGTAATATATAA
323 TAATAATAGTGGAAATAATATTAATAAAAAGAATAT-AAAAAATGAATGTAATAGTAATATATAA
103907406 TAATTATGAAATAGTACTAATAATAAAAAATTAGAAGATAATAAAATAATAATAATTAATTAATT
387 TAATTATGAAATAGTACTAATAATAAAAAATTAGAAGATAATAAAATAATAATAATTAATTAATT
*
103907471 TAAAAAATAAAATAGCAAAAAATAACAAAAAAAAGATTAAATCGAACTTAAAATAGAGTTTTAGG
452 TAAAAAATAAAATAGCAAAAAATAAC-GAAAAAAGATTAAATCGAACTTAAAATAGAGTTTTAGG
*
103907536 GCTAATCCGTAATAAAAATAAGGTTAAAGGACCAATTTGCATGCACGAATAACAAGGAGGGACCA
516 GCTAATCCGAAATAAAAATAAGGTTAAAGGACCAATTTGCATGCACGAATAACAAGGAGGGACCA
103907601 AAAGGGTAATAATCCCTTCTCCTCCAAAACGCACAGCATTAGAGAGGACCAAAATGCAATCGAAA
581 AAAGGGTAATAATCCCTTCTCCTCCAAAACGCACAGCATTAGAGAGGACCAAAATGCAATCGAAA
103907666 TAAATCATAGGGCCAAATAAAAAATAACGAAAGTTTTAATTACAAAGCTATAAAAAGCGGAAGGG
646 TAAATCATAGGGCCAAATAAAAAATAACGAAAGTTTTAATTACAAAGCTATAAAAAGCGGAAGGG
* * * *
103907731 CTAAATGCGCAATTATCCCTTCCAATTAAAAACATGCGGATCCTAGGTTGGAGCGGGTCGGGTCA
711 CTAAATGCGCAATTAGCCCTTCCAATTAAAAAGACGCGGATCCTAGGTTGGAGCGGGTCGCGTCA
103907796 GACGGGTCAAGGGCAAAGCG
776 GACGGGTCAAGGGCAAAGCG
* *
103907816 AAAAATTAGTATCCATTCAAGATAAAATAATATGTAAAACTTTTTAGAAGTAATATACAAAATAA
1 AAAAACTAGTATCCATTCAAGATAAAATAATATATAAAACTTTTTAGAAGTAATATACAAAATAA
103907881 TATAATTCTAAAATGCTATACATGAAATGAAAAACTTATTATA-A-ATATATATATATAGAATAA
66 TATAATTCTAAAATGCTATACATGAAATGAAAAACTTATTATATATATATATATATATAGAATAA
103907944 TAGCAGTAATAATATTGCAAAAATAATTAATATGATAATAAAACAAATATAGTAAGTAAAAAAAA
131 TAGCAGTAATAATATTGCAAAAATAATTAATATGATAATAAAACAAATATAGTAAGTAAAAAAAA
103908009 GAAAGTATTATAATAATAATAATAATAATAATAATAATAATAATAATAATAATAATGACAAAGAT
196 GAAAG---TAT-AT-ATAATAATAATAATAATAATAATAATAATAATAATAATAATGACAAAGAT
103908074 ATAAAGAAATAATAATAAAAATAATGATAACCATAAAAGTAAATATAATTATAGTATAAAAAAAT
256 ATAAAGAAATAATAATAAAAATAATGATAACCATAAAAGTAAATATAATTATAGTATAAAAAAAT
103908139 AATAATAATAGTGGAAATAATATTAATAAAAAGAATATAAAAAATGAATGTAATAGTAATATATA
321 AATAATAATAGTGGAAATAATATTAATAAAAAGAATATAAAAAATGAATGTAATAGTAATATATA
103908204 ATAATTATGAAATAGTACTAATAATAAAAAATTAGAAGATAATAAAATAATAATAATTAATTAAT
386 ATAATTATGAAATAGTACTAATAATAAAAAATTAGAAGATAATAAAATAATAATAATTAATTAAT
*
103908269 TTTAAAAATAAAATAGCAAAAAATAACGAAAAAAGATTAAATCGAACTTAAAATAGAGTTTTAGG
451 TTAAAAAATAAAATAGCAAAAAATAACGAAAAAAGATTAAATCGAACTTAAAATAGAGTTTTAGG
103908334 GCTAATCCGAAATAAAAATAAGGTTAAAGGACCAATTTGCATGCACGAATAACAAGGAGGGACCA
516 GCTAATCCGAAATAAAAATAAGGTTAAAGGACCAATTTGCATGCACGAATAACAAGGAGGGACCA
103908399 AAAGGGTAATAATCCCTTCTCCTCCAAAACGCACAGCATTAGAGAGGACCAAAATGCAATCGAAA
581 AAAGGGTAATAATCCCTTCTCCTCCAAAACGCACAGCATTAGAGAGGACCAAAATGCAATCGAAA
103908464 TAAATCATAGGGCCAAATAAAAAATAACGAAAGTTTTAATTACAAAGCTATAAAAAGCGGAAGGG
646 TAAATCATAGGGCCAAATAAAAAATAACGAAAGTTTTAATTACAAAGCTATAAAAAGCGGAAGGG
103908529 CTAAATGCGCAATTAGCCCTTCCAATTAAAAAGACGCGGATCCTAGGTTGGAGCGGGTCGCGTCA
711 CTAAATGCGCAATTAGCCCTTCCAATTAAAAAGACGCGGATCCTAGGTTGGAGCGGGTCGCGTCA
103908594 GACGGGTCAAGGGCAAAGCG
776 GACGGGTCAAGGGCAAAGCG
*
103908614 AAAAACTAGTATCCATTCAAGATAAAATAATATATAAAACTGTTTAGAAGTAATATACAAAATAA
1 AAAAACTAGTATCCATTCAAGATAAAATAATATATAAAACTTTTTAGAAGTAATATACAAAATAA
*
103908679 TATAATTTTAAAATGCTATACATGAAATGAAAAACTTATTATAAATATATATATATATATATAGA
66 TATAATTCTAAAATGCTATACATGAAATGAAAAACTTA-T-T--ATATATATATATATATATAGA
*
103908744 ATAATAGCAGTAATAATATTGCAAAAATAATTAATATGATAATAAGACAAATATAGTAAGTAAAA
127 ATAATAGCAGTAATAATATTGCAAAAATAATTAATATGATAATAAAACAAATATAGTAAGTAAAA
103908809 AAAAGAAAG--TAT-T-ATAATAATAATAATAATAATAATAATAATAATAATAATGACAAAGATA
192 AAAAGAAAGTATATATAATAATAATAATAATAATAATAATAATAATAATAATAATGACAAAGATA
103908870 TAAAGAAATAATAATAAAAATAATGATAACCATAAAAGTAAATATAATTATAGTAT-AAAAAATA
257 TAAAGAAATAATAATAAAAATAATGATAACCATAAAAGTAAATATAATTATAGTATAAAAAAATA
*
103908934 ATAATAATAGTAGAAATAATATTAATAAAAAGAATATAAAAAATGAATGTAATAGTAATATATAA
322 ATAATAATAGTGGAAATAATATTAATAAAAAGAATATAAAAAATGAATGTAATAGTAATATATAA
103908999 TAATTATGAAATAGTACTAATAATAAAAAATTAGAAGATAATAAAATAATAATAATTAATTAATT
387 TAATTATGAAATAGTACTAATAATAAAAAATTAGAAGATAATAAAATAATAATAATTAATTAATT
*
103909064 TAAAAAATAAAATAGAAAAAAATAACGAAAAAAAGATTAAATCGAACTTAAAATAGAGTTTTAGG
452 TAAAAAATAAAATAGCAAAAAATAACG-AAAAAAGATTAAATCGAACTTAAAATAGAGTTTTAGG
*
103909129 GCTAATCTGAAATAAAAATAAGGTTAAAGGACCAATTTGCATGCACGAATAACAAGGAGGGACCA
516 GCTAATCCGAAATAAAAATAAGGTTAAAGGACCAATTTGCATGCACGAATAACAAGGAGGGACCA
* *
103909194 AAAGGGTAATAATCCCTTCTCCTCCAAAATGCACAGCATT--AGAGGACCAAAATGCAATTGAAA
581 AAAGGGTAATAATCCCTTCTCCTCCAAAACGCACAGCATTAGAGAGGACCAAAATGCAATCGAAA
* *
103909257 TAAATCATAGAGCCAAATTAAAAATAACGAAAGTTTTAATTACAAAGCTATAAAAAGCGGAAGGG
646 TAAATCATAGGGCCAAATAAAAAATAACGAAAGTTTTAATTACAAAGCTATAAAAAGCGGAAGGG
103909322 CTAAATGCGCAATTAGCCCTTCCAATTAAAAAGACGCGGATCCTAGGTTGGAGCGGGTCGCGTCA
711 CTAAATGCGCAATTAGCCCTTCCAATTAAAAAGACGCGGATCCTAGGTTGGAGCGGGTCGCGTCA
103909387 GACGGGTCAAGGGCAAAGCG
776 GACGGGTCAAGGGCAAAGCG
103909407 A
1 A
103909408 CGTTGTTTTA
Statistics
Matches: 1554, Mismatches: 25, Indels: 32
0.96 0.02 0.02
Matches are distributed among these distances:
793 171 0.11
794 175 0.11
795 320 0.21
796 2 0.00
797 4 0.00
798 413 0.27
799 225 0.14
800 152 0.10
802 3 0.00
803 1 0.00
804 88 0.06
ACGTcount: A:0.52, C:0.09, G:0.13, T:0.25
Consensus pattern (795 bp):
AAAAACTAGTATCCATTCAAGATAAAATAATATATAAAACTTTTTAGAAGTAATATACAAAATAA
TATAATTCTAAAATGCTATACATGAAATGAAAAACTTATTATATATATATATATATATAGAATAA
TAGCAGTAATAATATTGCAAAAATAATTAATATGATAATAAAACAAATATAGTAAGTAAAAAAAA
GAAAGTATATATAATAATAATAATAATAATAATAATAATAATAATAATAATGACAAAGATATAAA
GAAATAATAATAAAAATAATGATAACCATAAAAGTAAATATAATTATAGTATAAAAAAATAATAA
TAATAGTGGAAATAATATTAATAAAAAGAATATAAAAAATGAATGTAATAGTAATATATAATAAT
TATGAAATAGTACTAATAATAAAAAATTAGAAGATAATAAAATAATAATAATTAATTAATTTAAA
AAATAAAATAGCAAAAAATAACGAAAAAAGATTAAATCGAACTTAAAATAGAGTTTTAGGGCTAA
TCCGAAATAAAAATAAGGTTAAAGGACCAATTTGCATGCACGAATAACAAGGAGGGACCAAAAGG
GTAATAATCCCTTCTCCTCCAAAACGCACAGCATTAGAGAGGACCAAAATGCAATCGAAATAAAT
CATAGGGCCAAATAAAAAATAACGAAAGTTTTAATTACAAAGCTATAAAAAGCGGAAGGGCTAAA
TGCGCAATTAGCCCTTCCAATTAAAAAGACGCGGATCCTAGGTTGGAGCGGGTCGCGTCAGACGG
GTCAAGGGCAAAGCG
Found at i:103908828 original size:3 final size:3
Alignment explanation
Indices: 103908822--103909054 Score: 81
Period size: 3 Copynumber: 81.7 Consensus size: 3
103908812 AGAAAGTATT
* *
103908822 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG ACA A-A GAT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * **
103908869 ATA A-A GA-A ATA ATA ATA AAA ATA ATG ATA ACC ATA A-A AGTA A-A
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
* * *
103908912 TATA ATT ATA GT- ATA A-A A-A ATA ATA ATA ATA GTA GA-A ATA ATA
1 -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
* * * * *
103908955 TTA ATA AAA AGA AT- ATA A-A A-A ATGA AT- GTA ATA GTA ATA TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA -ATA
* * * * * * *
103908998 ATA ATT ATG A-A ATA GTA CTA ATA ATA A-A A-A ATT AGA A-G ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
103909042 A-A ATA ATA ATA AT
1 ATA ATA ATA ATA AT
103909055 TAATTAATTT
Statistics
Matches: 171, Mismatches: 37, Indels: 44
0.68 0.15 0.17
Matches are distributed among these distances:
2 29 0.17
3 133 0.78
4 9 0.05
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:103908913 original size:34 final size:34
Alignment explanation
Indices: 103908842--103908917 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
103908832 TAATAATAAT
* *
103908842 AATAATAATAATAATAATGACAAAGATATAAAGA
1 AATAATAATAAAAATAATGACAAACATATAAAGA
* *
103908876 AATAATAATAAAAATAATGATAACCATA-AAAGTA
1 AATAATAATAAAAATAATGACAAACATATAAAG-A
103908910 AAT-ATAAT
1 AATAATAAT
103908918 TATAGTATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 9 0.24
34 28 0.76
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.25
Consensus pattern (34 bp):
AATAATAATAAAAATAATGACAAACATATAAAGA
Found at i:103923959 original size:29 final size:30
Alignment explanation
Indices: 103923903--103923974 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 30
103923893 CTTATATTTT
* *
103923903 TAAATTTAAAAATCAAAAGGGCTAATTTCA
1 TAAAATTAAAAATCAAAAGGACTAATTTCA
103923933 TAAAATTAAAAAT-AAAA-GACTAGATTTCA
1 TAAAATTAAAAATCAAAAGGACTA-ATTTCA
*
103923962 -AATATATAAAAAT
1 TAAAAT-TAAAAAT
103923975 TATATGTACT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 8 0.22
29 17 0.46
30 12 0.32
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (30 bp):
TAAAATTAAAAATCAAAAGGACTAATTTCA
Found at i:103930743 original size:26 final size:26
Alignment explanation
Indices: 103930707--103930757 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
103930697 AGCATTACTA
103930707 GACTTATAAAACAATTATACAAACTG
1 GACTTATAAAACAATTATACAAACTG
103930733 GACTTATAAAACAATTATACAAACT
1 GACTTATAAAACAATTATACAAACT
103930758 TATAAAATAA
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:0.51, C:0.16, G:0.06, T:0.27
Consensus pattern (26 bp):
GACTTATAAAACAATTATACAAACTG
Found at i:103930758 original size:21 final size:22
Alignment explanation
Indices: 103930706--103930775 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 22
103930696 GAGCATTACT
103930706 AGACTTATAAAACAATTATACAA
1 AGACTTATAAAACAATTATAC-A
103930729 ACTGGACTTATAAAACAATTATACA
1 A---GACTTATAAAACAATTATACA
*
103930754 A-ACTTATAAAATAATTATACA
1 AGACTTATAAAACAATTATACA
103930775 A
1 A
103930776 TCACTTCGTC
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
21 20 0.47
23 1 0.02
25 2 0.05
26 20 0.47
ACGTcount: A:0.54, C:0.13, G:0.04, T:0.29
Consensus pattern (22 bp):
AGACTTATAAAACAATTATACA
Found at i:103933106 original size:12 final size:12
Alignment explanation
Indices: 103933089--103933121 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
103933079 CGGCCCGCCC
103933089 ATATTAATTTTT
1 ATATTAATTTTT
103933101 ATATT-ATTTTT
1 ATATTAATTTTT
103933112 ATA-TAATTTT
1 ATATTAATTTT
103933122 AAAAAATATA
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:103937550 original size:21 final size:20
Alignment explanation
Indices: 103937526--103937565 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
103937516 TGGATGAATT
*
103937526 TGATATATTTATGAAGTTTTA
1 TGATAGATTT-TGAAGTTTTA
*
103937547 TGATAGATTTTTAAGTTTT
1 TGATAGATTTTGAAGTTTT
103937566 GTTGTTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (20 bp):
TGATAGATTTTGAAGTTTTA
Found at i:103938423 original size:45 final size:45
Alignment explanation
Indices: 103938359--103938499 Score: 151
Period size: 45 Copynumber: 3.1 Consensus size: 45
103938349 TGAGTCGGTT
* *
103938359 CATCATTATTCAAACGAGTAAGACCATAGCTGAAAGACGCTATGG
1 CATCATGATTCAAACGAGTAAGACCATAGCTGAAAGACACTATGG
* * *
103938404 CATCATGATTCAGATGAGTAAGACCATAGTTGAAAGACACTATGG
1 CATCATGATTCAAACGAGTAAGACCATAGCTGAAAGACACTATGG
* * * * *
103938449 CATCCT-A-TCGAAAATGAATAAGACCATGGTTGAAAGACACTATGG
1 CATCATGATTC--AAACGAGTAAGACCATAGCTGAAAGACACTATGG
*
103938494 GATCAT
1 CATCAT
103938500 ATCGAAAAAT
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
43 2 0.02
44 1 0.01
45 80 0.96
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (45 bp):
CATCATGATTCAAACGAGTAAGACCATAGCTGAAAGACACTATGG
Found at i:103938503 original size:45 final size:45
Alignment explanation
Indices: 103938377--103938632 Score: 320
Period size: 46 Copynumber: 5.6 Consensus size: 45
103938367 TTCAAACGAG
* * * * *
103938377 TAAGACCATAGCTGAAAGACGCTATGGCATCATGATTC--AGATGAG
1 TAAGACCATGGTTGAAAGACACTATGGCATCAT-A-TCGAAAATGAA
* *
103938422 TAAGACCATAGTTGAAAGACACTATGGCATCCTATCGAAAATGAA
1 TAAGACCATGGTTGAAAGACACTATGGCATCATATCGAAAATGAA
*
103938467 TAAGACCATGGTTGAAAGACACTATGGGATCATATCGAAAAATGAA
1 TAAGACCATGGTTGAAAGACACTATGGCATCATATCG-AAAATGAA
*
103938513 TTAGACCATGGTTGAAAGA-ACCTATGGCATCATATCAGAAAATGAA
1 TAAGACCATGGTTGAAAGACA-CTATGGCATCATATC-GAAAATGAA
* * *
103938559 TAAAACCATGGTTGAAAGGCACTATGGCATCATATCGAAAAGAGAA
1 TAAGACCATGGTTGAAAGACACTATGGCATCATATCGAAAA-TGAA
*
103938605 TAAGACCATGGTTGAAAGACATTATGGC
1 TAAGACCATGGTTGAAAGACACTATGGC
103938633 TTCCTTCAAT
Statistics
Matches: 187, Mismatches: 17, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
43 2 0.01
44 1 0.01
45 75 0.40
46 107 0.57
47 2 0.01
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (45 bp):
TAAGACCATGGTTGAAAGACACTATGGCATCATATCGAAAATGAA
Found at i:103941913 original size:21 final size:21
Alignment explanation
Indices: 103941872--103941913 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
103941862 GCTTTCTCCT
* *
103941872 CAGAACCTTAACGTCTCGCTC
1 CAGAACCTGAACGGCTCGCTC
103941893 CAGAACCTGAACCGGCT-GCTC
1 CAGAACCTGAA-CGGCTCGCTC
103941914 TTCAAAGGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.24, C:0.38, G:0.19, T:0.19
Consensus pattern (21 bp):
CAGAACCTGAACGGCTCGCTC
Found at i:103944215 original size:18 final size:18
Alignment explanation
Indices: 103944182--103944216 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
103944172 TTGAAAGAGC
*
103944182 AAAAGAAAACACAGATTG
1 AAAAGAAAAAACAGATTG
*
103944200 AAAAGAAAAAATAGATT
1 AAAAGAAAAAACAGATT
103944217 TTAGAAGCAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.06, G:0.14, T:0.14
Consensus pattern (18 bp):
AAAAGAAAAAACAGATTG
Found at i:103948166 original size:14 final size:15
Alignment explanation
Indices: 103948135--103948167 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
103948125 AAGTTAATAA
*
103948135 TTTAATTTAAGCATT
1 TTTAATTCAAGCATT
103948150 TTTAATTCAAG-ATT
1 TTTAATTCAAGCATT
103948164 TTTA
1 TTTA
103948168 GCTTTGCCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (15 bp):
TTTAATTCAAGCATT
Found at i:103948583 original size:17 final size:17
Alignment explanation
Indices: 103948561--103948607 Score: 94
Period size: 17 Copynumber: 2.8 Consensus size: 17
103948551 GCACTTATTT
103948561 TTAAGTGTGAACACTTC
1 TTAAGTGTGAACACTTC
103948578 TTAAGTGTGAACACTTC
1 TTAAGTGTGAACACTTC
103948595 TTAAGTGTGAACA
1 TTAAGTGTGAACA
103948608 TGCTCTCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (17 bp):
TTAAGTGTGAACACTTC
Found at i:103951646 original size:13 final size:13
Alignment explanation
Indices: 103951630--103951657 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
103951620 ATGTTATAAA
103951630 ATATTATTATATT
1 ATATTATTATATT
103951643 ATATTATTATATT
1 ATATTATTATATT
103951656 AT
1 AT
103951658 TATAATTAAA
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:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
ATATTATTATATT
Found at i:103954743 original size:17 final size:17
Alignment explanation
Indices: 103954723--103954765 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
103954713 TTAAAAAATT
103954723 TAAATATATATAAATAA
1 TAAATATATATAAATAA
*
103954740 TAAAAATGA-ATAAATAA
1 TAAATAT-ATATAAATAA
*
103954757 AAAATATAT
1 TAAATATAT
103954766 TACAAAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
16 1 0.05
17 19 0.90
18 1 0.05
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (17 bp):
TAAATATATATAAATAA
Found at i:103954778 original size:19 final size:17
Alignment explanation
Indices: 103954751--103954789 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
103954741 AAAAATGAAT
103954751 AAATAAAAAATATATTACA
1 AAATAAAAAA-A-ATTACA
*
103954770 AAATTAAAAAAATTACA
1 AAATAAAAAAAATTACA
103954787 AAA
1 AAA
103954790 ATAATTGCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 1 0.05
19 9 0.47
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (17 bp):
AAATAAAAAAAATTACA
Found at i:103963626 original size:126 final size:126
Alignment explanation
Indices: 103963390--103963773 Score: 443
Period size: 126 Copynumber: 3.1 Consensus size: 126
103963380 GCCAATCATT
* * * ** * ** * *
103963390 AACTACTGTAGAAAAAGAGCGTCCATGTGGGAG-TTTTTTTAGAAAATTTT-CCAATATTGCATC
1 AACTACTGTAGAAAAAGAGAGTCCACGTGAGAGCTTTTTTCCG-TAATTTTGCTGACACTGCATC
* * * * * *
103963453 CTGCTTGAAACATTTTTGACATTATTTGTTTAGAAACATCTTTTCAAAATTATTTTTTCAAG
65 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAG
** * * *
103963515 AACTACTGTAGAAAAAGAGCA-TCTGCGTGGGAGC-TTTTTCCTGTAATTTTGCTGGCAGTGCAT
1 AACTACTGTAGAAAAAGAG-AGTCCACGTGAGAGCTTTTTTCC-GTAATTTTGCTGACACTGCAT
* * *
103963578 CCTACTTGAAGCGTTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCATG
64 CCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAG
* * *
103963641 AACTACTGTAGAAAAAGAGAGTCCACGTGATAGCTTTTTTCCGTAATTTTGCTGATACTACATCC
1 AACTACTGTAGAAAAAGAGAGTCCACGTGAGAGCTTTTTTCCGTAATTTTGCTGACACTGCATCC
* * *
103963706 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTTTTCTCAAAATTATTTTTTTAGG
66 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAG
103963767 AACTACT
1 AACTACT
103963774 TGTAATACCC
Statistics
Matches: 219, Mismatches: 34, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
125 40 0.18
126 172 0.79
127 7 0.03
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (126 bp):
AACTACTGTAGAAAAAGAGAGTCCACGTGAGAGCTTTTTTCCGTAATTTTGCTGACACTGCATCC
TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAG
Found at i:103965588 original size:2 final size:2
Alignment explanation
Indices: 103965581--103965605 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
103965571 CTTTCCTTAC
103965581 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
103965606 ATAAATAATA
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:103966388 original size:30 final size:30
Alignment explanation
Indices: 103966354--103966421 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
103966344 TGGCCCAAGA
*
103966354 GTAAATACTCAAAA-TTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTT-AAGGACTAATAGT
*
103966384 GTAAATATGAAAAGTTTAAGGACTAATAGT
1 GTAAATATCAAAAGTTTAAGGACTAATAGT
*
103966414 GAAAATAT
1 GTAAATAT
103966422 TTTAAGGATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 13 0.39
30 20 0.61
ACGTcount: A:0.49, C:0.04, G:0.18, T:0.29
Consensus pattern (30 bp):
GTAAATATCAAAAGTTTAAGGACTAATAGT
Found at i:103968854 original size:46 final size:46
Alignment explanation
Indices: 103968806--103969079 Score: 388
Period size: 46 Copynumber: 6.0 Consensus size: 46
103968796 GCTCTTTGAT
* *
103968806 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
103968852 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
103968898 ATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
103968944 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
103968990 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
103969036 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
103969080 TCAAAGATAA
Statistics
Matches: 211, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 210 1.00
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:103971809 original size:30 final size:30
Alignment explanation
Indices: 103971775--103971842 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
103971765 TGGCCCAAGA
*
103971775 GTAAATACTCAAAA-TTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTT-AAGGACTAATAGT
*
103971805 GTAAATATGAAAAGTTTAAGGACTAATAGT
1 GTAAATATCAAAAGTTTAAGGACTAATAGT
*
103971835 GAAAATAT
1 GTAAATAT
103971843 TTTAAGGATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 13 0.39
30 20 0.61
ACGTcount: A:0.49, C:0.04, G:0.18, T:0.29
Consensus pattern (30 bp):
GTAAATATCAAAAGTTTAAGGACTAATAGT
Found at i:103973138 original size:55 final size:55
Alignment explanation
Indices: 103973079--103973182 Score: 136
Period size: 55 Copynumber: 1.9 Consensus size: 55
103973069 AATTTAATTA
** * * *
103973079 AATTTAACCCTAAACCCTACACCCTAATTTAATTTATTTAAAACCTTAAAACTCT
1 AATTTAACCAAAAACCATAAACCCTAATTTAACTTATTTAAAACCTTAAAACTCT
* * *
103973134 AATTTATCTAAAAACCATAAACCCTAATTTAACTTATTTAAAACGTTAA
1 AATTTAACCAAAAACCATAAACCCTAATTTAACTTATTTAAAACCTTAA
103973183 TTTATTTAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 41 1.00
ACGTcount: A:0.43, C:0.21, G:0.01, T:0.35
Consensus pattern (55 bp):
AATTTAACCAAAAACCATAAACCCTAATTTAACTTATTTAAAACCTTAAAACTCT
Found at i:103973154 original size:26 final size:24
Alignment explanation
Indices: 103973108--103973164 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
103973098 CACCCTAATT
* * *
103973108 TAATTTATTTAAAACCTTAAAACTC
1 TAATTTATTAAAAACCAT-AAACCC
103973133 TAATTTATCTAAAAACCATAAACCC
1 TAATTTAT-TAAAAACCATAAACCC
103973158 TAATTTA
1 TAATTTA
103973165 ACTTATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 20 0.71
26 8 0.29
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.37
Consensus pattern (24 bp):
TAATTTATTAAAAACCATAAACCC
Found at i:103973187 original size:17 final size:17
Alignment explanation
Indices: 103973162--103973208 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
103973152 AAACCCTAAT
103973162 TTAACTTATTTAAAACG
1 TTAACTTATTTAAAACG
* *
103973179 TTAATTTATTTAAAACC
1 TTAACTTATTTAAAACG
*
103973196 CTAACTTAATTTA
1 TTAACTT-ATTTA
103973209 TTTAAAACCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 20 0.80
18 5 0.20
ACGTcount: A:0.40, C:0.13, G:0.02, T:0.45
Consensus pattern (17 bp):
TTAACTTATTTAAAACG
Found at i:103973204 original size:22 final size:22
Alignment explanation
Indices: 103973179--103973221 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
103973169 ATTTAAAACG
103973179 TTAATTTATTTAAAACCCTAAC
1 TTAATTTATTTAAAACCCTAAC
103973201 TTAATTTATTTAAAACCCTAA
1 TTAATTTATTTAAAACCCTAA
103973222 AAACCCTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAATTTATTTAAAACCCTAAC
Found at i:103973227 original size:31 final size:34
Alignment explanation
Indices: 103973190--103973258 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 34
103973180 TAATTTATTT
103973190 AAAACCCT-A-ACTTAATTTATTTAA-AACCCTA
1 AAAACCCTAATACTTAATTTATTTAACAACCCTA
*
103973221 AAAACCCTAATTTACTTAATTTATTTAACAATCCTA
1 AAAACCCTAA--TACTTAATTTATTTAACAACCCTA
103973257 AA
1 AA
103973259 CCTTAATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
31 8 0.25
32 1 0.03
35 15 0.47
36 8 0.25
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.35
Consensus pattern (34 bp):
AAAACCCTAATACTTAATTTATTTAACAACCCTA
Found at i:103973266 original size:34 final size:34
Alignment explanation
Indices: 103973199--103973268 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 34
103973189 TAAAACCCTA
103973199 ACTTAATTTATTTAAAACCCTAAAAACCCTAATTT
1 ACTTAATTTATTTAAAACCCT-AAAACCCTAATTT
* *
103973234 ACTTAATTTATTTAACAATCCT-AAACCTTAATTT
1 ACTTAATTTATTTAA-AACCCTAAAACCCTAATTT
103973268 A
1 A
103973269 AATAATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
34 12 0.38
35 15 0.47
36 5 0.16
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.40
Consensus pattern (34 bp):
ACTTAATTTATTTAAAACCCTAAAACCCTAATTT
Found at i:103973275 original size:34 final size:34
Alignment explanation
Indices: 103973202--103973284 Score: 89
Period size: 34 Copynumber: 2.4 Consensus size: 34
103973192 AACCCTAACT
**
103973202 TAATTTATTTAAAACCCTAAAAACCCTAATTTACT
1 TAATTTATTTAAAACCCT-AAAACCCTAATTTAAA
* *
103973237 TAATTTATTTAACAATCCT-AAACCTTAATTTAAA
1 TAATTTATTTAA-AACCCTAAAACCCTAATTTAAA
103973271 TAATTT-TTATAAAA
1 TAATTTATT-TAAAA
103973285 TAACACTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
33 4 0.10
34 21 0.50
35 12 0.29
36 5 0.12
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (34 bp):
TAATTTATTTAAAACCCTAAAACCCTAATTTAAA
Found at i:103975128 original size:21 final size:21
Alignment explanation
Indices: 103975103--103975155 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
103975093 AGCGGTGGCG
*
103975103 GTGAGATTAGTTACTGTAGC-
1 GTGAGATTAGATACTGTAGCA
103975123 GATGAGATTAGATACTGTAGCA
1 G-TGAGATTAGATACTGTAGCA
103975145 GTGAGATTAGA
1 GTGAGATTAGA
103975156 AACAGCGGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 1 0.03
21 28 0.93
22 1 0.03
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCA
Found at i:103975696 original size:11 final size:11
Alignment explanation
Indices: 103975680--103975705 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
103975670 CCGTTTCACT
103975680 ATTGCAGTGAG
1 ATTGCAGTGAG
103975691 ATTGCAGTGAG
1 ATTGCAGTGAG
103975702 ATTG
1 ATTG
103975706 AATTTCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.08, G:0.35, T:0.31
Consensus pattern (11 bp):
ATTGCAGTGAG
Found at i:103980090 original size:2 final size:2
Alignment explanation
Indices: 103980071--103980111 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
103980061 ATATTAAAAC
* *
103980071 TA TA T- TA TA AA T- TA TA TA TA TT 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
103980111 T
1 T
103980112 TAATTCACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:103981097 original size:30 final size:30
Alignment explanation
Indices: 103981061--103981123 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
103981051 AAAGCGTACA
*
103981061 GCTACTGGATTGCTTGGTCACTTGCATGCT
1 GCTACTGGACTGCTTGGTCACTTGCATGCT
103981091 GCTACTGGACTGCTTGGTCACTTGCATGCT
1 GCTACTGGACTGCTTGGTCACTTGCATGCT
103981121 GCT
1 GCT
103981124 GCATTTCATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.13, C:0.25, G:0.27, T:0.35
Consensus pattern (30 bp):
GCTACTGGACTGCTTGGTCACTTGCATGCT
Done.