Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 59 of 284
Found at i:20824094 original size:18 final size:19
Alignment explanation
Indices: 20824068--20824103 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
20824058 AAATAAAAAG
20824068 TTAATTAAATAAAAATAAT
1 TTAATTAAATAAAAATAAT
20824087 TTAA-TAAATAAAAATAA
1 TTAATTAAATAAAAATAA
20824104 ACTAGAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TTAATTAAATAAAAATAAT
Found at i:20825755 original size:49 final size:50
Alignment explanation
Indices: 20825685--20825923 Score: 284
Period size: 49 Copynumber: 4.8 Consensus size: 50
20825675 TGAGGTCATG
* *
20825685 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
* * * * * *
20825734 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTAGGTCACA
* * * ** **
20825785 TGTGTAGTACTAAGTGCAAGCTATTACGTGTATCAGATGGTTAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
* *
20825835 TGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
* *
20825884 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
20825924 CCTTGTCTAC
Statistics
Matches: 161, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
49 78 0.48
50 47 0.29
51 36 0.22
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
Found at i:20825868 original size:101 final size:98
Alignment explanation
Indices: 20825684--20825923 Score: 291
Period size: 101 Copynumber: 2.4 Consensus size: 98
20825674 GTGAGGTCAT
* *
20825684 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACTAAGT
* * *
20825749 GCAGGCTACTATGCGTACCCGATAACTTCGATCAC
66 GCAAGCTACTACGCGTACCAGATAA-TT-GATCAC
* * * ** **
20825784 GTGTGTAGTACTAAGTGCAAGCTATTACGTGTATCAGATGGTTAGGTCATGTGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTGTAGTACTAAG
* * *
20825849 TGCAAGCTACTACGTGTACCAGATAATTGGTCGC
65 TGCAAGCTACTACGCGTACCAGATAATTGATCAC
* * *
20825883 ATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
20825924 CCTTGTCTAC
Statistics
Matches: 116, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
99 37 0.32
100 39 0.34
101 40 0.34
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (98 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACTAAGT
GCAAGCTACTACGCGTACCAGATAATTGATCAC
Found at i:20830169 original size:29 final size:28
Alignment explanation
Indices: 20830119--20830186 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
20830109 CCTAAATACA
20830119 AAATATATATTAGTGGGTGTTG-TGTTAT
1 AAATATATATTAGTGGGTGTTGTTG-TAT
*
20830147 ATAATATATATTTGTGTGG-GTTGTTGTAT
1 A-AATATATATTAGTG-GGTGTTGTTGTAT
20830176 AAATATTATAT
1 AAATA-TATAT
20830187 GCGTGATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
28 5 0.14
29 26 0.74
30 4 0.11
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.49
Consensus pattern (28 bp):
AAATATATATTAGTGGGTGTTGTTGTAT
Found at i:20830692 original size:49 final size:49
Alignment explanation
Indices: 20830635--20830739 Score: 210
Period size: 49 Copynumber: 2.1 Consensus size: 49
20830625 GGCATTGTGG
20830635 CCTGAAGATAGTGTTGGAGATATAAGGGAATGTTGAGCATAGCTCCATT
1 CCTGAAGATAGTGTTGGAGATATAAGGGAATGTTGAGCATAGCTCCATT
20830684 CCTGAAGATAGTGTTGGAGATATAAGGGAATGTTGAGCATAGCTCCATT
1 CCTGAAGATAGTGTTGGAGATATAAGGGAATGTTGAGCATAGCTCCATT
20830733 CCTGAAG
1 CCTGAAG
20830740 GTGTAACACC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 56 1.00
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.28
Consensus pattern (49 bp):
CCTGAAGATAGTGTTGGAGATATAAGGGAATGTTGAGCATAGCTCCATT
Found at i:20835664 original size:33 final size:32
Alignment explanation
Indices: 20835627--20835693 Score: 116
Period size: 33 Copynumber: 2.1 Consensus size: 32
20835617 ATAAGTAACC
20835627 ATGTTTTTTTTATAGTAAAATATATGAAACAG
1 ATGTTTTTTTTATAGTAAAATATATGAAACAG
*
20835659 NATGTTTTTTTTATAGTAAAATTTATGAAACAG
1 -ATGTTTTTTTTATAGTAAAATATATGAAACAG
20835692 AT
1 AT
20835694 TATTTCATTC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 2 0.06
33 31 0.94
ACGTcount: A:0.39, C:0.03, G:0.12, T:0.45
Consensus pattern (32 bp):
ATGTTTTTTTTATAGTAAAATATATGAAACAG
Found at i:20836134 original size:24 final size:25
Alignment explanation
Indices: 20836097--20836143 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
20836087 TGCAGCTTTT
*
20836097 TTTTTTTTTCTTTTTCATTTTCCCG
1 TTTTTTCTTCTTTTTCATTTTCCCG
*
20836122 TTTTTTCTT-TTTTTCTTTTTCC
1 TTTTTTCTTCTTTTTCATTTTCC
20836144 TAACCTTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTTTTCTTCTTTTTCATTTTCCCG
Found at i:20841263 original size:61 final size:59
Alignment explanation
Indices: 20841183--20841313 Score: 145
Period size: 61 Copynumber: 2.2 Consensus size: 59
20841173 ATTTGATCCT
* ** * * * ** * *
20841183 AATTAACAAATTTAGCCCTCAATTTTTACAAAATTTGTCATTTTAGTTCTAATTCTAAAA
1 AATTAAAAAATTTAGCCCTCAACATTTAAAAAATCTATCAACTTAGTCCTAACTCT-AAA
*
20841243 AATTAAATAAATTTGGCCCTCAACATTTAAAAAATCTATCAACTTAGTCCTAACTCTAAA
1 AATTAAA-AAATTTAGCCCTCAACATTTAAAAAATCTATCAACTTAGTCCTAACTCTAAA
20841303 AATTAAAAAAT
1 AATTAAAAAAT
20841314 ATATATATTT
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
59 4 0.07
60 16 0.27
61 39 0.66
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.36
Consensus pattern (59 bp):
AATTAAAAAATTTAGCCCTCAACATTTAAAAAATCTATCAACTTAGTCCTAACTCTAAA
Found at i:20842847 original size:19 final size:19
Alignment explanation
Indices: 20842796--20842859 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
20842786 ACAAAATTTT
*
20842796 TTTACAAAAATGTCAAAATAA
1 TTTATAAAAAT-TCAAAAT-A
* *
20842817 TTT-TTAAGATTCAAAATA
1 TTTATAAAAATTCAAAATA
*
20842835 TTTATAAAAATTCTAAA-A
1 TTTATAAAAATTCAAAATA
20842853 TTTATAA
1 TTTATAA
20842860 TTTTTAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
18 12 0.33
19 17 0.47
20 4 0.11
21 3 0.08
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (19 bp):
TTTATAAAAATTCAAAATA
Found at i:20842879 original size:27 final size:27
Alignment explanation
Indices: 20842835--20842886 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
20842825 ATTCAAAATA
* *
20842835 TTTATAAAAATTCTAAAATTTATAATT
1 TTTATAAAAATTATAAAATATATAATT
20842862 TTTA-AAAAATTATAAAAATATATAA
1 TTTATAAAAATTAT-AAAATATATAA
20842887 AGAAATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
TTTATAAAAATTATAAAATATATAATT
Found at i:20852061 original size:11 final size:11
Alignment explanation
Indices: 20852045--20852097 Score: 54
Period size: 11 Copynumber: 4.9 Consensus size: 11
20852035 TAGGTTACAC
20852045 ATATATATATA
1 ATATATATATA
20852056 ATATATATATA
1 ATATATATATA
* *
20852067 ATATTTA-ATG
1 ATATATATATA
* * *
20852077 TTGTTTATATA
1 ATATATATATA
20852088 ATATATATAT
1 ATATATATAT
20852098 GAGTGGGGTT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
10 7 0.21
11 26 0.79
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (11 bp):
ATATATATATA
Found at i:20852076 original size:62 final size:64
Alignment explanation
Indices: 20851955--20852077 Score: 223
Period size: 64 Copynumber: 2.0 Consensus size: 64
20851945 TGAAGATAGA
20851955 CTGAAGTGCTAAAAGGTAGGTTACACACATATATATATATAATATATATAATATTTAATGTAGG
1 CTGAAGTGCTAAAAGGTAGGTTACACACATATATATATATAATATATATAATATTTAATGTAGG
*
20852019 CTGAAGTGCTAAAAGGTAGGTTACACATATATATATA-AT-ATATATATAATATTTAATGT
1 CTGAAGTGCTAAAAGGTAGGTTACACACATATATATATATAATATATATAATATTTAATGT
20852078 TGTTTATATA
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
62 20 0.34
63 2 0.03
64 36 0.62
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.36
Consensus pattern (64 bp):
CTGAAGTGCTAAAAGGTAGGTTACACACATATATATATATAATATATATAATATTTAATGTAGG
Found at i:20855786 original size:50 final size:50
Alignment explanation
Indices: 20855711--20855810 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
20855701 ACTTGGATGG
20855711 ATGACATTACTATATGAAAACACATTTAAAAATGGTCAAGAGATATCACA
1 ATGACATTACTATATGAAAACACATTTAAAAATGGTCAAGAGATATCACA
20855761 ATGACATTACTATATGAAAACACATTTAAAAATGGTCAAGAGATATCACA
1 ATGACATTACTATATGAAAACACATTTAAAAATGGTCAAGAGATATCACA
20855811 CTATCACAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.26
Consensus pattern (50 bp):
ATGACATTACTATATGAAAACACATTTAAAAATGGTCAAGAGATATCACA
Found at i:20858280 original size:185 final size:182
Alignment explanation
Indices: 20857934--20858305 Score: 690
Period size: 185 Copynumber: 2.0 Consensus size: 182
20857924 TTTTATTATA
20857934 TATATATGTTATAAAGTATTATTAATAGTTTCAATATTATTATTCTTATTAACACATATGTATGT
1 TATATATGTTATAAAGTATTATTAATAGTTTCAATATTATTATTCTTATTAACACATATGTATGT
*
20857999 TAATAATATATTTTGTCTATTTTTTATACATAGGTATATATATGTATATTCCTCTTTTTTAATAC
66 TAATAATATATTTTGTCTATTTTTTATACATAGGTATATATATGTATATTCCTCCTTTTTAATAC
20858064 TATGTATATATTCTGATATATTACGTGTATGTTTTGTTTTGTATACTATGTG
131 TATGTATATATTCTGATATATTACGTGTATGTTTTGTTTTGTATACTATGTG
*
20858116 TATATATGTTATAAAGTATTATTAATAGTTTCAATATTATTATTCTTATTAACGCATATGTATGT
1 TATATATGTTATAAAGTATTATTAATAGTTTCAATATTATTATTCTTATTAACACATATGTATGT
20858181 TAATAATATATTTTGTCTATATTTTTTTATACATAGGTATATATATGTATATTCCTCCTTTTTAA
66 TAATAATATATTTTGTC--TA-TTTTTTATACATAGGTATATATATGTATATTCCTCCTTTTTAA
*
20858246 TACTATGTATATATTTTGATATATTACGTGTATGTTTTGTTTTGTATACTATGTG
128 TACTATGTATATATTCTGATATATTACGTGTATGTTTTGTTTTGTATACTATGTG
20858301 TATAT
1 TATAT
20858306 TACGTATATG
Statistics
Matches: 184, Mismatches: 3, Indels: 3
0.97 0.02 0.02
Matches are distributed among these distances:
182 81 0.44
184 2 0.01
185 101 0.55
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.52
Consensus pattern (182 bp):
TATATATGTTATAAAGTATTATTAATAGTTTCAATATTATTATTCTTATTAACACATATGTATGT
TAATAATATATTTTGTCTATTTTTTATACATAGGTATATATATGTATATTCCTCCTTTTTAATAC
TATGTATATATTCTGATATATTACGTGTATGTTTTGTTTTGTATACTATGTG
Found at i:20858784 original size:116 final size:116
Alignment explanation
Indices: 20858652--20858882 Score: 435
Period size: 116 Copynumber: 2.0 Consensus size: 116
20858642 TATATATACG
*
20858652 CTATGCATATGCATTTTTAGATATTGTATTATCATTATGTATATATATACTTTTTCTCATATATT
1 CTATGCATATGCATTTTTAAATATTGTATTATCATTATGTATATATATACTTTTTCTCATATATT
*
20858717 TCTTATTGCTTCTATTATTATGTATGTACCTTAATACATATATGTATATAA
66 TCTTATTACTTCTATTATTATGTATGTACCTTAATACATATATGTATATAA
*
20858768 CTATGCATATGTATTTTTAAATATTGTATTATCATTATGTATATATATACTTTTTCTCATATATT
1 CTATGCATATGCATTTTTAAATATTGTATTATCATTATGTATATATATACTTTTTCTCATATATT
20858833 TCTTATTACTTCTATTATTATGTATGTACCTTAATACATATATGTATATA
66 TCTTATTACTTCTATTATTATGTATGTACCTTAATACATATATGTATATA
20858883 CCACTGTCGT
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 112 1.00
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.52
Consensus pattern (116 bp):
CTATGCATATGCATTTTTAAATATTGTATTATCATTATGTATATATATACTTTTTCTCATATATT
TCTTATTACTTCTATTATTATGTATGTACCTTAATACATATATGTATATAA
Found at i:20859738 original size:298 final size:298
Alignment explanation
Indices: 20859202--20859796 Score: 1100
Period size: 298 Copynumber: 2.0 Consensus size: 298
20859192 GAGATAATCA
20859202 TGCCCTAACTTACTGGGTTTCGACTTTTCTCATTTAACCTAAATAACGGAATATTCTTTTTAAAT
1 TGCCCTAACTTACTGGGTTTCGACTTTTCTCATTTAACCTAAATAACGGAATATTCTTTTTAAAT
20859267 TACGATACAAGTCTTAAAAATGCTTATTTTCGGAGATACTAAGCGTGGTGCCCTAACTTACCGGG
66 TACGATACAAGTCTTAAAAATGCTTATTTTCGGAGATACTAAGCGTGGTGCCCTAACTTACCGGG
**
20859332 TATGACACTTTGAAACTTCGAAACAAGATCTTTTACAAGTAAAGGCAATGTTCGGTGTTCGGGAA
131 TATGACACTTTGAAACTTCGAAACAAGATCTTTTACAAGTAAAGGCAATGTTCGGTGTTCGAAAA
* * *
20859397 TTCGAGGAAACGTGCTCTAACTTACTGGGTCTTAATCTTCCTCGTTCACCCTAACTAACTGAATA
196 TTCGAGGAAACGTGCCCTAACTTACTGGGTCTCAATCTTCCTCGTTCACCCTAACTAACCGAATA
20859462 TCCTTTTAAAAGAGGTCAAAATATATTTATTTTAAATG
261 TCCTTTTAAAAGAGGTCAAAATATATTTATTTTAAATG
20859500 TGCCCTAACTTACTGGGTTTCGACTTTTCTCATTTAACCTAAATAACGGAATATTCTTTTTAAAT
1 TGCCCTAACTTACTGGGTTTCGACTTTTCTCATTTAACCTAAATAACGGAATATTCTTTTTAAAT
* * *
20859565 TATGATACAAGTCTTAAAAATGCTTATTTTTGGAGATACTAAGTGTGGTGCCCTAACTTACCGGG
66 TACGATACAAGTCTTAAAAATGCTTATTTTCGGAGATACTAAGCGTGGTGCCCTAACTTACCGGG
20859630 TATGACACTTTGAAACTTCGAAACAAGATCTTTTACAAGTAAAGGCAATGTTCGGTGTTCGAAAA
131 TATGACACTTTGAAACTTCGAAACAAGATCTTTTACAAGTAAAGGCAATGTTCGGTGTTCGAAAA
* *
20859695 TTCGAGGAAACGTGCCCTAACTTATTGGGTCTCGATCTTCCTCGTTCACCCTAACTAACCGAATA
196 TTCGAGGAAACGTGCCCTAACTTACTGGGTCTCAATCTTCCTCGTTCACCCTAACTAACCGAATA
20859760 TCCTTTTAAAAGAGGTCAAAATATATTTATTTTAAAT
261 TCCTTTTAAAAGAGGTCAAAATATATTTATTTTAAAT
20859797 ACAAGGCAAG
Statistics
Matches: 287, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
298 287 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (298 bp):
TGCCCTAACTTACTGGGTTTCGACTTTTCTCATTTAACCTAAATAACGGAATATTCTTTTTAAAT
TACGATACAAGTCTTAAAAATGCTTATTTTCGGAGATACTAAGCGTGGTGCCCTAACTTACCGGG
TATGACACTTTGAAACTTCGAAACAAGATCTTTTACAAGTAAAGGCAATGTTCGGTGTTCGAAAA
TTCGAGGAAACGTGCCCTAACTTACTGGGTCTCAATCTTCCTCGTTCACCCTAACTAACCGAATA
TCCTTTTAAAAGAGGTCAAAATATATTTATTTTAAATG
Found at i:20863052 original size:9 final size:9
Alignment explanation
Indices: 20863038--20863067 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
20863028 ACGTTTTTTT
20863038 GCATTCATC
1 GCATTCATC
20863047 GCATTCATC
1 GCATTCATC
20863056 GCATTCAT-
1 GCATTCATC
20863064 GCAT
1 GCAT
20863068 CAGCATTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.19
9 17 0.81
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.33
Consensus pattern (9 bp):
GCATTCATC
Found at i:20871166 original size:43 final size:44
Alignment explanation
Indices: 20871105--20871191 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 44
20871095 ATTCACCAAG
* *
20871105 CCTTAAACCCCTAAGCAGTAGGGTAACAGG-TTAAATTTACAGA
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGA
* *
20871148 CCTTAACCCCCTAAGCAGTAGGGTAATAGGCTGAAAATTACAGA
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGA
20871192 TCTTGTCTCC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 28 0.72
44 11 0.28
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (44 bp):
CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGA
Found at i:20871392 original size:43 final size:42
Alignment explanation
Indices: 20871334--20871434 Score: 121
Period size: 43 Copynumber: 2.4 Consensus size: 42
20871324 GGCTTCAACG
* *
20871334 CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTCAAA
1 CCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAACCT-AAA
* *** * *
20871377 CCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGATCTAAA
1 CCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAACCTAAA
20871419 CCCCTAAGCAGTAGGG
1 CCCCTAAGCAGTAGGG
20871435 AAATAGGTCG
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
42 19 0.38
43 31 0.62
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.20
Consensus pattern (42 bp):
CCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAACCTAAA
Found at i:20871681 original size:44 final size:43
Alignment explanation
Indices: 20871633--20871784 Score: 128
Period size: 42 Copynumber: 3.5 Consensus size: 43
20871623 GATCTTATCA
*
20871633 CCCTAAGCAGTAGGGAAACAGATCGAATGCAATAGGTCTTAAAC
1 CCCTAAGCAGTAGGGAAACAGATCGAATG-AAAAGGTCTTAAAC
* * * * * * *
20871677 CCCTAAGCATTAGGGTAACAGACCGAAT-TACAGATCTT-ATC
1 CCCTAAGCAGTAGGGAAACAGATCGAATGAAAAGGTCTTAAAC
* * * * *
20871718 TCCCTCAGTAGCAGGGAAACAGATCGAAGGTAAAAGAGCCTTAAAC
1 -CCCTAAGCAGTAGGGAAACAGATCGAATG-AAAAG-GTCTTAAAC
*
20871764 CCCTAAGCAGTAGGGTAACAG
1 CCCTAAGCAGTAGGGAAACAG
20871785 GCTGAATTTA
Statistics
Matches: 80, Mismatches: 23, Indels: 9
0.71 0.21 0.08
Matches are distributed among these distances:
41 2 0.03
42 28 0.35
44 28 0.35
45 20 0.25
46 2 0.03
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.18
Consensus pattern (43 bp):
CCCTAAGCAGTAGGGAAACAGATCGAATGAAAAGGTCTTAAAC
Found at i:20871792 original size:87 final size:87
Alignment explanation
Indices: 20871610--20871876 Score: 274
Period size: 86 Copynumber: 3.1 Consensus size: 87
20871600 GTGGGGCAGA
* * * * *
20871610 CTGAATATCTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAATGCAATAG-GTCTTA
1 CTGAAT-T-TACAGATCTTATCTCCCTAAGTAGTAGGGAAACAGATCGAAAG-AAAAGAGCCTTA
* *
20871674 AACCCCTAAGCATTAGGGTAACAGA
63 AACCCCTAAGCAGTAGGGTAACAGG
* * * *
20871699 CCGAA-TTACAGATCTTATCTCCCTCAGTAGCAGGGAAACAGATCGAAGGTAAAAGAGCCTTAAA
1 CTGAATTTACAGATCTTATCTCCCTAAGTAGTAGGGAAACAGATCGAAAG-AAAAGAGCCTTAAA
20871763 CCCCTAAGCAGTAGGGTAACAGG
65 CCCCTAAGCAGTAGGGTAACAGG
* * * * * *
20871786 CTGAATTTATAGATCTTACCTCCCAAAGTAGTAGTGG-AGCAGATC-AAAGACAATGAGCCTT-G
1 CTGAATTTACAGATCTTATCTCCCTAAGTAGTAG-GGAAACAGATCGAAAGA-AAAGAGCCTTAA
* *
20871848 ACCACTAAGCAGTAGGGTAATAGG
64 ACCCCTAAGCAGTAGGGTAACAGG
20871872 CTGAA
1 CTGAA
20871877 AATTATAGAT
Statistics
Matches: 151, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
86 70 0.46
87 45 0.30
88 30 0.20
89 6 0.04
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (87 bp):
CTGAATTTACAGATCTTATCTCCCTAAGTAGTAGGGAAACAGATCGAAAGAAAAGAGCCTTAAAC
CCCTAAGCAGTAGGGTAACAGG
Found at i:20882277 original size:28 final size:29
Alignment explanation
Indices: 20882246--20882300 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
20882236 CATATTGATG
20882246 TTAAGCATTTTTAAAATAC-AATATCACA
1 TTAAGCATTTTTAAAATACAAATATCACA
*** *
20882274 TTAATTTTTTTTAAAGTACAAATATCA
1 TTAAGCATTTTTAAAATACAAATATCA
20882301 TAATAAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 15 0.68
29 7 0.32
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.42
Consensus pattern (29 bp):
TTAAGCATTTTTAAAATACAAATATCACA
Found at i:20882365 original size:23 final size:24
Alignment explanation
Indices: 20882321--20882366 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
20882311 TATATTGACA
*
20882321 TTTTAAATACCATATTAAATTTTTT
1 TTTTAAATA-CATATGAAATTTTTT
*
20882346 TTTTAAATA-ATATGACATTTT
1 TTTTAAATACATATGAAATTTT
20882367 GCCTTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 10 0.53
25 9 0.47
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (24 bp):
TTTTAAATACATATGAAATTTTTT
Found at i:20886504 original size:18 final size:18
Alignment explanation
Indices: 20886478--20886513 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
20886468 AGAGGTTTTA
*
20886478 AAGAGGAAGGTCGAAGAG
1 AAGAAGAAGGTCGAAGAG
*
20886496 AAGAAGAAGGTTGAAGAG
1 AAGAAGAAGGTCGAAGAG
20886514 CTTGCATGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.42, T:0.08
Consensus pattern (18 bp):
AAGAAGAAGGTCGAAGAG
Found at i:20892760 original size:24 final size:24
Alignment explanation
Indices: 20892733--20892781 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
20892723 GATGACAAAT
20892733 TATGCACATTTGGTCTTGTTATAA
1 TATGCACATTTGGTCTTGTTATAA
20892757 TATGCACATTTGGTCTTGTTATAA
1 TATGCACATTTGGTCTTGTTATAA
20892781 T
1 T
20892782 GTTACTTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.47
Consensus pattern (24 bp):
TATGCACATTTGGTCTTGTTATAA
Found at i:20898959 original size:52 final size:52
Alignment explanation
Indices: 20898881--20899712 Score: 1580
Period size: 52 Copynumber: 16.0 Consensus size: 52
20898871 ATGTATAAAG
*
20898881 ATAGATTGGTTTTAATGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
1 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
20898933 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATG-
1 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
* **
20898984 AT-GAAT-GTTAAATGCATGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
1 ATAGATTGGTTTTAT---TGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
20899037 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
1 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
20899089 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
1 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
20899141 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
1 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
20899193 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
1 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
20899245 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
1 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
20899297 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
1 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
20899349 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
1 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
20899401 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
1 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
20899453 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
1 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
20899505 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
1 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
20899557 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
1 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
20899609 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
1 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
20899661 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
1 ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
20899713 TGAATGTTAA
Statistics
Matches: 767, Mismatches: 7, Indels: 12
0.98 0.01 0.02
Matches are distributed among these distances:
49 5 0.01
50 3 0.00
51 2 0.00
52 747 0.97
53 2 0.00
54 3 0.00
55 5 0.01
ACGTcount: A:0.25, C:0.08, G:0.21, T:0.46
Consensus pattern (52 bp):
ATAGATTGGTTTTATTGGCTTTGTGCTCGAATATATTAATGTTATTCGATGA
Found at i:20904027 original size:52 final size:54
Alignment explanation
Indices: 20903939--20904058 Score: 156
Period size: 52 Copynumber: 2.3 Consensus size: 54
20903929 TCCCAGATAC
*
20903939 GGTCTTATAC-GGAATCACGTTATCACATCACACTGATGCCATTGCCCAACTAT
1 GGTCTTATACGGGAATCACGTTATCACATCACACTGATGCCATAGCCCAACTAT
** * * *
20903992 GGTCTTATACGGGAAT-ACG-TATCACATTGCTCTGATGCCATAGCCTAGCTAT
1 GGTCTTATACGGGAATCACGTTATCACATCACACTGATGCCATAGCCCAACTAT
*
20904044 GGTCTTATATGGGAA
1 GGTCTTATACGGGAA
20904059 CATATATCAC
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
52 41 0.69
53 13 0.22
54 5 0.08
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (54 bp):
GGTCTTATACGGGAATCACGTTATCACATCACACTGATGCCATAGCCCAACTAT
Found at i:20906963 original size:32 final size:32
Alignment explanation
Indices: 20906927--20906990 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
20906917 GAAGCTGCTG
*
20906927 TTGTAGAAGACTACAGCGACGGTGAACTTCTA
1 TTGTAGAAGACTACAGCGACGATGAACTTCTA
20906959 TTGTAGAAGACTACAGCGACGATGAACTTCTA
1 TTGTAGAAGACTACAGCGACGATGAACTTCTA
20906991 CTCGCTTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (32 bp):
TTGTAGAAGACTACAGCGACGATGAACTTCTA
Found at i:20910844 original size:29 final size:32
Alignment explanation
Indices: 20910779--20910845 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 32
20910769 ATAGTATTTT
20910779 ATAAATTTAATATTAAAGTGATTATCTTACTA
1 ATAAATTTAATATTAAAGTGATTATCTTACTA
* *
20910811 TTAAATTTAAT-TT-AA-TGTTTATCTTA-TA
1 ATAAATTTAATATTAAAGTGATTATCTTACTA
20910839 GATAAAT
1 -ATAAAT
20910846 ATTTTATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 2 0.06
29 15 0.48
30 2 0.06
31 2 0.06
32 10 0.32
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (32 bp):
ATAAATTTAATATTAAAGTGATTATCTTACTA
Found at i:20910953 original size:18 final size:18
Alignment explanation
Indices: 20910930--20910966 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
20910920 ATTAAATAGA
20910930 TTAAGTTTGATCATAGTT
1 TTAAGTTTGATCATAGTT
20910948 TTAAGTTTGATCATAGTT
1 TTAAGTTTGATCATAGTT
20910966 T
1 T
20910967 AACTCTCTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.51
Consensus pattern (18 bp):
TTAAGTTTGATCATAGTT
Found at i:20921261 original size:18 final size:18
Alignment explanation
Indices: 20921239--20921280 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
20921229 TTAAAATATA
20921239 AAAAATTAATAAAAATTGC
1 AAAAA-TAATAAAAATTGC
* *
20921258 AAAAATATTAAAAATTTC
1 AAAAATAATAAAAATTGC
20921276 AAAAA
1 AAAAA
20921281 CATAGCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (18 bp):
AAAAATAATAAAAATTGC
Found at i:20925122 original size:7 final size:7
Alignment explanation
Indices: 20925110--20925138 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
20925100 CACCAATTGA
20925110 TTTTGTT
1 TTTTGTT
20925117 TTTTGTT
1 TTTTGTT
20925124 TTTTGTT
1 TTTTGTT
20925131 TTTT-TT
1 TTTTGTT
20925137 TT
1 TT
20925139 GTTTCGATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (7 bp):
TTTTGTT
Found at i:20926010 original size:7 final size:7
Alignment explanation
Indices: 20925998--20926022 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
20925988 TCTAAGTTTA
20925998 TTTAGGG
1 TTTAGGG
20926005 TTTAGGG
1 TTTAGGG
20926012 TTTAGGG
1 TTTAGGG
20926019 TTTA
1 TTTA
20926023 TTATTCTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:20928999 original size:17 final size:17
Alignment explanation
Indices: 20928977--20929009 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
20928967 TCGTCATAAT
20928977 CCCGTTCAGAAATTCTA
1 CCCGTTCAGAAATTCTA
20928994 CCCGTTCAGAAATTCT
1 CCCGTTCAGAAATTCT
20929010 GCTCGTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.30
Consensus pattern (17 bp):
CCCGTTCAGAAATTCTA
Found at i:20934186 original size:28 final size:28
Alignment explanation
Indices: 20934145--20934199 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
20934135 TTTCTCTTCC
*
20934145 TTTTCTTATCTTTTAT-CTTTCCTTTTTT
1 TTTTCTTATCTTTT-TCCATTCCTTTTTT
* *
20934173 TTTTCTTCTTTTTTTCCATTCCTTTTT
1 TTTTCTTATCTTTTTCCATTCCTTTTT
20934200 CCTTCCCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 1 0.04
28 22 0.96
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (28 bp):
TTTTCTTATCTTTTTCCATTCCTTTTTT
Found at i:20935721 original size:263 final size:263
Alignment explanation
Indices: 20935252--20935778 Score: 1045
Period size: 263 Copynumber: 2.0 Consensus size: 263
20935242 TGGCCCAGAA
20935252 GAATTTTGACTAAGCATGACGTGCATGTCAAGTGTATGTGAGAGTTTTAAGAAATTAGATCGTCT
1 GAATTTTGACTAAGCATGACGTGCATGTCAAGTGTATGTGAGAGTTTTAAGAAATTAGATCGTCT
20935317 TTAAGAGCACGCCTGATGAGAGTTTTCGCCAAAGGTATGGTACACCTGATTTGCTCGAACATTGT
66 TTAAGAGCACGCCTGATGAGAGTTTTCGCCAAAGGTATGGTACACCTGATTTGCTCGAACATTGT
20935382 GCCATGTGGGTTTTGTAACTTGATTGGGTGGGAGTCAACTGAATGGATTGGGCTGGTCAAACAAT
131 GCCATGTGGGTTTTGTAACTTGATTGGGTGGGAGTCAACTGAATGGATTGGGCTGGTCAAACAAT
*
20935447 ATCTGCACCGGATTCTCTTTTATGTTTTTTTCGGTTTTGATAGGGCATTAAAGAGACAATTTCTG
196 ATCTACACCGGATTCTCTTTTATGTTTTTTTCGGTTTTGATAGGGCATTAAAGAGACAATTTCTG
20935512 TAT
261 TAT
20935515 GAATTTTGACTAAGCATGACGTGCATGTCAAGTGTATGTGAGAGTTTTAAGAAATTAGATCGTCT
1 GAATTTTGACTAAGCATGACGTGCATGTCAAGTGTATGTGAGAGTTTTAAGAAATTAGATCGTCT
20935580 TTAAGAGCACGCCTGATGAGAGTTTTCGCCAAAGGTATGGTACACCTGATTTGCTCGAACATTGT
66 TTAAGAGCACGCCTGATGAGAGTTTTCGCCAAAGGTATGGTACACCTGATTTGCTCGAACATTGT
20935645 GCCATGTGGGTTTTGTAACTTGATTGGGTGGGAGTCAACTGAATGGATTGGGCTGGTCAAACAAT
131 GCCATGTGGGTTTTGTAACTTGATTGGGTGGGAGTCAACTGAATGGATTGGGCTGGTCAAACAAT
20935710 ATCTACACCGGATTCTCTTTTATGTTTTTTTCGGTTTTGATAGGGCATTAAAGAGACAATTTCTG
196 ATCTACACCGGATTCTCTTTTATGTTTTTTTCGGTTTTGATAGGGCATTAAAGAGACAATTTCTG
20935775 TAT
261 TAT
20935778 G
1 G
20935779 CATATAACAT
Statistics
Matches: 263, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
263 263 1.00
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (263 bp):
GAATTTTGACTAAGCATGACGTGCATGTCAAGTGTATGTGAGAGTTTTAAGAAATTAGATCGTCT
TTAAGAGCACGCCTGATGAGAGTTTTCGCCAAAGGTATGGTACACCTGATTTGCTCGAACATTGT
GCCATGTGGGTTTTGTAACTTGATTGGGTGGGAGTCAACTGAATGGATTGGGCTGGTCAAACAAT
ATCTACACCGGATTCTCTTTTATGTTTTTTTCGGTTTTGATAGGGCATTAAAGAGACAATTTCTG
TAT
Found at i:20936281 original size:46 final size:46
Alignment explanation
Indices: 20936228--20936377 Score: 185
Period size: 46 Copynumber: 3.3 Consensus size: 46
20936218 GTTACTTGCG
*
20936228 ATGCCTTTGTGGCATATTTTGTAATGCCTTTGTGACGTATTCTATA
1 ATGCCTTTGTGGCATATTTTGTAATGCCTTTGTGACATATTCTATA
*
20936274 ATGCCTTTGTGGCATATTTTGTAATGCCTTTGTGACATATTCTGTA
1 ATGCCTTTGTGGCATATTTTGTAATGCCTTTGTGACATATTCTATA
** ** * * * * *
20936320 ATGTATTTGTGGTGTATTCTT-CAATGTCTTTGTGGCATATTTTACA
1 ATGCCTTTGTGGCATATT-TTGTAATGCCTTTGTGACATATTCTATA
20936366 ATGCCTTTGTGG
1 ATGCCTTTGTGG
20936378 TGTATTCTGC
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
46 87 0.98
47 2 0.02
ACGTcount: A:0.19, C:0.14, G:0.21, T:0.47
Consensus pattern (46 bp):
ATGCCTTTGTGGCATATTTTGTAATGCCTTTGTGACATATTCTATA
Found at i:20936384 original size:69 final size:69
Alignment explanation
Indices: 20936228--20936401 Score: 215
Period size: 69 Copynumber: 2.5 Consensus size: 69
20936218 GTTACTTGCG
* * **
20936228 ATGCCTTTGTGGCATATTTTGTAATGCCTTTGTGACGTATTCTATAATGCCTTTGTGGCATATTT
1 ATGCCTTTGTGGCATATTCTGTAATGTCTTTGTGGTGTATTCTATAATGCCTTTGTGGCATATTT
**
20936293 TGTA
66 TACA
* * *
20936297 ATGCCTTTGTGACATATTCTGTAATGTATTTGTGGTGTATTCT-TCAATGTCTTTGTGGCATATT
1 ATGCCTTTGTGGCATATTCTGTAATGTCTTTGTGGTGTATTCTAT-AATGCCTTTGTGGCATATT
20936361 TTACA
65 TTACA
** * *
20936366 ATGCCTTTGTGGTGTATTCTGCAATGTCTGTGTGGT
1 ATGCCTTTGTGGCATATTCTGTAATGTCTTTGTGGT
20936402 AAGTTTTGTA
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
68 1 0.01
69 88 0.99
ACGTcount: A:0.18, C:0.14, G:0.22, T:0.47
Consensus pattern (69 bp):
ATGCCTTTGTGGCATATTCTGTAATGTCTTTGTGGTGTATTCTATAATGCCTTTGTGGCATATTT
TACA
Found at i:20936390 original size:23 final size:23
Alignment explanation
Indices: 20936228--20936400 Score: 159
Period size: 23 Copynumber: 7.5 Consensus size: 23
20936218 GTTACTTGCG
*
20936228 ATGCCTTTGTGGCATATTTTGTA
1 ATGCCTTTGTGGCATATTCTGTA
* * *
20936251 ATGCCTTTGTGACGTATTCTATA
1 ATGCCTTTGTGGCATATTCTGTA
*
20936274 ATGCCTTTGTGGCATATTTTGTA
1 ATGCCTTTGTGGCATATTCTGTA
*
20936297 ATGCCTTTGTGACATATTCTGTA
1 ATGCCTTTGTGGCATATTCTGTA
** **
20936320 ATGTATTTGTGGTGTATTCT-TCA
1 ATGCCTTTGTGGCATATTCTGT-A
* * **
20936343 ATGTCTTTGTGGCATATTTTACA
1 ATGCCTTTGTGGCATATTCTGTA
** *
20936366 ATGCCTTTGTGGTGTATTCTGCA
1 ATGCCTTTGTGGCATATTCTGTA
* *
20936389 ATGTCTGTGTGG
1 ATGCCTTTGTGG
20936401 TAAGTTTTGT
Statistics
Matches: 121, Mismatches: 27, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
22 1 0.01
23 120 0.99
ACGTcount: A:0.18, C:0.14, G:0.22, T:0.46
Consensus pattern (23 bp):
ATGCCTTTGTGGCATATTCTGTA
Found at i:20940370 original size:32 final size:33
Alignment explanation
Indices: 20940311--20940372 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 33
20940301 GTTAACCAAT
* *
20940311 GAGTTATCAAAATTAAATTAATTAATTTATCAC
1 GAGTTATCAAAATTAAAGTAATCAATTTATCAC
* *
20940344 GAGTTAT-TAAATTCAAGTAATCAATTTAT
1 GAGTTATCAAAATTAAAGTAATCAATTTAT
20940373 AAGTTTATGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 18 0.72
33 7 0.28
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (33 bp):
GAGTTATCAAAATTAAAGTAATCAATTTATCAC
Found at i:20940553 original size:16 final size:16
Alignment explanation
Indices: 20940511--20940553 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
20940501 AAATTTAAAC
*
20940511 ATTTTATTGAAATAAT
1 ATTTTATTTAAATAAT
*
20940527 ATTTTAATTAAGATAAT
1 ATTTTATTTAA-ATAAT
20940544 -TTTTATTTAA
1 ATTTTATTTAA
20940554 TAAATTTGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (16 bp):
ATTTTATTTAAATAAT
Found at i:20943033 original size:32 final size:32
Alignment explanation
Indices: 20942995--20943055 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
20942985 GACTACCAAA
20942995 AAGTTTAGGTACCAAATTAGGA-AAAAAAATGT
1 AAGTTTAGGTACCAAATT-GGATAAAAAAATGT
*
20943027 AAGTTTATGTACCAAATTGGATAAAAAAA
1 AAGTTTAGGTACCAAATTGGATAAAAAAA
20943056 AGTTTAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 3 0.11
32 24 0.89
ACGTcount: A:0.51, C:0.07, G:0.16, T:0.26
Consensus pattern (32 bp):
AAGTTTAGGTACCAAATTGGATAAAAAAATGT
Found at i:20943056 original size:60 final size:60
Alignment explanation
Indices: 20942939--20943061 Score: 160
Period size: 61 Copynumber: 2.0 Consensus size: 60
20942929 GAAGAGGAAA
* **
20942939 TTAGGTACAAATTAAGAAAAAAAAGTTAAGTTCAAGTATCAAATTGGACTACCAAAAAGT
1 TTAGGTACAAATTAAGAAAAAAAAGTTAAGTTCAAGTACCAAATTGGACTAAAAAAAAGT
* * *
20942999 TTAGGTACCAAATTAGGAAAAAAAA-TGTAAGTTTATGTACCAAATTGGA-TAAAAAAAAGT
1 TTAGGTA-CAAATTAAGAAAAAAAAGT-TAAGTTCAAGTACCAAATTGGACTAAAAAAAAGT
20943059 TTA
1 TTA
20943062 AATATCAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
60 20 0.36
61 35 0.64
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (60 bp):
TTAGGTACAAATTAAGAAAAAAAAGTTAAGTTCAAGTACCAAATTGGACTAAAAAAAAGT
Found at i:20943070 original size:28 final size:28
Alignment explanation
Indices: 20942966--20943072 Score: 88
Period size: 29 Copynumber: 3.6 Consensus size: 28
20942956 AAAAAAAGTT
* * **
20942966 AAGTTCAAGTATCAAATTGGACTACCAAA
1 AAGTTTAAGTACCAAATTGGA-TAAAAAA
* *
20942995 AAGTTTAGGTACCAAATTAGGAAAAAAAA
1 AAGTTTAAGTACCAAATT-GGATAAAAAA
*
20943024 TGTAAGTTTATGTACCAAATTGGATAAAAAA
1 ---AAGTTTAAGTACCAAATTGGATAAAAAA
* *
20943055 AAGTTTAAATATCAAATT
1 AAGTTTAAGTACCAAATT
20943073 TAAAAAAATG
Statistics
Matches: 63, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
28 15 0.24
29 19 0.30
30 3 0.05
31 9 0.14
32 17 0.27
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.28
Consensus pattern (28 bp):
AAGTTTAAGTACCAAATTGGATAAAAAA
Found at i:20943071 original size:60 final size:61
Alignment explanation
Indices: 20942946--20943080 Score: 150
Period size: 61 Copynumber: 2.2 Consensus size: 61
20942936 AAATTAGGTA
* ** **
20942946 CAAATTAAGAAAAAAAAGTTAAGTTCAAGTATCAAATTGGACTACCAAAAAGTTTAGGTAC
1 CAAATTAAGAAAAAAAAGTTAAGTTCAAGTACCAAATTGGACTAAAAAAAAGTTTAAATAC
* * * *
20943007 CAAATTAGGAAAAAAAA-TGTAAGTTTATGTACCAAATTGGA-TAAAAAAAAGTTTAAATAT
1 CAAATTAAGAAAAAAAAGT-TAAGTTCAAGTACCAAATTGGACTAAAAAAAAGTTTAAATAC
*
20943067 CAAATTTA-AAAAAA
1 CAAATTAAGAAAAAA
20943081 TGTCAAGTTG
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
59 6 0.10
60 21 0.34
61 35 0.56
ACGTcount: A:0.53, C:0.08, G:0.13, T:0.26
Consensus pattern (61 bp):
CAAATTAAGAAAAAAAAGTTAAGTTCAAGTACCAAATTGGACTAAAAAAAAGTTTAAATAC
Found at i:20945636 original size:20 final size:21
Alignment explanation
Indices: 20945597--20945637 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
20945587 TATGGAAGAA
*
20945597 TTAGAAAATATTATAAAAATT
1 TTAGAAAATATTAGAAAAATT
*
20945618 TTAGAAACTA-TAGAAAAATT
1 TTAGAAAATATTAGAAAAATT
20945638 AAAAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.34
Consensus pattern (21 bp):
TTAGAAAATATTAGAAAAATT
Found at i:20958237 original size:22 final size:23
Alignment explanation
Indices: 20958212--20958257 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
20958202 CAACCAAATC
20958212 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
20958234 AATTTATACATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
20958257 A
1 A
20958258 CGTCGTCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.24
23 15 0.71
24 1 0.05
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:20976282 original size:52 final size:52
Alignment explanation
Indices: 20976219--20976323 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
20976209 TGGATTATTA
*
20976219 AGAAGACGCCAACCTTGTTTAGCTAATAATGCAACATTGAATTTGGATAAAC
1 AGAAGACGCCAACCTTGTTTAGCTAATAATGCAACATTGAACTTGGATAAAC
20976271 AGAAGACGCCAACCTTGTTTAGCTAATAATGCAACATTGAACTTGGATAAAC
1 AGAAGACGCCAACCTTGTTTAGCTAATAATGCAACATTGAACTTGGATAAAC
20976323 A
1 A
20976324 ATGAAATCCC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (52 bp):
AGAAGACGCCAACCTTGTTTAGCTAATAATGCAACATTGAACTTGGATAAAC
Found at i:20980263 original size:14 final size:15
Alignment explanation
Indices: 20980256--20980316 Score: 83
Period size: 14 Copynumber: 4.1 Consensus size: 15
20980246 AAATTAATAA
20980256 AATAAAATAAAATAAAT
1 AATAAAAT--AATAAAT
20980273 AAT-AAATAATAAAT
1 AATAAAATAATAAAT
20980287 AAT-AAATAATAAAT
1 AATAAAATAATAAAT
20980301 AATAAAATAA-AAAT
1 AATAAAATAATAAAT
20980315 AA
1 AA
20980317 AACAAAATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
14 30 0.70
15 6 0.14
16 4 0.09
17 3 0.07
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
AATAAAATAATAAAT
Found at i:20980274 original size:4 final size:4
Alignment explanation
Indices: 20980245--20980311 Score: 54
Period size: 4 Copynumber: 17.0 Consensus size: 4
20980235 TAGCCTAACC
*
20980245 TAAA TTAA TAAAA TAAAA TAAAA TAAA T-AA TAAA T-AA TAAA T-AA TAAA
1 TAAA TAAA T-AAA T-AAA T-AAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
20980293 T-AA TAAA T-AA TAAAA TAAA
1 TAAA TAAA TAAA T-AAA TAAA
20980312 AATAAAACAA
Statistics
Matches: 54, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
3 15 0.28
4 23 0.43
5 16 0.30
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:20980278 original size:7 final size:7
Alignment explanation
Indices: 20980266--20980316 Score: 86
Period size: 7 Copynumber: 7.3 Consensus size: 7
20980256 AATAAAATAA
20980266 AATAAAT
1 AATAAAT
20980273 AATAAAT
1 AATAAAT
20980280 AATAAAT
1 AATAAAT
20980287 AATAAAT
1 AATAAAT
20980294 AATAAAT
1 AATAAAT
20980301 AATAAAAT
1 AAT-AAAT
20980309 AA-AAAT
1 AATAAAT
20980315 AA
1 AA
20980317 AACAAAATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.14
7 31 0.72
8 6 0.14
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (7 bp):
AATAAAT
Found at i:20980281 original size:21 final size:22
Alignment explanation
Indices: 20980245--20980329 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 22
20980235 TAGCCTAACC
20980245 TAAATTAATAAAATAAAATAAAA
1 TAAA-TAATAAAATAAAATAAAA
*
20980268 TAAATAAT-AAATAATAA-ATAA
1 TAAATAATAAAATAA-AATAAAA
20980289 TAAATAAT-AAAT--AATAAAA
1 TAAATAATAAAATAAAATAAAA
*
20980308 TAAA-AATAAAACAAAATAAAA
1 TAAATAATAAAATAAAATAAAA
20980329 T
1 T
20980330 CTTTGTATTT
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
18 5 0.09
19 10 0.19
21 29 0.54
22 6 0.11
23 4 0.07
ACGTcount: A:0.74, C:0.01, G:0.00, T:0.25
Consensus pattern (22 bp):
TAAATAATAAAATAAAATAAAA
Found at i:20985489 original size:60 final size:59
Alignment explanation
Indices: 20985422--20985560 Score: 165
Period size: 60 Copynumber: 2.3 Consensus size: 59
20985412 CCAACTGTGT
20985422 TGATATGGGCAAGGCCCAATATA-TCTCG-ACTTGTAATAGGGCTACGGCCCAGATTAATAC
1 TGATATGGGCAAGGCCCAATATACTCT-GTAC-TGTAA-AGGGCTACGGCCCAGATTAATAC
* * * * * *
20985482 TGATATGGGCTAGGCCTAGTATACTCTGTTACTGTAAGGGGTTATGGCCCAGATTAATAC
1 TGATATGGGCAAGGCCCAATATACTCTG-TACTGTAAAGGGCTACGGCCCAGATTAATAC
20985542 TGATATGGGCTAAGGCCCA
1 TGATATGGGC-AAGGCCCA
20985561 GTTAACACTG
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
60 51 0.76
61 14 0.21
62 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (59 bp):
TGATATGGGCAAGGCCCAATATACTCTGTACTGTAAAGGGCTACGGCCCAGATTAATAC
Found at i:20985558 original size:28 final size:28
Alignment explanation
Indices: 20985460--20985572 Score: 79
Period size: 28 Copynumber: 3.9 Consensus size: 28
20985450 ACTTGTAATA
*
20985460 GGGCTACGGCCCAGATTAATACTGATAT
1 GGGCTAAGGCCCAGATTAATACTGATAT
* ** *
20985488 GGGCT-AGGCCTAGTATACTCTGTTACTG-TAAG
1 GGGCTAAGGCCCAG---A-T-TAATACTGAT-AT
* *
20985520 GGGTTATGGCCCAGATTAATACTGATAT
1 GGGCTAAGGCCCAGATTAATACTGATAT
*
20985548 GGGCTAAGGCCCAG-TTAACACTGAT
1 GGGCTAAGGCCCAGATTAATACTGAT
20985573 TTCTGAATAG
Statistics
Matches: 63, Mismatches: 14, Indels: 17
0.67 0.15 0.18
Matches are distributed among these distances:
27 16 0.25
28 24 0.38
29 2 0.03
30 2 0.03
31 2 0.03
32 11 0.17
33 6 0.10
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAATACTGATAT
Found at i:20992681 original size:20 final size:19
Alignment explanation
Indices: 20992634--20992683 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
20992624 CAAGATAAAC
20992634 ATTAAATT-A-AATTTAAT
1 ATTAAATTAATAATTTAAT
20992651 ATTAAGA-TAATAACTTTAAT
1 ATTAA-ATTAATAA-TTTAAT
20992671 ATTAAATTAATAA
1 ATTAAATTAATAA
20992684 AATACTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 6 0.21
18 2 0.07
19 3 0.11
20 17 0.61
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
ATTAAATTAATAATTTAAT
Found at i:20999222 original size:20 final size:19
Alignment explanation
Indices: 20999176--20999213 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
20999166 CATCCAAACA
20999176 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
20999195 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
20999214 TCTGGAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:21000000 original size:22 final size:23
Alignment explanation
Indices: 20999974--21000019 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
20999964 CAACCAAACC
20999974 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
20999996 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
21000019 A
1 A
21000020 CATCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:21007667 original size:22 final size:23
Alignment explanation
Indices: 21007641--21007686 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
21007631 CAACCAAACC
21007641 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
21007663 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
21007686 A
1 A
21007687 CATCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:21013803 original size:40 final size:40
Alignment explanation
Indices: 21013749--21014285 Score: 610
Period size: 40 Copynumber: 13.2 Consensus size: 40
21013739 TTTTTAGCAA
* *
21013749 AAACGCCACTAAAAACTGAACAGTAGCGGCGTTTTTGGCC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCC
**
21013789 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTATCCC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTT-GGCC
* * * * *
21013830 AAACGCCATTAAGAACTAAACAATAGCGGTGTTTTTGGCC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCC
* * **
21013870 AAGCGCCACTAAAAACTGATCAATAGCAGCGTTTTTTATCCC
1 AAACGCCACTAAAAACTGATCAATAGCGGCG-TTTTT-GGCC
*
21013912 AAACGCCACTAAAAACTTATCAATAGCGGCGTTTTTGGCC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCC
*
21013952 AAACGCCACTAAAAACTGATCAATAGCGGTGTTTTTGGCC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCC
* * *
21013992 AAACGCCACGAAAAACTGATCAACAGCGGCGTTTTTTGCCC
1 AAACGCCACTAAAAACTGATCAATAGCGGCG-TTTTTGGCC
* * * * **
21014033 AAGCTCCACTAAAAACTGATTAATAGCGGCATTTTTCTTCC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTT-GGCC
** ** *
21014074 AAATTCCACTAAAAACTTG-TGTATAGCGGCGTTTTTGGTC
1 AAACGCCACTAAAAAC-TGATCAATAGCGGCGTTTTTGGCC
* * **
21014114 AAACACCACTAAAAACTTATCAATAGCGGCGTTTTTTTATCCC
1 AAACGCCACTAAAAACTGATCAATAGCGGCG--TTTTT-GGCC
* **
21014157 AAACGCCACTAAAAACTGATCAATAGCGGCATTTTTATCTC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGC-C
*
21014198 AAACGCCACTAAAAAATGATCAATAGCGGCGTTTTTGGTCC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGG-CC
*
21014239 AAACGCCACT-AAAACTCATCAATAGCGGCGTTTTTGGTCC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGG-CC
21014279 AAACGCC
1 AAACGCC
21014286 GCAAAAAGTT
Statistics
Matches: 419, Mismatches: 66, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.00
40 194 0.46
41 157 0.37
42 38 0.09
43 29 0.07
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.26
Consensus pattern (40 bp):
AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCC
Found at i:21013821 original size:81 final size:80
Alignment explanation
Indices: 21013749--21014285 Score: 646
Period size: 81 Copynumber: 6.6 Consensus size: 80
21013739 TTTTTAGCAA
* *
21013749 AAACGCCACTAAAAACTGAACAGTAGCGGCGTTTTTGGCCAAACGCCACTAAAAACTGATCAATA
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCCAAACGCCACTAAAAACTGATCAATA
21013814 GCGGCGTTTTTATCCC
66 GCGGCGTTTTTAT-CC
* * * * * *
21013830 AAACGCCATTAAGAACTAAACAATAGCGGTGTTTTTGGCCAAGCGCCACTAAAAACTGATCAATA
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCCAAACGCCACTAAAAACTGATCAATA
*
21013895 GCAGCGTTTTTTATCCC
66 GCGGCG-TTTTTAT-CC
*
21013912 AAACGCCACTAAAAACTTATCAATAGCGGCGTTTTTGGCCAAACGCCACTAAAAACTGATCAATA
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCCAAACGCCACTAAAAACTGATCAATA
* **
21013977 GCGGTGTTTTTGGCC
66 GCGGCGTTTTTATCC
* * * * * *
21013992 AAACGCCACGAAAAACTGATCAACAGCGGCGTTTTTTGCCCAAGCTCCACTAAAAACTGATTAAT
1 AAACGCCACTAAAAACTGATCAATAGCGGCG-TTTTTGGCCAAACGCCACTAAAAACTGATCAAT
* *
21014057 AGCGGCATTTTTCTTCC
65 AGCGGCGTTTTT-ATCC
** ** * * *
21014074 AAATTCCACTAAAAACTTG-TGTATAGCGGCGTTTTTGGTCAAACACCACTAAAAACTTATCAAT
1 AAACGCCACTAAAAAC-TGATCAATAGCGGCGTTTTTGGCCAAACGCCACTAAAAACTGATCAAT
21014138 AGCGGCGTTTTTTTATCCC
65 AGCGGCG--TTTTTAT-CC
* ** *
21014157 AAACGCCACTAAAAACTGATCAATAGCGGCATTTTTATCTCAAACGCCACTAAAAAATGATCAAT
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGC-CAAACGCCACTAAAAACTGATCAAT
*
21014222 AGCGGCGTTTTTGGTCC
65 AGCGGCGTTTTT-ATCC
*
21014239 AAACGCCACT-AAAACTCATCAATAGCGGCGTTTTTGGTCCAAACGCC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGG-CCAAACGCC
21014286 GCAAAAAGTT
Statistics
Matches: 387, Mismatches: 58, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
80 30 0.08
81 172 0.44
82 118 0.30
83 38 0.10
84 29 0.07
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.26
Consensus pattern (80 bp):
AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCCAAACGCCACTAAAAACTGATCAATA
GCGGCGTTTTTATCC
Found at i:21014612 original size:20 final size:21
Alignment explanation
Indices: 21014574--21014612 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
21014564 TGGCTTTCTG
* *
21014574 TAAACCCTTAAATCTTAACAT
1 TAAACCCTTAAACCCTAACAT
21014595 TAAACCC-TAAACCCTAAC
1 TAAACCCTTAAACCCTAAC
21014613 CCTAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAACCCTTAAACCCTAACAT
Found at i:21014864 original size:38 final size:41
Alignment explanation
Indices: 21014816--21014902 Score: 117
Period size: 43 Copynumber: 2.1 Consensus size: 41
21014806 GTTTAAGGCA
*
21014816 TATGGTTTA-G-GGTTCAATGG-TAGAATATATTTTAAGTT
1 TATGGTTTAGGCGGTTCAATGGATAGAATATATGTTAAGTT
*
21014854 TATGGTTTAGGCCGGTTCAATGGTATAGTATATATGTTAAGTT
1 TATGGTTTAGG-CGGTTCAATGG-ATAGAATATATGTTAAGTT
21014897 TATGGT
1 TATGGT
21014903 ATGGGCCGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
38 9 0.21
39 1 0.02
41 10 0.24
43 22 0.52
ACGTcount: A:0.26, C:0.05, G:0.25, T:0.44
Consensus pattern (41 bp):
TATGGTTTAGGCGGTTCAATGGATAGAATATATGTTAAGTT
Found at i:21016073 original size:39 final size:40
Alignment explanation
Indices: 21016001--21016076 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
21015991 CATTTTAGCT
*
21016001 AAAAATAGAGAATTAGTGGCGCTTTTGTAAAAACGCCGCA
1 AAAAATAGAGAATTAGTGACGCTTTTGTAAAAACGCCGCA
* *
21016041 AAAAATTGAGATTTAGTGACGCTTTTGT-AAAACGCC
1 AAAAATAGAGAATTAGTGACGCTTTTGTAAAAACGCC
21016077 ACTAAATGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 8 0.24
40 25 0.76
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.26
Consensus pattern (40 bp):
AAAAATAGAGAATTAGTGACGCTTTTGTAAAAACGCCGCA
Found at i:21019053 original size:16 final size:16
Alignment explanation
Indices: 21019024--21019089 Score: 70
Period size: 16 Copynumber: 4.4 Consensus size: 16
21019014 TTTATGCTTA
*
21019024 GATTATTTTT-CATGT
1 GATTTTTTTTCCATGT
21019039 GATTTTTTTTCCATGT
1 GATTTTTTTTCCATGT
21019055 GA----TTTTCCATGT
1 GATTTTTTTTCCATGT
*
21019067 AATTTTTTTTCCAATGT
1 GATTTTTTTTCC-ATGT
21019084 GATTTT
1 GATTTT
21019090 CCATAATCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
12 11 0.26
15 9 0.21
16 13 0.31
17 9 0.21
ACGTcount: A:0.18, C:0.11, G:0.12, T:0.59
Consensus pattern (16 bp):
GATTTTTTTTCCATGT
Found at i:21019071 original size:28 final size:29
Alignment explanation
Indices: 21019028--21019093 Score: 107
Period size: 28 Copynumber: 2.3 Consensus size: 29
21019018 TGCTTAGATT
* *
21019028 ATTTTTCATGTGATTTTTTTTCC-ATGTG
1 ATTTTCCATGTAATTTTTTTTCCAATGTG
21019056 ATTTTCCATGTAATTTTTTTTCCAATGTG
1 ATTTTCCATGTAATTTTTTTTCCAATGTG
21019085 ATTTTCCAT
1 ATTTTCCAT
21019094 AATCTCAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 21 0.60
29 14 0.40
ACGTcount: A:0.18, C:0.14, G:0.11, T:0.58
Consensus pattern (29 bp):
ATTTTCCATGTAATTTTTTTTCCAATGTG
Found at i:21019367 original size:47 final size:47
Alignment explanation
Indices: 21019295--21019402 Score: 189
Period size: 47 Copynumber: 2.3 Consensus size: 47
21019285 ATCAACGTAG
* *
21019295 ATATATATCATATTTTACATAATTTACATAACTTACATTATACATAA
1 ATATATATCATATCTTACATAATTTACATAACTTACATAATACATAA
*
21019342 ATATATATCATATCTTACATTATTTACATAACTTACATAATACATAA
1 ATATATATCATATCTTACATAATTTACATAACTTACATAATACATAA
21019389 ATATATATCATATC
1 ATATATATCATATC
21019403 ATAACTTACA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 58 1.00
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (47 bp):
ATATATATCATATCTTACATAATTTACATAACTTACATAATACATAA
Found at i:21024496 original size:13 final size:14
Alignment explanation
Indices: 21024480--21024508 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
21024470 TTATAAATAT
21024480 TTATAATG-TTTAA
1 TTATAATGATTTAA
21024493 TTATAATGATTTAA
1 TTATAATGATTTAA
21024507 TT
1 TT
21024509 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (14 bp):
TTATAATGATTTAA
Found at i:21024944 original size:21 final size:21
Alignment explanation
Indices: 21024915--21024959 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
21024905 ACAACTTAGA
* **
21024915 GCAAAAGCAGCAGTTAGGGAG
1 GCAAAAGCAACAGCGAGGGAG
*
21024936 GCAACAGCAACAGCGAGGGAG
1 GCAAAAGCAACAGCGAGGGAG
21024957 GCA
1 GCA
21024960 GAGGTGAGCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.20, G:0.38, T:0.04
Consensus pattern (21 bp):
GCAAAAGCAACAGCGAGGGAG
Found at i:21025245 original size:31 final size:32
Alignment explanation
Indices: 21025198--21025258 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
21025188 TTTATTATAT
*
21025198 TTTCTATGCTAAATTTGCTGTTTTTGGTTGCA
1 TTTCTATGCTAAATTTGCTGATTTTGGTTGCA
* *
21025230 TTTC-ATGCTATATTTGTTGATTTTGGTTG
1 TTTCTATGCTAAATTTGCTGATTTTGGTTG
21025259 GATTCAATGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.15, C:0.10, G:0.20, T:0.56
Consensus pattern (32 bp):
TTTCTATGCTAAATTTGCTGATTTTGGTTGCA
Found at i:21028592 original size:15 final size:14
Alignment explanation
Indices: 21028572--21028611 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
21028562 AACAGAGAAA
21028572 TCTTTTCTTTTCTTT
1 TCTTTT-TTTTCTTT
*
21028587 TCTTTTTTTCTTTTT
1 TCTTTTTTT-TCTTT
21028602 TCTTTTTTTT
1 TCTTTTTTTT
21028612 TATAGTTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
TCTTTTTTTTCTTT
Found at i:21028597 original size:18 final size:17
Alignment explanation
Indices: 21028574--21028612 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
21028564 CAGAGAAATC
21028574 TTTTCTTTTCTT-TTCTTT
1 TTTTCTTTT-TTCTT-TTT
21028592 TTTTCTTTTTTCTTTTT
1 TTTTCTTTTTTCTTTTT
21028609 TTTT
1 TTTT
21028613 ATAGTTTACC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (17 bp):
TTTTCTTTTTTCTTTTT
Found at i:21044548 original size:168 final size:168
Alignment explanation
Indices: 21044322--21044681 Score: 492
Period size: 168 Copynumber: 2.1 Consensus size: 168
21044312 AATAAGGGGT
* *
21044322 ACACGG-CTAAGGCACACGCCCGTGGCTAGAGGCCGTGTCCTCCACACTACTGAGACACACGGCC
1 ACACGGCCT-AGGCACACGCCCGTGGCCAGAGGCCGTGTCCTCCACACTACTAAGACACACGGCC
* *
21044386 GTGTCTCTTCCCATGTGTTTACTACCACGCATACTGACTTGCAAATTTTACGTGCAGGGGACACA
65 GTGTCTCTGCCCATGTGTTTACTACCACGCATACTGACCTGCAAATTTTACGTGCAGGGGACACA
*
21044451 C-AGCCAAGCAACACACCCATAGGGCTGACCGTGTGTCAT
130 CGA-CCAAGCAACACACCCATAGGGCTGACCGTGTGTCAC
* *
21044490 GCACGGCCTAGGCACACGCCCGTGGCCAGAGGCTGTGTCCTCCACA-TAGCTAAGACACACGGCC
1 ACACGGCCTAGGCACACGCCCGTGGCCAGAGGCCGTGTCCTCCACACTA-CTAAGACACACGGCC
* * * *
21044554 GTGTCTCTGCCCGTGTGTTTACTACCATGCATACTGACCTGCAAGTTTTATGTGCAGGGGACACA
65 GTGTCTCTGCCCATGTGTTTACTACCACGCATACTGACCTGCAAATTTTACGTGCAGGGGACACA
* * * * * *
21044619 CGACCAAGCAATACGCCTATGGGGCTGATCGTGTGTTAC
130 CGACCAAGCAACACACCCATAGGGCTGACCGTGTGTCAC
* * *
21044658 ACACGACCTAGACACAAGCCCGTG
1 ACACGGCCTAGGCACACGCCCGTG
21044682 TGTCTATCCG
Statistics
Matches: 168, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
167 2 0.01
168 163 0.97
169 3 0.02
ACGTcount: A:0.24, C:0.31, G:0.25, T:0.20
Consensus pattern (168 bp):
ACACGGCCTAGGCACACGCCCGTGGCCAGAGGCCGTGTCCTCCACACTACTAAGACACACGGCCG
TGTCTCTGCCCATGTGTTTACTACCACGCATACTGACCTGCAAATTTTACGTGCAGGGGACACAC
GACCAAGCAACACACCCATAGGGCTGACCGTGTGTCAC
Found at i:21045580 original size:48 final size:50
Alignment explanation
Indices: 21045418--21045599 Score: 169
Period size: 48 Copynumber: 3.7 Consensus size: 50
21045408 GTATAATGCC
* ** *
21045418 GATGCAATGTCCCAGACATGGTCTTACACTGGCTA-TCGA-A-AT-CGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAAC-ACTC-ACATATACG-TGCT
* * * * *
21045467 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCCGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAACACTCACATATACGTGCT
* * *
21045517 GATGCTATGTCCCAGACATGGGCTTACACTAACAC-CTC-TATACGTGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAACACTCACATATACGTGCT
* *
21045565 GATGCCATATCCCAGACATGGTCTTACACTGACAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAACAC
21045600 ATCTCGTAAC
Statistics
Matches: 111, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
48 40 0.36
49 35 0.32
50 34 0.31
51 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (50 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAACACTCACATATACGTGCT
Found at i:21051206 original size:20 final size:21
Alignment explanation
Indices: 21051181--21051220 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
21051171 CCCTTGAAAC
21051181 AGGGT-ACACGCCCGTGTGGA
1 AGGGTAACACGCCCGTGTGGA
21051201 AGGGTAACACGCCCGTGTGG
1 AGGGTAACACGCCCGTGTGG
21051221 CTATTATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (21 bp):
AGGGTAACACGCCCGTGTGGA
Found at i:21052469 original size:49 final size:49
Alignment explanation
Indices: 21052392--21052755 Score: 171
Period size: 46 Copynumber: 7.7 Consensus size: 49
21052382 GGGTATAATA
* *
21052392 CCGATGCCATGTACCAAACATGGTCTTACACTAGCTATCGA-A-ATCGAGG
1 CCGATGCCATGT-CCAGACATGGTCTTACACTAACTATC-ATATATCGAGG
* * * *
21052441 CCGACGCCATGTCCTAGACATGGTCTTACACTAACTCTCATATATCTATG
1 CCGATGCCATGTCC-AGACATGGTCTTACACTAACTATCATATATCGAGG
* * *
21052491 CCGATGCCATGTCCAAGACATGGTCTTACATTGACAC-CTC-TATA-CG-TG
1 CCGATGCCATGTCC-AGACATGGTCTTACACT-A-ACTATCATATATCGAGG
* * *
21052539 CCGATGCCATATCCCAGACATGGTCTTACACTGAC-A-C--ATCTCGTA-G
1 CCGATGCCATGT-CCAGACATGGTCTTACACTAACTATCATATATCG-AGG
* * ** **
21052585 CCGATG-CATGTCTTAGACA-CGTCTTACACTGGCT-T-ATAGCTCGAGG
1 CCGATGCCATGTC-CAGACATGGTCTTACACTAACTATCATATATCGAGG
* * * * * * **
21052631 CCGATG-CATGTCCCAAACAT-GTCTTACACTAGCTCTCGTCT-T-AATA
1 CCGATGCCATGT-CCAGACATGGTCTTACACTAACTATCATATATCGAGG
* ** * *
21052677 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT-GTGG
1 CCGATGCCATGT-CCAGACATGGTCTTACACTAACTATCATATATCGAGG
*
21052725 CCGATG-CATGTCCCAGACAT-GTCTTAGACTA
1 CCGATGCCATGT-CCAGACATGGTCTTACACTA
21052756 GCACACAAAT
Statistics
Matches: 252, Mismatches: 41, Indels: 47
0.74 0.12 0.14
Matches are distributed among these distances:
44 15 0.06
45 13 0.05
46 58 0.23
47 30 0.12
48 56 0.22
49 36 0.14
50 38 0.15
51 4 0.02
52 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (49 bp):
CCGATGCCATGTCCAGACATGGTCTTACACTAACTATCATATATCGAGG
Found at i:21052558 original size:48 final size:52
Alignment explanation
Indices: 21052392--21052580 Score: 184
Period size: 50 Copynumber: 3.8 Consensus size: 52
21052382 GGGTATAATA
* * * *
21052392 CCGATGCCATGTACCAA-ACATGGTCTTACACT-A-GCTATCGA-A-ATCGAGG
1 CCGATGCCATGT-CCAAGACATGGTCTTACACTGACACTCTC-ATATATCTATG
* *
21052441 CCGACGCCATGTCCTAGACATGGTCTTACACT-A-ACTCTCATATATCTATG
1 CCGATGCCATGTCCAAGACATGGTCTTACACTGACACTCTCATATATCTATG
* *
21052491 CCGATGCCATGTCCAAGACATGGTCTTACATTGACAC-CTC-TATA-C-GTG
1 CCGATGCCATGTCCAAGACATGGTCTTACACTGACACTCTCATATATCTATG
* *
21052539 CCGATGCCATATCCCAGACATGGTCTTACACTGACACATCTC
1 CCGATGCCATGTCCAAGACATGGTCTTACACTGACAC-TCTC
21052581 GTAGCCGATG
Statistics
Matches: 120, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
48 40 0.33
49 33 0.28
50 41 0.34
51 4 0.03
52 2 0.02
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (52 bp):
CCGATGCCATGTCCAAGACATGGTCTTACACTGACACTCTCATATATCTATG
Found at i:21052731 original size:48 final size:48
Alignment explanation
Indices: 21052392--21052750 Score: 217
Period size: 48 Copynumber: 7.6 Consensus size: 48
21052382 GGGTATAATA
* * * * *
21052392 CCGATGCCATGTACCAAACATGGTCTTACACTAGCTATCGA-AATCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATAAT-GTGG
* * ** * *
21052441 CCGACGCCATGTCCTAGACATGGTCTTACACTAACTCTCATATATCTATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGT-GG
* * * * *
21052491 CCGATGCCATGTCCAAGACATGGTCTTACATTGACACCTC-TATACGT-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATA-ATGTGG
* * * * *
21052539 CCGATGCCATATCCCAGACATGGTCTTACACTGACACATC-T--CGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTGG
** * * *
21052585 CCGATG-CATGTCTTAGACA-CGTCTTACACTGGCT-T-ATAGCTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT-GTGG
* * * ** * *
21052631 CCGATG-CATGTCCCAAACAT-GTCTTACACTAGCTCTCGTCTTAAT-A
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGG
*
21052677 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGG
21052725 CCGATG-CATGTCCCAGACAT-GTCTTA
1 CCGATGCCATGTCCCAGACATGGTCTTA
21052751 GACTAGCACA
Statistics
Matches: 244, Mismatches: 49, Indels: 37
0.74 0.15 0.11
Matches are distributed among these distances:
42 2 0.01
44 12 0.05
45 13 0.05
46 49 0.20
47 31 0.13
48 61 0.25
49 34 0.14
50 39 0.16
51 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGG
Found at i:21056456 original size:75 final size:75
Alignment explanation
Indices: 21056328--21056479 Score: 268
Period size: 75 Copynumber: 2.0 Consensus size: 75
21056318 CATAGAGGGG
* * *
21056328 ACCTGTATGAAGGATTGGATAGGGCCATTGGTAATGATACTTGGTTAAGAACTTTTTCGTACAGT
1 ACCTATATGAAGGATTGGATAGGGCCATTGGTAATGATACTTGGTTAAGAACTTTTCCATACAGT
21056393 TTTGTCACCC
66 TTTGTCACCC
*
21056403 ACCTATATGAAGGATTGGATAGGGCCATTGGTAATGATACTTGGTTAAGAACTTTTCCATATAGT
1 ACCTATATGAAGGATTGGATAGGGCCATTGGTAATGATACTTGGTTAAGAACTTTTCCATACAGT
21056468 TTTGTCACCC
66 TTTGTCACCC
21056478 AC
1 AC
21056480 ATTTTGAGGA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.34
Consensus pattern (75 bp):
ACCTATATGAAGGATTGGATAGGGCCATTGGTAATGATACTTGGTTAAGAACTTTTCCATACAGT
TTTGTCACCC
Found at i:21059728 original size:43 final size:41
Alignment explanation
Indices: 21059643--21059729 Score: 129
Period size: 42 Copynumber: 2.1 Consensus size: 41
21059633 CCTTGTGTTA
* **
21059643 TTGGTGAGTCAGGAGACAAAGGTTTCCCTTTTTGTTTAAGT
1 TTGGTGAGTCAGGAGACAAAGGTTGCCCTTTTTGTCCAAGT
21059684 TTGGTGAGTCAGGTAGACAAAGGTTGCCCATTTTTGTCCAAGT
1 TTGGTGAGTCAGG-AGACAAAGGTTGCCC-TTTTTGTCCAAGT
21059727 TTG
1 TTG
21059730 CCTCTCTGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 13 0.32
42 14 0.34
43 14 0.34
ACGTcount: A:0.22, C:0.14, G:0.28, T:0.37
Consensus pattern (41 bp):
TTGGTGAGTCAGGAGACAAAGGTTGCCCTTTTTGTCCAAGT
Found at i:21060886 original size:7 final size:7
Alignment explanation
Indices: 21060874--21060898 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
21060864 GTTAATTTTC
21060874 TTTTGAA
1 TTTTGAA
21060881 TTTTGAA
1 TTTTGAA
21060888 TTTTGAA
1 TTTTGAA
21060895 TTTT
1 TTTT
21060899 TTATATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (7 bp):
TTTTGAA
Found at i:21061534 original size:41 final size:41
Alignment explanation
Indices: 21061047--21061544 Score: 411
Period size: 41 Copynumber: 12.1 Consensus size: 41
21061037 TTGAATAAAG
* * * *
21061047 CGCCACTAAAAACTGAGCAATAGTGGTGTTTTTGGTCAAAA
1 CGCCACTAAAAACCGAGCAATAGCGGCGTTTCTGGTCAAAA
* * * * * * **** * *
21061088 TGCCGCGAAAAACTGAGAAACAGCAATATTTCTAGTCCAAA
1 CGCCACTAAAAACCGAGCAATAGCGGCGTTTCTGGTCAAAA
* * * * * * **
21061129 CACCACTAAGAACCGAGCATTAGCAGCGCTTCTGATCCTAA
1 CGCCACTAAAAACCGAGCAATAGCGGCGTTTCTGGTCAAAA
* * * * * *
21061170 CACCACTAAAAATCGAGTAATAGCAGCGTTTCTGGCCCAAA
1 CGCCACTAAAAACCGAGCAATAGCGGCGTTTCTGGTCAAAA
* * * *
21061211 CGCCACTAAGAACCAAGCAATTGCGGCGTTTCTGGTCTAAA
1 CGCCACTAAAAACCGAGCAATAGCGGCGTTTCTGGTCAAAA
* * * * * *
21061252 CGCCACCAAGACCCAAGCAATAGCGGCGTTTCTGATCATAA
1 CGCCACTAAAAACCGAGCAATAGCGGCGTTTCTGGTCAAAA
* * * * * *
21061293 CACCACCAAGAACTGAGCAATAGCGGCGTTTCTGATCATAA
1 CGCCACTAAAAACCGAGCAATAGCGGCGTTTCTGGTCAAAA
* * * * *
21061334 CGCCACTAAAAATCGAGCAATAGTGGCATTTCTAGTCCAAA
1 CGCCACTAAAAACCGAGCAATAGCGGCGTTTCTGGTCAAAA
* * * * *
21061375 CGCCATTAAAAACTGAGAAATAGTGGCGTTTCTGGTCTAAA
1 CGCCACTAAAAACCGAGCAATAGCGGCGTTTCTGGTCAAAA
* * * * *
21061416 TGCCACTAAAAACCGAGCAATAGCTGTGTTTCTGATAAAAAAA
1 CGCCACTAAAAACCGAGCAATAGCGGCGTTTCTGGT--CAAAA
*
21061459 CGCCACTAAAAACCGAGCAATAGCGGTGTTTCTGGTCAAAA
1 CGCCACTAAAAACCGAGCAATAGCGGCGTTTCTGGTCAAAA
*
21061500 CGCCACTAAAAACCAAGCAATAGCGGCGTTTCTGGTCAAAA
1 CGCCACTAAAAACCGAGCAATAGCGGCGTTTCTGGTCAAAA
21061541 CGCC
1 CGCC
21061545 GCAAAAAGTT
Statistics
Matches: 366, Mismatches: 89, Indels: 4
0.80 0.19 0.01
Matches are distributed among these distances:
41 330 0.90
43 36 0.10
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (41 bp):
CGCCACTAAAAACCGAGCAATAGCGGCGTTTCTGGTCAAAA
Found at i:21061564 original size:41 final size:41
Alignment explanation
Indices: 21061225--21061600 Score: 125
Period size: 41 Copynumber: 9.1 Consensus size: 41
21061215 ACTAAGAACC
* * * * * ***
21061225 AAGCAATTGCGGCGTTTCTGGTCTAAACGCCACCAAGACCC
1 AAGCAATAGCGGCGTTTCTGGTCAAAACGCCGCAAAAAGTT
* * * * * *
21061266 AAGCAATAGCGGCGTTTCTGATCATAACACCACCAAGAA-CT
1 AAGCAATAGCGGCGTTTCTGGTCAAAACGCC-GCAAAAAGTT
* * * * *
21061307 GAGCAATAGCGGCGTTTCTGATCATAACGCCACTAAAAA-TC
1 AAGCAATAGCGGCGTTTCTGGTCAAAACGCCGC-AAAAAGTT
* * * * * ** *
21061348 GAGCAATAGTGGCATTTCTAGTCCAAACGCCATTAAAAA-CT
1 AAGCAATAGCGGCGTTTCTGGTCAAAACGCC-GCAAAAAGTT
* * * * * * **
21061389 GAGAAATAGTGGCGTTTCTGGTCTAAATGCCACTAAAAA-CC
1 AAGCAATAGCGGCGTTTCTGGTCAAAACGCCGC-AAAAAGTT
* * * * * * **
21061430 GAGCAATAGCTGTGTTTCTGATAAAAAAACGCCACTAAAAA-CC
1 AAGCAATAGCGGCGTTTCTGGT--CAAAACGCCGC-AAAAAGTT
* * * **
21061473 GAGCAATAGCGGTGTTTCTGGTCAAAACGCCACTAAAAA-CC
1 AAGCAATAGCGGCGTTTCTGGTCAAAACGCCGC-AAAAAGTT
21061514 AAGCAATAGCGGCGTTTCTGGTCAAAACGCCGCAAAAAGTT
1 AAGCAATAGCGGCGTTTCTGGTCAAAACGCCGCAAAAAGTT
* * * * * * * *
21061555 TATCTATAGCGACTTTTTTGGTCCAAATGCCGCAAAAAGTT
1 AAGCAATAGCGGCGTTTCTGGTCAAAACGCCGCAAAAAGTT
*
21061596 GAGCA
1 AAGCA
21061601 GCCATTTTCG
Statistics
Matches: 267, Mismatches: 61, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
40 6 0.02
41 222 0.83
42 3 0.01
43 36 0.13
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.22
Consensus pattern (41 bp):
AAGCAATAGCGGCGTTTCTGGTCAAAACGCCGCAAAAAGTT
Found at i:21061704 original size:18 final size:17
Alignment explanation
Indices: 21061672--21061706 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
21061662 ATTTTCTTAT
*
21061672 TTTTGTTTTGAATTTGA
1 TTTTATTTTGAATTTGA
21061689 TTTTATTTTGATATTTGA
1 TTTTATTTTGA-ATTTGA
21061707 AACTGCCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.20, C:0.00, G:0.14, T:0.66
Consensus pattern (17 bp):
TTTTATTTTGAATTTGA
Found at i:21062450 original size:28 final size:28
Alignment explanation
Indices: 21062387--21062451 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
21062377 TACTTACAAT
* *
21062387 TTAGGGTTTAATGTTTAGTATTTTAAGT
1 TTAGGGTTTAAGGTTTAGTATTTTAAGC
* **
21062415 TTATGGTTTAAGGTTT-GTTATTTTGGGC
1 TTAGGGTTTAAGGTTTAG-TATTTTAAGC
21062443 TTAGGGTTT
1 TTAGGGTTT
21062452 GTTATTTTGG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
27 1 0.03
28 29 0.97
ACGTcount: A:0.18, C:0.02, G:0.26, T:0.54
Consensus pattern (28 bp):
TTAGGGTTTAAGGTTTAGTATTTTAAGC
Found at i:21062452 original size:21 final size:21
Alignment explanation
Indices: 21062422--21062472 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
21062412 AGTTTATGGT
21062422 TTAAGGTTTGTTATTTTGGGC
1 TTAAGGTTTGTTATTTTGGGC
* *
21062443 TTAGGGTTTGTTATTTTGGGT
1 TTAAGGTTTGTTATTTTGGGC
21062464 TTAAGGTTT
1 TTAAGGTTT
21062473 AAGGTATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.14, C:0.02, G:0.29, T:0.55
Consensus pattern (21 bp):
TTAAGGTTTGTTATTTTGGGC
Found at i:21062487 original size:49 final size:48
Alignment explanation
Indices: 21062413--21062576 Score: 120
Period size: 49 Copynumber: 3.3 Consensus size: 48
21062403 AGTATTTTAA
* * * * *
21062413 GTTTATGGTTTAAGGTTTGTTATTTTGGGCTTAGGGTTTGTTATTTTGG
1 GTTTAAGGTTTAAGGTAT-TAATTTTGGGCTTACGATTTGTTATTTTGG
* *
21062462 GTTTAAGGTTTAAGGTATATAATTTTAGGCTTTACGCTTTAG--ATTTTAGG
1 GTTTAAGGTTTAAGGTAT-TAATTTTGGGC-TTACGATTT-GTTATTTT-GG
* * * *
21062512 GTTTAATGTTT-A-GTATTCAAGGTTTAGGGGTTATGATTTGTTATTTTGG
1 GTTTAAGGTTTAAGGTATT-AA--TTTTGGGCTTACGATTTGTTATTTTGG
*
21062561 GTTTAGGGTTTAAGGT
1 GTTTAAGGTTTAAGGT
21062577 TAATAGTTTA
Statistics
Matches: 90, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
47 1 0.01
48 7 0.08
49 49 0.54
50 30 0.33
51 3 0.03
ACGTcount: A:0.20, C:0.03, G:0.27, T:0.50
Consensus pattern (48 bp):
GTTTAAGGTTTAAGGTATTAATTTTGGGCTTACGATTTGTTATTTTGG
Found at i:21062607 original size:22 final size:23
Alignment explanation
Indices: 21062579--21062621 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
21062569 TTTAAGGTTA
*
21062579 ATAGTTTATGGT-TTAGTGTTTT
1 ATAGTTTAAGGTCTTAGTGTTTT
21062601 ATAGTTTAAGGTCTTAGTGTT
1 ATAGTTTAAGGTCTTAGTGTT
21062622 AATGGTTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.21, C:0.02, G:0.23, T:0.53
Consensus pattern (23 bp):
ATAGTTTAAGGTCTTAGTGTTTT
Found at i:21063220 original size:22 final size:22
Alignment explanation
Indices: 21063176--21063220 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
21063166 TCCCTCGATT
****
21063176 CAAAATCCCCAAATCTGTTTCC
1 CAAAATCCCCAAATCAAAATCC
21063198 CAAAATCCCCAAATCAAAATCC
1 CAAAATCCCCAAATCAAAATCC
21063220 C
1 C
21063221 TTTTACTTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.38, G:0.02, T:0.20
Consensus pattern (22 bp):
CAAAATCCCCAAATCAAAATCC
Found at i:21063861 original size:9 final size:8
Alignment explanation
Indices: 21063849--21063894 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
21063839 CAATTGAAAA
21063849 TTAATGTTT
1 TTAATG-TT
*
21063858 TTAATGAT
1 TTAATGTT
21063866 TTAATGTTT
1 TTAATG-TT
21063875 TTAATGTT
1 TTAATGTT
*
21063883 TTAATGAT
1 TTAATGTT
21063891 TTAA
1 TTAA
21063895 ACTTAGCTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
8 20 0.61
9 13 0.39
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (8 bp):
TTAATGTT
Found at i:21063871 original size:17 final size:17
Alignment explanation
Indices: 21063849--21063888 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
21063839 CAATTGAAAA
21063849 TTAATGTTTTTAATGAT
1 TTAATGTTTTTAATGAT
*
21063866 TTAATGTTTTTAATGTT
1 TTAATGTTTTTAATGAT
21063883 TTAATG
1 TTAATG
21063889 ATTTAAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (17 bp):
TTAATGTTTTTAATGAT
Found at i:21067569 original size:104 final size:102
Alignment explanation
Indices: 21067312--21067603 Score: 421
Period size: 99 Copynumber: 2.9 Consensus size: 102
21067302 TTGAATATGT
*
21067312 TATTTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTAATTTTAAATT
1 TATTTTATTTTATTTTATTTTAATCACG-AAAATATTTTGTCTACTTTTATTTTATTTTTAAATT
*
21067377 ACCTAATTAAATCAAATTGTATTTAAAGTTCTTTTTAA
65 ACCTAATTAAATTAAATTGTATTTAAAGTTCTTTTTAA
* * *
21067415 -A---TATTTCATTTTATTTTAATCACAAAAAATAATTTGTCTACTTTTATTTTATTTTTAAATT
1 TATTTTATTTTATTTTATTTTAATCAC-GAAAATATTTTGTCTACTTTTATTTTATTTTTAAATT
* *
21067476 TCCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAA
65 ACCTAATTAAATTAAATTGTATTTAAAGTTCT-TTTT-AA
* * *
21067516 TATTTTATTTTATTTTATTTTAATCACGAAAATATTTTGTTTACTTTTATTTTATTGTTAAATAA
1 TATTTTATTTTATTTTATTTTAATCACGAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTA
*
21067581 CCTAATTAAATTAAATTTTATTT
66 CCTAATTAAATTAAATTGTATTT
21067604 TTAAATATTT
Statistics
Matches: 167, Mismatches: 15, Indels: 13
0.86 0.08 0.07
Matches are distributed among these distances:
99 84 0.50
100 4 0.02
101 2 0.01
102 2 0.01
104 54 0.32
105 21 0.13
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (102 bp):
TATTTTATTTTATTTTATTTTAATCACGAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTA
CCTAATTAAATTAAATTGTATTTAAAGTTCTTTTTAA
Found at i:21067892 original size:9 final size:9
Alignment explanation
Indices: 21067880--21068131 Score: 128
Period size: 9 Copynumber: 27.4 Consensus size: 9
21067870 CATATCTTAA
21067880 ATAATTTAC
1 ATAATTTAC
21067889 ATAATTTAC
1 ATAATTTAC
*
21067898 ATAACTTAC
1 ATAATTTAC
21067907 ATAA--TAC
1 ATAATTTAC
21067914 ATAAATATATATC
1 AT-AAT-T-TA-C
*
21067927 AT-ATCGTAC
1 ATAAT-TTAC
*
21067936 ATAATTTGC
1 ATAATTTAC
** *
21067945 ATAAGATAA
1 ATAATTTAC
*
21067954 ATAACTTAC
1 ATAATTTAC
21067963 ATAATTTAC
1 ATAATTTAC
*
21067972 ATAACTTAC
1 ATAATTTAC
21067981 ATAA--TAC
1 ATAATTTAC
21067988 ATAAATATATATC
1 AT-AAT-T-TA-C
*
21068001 AT-ATCGTAC
1 ATAAT-TTAC
*
21068010 ATAATTTGC
1 ATAATTTAC
** *
21068019 ATAAGATAA
1 ATAATTTAC
*
21068028 ATAACTTAC
1 ATAATTTAC
21068037 ATAATTTAC
1 ATAATTTAC
*
21068046 ATAACTTAC
1 ATAATTTAC
21068055 ATAA--TAC
1 ATAATTTAC
21068062 ATAAATATATATC
1 AT-AAT-T-TA-C
21068075 AT-ATCTTAC
1 ATAAT-TTAC
21068084 ATAATTTAC
1 ATAATTTAC
* *
21068093 ATAATTCAG
1 ATAATTTAC
21068102 ATAA-TTAC
1 ATAATTTAC
*
21068110 ATAGTTTAC
1 ATAATTTAC
*
21068119 ATAACTTAC
1 ATAATTTAC
21068128 ATAA
1 ATAA
21068132 CTTAATTATA
Statistics
Matches: 186, Mismatches: 35, Indels: 44
0.70 0.13 0.17
Matches are distributed among these distances:
7 15 0.08
8 11 0.06
9 126 0.68
10 12 0.06
11 7 0.04
12 6 0.03
13 9 0.05
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.37
Consensus pattern (9 bp):
ATAATTTAC
Found at i:21067942 original size:56 final size:56
Alignment explanation
Indices: 21067856--21067967 Score: 170
Period size: 56 Copynumber: 2.0 Consensus size: 56
21067846 AATCCCATCA
* ** *
21067856 ACATAAATATATATCATATCTTAAATAATTTACATAATTTACATAACTTACATAAT
1 ACATAAATATATATCATATCGTAAATAATTTACATAAGATAAATAACTTACATAAT
* *
21067912 ACATAAATATATATCATATCGTACATAATTTGCATAAGATAAATAACTTACATAAT
1 ACATAAATATATATCATATCGTAAATAATTTACATAAGATAAATAACTTACATAAT
21067968 TTACATAACT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.37
Consensus pattern (56 bp):
ACATAAATATATATCATATCGTAAATAATTTACATAAGATAAATAACTTACATAAT
Found at i:21067998 original size:74 final size:74
Alignment explanation
Indices: 21067877--21068131 Score: 433
Period size: 74 Copynumber: 3.5 Consensus size: 74
21067867 TATCATATCT
*
21067877 TAAATAATTTACATAATTTACATAACTTACATAATACATAAATATATATCATATCGTACATAATT
1 TAAATAACTTACATAATTTACATAACTTACATAATACATAAATATATATCATATCGTACATAATT
21067942 TGCATAAGA
66 TGCATAAGA
21067951 TAAATAACTTACATAATTTACATAACTTACATAATACATAAATATATATCATATCGTACATAATT
1 TAAATAACTTACATAATTTACATAACTTACATAATACATAAATATATATCATATCGTACATAATT
21068016 TGCATAAGA
66 TGCATAAGA
*
21068025 TAAATAACTTACATAATTTACATAACTTACATAATACATAAATATATATCATATCTTACATAATT
1 TAAATAACTTACATAATTTACATAACTTACATAATACATAAATATATATCATATCGTACATAATT
* *
21068090 TACATAA-T
66 TGCATAAGA
* *
21068098 TCAGATAA-TTACATAGTTTACATAACTTACATAA
1 T-AAATAACTTACATAATTTACATAACTTACATAA
21068132 CTTAATTATA
Statistics
Matches: 174, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
73 26 0.15
74 148 0.85
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.36
Consensus pattern (74 bp):
TAAATAACTTACATAATTTACATAACTTACATAATACATAAATATATATCATATCGTACATAATT
TGCATAAGA
Found at i:21068105 original size:18 final size:17
Alignment explanation
Indices: 21068082--21068131 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
21068072 ATCATATCTT
21068082 ACATAATTTACATAATTC
1 ACATAA-TTACATAATTC
* * *
21068100 AGATAATTACATAGTTT
1 ACATAATTACATAATTC
21068117 ACATAACTTACATAA
1 ACATAA-TTACATAA
21068132 CTTAATTATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.36
Consensus pattern (17 bp):
ACATAATTACATAATTC
Found at i:21068131 original size:26 final size:26
Alignment explanation
Indices: 21068028--21068131 Score: 78
Period size: 26 Copynumber: 4.2 Consensus size: 26
21068018 CATAAGATAA
21068028 ATAACTTACATAATTTACATAACTT-AC
1 ATAA-TTACATAATTTACATAA-TTCAC
* * *
21068055 ATAA-TACATAA-ATATAT-A-TCAT
1 ATAATTACATAATTTACATAATTCAC
* *
21068077 AT-CTTACATAATTTACATAATTCAG
1 ATAATTACATAATTTACATAATTCAC
*
21068102 ATAATTACATAGTTTACATAACTT-AC
1 ATAATTACATAATTTACATAA-TTCAC
21068128 ATAA
1 ATAA
21068132 CTTAATTATA
Statistics
Matches: 60, Mismatches: 10, Indels: 15
0.71 0.12 0.18
Matches are distributed among these distances:
21 1 0.02
22 10 0.17
23 5 0.08
24 5 0.08
25 12 0.20
26 21 0.35
27 6 0.10
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.38
Consensus pattern (26 bp):
ATAATTACATAATTTACATAATTCAC
Found at i:21073195 original size:13 final size:14
Alignment explanation
Indices: 21073179--21073207 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21073169 TTATAAATAT
21073179 TTATAAT-GTTTAA
1 TTATAATAGTTTAA
21073192 TTATAATAGTTTAA
1 TTATAATAGTTTAA
21073206 TT
1 TT
21073208 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (14 bp):
TTATAATAGTTTAA
Found at i:21073648 original size:21 final size:21
Alignment explanation
Indices: 21073624--21073671 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
21073614 GTAGATGCAA
*
21073624 CAGCGAGGGAGGCAGCGGCAG
1 CAGCGAGGGAGGCAGAGGCAG
*
21073645 CAGCGAGGGAGGTAGAGGCAG
1 CAGCGAGGGAGGCAGAGGCAG
21073666 CAGCGA
1 CAGCGA
21073672 TGGCAGCAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.21, G:0.50, T:0.02
Consensus pattern (21 bp):
CAGCGAGGGAGGCAGAGGCAG
Found at i:21073682 original size:21 final size:21
Alignment explanation
Indices: 21073624--21073682 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
21073614 GTAGATGCAA
* *
21073624 CAGCGAGGGAGGCAGCGGCAG
1 CAGCGAGGCAGGCAGAGGCAG
* *
21073645 CAGCGAGGGAGGTAGAGGCAG
1 CAGCGAGGCAGGCAGAGGCAG
21073666 CAGCGATGGCA-GCAGAG
1 CAGCGA-GGCAGGCAGAG
21073683 CAGAGCAGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 30 0.91
22 3 0.09
ACGTcount: A:0.27, C:0.20, G:0.49, T:0.03
Consensus pattern (21 bp):
CAGCGAGGCAGGCAGAGGCAG
Found at i:21073960 original size:31 final size:31
Alignment explanation
Indices: 21073924--21073983 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
21073914 TATATTTTTT
*
21073924 ATGCTACATTTGTTGTTTTTGGTTGGATTCA
1 ATGCTACATTTGCTGTTTTTGGTTGGATTCA
*
21073955 ATGCTATATTTGCTGTTTTTGGTTGGATT
1 ATGCTACATTTGCTGTTTTTGGTTGGATT
21073984 TAATACAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.15, C:0.08, G:0.23, T:0.53
Consensus pattern (31 bp):
ATGCTACATTTGCTGTTTTTGGTTGGATTCA
Found at i:21074139 original size:43 final size:43
Alignment explanation
Indices: 21074065--21074161 Score: 133
Period size: 43 Copynumber: 2.2 Consensus size: 43
21074055 AAAAGCGAAT
* *
21074065 CATGACTTTTAGCGGCGTTTCACCCAAAAACGCCACTAAAAGC
1 CATGACTTTTAGAGGCCTTTCACCCAAAAACGCCACTAAAAGC
* *
21074108 CATGACTTTTAGAGGCACTTT-TCCCACAAACGCCACTAAAAGC
1 CATGACTTTTAGAGGC-CTTTCACCCAAAAACGCCACTAAAAGC
21074151 CATGATCTTTT
1 CATGA-CTTTT
21074162 GTGGCGTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
43 40 0.83
44 8 0.17
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (43 bp):
CATGACTTTTAGAGGCCTTTCACCCAAAAACGCCACTAAAAGC
Found at i:21080357 original size:39 final size:39
Alignment explanation
Indices: 21080309--21080385 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
21080299 TGTAAAATGC
* * *
21080309 AGAGCAATAGCGGTGTTTTTGGTAAAACGCCGCTAAAAA
1 AGAGCAATAGCAGCGCTTTTGGTAAAACGCCGCTAAAAA
21080348 AGAGCAATAGCAGCGCTTTTGGTAAAACGCCGCTAAAA
1 AGAGCAATAGCAGCGCTTTTGGTAAAACGCCGCTAAAA
21080386 GTTATATAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (39 bp):
AGAGCAATAGCAGCGCTTTTGGTAAAACGCCGCTAAAAA
Found at i:21080678 original size:15 final size:15
Alignment explanation
Indices: 21080634--21080684 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
21080624 GGGTTTAATA
*
21080634 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* * *
21080648 TCTATAGTTTAGGGT
1 TTTATGGTTTAAGGT
21080663 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
21080678 TTAATGG
1 TTTATGG
21080685 CCATGGGTAT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
14 10 0.36
15 18 0.64
ACGTcount: A:0.24, C:0.02, G:0.27, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:21081279 original size:7 final size:7
Alignment explanation
Indices: 21081262--21081323 Score: 63
Period size: 7 Copynumber: 8.7 Consensus size: 7
21081252 ACATTAAATC
21081262 AAAAT-A
1 AAAATAA
21081268 AAAATAA
1 AAAATAA
*
21081275 AAAATTA
1 AAAATAA
*
21081282 AAATTAA
1 AAAATAA
21081289 AAAATTAA
1 AAAA-TAA
21081297 AAAATTAA
1 AAAA-TAA
*
21081305 AAAATTA
1 AAAATAA
*
21081312 AAAATTA
1 AAAATAA
21081319 AAAAT
1 AAAAT
21081324 TTAATATTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
6 5 0.10
7 29 0.59
8 15 0.31
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATAA
Found at i:21081283 original size:8 final size:8
Alignment explanation
Indices: 21081267--21081327 Score: 85
Period size: 8 Copynumber: 8.1 Consensus size: 8
21081257 AAATCAAAAT
21081267 AAAAA-TA
1 AAAAATTA
21081274 AAAAATT-
1 AAAAATTA
21081281 -AAAATTA
1 AAAAATTA
21081288 AAAAATTA
1 AAAAATTA
21081296 AAAAATTA
1 AAAAATTA
21081304 AAAAATT-
1 AAAAATTA
21081311 AAAAATTA
1 AAAAATTA
*
21081319 AAAATTTA
1 AAAAATTA
21081327 A
1 A
21081328 TATTTTAGTC
Statistics
Matches: 49, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
6 6 0.12
7 12 0.24
8 31 0.63
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AAAAATTA
Found at i:21081289 original size:14 final size:14
Alignment explanation
Indices: 21081262--21081327 Score: 80
Period size: 14 Copynumber: 4.6 Consensus size: 14
21081252 ACATTAAATC
*
21081262 AAAA-TAAAAATAA
1 AAAATTAAAATTAA
21081275 AAAATTAAAATTAA
1 AAAATTAAAATTAA
21081289 AAAATTAAAAAATTAA
1 AAAATT--AAAATTAA
21081305 AAAATTAAAAATTAA
1 AAAATT-AAAATTAA
*
21081320 AAATTTAA
1 AAAATTAA
21081328 TATTTTAGTC
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
13 4 0.08
14 16 0.33
15 14 0.29
16 14 0.29
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAATTAAAATTAA
Found at i:21081323 original size:30 final size:29
Alignment explanation
Indices: 21081267--21081327 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 29
21081257 AAATCAAAAT
21081267 AAAAATAAAAAATTAAAATTAAAAAATTA
1 AAAAATAAAAAATTAAAATTAAAAAATTA
*
21081296 AAAAATTAAAAAATTAAAAATTAAAAATTTA
1 AAAAA-TAAAAAATT-AAAATTAAAAAATTA
21081327 A
1 A
21081328 TATTTTAGTC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 5 0.17
30 9 0.31
31 15 0.52
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (29 bp):
AAAAATAAAAAATTAAAATTAAAAAATTA
Found at i:21085668 original size:31 final size:32
Alignment explanation
Indices: 21085630--21085691 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 32
21085620 CTATAGCGAC
21085630 GTTTTAGCGGCTCTTAAAAGCGCCGC-AAAGA
1 GTTTTAGCGGCTCTTAAAAGCGCCGCTAAAGA
21085661 GTTTTAGCGGCTCTTAAAAGCGCCGCTAAAG
1 GTTTTAGCGGCTCTTAAAAGCGCCGCTAAAG
21085692 GCCTAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 26 0.87
32 4 0.13
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (32 bp):
GTTTTAGCGGCTCTTAAAAGCGCCGCTAAAGA
Found at i:21107251 original size:39 final size:39
Alignment explanation
Indices: 21107201--21107523 Score: 547
Period size: 39 Copynumber: 8.3 Consensus size: 39
21107191 TTAAGCCCAA
* *
21107201 ATATAATACCAGCACGAATGCCTTCGGGGCTTAGCCCGG
1 ATATAACACCAGCACGAATGCCTTCGAGGCTTAGCCCGG
21107240 ATATAACACCAGCACGAATGCCTTCGAGGCTTAGCCCGG
1 ATATAACACCAGCACGAATGCCTTCGAGGCTTAGCCCGG
* * *
21107279 ATACAACACCAGCACGAATGCCTTTGGGGCTTAGCCCGG
1 ATATAACACCAGCACGAATGCCTTCGAGGCTTAGCCCGG
21107318 ATATAACACCAGCACGAATGCCTTCGAGGCTTAGCCCGG
1 ATATAACACCAGCACGAATGCCTTCGAGGCTTAGCCCGG
* * *
21107357 ATACAACACCAGCACGAATGCCTTTGGGGCTTAGCCCGG
1 ATATAACACCAGCACGAATGCCTTCGAGGCTTAGCCCGG
21107396 ATATAACACCAGCACGAATGCCTTCGAGGCTTAGCCCGG
1 ATATAACACCAGCACGAATGCCTTCGAGGCTTAGCCCGG
* * *
21107435 ATACAACACCAGCACGAATGCCTTTGGGGCTTAGCCCGG
1 ATATAACACCAGCACGAATGCCTTCGAGGCTTAGCCCGG
21107474 ATATAACACCAGCACGAATGCCTTCGAGGCTTAGCCCGG
1 ATATAACACCAGCACGAATGCCTTCGAGGCTTAGCCCGG
21107513 ATATAACACCA
1 ATATAACACCA
21107524 AATCATATAA
Statistics
Matches: 264, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 264 1.00
ACGTcount: A:0.28, C:0.30, G:0.24, T:0.18
Consensus pattern (39 bp):
ATATAACACCAGCACGAATGCCTTCGAGGCTTAGCCCGG
Found at i:21107323 original size:78 final size:78
Alignment explanation
Indices: 21107208--21107523 Score: 614
Period size: 78 Copynumber: 4.1 Consensus size: 78
21107198 CAAATATAAT
*
21107208 ACCAGCACGAATGCCTTCGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTTCGAGGCTTA
1 ACCAGCACGAATGCCTTTGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTTCGAGGCTTA
21107273 GCCCGGATACAAC
66 GCCCGGATACAAC
21107286 ACCAGCACGAATGCCTTTGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTTCGAGGCTTA
1 ACCAGCACGAATGCCTTTGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTTCGAGGCTTA
21107351 GCCCGGATACAAC
66 GCCCGGATACAAC
21107364 ACCAGCACGAATGCCTTTGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTTCGAGGCTTA
1 ACCAGCACGAATGCCTTTGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTTCGAGGCTTA
21107429 GCCCGGATACAAC
66 GCCCGGATACAAC
21107442 ACCAGCACGAATGCCTTTGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTTCGAGGCTTA
1 ACCAGCACGAATGCCTTTGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTTCGAGGCTTA
*
21107507 GCCCGGATATAAC
66 GCCCGGATACAAC
21107520 ACCA
1 ACCA
21107524 AATCATATAA
Statistics
Matches: 236, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 236 1.00
ACGTcount: A:0.27, C:0.31, G:0.24, T:0.18
Consensus pattern (78 bp):
ACCAGCACGAATGCCTTTGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTTCGAGGCTTA
GCCCGGATACAAC
Found at i:21109533 original size:19 final size:19
Alignment explanation
Indices: 21109509--21109549 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
21109499 GTTATAATAT
*
21109509 TAATATTCCTTTAATATTA
1 TAATATTCATTTAATATTA
*
21109528 TAATATTCATTTCATATTA
1 TAATATTCATTTAATATTA
21109547 TAA
1 TAA
21109550 AACAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATATTCATTTAATATTA
Found at i:21114462 original size:33 final size:32
Alignment explanation
Indices: 21114425--21114639 Score: 162
Period size: 33 Copynumber: 6.6 Consensus size: 32
21114415 TACCCAAATG
** *
21114425 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
1 GTAC-ACTTGAAAAGGAAAGGTACACTTTGTGT
* *
21114458 GTACACTTGAAAAGGAAAGGTATACTTTATGT
1 GTACACTTGAAAAGGAAAGGTACACTTTGTGT
* *
21114490 ATAC-CATATGAAAAGGAAAGGTATACTTTGTGT
1 GTACAC-T-TGAAAAGGAAAGGTACACTTTGTGT
* * *
21114523 ATACCACTTGAAAAGGAAAGGTACACTATATGT
1 GTA-CACTTGAAAAGGAAAGGTACACTTTGTGT
* * ** * * *
21114556 GTACATTTGAGAAGGTTATGTGCACTTTGAGT
1 GTACACTTGAAAAGGAAAGGTACACTTTGTGT
* ** * *
21114588 GTACAAATTGAAAAGGGTATGTACACTTCGTGT
1 GTAC-ACTTGAAAAGGAAAGGTACACTTTGTGT
*
21114621 ATACTACTTGAAAAGGAAA
1 GTAC-ACTTGAAAAGGAAA
21114640 TGTGCACCTC
Statistics
Matches: 146, Mismatches: 31, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
31 1 0.01
32 51 0.35
33 91 0.62
34 2 0.01
35 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (32 bp):
GTACACTTGAAAAGGAAAGGTACACTTTGTGT
Found at i:21114502 original size:65 final size:64
Alignment explanation
Indices: 21114433--21114603 Score: 198
Period size: 65 Copynumber: 2.6 Consensus size: 64
21114423 TGGTACAACT
* *
21114433 TGAAAAGGTTATGTACACTTTGTGTGTACACTTGAAAAGGAAAGGTATACTTTATGTATACCATA
1 TGAAAAGGTTATGTACACTTTGTGTGTACACTTGAAAAGGAAAGGTACACTATATGTATA-CATA
** * * * * *
21114498 TGAAAAGGAAAGGTATACTTTGTGTATACCACTTGAAAAGGAAAGGTACACTATATGTGTACATT
1 TGAAAAGGTTATGTACACTTTGTGTGTA-CACTTGAAAAGGAAAGGTACACTATATGTATACATA
* * * *
21114563 TGAGAAGGTTATGTGCACTTTGAGTGTACAAATTGAAAAGG
1 TGAAAAGGTTATGTACACTTTGTGTGTAC-ACTTGAAAAGG
21114604 GTATGTACAC
Statistics
Matches: 86, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
64 1 0.01
65 56 0.65
66 29 0.34
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (64 bp):
TGAAAAGGTTATGTACACTTTGTGTGTACACTTGAAAAGGAAAGGTACACTATATGTATACATA
Found at i:21118662 original size:10 final size:10
Alignment explanation
Indices: 21118642--21118679 Score: 67
Period size: 10 Copynumber: 3.7 Consensus size: 10
21118632 TATAGGTTTC
21118642 TAAAGCTTGTA
1 TAAA-CTTGTA
21118653 TAAACTTGTA
1 TAAACTTGTA
21118663 TAAACTTGTA
1 TAAACTTGTA
21118673 TAAACTT
1 TAAACTT
21118680 TAAAGTAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 23 0.85
11 4 0.15
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (10 bp):
TAAACTTGTA
Found at i:21124936 original size:59 final size:61
Alignment explanation
Indices: 21124865--21124981 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 61
21124855 ATCACTTTAG
* * * *
21124865 TATTAAATTAATATAATATTTA-T-CAAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
*
21124924 TATTAAAATAATAGAATATTTATCTACAAGATAAGCATTAAATTAAATTTAATATTAA
1 TATTAAAATAATAGAATATTTA-CTACAAGATAAACATTAAATTAAATTTAATATTAA
21124982 GATAATCATT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 20 0.40
61 1 0.02
62 29 0.58
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (61 bp):
TATTAAAATAATAGAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:21125007 original size:20 final size:18
Alignment explanation
Indices: 21124960--21125008 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
21124950 CAAGATAAGC
21124960 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
21124977 ATTAAGA-TAATCATTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
21124997 ATTAAATTAATA
1 ATTAAATTAATA
21125009 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:21128056 original size:33 final size:33
Alignment explanation
Indices: 21128009--21128075 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
21127999 CTTGAGTTGC
*
21128009 AACGCGATCCGACTTCCCAAGTGATGGCTCCAT
1 AACGCGATCCGACTTCCCAAGTGATGGCCCCAT
*
21128042 AACGCGATCTGACTTCCCAAGTGATGGCCCCAT
1 AACGCGATCCGACTTCCCAAGTGATGGCCCCAT
21128075 A
1 A
21128076 TAGGTCACCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (33 bp):
AACGCGATCCGACTTCCCAAGTGATGGCCCCAT
Found at i:21132728 original size:19 final size:18
Alignment explanation
Indices: 21132686--21132745 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 18
21132676 CCAAACACTA
21132686 AAAAAATAAATTATTTTC
1 AAAAAATAAATTATTTTC
*
21132704 AGAAAAGTAAATTATTTTC
1 A-AAAAATAAATTATTTTC
* *
21132723 TAAAAAT-TATT-TTTT-
1 AAAAAATAAATTATTTTC
21132738 AAAAAATA
1 AAAAAATA
21132746 TTTTACTGGC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
15 6 0.17
16 4 0.11
17 3 0.09
18 6 0.17
19 16 0.46
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (18 bp):
AAAAAATAAATTATTTTC
Found at i:21132742 original size:15 final size:14
Alignment explanation
Indices: 21132712--21132749 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
21132702 TCAGAAAAGT
21132712 AAATTATTTTCTAA
1 AAATTATTTTCTAA
*
21132726 AAATTATTTTTTAA
1 AAATTATTTTCTAA
*
21132740 AAAATATTTT
1 AAATTATTTT
21132750 ACTGGCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (14 bp):
AAATTATTTTCTAA
Found at i:21134451 original size:44 final size:44
Alignment explanation
Indices: 21134388--21134477 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
21134378 TATTCCAATA
21134388 CTGTGAATTGTTGTTGTTTAAGGTCATAATGAATGAATGTGTTG
1 CTGTGAATTGTTGTTGTTTAAGGTCATAATGAATGAATGTGTTG
21134432 CTGTGAATTGTTGTTGTTTAAGGTCATAATGAATGAATGTGTTG
1 CTGTGAATTGTTGTTGTTTAAGGTCATAATGAATGAATGTGTTG
21134476 CT
1 CT
21134478 TTTCTTTCTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.24, C:0.06, G:0.27, T:0.43
Consensus pattern (44 bp):
CTGTGAATTGTTGTTGTTTAAGGTCATAATGAATGAATGTGTTG
Done.