Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 144 of 186
Found at i:47561205 original size:45 final size:46
Alignment explanation
Indices: 47561150--47561238 Score: 126
Period size: 46 Copynumber: 2.0 Consensus size: 46
47561140 TAAAACTATC
* * *
47561150 ACCCACCAAACATAAC-TAATTTACCCTCCAAACACAACCATATGT
1 ACCCACCAAACATAACAAAATATACCCTCCAAACAAAACCATATGT
* *
47561195 ACCCTCCAAACATAACAAAATATACCCTCTAAACAAAACCATAT
1 ACCCACCAAACATAACAAAATATACCCTCCAAACAAAACCATAT
47561239 ATATAAGCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
45 15 0.39
46 23 0.61
ACGTcount: A:0.46, C:0.34, G:0.01, T:0.19
Consensus pattern (46 bp):
ACCCACCAAACATAACAAAATATACCCTCCAAACAAAACCATATGT
Found at i:47561280 original size:23 final size:22
Alignment explanation
Indices: 47561150--47561289 Score: 93
Period size: 23 Copynumber: 6.1 Consensus size: 22
47561140 TAAAACTATC
* * * *
47561150 ACCCACCAAACATAACTAATTT
1 ACCCTCCAAACACAACCAATAT
*
47561172 ACCCTCCAAACACAACCATATGT
1 ACCCTCCAAACACAACCA-ATAT
* *
47561195 ACCCTCCAAACATAACAAAATAT
1 ACCCTCCAAACACAAC-CAATAT
* *
47561218 ACCCTCTAAACAAAACCATATATAT
1 ACCCTCCAAACACAACC--A-ATAT
* * **
47561243 AAGCTTTGAAA-ACAACCAAGTAT
1 -ACCCTCCAAACACAACCAA-TAT
47561266 ACCCTCCAAACACAACCAATAT
1 ACCCTCCAAACACAACCAATAT
47561288 AC
1 AC
47561290 ACTTCAACAT
Statistics
Matches: 91, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
22 27 0.30
23 47 0.52
24 2 0.02
25 9 0.10
26 6 0.07
ACGTcount: A:0.46, C:0.31, G:0.03, T:0.19
Consensus pattern (22 bp):
ACCCTCCAAACACAACCAATAT
Found at i:47570929 original size:45 final size:46
Alignment explanation
Indices: 47570874--47570962 Score: 126
Period size: 46 Copynumber: 2.0 Consensus size: 46
47570864 TAAAACTATC
* * *
47570874 ACCCACCAAACATAAC-TAATTTACCCTCCAAACACAACCATATGT
1 ACCCACCAAACATAACAAAATATACCCTCCAAACAAAACCATATGT
* *
47570919 ACCCTCCAAACATAACAAAATATACCCTCTAAACAAAACCATAT
1 ACCCACCAAACATAACAAAATATACCCTCCAAACAAAACCATAT
47570963 ATATAAGCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
45 15 0.39
46 23 0.61
ACGTcount: A:0.46, C:0.34, G:0.01, T:0.19
Consensus pattern (46 bp):
ACCCACCAAACATAACAAAATATACCCTCCAAACAAAACCATATGT
Found at i:47571004 original size:23 final size:22
Alignment explanation
Indices: 47570874--47571013 Score: 93
Period size: 23 Copynumber: 6.1 Consensus size: 22
47570864 TAAAACTATC
* * * *
47570874 ACCCACCAAACATAACTAATTT
1 ACCCTCCAAACACAACCAATAT
*
47570896 ACCCTCCAAACACAACCATATGT
1 ACCCTCCAAACACAACCA-ATAT
* *
47570919 ACCCTCCAAACATAACAAAATAT
1 ACCCTCCAAACACAAC-CAATAT
* *
47570942 ACCCTCTAAACAAAACCATATATAT
1 ACCCTCCAAACACAACC--A-ATAT
* * **
47570967 AAGCTTTGAAA-ACAACCAAGTAT
1 -ACCCTCCAAACACAACCAA-TAT
47570990 ACCCTCCAAACACAACCAATAT
1 ACCCTCCAAACACAACCAATAT
47571012 AC
1 AC
47571014 ACTTCAACAT
Statistics
Matches: 91, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
22 27 0.30
23 47 0.52
24 2 0.02
25 9 0.10
26 6 0.07
ACGTcount: A:0.46, C:0.31, G:0.03, T:0.19
Consensus pattern (22 bp):
ACCCTCCAAACACAACCAATAT
Found at i:47577314 original size:43 final size:43
Alignment explanation
Indices: 47577253--47577338 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
47577243 GTTACATGAA
* *
47577253 TCGCATCCATTATGAACTCGAACCTCTCAACGAGCTCAGATGC
1 TCGCATCCATAATGAACTCAAACCTCTCAACGAGCTCAGATGC
* *
47577296 TCGCATCCATAATGAACTCAAACCTCTCAATGAGCTCGGATGC
1 TCGCATCCATAATGAACTCAAACCTCTCAACGAGCTCAGATGC
47577339 CTCATAGATC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.23
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCAAACCTCTCAACGAGCTCAGATGC
Found at i:47597060 original size:27 final size:27
Alignment explanation
Indices: 47597029--47597179 Score: 178
Period size: 27 Copynumber: 5.6 Consensus size: 27
47597019 TAAATTGTAC
47597029 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
47597056 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
47597082 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
47597110 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
47597138 AGCACTAAGTGTGCGATTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
47597165 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47597180 GACTAAAAAT
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
27 82 0.78
28 23 0.22
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:47597143 original size:82 final size:81
Alignment explanation
Indices: 47597030--47597179 Score: 230
Period size: 82 Copynumber: 1.8 Consensus size: 81
47597020 AAATTGTACA
*
47597030 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATAT-ATAGCACTAAGTG
47597094 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** * *
47597111 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATATAGCACTGAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTG
47597176 TGCG
65 TGCG
47597180 GACTAAAAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 17 0.27
82 45 0.73
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:47600775 original size:24 final size:22
Alignment explanation
Indices: 47600710--47600782 Score: 53
Period size: 23 Copynumber: 3.2 Consensus size: 22
47600700 CTTAACCTGA
* *
47600710 AATT-TTTTAATTATAATTATTTC
1 AATTATTTTAA-T-TAATTAATCC
*
47600733 AA-TATTTTATTTAATTAATTCC
1 AATTATTTTAATTAATTAA-TCC
47600755 TAATTATTTTAATT-ATCTAATCC
1 -AATTATTTTAATTAAT-TAATCC
47600778 AATTA
1 AATTA
47600783 CAGTTTTTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.15
22 9 0.22
23 14 0.34
24 12 0.29
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (22 bp):
AATTATTTTAATTAATTAATCC
Found at i:47601437 original size:3 final size:3
Alignment explanation
Indices: 47601424--47601453 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
47601414 TGGTCTCTTA
*
47601424 AAT ATT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
47601454 CTATACTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:47601607 original size:20 final size:20
Alignment explanation
Indices: 47601570--47601608 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
47601560 TTTATCACCT
*
47601570 AAAAATATTAATATTTTTAA
1 AAAAATATAAATATTTTTAA
47601590 AAAAATAATAAAT-TTTTTA
1 AAAAAT-ATAAATATTTTTA
47601609 TATTTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAAATATAAATATTTTTAA
Found at i:47601625 original size:19 final size:18
Alignment explanation
Indices: 47601602--47601672 Score: 63
Period size: 19 Copynumber: 3.8 Consensus size: 18
47601592 AAATAATAAA
*
47601602 TTTTTTATATTTTTATAT
1 TTTTTTATAATTTTATAT
*
47601620 TATTTTTGTAATTTTATA-
1 T-TTTTTATAATTTTATAT
* *
47601638 TTTTTTCTACTTTTAAATAT
1 TTTTTTATAATTTT--ATAT
47601658 TGTTTTTATAATTTT
1 T-TTTTTATAATTTT
47601673 TTAAACTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
17 11 0.26
18 2 0.05
19 17 0.40
20 1 0.02
21 11 0.26
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTTTTATAATTTTATAT
Found at i:47601684 original size:21 final size:20
Alignment explanation
Indices: 47601648--47601704 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
47601638 TTTTTTCTAC
*
47601648 TTTTAAATATTGTTTTTATAATT
1 TTTTAAA-ATT-TTTTTATAA-A
* *
47601671 TTTTAAACTTTTTTTCTAAA
1 TTTTAAAATTTTTTTATAAA
47601691 TTTTAAAATTTTTT
1 TTTTAAAATTTTTT
47601705 AAAAGTTTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 13 0.43
21 8 0.27
22 2 0.07
23 7 0.23
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTAAAATTTTTTTATAAA
Found at i:47602679 original size:12 final size:12
Alignment explanation
Indices: 47602662--47602704 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
47602652 AAAAATATAT
47602662 AATATTTATTTA
1 AATATTTATTTA
*
47602674 AATATTTATATA
1 AATATTTATTTA
*
47602686 TAATATTAATTTA
1 -AATATTTATTTA
*
47602699 TATATT
1 AATATT
47602705 AATAAATTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AATATTTATTTA
Found at i:47602686 original size:25 final size:25
Alignment explanation
Indices: 47602656--47602704 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
47602646 ACCATAAAAA
*
47602656 ATATATAATATTTATTTAAATATTT
1 ATATATAATATTAATTTAAATATTT
*
47602681 ATATATAATATTAATTTATATATT
1 ATATATAATATTAATTTAAATATT
47602705 AATAAATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
ATATATAATATTAATTTAAATATTT
Found at i:47605059 original size:71 final size:71
Alignment explanation
Indices: 47604938--47605073 Score: 218
Period size: 71 Copynumber: 1.9 Consensus size: 71
47604928 ACCTAGTCTT
* *
47604938 TATAATGTAGCATTTTAGCTACTGACTTATTTCATTTTGATACTTATGGCAAGGGTATCAAACCC
1 TATAATGTAGCATTTTAGCTACTGACTTATTTCAGTCTGATACTTATGGCAAGGGTATCAAACCC
47605003 TGGGCC
66 TGGGCC
* * * *
47605009 TATATTGTAGCATTTTAGTTACTTACTTATTTTAGTCTGATACTTATGGCAAGGGTATCAAACCC
1 TATAATGTAGCATTTTAGCTACTGACTTATTTCAGTCTGATACTTATGGCAAGGGTATCAAACCC
47605074 CGGTCCCCTT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 59 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (71 bp):
TATAATGTAGCATTTTAGCTACTGACTTATTTCAGTCTGATACTTATGGCAAGGGTATCAAACCC
TGGGCC
Found at i:47605098 original size:71 final size:71
Alignment explanation
Indices: 47604952--47605098 Score: 154
Period size: 71 Copynumber: 2.1 Consensus size: 71
47604942 ATGTAGCATT
* * * * * *
47604952 TTAGCTACTGACTTATTTCATTTTGATACTTATGGCAAGGGTATCAAACCCTGGGCCTATATTGT
1 TTAGTTACTGACTTATTTCAGTCTGATACTTATGGCAAGGGTATCAAACCCCGGCCCTATATAGT
* **
47605017 AGCATT
66 AGAAAA
* *
47605023 TTAGTTACTTACTTATTTTAGTCTGATACTTATGGCAAGGGTATCAAACCCCGGTCCCCT-TA-A
1 TTAGTTACTGACTTATTTCAGTCTGATACTTATGGCAAGGGTATCAAACCCCGG--CCCTATATA
*
47605086 GTTGAAAA
64 GTAGAAAA
47605094 TTAGT
1 TTAGT
47605099 CTTAAAAACA
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
71 57 0.92
72 2 0.03
73 3 0.05
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (71 bp):
TTAGTTACTGACTTATTTCAGTCTGATACTTATGGCAAGGGTATCAAACCCCGGCCCTATATAGT
AGAAAA
Found at i:47606158 original size:42 final size:43
Alignment explanation
Indices: 47606112--47606228 Score: 123
Period size: 42 Copynumber: 2.8 Consensus size: 43
47606102 ACGCCCAAGT
*
47606112 TCTAGGCTGTGTGGCACACACGACTGAGACACAT-GCTCGTGC
1 TCTAGGCTGTGTGGCACACACGACTGAGACACATCGCCCGTGC
* * * * *
47606154 TCTAGG-TCATATGGAACACATGACTGAGACAC-TCGCCCGTGT
1 TCTAGGCT-GTGTGGCACACACGACTGAGACACATCGCCCGTGC
* * *
47606196 TCTAGTCCGTGTGGCACACACGGCTGAGACACA
1 TCTAGGCTGTGTGGCACACACGACTGAGACACA
47606229 CGTGTAATGC
Statistics
Matches: 58, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
41 2 0.03
42 56 0.97
ACGTcount: A:0.24, C:0.28, G:0.26, T:0.21
Consensus pattern (43 bp):
TCTAGGCTGTGTGGCACACACGACTGAGACACATCGCCCGTGC
Found at i:47607839 original size:43 final size:44
Alignment explanation
Indices: 47607719--47607840 Score: 126
Period size: 43 Copynumber: 2.8 Consensus size: 44
47607709 AGCTCATAGA
* * *
47607719 ATGCCAATGTTCCAGACGTAC-TCATACATGT-AATCAAATATCG
1 ATGCCAATGTTCCAGACAT-CGTCTTACACGTAAATCAAATATCG
* * * **
47607762 ATGCCACTGTCCCAGATAGGGTCTTACACG-AAATCAAATA-CG
1 ATGCCAATGTTCCAGACATCGTCTTACACGTAAATCAAATATCG
*
47607804 ATGCCAATGTTCTAGACATCGTCTTACACGTAAATCA
1 ATGCCAATGTTCCAGACATCGTCTTACACGTAAATCA
47607841 TAAGGCGATG
Statistics
Matches: 62, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
42 26 0.42
43 36 0.58
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.26
Consensus pattern (44 bp):
ATGCCAATGTTCCAGACATCGTCTTACACGTAAATCAAATATCG
Found at i:47616024 original size:50 final size:50
Alignment explanation
Indices: 47615905--47616150 Score: 180
Period size: 50 Copynumber: 4.9 Consensus size: 50
47615895 ATTTTGAGAA
* * ***
47615905 CACATGTGTAGTACTATGTGCAGGA-TACTATGTTTTTAAGATAGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCA-GACTACTATGTGTACCAGATAG--TTAGGT
* *
47615957 CACGTGTGTAGTACTAAGTGCAGACTACTACGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGACTACTATGTGTACCAGATAGTTAGGT
* * * * *
47616007 CACATGTGTAGTACTAAGTGCA-AGCTACTATGAGTACCCGACACCTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGA-CTACTATGTGTACCAGATA-GTT-AGGT
* * * ** *
47616058 CA-ATTGTGTAGCACTAAGTG-AAAGCTACTACGTGTACTGGATTGTT-GGT
1 CACA-TGTGTAGTACTAAGTGCAGA-CTACTATGTGTACCAGATAGTTAGGT
* * * *
47616107 CGCATGTGTAGTACTAAGTGCAGGCTGCTATGCGTACCAGATAG
1 CACATGTGTAGTACTAAGTGCAGACTACTATGTGTACCAGATAG
47616151 CTTCATTTAT
Statistics
Matches: 152, Mismatches: 33, Indels: 21
0.74 0.16 0.10
Matches are distributed among these distances:
49 32 0.21
50 48 0.32
51 37 0.24
52 35 0.23
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGACTACTATGTGTACCAGATAGTTAGGT
Found at i:47616144 original size:100 final size:101
Alignment explanation
Indices: 47615961--47616144 Score: 264
Period size: 100 Copynumber: 1.8 Consensus size: 101
47615951 TTAGGTCACG
* *
47615961 TGTGTAGTACTAAGTGCAGACTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGT
1 TGTGTAGCACTAAGTGAAGACTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGT
47616026 GCAAGCTACTATGAGTACCCGACACCTTCAATCAAT
66 GCAAGCTACTATGAGTACCCGACACCTTCAATCAAT
** * *
47616062 TGTGTAGCACTAAGTGAA-AGCTACTACGTGTACTGGATTGTT-GGTCGCATGTGTAGTACTAAG
1 TGTGTAGCACTAAGTGAAGA-CTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTAAG
* * *
47616125 TGCAGGCTGCTATGCGTACC
65 TGCAAGCTACTATGAGTACC
47616145 AGATAGCTTC
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
100 38 0.52
101 35 0.48
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (101 bp):
TGTGTAGCACTAAGTGAAGACTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGT
GCAAGCTACTATGAGTACCCGACACCTTCAATCAAT
Found at i:47624896 original size:50 final size:49
Alignment explanation
Indices: 47624779--47625074 Score: 215
Period size: 50 Copynumber: 5.9 Consensus size: 49
47624769 CGTGAGAACA
* * * *** *
47624779 CATGTGTAGTACTATGTGCAAGCTACTATGTTTTTAAGATGGTTTTAGG-T
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG--TTAGGTT
* *
47624829 CATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCTGATAGTTAGGTT
1 CA--TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTT
* * * * *
47624880 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAACTTCA--AT
1 -CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TAGTT-AGGTT
* *
47624930 CATGTATGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGG-T
1 CATG--TGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTT
** * * ** *
47624980 CATGTGTGTAGTACTAAGTATAGGCTACTACGTGTATCAGATTCTT-GGTCG
1 CA--TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT-T
* * *
47625031 CATATGTAGTACTAAGTGCAGCCTACTATGCGTACCAGATAGTT
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTT
47625075 TCGGTTACAA
Statistics
Matches: 196, Mismatches: 36, Indels: 29
0.75 0.14 0.11
Matches are distributed among these distances:
49 40 0.20
50 82 0.42
51 38 0.19
52 36 0.18
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTT
Found at i:47624957 original size:101 final size:100
Alignment explanation
Indices: 47624828--47625009 Score: 267
Period size: 101 Copynumber: 1.8 Consensus size: 100
47624818 TGGTTTTAGG
* *
47624828 TCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCTGATAGTTAGGTTGCA-TGTGTAGTA
1 TCATGTATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGG-T-CAGTGTGTAGTA
*
47624892 CTAAGTGCAGGCTACTATGCGTACCCGACAACTTCAA
64 CTAAGTACAGGCTACTATGCGTACCCGACAACTTCAA
* * *
47624929 TCATGTATGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCATGTGTGTAGTAC
1 TCATGTATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCA-GTGTGTAGTAC
*
47624994 TAAGTATAGGCTACTA
65 TAAGTACAGGCTACTA
47625010 CGTGTATCAG
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
99 2 0.03
100 1 0.01
101 69 0.96
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (100 bp):
TCATGTATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCAGTGTGTAGTACT
AAGTACAGGCTACTATGCGTACCCGACAACTTCAA
Found at i:47630231 original size:363 final size:363
Alignment explanation
Indices: 47629566--47630290 Score: 1396
Period size: 363 Copynumber: 2.0 Consensus size: 363
47629556 TGATTGCTAA
*
47629566 TGTATATATGTGTATTAGCCGAGTTTTGAACTTGAATAATGGCTTGAGCACCATGTGTTGTATTG
1 TGTATATATGTGTATTAACCGAGTTTTGAACTTGAATAATGGCTTGAGCACCATGTGTTGTATTG
*
47629631 AGATTGTTTGAGTGAATTTATAGATATTTATATGATGAATTCAATTGTTGATATACATGCTTAAA
66 AGATTGTTTGAGTGAATTTATAGATATTTATATGATGAATTCAATTGTTGATATACATGCCTAAA
* *
47629696 TAAAATGTATACAAAGAATGTGTGAAAGAGTGATTTGGTAATAATCTGCTTGGGGACAGCAGCAG
131 TAAAATGTATACAAAGAATGTGTGAAAGAGTGATTTGGTAATAATCTGCTTGGGCACAACAGCAG
47629761 TAAGGTGATTTTGGAAAATCGCCATAAATTGTAGGAGTTGAGTTAGAAGCTGAATAAATTATGTC
196 TAAGGTGATTTTGGAAAATCGCCATAAATTGTAGGAGTTGAGTTAGAAGCTGAATAAATTATGTC
47629826 ATTAAAGCTTGAAGAGTCTAGTTTCTTAGAAAACAAACTATAAAAACAAAAGAGTTACCAATCTT
261 ATTAAAGCTTGAAGAGTCTAGTTTCTTAGAAAACAAACTATAAAAACAAAAGAGTTACCAATCTT
47629891 GAGATATTTTAAGTATTGTGGGGCTGAGTCAAAATGAG
326 GAGATATTTTAAGTATTGTGGGGCTGAGTCAAAATGAG
*
47629929 TGTATATATGTGTATTAACCGAGTTTTGAACTTGAATAATGGTTTGAGCACCATGTGTTGTATTG
1 TGTATATATGTGTATTAACCGAGTTTTGAACTTGAATAATGGCTTGAGCACCATGTGTTGTATTG
*
47629994 AGATTGTTTGAGTGAATTTATAGATATTTATATGATGAATTCGATTGTTGATATACATGCCTAAA
66 AGATTGTTTGAGTGAATTTATAGATATTTATATGATGAATTCAATTGTTGATATACATGCCTAAA
47630059 TAAAATGTATACAAAGAATGTGTGAAAGAGTGATTTGGTAATAATCTGCTTGGGCACAACAGCAG
131 TAAAATGTATACAAAGAATGTGTGAAAGAGTGATTTGGTAATAATCTGCTTGGGCACAACAGCAG
47630124 TAAGGTGATTTTGGAAAATCGCCATAAATTGTAGGAGTTGAGTTAGAAGCTGAATAAATTATGTC
196 TAAGGTGATTTTGGAAAATCGCCATAAATTGTAGGAGTTGAGTTAGAAGCTGAATAAATTATGTC
47630189 ATTAAAGCTTGAAGAGTCTAGTTTCTTAGAAAACAAACTATAAAAACAAAAGAGTTACCAATCTT
261 ATTAAAGCTTGAAGAGTCTAGTTTCTTAGAAAACAAACTATAAAAACAAAAGAGTTACCAATCTT
47630254 GAGATATTTTAAGTATTGTGGGGCTGAGTCAAAATGA
326 GAGATATTTTAAGTATTGTGGGGCTGAGTCAAAATGA
47630291 CTACTAGATT
Statistics
Matches: 356, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
363 356 1.00
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.34
Consensus pattern (363 bp):
TGTATATATGTGTATTAACCGAGTTTTGAACTTGAATAATGGCTTGAGCACCATGTGTTGTATTG
AGATTGTTTGAGTGAATTTATAGATATTTATATGATGAATTCAATTGTTGATATACATGCCTAAA
TAAAATGTATACAAAGAATGTGTGAAAGAGTGATTTGGTAATAATCTGCTTGGGCACAACAGCAG
TAAGGTGATTTTGGAAAATCGCCATAAATTGTAGGAGTTGAGTTAGAAGCTGAATAAATTATGTC
ATTAAAGCTTGAAGAGTCTAGTTTCTTAGAAAACAAACTATAAAAACAAAAGAGTTACCAATCTT
GAGATATTTTAAGTATTGTGGGGCTGAGTCAAAATGAG
Found at i:47631330 original size:39 final size:40
Alignment explanation
Indices: 47631229--47631579 Score: 257
Period size: 40 Copynumber: 8.6 Consensus size: 40
47631219 TATTCGAATG
* * *
47631229 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCGATTGACT
47631269 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAA-ATCCCGAAGGCATTTGTGCGA-TTGACT
* * *
47631309 ATATCC-GGCTAAATCCCGAAGGTACTTGGGTTTG-GAATTGAGCG
1 ATATCCGGGCTAAATCCCGAAGGCA-TT---TGTGCG-ATTGA-CT
* * *** * *** ** * *
47631353 ATCTTGCTGTAATAATTTCAATTAATACGATTTGTGCTAGTGACT
1 AT-AT-CCGGGCTAA-ATC-CCGAAGGC-ATTTGTGCGATTGACT
* * *
47631398 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCGATTGACT
* * *
47631438 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCGATTGACT
* * *
47631478 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCGATTGACT
*
47631518 ATATTCGGGCTAAGA-CCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAA-ATCCCGAAGGCATTTGTGCGA-TTGACT
47631558 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAATCCCGAAGG
47631580 TACTTGGGTT
Statistics
Matches: 247, Mismatches: 44, Indels: 41
0.74 0.13 0.12
Matches are distributed among these distances:
38 2 0.01
39 29 0.12
40 166 0.67
41 9 0.04
42 6 0.02
43 9 0.04
44 4 0.02
45 4 0.02
46 8 0.03
47 3 0.01
48 2 0.01
49 4 0.02
50 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (40 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCGATTGACT
Found at i:47631438 original size:40 final size:40
Alignment explanation
Indices: 47631382--47631579 Score: 301
Period size: 40 Copynumber: 5.0 Consensus size: 40
47631372 AATTAATACG
*
47631382 ATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
1 ATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGC
*
47631422 TTTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGC
1 ATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGC
*
47631462 ATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
1 ATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGC
* * *
47631502 TTTTGTGCTATTGACTATATTCGGGCTAAGACCCGAAGGC
1 ATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGC
* *
47631542 ATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAGG
1 ATTTGTGCTA-TTGACTATATCCGGGCTAAGTCCCGAAGG
47631580 TACTTGGGTT
Statistics
Matches: 144, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 14 0.10
40 127 0.88
41 3 0.02
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (40 bp):
ATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGC
Found at i:47631515 original size:80 final size:80
Alignment explanation
Indices: 47631229--47631579 Score: 361
Period size: 80 Copynumber: 4.3 Consensus size: 80
47631219 TATTCGAATG
47631229 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACTATATCCGGGCTAAGACCCGAAGGCA
47631294 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* ** * * * *** **
47631309 ATATCC-GGCTAAATCCCGAAGGTACTTGGGTT-TGGAATTGAGCGATCTTGCTGTAATAATTTC
1 ATATCCGGGCTAAGTCCCGAAGG--CTT---TTGTGCTATTGA-CTAT-AT-CCGGGCTAA-GAC
*** ** *
47631372 AATTAATACGATTTGTGCTAG-TGACT
57 -CCGAAGGC-ATTTGTGCGAGTTG-CT
*
47631398 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACTATATCCGGGCTAAGACCCGAAGGCA
*
47631463 TTTGTGCTAG-TGACT
66 TTTGTGCGAGTTG-CT
*
47631478 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACTATATTCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACTATATCCGGGCTAAGACCCGAAGGCA
47631543 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
*
47631558 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
47631580 TACTTGGGTT
Statistics
Matches: 220, Mismatches: 36, Indels: 31
0.77 0.13 0.11
Matches are distributed among these distances:
79 30 0.14
80 102 0.46
81 8 0.04
82 2 0.01
83 12 0.05
84 6 0.03
85 6 0.03
86 12 0.05
87 1 0.00
88 8 0.04
89 18 0.08
90 15 0.07
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:47638236 original size:40 final size:40
Alignment explanation
Indices: 47638164--47638374 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
47638154 TCTTCAGGAT
** * *
47638164 TTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * * *
47638202 TTAGCCCGGATTTGGTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* *
47638242 TTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* *
47638282 TTAGCCCGGATATAG-CAACTCGCACAAATGCCTTCGGATC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTC
* * * * *
47638322 TTAGTCCGGATATAGTCATTAGCATAAAAGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
47638362 TTAGCCCGGATAT
1 TTAGCCCGGATAT
47638375 CATTTGAATA
Statistics
Matches: 143, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
38 4 0.03
39 15 0.10
40 123 0.86
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
Found at i:47638516 original size:40 final size:40
Alignment explanation
Indices: 47638461--47638644 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
47638451 AAGGCACAAG
* * * *
47638461 GCCTTCGGGTCTTAGCCCGGATTTGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* *
47638501 GCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* *
47638541 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * * *
47638581 GCATT-TGGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAAT
47638621 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
47638645 CATTCGAATA
Statistics
Matches: 120, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 113 0.94
41 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:47638665 original size:270 final size:270
Alignment explanation
Indices: 47638184--47638723 Score: 1044
Period size: 270 Copynumber: 2.0 Consensus size: 270
47638174 ATAACCACTC
47638184 GCACAAGGCCTTCGGGTCTTAGCCCGGATTTGGTCACTAGCATAAATGCCTTCGGGACTTAGCCC
1 GCACAAGGCCTTCGGGTCTTAGCCCGGATTTGGTCACTAGCATAAATGCCTTCGGGACTTAGCCC
*
47638249 GGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCC
66 GGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCA
*
47638314 TTCGGATCTTAGTCCGGATATAGTCATTAGCATAAAAGCCTTCGGGACTTAGCCCGGATATCATT
131 TTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATATCATT
*
47638379 TGAATAACCATGCACATATATCAATAATCATGACACATCCATATTTCATTTTCATTACCAAAGCT
196 CGAATAACCATGCACATATATCAATAATCATGACACATCCATATTTCATTTTCATTACCAAAGCT
47638444 CAAACACAAG
261 CAAACACAAG
47638454 GCACAAGGCCTTCGGGTCTTAGCCCGGATTTGGTCACTAGCATAAATGCCTTCGGGACTTAGCCC
1 GCACAAGGCCTTCGGGTCTTAGCCCGGATTTGGTCACTAGCATAAATGCCTTCGGGACTTAGCCC
47638519 GGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCA
66 GGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCA
*
47638584 TTTGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATATCATT
131 TTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATATCATT
47638649 CGAATAACCATGCACATATATCAATAATCATGACACATCCATATTTCATTTTCATTACCAAAGCT
196 CGAATAACCATGCACATATATCAATAATCATGACACATCCATATTTCATTTTCATTACCAAAGCT
47638714 CAAACACAAG
261 CAAACACAAG
47638724 ACACTTATCA
Statistics
Matches: 266, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
270 266 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (270 bp):
GCACAAGGCCTTCGGGTCTTAGCCCGGATTTGGTCACTAGCATAAATGCCTTCGGGACTTAGCCC
GGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCA
TTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATATCATT
CGAATAACCATGCACATATATCAATAATCATGACACATCCATATTTCATTTTCATTACCAAAGCT
CAAACACAAG
Found at i:47645595 original size:52 final size:52
Alignment explanation
Indices: 47645508--47645610 Score: 188
Period size: 52 Copynumber: 2.0 Consensus size: 52
47645498 TTCATACGAC
* *
47645508 TAAATGAATAATTTCATATACACATATTCTCACAATCATACCTACTTCACAG
1 TAAACGAATAATTTCATATACACATATTCTAACAATCATACCTACTTCACAG
47645560 TAAACGAATAATTTCATATACACATATTCTAACAATCATACCTACTTCACA
1 TAAACGAATAATTTCATATACACATATTCTAACAATCATACCTACTTCACA
47645611 TTTCCAACCT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.42, C:0.23, G:0.03, T:0.32
Consensus pattern (52 bp):
TAAACGAATAATTTCATATACACATATTCTAACAATCATACCTACTTCACAG
Found at i:47645889 original size:40 final size:40
Alignment explanation
Indices: 47645842--47646025 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
47645832 CTCGCACAAG
* *
47645842 GCCTTCGGGTCTTAGCCCGGATATGGTCACCAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACCAGCACAAAT
* * * *
47645882 GCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACCAGCACAAAT
47645922 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTC-GCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-AC-CAGCACAAAT
* * ** * *
47645962 GCCTTCGGATCTTAGTCCGGATATAGTCATTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACCAGCACAAAT
*
47646002 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
47646026 CATTTGAATA
Statistics
Matches: 121, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 119 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACCAGCACAAAT
Found at i:47645962 original size:80 final size:78
Alignment explanation
Indices: 47645806--47646025 Score: 248
Period size: 80 Copynumber: 2.8 Consensus size: 78
47645796 ACCCAAGTAT
* * * * *
47645806 CTTCAGGATTTAGCCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGTC
1 CTTC-GGACTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGTC
*
47645870 ACCAGCATAAATGC
65 ACCAGCACAAATGC
* *
47645884 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG-
1 CTTC-GGACTTAG-CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGT
47645948 CAACTC-GCACAAATGC
64 C-AC-CAGCACAAATGC
* * * *
47645964 CTTCGGATCTTAGTCCGGATATAGTCATTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGA-CTTAG-CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
47646026 CATTTGAATA
Statistics
Matches: 122, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
78 11 0.09
79 21 0.17
80 89 0.73
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (78 bp):
CTTCGGACTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGTCA
CCAGCACAAATGC
Found at i:47658220 original size:32 final size:32
Alignment explanation
Indices: 47658136--47658248 Score: 138
Period size: 33 Copynumber: 3.4 Consensus size: 32
47658126 TGCCTAAAAG
*
47658136 GTACAACTAGAAAAGGAAATGTACA-TTGTGTGT
1 GTAC-ACTTGAAAAGGAAATGTACACTT-TGTGT
*
47658169 GTACACCTTAAAAAGGAAATGTACACTTTGTGT
1 GTACA-CTTGAAAAGGAAATGTACACTTTGTGT
* *
47658202 GTACACTTGAAAAGGAAATGTACGCCTTGTGT
1 GTACACTTGAAAAGGAAATGTACACTTTGTGT
*
47658234 GTACAATGTGAAAAG
1 GTACACT-TGAAAAG
47658249 TGGTAGCTTC
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
32 31 0.44
33 38 0.54
34 2 0.03
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.27
Consensus pattern (32 bp):
GTACACTTGAAAAGGAAATGTACACTTTGTGT
Found at i:47658278 original size:31 final size:31
Alignment explanation
Indices: 47658241--47658357 Score: 180
Period size: 31 Copynumber: 3.8 Consensus size: 31
47658231 TGTGTACAAT
*
47658241 GTGAAAAGTGGTAGCTTCGGCTACCTAATCA
1 GTGAAAAGTGGTAGCTTCAGCTACCTAATCA
* *
47658272 GTGAAAAGTGGTAGCTTCGGCTACCTAATTA
1 GTGAAAAGTGGTAGCTTCAGCTACCTAATCA
* *
47658303 GTGAAAAGTGGTAGCTCCAGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCAGCTACCTAATCA
*
47658334 GTGAATAGTGGTAGCTTCAGCTAC
1 GTGAAAAGTGGTAGCTTCAGCTAC
47658358 AAGTGACAAG
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 79 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTTCAGCTACCTAATCA
Found at i:47658485 original size:27 final size:27
Alignment explanation
Indices: 47658454--47658518 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
47658444 TAGTTGAACT
*
47658454 ATGGCAAAGTGATAAAGTGTGCCAATC
1 ATGGCAAAGTGATAAAGTGTGCCAAAC
*
47658481 ATGGCAAAGTGATATAGTGTGCCAAAC
1 ATGGCAAAGTGATAAAGTGTGCCAAAC
*
47658508 ATAGCAAAGTG
1 ATGGCAAAGTG
47658519 TTCAGTGATC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (27 bp):
ATGGCAAAGTGATAAAGTGTGCCAAAC
Found at i:47658599 original size:34 final size:34
Alignment explanation
Indices: 47658568--47658646 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 34
47658558 TGATCCATGG
47658568 CAAAG-TGTGAAA-AGTAGGTATGGTATTTCCATA
1 CAAAGTTGTGAAACA-TAGGTATGGTATTTCCATA
** *
47658601 CCGAGTTGTGAAACATAGGTATGGTGTTTCCATA
1 CAAAGTTGTGAAACATAGGTATGGTATTTCCATA
**
47658635 CTGAGTTGTGAA
1 CAAAGTTGTGAA
47658647 TCGTGGCACT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
33 3 0.08
34 36 0.90
35 1 0.03
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.32
Consensus pattern (34 bp):
CAAAGTTGTGAAACATAGGTATGGTATTTCCATA
Found at i:47659728 original size:21 final size:21
Alignment explanation
Indices: 47659680--47659721 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
47659670 TACATGTATG
47659680 AATGTTATGTGAAGCGAAATT
1 AATGTTATGTGAAGCGAAATT
47659701 AATGTTATGTGAAGCGAAATT
1 AATGTTATGTGAAGCGAAATT
47659722 CCTGTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (21 bp):
AATGTTATGTGAAGCGAAATT
Found at i:47665443 original size:40 final size:40
Alignment explanation
Indices: 47665138--47665415 Score: 445
Period size: 40 Copynumber: 7.0 Consensus size: 40
47665128 TTGAATGATG
* * * * *
47665138 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
47665178 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
47665218 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
47665258 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
47665298 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
47665338 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
**
47665378 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
47665416 TAACCGGGCT
Statistics
Matches: 228, Mismatches: 7, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
39 1 0.00
40 219 0.96
41 8 0.04
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:47666475 original size:53 final size:53
Alignment explanation
Indices: 47666409--47666513 Score: 156
Period size: 53 Copynumber: 2.0 Consensus size: 53
47666399 GGTTCTCGTG
* *
47666409 AGACAGGGACAGAACTATTTCTGGATTCCATGTTCCGACTTTGGAAATTCATA
1 AGACAGGGACAGAACGATTTCTGGATTCCATGTTCCGAATTTGGAAATTCATA
* * * *
47666462 AGACAGGGCCAGAACGGTTTCTGGATTCCCTGTTTCGAATTTGGAAATTCAT
1 AGACAGGGACAGAACGATTTCTGGATTCCATGTTCCGAATTTGGAAATTCAT
47666514 TATAAATTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (53 bp):
AGACAGGGACAGAACGATTTCTGGATTCCATGTTCCGAATTTGGAAATTCATA
Found at i:47670925 original size:40 final size:40
Alignment explanation
Indices: 47670894--47671105 Score: 234
Period size: 40 Copynumber: 5.3 Consensus size: 40
47670884 GGACTAAGAT
47670894 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
*
47670934 CCAAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
* *
47670974 CCGAAGGCCTTTGTGCGAGATACTAAA-TCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
* * ** * *
47671014 CCGAAGGCATTCGTGCGAGTTGTTAAA-TCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGAT-ACAAATTCCGGGTTAAGCC
* * * * * *
47671054 CCGAAGGCA-TTGTGTGAGTTACTAAA-ACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
47671093 CCGAAGGCATTTG
1 CCGAAGGCATTTG
47671106 AACGAGGAGC
Statistics
Matches: 152, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 32 0.21
40 117 0.77
41 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
Found at i:47671123 original size:79 final size:80
Alignment explanation
Indices: 47670961--47671138 Score: 198
Period size: 79 Copynumber: 2.2 Consensus size: 80
47670951 AGATACAAAT
* * * *
47670961 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** ** *
47671026 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * * * *
47671041 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
47671105 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
47671120 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
47671139 TACGTGATTT
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.17
79 49 0.60
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGAGCTAAA
Found at i:47674993 original size:66 final size:66
Alignment explanation
Indices: 47674911--47675043 Score: 214
Period size: 66 Copynumber: 2.0 Consensus size: 66
47674901 TTTATGGATT
*
47674911 TGATGAATCGGATCTTCAGACCGTATTTGGATCGGTTCGTAGTGGTGTTCATTGATGACATT-TT
1 TGATGAATCGGATCTTCAGACCGTATTTGGATCAGTTCGTAGTGGTGTTCATTGATGAC-TTCTT
47674975 GG
65 GG
* * *
47674977 TGATGAATCGGATCTTCAGGCCGTATTTGGATCAGTTCGTAGTTGTGTTTATTGATGACTTCTTG
1 TGATGAATCGGATCTTCAGACCGTATTTGGATCAGTTCGTAGTGGTGTTCATTGATGACTTCTTG
47675042 G
66 G
47675043 T
1 T
47675044 CTATTCAAGA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
65 2 0.03
66 60 0.97
ACGTcount: A:0.19, C:0.14, G:0.28, T:0.40
Consensus pattern (66 bp):
TGATGAATCGGATCTTCAGACCGTATTTGGATCAGTTCGTAGTGGTGTTCATTGATGACTTCTTG
G
Found at i:47675229 original size:140 final size:140
Alignment explanation
Indices: 47674977--47675229 Score: 409
Period size: 140 Copynumber: 1.8 Consensus size: 140
47674967 GACATTTTGG
* * *
47674977 TGATGAATCGGATCTTCAGGCCGTATTTGGATCAGTTCGTAGTTGTGTTTATTGATGACTTCTTG
1 TGATGAATCGGATCTTCAGACCGTATTTGGATCAGTTCGTAGTGGTGTTCATTGATGACTTCTTG
* *
47675042 GTCTATTCAAGAGATGAGACCGAACATGCTGAGCACCTGAGATTAGTGTTAATGCCCCTGCAGTA
66 GTCTATTCAAGAGACGAGACCGAACATGCTGAGCACCTGAGACTAGTGTTAATGCCCCTGCAGTA
47675107 TTTATGGATT
131 TTTATGGATT
*
47675117 TGATGAATCGGATCTTCAGACCGTATTTGGATCGGTTCGTAGTGGTGTTCATTGATGACATT-TT
1 TGATGAATCGGATCTTCAGACCGTATTTGGATCAGTTCGTAGTGGTGTTCATTGATGAC-TTCTT
* * *
47675181 GGTCTATTCAAGAGACGAGACCGAACATGTTGAGCATCTGAGGCTAGTG
65 GGTCTATTCAAGAGACGAGACCGAACATGCTGAGCACCTGAGACTAGTG
47675230 CTGCAAATTT
Statistics
Matches: 103, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
140 101 0.98
141 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (140 bp):
TGATGAATCGGATCTTCAGACCGTATTTGGATCAGTTCGTAGTGGTGTTCATTGATGACTTCTTG
GTCTATTCAAGAGACGAGACCGAACATGCTGAGCACCTGAGACTAGTGTTAATGCCCCTGCAGTA
TTTATGGATT
Found at i:47679115 original size:40 final size:39
Alignment explanation
Indices: 47679084--47679293 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
47679074 GGACTAAGAT
* *
47679084 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
47679124 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
47679164 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
47679204 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
47679244 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
47679283 CCGAAGGCATT
1 CCGAAGGCATT
47679294 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:47679247 original size:120 final size:120
Alignment explanation
Indices: 47679031--47679293 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
47679021 TTGAATGCTG
* *
47679031 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
47679095 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
47679151 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
47679214 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
47679270 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
47679294 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:47679313 original size:79 final size:80
Alignment explanation
Indices: 47679032--47679328 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
47679022 TGAATGCTGT
* ** * * * **
47679032 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
47679095 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
47679112 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
47679176 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
47679192 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
47679256 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
47679271 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
47679329 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:47683333 original size:40 final size:40
Alignment explanation
Indices: 47683184--47683369 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
47683174 TTGAATGATG
* * * *
47683184 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
47683224 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
47683264 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
47683304 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
47683345 -CCGGGCTATGTCCCGAAGACATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
47683370 AATGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 121 0.92
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:47683387 original size:80 final size:79
Alignment explanation
Indices: 47683237--47683402 Score: 194
Period size: 80 Copynumber: 2.1 Consensus size: 79
47683227 GGACTAAGAT
* **
47683237 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGACATTTGAACGAGTTACTA
*
47683302 AATCCGGGTTAAGTC
66 AATCC-GGTTAAATC
* * *
47683317 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGACATTTGAATGAG-TAG
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGACATTTGAACGAGTTA-
* *
47683379 CTATATCCGGTTAAATT
63 CTAAATCCGGTTAAATC
47683396 CCGAAGG
1 CCGAAGG
47683403 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
79 17 0.23
80 55 0.74
81 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGACATTTGAACGAGTTACTA
AATCCGGTTAAATC
Found at i:47686365 original size:25 final size:25
Alignment explanation
Indices: 47686317--47686365 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
47686307 TTATAATATG
* *
47686317 AAAAATAACCATTTTGCCCCTAGGT
1 AAAAATAACCATTATACCCCTAGGT
* *
47686342 AAAAATGACCATTATACCCTTAGG
1 AAAAATAACCATTATACCCCTAGG
47686366 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (25 bp):
AAAAATAACCATTATACCCCTAGGT
Found at i:47695449 original size:27 final size:27
Alignment explanation
Indices: 47695419--47695651 Score: 206
Period size: 27 Copynumber: 8.7 Consensus size: 27
47695409 TTAGTTTACC
*
47695419 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
47695446 AAATTACC-AAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * *
47695472 AAATTACTAAAATA-CCCTTGATTTATA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* *
47695499 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
47695526 AAATTACCAAAATACCCCTAGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
47695553 AAATTACTAAAATACCCCT-GATTTGTG
1 AAATTACCAAAATACCCCTAG-TTTGTA
** * **
47695580 AAATTACTGAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTA
** * *
47695607 AAATTACTGAAATA-CCCTTGACTTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTA
*
47695634 AAATTACCAAAGTACCCC
1 AAATTACCAAAATACCCC
47695652 CGATTTACAG
Statistics
Matches: 174, Mismatches: 26, Indels: 11
0.82 0.12 0.05
Matches are distributed among these distances:
26 32 0.18
27 134 0.77
28 8 0.05
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:47695529 original size:54 final size:54
Alignment explanation
Indices: 47695427--47695596 Score: 236
Period size: 54 Copynumber: 3.2 Consensus size: 54
47695417 CCAAATCACC
* *
47695427 AAAATACCCCTAGTTTGTAAAATTACC-AAATACCCTTGGTTTGTAAAATTACT
1 AAAATACCCCTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACT
* * *
47695480 AAAATA-CCCTTGATTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACC
1 AAAATACCCCTAG-TTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACT
* * *
47695534 AAAATACCCCTAGTTTATAAAATTACTAAAATACCCCTGATTTGTGAAATTACT
1 AAAATACCCCTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACT
*
47695588 GAAATACCC
1 AAAATACCC
47695597 TCGACCTGTA
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
52 5 0.05
53 18 0.18
54 74 0.73
55 5 0.05
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
AAAATACCCCTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACT
Found at i:47695596 original size:81 final size:80
Alignment explanation
Indices: 47695419--47695576 Score: 262
Period size: 81 Copynumber: 2.0 Consensus size: 80
47695409 TTAGTTTACC
* * *
47695419 AAATCACCAAAATACCCCTAGTTTGTAAAATTACCAAATACCCTTGGTTTGTAAAATTACTAAAA
1 AAATCACCAAAATACCCCTAGTTTGTAAAATTACCAAATACCCCTAGTTTATAAAATTACTAAAA
*
47695484 TACCCTTGATTTATA
66 TACCCCTGATTTATA
*
47695499 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTATAAAATTACTAAA
1 AAATCACCAAAATACCCCTAGTTTGTAAAATTACC-AAATACCCCTAGTTTATAAAATTACTAAA
47695564 ATACCCCTGATTT
65 ATACCCCTGATTT
47695577 GTGAAATTAC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
80 34 0.47
81 38 0.53
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.31
Consensus pattern (80 bp):
AAATCACCAAAATACCCCTAGTTTGTAAAATTACCAAATACCCCTAGTTTATAAAATTACTAAAA
TACCCCTGATTTATA
Found at i:47695609 original size:54 final size:54
Alignment explanation
Indices: 47695427--47695667 Score: 227
Period size: 54 Copynumber: 4.5 Consensus size: 54
47695417 CCAAATCACC
* * * * *
47695427 AAAATACCC-CTAGTTTGTAAAATTAC-CAAATACCCTTGGTTTGTAAAATTACT
1 AAAATACCCTCGA-TTTATAAAATTACTAAAATACCCCTGATTTGTAAAATTACT
* * * * *
47695480 AAAATACCCTTGATTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACC
1 AAAATACCCTCGATTTATAAAATTACTAAAATACCCCTGATTTGTAAAATTACT
* *
47695534 AAAATACCC-CTAGTTTATAAAATTACTAAAATACCCCTGATTTGTGAAATTACT
1 AAAATACCCTCGA-TTTATAAAATTACTAAAATACCCCTGATTTGTAAAATTACT
* ** * * * * *
47695588 GAAATACCCTCGACCTGTAAAATTACTGAAATACCCTTGACTTGTAAAATTACC
1 AAAATACCCTCGATTTATAAAATTACTAAAATACCCCTGATTTGTAAAATTACT
* * * *
47695642 AAAGTACCCCCGATTTACAGAATTAC
1 AAAATACCCTCGATTTATAAAATTAC
47695668 CGTTTTACCC
Statistics
Matches: 152, Mismatches: 32, Indels: 7
0.80 0.17 0.04
Matches are distributed among these distances:
53 21 0.14
54 129 0.85
55 2 0.01
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (54 bp):
AAAATACCCTCGATTTATAAAATTACTAAAATACCCCTGATTTGTAAAATTACT
Found at i:47695758 original size:27 final size:27
Alignment explanation
Indices: 47695697--47695751 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
47695687 AAAATTATAA
*
47695697 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCATGTAGGGTAGAAATACCG
* *
47695724 AAATACCCATGTAGGGTAGGACTACCG
1 AAATACCCATGTAGGGTAGAAATACCG
47695751 A
1 A
47695752 TTTACCCCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (27 bp):
AAATACCCATGTAGGGTAGAAATACCG
Found at i:47696335 original size:27 final size:26
Alignment explanation
Indices: 47696297--47696348 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
47696287 CTCGCTGCAA
*
47696297 TCTGGTGGCTTCGCCACATATATCTGT
1 TCTGGTGACTTCGCCACA-ATATCTGT
*
47696324 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACTTCGCCACAATATCTG
47696349 GCAGCCTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (26 bp):
TCTGGTGACTTCGCCACAATATCTGT
Found at i:47696395 original size:67 final size:67
Alignment explanation
Indices: 47696280--47696431 Score: 279
Period size: 67 Copynumber: 2.3 Consensus size: 67
47696270 GGAAACATTT
*
47696280 TGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAATA
1 TGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTGTTCTGGTCACTTCGTCACAATA
47696345 TC
66 TC
47696347 TGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACA-ATATCTGTATCTGGTCACTTCGTCACAAT
1 TGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTGT-TCTGGTCACTTCGTCACAAT
47696411 ATC
65 ATC
47696414 TGGCAGCCTCGCTGCAAT
1 TGGCAGCCTCGCTGCAAT
47696432 TTCTGTGGTG
Statistics
Matches: 83, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
66 8 0.10
67 75 0.90
ACGTcount: A:0.18, C:0.30, G:0.22, T:0.30
Consensus pattern (67 bp):
TGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTGTTCTGGTCACTTCGTCACAATA
TC
Found at i:47696402 original size:27 final size:27
Alignment explanation
Indices: 47696363--47696415 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
47696353 CCTCGCTGCA
**
47696363 ATCTGGTGGCTTCGCCACAATATCTGT
1 ATCTGGTCACTTCGCCACAATATCTGT
*
47696390 ATCTGGTCACTTCGTCACAATATCTG
1 ATCTGGTCACTTCGCCACAATATCTG
47696416 GCAGCCTCGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (27 bp):
ATCTGGTCACTTCGCCACAATATCTGT
Found at i:47698939 original size:6 final size:6
Alignment explanation
Indices: 47698921--47698977 Score: 55
Period size: 6 Copynumber: 9.3 Consensus size: 6
47698911 AAGAAACATT
* *
47698921 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
47698970 ATCAGA AT
1 ATCAGA AT
47698978 GTGAATGCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
5 2 0.05
6 35 0.83
7 4 0.10
8 1 0.02
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:47699144 original size:27 final size:26
Alignment explanation
Indices: 47699096--47699155 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
47699086 GCGAGGCTGC
*
47699096 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
47699123 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
47699149 CAGATAT
1 CAGATAT
47699156 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:47699538 original size:27 final size:27
Alignment explanation
Indices: 47699498--47699955 Score: 505
Period size: 27 Copynumber: 17.0 Consensus size: 27
47699488 ATGGTAATGT
* *
47699498 TACCCCACAAGGGTATCTCGATAATTC
1 TACCCTACAAGGGTATTTCGATAATTC
* *
47699525 TACTCTACAGGGGTATTTC-AGTAATTC
1 TACCCTACAAGGGTATTTCGA-TAATTC
* * * *
47699552 TACCTTACAGGGGTATTTCGGTATTTC
1 TACCCTACAAGGGTATTTCGATAATTC
*
47699579 TACCTTACAAGGGTATTTC-AGTAATTC
1 TACCCTACAAGGGTATTTCGA-TAATTC
*
47699606 TACCCTACAAGGGTATTT-TAGTAATTC
1 TACCCTACAAGGGTATTTCGA-TAATTC
* * *
47699633 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAAGGGTATTTCGATAATTC
* * *
47699660 TACCTTACAAGGGTATTTCGGTATTTC
1 TACCCTACAAGGGTATTTCGATAATTC
* * * * *
47699687 CATCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAAGGGTATTTCGATAATTC
* *
47699714 TACCCTACAAGGGTATTTCGGTACTTC
1 TACCCTACAAGGGTATTTCGATAATTC
* * *
47699741 TACCCTATAGGGGTATTT-TAGTAATTC
1 TACCCTACAAGGGTATTTCGA-TAATTC
*
47699768 TACCCTAC-AGAGGTATTTCGGTAATTC
1 TACCCTACAAG-GGTATTTCGATAATTC
*
47699795 TACCCTACAGGGGTATTTCGATAATTC
1 TACCCTACAAGGGTATTTCGATAATTC
* * *
47699822 TACCCTATAAGGGTATTTTGATATTTC
1 TACCCTACAAGGGTATTTCGATAATTC
*
47699849 TACCCTACAAGGGTATTTCGATATTTC
1 TACCCTACAAGGGTATTTCGATAATTC
*
47699876 TACCCTACAAGGGTATTTCGGT-ATTCC
1 TACCCTACAAGGGTATTTCGATAATT-C
47699903 TACCCTACAAGGGTATTTCGATAATTC
1 TACCCTACAAGGGTATTTCGATAATTC
* *
47699930 TACCCTACAGGGGTATTTCAATAATT
1 TACCCTACAAGGGTATTTCGATAATT
47699956 TTGTAAATCG
Statistics
Matches: 372, Mismatches: 48, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.01
27 364 0.98
28 4 0.01
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
TACCCTACAAGGGTATTTCGATAATTC
Found at i:47699614 original size:81 final size:81
Alignment explanation
Indices: 47699498--47699955 Score: 589
Period size: 81 Copynumber: 5.7 Consensus size: 81
47699488 ATGGTAATGT
* * * *
47699498 TACCCCACAAGGGTATCTCGATAATTCTACTCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
1 TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGG
47699563 GGTATTTCGGTATTTC
66 GGTATTTCGGTATTTC
* * *
47699579 TACCTTACAAGGGTATTTC-AGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACAG
1 TACCCTACAAGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAG
47699643 GGGTATTTCGGTATTTC
65 GGGTATTTCGGTATTTC
* * * * * * * *
47699660 TACCTTACAAGGGTATTTCGGTATTTCCATCCTACAGGGGTATTTCGGTATTTCTACCCTACAAG
1 TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGG
*
47699725 GGTATTTCGGTACTTC
66 GGTATTTCGGTATTTC
* * * * *
47699741 TACCCTATAGGGGTATTT-TAGTAATTCTACCCTACAGAGGTATTTCGGTAATTCTACCCTACAG
1 TACCCTACAAGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAG
* *
47699805 GGGTATTTCGATAATTC
65 GGGTATTTCGGTATTTC
* * * * * *
47699822 TACCCTATAAGGGTATTTTGATATTTCTACCCTACAAGGGTATTTC-GATATTTCTACCCTACAA
1 TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAG-TAATTCTACCCTACAG
*
47699886 GGGTATTTCGGTATTCC
65 GGGTATTTCGGTATTTC
*
47699903 TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAATT
1 TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATT
47699956 TTGTAAATCG
Statistics
Matches: 325, Mismatches: 46, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
80 2 0.01
81 322 0.99
82 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (81 bp):
TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGG
GGTATTTCGGTATTTC
Found at i:47699970 original size:27 final size:27
Alignment explanation
Indices: 47699940--47700281 Score: 139
Period size: 27 Copynumber: 12.7 Consensus size: 27
47699930 TACCCTACAG
* **
47699940 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
*** * * * *
47699967 GGGTAAAACGGTAATTCTATAAATCAA
1 GGGTATTTCAGTAATTTTACAAATCGA
* * *
47699994 GGGTACTTT-GGTAATTATACAAGTCGA
1 GGGTA-TTTCAGTAATTTTACAAATCGA
* *
47700021 GGGTATTTCAATAATTTTACAAGTCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* *
47700048 GGGTATTTCAGTAATTTCACAAAT-TA
1 GGGTATTTCAGTAATTTTACAAATCGA
** *
47700074 GGGGTATTTTGGTAATTTTACAAA-CTA
1 -GGGTATTTCAGTAATTTTACAAATCGA
* *
47700101 GAGGTATTT-TGATAATTTTACAAA-CCA
1 G-GGTATTTCAG-TAATTTTACAAATCGA
** *
47700128 GGGGTATTTTGGTAATTTTACAAA-CTAA
1 -GGGTATTTCAGTAATTTTACAAATC-GA
* * *
47700156 GGGTATTT-TGAAAATTTTACAAA-CCA
1 GGGTATTTCAG-TAATTTTACAAATCGA
** *
47700182 GGGGTATTTTGGTAATTTTACAAA-CTA
1 -GGGTATTTCAGTAATTTTACAAATCGA
** * * * * *
47700209 GGGGTATTTTGGTGATTTCATAAACCAA
1 -GGGTATTTCAGTAATTTTACAAATCGA
*
47700237 GGGTA-TTCTAGTAATTTTACAAA-CCA
1 GGGTATTTC-AGTAATTTTACAAATCGA
**
47700263 GGGGTATTTTGGTAATTTT
1 -GGGTATTTCAGTAATTTT
47700282 GTAAACTAAG
Statistics
Matches: 252, Mismatches: 47, Indels: 32
0.76 0.14 0.10
Matches are distributed among these distances:
26 12 0.05
27 232 0.92
28 8 0.03
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCGA
Found at i:47700062 original size:81 final size:80
Alignment explanation
Indices: 47699940--47700124 Score: 192
Period size: 81 Copynumber: 2.3 Consensus size: 80
47699930 TACCCTACAG
** * *
47699940 GGGTATTTCAATAATTTTGTAAATCGAGGGTAAAACGGTAA-TTCTATAAATCAAGGGTACTTTG
1 GGGTATTTCAATAATTTTACAAATCGAGGGTAAAACAGTAATTTC-ACAAATCAAGGGTACTTTG
*
47700004 GTAATTATACAAGTCGA
65 GTAATTATACAA-ACGA
* *** * * *
47700021 GGGTATTTCAATAATTTTACAAGTCGAGGGTATTTCAGTAATTTCACAAATTAGGGGTATTTTGG
1 GGGTATTTCAATAATTTTACAAATCGAGGGTAAAACAGTAATTTCACAAATCAAGGGTACTTTGG
* *
47700086 TAATTTTACAAACTA
66 TAATTATACAAACGA
**
47700101 GAGGTATTTTGATAATTTTACAAA
1 G-GGTATTTCAATAATTTTACAAA
47700125 CCAGGGGTAT
Statistics
Matches: 85, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
80 3 0.04
81 79 0.93
82 3 0.04
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (80 bp):
GGGTATTTCAATAATTTTACAAATCGAGGGTAAAACAGTAATTTCACAAATCAAGGGTACTTTGG
TAATTATACAAACGA
Found at i:47700133 original size:81 final size:81
Alignment explanation
Indices: 47699992--47700317 Score: 332
Period size: 81 Copynumber: 4.0 Consensus size: 81
47699982 TCTATAAATC
* * ** ** **
47699992 AAGGGTACTTTGGTAATTATACAAGTC-GAGGGTATTTCAATAATTTTACAAGTC-GAGGGTATT
1 AAGGGTATTTTGGTAATTTTACAAACCAGA-GGTATTTTGATAATTTTACAAACCAG-GGGTATT
** *
47700055 TCAGTAATTTCACAAATT
64 TTGGTAATTTCACAAACT
* *
47700073 AGGGGTATTTTGGTAATTTTACAAACTAGAGGTATTTTGATAATTTTACAAACCAGGGGTATTTT
1 AAGGGTATTTTGGTAATTTTACAAACCAGAGGTATTTTGATAATTTTACAAACCAGGGGTATTTT
*
47700138 GGTAATTTTACAAACT
66 GGTAATTTCACAAACT
** * * *
47700154 AAGGGTATTTTGAAAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTT
1 AAGGGTATTTTGGTAATTTTACAAACCAGAGGTATTTTGATAATTTTACAAACCAGGGGTATTTT
* * *
47700219 GGTGATTTCATAAACC
66 GGTAATTTCACAAACT
* * * * ** * *
47700235 AAGGGTATTCTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTT
1 AAGGGTATTTTGGTAATTTTACAAACCAGAGGTATTTTGATAATTTTACAAACCAGGGGTATTTT
* *
47700300 GATAATTTCATAAACT
66 GGTAATTTCACAAACT
47700316 AA
1 AA
47700318 AGTATTCTAA
Statistics
Matches: 208, Mismatches: 35, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
81 205 0.99
82 3 0.01
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.38
Consensus pattern (81 bp):
AAGGGTATTTTGGTAATTTTACAAACCAGAGGTATTTTGATAATTTTACAAACCAGGGGTATTTT
GGTAATTTCACAAACT
Found at i:47700287 original size:27 final size:27
Alignment explanation
Indices: 47700048--47700307 Score: 304
Period size: 27 Copynumber: 9.6 Consensus size: 27
47700038 TACAAGTCGA
** * **
47700048 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
47700075 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
47700102 AGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
47700129 GGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAG
**
47700156 GGGTATTTTGAAAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
47700183 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * *
47700210 GGGTATTTTGGTGATTTCATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
47700237 GGGTATTCTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** * *
47700264 GGGTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
47700291 GGGTATTTTGATAATTT
1 GGGTATTTTGGTAATTT
47700308 CATAAACTAA
Statistics
Matches: 197, Mismatches: 36, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 197 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:47701272 original size:29 final size:30
Alignment explanation
Indices: 47701239--47701299 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
47701229 TACCGCTGCG
*
47701239 CACTCTGATCCTA-CATCACTATCACACTT
1 CACTCTGATACTATCATCACTATCACACTT
*
47701268 CACTCTGATACTATTATCACTATCACACTT
1 CACTCTGATACTATCATCACTATCACACTT
47701298 CA
1 CA
47701300 ACTAGAACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 12 0.41
30 17 0.59
ACGTcount: A:0.30, C:0.34, G:0.03, T:0.33
Consensus pattern (30 bp):
CACTCTGATACTATCATCACTATCACACTT
Found at i:47702509 original size:27 final size:26
Alignment explanation
Indices: 47702461--47702520 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
47702451 GCGAGACTGC
*
47702461 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
47702488 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
47702514 CAGATAT
1 CAGATAT
47702521 ATTTATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:47703321 original size:27 final size:27
Alignment explanation
Indices: 47702855--47703314 Score: 587
Period size: 27 Copynumber: 17.0 Consensus size: 27
47702845 GGGGTAAAAT
* * *
47702855 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
47702882 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
47702909 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
47702936 GGTATTTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
47702963 GGTAATTCTACCCTACAGGCGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
47702990 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
47703017 GGTATTTCTACCCTACATGGGGTATTTC
1 GGTAATTCTACCCTACA-GGGGTATTTC
* * *
47703045 GGTATTTCTATCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
47703072 GGTATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
47703099 GATAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
47703126 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
47703153 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
47703180 GGTAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
47703207 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
47703234 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
47703261 GGTATTTCTACCCTACAAGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
47703288 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
47703315 AATAATTTGG
Statistics
Matches: 385, Mismatches: 47, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
27 359 0.93
28 26 0.07
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:47703653 original size:27 final size:27
Alignment explanation
Indices: 47703342--47703647 Score: 283
Period size: 27 Copynumber: 11.3 Consensus size: 27
47703332 AAGGTAAAAC
* * * * *
47703342 GGTAATTCTATAAATCAAGGGTACTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
** *
47703369 GGTAATTTTACAAGTC-GAGGGTATTTC
1 GGTAATTTTACAAACCAG-GGGTATTTT
** ** *
47703396 AATAATTTTACAAGTC-GAGGGTATTTC
1 GGTAATTTTACAAACCAG-GGGTATTTT
* * *
47703423 AGTAATTTCACAAATCAGGGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
*
47703450 GGTAATTTTACAAACTAGGGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
* *
47703477 GATAATTTTACAAACCAGGGGTTTTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
*
47703504 GGTAATTTTACAAACTAGGGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
* *
47703531 GATAATTTTACAAACCAGAGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
* ** * *
47703558 GGTGATTTTGTAAACCAAGGGTATTCT
1 GGTAATTTTACAAACCAGGGGTATTTT
* *
47703585 AGTAATTTTATAAACCAGGGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
** * *
47703612 GGTAATTTTGTAAACCAAGTGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTT
47703639 GGTAATTTT
1 GGTAATTTT
47703648 GTAAACTAAA
Statistics
Matches: 236, Mismatches: 41, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
27 235 1.00
28 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGTAATTTTACAAACCAGGGGTATTTT
Found at i:47704613 original size:30 final size:30
Alignment explanation
Indices: 47704579--47704640 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
47704569 TACTACTGCG
47704579 CACTCTGATCCTACTATCACTATCACACTT
1 CACTCTGATCCTACTATCACTATCACACTT
47704609 CACTCTGATCCTACTATCACTATCACACTT
1 CACTCTGATCCTACTATCACTATCACACTT
47704639 CA
1 CA
47704641 ACTAGAACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.37, G:0.03, T:0.32
Consensus pattern (30 bp):
CACTCTGATCCTACTATCACTATCACACTT
Found at i:47705842 original size:27 final size:26
Alignment explanation
Indices: 47705804--47705863 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
47705794 GCGAGGCTGC
*
47705804 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* *
47705831 CAGATATTGTGACTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
47705857 CAGATAT
1 CAGATAT
47705864 ATATATGTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:47705950 original size:27 final size:26
Alignment explanation
Indices: 47705902--47705953 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
47705892 GCGAGGCTGT
*
47705902 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
47705928 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
47705954 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:47705962 original size:67 final size:68
Alignment explanation
Indices: 47705831--47705972 Score: 196
Period size: 67 Copynumber: 2.1 Consensus size: 68
47705821 TCACCAGATA
* * *
47705831 CAGATATTGTGACTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACTAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG--A-ATATATGTGGCGAAGCCACCAGATTGCAGCGA
*
47705896 GGCTGT
63 GGCTGC
* *
47705902 CAGATATTGTGACGAAGTCACCAGAACAG-ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGC
1 CAGATATTGTGACGAAGCCACCAGAACAGAATATATGTGGCGAAGCCACCAGATTGCAGCGAGGC
47705966 TGC
66 TGC
47705969 CAGA
1 CAGA
47705973 ATGCTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
67 39 0.60
71 26 0.40
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.20
Consensus pattern (68 bp):
CAGATATTGTGACGAAGCCACCAGAACAGAATATATGTGGCGAAGCCACCAGATTGCAGCGAGGC
TGC
Found at i:47706258 original size:27 final size:27
Alignment explanation
Indices: 47706228--47706648 Score: 439
Period size: 27 Copynumber: 15.9 Consensus size: 27
47706218 GGTATCTCGA
*
47706228 TAATTCTACCCTATAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
**
47706255 TAATTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCAG
* * * *
47706282 TATTTCTACCTTACAAGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
47706309 TAATTCTACCTTACAGGGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCAG
* * *
47706336 TAATTCTACCTTATAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
*
47706363 TATTTCTACCCTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
* * *
47706390 TATTTCTATCCTACAAGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
* * *
47706417 TATTTCTACCCTATAAGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
47706444 TAATTCTACCCTACAGGGGTATTTC-G
1 TAATTCTACCCTACAGGGGTATTTCAG
*
47706470 ATAATTCTACCCTACAGGGGTATTTCGG
1 -TAATTCTACCCTACAGGGGTATTTCAG
* *
47706498 TAAGTCTATCCTACAGGGG----T-A-
1 TAATTCTACCCTACAGGGGTATTTCAG
* * *
47706519 T--TTCTACCCTATAAGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
47706544 TATTTCTACCCTACAAGGGTATTTC-G
1 TAATTCTACCCTACAGGGGTATTTCAG
* * *
47706570 ATATTTCTACCCTACAAGGGTATTTCGG
1 -TAATTCTACCCTACAGGGGTATTTCAG
* * * * *
47706598 TATTTCTACCTTACAAGGGTATTGCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
47706625 TAATTCTACCCTACAGGGGTATTT
1 TAATTCTACCCTACAGGGGTATTT
47706649 TAATAATTTT
Statistics
Matches: 342, Mismatches: 40, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
19 12 0.04
21 1 0.00
23 2 0.01
24 1 0.00
25 1 0.00
26 1 0.00
27 322 0.94
28 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCAG
Found at i:47706327 original size:81 final size:81
Alignment explanation
Indices: 47706202--47706648 Score: 502
Period size: 81 Copynumber: 5.6 Consensus size: 81
47706192 TAAAATGGTA
* * *
47706202 ATTT-TACCCCACAAAGGGTATCTCGATAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCC
1 ATTTCTACCCTAC-AAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCC
* *
47706266 TACAGGGGTATTTTGGT
65 TACAAGGGTATTTCGGT
* * * * *
47706283 ATTTCTACCTTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTAGTAATTCTACCTT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
* *
47706348 ATAGGGGTATTTCGGT
66 ACAAGGGTATTTCGGT
* * * * *
47706364 ATTTCTACCCTACAGGGGTATTTC-AGTATTTCTATCCTACAAGGGTATTTCAGTATTTCTACCC
1 ATTTCTACCCTACAAGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCC
* *
47706428 TATAAGGGTATTTCAGT
65 TACAAGGGTATTTCGGT
* * * * *
47706445 AATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAAGTCTATCCT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
47706510 AC-A-GG------GGT
66 ACAAGGGTATTTCGGT
* * * * *
47706518 ATTTCTACCCTATAAGGGTATTTCAATATTTCTACCCTACAAGGGTATTTC-GATATTTCTACCC
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAG-TAATTCTACCC
47706582 TACAAGGGTATTTCGGT
65 TACAAGGGTATTTCGGT
* * *
47706599 ATTTCTACCTTACAAGGGTATTGCGGTAATTCTACCCTACAGGGGTATTT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
47706649 TAATAATTTT
Statistics
Matches: 306, Mismatches: 48, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
72 1 0.00
73 58 0.19
74 1 0.00
75 2 0.01
79 2 0.01
80 1 0.00
81 234 0.76
82 7 0.02
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
ACAAGGGTATTTCGGT
Found at i:47706524 original size:19 final size:19
Alignment explanation
Indices: 47706502--47706541 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
47706492 TTTCGGTAAG
* *
47706502 TCTATCCTACAGGGGTATT
1 TCTACCCTACAAGGGTATT
*
47706521 TCTACCCTATAAGGGTATT
1 TCTACCCTACAAGGGTATT
47706540 TC
1 TC
47706542 AATATTTCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (19 bp):
TCTACCCTACAAGGGTATT
Found at i:47706539 original size:100 final size:100
Alignment explanation
Indices: 47706416--47706599 Score: 323
Period size: 100 Copynumber: 1.8 Consensus size: 100
47706406 GGGTATTTCA
* *
47706416 GTATTTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACC
1 GTATTTCTACCCTATAAGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCGATAATTCTACC
*
47706481 CTACAGGGGTATTTCGGTAAGTCTATCCTACAGGG
66 CTACAAGGGTATTTCGGTAAGTCTATCCTACAGGG
* *
47706516 GTATTTCTACCCTATAAGGGTATTTCAATATTTCTACCCTACAAGGGTATTTCGATATTTCTACC
1 GTATTTCTACCCTATAAGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCGATAATTCTACC
47706581 CTACAAGGGTATTTCGGTA
66 CTACAAGGGTATTTCGGTA
47706600 TTTCTACCTT
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 79 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (100 bp):
GTATTTCTACCCTATAAGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCGATAATTCTACC
CTACAAGGGTATTTCGGTAAGTCTATCCTACAGGG
Found at i:47706618 original size:100 final size:100
Alignment explanation
Indices: 47706416--47706620 Score: 322
Period size: 100 Copynumber: 2.0 Consensus size: 100
47706406 GGGTATTTCA
* *
47706416 GTATTTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACC
1 GTATTTCTACCCTATAAGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCGATAATTCTACC
* *
47706481 CTACAGGGGTATTTCGGTAAGTCTATCCTACAGGG
66 CTACAAGGGTATTTCGGTAAGTCTATCCTACAAGG
* *
47706516 GTATTTCTACCCTATAAGGGTATTTCAATATTTCTACCCTACAAGGGTATTTCGATATTTCTACC
1 GTATTTCTACCCTATAAGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCGATAATTCTACC
**
47706581 CTACAAGGGTATTTCGGTATTTCTA-CCTTACAAGG
66 CTACAAGGGTATTTCGGTAAGTCTATCC-TACAAGG
47706616 GTATT
1 GTATT
47706621 GCGGTAATTC
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
99 2 0.02
100 94 0.98
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (100 bp):
GTATTTCTACCCTATAAGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCGATAATTCTACC
CTACAAGGGTATTTCGGTAAGTCTATCCTACAAGG
Found at i:47707015 original size:27 final size:27
Alignment explanation
Indices: 47706694--47707008 Score: 337
Period size: 27 Copynumber: 11.7 Consensus size: 27
47706684 GATAAATCAA
* **
47706694 GGGTACTTTGGTAATTTTACAAGTC-G
1 GGGTATTTTGGTAATTTTACAAACCAG
* ** **
47706720 AAGGTATTTTAATAATTTTACAAGTC-G
1 -GGGTATTTTGGTAATTTTACAAACCAG
* * **
47706747 AGGGTATTTTAGTAATTTCACAAATTAG
1 -GGGTATTTTGGTAATTTTACAAACCAG
** *
47706775 GGGTATTTCCGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
47706802 AGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
47706829 GGGTATTTTGGTAATTTTATAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
47706856 GGGTACTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
47706883 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
47706910 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
47706937 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** * *
47706964 GGGTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAG
47706991 GGGTATTTTGGTAATTTT
1 GGGTATTTTGGTAATTTT
47707009 GTAAACTTAA
Statistics
Matches: 247, Mismatches: 40, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
27 246 1.00
28 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:47708683 original size:27 final size:26
Alignment explanation
Indices: 47708635--47708686 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
47708625 GCGAGGCTGC
*
47708635 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
47708661 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
47708687 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:47708963 original size:27 final size:27
Alignment explanation
Indices: 47708931--47709398 Score: 500
Period size: 27 Copynumber: 17.3 Consensus size: 27
47708921 GGGGTAAAAT
* * *
47708931 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* * *
47708958 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAGGGGTATTTC
* *
47708985 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* *
47709012 GGT-ATTTCTACCTTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
* *
47709039 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAGGGGTATTTC
* * * *
47709066 AGTAATTCTACCCTACAAGGGCATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
47709093 GGT-ATTTCTACCCTACAGGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
*
47709120 GGT-ATTTCTATCCTACAGGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
* *
47709147 GGT-ATTTCTACCCTATAAGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
* * *
47709174 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* *
47709201 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
*
47709228 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* * **
47709255 GGTAATTCTACCCTATAACGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* *
47709282 GAT-ATTTATACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
* *
47709309 GAT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
*
47709336 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
47709363 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
**
47709390 AATAATTTT
1 GGTAATTTT
47709399 GTAAATCGAG
Statistics
Matches: 387, Mismatches: 48, Indels: 12
0.87 0.11 0.03
Matches are distributed among these distances:
26 9 0.02
27 368 0.95
28 10 0.03
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAGGGGTATTTC
Found at i:47709389 original size:81 final size:81
Alignment explanation
Indices: 47708935--47709396 Score: 606
Period size: 81 Copynumber: 5.7 Consensus size: 81
47708925 TAAAATGGTA
* * * *
47708935 ATTT-TACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTT-TAGTAATTCTACCC
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGA-TAATTCTACCC
*
47708998 TACAGGGGTATTTCGGT
65 TACAAGGGTATTTCGGT
* *
47709015 ATTTCTACCTTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT-TAGTAATTCTACCC
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGA-TAATTCTACCC
*
47709079 TACAAGGGCATTTCGGT
65 TACAAGGGTATTTCGGT
* * * * *
47709096 ATTTCTACCCTACAGGGGTATTTCGGTATTTCTATCCTACAGGGGTATTTCGGTATTTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCT
* *
47709161 ATAAGGGTATTTCGAT
66 ACAAGGGTATTTCGGT
* * * * *
47709177 AATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCT
*
47709242 ACAGGGGTATTTCGGT
66 ACAAGGGTATTTCGGT
* * * * * * * *
47709258 AATTCTACCCTATAACGGTATTTCGATATTTATACCCTACAAGGGTATTTCGATATTTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCT
47709323 ACAAGGGTATTTCGGT
66 ACAAGGGTATTTCGGT
* *
47709339 ATTTCTACCCTACAAGGGTATTTCGGTAATTTTACCCTACAGGGGTATTTCAATAATT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATT
47709397 TTGTAAATCG
Statistics
Matches: 336, Mismatches: 44, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
80 4 0.01
81 332 0.99
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCT
ACAAGGGTATTTCGGT
Found at i:47709411 original size:27 final size:27
Alignment explanation
Indices: 47709381--47709721 Score: 142
Period size: 27 Copynumber: 12.6 Consensus size: 27
47709371 TACCCTACAG
* *
47709381 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCAGTAATTTTATAAATCGA
*** * * *
47709408 GGGTAAAACGGTAATTCTATAAATCAA
1 GGGTATTTCAGTAATTTTATAAATCGA
* * *
47709435 GGGTACTTT-GGTAATTTTACAAGTCGA
1 GGGTA-TTTCAGTAATTTTATAAATCGA
*
47709462 GGGTATTTCAATAATTTTA-AAAGTCGA
1 GGGTATTTCAGTAATTTTATAAA-TCGA
* *
47709489 GGGTATTTCAGTAATTTCACAAATC-A
1 GGGTATTTCAGTAATTTTATAAATCGA
** * *
47709515 GGGGTATTTTGGTAATTTTACAAA-CTA
1 -GGGTATTTCAGTAATTTTATAAATCGA
** * *
47709542 GGGGTATTTTGGTAATTTTACAAA-CTA
1 -GGGTATTTCAGTAATTTTATAAATCGA
* * * *
47709569 GGGGTATTT-TGATAATTTTACAAACCAA
1 -GGGTATTTCAG-TAATTTTATAAATCGA
** * *
47709597 GGGTATTTTGGTAATTTTACAAA-CCA
1 GGGTATTTCAGTAATTTTATAAATCGA
** * * *
47709623 GGGCTATTTTGGTGATTTTATAAACCAA
1 GGG-TATTTCAGTAATTTTATAAATCGA
* *
47709651 GGGTA-TTCTAGTAATTTTACAAA-CCA
1 GGGTATTTC-AGTAATTTTATAAATCGA
** * * *
47709677 GAGGTATTTTGGTAATTTTGTAAACCAA
1 G-GGTATTTCAGTAATTTTATAAATCGA
**
47709705 GGGTATTTTGGTAATTT
1 GGGTATTTCAGTAATTT
47709722 CGTAAACTAA
Statistics
Matches: 259, Mismatches: 40, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
26 18 0.07
27 225 0.87
28 16 0.06
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTATAAATCGA
Found at i:47709558 original size:81 final size:81
Alignment explanation
Indices: 47709351--47709721 Score: 315
Period size: 81 Copynumber: 4.6 Consensus size: 81
47709341 TTCTACCCTA
* ** *** ** **
47709351 CAAGGGTATTTCGGTAATTTTACCCTA-CAGGGGTATTTCAATAATTTTGTAAATCGAGGGTAAA
1 CAAGGGTATTTTGGTAATTTTA-CAAACCAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATT
* * * * *
47709415 ACGGTAATTCTATAAAT
65 TCAGTAATTTTACAAAC
* ** ***
47709432 CAAGGGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTCAATAATTTTA-AAAGTCGAGGGTAT
1 CAAGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTGGTAATTTTACAAA-TCGAGGGTAT
* *
47709495 TTCAGTAATTTCACAAAT
64 TTCAGTAATTTTACAAAC
* * *
47709513 CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA-CTAGGGGTATT
1 CAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAATCGA-GGGTATT
*
47709577 T-TGATAATTTTACAAAC
65 TCAG-TAATTTTACAAAC
* * * * *
47709594 CAAGGGTATTTTGGTAATTTTACAAACCAGGGCTATTTTGGTGATTTTATAAACCAAGGGTA-TT
1 CAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTT
47709658 CTAGTAATTTTACAAAC
66 C-AGTAATTTTACAAAC
** *
47709675 C-AGAGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTT
1 CAAG-GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
47709722 CGTAAACTAA
Statistics
Matches: 242, Mismatches: 37, Indels: 22
0.80 0.12 0.07
Matches are distributed among these distances:
80 12 0.05
81 223 0.92
82 7 0.03
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (81 bp):
CAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTT
CAGTAATTTTACAAAC
Found at i:47709728 original size:27 final size:27
Alignment explanation
Indices: 47709417--47709721 Score: 310
Period size: 27 Copynumber: 11.3 Consensus size: 27
47709407 AGGGTAAAAC
* * * *
47709417 GGTAATTCTATAAATCAAGGGTACTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
** * *
47709444 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAACCAAGGGTATTTT
** * * *
47709471 AATAATTTTA-AAAGTCGAGGGTATTTC
1 GGTAATTTTACAAA-CCAAGGGTATTTT
* * * *
47709498 AGTAATTTCACAAATCAGGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* *
47709525 GGTAATTTTACAAACTAGGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* *
47709552 GGTAATTTTACAAACTAGGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
*
47709579 GATAATTTTACAAACCAAGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
47709606 GGTAATTTTACAAACC-AGGGCTATTTT
1 GGTAATTTTACAAACCAAGGG-TATTTT
* * *
47709633 GGTGATTTTATAAACCAAGGGTATTCT
1 GGTAATTTTACAAACCAAGGGTATTTT
*
47709660 AGTAATTTTACAAACC-AGAGGTATTTT
1 GGTAATTTTACAAACCAAG-GGTATTTT
**
47709687 GGTAATTTTGTAAACCAAGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
47709714 GGTAATTT
1 GGTAATTT
47709722 CGTAAACTAA
Statistics
Matches: 240, Mismatches: 32, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
26 8 0.03
27 223 0.93
28 9 0.04
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACAAACCAAGGGTATTTT
Found at i:47716291 original size:38 final size:38
Alignment explanation
Indices: 47716249--47716369 Score: 161
Period size: 38 Copynumber: 3.1 Consensus size: 38
47716239 GCAAGCTTTA
* * *
47716249 TGCTGGTAATATATCCGGGTTAAATCCCACAGGCTTCG
1 TGCTGGTATTATATCCGGCTTAAATCCCACAGGCTTAG
47716287 TGCTGGTATTATATCCGGCTTAAATCCCACAGGCTTAG
1 TGCTGGTATTATATCCGGCTTAAATCCCACAGGCTTAG
* * * *
47716325 TGCTGGTATTATATTCGAGCTTAAAGTCCCGCAGGTTTTG
1 TGCTGGTATTATATCCG-GCTTAAA-TCCCACAGGCTTAG
47716365 TGCTG
1 TGCTG
47716370 ATGACTGGAA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
38 51 0.69
39 7 0.09
40 16 0.22
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.33
Consensus pattern (38 bp):
TGCTGGTATTATATCCGGCTTAAATCCCACAGGCTTAG
Found at i:47723333 original size:48 final size:48
Alignment explanation
Indices: 47723271--47723647 Score: 646
Period size: 48 Copynumber: 7.9 Consensus size: 48
47723261 TATATATGTG
*
47723271 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
47723319 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATTAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
**
47723367 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATAAATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
47723415 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
47723463 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
47723511 TGTGGTAAAGCCGAATGGCTAGTGTGAAATAAGAATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
47723559 TGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
47723607 TGTGGTAAAACCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
47723648 GTGTGTATAT
Statistics
Matches: 310, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 310 1.00
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.30
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
Found at i:47723843 original size:37 final size:37
Alignment explanation
Indices: 47723788--47723890 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
47723778 GGAAATATAT
47723788 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
47723825 TCCGCGTAAGACCTGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
47723862 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
47723891 GGACTATTCG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:47726304 original size:20 final size:20
Alignment explanation
Indices: 47726276--47726317 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
47726266 TACCAACTTG
*
47726276 CAACTTACCATAATCTTTCA
1 CAACATACCATAATCTTTCA
*
47726296 CAACATACCATAGTCTTTCA
1 CAACATACCATAATCTTTCA
47726316 CA
1 CA
47726318 GCTTAAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.36, C:0.31, G:0.02, T:0.31
Consensus pattern (20 bp):
CAACATACCATAATCTTTCA
Found at i:47726513 original size:42 final size:42
Alignment explanation
Indices: 47726405--47726526 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 42
47726395 TACCATACCA
* * * * *
47726405 ATGCCATATCCTAGATATGGTCTCACATG-GGATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAG-TCTCATATCG
* *
47726447 ATGCCAATAGCCCAGCTATGGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
47726490 ATGCCATATCCCAGATATGGTCTTACACGTAA-TCTCA
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCA
47726527 ACTAACCCTA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 32 0.47
43 35 0.51
44 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:47731326 original size:17 final size:17
Alignment explanation
Indices: 47731304--47731340 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
47731294 AAGAATCCAT
*
47731304 CAAAACATAGACTTTGC
1 CAAAACATAGACTTCGC
47731321 CAAAACATAGACTTCGC
1 CAAAACATAGACTTCGC
47731338 CAA
1 CAA
47731341 TCGGCACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.43, C:0.27, G:0.11, T:0.19
Consensus pattern (17 bp):
CAAAACATAGACTTCGC
Found at i:47741476 original size:47 final size:44
Alignment explanation
Indices: 47741369--47741535 Score: 158
Period size: 47 Copynumber: 3.6 Consensus size: 44
47741359 TATGCATGCT
*
47741369 GATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTTAGCC
1 GATGCATGTCCCAGACACGTCTTACACTAGCACAACTCTTAGCC
* * *
47741413 GATGCATGTCCCAGACACGTCTTACACTGGCTATC-TCTGTTGAGGCC
1 GATGCATGTCCCAGACACGTCTTACACTAGC-A-CAACTCTT-A-GCC
* * *
47741460 GATGCATGTCCTAGACACGTCTTACTCTAGCACTCATCTCTGT-GCC
1 GATGCATGTCCCAGACACGTCTTACACTAGCA--CAACTCT-TAGCC
* *
47741506 GATGTCGTGTCCCAGACATGGTCTTACACT
1 GATG-CATGTCCCAGACA-CGTCTTACACT
47741536 GGCTCTCATA
Statistics
Matches: 102, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
44 29 0.28
45 5 0.05
46 10 0.10
47 44 0.43
48 13 0.13
49 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.28
Consensus pattern (44 bp):
GATGCATGTCCCAGACACGTCTTACACTAGCACAACTCTTAGCC
Found at i:47741563 original size:94 final size:90
Alignment explanation
Indices: 47741314--47741583 Score: 303
Period size: 94 Copynumber: 2.9 Consensus size: 90
47741304 ATGGGATGAA
* *
47741314 TTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATGCAT-GCTGATGCATGT
1 TTGCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATG--TGGCCGATGCATGT
47741378 CCCAGACATGTCTTACACTAGCACAACTC
62 CCCAGACATGTCTTACACTAGCACAACTC
* ** *
47741407 TTAGCCGATGCATGTCCCAGACA-CGTCTTACACTGGCTATCTC-TGTTGAGGCCGATGCATGTC
1 TT-GCCGATGCATGTCCCAGACATGGTCTTACACTGGC--TCTCATAATGTGGCCGATGCATGTC
* * * *
47741470 CTAGACACGTCTTACTCTAGCACTCATCTC
63 CCAGACATGTCTTACACTAGCA--CAACTC
* * *
47741500 TGTGCCGATGTCGTGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGAAGAATGTCC
1 T-TGCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCC
47741565 CAGACATGTCTTACACTAG
64 CAGACATGTCTTACACTAG
47741584 TGCCCAAATC
Statistics
Matches: 147, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
91 31 0.21
92 14 0.10
93 33 0.22
94 56 0.38
95 13 0.09
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (90 bp):
TTGCCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCA
GACATGTCTTACACTAGCACAACTC
Found at i:47742550 original size:13 final size:13
Alignment explanation
Indices: 47742532--47742563 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
47742522 TGAAAACATT
47742532 AAAATTAACTCAC
1 AAAATTAACTCAC
47742545 AAAATTAACTCAC
1 AAAATTAACTCAC
47742558 AAAATT
1 AAAATT
47742564 TCTCATGCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (13 bp):
AAAATTAACTCAC
Found at i:47744225 original size:33 final size:33
Alignment explanation
Indices: 47744183--47744313 Score: 107
Period size: 33 Copynumber: 4.2 Consensus size: 33
47744173 TGCACATTTT
47744183 CTTTTCAAATGGTATACACAAAGTATACCTTTC
1 CTTTTCAAATGGTATACACAAAGTATACCTTTC
* *
47744216 CTTTTCAAATGG--TACACGAAGT-T---TGT-
1 CTTTTCAAATGGTATACACAAAGTATACCTTTC
* * * * * **
47744242 CGTTTCAAGT-GTACACACAAAGTGTACATAGC
1 CTTTTCAAATGGTATACACAAAGTATACCTTTC
**
47744274 CTTTTCATGTGGTATACACAAAGTATACCTTTC
1 CTTTTCAAATGGTATACACAAAGTATACCTTTC
47744307 CTTTTCA
1 CTTTTCA
47744314 CATTCGATAG
Statistics
Matches: 75, Mismatches: 15, Indels: 16
0.71 0.14 0.15
Matches are distributed among these distances:
25 1 0.01
26 8 0.11
27 10 0.13
28 1 0.01
30 1 0.01
31 10 0.13
32 8 0.11
33 36 0.48
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.36
Consensus pattern (33 bp):
CTTTTCAAATGGTATACACAAAGTATACCTTTC
Found at i:47745022 original size:20 final size:22
Alignment explanation
Indices: 47744982--47745022 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
47744972 TGTAAAAGTG
*
47744982 ATTTCTCTATCAATAACCTTTT
1 ATTTCTCTATCAATAAACTTTT
47745004 ATTT-TCTATC-ATAAACTTT
1 ATTTCTCTATCAATAAACTTT
47745023 AAATTTACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 6 0.33
22 4 0.22
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTTCTCTATCAATAAACTTTT
Found at i:47749642 original size:47 final size:45
Alignment explanation
Indices: 47749571--47749833 Score: 231
Period size: 47 Copynumber: 5.6 Consensus size: 45
47749561 GTAAGGTGTT
* *
47749571 GATGCCATGTCCTAGACATTGTCTTACACTGGCTCACATCTCAAGTC
1 GATG-CATGTCCCAGACA-TGTCTTACACTGGCTCACATCTCAAGCC
* *
47749618 GATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGTAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCA-CATCTC-AAGCC
* * * *
47749666 GATGTATGTCCTAGACATGTCTTACACTGGCTTACGTCTCAAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAA-GCC
* * * * * * *
47749712 GATGCATTTCCCAGCCATGTCTTACACTAGCTCTCTTCTTAATGGC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAA-GCC
* * * ***
47749758 AATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCACAT-CTCAAGCC
47749806 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
47749834 AGCCAACAAT
Statistics
Matches: 177, Mismatches: 31, Indels: 17
0.79 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 71 0.40
47 75 0.42
48 29 0.16
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.30
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAGCC
Found at i:47763877 original size:46 final size:46
Alignment explanation
Indices: 47763705--47763877 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
47763695 AACCCGCCCC
* * *
47763705 TAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
47763751 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * * *
47763799 TCA-CGAACTCGAACCCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
47763844 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
47763878 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 58 0.56
47 27 0.26
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:47764335 original size:30 final size:30
Alignment explanation
Indices: 47764301--47764360 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
47764291 ATTTAATACG
47764301 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
47764331 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
47764361 GGCTCGGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:47781582 original size:47 final size:49
Alignment explanation
Indices: 47781508--47781637 Score: 158
Period size: 47 Copynumber: 2.7 Consensus size: 49
47781498 GTATAATACC
* * *
47781508 GATGTCATGTCCCAAACATGGTCTTACACTGGCTCATC-CAT-TAAGT-T
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTC-TCACATGTAAGTCT
* **
47781555 GATGCCATGTCCGAGACATGGTCTTACACTGACTCTCACATGTCCGTGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATGTAAGT-CT
*
47781605 GATGCCATGTCCCAGACGTGGTCTTACACTGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGAC
47781638 ACATTTTGTA
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
46 2 0.03
47 34 0.48
48 3 0.04
50 32 0.45
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATGTAAGTCT
Found at i:47781722 original size:45 final size:47
Alignment explanation
Indices: 47781506--47781780 Score: 158
Period size: 45 Copynumber: 5.9 Consensus size: 47
47781496 AGGTATAATA
* *
47781506 CCGATGTCATGTCCCAAACATGGTCTTACACTGGCTCATCCAT-T-AA-G
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTC-T-CATCTCAAGG
** * * * *
47781553 TTGATGCCATGTCCGAGACATGGTCTTACACTGACTCTCACATGTC-CGTG
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCT--CATCTCAAG-G
* * * * * **
47781603 CTGATGCCATGTCCCAGACGTGGTCTTACACT-G-ACACATTTTGTA-G
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCTCA-TCTCAAGG
* * * * *
47781649 TCAATG-CATGTCTCAAACATGTCTTACACTGGCT-TACATCTCGAGG
1 CCGATGCCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCAAGG
* * * *
47781695 GCGATG-CATGTCCTAGA-ATGTCTTACACTAGCTCTCATCTCAATG
1 CCGATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAGG
47781740 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCTCAT
47781781 AACGTGGCCG
Statistics
Matches: 174, Mismatches: 39, Indels: 29
0.72 0.16 0.12
Matches are distributed among these distances:
44 10 0.06
45 43 0.25
46 33 0.19
47 38 0.22
48 20 0.11
50 30 0.17
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAGG
Found at i:47793290 original size:12 final size:12
Alignment explanation
Indices: 47793273--47793300 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
47793263 CGGCCTAACA
47793273 CATGAAATCGCC
1 CATGAAATCGCC
47793285 CATGAAATCGCC
1 CATGAAATCGCC
47793297 CATG
1 CATG
47793301 GTGGCCTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.32, G:0.18, T:0.18
Consensus pattern (12 bp):
CATGAAATCGCC
Found at i:47799763 original size:36 final size:36
Alignment explanation
Indices: 47799723--47799795 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
47799713 GATAAAGTAT
*
47799723 ATGACTACGAGTTCCTACGCTATGATGATAAATTGA
1 ATGACTACGAGATCCTACGCTATGATGATAAATTGA
47799759 ATGACTACGAGATCCTACGCTATGATGATAAATTGA
1 ATGACTACGAGATCCTACGCTATGATGATAAATTGA
47799795 A
1 A
47799796 CTCGTATTAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (36 bp):
ATGACTACGAGATCCTACGCTATGATGATAAATTGA
Found at i:47806341 original size:47 final size:49
Alignment explanation
Indices: 47806272--47806401 Score: 158
Period size: 47 Copynumber: 2.7 Consensus size: 49
47806262 GTATAATGTC
* *
47806272 GATGCCATGTACCAGACGTGGTCTTACACTGGCTCATC-CAT-TAAGT-T
1 GATGCCATGTCCCAGACGTGGTCTTACACTGACTC-TCACATGTAAGTAT
* * **
47806319 GATGCCATGTCCCAGACATGGTCTTACCCTGACTCTCACATGTCCGTACT
1 GATGCCATGTCCCAGACGTGGTCTTACACTGACTCTCACATGTAAGTA-T
*
47806369 GATGCCATGTCCTAGACGTGGTCTTACACTGAC
1 GATGCCATGTCCCAGACGTGGTCTTACACTGAC
47806402 ACATCTTGTA
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
46 2 0.03
47 34 0.49
48 3 0.04
50 31 0.44
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAGACGTGGTCTTACACTGACTCTCACATGTAAGTAT
Found at i:47806534 original size:94 final size:92
Alignment explanation
Indices: 47806370--47806539 Score: 225
Period size: 94 Copynumber: 1.8 Consensus size: 92
47806360 GTCCGTACTG
* * * *
47806370 ATGCCATGTCCTAGACGTGGTCTTACACTGACACATCTTGTAGCCGATGCATGTCCTAGACATGT
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACATCTTGTAGCCGATGCATATCCCAGACATGT
47806435 ATTACACTAGCTCTCGTCTCAATGCCA
66 ATTACACTAGCTCTCGTCTCAATGCCA
* * *
47806462 ATGCCATGTCCCAGACATGGTCTTACACTGCCTC-TCATAATGTGGCCGATGCATATCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACATC-T--TGTAGCCGATGCATATCCCAGACA
* *
47806526 TTTCTTACACTAGC
63 TGTATTACACTAGC
47806540 ACACAAATAA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
91 2 0.03
92 31 0.47
94 33 0.50
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (92 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACACATCTTGTAGCCGATGCATATCCCAGACATGT
ATTACACTAGCTCTCGTCTCAATGCCA
Found at i:47814568 original size:28 final size:29
Alignment explanation
Indices: 47814537--47814600 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
47814527 ATATAAATCG
* *
47814537 ATTTTTTG-AGCCTAGGGGTAAAATGGTC
1 ATTTTGTGAAGCCTAGGGGCAAAATGGTC
*
47814565 ATTTTGTGAAAGTCTAGGGGCAAAATGGTC
1 ATTTTGTG-AAGCCTAGGGGCAAAATGGTC
*
47814595 GTTTTG
1 ATTTTG
47814601 CCAAAAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 7 0.23
30 23 0.77
ACGTcount: A:0.25, C:0.09, G:0.30, T:0.36
Consensus pattern (29 bp):
ATTTTGTGAAGCCTAGGGGCAAAATGGTC
Found at i:47815041 original size:48 final size:47
Alignment explanation
Indices: 47814936--47815288 Score: 197
Period size: 48 Copynumber: 7.5 Consensus size: 47
47814926 TATGTGTGCT
* * * *
47814936 AGTGTAAGACATGTTTGGGACATGCATCGGCCAC-A-TTGTGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGT-AAAGCC
* *
47814982 AGGGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATGTACAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA-AAGCC
* * * * ** * * *
47815030 AGTGTAAGACATTTCTAGGACATGCATTGGCATTAAGACG-AGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAAGCC
* * * *
47815076 AGTGTAAAACATGTCTGGGACAAGCATCGGCCTCGAGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA-AAGCC
* * * * *
47815124 AGTGTAAGACCTGTCTGGGACATGGCATCAG-CTTGTTG-TGT---GTC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCG-AGATGTAAAGCC
* * * * * *
47815168 AGTGTAAGACTTGTCTGGGACACGACATTGGCCTCGATATATGAAAGTC
1 AGTGTAAGACATGTCTGGGACATG-CATCGGCCTCGAGATGT-AAAGCC
* * * * * * *
47815217 AGTGCAAGACCTGTCTAGGACATGGCATCGACTTTGATG-TGCT--AGCT
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGA-GATG-TAAAGCC
47815264 AGTGTAAGACTATGTCTGGGACATG
1 AGTGTAAGAC-ATGTCTGGGACATG
47815289 GCGTCGGCAT
Statistics
Matches: 231, Mismatches: 58, Indels: 35
0.71 0.18 0.11
Matches are distributed among these distances:
43 1 0.00
44 26 0.11
45 5 0.02
46 63 0.27
47 16 0.07
48 80 0.35
49 38 0.16
50 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAAGCC
Found at i:47815231 original size:93 final size:95
Alignment explanation
Indices: 47814985--47815286 Score: 273
Period size: 94 Copynumber: 3.2 Consensus size: 95
47814975 GAGAGCCAGG
* * * * * * * *
47814985 GTAAGACATGTCTAGGACATGCATCGGCCTCGAGATGTACAAGCCAGTGTAAGACATTTCTAGGA
1 GTAAGACTTGTCTGGGACAAGCATCGGCCTCGAGATATACAAGCTAGTGCAAGACCTGTCTAGGA
* * * * *
47815050 CAT-GCATTGGCATTAAGACGAG--AGCTAGT
66 CATGGCATCGAC-TT-TGATGTGCTAGCTAGT
* * * *
47815079 GTAAAACATGTCTGGGACAAGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTGTCTGGGA
1 GTAAGACTTGTCTGGGACAAGCATCGGCCTCGAGATATACAAGCTAGTGCAAGACCTGTCTAGGA
*
47815144 CATGGCATC-AGC-TTGTTGTG-T-G-TCAGT
66 CATGGCATCGA-CTTTGATGTGCTAGCT-AGT
* * *
47815171 GTAAGACTTGTCTGGGACACGACATTGGCCTCGATATATGA-AAG-TCAGTGCAAGACCTGTCTA
1 GTAAGACTTGTCTGGGACAAG-CATCGGCCTCGAGATAT-ACAAGCT-AGTGCAAGACCTGTCTA
47815234 GGACATGGCATCGACTTTGATGTGCTAGCTAGT
63 GGACATGGCATCGACTTTGATGTGCTAGCTAGT
47815267 GTAAGACTATGTCTGGGACA
1 GTAAGACT-TGTCTGGGACA
47815287 TGGCGTCGGC
Statistics
Matches: 173, Mismatches: 22, Indels: 23
0.79 0.10 0.11
Matches are distributed among these distances:
91 1 0.01
92 26 0.15
93 47 0.27
94 69 0.40
95 6 0.03
96 12 0.07
97 12 0.07
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (95 bp):
GTAAGACTTGTCTGGGACAAGCATCGGCCTCGAGATATACAAGCTAGTGCAAGACCTGTCTAGGA
CATGGCATCGACTTTGATGTGCTAGCTAGT
Found at i:47817719 original size:37 final size:37
Alignment explanation
Indices: 47817678--47817764 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 37
47817668 GTAGTTAGCG
*
47817678 GGTCTCACCTGGACAAAATCTCCACACGTAGTCATCA
1 GGTCTCACCCGGACAAAATCTCCACACGTAGTCATCA
* *
47817715 GGTCTTACCCGGACATAATCTCCACACGTAGTCATC-
1 GGTCTCACCCGGACAAAATCTCCACACGTAGTCATCA
*
47817751 GAGTCTTACCCGGA
1 G-GTCTCACCCGGA
47817765 ATATATTTCC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
36 1 0.02
37 45 0.98
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
GGTCTCACCCGGACAAAATCTCCACACGTAGTCATCA
Found at i:47817963 original size:48 final size:48
Alignment explanation
Indices: 47817905--47818290 Score: 607
Period size: 48 Copynumber: 8.0 Consensus size: 48
47817895 ATATACACAC
* * *
47817905 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
47817953 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
47818001 ATCTCATATATATTTCAC-CTTAGCCATACGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACAC-TAGCCATTCGGCTTTACCACATATACAT
47818049 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
47818097 ATCTCATATATATTTCAC-CTTAGCCATACGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACAC-TAGCCATTCGGCTTTACCACATATACAT
47818145 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
47818193 ATCTCATATATATTTCAC-CTTAGCCATACGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACAC-TAGCCATTCGGCTTTACCACATATACAT
*
47818241 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
47818289 AT
1 AT
47818291 TTGTCTTGTA
Statistics
Matches: 312, Mismatches: 20, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
47 3 0.01
48 306 0.98
49 3 0.01
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:47818024 original size:96 final size:96
Alignment explanation
Indices: 47817905--47818290 Score: 709
Period size: 96 Copynumber: 4.0 Consensus size: 96
47817895 ATATACACAC
* * * * * *
47817905 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACATATCTCATACATATTTCA
1 ATCTCATATATATTTCACCTTAGCCATACGGCTTTACCACATATATATATCTCATACATATTTCA
47817970 CACTAGCCATTCGGCTTTACCACATATACAT
66 CACTAGCCATTCGGCTTTACCACATATACAT
47818001 ATCTCATATATATTTCACCTTAGCCATACGGCTTTACCACATATATATATCTCATACATATTTCA
1 ATCTCATATATATTTCACCTTAGCCATACGGCTTTACCACATATATATATCTCATACATATTTCA
47818066 CACTAGCCATTCGGCTTTACCACATATACAT
66 CACTAGCCATTCGGCTTTACCACATATACAT
47818097 ATCTCATATATATTTCACCTTAGCCATACGGCTTTACCACATATATATATCTCATACATATTTCA
1 ATCTCATATATATTTCACCTTAGCCATACGGCTTTACCACATATATATATCTCATACATATTTCA
47818162 CACTAGCCATTCGGCTTTACCACATATACAT
66 CACTAGCCATTCGGCTTTACCACATATACAT
47818193 ATCTCATATATATTTCACCTTAGCCATACGGCTTTACCACATATATATATCTCATACATATTTCA
1 ATCTCATATATATTTCACCTTAGCCATACGGCTTTACCACATATATATATCTCATACATATTTCA
*
47818258 CACTAGCCATTCGGCTTTACCACATATATAT
66 CACTAGCCATTCGGCTTTACCACATATACAT
47818289 AT
1 AT
47818291 TTGTCTTGTA
Statistics
Matches: 283, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 283 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (96 bp):
ATCTCATATATATTTCACCTTAGCCATACGGCTTTACCACATATATATATCTCATACATATTTCA
CACTAGCCATTCGGCTTTACCACATATACAT
Found at i:47820814 original size:14 final size:14
Alignment explanation
Indices: 47820795--47820830 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
47820785 TCCGACTAGG
47820795 GTCACATTAGGGGT
1 GTCACATTAGGGGT
*
47820809 GTCACATAAGGGGT
1 GTCACATTAGGGGT
*
47820823 GTTACATT
1 GTCACATT
47820831 TAGTGGTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.31
Consensus pattern (14 bp):
GTCACATTAGGGGT
Found at i:47823869 original size:18 final size:18
Alignment explanation
Indices: 47823846--47823881 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
47823836 GAGATGGTTG
47823846 GAGTTGATAAAAGACTAC
1 GAGTTGATAAAAGACTAC
*
47823864 GAGTTGATAATAGACTAC
1 GAGTTGATAAAAGACTAC
47823882 CTCCTAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (18 bp):
GAGTTGATAAAAGACTAC
Found at i:47834658 original size:15 final size:15
Alignment explanation
Indices: 47834638--47834666 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
47834628 TAATTGCATC
47834638 CTCATATTGATAATA
1 CTCATATTGATAATA
47834653 CTCATATTGATAAT
1 CTCATATTGATAAT
47834667 GATATAAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (15 bp):
CTCATATTGATAATA
Found at i:47838252 original size:15 final size:15
Alignment explanation
Indices: 47838232--47838263 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
47838222 TCGATTGATC
*
47838232 TTCCAATATTCTAGT
1 TTCCAAAATTCTAGT
47838247 TTCCAAAATTCTAGT
1 TTCCAAAATTCTAGT
47838262 TT
1 TT
47838264 TTTTACATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (15 bp):
TTCCAAAATTCTAGT
Found at i:47838935 original size:20 final size:21
Alignment explanation
Indices: 47838912--47838952 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
47838902 ATAAGCATGT
47838912 ATTTTG-ATGTTTGATAATAG
1 ATTTTGAATGTTTGATAATAG
*
47838932 ATTTTGAATGTTTGATGATAG
1 ATTTTGAATGTTTGATAATAG
47838953 TTATACAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (21 bp):
ATTTTGAATGTTTGATAATAG
Found at i:47839624 original size:54 final size:54
Alignment explanation
Indices: 47839528--47839630 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
47839518 TAGCTTCGGC
* * * * *
47839528 TATATATGTATTGGCACTTAGTGTGCATAATTGAAATGGCTTCAGCTATATATA
1 TATATATATATTGGCACATAGTGTGCAAAATAGAAATAGCTTCAGCTATATATA
*
47839582 TATATATATATTGGCACATAGTGTG-AGAAATAGATATAGCTTCAGCTAT
1 TATATATATATTGGCACATAGTGTGCA-AAATAGAAATAGCTTCAGCTAT
47839631 TTATTTGGCA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 1 0.02
54 41 0.98
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (54 bp):
TATATATATATTGGCACATAGTGTGCAAAATAGAAATAGCTTCAGCTATATATA
Found at i:47843028 original size:29 final size:29
Alignment explanation
Indices: 47842960--47843028 Score: 102
Period size: 29 Copynumber: 2.4 Consensus size: 29
47842950 CATGTCTCGG
* **
47842960 AGCCAAATCAACCAACATTCATGGCCTGA
1 AGCCAAATCAGCCAACATTCATGGCCCAA
*
47842989 AGCTAAATCAGCCAACATTCATGGCCCAA
1 AGCCAAATCAGCCAACATTCATGGCCCAA
47843018 AGCCAAATCAG
1 AGCCAAATCAG
47843029 TATAACTTGC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.39, C:0.30, G:0.14, T:0.16
Consensus pattern (29 bp):
AGCCAAATCAGCCAACATTCATGGCCCAA
Found at i:47853385 original size:11 final size:9
Alignment explanation
Indices: 47853347--47853388 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
47853337 CTCTGTATTC
47853347 TCTCTCAA-
1 TCTCTCAAT
*
47853355 -CTCTCAAC
1 TCTCTCAAT
47853363 TCTCTCAAT
1 TCTCTCAAT
47853372 TCTCTCAAT
1 TCTCTCAAT
*
47853381 TTTCTCAA
1 TCTCTCAA
47853389 GTTTTGTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
7 7 0.23
9 23 0.77
ACGTcount: A:0.24, C:0.36, G:0.00, T:0.40
Consensus pattern (9 bp):
TCTCTCAAT
Found at i:47853824 original size:35 final size:35
Alignment explanation
Indices: 47853778--47853845 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
47853768 CGATCCTACA
47853778 CTCATTAGCACATTAGTGGAAAGATAGAGGCCCCC
1 CTCATTAGCACATTAGTGGAAAGATAGAGGCCCCC
*
47853813 CTCATTAGCACATTAGTGGAAATATAGAGGCCC
1 CTCATTAGCACATTAGTGGAAAGATAGAGGCCC
47853846 AAGACACCCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (35 bp):
CTCATTAGCACATTAGTGGAAAGATAGAGGCCCCC
Done.