Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 164 of 345
Found at i:56275733 original size:24 final size:23
Alignment explanation
Indices: 56275706--56275756 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
56275696 CATAAGTTTG
56275706 AATCTGAAGTACAAGTCCAGGCTA
1 AATC-GAAGTACAAGTCCAGGCTA
* * **
56275730 AATCGGATTACCTGTCCAGGCTA
1 AATCGAAGTACAAGTCCAGGCTA
56275753 AATC
1 AATC
56275757 CTTAATGCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (23 bp):
AATCGAAGTACAAGTCCAGGCTA
Found at i:56281651 original size:10 final size:10
Alignment explanation
Indices: 56281624--56281665 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
56281614 TTAAATTCTA
56281624 AAAGATAAAT
1 AAAGATAAAT
56281634 ACAA-ATAAAT
1 A-AAGATAAAT
*
56281644 AAAGATAATT
1 AAAGATAAAT
*
56281654 AAAGATCAAT
1 AAAGATAAAT
56281664 AA
1 AA
56281666 CCTAAACAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 2 0.07
10 23 0.85
11 2 0.07
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:56283618 original size:26 final size:24
Alignment explanation
Indices: 56283588--56283637 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
56283578 AAATAAAAAA
*
56283588 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
56283614 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
56283638 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:56288143 original size:47 final size:47
Alignment explanation
Indices: 56288082--56288476 Score: 646
Period size: 47 Copynumber: 8.4 Consensus size: 47
56288072 CAGCCAAGAC
56288082 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
56288129 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
56288176 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
56288223 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
56288270 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
56288317 AGTGTATATATGTAACAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
56288364 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
56288411 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
56288458 ACTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
56288477 TCCCGAAGGG
Statistics
Matches: 324, Mismatches: 24, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 324 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:56288651 original size:37 final size:37
Alignment explanation
Indices: 56288595--56288673 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
56288585 CCGAGCTCTA
* *
56288595 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
56288632 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
56288669 AAGAC
1 AAGAC
56288674 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:56292843 original size:21 final size:22
Alignment explanation
Indices: 56292817--56292857 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
56292807 CACTTGACAT
56292817 AGGGGC-ACACGCCCATGTGGG
1 AGGGGCAACACGCCCATGTGGG
*
56292838 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCATGTG
56292858 ACCATTCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.20, C:0.29, G:0.41, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCATGTGGG
Found at i:56294051 original size:47 final size:47
Alignment explanation
Indices: 56293960--56294136 Score: 157
Period size: 47 Copynumber: 3.7 Consensus size: 47
56293950 GGGTAAGGTA
* * * *
56293960 CCGATGCCGTGTCTCAGACATGGTCTTACACTGGC-TATCATCTCGTAG
1 CCGATG-CATGTCCCAGACATGGTCTTACACTAGCTTA-CGTCTCGTAG
* *
56294008 CCAACGCATGTCCCAGACAT-GTCTTAACACTAGCTTACGTCTCG-AGG
1 CCGATGCATGTCCCAGACATGGTCTT-ACACTAGCTTACGTCTCGTA-G
* * * * *
56294055 CCGATGTATGTTCCAGACAT-GTCTTACACTAGCACT-CGTCTCATTG
1 CCGATGCATGTCCCAGACATGGTCTTACACTAGC-TTACGTCTCGTAG
*
56294101 CCGATGCCATGTCCCAGACATGGACTTACACTAGCT
1 CCGATG-CATGTCCCAGACATGGTCTTACACTAGCT
56294137 CTCACAAATG
Statistics
Matches: 105, Mismatches: 17, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
46 27 0.26
47 60 0.57
48 18 0.17
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (47 bp):
CCGATGCATGTCCCAGACATGGTCTTACACTAGCTTACGTCTCGTAG
Found at i:56297150 original size:30 final size:30
Alignment explanation
Indices: 56297114--56297216 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
56297104 GTTATAGAGT
*
56297114 AGTTCATATCACCTGGACATGGACGGTTCG
1 AGTTCATATCACCTGGACATGGGCGGTTCG
* ** * *
56297144 AGTTCATGTCACCCAGACATGGGTGGTTCT
1 AGTTCATATCACCTGGACATGGGCGGTTCG
* * *
56297174 AGTTCATATCACTTGGACATGGGCAGTTTG
1 AGTTCATATCACCTGGACATGGGCGGTTCG
56297204 AGTTCATATCACC
1 AGTTCATATCACC
56297217 CAAAGCAACC
Statistics
Matches: 58, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.30
Consensus pattern (30 bp):
AGTTCATATCACCTGGACATGGGCGGTTCG
Found at i:56299867 original size:41 final size:44
Alignment explanation
Indices: 56299753--56299886 Score: 148
Period size: 45 Copynumber: 3.1 Consensus size: 44
56299743 TAGGATTTCC
* * *
56299753 TATATGTGTTCTCGTGTAAGACCACGTCTGGGATGTTGGCATCGA
1 TATATGTGAT-TCGTGTAAGACCATGTCTGGGATATTGGCATCGA
*
56299798 TATATGTGGTTACGTGTAAGACCATGTCTGGGATATTGGCATC-A
1 TATATGTGATT-CGTGTAAGACCATGTCTGGGATATTGGCATCGA
* * * * *
56299842 -A-ATTTGATTCGTGTAAGACCTTGTCTGGGACAGTGGCAACGA
1 TATATGTGATTCGTGTAAGACCATGTCTGGGATATTGGCATCGA
56299884 TAT
1 TAT
56299887 GAGATAGCAT
Statistics
Matches: 76, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
41 27 0.36
42 7 0.09
43 2 0.03
44 2 0.03
45 38 0.50
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.33
Consensus pattern (44 bp):
TATATGTGATTCGTGTAAGACCATGTCTGGGATATTGGCATCGA
Found at i:56301172 original size:20 final size:21
Alignment explanation
Indices: 56301117--56301175 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
56301107 ATTCGGCATT
56301117 TGTATATGTATAAG-TATATAA
1 TGTATATG-ATAAGATATATAA
* * *
56301138 TGT-TTTGATATGATAT-TTA
1 TGTATATGATAAGATATATAA
56301157 TGTATATGATAAGATATAT
1 TGTATATGATAAGATATAT
56301176 TTGTAATGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
19 9 0.30
20 17 0.57
21 4 0.13
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.47
Consensus pattern (21 bp):
TGTATATGATAAGATATATAA
Found at i:56301180 original size:20 final size:20
Alignment explanation
Indices: 56301114--56301180 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
56301104 ATGATTCGGC
56301114 ATTTGTATATGTATAAG-TAT
1 ATTTGTATATG-ATAAGATAT
* * *
56301134 ATAATGT-TTTGATATGATAT
1 AT-TTGTATATGATAAGATAT
56301154 -TTATGTATATGATAAGATAT
1 ATT-TGTATATGATAAGATAT
56301174 ATTTGTA
1 ATTTGTA
56301181 ATGTATTTGA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
19 8 0.22
20 23 0.64
21 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATTTGTATATGATAAGATAT
Found at i:56303765 original size:7 final size:7
Alignment explanation
Indices: 56303753--56303791 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
56303743 ATTCAAACTA
56303753 AAATATT
1 AAATATT
56303760 AAATATT
1 AAATATT
56303767 AAATATT
1 AAATATT
56303774 AAATATT
1 AAATATT
56303781 AAATATT
1 AAATATT
56303788 AAAT
1 AAAT
56303792 TTTTATATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
AAATATT
Found at i:56303999 original size:22 final size:23
Alignment explanation
Indices: 56303953--56304013 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 23
56303943 CAAATATTAT
* *
56303953 ATTT-AAA-ATTAAAAAAAATAT
1 ATTTAAAAGATTATAAAAAATAC
*
56303974 ATTTAAAAGATT-TAAAATATAC
1 ATTTAAAAGATTATAAAAAATAC
*
56303996 ATTTAAAATATTATAAAA
1 ATTTAAAAGATTATAAAA
56304014 CAAATAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 4 0.12
22 21 0.64
23 8 0.24
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
ATTTAAAAGATTATAAAAAATAC
Found at i:56304122 original size:22 final size:22
Alignment explanation
Indices: 56304060--56304171 Score: 90
Period size: 23 Copynumber: 5.1 Consensus size: 22
56304050 AATATATTTT
*
56304060 AAATAT-TTTATAATA-TTAAA
1 AAATATATTTAAAATATTTAAA
56304080 AAATTAATATTTAAAAT-TTTAAA
1 AAA-T-ATATTTAAAATATTTAAA
56304103 AAATATATTTAAAATATTT-AA
1 AAATATATTTAAAATATTTAAA
* *
56304124 AAATAATATTATAAAACATTTCAA
1 AAAT-ATATT-TAAAATATTTAAA
* * * *
56304148 ATATACATTTCAAAT-TTTATA
1 AAATATATTTAAAATATTTAAA
56304169 AAA
1 AAA
56304172 CCAATAATAA
Statistics
Matches: 75, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
20 3 0.04
21 24 0.32
22 15 0.20
23 28 0.37
24 5 0.07
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (22 bp):
AAATATATTTAAAATATTTAAA
Found at i:56304144 original size:23 final size:21
Alignment explanation
Indices: 56304078--56304144 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 21
56304068 TATAATATTA
*
56304078 AAAAATTAATATTTAAAATTTT
1 AAAAA-TAATATTTAAAAATTT
56304100 AAAAA-ATATATTTAAAATATTT
1 AAAAATA-ATATTTAAAA-ATTT
56304122 AAAAATAATATTATAAAACATTT
1 AAAAATAATATT-TAAAA-ATTT
56304145 CAAATATACA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
20 1 0.03
21 10 0.26
22 18 0.46
23 10 0.26
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAATAATATTTAAAAATTT
Found at i:56304194 original size:24 final size:24
Alignment explanation
Indices: 56304166--56304220 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
56304156 TTCAAATTTT
*
56304166 ATAAAACCAATAATA-AACAAATAA
1 ATAAAACAAATAA-AGAACAAATAA
*
56304190 ATAAAACAAATAAAGGACAAATAA
1 ATAAAACAAATAAAGAACAAATAA
*
56304214 AAAAAAC
1 ATAAAAC
56304221 TTAAAAAGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 1 0.04
24 26 0.96
ACGTcount: A:0.73, C:0.11, G:0.04, T:0.13
Consensus pattern (24 bp):
ATAAAACAAATAAAGAACAAATAA
Found at i:56304198 original size:13 final size:13
Alignment explanation
Indices: 56304166--56304203 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
56304156 TTCAAATTTT
*
56304166 ATAAAACCAAT-A
1 ATAAAACAAATAA
56304178 AT-AAACAAATAA
1 ATAAAACAAATAA
56304190 ATAAAACAAATAA
1 ATAAAACAAATAA
56304203 A
1 A
56304204 GGACAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 7 0.30
12 5 0.22
13 11 0.48
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.16
Consensus pattern (13 bp):
ATAAAACAAATAA
Found at i:56304228 original size:24 final size:23
Alignment explanation
Indices: 56304182--56304263 Score: 73
Period size: 24 Copynumber: 3.6 Consensus size: 23
56304172 CCAATAATAA
* *
56304182 ACAAATAAATAAAAC-AAATAAAGG
1 ACAAATAAAAAAAACTTAA-AAA-G
56304206 ACAAATAAAAAAAACTTAAAAAG
1 ACAAATAAAAAAAACTTAAAAAG
*
56304229 -TAAATAAATAAAAAACTTAAAAAG
1 ACAAAT-AA-AAAAAACTTAAAAAG
56304253 A-AAA-AAAAAAA
1 ACAAATAAAAAAA
56304264 GAAAAACGAC
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
21 5 0.10
22 6 0.12
23 3 0.06
24 35 0.69
25 2 0.04
ACGTcount: A:0.76, C:0.06, G:0.05, T:0.13
Consensus pattern (23 bp):
ACAAATAAAAAAAACTTAAAAAG
Found at i:56304233 original size:22 final size:21
Alignment explanation
Indices: 56304208--56304263 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 21
56304198 AATAAAGGAC
56304208 AAATAAAAAAAACTTAAAAAG
1 AAATAAAAAAAACTTAAAAAG
56304229 TAAATAAATAAAAAACTTAAAAAG
1 -AAAT-AA-AAAAAACTTAAAAAG
56304253 AAA-AAAAAAAA
1 AAATAAAAAAAA
56304264 GAAAAACGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.19
21 2 0.06
22 4 0.12
23 5 0.16
24 15 0.47
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.14
Consensus pattern (21 bp):
AAATAAAAAAAACTTAAAAAG
Found at i:56305493 original size:15 final size:15
Alignment explanation
Indices: 56305473--56305526 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
56305463 GTACTACAAA
56305473 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
56305488 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
56305505 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
56305522 ATATT
1 ATATT
56305527 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:56305655 original size:22 final size:22
Alignment explanation
Indices: 56305621--56305662 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
56305611 ATTAAACAAT
56305621 TTATTAAAATAATAAGTTATAC
1 TTATTAAAATAATAAGTTATAC
* * *
56305643 TTATTATATTAATAATTTAT
1 TTATTAAAATAATAAGTTAT
56305663 TATATGACTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
TTATTAAAATAATAAGTTATAC
Found at i:56323991 original size:24 final size:24
Alignment explanation
Indices: 56323964--56324010 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
56323954 GCTTATTGCC
56323964 GGTGAATTATTATAAGTTTATGCT
1 GGTGAATTATTATAAGTTTATGCT
56323988 GGTGAATTATTATAAGTTTATGC
1 GGTGAATTATTATAAGTTTATGC
56324011 CTAAAAGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.45
Consensus pattern (24 bp):
GGTGAATTATTATAAGTTTATGCT
Found at i:56325609 original size:47 final size:46
Alignment explanation
Indices: 56325546--56325805 Score: 174
Period size: 47 Copynumber: 5.5 Consensus size: 46
56325536 ATGGTAGCCC
* * * *
56325546 GTGTAAGACCACGTCTGGGACATGGCATCGACGTAGAGGTGAGTGCCA
1 GTGTAAGACCATGTCTGGGACAT-GCATCGGCCTA-AGGTGAGTGCTA
* *
56325594 GTGTAAGA-CATGTCTGGGACATGCATCAGCCTCAA--TGATGTTAGCCA
1 GTGTAAGACCATGTCTGGGACATGCATCGGCCT-AAGGTGA-G-T-GCTA
* * **
56325641 GTGTAAGA-CGTGTTTGGGACATGCATCGG-CTAAGGTTCGTGCTA
1 GTGTAAGACCATGTCTGGGACATGCATCGGCCTAAGGTGAGTGCTA
* * *** *
56325685 GTGTAAG-GCATGTCTGGGACATGCATCAGCGCGTATACACGAGAGCTA
1 GTGTAAGACCATGTCTGGGACATGCATC-G-GCCTA-AGGTGAGTGCTA
* * *
56325733 GTGTAAGACCATGTCTAGGACATGGCATCGGCCT-CGATGGAGATAGCTA
1 GTGTAAGACCATGTCTGGGACAT-GCATCGGCCTAAGGT-GAG-T-GCTA
*
56325782 GTGTAAGACCATGTCAGGGACATG
1 GTGTAAGACCATGTCTGGGACATG
56325806 GCAGCGGAAA
Statistics
Matches: 168, Mismatches: 28, Indels: 32
0.74 0.12 0.14
Matches are distributed among these distances:
44 30 0.18
45 5 0.03
46 14 0.08
47 50 0.30
48 25 0.15
49 39 0.23
50 5 0.03
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.23
Consensus pattern (46 bp):
GTGTAAGACCATGTCTGGGACATGCATCGGCCTAAGGTGAGTGCTA
Found at i:56325619 original size:94 final size:93
Alignment explanation
Indices: 56325447--56325805 Score: 332
Period size: 94 Copynumber: 3.8 Consensus size: 93
56325437 GTTATGTGAG
* * * * * * * *
56325447 AGCCAGTATAGGACCATGTCTGGGACGTGGAATCGGCATTGAGATGAGGGCTAGTGTAAGACGTG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TAGAGGTGAGTGCTAGTGTAAGACATG
* *
56325512 TCTGGGACCTGCATCTGCCGCATCATGGT
65 TCTGGGACATGCATCAGCCGCATCATGGT
* * * *
56325541 AGCCCGTGTAAGACCACGTCTGGGACATGGCATCGACGTAGAGGTGAGTGCCAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TAGAGGTGAGTGCTAGTGTAAGACATG
* * *
56325606 TCTGGGACATGCATCAGCCTCAATGATGTT
65 TCTGGGACATGCATCAGCCGC-ATCATGGT
* * ** *
56325636 AGCCAGTGTAAGA-CGTGTTTGGGACAT-GCATCGGCTA-AGGTTCGTGCTAGTGTAAGGCATGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAGAGGTGAGTGCTAGTGTAAGACATGT
* *
56325698 CTGGGACATGCATCAGCGCGTATACACGAG-
66 CTGGGACATGCATCAGC-CGCAT-CATG-GT
* * * *
56325728 AGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATG-GAGATAGCTAGTGTAAGACC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTAGAGGTGAG-T-GCTAGTGTAAGA-C
*
56325792 ATGTCAGGGACATG
62 ATGTCTGGGACATG
56325806 GCAGCGGAAA
Statistics
Matches: 212, Mismatches: 42, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
91 40 0.19
92 17 0.08
93 18 0.08
94 88 0.42
95 21 0.10
96 3 0.01
97 11 0.05
98 14 0.07
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (93 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAGAGGTGAGTGCTAGTGTAAGACATGT
CTGGGACATGCATCAGCCGCATCATGGT
Found at i:56325755 original size:49 final size:48
Alignment explanation
Indices: 56325681--56325805 Score: 130
Period size: 49 Copynumber: 2.6 Consensus size: 48
56325671 TAAGGTTCGT
* *
56325681 GCTAGTGTAAG-GCATGTCTGGGACATGCATCAG-CGCGTATACACGAGA
1 GCTAGTGTAAGACCATGTCTAGGACATGCATCAGCCGCG-ATACA-GAGA
* * ** *
56325729 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATGGAGATA
1 GCTAGTGTAAGACCATGTCTAGGACAT-GCATCAGCCGCGATACAGAGA
56325778 GCTAGTGTAAGACCATGTC-AGGGACATG
1 GCTAGTGTAAGACCATGTCTA-GGACATG
56325806 GCAGCGGAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
48 13 0.20
49 41 0.62
50 9 0.14
51 3 0.05
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTAGGACATGCATCAGCCGCGATACAGAGA
Found at i:56326674 original size:55 final size:54
Alignment explanation
Indices: 56326559--56326677 Score: 141
Period size: 55 Copynumber: 2.2 Consensus size: 54
56326549 CTTAAACTTT
* * * *
56326559 TAAA-TCAGTATTGTCCGTGGTTAGGCCACACGGGCGTGTACCATAGCCGTGTC
1 TAAAGTCAGTATTGCCCATGGGTAGGCCACACGGGCGTGTACCATAGCCGTGCC
** * *
56326612 TATAAGTCAGTATTGCCCATGGGTAGGCCACACGGGCGTGTGTCATGGCCTTGCCC
1 TA-AAGTCAGTATTGCCCATGGGTAGGCCACACGGGCGTGTACCATAGCCGTG-CC
56326668 TAAAGTCAGT
1 TAAAGTCAGT
56326678 GTCGCACACG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
53 2 0.04
54 2 0.04
55 48 0.87
56 3 0.05
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.26
Consensus pattern (54 bp):
TAAAGTCAGTATTGCCCATGGGTAGGCCACACGGGCGTGTACCATAGCCGTGCC
Found at i:56332737 original size:32 final size:32
Alignment explanation
Indices: 56332701--56332766 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
56332691 AGAACAGACT
56332701 GACAGTCCCACTATTTCCCATTATGTCTGAAA
1 GACAGTCCCACTATTTCCCATTATGTCTGAAA
*
56332733 GACAGTCCCACTATTTCCTATTATGTCTGAAA
1 GACAGTCCCACTATTTCCCATTATGTCTGAAA
56332765 GA
1 GA
56332767 AACTATCCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.32
Consensus pattern (32 bp):
GACAGTCCCACTATTTCCCATTATGTCTGAAA
Found at i:56335852 original size:20 final size:20
Alignment explanation
Indices: 56335801--56335852 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 20
56335791 TTCAACTATG
56335801 ATTAAACTTAATCACTTTAAT
1 ATTAAA-TTAATCACTTTAAT
56335822 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAATCACTTTAAT
56335842 ATTAAATTAAT
1 ATTAAATTAAT
56335853 AAAATACTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.03
20 22 0.76
21 5 0.17
22 1 0.03
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (20 bp):
ATTAAATTAATCACTTTAAT
Found at i:56336761 original size:64 final size:64
Alignment explanation
Indices: 56336660--56336789 Score: 251
Period size: 64 Copynumber: 2.0 Consensus size: 64
56336650 AATCATGGAG
56336660 TCAGTCCACAAGAAGTACCATGATTGAAAACTCCTTATTGTATACTCTTTACGAATGCAATTCA
1 TCAGTCCACAAGAAGTACCATGATTGAAAACTCCTTATTGTATACTCTTTACGAATGCAATTCA
*
56336724 TCAGTCCACAAGAAGTACCATGATTGAAAACTCCTTATTGTGTACTCTTTACGAATGCAATTCA
1 TCAGTCCACAAGAAGTACCATGATTGAAAACTCCTTATTGTATACTCTTTACGAATGCAATTCA
56336788 TC
1 TC
56336790 CAACTGATTT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (64 bp):
TCAGTCCACAAGAAGTACCATGATTGAAAACTCCTTATTGTATACTCTTTACGAATGCAATTCA
Found at i:56342561 original size:19 final size:20
Alignment explanation
Indices: 56342537--56342574 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
56342527 TAAATTTTCC
56342537 TTTCCTT-TTTCTTTCCCTT
1 TTTCCTTATTTCTTTCCCTT
56342556 TTTCCTTATTTCTTTCCCT
1 TTTCCTTATTTCTTTCCCT
56342575 GCTATTCGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTCCTTATTTCTTTCCCTT
Found at i:56342656 original size:23 final size:22
Alignment explanation
Indices: 56342613--56342659 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
56342603 TTTTATTTCT
* *
56342613 TTATTTTATTAATATATTATAA
1 TTATATTATTAATATAATATAA
56342635 TTATATTATATAATATAATATAA
1 TTATATTAT-TAATATAATATAA
56342658 TT
1 TT
56342660 TACTTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTATATTATTAATATAATATAA
Found at i:56342668 original size:17 final size:18
Alignment explanation
Indices: 56342647--56342689 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
56342637 ATATTATATA
56342647 ATATAATATAATTTACTT
1 ATATAATATAATTTACTT
* *
56342665 -TATATTATTATTTACTT
1 ATATAATATAATTTACTT
56342682 ATATAATA
1 ATATAATA
56342690 AGTAAATACA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATAATATAATTTACTT
Found at i:56349057 original size:20 final size:20
Alignment explanation
Indices: 56349032--56349139 Score: 207
Period size: 20 Copynumber: 5.4 Consensus size: 20
56349022 GTAACAGTAT
56349032 TCGACACATATAGCGTCTCA
1 TCGACACATATAGCGTCTCA
56349052 TCGACACATATAGCGTCTCA
1 TCGACACATATAGCGTCTCA
56349072 TCGACACATATAGCGTCTCA
1 TCGACACATATAGCGTCTCA
56349092 TCGACACATATAGCGTCTCA
1 TCGACACATATAGCGTCTCA
*
56349112 TCGACACATATAGTGTCTCA
1 TCGACACATATAGCGTCTCA
56349132 TCGACACA
1 TCGACACA
56349140 CAGTCGGAAT
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
20 87 1.00
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.25
Consensus pattern (20 bp):
TCGACACATATAGCGTCTCA
Found at i:56349914 original size:19 final size:20
Alignment explanation
Indices: 56349890--56349927 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
56349880 TAAATTTTCC
56349890 TTTCCTT-TTTCTTTCCCTT
1 TTTCCTTATTTCTTTCCCTT
56349909 TTTCCTTATTTCTTTCCCT
1 TTTCCTTATTTCTTTCCCT
56349928 GCTATTCGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTCCTTATTTCTTTCCCTT
Found at i:56349998 original size:18 final size:17
Alignment explanation
Indices: 56349971--56350007 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
56349961 TTTCTTTATT
*
56349971 TTATTAATATATTATAA
1 TTATTAATATAATATAA
56349988 TTATATAATATAATATAA
1 TTAT-TAATATAATATAA
56350006 TT
1 TT
56350008 TACTTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATTAATATAATATAA
Found at i:56354084 original size:56 final size:56
Alignment explanation
Indices: 56353941--56354097 Score: 185
Period size: 56 Copynumber: 2.8 Consensus size: 56
56353931 TTTGATGGCA
*
56353941 TGATACATGCTAGGTCTGGGAGCTTGTA-TAGCCCCGTTGAGAGGCATGTAATTATG
1 TGATACATGCTAGGTCTGGGAGCTTTTAGTAGCCCCGTTGAGAGGCATG-AATTATG
* * * * *
56353997 TGGTATACGCTAGGTCCGGGAGCTTAT-GTAGCCCCGTTGAGAGGCATG-ATTATG
1 TGATACATGCTAGGTCTGGGAGCTTTTAGTAGCCCCGTTGAGAGGCATGAATTATG
* * * *
56354051 TGATGCATGCTAGGTCTAGGTGCTTTTAGGTAGCCCTGTTGAGAGGC
1 TGATACATGCTAGGTCTGGGAGCTTTTA-GTAGCCCCGTTGAGAGGC
56354098 GTGCTGGTAT
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
54 25 0.30
56 59 0.70
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.30
Consensus pattern (56 bp):
TGATACATGCTAGGTCTGGGAGCTTTTAGTAGCCCCGTTGAGAGGCATGAATTATG
Found at i:56357769 original size:18 final size:18
Alignment explanation
Indices: 56357746--56357783 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
56357736 CTTCAAATGA
56357746 AGAATGTTCCCAGTAATT
1 AGAATGTTCCCAGTAATT
56357764 AGAATGTTCCCAGTAATT
1 AGAATGTTCCCAGTAATT
56357782 AG
1 AG
56357784 CCGACACCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (18 bp):
AGAATGTTCCCAGTAATT
Found at i:56359498 original size:14 final size:14
Alignment explanation
Indices: 56359481--56359513 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
56359471 TTCCATTTGA
*
56359481 CATATATTTCATAG
1 CATATATGTCATAG
56359495 CATATATGTCATAG
1 CATATATGTCATAG
56359509 CATAT
1 CATAT
56359514 TCAAAATCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.39
Consensus pattern (14 bp):
CATATATGTCATAG
Found at i:56377419 original size:23 final size:24
Alignment explanation
Indices: 56377362--56377419 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 24
56377352 TGTTTACTCG
* **
56377362 CTTCGGTGGTG-TCTAGTTACCTG
1 CTTCGGTGGTGTTCCAGTTACCCA
**
56377385 CTTCGGCAGTGTTCCA-TTACCCA
1 CTTCGGTGGTGTTCCAGTTACCCA
56377408 CTTCGGTGGTGT
1 CTTCGGTGGTGT
56377420 CCCGTTTAAG
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
23 24 0.89
24 3 0.11
ACGTcount: A:0.10, C:0.26, G:0.28, T:0.36
Consensus pattern (24 bp):
CTTCGGTGGTGTTCCAGTTACCCA
Found at i:56380801 original size:25 final size:25
Alignment explanation
Indices: 56380766--56380816 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
56380756 AACCAACAAG
56380766 AACAAAATCCCTATACATGCCATAT
1 AACAAAATCCCTATACATGCCATAT
*
56380791 AACAAAGTCCCTATACATGCCATAT
1 AACAAAATCCCTATACATGCCATAT
56380816 A
1 A
56380817 CTCAAAACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.43, C:0.27, G:0.06, T:0.24
Consensus pattern (25 bp):
AACAAAATCCCTATACATGCCATAT
Found at i:56385099 original size:40 final size:40
Alignment explanation
Indices: 56385044--56385251 Score: 337
Period size: 40 Copynumber: 5.2 Consensus size: 40
56385034 TGGATGATAA
56385044 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
56385084 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTAATATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
56385124 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* **
56385164 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* * *
56385204 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
56385244 CC-GGCTAA
1 CCGGGCTAA
56385252 ACCTCGAAGG
Statistics
Matches: 157, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 6 0.04
40 151 0.96
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
Found at i:56393336 original size:40 final size:40
Alignment explanation
Indices: 56393280--56393457 Score: 259
Period size: 40 Copynumber: 4.5 Consensus size: 40
56393270 CGGATGATAA
56393280 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
*
56393320 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* * **
56393360 CCGGGCTAAGTCCCGAAGGCAATTGTACGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* * *
56393400 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
**
56393440 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
56393458 TACTTGGTTG
Statistics
Matches: 125, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 14 0.11
40 111 0.89
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
Found at i:56394963 original size:46 final size:45
Alignment explanation
Indices: 56394878--56395040 Score: 145
Period size: 46 Copynumber: 3.5 Consensus size: 45
56394868 GACAAGAGCT
* *
56394878 AGTGTAAGATATGTTTGGGACATGCATCGGCTTTA-AGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC--TAGAGATGTAAGCC
* *
56394924 AATGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGT--GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTA-GAGATGTAAGCC
* * * * *
56394968 AGTGTAAAACTATGTCTGAG-CATGTAATCGGCATAGATATGTGAAGCT
1 AGTGTAAGAC-ATGTCTGGGACATG-CATCGGC-TAGAGATGT-AAGCC
56395016 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
56395041 GCGTTAGCCT
Statistics
Matches: 94, Mismatches: 13, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
44 16 0.17
45 20 0.21
46 36 0.38
48 17 0.18
49 5 0.05
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTAGAGATGTAAGCC
Found at i:56399818 original size:53 final size:53
Alignment explanation
Indices: 56399738--56399843 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
56399728 CTCAGCAACA
*
56399738 GATACTTATTCTTTATTGTAACCTTATTGAGCTGTTGATAATCAATACACATT
1 GATACTTATTCTTTATCGTAACCTTATTGAGCTGTTGATAATCAATACACATT
* *
56399791 GATACTTCTTCTTTATCGTAACCTTATTGAGCTGTTGATAGTCAATACACATT
1 GATACTTATTCTTTATCGTAACCTTATTGAGCTGTTGATAATCAATACACATT
56399844 CTTATTAACC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.42
Consensus pattern (53 bp):
GATACTTATTCTTTATCGTAACCTTATTGAGCTGTTGATAATCAATACACATT
Found at i:56402340 original size:40 final size:40
Alignment explanation
Indices: 56402270--56402447 Score: 245
Period size: 40 Copynumber: 4.5 Consensus size: 40
56402260 AAACCAAGTA
* *
56402270 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
56402309 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
56402349 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
56402389 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
56402429 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
56402448 TTACCATCCG
Statistics
Matches: 125, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
39 14 0.11
40 111 0.89
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:56412813 original size:30 final size:30
Alignment explanation
Indices: 56412779--56412839 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
56412769 TCCTTACCTC
56412779 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
56412809 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
56412839 A
1 A
56412840 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:56414482 original size:50 final size:50
Alignment explanation
Indices: 56414404--56414575 Score: 238
Period size: 50 Copynumber: 3.4 Consensus size: 50
56414394 ACAATTTCAT
* *
56414404 TGCATAGAGACATTTTTCTCATTTAAATACATGATCATGGGTGGTTTTAA
1 TGCATAGAGACATTTTTCTCATTCAAATACATGATCATGGATGGTTTTAA
*
56414454 TGCATAGAGACATTTTTCACATTCAAATACATGATCATGGATGGTTTTAA
1 TGCATAGAGACATTTTTCTCATTCAAATACATGATCATGGATGGTTTTAA
* * * * *
56414504 TGCATAAAGACGTTTTTCTTATTCAAATACATGATAATGAAT-GTTTTCAA
1 TGCATAGAGACATTTTTCTCATTCAAATACATGATCATGGATGGTTTT-AA
* *
56414554 TGCATAGAGACGTTTATCTCAT
1 TGCATAGAGACATTTTTCTCAT
56414576 CTTGATACAT
Statistics
Matches: 109, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
49 5 0.05
50 104 0.95
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (50 bp):
TGCATAGAGACATTTTTCTCATTCAAATACATGATCATGGATGGTTTTAA
Found at i:56414584 original size:50 final size:50
Alignment explanation
Indices: 56414404--56414636 Score: 231
Period size: 50 Copynumber: 4.6 Consensus size: 50
56414394 ACAATTTCAT
* * *
56414404 TGCATAGAGACATTTTTCTCATTTAAATACATGATCATGGGTGGTTTTAA
1 TGCATAGAGACATTTTTCTCATTCAAATACATGATAATGGATGGTTTTAA
* *
56414454 TGCATAGAGACATTTTTCACATTCAAATACATGATCATGGATGGTTTTAA
1 TGCATAGAGACATTTTTCTCATTCAAATACATGATAATGGATGGTTTTAA
* * * *
56414504 TGCATAAAGACGTTTTTCTTATTCAAATACATGATAATGAAT-GTTTTCAA
1 TGCATAGAGACATTTTTCTCATTCAAATACATGATAATGGATGGTTTT-AA
* * ** *** *
56414554 TGCATAGAGACGTTTATCTCA-TCTTGATACATGA-AATGGAAAATTTCAAA
1 TGCATAGAGACATTTTTCTCATTC-AAATACATGATAATGGATGGTTT-TAA
*
56414604 TGCAT-GAAGACATTTTTTCTCAATCAAATACAT
1 TGCATAG-AGACA-TTTTTCTCATTCAAATACAT
56414637 CAGCATGGAT
Statistics
Matches: 154, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
49 13 0.08
50 125 0.81
51 14 0.09
52 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.37
Consensus pattern (50 bp):
TGCATAGAGACATTTTTCTCATTCAAATACATGATAATGGATGGTTTTAA
Found at i:56418541 original size:30 final size:30
Alignment explanation
Indices: 56418498--56418556 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
56418488 GGAGGTGGGA
56418498 TGGGAAGGAAGTAAAAATTTTAGGAGGAAAG
1 TGGGAAGGAAGTAAAAATTTT-GGAGGAAAG
* *
56418529 TGGG-AGGGAGTAAAAATTTTGGGGGAAA
1 TGGGAAGGAAGTAAAAATTTTGGAGGAAA
56418557 ATAAAAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 7 0.27
30 15 0.58
31 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.39, T:0.20
Consensus pattern (30 bp):
TGGGAAGGAAGTAAAAATTTTGGAGGAAAG
Found at i:56418784 original size:9 final size:9
Alignment explanation
Indices: 56418770--56418822 Score: 88
Period size: 9 Copynumber: 5.9 Consensus size: 9
56418760 ATAGTTTGAT
56418770 TTCGAATTA
1 TTCGAATTA
56418779 TTCGAATTA
1 TTCGAATTA
56418788 TTCGAATTA
1 TTCGAATTA
56418797 TTCGAATTA
1 TTCGAATTA
*
56418806 TTCGAGTTA
1 TTCGAATTA
*
56418815 TTCAAATT
1 TTCGAATT
56418823 TGAAAACTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (9 bp):
TTCGAATTA
Found at i:56418898 original size:18 final size:18
Alignment explanation
Indices: 56418872--56418906 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
56418862 ATTCTAGTTG
*
56418872 ACTCGAATAACTCGATTA
1 ACTCAAATAACTCGATTA
56418890 ACTCAAATAACTCGATT
1 ACTCAAATAACTCGATT
56418907 CTTTTAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (18 bp):
ACTCAAATAACTCGATTA
Found at i:56420155 original size:27 final size:28
Alignment explanation
Indices: 56420105--56420157 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
56420095 CCAGATTGCT
* *
56420105 ACTGTTACTGAAATGGGCTAAGGCCCTA
1 ACTGATACTGAAAAGGGCTAAGGCCCTA
*
56420133 ACTGATACT-AAAAGGGCTTAGGCCC
1 ACTGATACTGAAAAGGGCTAAGGCCC
56420158 AAATTGTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 14 0.64
28 8 0.36
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (28 bp):
ACTGATACTGAAAAGGGCTAAGGCCCTA
Found at i:56420792 original size:12 final size:12
Alignment explanation
Indices: 56420775--56420801 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
56420765 ATTTAACCAT
56420775 TCAAATATCAAA
1 TCAAATATCAAA
56420787 TCAAATATCAAA
1 TCAAATATCAAA
56420799 TCA
1 TCA
56420802 TCAAATTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.26
Consensus pattern (12 bp):
TCAAATATCAAA
Found at i:56424774 original size:26 final size:26
Alignment explanation
Indices: 56424738--56424847 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
56424728 TGATACAAAT
56424738 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
56424764 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
56424790 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
56424816 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
56424842 TGATAA
1 TGATAA
56424848 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:56427928 original size:46 final size:46
Alignment explanation
Indices: 56427861--56427955 Score: 147
Period size: 46 Copynumber: 2.1 Consensus size: 46
56427851 CGGTTAATTT
*
56427861 GAGAAAAAAAGCTAGAAAAATGGAAGGAAGAAGACCCCATAGGG-GA
1 GAGAAAAAAAGCTAGAAAAATGAAAGGAAGAAGACCCCAT-GGGAGA
* *
56427907 GAGAAAAAAAGTTAGTAAAATGAAAGGAAGAAGACCCCATGGGAGA
1 GAGAAAAAAAGCTAGAAAAATGAAAGGAAGAAGACCCCATGGGAGA
56427953 GAG
1 GAG
56427956 GGATGGTCGG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
45 3 0.07
46 42 0.93
ACGTcount: A:0.52, C:0.09, G:0.31, T:0.08
Consensus pattern (46 bp):
GAGAAAAAAAGCTAGAAAAATGAAAGGAAGAAGACCCCATGGGAGA
Found at i:56432089 original size:28 final size:29
Alignment explanation
Indices: 56432058--56432113 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
56432048 TTTTTACAAT
*
56432058 ATTTCCACATCCAAGA-CACTTTTCATTG
1 ATTTCCACATCCAAGATCAATTTTCATTG
* * *
56432086 ATTTTCATATCCAATATCAATTTTCATT
1 ATTTCCACATCCAAGATCAATTTTCATT
56432114 TTTTACTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 13 0.57
29 10 0.43
ACGTcount: A:0.30, C:0.23, G:0.04, T:0.43
Consensus pattern (29 bp):
ATTTCCACATCCAAGATCAATTTTCATTG
Found at i:56441071 original size:27 final size:26
Alignment explanation
Indices: 56441054--56441123 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
56441044 ATATTAAGTC
56441054 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
56441081 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
56441109 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
56441124 GTACAATTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:56441117 original size:28 final size:28
Alignment explanation
Indices: 56441054--56441150 Score: 142
Period size: 28 Copynumber: 3.5 Consensus size: 28
56441044 ATATTAAGTC
*
56441054 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
56441081 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
56441109 CGCACACTTAGTGCTGTACAATTAAACC
1 CGCACACTTAGTGCTATATAATCAAACT
56441137 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56441151 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
27 22 0.34
28 42 0.66
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:56441616 original size:12 final size:12
Alignment explanation
Indices: 56441599--56441624 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
56441589 TGGGCATACT
56441599 TATGTATATATA
1 TATGTATATATA
56441611 TATGTATATATA
1 TATGTATATATA
56441623 TA
1 TA
56441625 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:56449320 original size:28 final size:28
Alignment explanation
Indices: 56449257--56449353 Score: 124
Period size: 27 Copynumber: 3.5 Consensus size: 28
56449247 ATATTAAGTC
*
56449257 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
56449284 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * * *
56449312 CGCATACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
56449341 CGCACACTTAGTG
1 CGCACACTTAGTG
56449354 TGACAGCCCT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 22 0.36
28 22 0.36
29 17 0.28
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:56451079 original size:27 final size:28
Alignment explanation
Indices: 56450995--56451092 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
56450985 CATGAGATTG
* * * *
56450995 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
56451024 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
56451052 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
56451079 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
56451093 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:56451103 original size:27 final size:27
Alignment explanation
Indices: 56451023--56451105 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
56451013 TAAATTGTAC
* *
56451023 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
56451051 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
56451078 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
56451105 A
1 A
56451106 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:56451106 original size:29 final size:27
Alignment explanation
Indices: 56450995--56451106 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
56450985 CATGAGATTG
** * *
56450995 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
56451024 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
56451052 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
56451079 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
56451107 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:56453102 original size:12 final size:12
Alignment explanation
Indices: 56453085--56453111 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
56453075 TGGGCATACT
56453085 TATGTATATATA
1 TATGTATATATA
56453097 TATGTATATATA
1 TATGTATATATA
56453109 TAT
1 TAT
56453112 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:56455039 original size:51 final size:51
Alignment explanation
Indices: 56454970--56455119 Score: 237
Period size: 51 Copynumber: 2.9 Consensus size: 51
56454960 GTTGCTACTA
*
56454970 ATGAATATGCTGGTGATTTTGCAACATCAGATGGGGTGGATAATGTTGCTG
1 ATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
* * *
56455021 ATGAATATGTTGGTGATTTTGCAACATCAGATTGAGTGGATAATGTAGCTG
1 ATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
** *
56455072 ATGAATATGCTGGTGATTTTGCAACATTTGATGGACTGGATAATGTTG
1 ATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTG
56455120 TTGCTACACG
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 89 1.00
ACGTcount: A:0.27, C:0.09, G:0.29, T:0.35
Consensus pattern (51 bp):
ATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
Found at i:56456903 original size:16 final size:16
Alignment explanation
Indices: 56456884--56456914 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56456874 CTTCTTCACT
56456884 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
56456900 TACTTACTTACTTAA
1 TACTCACTTACTTAA
56456915 TCAAGTTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:56457267 original size:55 final size:53
Alignment explanation
Indices: 56457130--56457337 Score: 222
Period size: 55 Copynumber: 3.8 Consensus size: 53
56457120 ATCCTTTTGA
* * *
56457130 AACTTACCATTGCCATGTCTTGACATGGTTTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAG
* * * *
56457183 AACTCACCAATGCCATGCCTCGGCATGGTCTTACATGGGACCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG
* * * * *
56457237 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTCCCTTGCCTTAGA-
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAG
*
56457291 AACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 AA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
56457338 AAACCCTAAT
Statistics
Matches: 127, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
52 2 0.02
53 44 0.35
54 9 0.07
55 70 0.55
56 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG
Found at i:56457274 original size:108 final size:110
Alignment explanation
Indices: 56457130--56457330 Score: 302
Period size: 108 Copynumber: 1.8 Consensus size: 110
56457120 ATCCTTTTGA
* * *
56457130 AACTTACCATTGCCATGTCTTGACATGGTTTTACATGGTAT-CCTTGCCTTATG-AA-CTCACCA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGAT-TCCCTTGCCTTA-GAAACCTCACCA
56457192 A-TGCCATGCCTCGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
64 ATTGCCATGCCTCGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* *
56457238 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTCCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATTCCCTTGCCTTAGAAACCTCACCAAT
*
56457303 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTCGGCATGGTCTTACATGG
56457331 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
107 2 0.02
108 47 0.57
109 7 0.08
110 27 0.33
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATTCCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTCGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:56463240 original size:43 final size:42
Alignment explanation
Indices: 56463174--56463347 Score: 183
Period size: 43 Copynumber: 4.1 Consensus size: 42
56463164 TACGGGTACA
*
56463174 ATGCCGATGTCCCAGACATGGTCTTACATGTAAT-TCAGTATCG
1 ATGCCTATGTCCCAGACATGGTCTTACATG-AATCTCAG-ATCG
* * *
56463217 ATGCCTCTGTCCCAGACAGGGTCTTACA-GAA-ATCAGATACG
1 ATGCCTATGTCCCAGACATGGTCTTACATGAATCTCAGAT-CG
* *
56463258 ATGCCTATGTCCCAGACATGGTCTTACACTTAAATCTCAAATCG
1 ATGCCTATGTCCCAGACATGGTCTTACA--TGAATCTCAGATCG
* * * *
56463302 AGGCCTGTGTCCCAAACACGGTCTTACATGATATCTCAGATCG
1 ATGCCTATGTCCCAGACATGGTCTTACATGA-ATCTCAGATCG
56463345 ATG
1 ATG
56463348 TTAAAGTTCC
Statistics
Matches: 109, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
40 2 0.02
41 34 0.31
42 3 0.03
43 37 0.34
44 28 0.26
45 5 0.05
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (42 bp):
ATGCCTATGTCCCAGACATGGTCTTACATGAATCTCAGATCG
Found at i:56463272 original size:41 final size:43
Alignment explanation
Indices: 56463174--56463331 Score: 164
Period size: 41 Copynumber: 3.7 Consensus size: 43
56463164 TACGGGTACA
* *
56463174 ATGCCGATGTCCCAGACATGGTCTTACATGTAATTCAGTATCG
1 ATGCCTATGTCCCAGACATGGTCTTACATGTAAATCAGTATCG
* *
56463217 ATGCCTCTGTCCCAGACAGGGTCTTACA-G-AAATCAG-ATACG
1 ATGCCTATGTCCCAGACATGGTCTTACATGTAAATCAGTAT-CG
*
56463258 ATGCCTATGTCCCAGACATGGTCTTACACT-TAAATCTCA-AATCG
1 ATGCCTATGTCCCAGACATGGTCTTACA-TGTAAA--TCAGTATCG
* * * *
56463302 AGGCCTGTGTCCCAAACACGGTCTTACATG
1 ATGCCTATGTCCCAGACATGGTCTTACATG
56463332 ATATCTCAGA
Statistics
Matches: 97, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
40 2 0.02
41 34 0.35
42 1 0.01
43 29 0.30
44 26 0.27
45 5 0.05
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (43 bp):
ATGCCTATGTCCCAGACATGGTCTTACATGTAAATCAGTATCG
Found at i:56472352 original size:35 final size:35
Alignment explanation
Indices: 56472313--56472434 Score: 99
Period size: 35 Copynumber: 3.5 Consensus size: 35
56472303 TCGTAAAAAT
56472313 TTTAGGGATTTTAAGAAGATTTCGGAATGCTAAGA
1 TTTAGGGATTTTAAGAAGATTTCGGAATGCTAAGA
*** * * *
56472348 TTTAGGTAGGGATTCA-AAGATTT---AATTCGTAAAAA
1 TTTAGG--GATTTTAAGAAGATTTCGGAATGC-T-AAGA
56472383 TTTTAGGGATTTTAAGAAGATTTCGGAATGCTAAGA
1 -TTTAGGGATTTTAAGAAGATTTCGGAATGCTAAGA
* *
56472419 TTTAGGTATTTCAAGA
1 TTTAGGGATTTTAAGA
56472435 TTTAAGGATT
Statistics
Matches: 64, Mismatches: 14, Indels: 18
0.67 0.15 0.19
Matches are distributed among these distances:
33 4 0.06
34 5 0.08
35 30 0.47
36 16 0.25
37 5 0.08
38 4 0.06
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.36
Consensus pattern (35 bp):
TTTAGGGATTTTAAGAAGATTTCGGAATGCTAAGA
Found at i:56472364 original size:71 final size:71
Alignment explanation
Indices: 56472283--56472426 Score: 288
Period size: 71 Copynumber: 2.0 Consensus size: 71
56472273 CTAATAGTTT
56472283 TAGGGATTCAAAGATTTAATTCGTAAAAATTTTAGGGATTTTAAGAAGATTTCGGAATGCTAAGA
1 TAGGGATTCAAAGATTTAATTCGTAAAAATTTTAGGGATTTTAAGAAGATTTCGGAATGCTAAGA
56472348 TTTAGG
66 TTTAGG
56472354 TAGGGATTCAAAGATTTAATTCGTAAAAATTTTAGGGATTTTAAGAAGATTTCGGAATGCTAAGA
1 TAGGGATTCAAAGATTTAATTCGTAAAAATTTTAGGGATTTTAAGAAGATTTCGGAATGCTAAGA
56472419 TTTAGG
66 TTTAGG
56472425 TA
1 TA
56472427 TTTCAAGATT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 73 1.00
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.35
Consensus pattern (71 bp):
TAGGGATTCAAAGATTTAATTCGTAAAAATTTTAGGGATTTTAAGAAGATTTCGGAATGCTAAGA
TTTAGG
Found at i:56472388 original size:36 final size:36
Alignment explanation
Indices: 56472283--56472389 Score: 89
Period size: 35 Copynumber: 3.0 Consensus size: 36
56472273 CTAATAGTTT
56472283 TAGGGATTCAAAGATTTAATTCGTAAAAATTTTAGG
1 TAGGGATTCAAAGATTTAATTCGTAAAAATTTTAGG
*** * * *
56472319 --GATTTTAAGAAGATTTCGGAATGC-T-AAGA-TTTAGG
1 TAGGGATTCA-AAGATTT---AATTCGTAAAAATTTTAGG
56472354 TAGGGATTCAAAGATTTAATTCGTAAAAATTTTAGG
1 TAGGGATTCAAAGATTTAATTCGTAAAAATTTTAGG
56472390 GATTTTAAGA
Statistics
Matches: 50, Mismatches: 12, Indels: 18
0.62 0.15 0.22
Matches are distributed among these distances:
33 4 0.08
34 5 0.10
35 16 0.32
36 16 0.32
37 5 0.10
38 4 0.08
ACGTcount: A:0.37, C:0.06, G:0.21, T:0.36
Consensus pattern (36 bp):
TAGGGATTCAAAGATTTAATTCGTAAAAATTTTAGG
Found at i:56475021 original size:18 final size:19
Alignment explanation
Indices: 56474997--56475043 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
56474987 TTATAAAAAC
*
56474997 ATAAAAAATCATT-AAATTT
1 ATAAAAAA-AATTAAAATTT
56475016 ATAAAAAAAATTAAAATTT
1 ATAAAAAAAATTAAAATTT
56475035 ATAAAAAAA
1 ATAAAAAAA
56475044 TATATTAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 3 0.12
19 23 0.88
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
ATAAAAAAAATTAAAATTT
Found at i:56475044 original size:18 final size:17
Alignment explanation
Indices: 56474997--56475044 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 17
56474987 TTATAAAAAC
56474997 ATAAAAAATCATTAAATTT
1 ATAAAAAA--ATTAAATTT
56475016 ATAAAAAAAATTAAAATTT
1 AT-AAAAAAATT-AAATTT
56475035 ATAAAAAAAT
1 ATAAAAAAAT
56475045 ATATTAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 11 0.41
19 10 0.37
20 6 0.22
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAAAAAAATTAAATTT
Found at i:56475071 original size:23 final size:20
Alignment explanation
Indices: 56474999--56475071 Score: 60
Period size: 23 Copynumber: 3.5 Consensus size: 20
56474989 ATAAAAACAT
*
56474999 AAAAAATCATT-AAATTTATA
1 AAAAAAT-ATTAAAATTAATA
*
56475019 AAAAAA-ATTAAAATTTATAA
1 AAAAAATATTAAAATTAAT-A
56475039 AAAAATATATTAGAAATTAATTA
1 AAAAA-ATATTA-AAATTAA-TA
56475062 AAAACAATAT
1 AAAA-AATAT
56475072 AATTTTATAA
Statistics
Matches: 45, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
18 3 0.07
19 8 0.18
20 12 0.27
21 1 0.02
22 4 0.09
23 15 0.33
24 2 0.04
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (20 bp):
AAAAAATATTAAAATTAATA
Found at i:56475303 original size:18 final size:18
Alignment explanation
Indices: 56475241--56475304 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 18
56475231 TTTTATAAAA
*
56475241 TTTTATAAAAGACAATTTAT
1 TTTTATAAAA-A-AATATAT
*
56475261 TTTTATAAAAAAATTATGGT
1 TTTTATAAAAAAA-TAT-AT
56475281 TTTTATAAAAAAATATAT
1 TTTTATAAAAAAATATAT
*
56475299 ATTTAT
1 TTTTAT
56475305 TCACTTTGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
18 8 0.21
19 6 0.16
20 24 0.63
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (18 bp):
TTTTATAAAAAAATATAT
Found at i:56477237 original size:22 final size:22
Alignment explanation
Indices: 56477209--56477265 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
56477199 AATAGTTTGC
56477209 TCAACAGAAAATAACTTACAGG
1 TCAACAGAAAATAACTTACAGG
56477231 TCAACAGAAAATAACTTACAGG
1 TCAACAGAAAATAACTTACAGG
56477253 TCAAC-GTAAAATA
1 TCAACAG-AAAATA
56477266 GGTCATTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 1 0.03
22 33 0.97
ACGTcount: A:0.51, C:0.18, G:0.12, T:0.19
Consensus pattern (22 bp):
TCAACAGAAAATAACTTACAGG
Found at i:56477525 original size:22 final size:22
Alignment explanation
Indices: 56477500--56477543 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
56477490 TAGTCATATA
56477500 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* *
56477522 ATAAATTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
56477544 TATTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:56477570 original size:19 final size:18
Alignment explanation
Indices: 56477546--56477581 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
56477536 TAATAAATTA
*
56477546 TTTAATATTTCAATTTTAT
1 TTTAATAATT-AATTTTAT
56477565 TTTAATAATTAATTTTA
1 TTTAATAATTAATTTTA
56477582 AAAATAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTAATAATTAATTTTAT
Found at i:56477619 original size:14 final size:13
Alignment explanation
Indices: 56477583--56477608 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56477573 TTAATTTTAA
56477583 AAATAATATTTTT
1 AAATAATATTTTT
56477596 AAATAATATTTTT
1 AAATAATATTTTT
56477609 CACATATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
AAATAATATTTTT
Found at i:56477653 original size:15 final size:15
Alignment explanation
Indices: 56477635--56477691 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
56477625 ATTAAATATT
56477635 AATATTTTAATAATA
1 AATATTTTAATAATA
*
56477650 AATATTTATTAGAATTATA
1 AATA-TT-TT--AATAATA
*
56477669 AATATATTAATAATA
1 AATATTTTAATAATA
*
56477684 AATGTTTT
1 AATATTTT
56477692 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:56481891 original size:11 final size:11
Alignment explanation
Indices: 56481877--56481902 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
56481867 AAGAAATGCA
56481877 AAAAGAAAAAG
1 AAAAGAAAAAG
56481888 AAAAGAAAAAG
1 AAAAGAAAAAG
56481899 AAAA
1 AAAA
56481903 ACATATTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:56491258 original size:30 final size:28
Alignment explanation
Indices: 56491217--56491273 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 28
56491207 ACTGCCATGC
* *
56491217 CACACAGGCGTGTGGCCTACCCGTGTGT
1 CACACAGGCGTGTGGACTACCCATGTGT
56491245 CACACACGAGCGTGTGGACTACCCATGTG
1 CACACA-G-GCGTGTGGACTACCCATGTG
56491274 GAAGTGTCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.24
29 1 0.04
30 18 0.72
ACGTcount: A:0.19, C:0.32, G:0.30, T:0.19
Consensus pattern (28 bp):
CACACAGGCGTGTGGACTACCCATGTGT
Found at i:56492669 original size:67 final size:67
Alignment explanation
Indices: 56492580--56492896 Score: 354
Period size: 67 Copynumber: 4.7 Consensus size: 67
56492570 TATTTTTTTT
* * * * *
56492580 CATAACCTAGCTATGGTCTTACATATTATGCCCCATGTTTGTTGTCCT-GACAGATTTCCTTTGT
1 CATAGCCTAGCTATGGTCTTACACATTATACCCCATGTTTATTGTCCTAGA-AGACTTCCTTTGT
56492644 TGC
65 TGC
*
56492647 CATAGCCTAGCTATGGTCTTACACAATATACCCCATGTTTATTGTCCTA-ACAGACTTCCTTTGT
1 CATAGCCTAGCTATGGTCTTACACATTATACCCCATGTTTATTGTCCTAGA-AGACTTCCTTTGT
*
56492711 TGT
65 TGC
* * * * *
56492714 CATAGCCTAGCTATGGTTTTAAACAATT-TACCCTATGTTTATTGTCCTAGAGGAATTCCTTTGT
1 CATAGCCTAGCTATGGTCTTACAC-ATTATACCCCATGTTTATTGTCCTAGAAGACTTCCTTTGT
56492778 TGC
65 TGC
* * * * * * * ** * *
56492781 AATAGCGTAGCTATGGTATTGCAGAGTACACCTTATG-TTATTGTCCTGGAGGACTTCCTTTGTT
1 CATAGCCTAGCTATGGTCTTACACATTATACCCCATGTTTATTGTCCTAGAAGACTTCCTTTGTT
*
56492845 AC
66 GC
*
56492847 CATAGCCTAGCTATGGTCTTACACATCATACCCCATGTTTATTGTCCTAG
1 CATAGCCTAGCTATGGTCTTACACATTATACCCCATGTTTATTGTCCTAG
56492897 CGGACTTCTA
Statistics
Matches: 208, Mismatches: 37, Indels: 10
0.82 0.15 0.04
Matches are distributed among these distances:
66 55 0.26
67 150 0.72
68 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (67 bp):
CATAGCCTAGCTATGGTCTTACACATTATACCCCATGTTTATTGTCCTAGAAGACTTCCTTTGTT
GC
Found at i:56496174 original size:21 final size:22
Alignment explanation
Indices: 56496137--56496187 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
56496127 GGACAAGCCA
*
56496137 CCACATAATTGTCGAT-AACAG
1 CCACATAATCGTCGATAAACAG
*
56496158 CCACATAATCG-CAGATAAACTG
1 CCACATAATCGTC-GATAAACAG
56496180 CCACATAA
1 CCACATAA
56496188 ATTCCACCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 1 0.04
21 13 0.50
22 12 0.46
ACGTcount: A:0.41, C:0.27, G:0.12, T:0.20
Consensus pattern (22 bp):
CCACATAATCGTCGATAAACAG
Found at i:56496316 original size:11 final size:11
Alignment explanation
Indices: 56496300--56496329 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
56496290 ATAATCACAT
56496300 ATCACTTATTG
1 ATCACTTATTG
56496311 ATCACTTA-TG
1 ATCACTTATTG
56496321 ATCACTTAT
1 ATCACTTAT
56496330 AATTACTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (11 bp):
ATCACTTATTG
Found at i:56509074 original size:54 final size:54
Alignment explanation
Indices: 56509009--56509241 Score: 421
Period size: 54 Copynumber: 4.3 Consensus size: 54
56508999 TTAGTTTACC
*
56509009 AAATCACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*
56509063 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*
56509117 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*
56509171 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*
56509225 AAATTACTAAAATACCC
1 AAATTACCAAAATACCC
56509242 TCGACTTGTA
Statistics
Matches: 172, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 172 1.00
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
Found at i:56509242 original size:27 final size:27
Alignment explanation
Indices: 56509009--56509313 Score: 358
Period size: 27 Copynumber: 11.3 Consensus size: 27
56508999 TTAGTTTACC
* * *
56509009 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
56509036 AAATTACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
56509063 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
**
56509090 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
56509117 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
56509144 AAATTACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
56509171 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
56509198 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * **
56509225 AAATTACTAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
*** * ****
56509252 AAATTATTGAAATACACTCAACTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * *
56509279 AAATTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
56509306 GAATTACC
1 AAATTACC
56509314 GTTTTACCCT
Statistics
Matches: 239, Mismatches: 39, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 239 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTGTA
Found at i:56509336 original size:81 final size:82
Alignment explanation
Indices: 56509031--56509348 Score: 232
Period size: 81 Copynumber: 3.9 Consensus size: 82
56509021 TACCCCTAGT
* * * **
56509031 TTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCC-CTAGTTTGTAAAA-T
1 TTGTAAAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCTCGA-CTTACAAAATT
* * * ****
56509094 TACCAAAATACCCTTGGT
65 TATCGAAATACACTCAAC
** * * * * ** *
56509112 TTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAA-TT
1 TTGTAAAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCTCGACTTACAAAATTT
* * * **
56509176 ACCAAAATAC-CCCTAGT
66 ATCGAAATACACTC-AAC
* * * **
56509193 TTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCTCGACTTGTAAAA-TT
1 TTGTAAAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCTCGACTTACAAAATTT
*
56509257 ATTGAAATACACTCAAC
66 ATCGAAATACACTCAAC
* * **** *
56509274 TTGTAAAATTACCAAAGTACCCTTGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTT
1 TTGTAAAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCTCGACTTACAAAATTT
56509339 ATCGAAATAC
66 ATCGAAATAC
56509349 CCTTGTAGGG
Statistics
Matches: 195, Mismatches: 38, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
80 1 0.01
81 181 0.93
82 13 0.07
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (82 bp):
TTGTAAAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCTCGACTTACAAAATTT
ATCGAAATACACTCAAC
Found at i:56509373 original size:27 final size:27
Alignment explanation
Indices: 56509341--56509472 Score: 185
Period size: 27 Copynumber: 4.9 Consensus size: 27
56509331 CAAAATTTAT
*
56509341 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAAATAC
56509368 CGAAATACCCCTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAAATAC
*
56509395 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAAATAC
* * * *
56509422 TGAAATACTCCTGTAAGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAAATAC
* *
56509449 CGAGATACCCTTGTAGGGTA-AAAT
1 CGAAATACCCCTGTAGGGTAGAAAT
56509473 TACCATTTAC
Statistics
Matches: 94, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 3 0.03
27 91 0.97
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAAATAC
Found at i:56509809 original size:67 final size:67
Alignment explanation
Indices: 56509701--56509876 Score: 307
Period size: 67 Copynumber: 2.6 Consensus size: 67
56509691 GAGGAAGCGT
* *
56509701 TCTGGCAGCCTCACTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTTGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
56509766 TA
66 TA
56509768 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
56509833 TA
66 TA
* * *
56509835 TCTGGAAGCCTCGCTGTAATCTGGTGGCTTCGCCACATATAT
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATAT
56509877 ATTTGTTCTG
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 104 1.00
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.31
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
TA
Found at i:56509831 original size:27 final size:26
Alignment explanation
Indices: 56509787--56509838 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
56509777 CTCGCTGCAA
*
56509787 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
56509814 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
56509839 GAAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:56510062 original size:6 final size:6
Alignment explanation
Indices: 56510053--56510239 Score: 116
Period size: 6 Copynumber: 30.3 Consensus size: 6
56510043 TTGCATTCAT
* *
56510053 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * *
56510103 ATTCTG GTTCTG GTTCTG ATTCTG ATTCTG -TTACTTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG
* * * * *
56510152 ATTCTG -TTACCTA ATTCTG ATTCTA AATCTG ATTTTG ATTCTG -TCACCTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
56510202 ATTCTG ATTCTA ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
56510240 AATGTTTCTT
Statistics
Matches: 141, Mismatches: 23, Indels: 34
0.71 0.12 0.17
Matches are distributed among these distances:
5 10 0.07
6 110 0.78
7 14 0.10
8 7 0.05
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:56510084 original size:19 final size:19
Alignment explanation
Indices: 56510081--56510212 Score: 108
Period size: 19 Copynumber: 6.7 Consensus size: 19
56510071 TTACCTGATA
56510081 CTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTTAC
* *
56510100 CTAATTCTGGTTCTGGTT--
1 CTGATTCTGATTCT-GTTAC
56510118 CTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTTAC
56510137 TTGATACTGATTCTGATTCTGTTAC
1 ------CTGATTCTGATTCTGTTAC
* ** *
56510162 CTAATTCTGATTCT-AAAT
1 CTGATTCTGATTCTGTTAC
* *
56510180 CTGATTTTGATTCTGTCAC
1 CTGATTCTGATTCTGTTAC
56510199 CTGATTCTGATTCT
1 CTGATTCTGATTCT
56510213 AATTCTCATT
Statistics
Matches: 89, Mismatches: 14, Indels: 20
0.72 0.11 0.16
Matches are distributed among these distances:
17 3 0.03
18 25 0.28
19 39 0.44
20 3 0.03
25 19 0.21
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (19 bp):
CTGATTCTGATTCTGTTAC
Found at i:56510084 original size:25 final size:25
Alignment explanation
Indices: 56510056--56510120 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
56510046 CATTCATATT
*
56510056 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTAATA
*
56510081 CTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTGATTCTGTTACCTAATA
* *
56510106 CTGGTTCTGGTTCTG
1 CTGATTCTGATTCTG
56510121 ATTCTGATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTAATA
Found at i:56510151 original size:37 final size:37
Alignment explanation
Indices: 56510075--56510157 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 37
56510065 ATTCTGTTAC
* * *
56510075 CTGATACTGATTCTGATTCTGTTACCTAATTCTGGTT
1 CTGATTCTGATTCTGATTCTGTTACCTAATACTGATT
* * *
56510112 CTGGTTCTGATTCTGATTCTGTTACTTGATACTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATACTGATT
56510149 CTGATTCTG
1 CTGATTCTG
56510158 TTACCTAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.17, C:0.18, G:0.18, T:0.47
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTTACCTAATACTGATT
Found at i:56510151 original size:62 final size:62
Alignment explanation
Indices: 56510053--56510218 Score: 251
Period size: 62 Copynumber: 2.7 Consensus size: 62
56510043 TTGCATTCAT
* *
56510053 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGGTTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTA
* *
56510115 GTTCTGATTCTGATTCTGTTACTTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTA
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTA
* * * * *
56510177 AATCTGATTTTGATTCTGTCACCTGATTCTGATTCTAATTCT
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCT
56510219 CATTTTGATT
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 93 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (62 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTA
Found at i:56510182 original size:25 final size:25
Alignment explanation
Indices: 56510116--56510175 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
56510106 CTGGTTCTGG
* *
56510116 TTCTGATTCTGATTCTGTTACTTGA
1 TTCTGATTCTGATTCTGTTACCTAA
*
56510141 TACTGATTCTGATTCTGTTACCTAA
1 TTCTGATTCTGATTCTGTTACCTAA
56510166 TTCTGATTCT
1 TTCTGATTCT
56510176 AAATCTGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.18, C:0.18, G:0.13, T:0.50
Consensus pattern (25 bp):
TTCTGATTCTGATTCTGTTACCTAA
Found at i:56510184 original size:37 final size:37
Alignment explanation
Indices: 56510143--56510230 Score: 131
Period size: 37 Copynumber: 2.4 Consensus size: 37
56510133 TTACTTGATA
* *
56510143 CTGATTCTGATTCTGTTACCTAATTCTGATTCTAAAT
1 CTGATTTTGATTCTGTCACCTAATTCTGATTCTAAAT
* *
56510180 CTGATTTTGATTCTGTCACCTGATTCTGATTCTAATT
1 CTGATTTTGATTCTGTCACCTAATTCTGATTCTAAAT
*
56510217 CTCATTTTGATTCT
1 CTGATTTTGATTCT
56510231 AGTTCTGATA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.20, C:0.19, G:0.11, T:0.49
Consensus pattern (37 bp):
CTGATTTTGATTCTGTCACCTAATTCTGATTCTAAAT
Found at i:56517490 original size:591 final size:591
Alignment explanation
Indices: 56516369--56518131 Score: 3247
Period size: 591 Copynumber: 3.0 Consensus size: 591
56516359 CTGGAAAAAG
56516369 GCTTCTTTGGCTCTCCTCCCTGACTACCCAATATGGGTCTCGACTTAGACTGCGCTACTCCATGA
1 GCTTCTTTGGCTCTCCTCCCTGACTACCCAATATGGGTCTCGACTTAGACTGCGCTACTCCATGA
* *
56516434 ATGGAGGCTGGCGCATTACTTTCAACATCATCAGTTACAGCTCGATTGGGATCCATTAACAATAT
66 ATGGAGGCTGGCGCATTACTTTCAACATCATCAGTTACAGCTCGATTGGGATCCATTTACTATAT
* *
56516499 GAAAACATGATTTAAAACTGTTAGGAGATATCAAACTATAACAGGTTATATATGGAATGTATACC
131 GAAAACATGATTTAAAACTGTCAGGAGATATCACACTATAACAGGTTATATATGGAATGTATACC
* * *
56516564 TAGACTTTCACACATGCTACATTAGTCCTAGAATCGACTAAACCGCATCTCTGATACCAATAAAT
196 TAGACTTTCACACATGCTACATTAGTCCTAGAATCGACTAAACCACATCTCTAATACCAAAAAAT
56516629 GTAACACCCCTCACCCGTATTCAACACCGAAATAGGGTTACGAAACATTACCTGACTTATTACAC
261 GTAACACCCCTCACCCGTATTCAACACCGAAATAGGGTTACGAAACATTACCTGACTTATTACAC
*
56516694 AATTAAAACATACATTTCACATACATTTTCGAATTTCATGCAATCATCATTCAAAATTATTCACA
326 AATTAAAACATACATTTCACATACATTTTCAAATTTCATGCAATCATCATTCAAAATTATTCACA
*
56516759 TTGTCCCTAAAACGAGGCTCAAAACATGCTTTAGGAATGGTTCGGGACTAAACCAAGTACTCAAG
391 TTGTCCCTAAAACGAGGCTCAAAACATGCTTTAGGAATGGTTCGGGACTAAACCAAGTACTCAGG
*
56516824 ACAATTTCAAAAAACTTAGAAAATTTTTCAAAATACAAGGGACACACACCCGTATGGCCTGACCA
456 ACAATTTCAAAAAACTTAGAAAATTTTTCAAAATACAAGGGACACACACCCGTATGGCCTGGCCA
56516889 TGTGTCTCACACGGCCAAAGACACGCCTGTGTCACAGGCCTTGTGGACATTCAAAATGGGAGGCT
521 TGTGTCTCACACGGCCAAAGACACGCCTGTGTCACAGGCCTTGTGGACATTCAAAATGGGAGGCT
56516954 TCTTTA
586 TCTTTA
*
56516960 GCTTCTTTGGCTCTCCTCCCTGACTACCCAATATGGATCTCGACTTAGACTGCGCTACTCCATGA
1 GCTTCTTTGGCTCTCCTCCCTGACTACCCAATATGGGTCTCGACTTAGACTGCGCTACTCCATGA
*
56517025 ATGGAGGCTGGTGCATTACTTTCAACATCATCAGTTACAGCTCGATTGGGATCCATTTACTATAT
66 ATGGAGGCTGGCGCATTACTTTCAACATCATCAGTTACAGCTCGATTGGGATCCATTTACTATAT
*
56517090 GAAAACATGATTTAAAACTGTCAAGAGATATCACACTATAACAGGTTATATATGGAATGTATACC
131 GAAAACATGATTTAAAACTGTCAGGAGATATCACACTATAACAGGTTATATATGGAATGTATACC
56517155 TAGACTTTCACACATGCTACATTAGTCCTAGAATCGACTAAACCACATCTCTAATACCAAAAAAT
196 TAGACTTTCACACATGCTACATTAGTCCTAGAATCGACTAAACCACATCTCTAATACCAAAAAAT
*
56517220 GTAACACCCCTCACCCGTATTCAACACTGAAATAGGGTTACGAAACATTACCTGACTTATTACAC
261 GTAACACCCCTCACCCGTATTCAACACCGAAATAGGGTTACGAAACATTACCTGACTTATTACAC
*
56517285 AATTAAAACATACATTTCACATACATTTTCAAATTTCATTCAATCATCATTCAAAATTATTCACA
326 AATTAAAACATACATTTCACATACATTTTCAAATTTCATGCAATCATCATTCAAAATTATTCACA
*
56517350 TTTTCCCTAAAACGAGGCTCAAAACATGCTTTAGGAATGGTTCGGGACTAAACCAAGTACTCAGG
391 TTGTCCCTAAAACGAGGCTCAAAACATGCTTTAGGAATGGTTCGGGACTAAACCAAGTACTCAGG
* * **
56517415 AAAATTTCAAAAAACTTAAAAAAAATTTCAAAATACAAGGGACACACACCCGTATGGCCTGGCCA
456 ACAATTTCAAAAAACTTAGAAAATTTTTCAAAATACAAGGGACACACACCCGTATGGCCTGGCCA
*
56517480 TGTGTCTCACACGGCCAAAGACACGCCTGTGTCACAGGTCTTGTGGACATTCAAAATGGGAGGCT
521 TGTGTCTCACACGGCCAAAGACACGCCTGTGTCACAGGCCTTGTGGACATTCAAAATGGGAGGCT
*
56517545 TCTTTG
586 TCTTTA
56517551 GCTTCTTTGGCTCTCCTCCCTGACTACCCAATATGGGTCTCGACTTAGACTGCGCTACTCCATGA
1 GCTTCTTTGGCTCTCCTCCCTGACTACCCAATATGGGTCTCGACTTAGACTGCGCTACTCCATGA
*
56517616 ATGGAGGCTGGCGCATTACTTTCAACATCATCAGTTACAGCTCGATTTGGATCCATTTACTATAT
66 ATGGAGGCTGGCGCATTACTTTCAACATCATCAGTTACAGCTCGATTGGGATCCATTTACTATAT
56517681 GAAAACATGATTTAAAACTGTCAGGAGATATCACACTATAACAGGTTATATATGGAATGTATACC
131 GAAAACATGATTTAAAACTGTCAGGAGATATCACACTATAACAGGTTATATATGGAATGTATACC
*
56517746 TAGGCTTTCACACATGCTACATTAGTCCTAGAATCGACTAAACCACATCTCTAATACCAAAAAAT
196 TAGACTTTCACACATGCTACATTAGTCCTAGAATCGACTAAACCACATCTCTAATACCAAAAAAT
* * *
56517811 GTAACACCCCTTACCCATATTCAACACCGAAATAGGGTTACGAAACATTACCTGACTTACTACAC
261 GTAACACCCCTCACCCGTATTCAACACCGAAATAGGGTTACGAAACATTACCTGACTTATTACAC
*
56517876 AATTAAAACATACATTTCACATACATTTTCAAATTTCATGCAATCATTATTCAAAATTATTCACA
326 AATTAAAACATACATTTCACATACATTTTCAAATTTCATGCAATCATCATTCAAAATTATTCACA
56517941 TTGTCCCTAAAACGAGGCTCAAAACATGCTTTAGGAATGGTTCGGGACTAAACCAAGTACTCAGG
391 TTGTCCCTAAAACGAGGCTCAAAACATGCTTTAGGAATGGTTCGGGACTAAACCAAGTACTCAGG
* *
56518006 ACAATTTCAGAAAACTTAGAAAATTTTTCAAAATACAAGGGACACACACCCGTATGGCCTAGCCA
456 ACAATTTCAAAAAACTTAGAAAATTTTTCAAAATACAAGGGACACACACCCGTATGGCCTGGCCA
*
56518071 TGTGTCTCACACGGCCAAAGACACGCCTGTGTCATAGGCCTTGTGGACATTCAAAATGGGA
521 TGTGTCTCACACGGCCAAAGACACGCCTGTGTCACAGGCCTTGTGGACATTCAAAATGGGA
56518132 TCACATGGTT
Statistics
Matches: 1130, Mismatches: 42, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
591 1130 1.00
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (591 bp):
GCTTCTTTGGCTCTCCTCCCTGACTACCCAATATGGGTCTCGACTTAGACTGCGCTACTCCATGA
ATGGAGGCTGGCGCATTACTTTCAACATCATCAGTTACAGCTCGATTGGGATCCATTTACTATAT
GAAAACATGATTTAAAACTGTCAGGAGATATCACACTATAACAGGTTATATATGGAATGTATACC
TAGACTTTCACACATGCTACATTAGTCCTAGAATCGACTAAACCACATCTCTAATACCAAAAAAT
GTAACACCCCTCACCCGTATTCAACACCGAAATAGGGTTACGAAACATTACCTGACTTATTACAC
AATTAAAACATACATTTCACATACATTTTCAAATTTCATGCAATCATCATTCAAAATTATTCACA
TTGTCCCTAAAACGAGGCTCAAAACATGCTTTAGGAATGGTTCGGGACTAAACCAAGTACTCAGG
ACAATTTCAAAAAACTTAGAAAATTTTTCAAAATACAAGGGACACACACCCGTATGGCCTGGCCA
TGTGTCTCACACGGCCAAAGACACGCCTGTGTCACAGGCCTTGTGGACATTCAAAATGGGAGGCT
TCTTTA
Found at i:56522170 original size:117 final size:117
Alignment explanation
Indices: 56521960--56522181 Score: 315
Period size: 117 Copynumber: 1.9 Consensus size: 117
56521950 AAAGCTTTCT
* *
56521960 ATTTCTACATCACTACTAACATTTCAGGTGCTAAATAACATATAAATAAGTATATTTATACAAAT
1 ATTTCTACATCACTACTAACATTTCAGGTACTAAATAACATATAAATAAGCATATTTATACAAAT
* *
56522025 TAATGTCCTAAGTACATGCCACAATATATGAATACACAAACTCTAGCCTTCA
66 TAATGACCTAAGTACATGCCACAATATATAAATACACAAACTCTAGCCTTCA
* * * * *
56522077 ATTTCTACATTA-TCACTAACATTTTAGGTACTAACTAACATATGAATAAGCATATTTATACAAG
1 ATTTCTACATCACT-ACTAACATTTCAGGTACTAAATAACATATAAATAAGCATATTTATACAAA
56522141 TT-ATGGACCTAAGTACATGCCA-AACTATATAAATACACAAA
65 TTAAT-GACCTAAGTACATGCCACAA-TATATAAATACACAAA
56522182 TTCCATACTC
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
116 5 0.05
117 88 0.95
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (117 bp):
ATTTCTACATCACTACTAACATTTCAGGTACTAAATAACATATAAATAAGCATATTTATACAAAT
TAATGACCTAAGTACATGCCACAATATATAAATACACAAACTCTAGCCTTCA
Found at i:56526753 original size:39 final size:39
Alignment explanation
Indices: 56526708--56526787 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 39
56526698 TTATAATTAT
56526708 TACTAAAA-TTCTTATTAGAAACTCAATTTTATAACAAAA
1 TACTAAAATTTC-TATTAGAAACTCAATTTTATAACAAAA
* * * *
56526747 TACTAAAATTTCTATTGGAAATTCAATTTTGTAACTAAA
1 TACTAAAATTTCTATTAGAAACTCAATTTTATAACAAAA
56526786 TA
1 TA
56526788 TTTTGTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
39 33 0.92
40 3 0.08
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (39 bp):
TACTAAAATTTCTATTAGAAACTCAATTTTATAACAAAA
Found at i:56526820 original size:14 final size:14
Alignment explanation
Indices: 56526801--56526842 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
56526791 TGTAAAAAAC
56526801 ATTAAAAAATATTA
1 ATTAAAAAATATTA
*
56526815 ATTAAAAATTA-TA
1 ATTAAAAAATATTA
*
56526828 ATTCCAAAAATATTA
1 ATT-AAAAAATATTA
56526843 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 5 0.22
14 16 0.70
15 2 0.09
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (14 bp):
ATTAAAAAATATTA
Found at i:56526863 original size:16 final size:16
Alignment explanation
Indices: 56526842--56526872 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
56526832 CAAAAATATT
56526842 ATTTTTTATTTTTATG
1 ATTTTTTATTTTTATG
56526858 ATTTTTTATTTTTAT
1 ATTTTTTATTTTTAT
56526873 ATAAATAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (16 bp):
ATTTTTTATTTTTATG
Found at i:56527097 original size:20 final size:20
Alignment explanation
Indices: 56527038--56527097 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
56527028 TACAAAGTTG
*
56527038 AGTTTCCAATAAAAATTTCA
1 AGTTTCCAATAAAAATTTTA
** * *
56527058 A-TATTTGATTAAAAA-ATTA
1 AGT-TTCCAATAAAAATTTTA
56527077 AGTTTCCAATAAAAATTTTA
1 AGTTTCCAATAAAAATTTTA
56527097 A
1 A
56527098 TAATAATTAT
Statistics
Matches: 28, Mismatches: 9, Indels: 6
0.65 0.21 0.14
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.38
Consensus pattern (20 bp):
AGTTTCCAATAAAAATTTTA
Found at i:56527373 original size:18 final size:18
Alignment explanation
Indices: 56527350--56527389 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
56527340 AAAAAATATA
56527350 TTTTATAATGT-TTATGAT
1 TTTTATAAT-TATTATGAT
56527368 TTTTATAATTATTATGAT
1 TTTTATAATTATTATGAT
56527386 TTTT
1 TTTT
56527390 CAACATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (18 bp):
TTTTATAATTATTATGAT
Found at i:56530189 original size:42 final size:42
Alignment explanation
Indices: 56530112--56530191 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
56530102 TGCAAGGGAC
56530112 ACACGGCTAGATCACACGCCCATGTGCTATGCCGTGTGACAT
1 ACACGGCTAGATCACACGCCCATGTGCTATGCCGTGTGACAT
* * *
56530154 ACACGGCTGAGA-CACATGCCCGTGT-CTCTGCCCGTGTG
1 ACACGGCT-AGATCACACGCCCATGTGCTATG-CCGTGTG
56530192 GGCAAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
41 4 0.12
42 26 0.79
43 3 0.09
ACGTcount: A:0.20, C:0.33, G:0.26, T:0.21
Consensus pattern (42 bp):
ACACGGCTAGATCACACGCCCATGTGCTATGCCGTGTGACAT
Found at i:56539564 original size:28 final size:28
Alignment explanation
Indices: 56539503--56539564 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
56539493 TCAGTGTACG
* ** *
56539503 AAATATTGGGAATGGGACTTAATGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
56539531 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
56539559 AAATAT
1 AAATAT
56539565 CGAATGATTC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.37, C:0.08, G:0.26, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:56541591 original size:29 final size:29
Alignment explanation
Indices: 56541559--56541774 Score: 224
Period size: 29 Copynumber: 7.6 Consensus size: 29
56541549 TCGTAACCGA
56541559 GCACTGTGTGTGCGAGATCGGTTGTTGAG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* * ** *
56541588 GCACTGTGTGTGCAAGTTTC-GTAATCGA-
1 GCACTGTGTGTGCGAG-ATCGGTTGTTGAG
56541616 GCACTGTGTGTGCGAGATCGGTTGTTGAG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* * **** *
56541645 GCACTGTGTGTGCGAGTTCCG-TAACCAA
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* *
56541673 GCACTGTATGTGCGAGATCGGCTGTTGAG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* * ** *
56541702 GCACTGTGTGTGCGAGTTCTGTAATAGA-
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
56541730 GCACTGTGTGTGCGAGATCGGTTGTTGAG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
56541759 GCACTGTGTGTGCGAG
1 GCACTGTGTGTGCGAG
56541775 TTCTATAACC
Statistics
Matches: 145, Mismatches: 37, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
27 2 0.01
28 63 0.43
29 78 0.54
30 2 0.01
ACGTcount: A:0.17, C:0.17, G:0.37, T:0.30
Consensus pattern (29 bp):
GCACTGTGTGTGCGAGATCGGTTGTTGAG
Found at i:56541619 original size:57 final size:56
Alignment explanation
Indices: 56541530--56541829 Score: 438
Period size: 57 Copynumber: 5.2 Consensus size: 56
56541520 ATGTGAACAT
*
56541530 AGGCACTGTGTGTGTGAGTTCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
* *
56541586 AGGCACTGTGTGTGCAAGTTTCGTAATCGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAG-TTCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
* * *
56541643 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTATGTGCGAGATCGGCTGTTG
1 AGGCACTGTGTGTGCGAGTT-CGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
**
56541700 AGGCACTGTGTGTGCGAGTTCTGTAATAGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTC-GTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
* * *
56541757 AGGCACTGTGTGTGCGAGTTCTATAACCAAGCACTGTGTGTGCAAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTC-GTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
*
56541814 GGGCACTAAGTGTGTG
1 AGGCACT--GTGTGTG
56541830 AAATGAGATC
Statistics
Matches: 220, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
56 19 0.09
57 194 0.88
59 7 0.03
ACGTcount: A:0.18, C:0.17, G:0.35, T:0.30
Consensus pattern (56 bp):
AGGCACTGTGTGTGCGAGTTCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
Found at i:56546152 original size:28 final size:28
Alignment explanation
Indices: 56546112--56546190 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
56546102 GCAATCAAAT
* * * *
56546112 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTAAGA
*
56546140 ATGGCACTTAGTGTGCGAGATATTAAGA
1 ATGGCACTTAGTGTGCGAAATATTAAGA
* *
56546168 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
56546191 CGAATGATTC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTAAGA
Found at i:56550869 original size:40 final size:40
Alignment explanation
Indices: 56550814--56550919 Score: 169
Period size: 40 Copynumber: 2.6 Consensus size: 40
56550804 TAAATGTGAT
56550814 AGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGA
1 AGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGA
*
56550854 AGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGA
1 AGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGA
* *
56550894 AGGCATTTGAGCAAG-TAGCTATATCC
1 AGGCATTTGTGCGAGTTA-CTATATCC
56550920 AGCTAAATTC
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
39 2 0.03
40 59 0.97
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
AGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGA
Found at i:56561809 original size:19 final size:19
Alignment explanation
Indices: 56561777--56561815 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
56561767 CATATGAACC
*
56561777 TATAATTAACAAATAAATA
1 TATAAATAACAAATAAATA
*
56561796 TATAAATAATAAATAAATA
1 TATAAATAACAAATAAATA
56561815 T
1 T
56561816 TACCTTGCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
TATAAATAACAAATAAATA
Found at i:56563900 original size:20 final size:20
Alignment explanation
Indices: 56563877--56563917 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
56563867 AAAAACACGT
56563877 AGAAGAAATGAATAAAATCC
1 AGAAGAAATGAATAAAATCC
56563897 AGAAGAAATGAATAAAATCC
1 AGAAGAAATGAATAAAATCC
56563917 A
1 A
56563918 AAATTCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.15
Consensus pattern (20 bp):
AGAAGAAATGAATAAAATCC
Found at i:56564413 original size:41 final size:41
Alignment explanation
Indices: 56564368--56564452 Score: 118
Period size: 41 Copynumber: 2.1 Consensus size: 41
56564358 AAAACACCGT
* *
56564368 TATTGCTTTACCTTTTGCAG-CGTTTATGGGAAAAATGCCAC
1 TATTGCTTTACCTTTTGCAGTC-TTTATAGGAAAAACGCCAC
* *
56564409 TATTGCTTTACCTTTTGCGGTCTTTGTAGGAAAAACGCCAC
1 TATTGCTTTACCTTTTGCAGTCTTTATAGGAAAAACGCCAC
56564450 TAT
1 TAT
56564453 AGAATGACTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 38 0.97
42 1 0.03
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.38
Consensus pattern (41 bp):
TATTGCTTTACCTTTTGCAGTCTTTATAGGAAAAACGCCAC
Found at i:56568301 original size:40 final size:40
Alignment explanation
Indices: 56568257--56568336 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
56568247 AGGTTGAGCC
56568257 AGTTTTTGGTATAATATACTATCTTATGAAGTTTTGGAAG
1 AGTTTTTGGTATAATATACTATCTTATGAAGTTTTGGAAG
* *
56568297 AGTTTTTGGTATAATATGCTATCTTGTGAAGTTTTGGAAG
1 AGTTTTTGGTATAATATACTATCTTATGAAGTTTTGGAAG
56568337 TTAGAATTGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.45
Consensus pattern (40 bp):
AGTTTTTGGTATAATATACTATCTTATGAAGTTTTGGAAG
Found at i:56568512 original size:8 final size:8
Alignment explanation
Indices: 56568499--56568523 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
56568489 TATGTTTGAA
56568499 TGAAATGG
1 TGAAATGG
56568507 TGAAATGG
1 TGAAATGG
56568515 TGAAATGG
1 TGAAATGG
56568523 T
1 T
56568524 AGTAATATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.28
Consensus pattern (8 bp):
TGAAATGG
Found at i:56573748 original size:17 final size:17
Alignment explanation
Indices: 56573723--56573757 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
56573713 TTTAACAATT
* *
56573723 AAAATATTACAATAATA
1 AAAAAATTAAAATAATA
56573740 AAAAAATTAAAATAATA
1 AAAAAATTAAAATAATA
56573757 A
1 A
56573758 TTAATAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAAATTAAAATAATA
Found at i:56573753 original size:25 final size:25
Alignment explanation
Indices: 56573719--56573785 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
56573709 TTTATTTAAC
56573719 AATTAAAATATTACAATAATAAA-AA
1 AATTAAAATATTA-AATAATAAATAA
* * *
56573744 AATTAAAATAATAATTAATAAATAG
1 AATTAAAATATTAAATAATAAATAA
*
56573769 AATTAACATATATAAAT
1 AATTAAAATAT-TAAAT
56573786 TATTTTGATA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
24 8 0.24
25 22 0.65
26 4 0.12
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (25 bp):
AATTAAAATATTAAATAATAAATAA
Done.