Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 161 of 198
Found at i:50780505 original size:16 final size:16
Alignment explanation
Indices: 50780474--50780510 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
50780464 ATGTGAAGAA
50780474 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
50780490 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
50780506 TATTA
1 TATTA
50780511 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:50785342 original size:20 final size:22
Alignment explanation
Indices: 50785302--50785343 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
50785292 CATTATGTAC
*
50785302 CCACGTGGCCTCTTACTTTATT
1 CCACGTGGCATCTTACTTTATT
50785324 CCACGTGGCAT-TT-CTTTATT
1 CCACGTGGCATCTTACTTTATT
50785344 TTTAATGCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 2 0.11
22 10 0.53
ACGTcount: A:0.14, C:0.29, G:0.14, T:0.43
Consensus pattern (22 bp):
CCACGTGGCATCTTACTTTATT
Found at i:50786275 original size:20 final size:19
Alignment explanation
Indices: 50786250--50786287 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
50786240 CAAATTTTTT
*
50786250 AAAATTTTAAATATTTATAA
1 AAAATTTCAAA-ATTTATAA
50786270 AAAATTTCAAAATTTATA
1 AAAATTTCAAAATTTATA
50786288 TACAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATTTCAAAATTTATAA
Found at i:50789724 original size:9 final size:8
Alignment explanation
Indices: 50789701--50789751 Score: 57
Period size: 9 Copynumber: 6.0 Consensus size: 8
50789691 TTTTATATTA
50789701 ATTATAAAT
1 ATTAT-AAT
*
50789710 GTTATAAT
1 ATTATAAT
50789718 ATATATAAT
1 AT-TATAAT
*
50789727 ATATATTAT
1 AT-TATAAT
50789736 ATTATAAT
1 ATTATAAT
50789744 ATTATAAT
1 ATTATAAT
50789752 TAAACTAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
8 17 0.46
9 20 0.54
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (8 bp):
ATTATAAT
Found at i:50789732 original size:34 final size:35
Alignment explanation
Indices: 50789671--50789751 Score: 94
Period size: 34 Copynumber: 2.3 Consensus size: 35
50789661 AGTGGATGGC
* *
50789671 ATGTGTATAATATATATAGTTTTTATATTA-ATTATAA
1 ATGT-TATAATATATATAG-ATATATATTATATTAT-A
50789708 ATGTTATAATATATATA-ATATATATTATATTATA
1 ATGTTATAATATATATAGATATATATTATATTATA
*
50789742 ATATTATAAT
1 ATGTTATAAT
50789752 TAAACTAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
34 18 0.45
35 5 0.12
36 13 0.32
37 4 0.10
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (35 bp):
ATGTTATAATATATATAGATATATATTATATTATA
Found at i:50789749 original size:18 final size:18
Alignment explanation
Indices: 50789693--50789749 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
50789683 TATATAGTTT
*
50789693 TTATATTA-ATTATAAATG
1 TTATATTATATTAT-AATA
*
50789711 TTATAATATA-TATAATA
1 TTATATTATATTATAATA
50789728 -TATATTATATTATAATA
1 TTATATTATATTATAATA
50789745 TTATA
1 TTATA
50789750 ATTAAACTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 8 0.24
17 10 0.30
18 14 0.42
19 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TTATATTATATTATAATA
Found at i:50789761 original size:34 final size:34
Alignment explanation
Indices: 50789694--50789761 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
50789684 ATATAGTTTT
* *
50789694 TATATTAATTATAAATGTTATAATATATATAATA
1 TATATTAATTATAAATATTATAATATAAATAATA
50789728 TATATTATATTAT-AATATTATAAT-TAAACTAATA
1 TATATTA-ATTATAAATATTATAATATAAA-TAATA
50789762 AAGACCACCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 3 0.10
34 22 0.73
35 5 0.17
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (34 bp):
TATATTAATTATAAATATTATAATATAAATAATA
Found at i:50792708 original size:28 final size:28
Alignment explanation
Indices: 50792668--50792724 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
50792658 TGTATCCATG
50792668 TAAACCTTCTTCAAACACAGTAAAGTGC
1 TAAACCTTCTTCAAACACAGTAAAGTGC
50792696 TAAACCTTCTTCAAACACAGTAAAGTGC
1 TAAACCTTCTTCAAACACAGTAAAGTGC
50792724 T
1 T
50792725 TCAGCTGCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.25, G:0.11, T:0.26
Consensus pattern (28 bp):
TAAACCTTCTTCAAACACAGTAAAGTGC
Found at i:50794990 original size:27 final size:27
Alignment explanation
Indices: 50794951--50795017 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
50794941 TTCATGATTT
* *
50794951 TACATTTTAGTGCCTCCTATTTTGTTA
1 TACACTTTGGTGCCTCCTATTTTGTTA
* * *
50794978 TGCTCTTTGGTGCCTCTTATTTTGTTA
1 TACACTTTGGTGCCTCCTATTTTGTTA
50795005 TACACTTTGGTGC
1 TACACTTTGGTGC
50795018 TCGTGTTTTC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.13, C:0.19, G:0.16, T:0.51
Consensus pattern (27 bp):
TACACTTTGGTGCCTCCTATTTTGTTA
Found at i:50796018 original size:16 final size:17
Alignment explanation
Indices: 50795997--50796030 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
50795987 ACATAATTAT
*
50795997 TAGTAA-AAGGTTAATA
1 TAGTAATAAGGTAAATA
50796013 TAGTAATAAGGTAAATA
1 TAGTAATAAGGTAAATA
50796030 T
1 T
50796031 TAAATTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (17 bp):
TAGTAATAAGGTAAATA
Found at i:50796969 original size:42 final size:42
Alignment explanation
Indices: 50796913--50797012 Score: 155
Period size: 42 Copynumber: 2.4 Consensus size: 42
50796903 CTATATGAAC
* **
50796913 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAATG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGAATAACA
*
50796955 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACA
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGAATAACA
*
50796997 AGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
50797013 TACCGAGAGC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGAATAACA
Found at i:50802159 original size:58 final size:57
Alignment explanation
Indices: 50802070--50802178 Score: 164
Period size: 58 Copynumber: 1.9 Consensus size: 57
50802060 CTCAATTATG
*
50802070 TTTTTTTTGTCACTTAATTATAAAAAATTACAAAATAGTCACCCAACTATTAATAAT
1 TTTTTTTTGTCACCTAATTATAAAAAATTACAAAATAGTCACCCAACTATTAATAAT
* * * *
50802127 TTTTTTTTGGTCACCTAATTATAAAAAGTTACAAAATTGTCACTCAATTATT
1 TTTTTTTT-GTCACCTAATTATAAAAAATTACAAAATAGTCACCCAACTATT
50802179 CAATTTTGTC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 8 0.17
58 38 0.83
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.42
Consensus pattern (57 bp):
TTTTTTTTGTCACCTAATTATAAAAAATTACAAAATAGTCACCCAACTATTAATAAT
Found at i:50806592 original size:26 final size:26
Alignment explanation
Indices: 50806556--50806608 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
50806546 CGAACAAAGG
50806556 ATGTCTCTTTTTCCAACTTTACAGAT
1 ATGTCTCTTTTTCCAACTTTACAGAT
50806582 ATGTCTCTTTTTCCAACTTTACAGAT
1 ATGTCTCTTTTTCCAACTTTACAGAT
50806608 A
1 A
50806609 GAAAAGCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.25, C:0.23, G:0.08, T:0.45
Consensus pattern (26 bp):
ATGTCTCTTTTTCCAACTTTACAGAT
Found at i:50810285 original size:3 final size:3
Alignment explanation
Indices: 50810277--50810317 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
50810267 ATCCTCATCT
* *
50810277 TCC TCC TCC TCC TCT TCT TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
50810318 TTCTTGTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (3 bp):
TCC
Found at i:50810295 original size:18 final size:18
Alignment explanation
Indices: 50810268--50810308 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
50810258 TTTCATTTCA
50810268 TCCTCATCTTCCTCCTCC
1 TCCTCATCTTCCTCCTCC
*
50810286 TCCTCTTCTTCCTCCTCC
1 TCCTCATCTTCCTCCTCC
50810304 TCCTC
1 TCCTC
50810309 CTCCTCCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.02, C:0.56, G:0.00, T:0.41
Consensus pattern (18 bp):
TCCTCATCTTCCTCCTCC
Found at i:50815973 original size:2 final size:2
Alignment explanation
Indices: 50815966--50815992 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
50815956 CTTTCGGTCG
50815966 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
50815993 AGAACAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:50817313 original size:20 final size:21
Alignment explanation
Indices: 50817285--50817324 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
50817275 TTGCTAAACA
*
50817285 TCTATTAACAA-ACTAACTAT
1 TCTAATAACAAGACTAACTAT
50817305 TCTAATAACAAGACTAACTA
1 TCTAATAACAAGACTAACTA
50817325 CCCAACTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.30
Consensus pattern (21 bp):
TCTAATAACAAGACTAACTAT
Found at i:50818844 original size:13 final size:13
Alignment explanation
Indices: 50818826--50818850 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50818816 CATTATTTAC
50818826 ATTTTGGCTTTTG
1 ATTTTGGCTTTTG
50818839 ATTTTGGCTTTT
1 ATTTTGGCTTTT
50818851 TTCATAAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.08, G:0.20, T:0.64
Consensus pattern (13 bp):
ATTTTGGCTTTTG
Found at i:50819175 original size:17 final size:18
Alignment explanation
Indices: 50819143--50819176 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
50819133 AAAAGTTGTG
*
50819143 ATAATTACACATTTAAAA
1 ATAATTACAAATTTAAAA
50819161 ATAATTA-AAATTTAAA
1 ATAATTACAAATTTAAA
50819177 CTAAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAATTACAAATTTAAAA
Found at i:50819583 original size:20 final size:20
Alignment explanation
Indices: 50819554--50819591 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
50819544 CCAATTCAAC
*
50819554 AAATACAAATAAAATAAAAG
1 AAATAAAAATAAAATAAAAG
*
50819574 AAATAAAAATAAATTAAA
1 AAATAAAAATAAAATAAA
50819592 GGTCCATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (20 bp):
AAATAAAAATAAAATAAAAG
Found at i:50820567 original size:23 final size:24
Alignment explanation
Indices: 50820533--50820586 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
50820523 CGCATTTCAT
*
50820533 TTTAATTCTATTGCG-ATTTTATC
1 TTTAATTCTATTACGAATTTTATC
50820556 TTTAGATT-TATTACGAATTTTA-C
1 TTTA-ATTCTATTACGAATTTTATC
50820579 TTCTAATT
1 TT-TAATT
50820587 TTCATTATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.26, C:0.11, G:0.07, T:0.56
Consensus pattern (24 bp):
TTTAATTCTATTACGAATTTTATC
Found at i:50821694 original size:46 final size:46
Alignment explanation
Indices: 50821595--50821938 Score: 590
Period size: 46 Copynumber: 7.6 Consensus size: 46
50821585 TACGTATGAT
* *
50821595 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAG-TTAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
50821638 CACTTGTCACTTTGTCACTTGCTCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
50821684 CACTTATCACTTTGTCACTTGATTAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
50821729 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
50821775 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
50821820 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
50821866 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
50821912 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
50821939 AGTACTCAAA
Statistics
Matches: 284, Mismatches: 12, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
43 9 0.03
44 5 0.02
45 104 0.37
46 166 0.58
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:50821719 original size:91 final size:91
Alignment explanation
Indices: 50821595--50821938 Score: 602
Period size: 91 Copynumber: 3.8 Consensus size: 91
50821585 TACGTATGAT
* * *
50821595 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGTTAAGCTACCACTTGTCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTT
*
50821658 GCTCAGATAAGTGTAGCTAAAGCTAC
66 GATCAGATAAGTGTAGCTAAAGCTAC
* *
50821684 CACTTATCACTTTGTCACTTGATTAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTT
50821749 GATCAGATAAGTGTAGCTAAAGCTAC
66 GATCAGATAAGTGTAGCTAAAGCTAC
*
50821775 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTT
50821840 GATCAGATAAGTGTAGCTAAAGCTAC
66 GATCAGATAAGTGTAGCTAAAGCTAC
50821866 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTGTCACT
50821931 TGATCAGA
65 TGATCAGA
50821939 AGTACTCAAA
Statistics
Matches: 244, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
89 10 0.04
90 5 0.02
91 196 0.80
92 33 0.14
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.33
Consensus pattern (91 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTT
GATCAGATAAGTGTAGCTAAAGCTAC
Found at i:50821791 original size:137 final size:137
Alignment explanation
Indices: 50821595--50821938 Score: 588
Period size: 137 Copynumber: 2.5 Consensus size: 137
50821585 TACGTATGAT
* * *
50821595 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAG-TTAAGCTACCACTTGTCACTTTGTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
* *
50821657 TGCTCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATTAGATAAGTGTAGCT
66 TGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT
*
50821722 -AGGCTAC
130 AAAGCTAC
50821729 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
*
50821794 TGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTA
66 TGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTA
50821859 AAGCTAC
131 AAGCTAC
50821866 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
50821931 TGATCAGA
66 TGATCAGA
50821939 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 7, Indels: 5
0.94 0.03 0.02
Matches are distributed among these distances:
134 10 0.05
135 5 0.03
136 61 0.31
137 123 0.62
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.33
Consensus pattern (137 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
TGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTA
AAGCTAC
Found at i:50824271 original size:95 final size:97
Alignment explanation
Indices: 50824151--50824429 Score: 442
Period size: 96 Copynumber: 2.9 Consensus size: 97
50824141 GGCTGTTACA
* * * *
50824151 TAGGGTTTCTTAATTAAATTAATTATAAATTTTTAAAAAA-TAGATTAGGGTTTAGTGTTTATGG
1 TAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAGTGTTTAGGG
*
50824215 -TTTTAAGGAAATAAAT-AAATAAATTAGGGTT
66 TTTTTAAGGAAA-AAATCAAATAAATTAAGGTT
50824246 TAGGGTTACTTGAGTAAATTAATTATAAA-TTTTAAAAAATTAGATTAGGGTTTAGTGTTTAGGG
1 TAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAGTGTTTAGGG
50824310 TTTTTAAGGAAAAAATCAAATAAATTAAGGTT
66 TTTTTAAGGAAAAAATCAAATAAATTAAGGTT
* * *
50824342 TAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTGGGGTTTAGTATTTAGGG
1 TAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAGTGTTTAGGG
50824407 TTTTTAAGG-AAAAATCAAATAAA
66 TTTTTAAGGAAAAAATCAAATAAA
50824430 ACTAGTTGTT
Statistics
Matches: 172, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
94 10 0.06
95 53 0.31
96 68 0.40
97 41 0.24
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (97 bp):
TAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAGTGTTTAGGG
TTTTTAAGGAAAAAATCAAATAAATTAAGGTT
Found at i:50826333 original size:50 final size:50
Alignment explanation
Indices: 50826210--50826401 Score: 190
Period size: 50 Copynumber: 3.8 Consensus size: 50
50826200 ATATCTGATA
* * * * * *
50826210 ATAACATGCCAAAGCCATGTGCCAGACATGATCTTACATGAGATGTT-TCTT
1 ATAA-ATGCCAATGCCATGTCCCAGATATGGTCTTACATGGGA-GTTCTCAT
* * *
50826261 AT-ACTTCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCAT
1 ATAAATGCCAATGCCATGTCCCAGATATGGTCTTACATGGGAGTTCTCAT
*
50826310 ATAAATGCCCATGCCATGTCCCAGATATGGTCTTACATGGGAGTTCTCAT
1 ATAAATGCCAATGCCATGTCCCAGATATGGTCTTACATGGGAGTTCTCAT
* *** * * * *
50826360 CTCGGTGCCAACGCCATGTCCCAAACATGATCTTACATGGGA
1 ATAAATGCCAATGCCATGTCCCAGATATGGTCTTACATGGGA
50826402 CCTCATCCTC
Statistics
Matches: 117, Mismatches: 22, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
48 3 0.03
49 35 0.30
50 77 0.66
51 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (50 bp):
ATAAATGCCAATGCCATGTCCCAGATATGGTCTTACATGGGAGTTCTCAT
Found at i:50827724 original size:11 final size:11
Alignment explanation
Indices: 50827710--50827734 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
50827700 TTAGAATTAA
50827710 TAAATAATTTC
1 TAAATAATTTC
50827721 TAAATAATTTC
1 TAAATAATTTC
50827732 TAA
1 TAA
50827735 TTTTTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (11 bp):
TAAATAATTTC
Found at i:50828337 original size:26 final size:26
Alignment explanation
Indices: 50828303--50828356 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
50828293 TTTTATATGA
*
50828303 TTATTTTAACTTGCTTTATAAATTAT
1 TTATGTTAACTTGCTTTATAAATTAT
* * *
50828329 TTATGTTAAGTTGCTTTGTATATTAT
1 TTATGTTAACTTGCTTTATAAATTAT
50828355 TT
1 TT
50828357 TATATATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.59
Consensus pattern (26 bp):
TTATGTTAACTTGCTTTATAAATTAT
Found at i:50828954 original size:18 final size:17
Alignment explanation
Indices: 50828927--50828971 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
50828917 GATTATTGCT
* *
50828927 CTTATGTGTATTGTATTG
1 CTTATTTGTATT-TATTA
50828945 CTTATTTGTATTTATTA
1 CTTATTTGTATTTATTA
*
50828962 ATTATTTGTA
1 CTTATTTGTA
50828972 GTTCATTAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.22, C:0.04, G:0.13, T:0.60
Consensus pattern (17 bp):
CTTATTTGTATTTATTA
Found at i:50830114 original size:25 final size:24
Alignment explanation
Indices: 50830086--50830135 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
50830076 TATTTTTATC
*
50830086 ATAA-AATTAATATTAATCAATAAAA
1 ATAAGAATT-ATATGAAT-AATAAAA
*
50830111 ATAAGTATTATATGAATAATAAAA
1 ATAAGAATTATATGAATAATAAAA
50830135 A
1 A
50830136 GCTAATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 8 0.36
25 11 0.50
26 3 0.14
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (24 bp):
ATAAGAATTATATGAATAATAAAA
Found at i:50833389 original size:24 final size:24
Alignment explanation
Indices: 50833341--50833394 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
50833331 ATATTAATGA
*
50833341 TTTATTTTTAAAATTTTAAATATAT
1 TTTATTATTAAAA-TTTAAATATAT
50833366 TTTATTATTAAAA-TTAAATCATAT
1 TTTATTATTAAAATTTAAAT-ATAT
50833390 TTTAT
1 TTTAT
50833395 AAGTGCTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 6 0.22
24 9 0.33
25 12 0.44
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTATTATTAAAATTTAAATATAT
Found at i:50834023 original size:114 final size:115
Alignment explanation
Indices: 50833876--50834170 Score: 373
Period size: 114 Copynumber: 2.6 Consensus size: 115
50833866 TTAAGAATGT
* * * * * * *
50833876 GCCGCAAAGAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGTGACTTAGCAGTGTTTTT
1 GCCGCAAAGAAACCTAAGCCCAACGATGTCGTTTTCTGAGTATTCGGGGATTTAGCGGCGTTTTT
* * * *
50833941 GAG-GTAGCGCCGCCAATGTTCAGTGCTTTAGCAGCGTTTCTGAGG-AAGC
66 GAGAGAAGAGCCGCCAATGCTCAGGGCTTTAGCAGCGTTTCTG-GGAAAGC
*
50833990 GCCGCAAAGAAACCTAAGCCCAACGATGTCGTTTTCTGAGTATTCGGGGATTTAGCGGCGTTTAT
1 GCCGCAAAGAAACCTAAGCCCAACGATGTCGTTTTCTGAGTATTCGGGGATTTAGCGGCGTTTTT
* * * * * *
50834055 G-GAGAAGAGCTGCTAATGCTCAGGGCTTTAGCGGTGTTTTTGGGAAAGT
66 GAGAGAAGAGCCGCCAATGCTCAGGGCTTTAGCAGCGTTTCTGGGAAAGC
*
50834104 GCCGCAAA-AAACCTAAGCCCAACGATGTCGTTTTACTGAGTATTGGGGGATTTAGCGGCGTTTT
1 GCCGCAAAGAAACCTAAGCCCAACGATGTCGTTTT-CTGAGTATTCGGGGATTTAGCGGCGTTTT
50834168 TGA
65 TGA
50834171 ACAAGCGCCG
Statistics
Matches: 157, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
113 29 0.18
114 128 0.82
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (115 bp):
GCCGCAAAGAAACCTAAGCCCAACGATGTCGTTTTCTGAGTATTCGGGGATTTAGCGGCGTTTTT
GAGAGAAGAGCCGCCAATGCTCAGGGCTTTAGCAGCGTTTCTGGGAAAGC
Found at i:50834865 original size:27 final size:27
Alignment explanation
Indices: 50834835--50834892 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
50834825 GGGTATATCA
*
50834835 TATTAGAGTTTAG-GGTTTAATGTTTAG
1 TATTAGAGGTTAGTGG-TTAATGTTTAG
** *
50834862 TATTTTAGGTTAGTGGTTAATGTTTAT
1 TATTAGAGGTTAGTGGTTAATGTTTAG
50834889 TATT
1 TATT
50834893 TGGATTTGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 24 0.92
28 2 0.08
ACGTcount: A:0.24, C:0.00, G:0.22, T:0.53
Consensus pattern (27 bp):
TATTAGAGGTTAGTGGTTAATGTTTAG
Found at i:50835876 original size:146 final size:145
Alignment explanation
Indices: 50835554--50835901 Score: 360
Period size: 146 Copynumber: 2.4 Consensus size: 145
50835544 AACTGTTGGG
* * *
50835554 GAAACGACTTCGTTTGATCTTATATTTAGTGGCGCTTTACTTAAAACGCCGCAAAATTGTTCTAA
1 GAAACGACTGCGTTTGA-CTTATAATTAGTGGCGCTTTACTTAAAACGCCGCAAAAATGTTCTAA
** * * ** *
50835619 CATTTATAGAAACGCTGCCGTTTTTTAAATGTTATTAGTGGCGATTTTTCGAAAACGCCACGGGT
65 CATTTATAGAAACGAGGCCGTTTTCT-AATATTATTAGTGGCGATTTTTAAAAAACGCCACAGGT
* *
50835684 TTGAGGTAAGTGTTGAT
129 GTGAGCTAAGTGTTGAT
* * * * * * * *
50835701 GAAGCGACTGCATTTTGATTTATAGTTAGTGGCGCTTTGCTTAAAACGTCGTAAAAATGTTTTAA
1 GAAACGACTGC-GTTTGACTTATAATTAGTGGCGCTTTACTTAAAACGCCGCAAAAATGTTCTAA
* * * *
50835766 CATTTATCGATACGAGGCCGTTTTGCT-GTATTATTAGTGGC-ATTTATTAAAAAATGCCACAGG
65 CATTTATAGAAACGAGGCCGTTTT-CTAATATTATTAGTGGCGATTT-TTAAAAAACGCCACAGG
**
50835829 TGTGAGCTATTTGTTGAT
128 TGTGAGCTAAGTGTTGAT
* *
50835847 GAAACGACTGCGTTTCGACTTATAATTAGTGGCGC-TTATTTATAAAAGCCGCAAA
1 GAAACGACTGCGTTT-GACTTATAATTAGTGGCGCTTTACTTA-AAACGCCGCAAA
50835902 TGGTTAATTT
Statistics
Matches: 162, Mismatches: 34, Indels: 11
0.78 0.16 0.05
Matches are distributed among these distances:
145 12 0.07
146 75 0.46
147 69 0.43
148 6 0.04
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (145 bp):
GAAACGACTGCGTTTGACTTATAATTAGTGGCGCTTTACTTAAAACGCCGCAAAAATGTTCTAAC
ATTTATAGAAACGAGGCCGTTTTCTAATATTATTAGTGGCGATTTTTAAAAAACGCCACAGGTGT
GAGCTAAGTGTTGAT
Found at i:50836011 original size:23 final size:23
Alignment explanation
Indices: 50835980--50836023 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
50835970 AGATATTTCG
*
50835980 CCATTAGTTATCCCCCAAAACCT
1 CCATCAGTTATCCCCCAAAACCT
*
50836003 CCATCAGTTATCCTCCAAAAC
1 CCATCAGTTATCCCCCAAAAC
50836024 TCATTCTCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.39, G:0.05, T:0.25
Consensus pattern (23 bp):
CCATCAGTTATCCCCCAAAACCT
Found at i:50838118 original size:42 final size:42
Alignment explanation
Indices: 50837994--50838258 Score: 194
Period size: 42 Copynumber: 6.3 Consensus size: 42
50837984 CAAAAATAGT
* *
50837994 GGCGTTTTTTATAAAAGCGCCGCTAAAGAACAT-TTCTTTTAGT
1 GGCGTTTTTT-TAAAAGCGCCGCTAAAGAACATGATC-TTTAGC
* * * ** * *
50838037 GACATTTGTGAATAAAGCGCCGTTAAAGAACATGATCTTTAGT
1 GGCGTTTTTTTA-AAAGCGCCGCTAAAGAACATGATCTTTAGC
** * *
50838080 GGCGTTTTTTTTGAAGCGCCGCTAAAGATCATGTTCTTTAGC
1 GGCGTTTTTTTAAAAGCGCCGCTAAAGAACATGATCTTTAGC
* **** ** *
50838122 GGCG-CTACAAAAAAAAGCCGCTAAAGATCAT-ATTCTTTAGC
1 GGCGTTTTTTTAAAAGCGCCGCTAAAGAACATGA-TCTTTAGC
* **** * *
50838163 GGCGCTTCAGAAAAAACGCCGCTAAAGAACATGACCTTTAGC
1 GGCGTTTTTTTAAAAGCGCCGCTAAAGAACATGATCTTTAGC
**
50838205 GGCGTTTTTTTCCAAGCGCCGCTAAAGAACATGATCTTTAGC
1 GGCGTTTTTTTAAAAGCGCCGCTAAAGAACATGATCTTTAGC
50838247 GGCGTTTATTTT
1 GGCGTTT-TTTT
50838259 TGTAAACGCT
Statistics
Matches: 172, Mismatches: 44, Indels: 12
0.75 0.19 0.05
Matches are distributed among these distances:
41 30 0.17
42 98 0.57
43 42 0.24
44 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (42 bp):
GGCGTTTTTTTAAAAGCGCCGCTAAAGAACATGATCTTTAGC
Found at i:50838149 original size:41 final size:42
Alignment explanation
Indices: 50838097--50838208 Score: 163
Period size: 41 Copynumber: 2.7 Consensus size: 42
50838087 TTTTTGAAGC
50838097 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTACA-AAAAAAA
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTACAGAAAAAAA
* * *
50838138 GCCGCTAAAGATCATATTCTTTAGCGGCGCTTCAGAAAAAAC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGCTACAGAAAAAAA
* **
50838180 GCCGCTAAAGAACATGACCTTTAGCGGCG
1 GCCGCTAAAGATCATGTTCTTTAGCGGCG
50838209 TTTTTTTCCA
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 32 0.51
42 31 0.49
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.21
Consensus pattern (42 bp):
GCCGCTAAAGATCATGTTCTTTAGCGGCGCTACAGAAAAAAA
Found at i:50845071 original size:14 final size:15
Alignment explanation
Indices: 50845040--50845075 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
50845030 ATAATTCATA
*
50845040 AATATATTATTTATT
1 AATATATTATTAATT
50845055 AATATATTA-TAATT
1 AATATATTATTAATT
50845069 AATATAT
1 AATATAT
50845076 CATTTTTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AATATATTATTAATT
Found at i:50845284 original size:25 final size:24
Alignment explanation
Indices: 50845241--50845293 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
50845231 TCCAAATTCA
* * *
50845241 TTATAAGTATATTTTTTTAGTTCTT
1 TTATAAGTATATATATTTA-TTATT
50845266 TTATAAGTATATATATTTATTATT
1 TTATAAGTATATATATTTATTATT
50845290 TTAT
1 TTAT
50845294 TATTAAAGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (24 bp):
TTATAAGTATATATATTTATTATT
Found at i:50850649 original size:60 final size:60
Alignment explanation
Indices: 50850553--50850665 Score: 165
Period size: 60 Copynumber: 1.9 Consensus size: 60
50850543 ATACTGCGAG
50850553 CTCCCTTAACTGTCCTCTCGCTGTAAGTCTCATGTGTATCCATCTAGTGGGGTCTGACAA
1 CTCCCTTAACTGTCCTCTCGCTGTAAGTCTCATGTGTATCCATCTAGTGGGGTCTGACAA
* * ** *
50850613 CTCCCTTAATTGTCCTCTCGTTGTACA-TCTTGTGTGTATCCATCTGGTGGGGT
1 CTCCCTTAACTGTCCTCTCGCTGTA-AGTCTCATGTGTATCCATCTAGTGGGGT
50850666 TTGGTCGGGT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
60 46 0.98
61 1 0.02
ACGTcount: A:0.15, C:0.27, G:0.21, T:0.37
Consensus pattern (60 bp):
CTCCCTTAACTGTCCTCTCGCTGTAAGTCTCATGTGTATCCATCTAGTGGGGTCTGACAA
Found at i:50851321 original size:44 final size:44
Alignment explanation
Indices: 50851258--50851346 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
50851248 TTCTTGGAAG
50851258 CCAAGAACACGAAATTAAGCCCCCAAGATTAACTTCCAATCAGC
1 CCAAGAACACGAAATTAAGCCCCCAAGATTAACTTCCAATCAGC
*
50851302 CCAAGAACACGAAATTAAGCCCCCAAGATTAACTTTCAATCAGC
1 CCAAGAACACGAAATTAAGCCCCCAAGATTAACTTCCAATCAGC
50851346 C
1 C
50851347 GAAACTATCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.40, C:0.31, G:0.11, T:0.17
Consensus pattern (44 bp):
CCAAGAACACGAAATTAAGCCCCCAAGATTAACTTCCAATCAGC
Found at i:50855984 original size:22 final size:23
Alignment explanation
Indices: 50855950--50855993 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
50855940 CTTGGACCAA
50855950 GATTTTCAAGATT-TGAAATCTT
1 GATTTTCAAGATTCTGAAATCTT
**
50855972 GATTTTCTTGATTCCTGAAATC
1 GATTTTCAAGATT-CTGAAATC
50855994 GCTCCAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
24 7 0.39
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (23 bp):
GATTTTCAAGATTCTGAAATCTT
Found at i:50866358 original size:35 final size:37
Alignment explanation
Indices: 50866260--50866399 Score: 92
Period size: 40 Copynumber: 3.7 Consensus size: 37
50866250 GCAATTATCG
* *
50866260 TTGGTTCATCCAACTAGAGCTAGGCTCACAATTATTAT
1 TTGGTTTATCCAACTAGAGCT-GGGTCACAATTATTAT
* *
50866298 TGTCGGTATACCCAACTAGCA-CTGGGTGCA-AA-TATTA-
1 T-T-GGTTTATCCAACTAG-AGCTGGGT-CACAATTATTAT
*
50866335 TTGGTTTATCCAACTAGAGCTGGGCTCA-AATTCAATAT
1 TTGGTTTATCCAACTAGAGCTGGG-TCACAATT-ATTAT
* * *
50866373 TGTCGGTTAATCCGACTAGCGCTGGGT
1 T-T-GGTTTATCCAACTAGAGCTGGGT
50866400 GCAACTTCTT
Statistics
Matches: 81, Mismatches: 10, Indels: 21
0.72 0.09 0.19
Matches are distributed among these distances:
34 1 0.01
35 22 0.27
36 3 0.04
37 4 0.05
38 7 0.09
39 8 0.10
40 35 0.43
41 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (37 bp):
TTGGTTTATCCAACTAGAGCTGGGTCACAATTATTAT
Found at i:50866391 original size:75 final size:75
Alignment explanation
Indices: 50866224--50866403 Score: 211
Period size: 75 Copynumber: 2.4 Consensus size: 75
50866214 GTACATAATC
* * * * * *
50866224 GTCGGTTTATCTGACTAGCTCTGGGCGCAATTATCGTTGGTTCATCCAACTAGAGCTAGGCTCAC
1 GTCGGTTAATCCGACTAGCACTGGGTGCAAATATCATTGGTTCATCCAACTAGAGCTAGGCTCAC
*
50866289 AATTATTATT
66 AATTAATATT
* * * * *
50866299 GTCGG-TATACCCAACTAGCACTGGGTGCAAATATTATTGGTTTATCCAACTAGAGCTGGGCTCA
1 GTCGGTTA-ATCCGACTAGCACTGGGTGCAAATATCATTGGTTCATCCAACTAGAGCTAGGCTCA
50866363 -AATTCAATATT
65 CAATT-AATATT
*
50866374 GTCGGTTAATCCGACTAGCGCTGGGTGCAA
1 GTCGGTTAATCCGACTAGCACTGGGTGCAA
50866404 CTTCTTCTGC
Statistics
Matches: 87, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
74 5 0.06
75 80 0.92
76 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (75 bp):
GTCGGTTAATCCGACTAGCACTGGGTGCAAATATCATTGGTTCATCCAACTAGAGCTAGGCTCAC
AATTAATATT
Found at i:50867305 original size:66 final size:66
Alignment explanation
Indices: 50867187--50867370 Score: 192
Period size: 66 Copynumber: 2.8 Consensus size: 66
50867177 TCAGTAGCCT
* * * * * * * *
50867187 CACATAGCCTAGCACATGGGTGTGTGACTTAGCCGTATGACATAAGTTAGTATACCC-TCTAGTT
1 CACATGGCCTAGCACACGGGCGTGTGGCTTGGCCGTGTGACACAAGTCAGTATACCCATC-AGTT
50867251 TC
65 TC
* * * *
50867253 CACACT-GCCTAGCACACGAGCGTGTGGCTTGGCCGTGTGTCACAAGTCAGTATGCCCATCATTT
1 CACA-TGGCCTAGCACACGGGCGTGTGGCTTGGCCGTGTGACACAAGTCAGTATACCCATCAGTT
*
50867317 TT
65 TC
* * *
50867319 CATATGGCCTAGCACACGGGCGTGTGGCTTGGTCGTGTGACCCAAGTCAGTA
1 CACATGGCCTAGCACACGGGCGTGTGGCTTGGCCGTGTGACACAAGTCAGTA
50867371 AGCTCACTAG
Statistics
Matches: 98, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
65 1 0.01
66 94 0.96
67 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.27
Consensus pattern (66 bp):
CACATGGCCTAGCACACGGGCGTGTGGCTTGGCCGTGTGACACAAGTCAGTATACCCATCAGTTT
C
Found at i:50870005 original size:44 final size:45
Alignment explanation
Indices: 50869956--50870431 Score: 285
Period size: 44 Copynumber: 10.5 Consensus size: 45
50869946 TTGAATATAG
* * *
50869956 CAAATCTTATCTCCCTAAAGATGCAGTGGAGCGA-AATGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCGATATTGAAGCTA
** * * * * *
50870000 CAAATCCCATATCCCTGAAGTTGTAGTGGATCG-GATTAAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCGATATTGAAGCTA
* *
50870044 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGC-ATATTGAAACAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCGATATTGAAGCTA
* * * * *
50870088 CAAATTTTATCTCCCTAAAGTTGCAGTGAAG-TATATTAAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCGATATTGAAGCTA
* * * * *
50870132 CAAATCTTATCTCCTTGAAGTTGTAGTAGAG-TAGATTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCGATATTGAAGCTA
** * *
50870176 CAAATCTTATCTCGTTGAAGTTACAGTGGAGC-AAATTGAAG-TAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCGATATTGAAGCT-A
* * ** * *
50870220 CAAATCCTATACT-TCTGAAGTTGCAGTGG-GTCG-GGTTAAATCTA
1 CAAATCTTAT-CTCCCTGAAGTTGCAGTGGAG-CGATATTGAAGCTA
* * * * **
50870264 CCACAGCGAGTCTTATTTCCCTGAAGCTGCAGTGAAACAGATTAAAGCTACAAGCTA
1 -CA-A---A-TCTTATCTCCCTGAAGTTGCAGTGGAGC-GA-T--A--TTGAAGCTA
* *
50870321 CAAATCTTATCTCCCTGAAGTTACAGTGGAGC-AGATTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCGATATTGAAGCTA
* * * * * *
50870365 CGAATCTCATCTCCCTGAAGTTGCAGCGGAG-TAGATTGAAACTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCGATATTGAAGCTA
* *
50870409 CAATTCCTATAC-CCCTGAAGTTG
1 CAAATCTTAT-CTCCCTGAAGTTG
50870432 TAATGGGTTA
Statistics
Matches: 333, Mismatches: 73, Indels: 52
0.73 0.16 0.11
Matches are distributed among these distances:
43 2 0.01
44 267 0.80
45 6 0.02
46 2 0.01
49 3 0.01
50 19 0.06
51 24 0.07
52 1 0.00
55 1 0.00
56 2 0.01
57 6 0.02
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (45 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCGATATTGAAGCTA
Found at i:50870105 original size:132 final size:132
Alignment explanation
Indices: 50869956--50870225 Score: 337
Period size: 132 Copynumber: 2.0 Consensus size: 132
50869946 TTGAATATAG
* *
50869956 CAAATCTTATCTCCCTAAAGATGCAGTGGAGCGA-AATGAAGCTACAAATCCCATATCCCTGAAG
1 CAAATCTTATCTCCCTAAAGATGCAGTGAAG-GATAATAAAGCTACAAATCCCATATCCCTGAAG
* * * *
50870020 TTGTAGTGGA-TCGGATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTGAA
65 TTGTAGTAGAGT-AGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAAATTGAA
50870084 ACAA
129 ACAA
* * * * ** * *
50870088 CAAATTTTATCTCCCTAAAGTTGCAGTGAAGTATATTAAAGCTACAAATCTTATCTCCTTGAAGT
1 CAAATCTTATCTCCCTAAAGATGCAGTGAAGGATAATAAAGCTACAAATCCCATATCCCTGAAGT
* ** **
50870153 TGTAGTAGAGTAGATTGAAGCTACAAATCTTATCTCGTTGAAGTTACAGTGGAGCAAATTGAAGT
66 TGTAGTAGAGTAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAAATTGAAAC
50870218 AA
131 AA
50870220 CAAATC
1 CAAATC
50870226 CTATACTTCT
Statistics
Matches: 116, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
131 1 0.01
132 114 0.98
133 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (132 bp):
CAAATCTTATCTCCCTAAAGATGCAGTGAAGGATAATAAAGCTACAAATCCCATATCCCTGAAGT
TGTAGTAGAGTAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAAATTGAAAC
AA
Found at i:50870259 original size:132 final size:132
Alignment explanation
Indices: 50869956--50870433 Score: 331
Period size: 132 Copynumber: 3.5 Consensus size: 132
50869946 TTGAATATAG
* * * * * *
50869956 CAAATCTTATCTCCCTAAAGATGCAGTGGAG-CGAAATGAAGCTACAAATCCCATATCCCTGAAG
1 CAAATCCTATCTCCCTAAAGTTGCAGTGAAGTAG-ATTAAAGCTACAAATCCCATATCCCTGAAG
* * * *
50870020 TTGTAGTGGATCGGATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTGAAA
65 TTGTAGTAGATCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAAATTGAAA
50870085 CAA
130 CAA
** * ** * *
50870088 CAAATTTTATCTCCCTAAAGTTGCAGTGAAGTATATTAAAGCTACAAATCTTATCTCCTTGAAGT
1 CAAATCCTATCTCCCTAAAGTTGCAGTGAAGTAGATTAAAGCTACAAATCCCATATCCCTGAAGT
* ** *
50870153 TGTAGTAGAGT-AGATTGAAGCTACAAATCTTATCTCGTTGAAGTTACAGTGGAGCAAATTGAAG
66 TGTAGTAGA-TCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAAATTGAAA
*
50870217 TAA
130 CAA
* * * * * * ** *
50870220 CAAATCCTATACT-TCTGAAGTTGCAGTG-GGTCGGGTTAAATCTACCACAGCGAGTCTTATTTC
1 CAAATCCTAT-CTCCCTAAAGTTGCAGTGAAGT-AGATTAAAGCTA-CA-A---A-TCCCATATC
* * *
50870283 CCTGAAGCTGCAGT-GAAACAGATTAAAGCTACAAGCTACAAATCTTATCTCCCTGAAGTTACAG
58 CCTGAAGTTGTAGTAG-ATCAGA-T-----TA-AAGCTACAAATCTTATCTCCCTGAAGTTACAG
* * *
50870347 TGGAGCAGATTGAAGCTA
115 TGGAGCAAATTGAAACAA
* * * * * * *
50870365 CGAAT-CTCATCTCCCTGAAGTTGCAGCGGAGTAGATTGAAA-CTACAATTCCTATACCCCTGAA
1 CAAATCCT-ATCTCCCTAAAGTTGCAGTGAAGTAGATT-AAAGCTACAAATCCCATATCCCTGAA
50870428 GTTGTA
64 GTTGTA
50870434 ATGGGTTAGA
Statistics
Matches: 271, Mismatches: 52, Indels: 39
0.75 0.14 0.11
Matches are distributed among these distances:
131 2 0.01
132 138 0.51
133 5 0.02
134 1 0.00
137 2 0.01
138 23 0.08
139 17 0.06
143 1 0.00
144 7 0.03
145 70 0.26
146 5 0.02
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (132 bp):
CAAATCCTATCTCCCTAAAGTTGCAGTGAAGTAGATTAAAGCTACAAATCCCATATCCCTGAAGT
TGTAGTAGATCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAAATTGAAAC
AA
Found at i:50873099 original size:2 final size:2
Alignment explanation
Indices: 50873094--50873123 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
50873084 TGATTTTTTA
*
50873094 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50873124 TAAGAGTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50874915 original size:141 final size:140
Alignment explanation
Indices: 50874634--50874923 Score: 316
Period size: 141 Copynumber: 2.1 Consensus size: 140
50874624 GATATAATAA
* * *
50874634 TTGCTCGTTCGAGCTAAACATATAATCGTGTCATGTTACCCGTCCAAGCTAAACCTTTATTGACA
1 TTGCTCG-TCGAGCTAAACATATAATAGTGTCAGGTTACCCGTCCAAGCTAAACCTTTATCGACA
** * * * * * * *
50874699 TGTCAAATAGCTTGGGCAAAGTTGTAATGTACTAGTCAGGTTATCCGTCTGGGTTGAACCTTTAA
65 CATAAAATAGCTTGGGCAAAGTTGTAATATACTAGTAAGGTTATCCGTCCGGGCTAAACCTTGAA
* *
50874764 ATGACCTCAGG
130 ACGACATCAGG
* * **
50874775 TTGCTCGTCAGAGCTGAACATATATTAGTGTCAGGTTACCCGTCCGGGCTAAACCTTTATCGACA
1 TTGCTCGTC-GAGCTAAACATATAATAGTGTCAGGTTACCCGTCCAAGCTAAACCTTTATCGACA
* * *
50874840 CATAAAATAGCTTGGTCAAATTTGT-ATATAC-ATGTAAGGTTA-CTCGTCCGTGCTAAACCTAT
65 CATAAAATAGCTTGGGCAAAGTTGTAATATACTA-GTAAGGTTATC-CGTCCGGGCTAAACCT-T
50874902 GAAACGACATCAGG
127 GAAACGACATCAGG
*
50874916 TTACTCGT
1 TTGCTCGT
50874924 TCTAGTTAAA
Statistics
Matches: 123, Mismatches: 22, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
139 2 0.02
140 27 0.22
141 94 0.76
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (140 bp):
TTGCTCGTCGAGCTAAACATATAATAGTGTCAGGTTACCCGTCCAAGCTAAACCTTTATCGACAC
ATAAAATAGCTTGGGCAAAGTTGTAATATACTAGTAAGGTTATCCGTCCGGGCTAAACCTTGAAA
CGACATCAGG
Found at i:50886176 original size:23 final size:23
Alignment explanation
Indices: 50886144--50886219 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
50886134 ATAAGTGCAA
*
50886144 CACTGATATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
50886167 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
50886190 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
50886213 CACTGAT
1 CACTGAT
50886220 CAATAACACT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:50886471 original size:18 final size:17
Alignment explanation
Indices: 50886445--50886483 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
50886435 ATTTTCCTTC
50886445 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
50886462 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
50886480 CACA
1 CACA
50886484 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:50889920 original size:17 final size:18
Alignment explanation
Indices: 50889898--50889931 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
50889888 AATCCATACA
50889898 AACTCAATCATT-TCATC
1 AACTCAATCATTATCATC
*
50889915 AACTCATTCATTATCAT
1 AACTCAATCATTATCAT
50889932 TTCTATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.38
Consensus pattern (18 bp):
AACTCAATCATTATCATC
Found at i:50892547 original size:2 final size:2
Alignment explanation
Indices: 50892535--50892564 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
50892525 TTCAATATCA
*
50892535 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50892565 TTCATTCGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50893321 original size:14 final size:16
Alignment explanation
Indices: 50893294--50893325 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
50893284 GTTTCGTCTC
50893294 TTCTATTCTGTTTCTT
1 TTCTATTCTGTTTCTT
50893310 TTCT-TTCT-TTTCTT
1 TTCTATTCTGTTTCTT
50893324 TT
1 TT
50893326 ATGTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 4 0.25
16 4 0.25
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.75
Consensus pattern (16 bp):
TTCTATTCTGTTTCTT
Found at i:50893342 original size:5 final size:5
Alignment explanation
Indices: 50893329--50893400 Score: 62
Period size: 5 Copynumber: 14.4 Consensus size: 5
50893319 TTCTTTTATG
50893329 TATATA TATAA TATAA TATAA TAT-A T-TAA TAATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
50893377 CATAA TCATTAC TATAA TATAA TA
1 TATAA T-A-TAA TATAA TATAA TA
50893401 ATATTTTTTA
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 34 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:50893354 original size:19 final size:19
Alignment explanation
Indices: 50893330--50893372 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
50893320 TCTTTTATGT
50893330 ATATATATAAT-ATAATATA
1 ATATAT-TAATAATAATATA
50893349 ATATATTAATAATAATATA
1 ATATATTAATAATAATATA
50893368 ATATA
1 ATATA
50893373 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATTAATAATAATATA
Found at i:50893382 original size:24 final size:25
Alignment explanation
Indices: 50893336--50893401 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
50893326 ATGTATATAT
* *
50893336 ATAATATAATATAATATATTAAT-A
1 ATAATATAATATAATAAAATAATCA
50893360 ATAATATAATATAA-AAACATAATCA
1 ATAATATAATATAATAAA-ATAATCA
* *
50893385 TTACTATAATATAATAA
1 ATAATATAATATAATAA
50893402 TATTTTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
23 2 0.06
24 18 0.51
25 13 0.37
26 2 0.06
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (25 bp):
ATAATATAATATAATAAAATAATCA
Found at i:50895055 original size:12 final size:12
Alignment explanation
Indices: 50895040--50895079 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
50895030 GATATCCCAG
50895040 AGAAAATCCACA
1 AGAAAATCCACA
*
50895052 AGAATATCC-CA
1 AGAAAATCCACA
50895063 GAGAAAATCCACA
1 -AGAAAATCCACA
50895076 AGAA
1 AGAA
50895080 GAATATCGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 2 0.08
12 20 0.83
13 2 0.08
ACGTcount: A:0.55, C:0.23, G:0.12, T:0.10
Consensus pattern (12 bp):
AGAAAATCCACA
Found at i:50895063 original size:24 final size:24
Alignment explanation
Indices: 50895031--50895079 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
50895021 GAGATCGATG
50895031 ATATCCCAGAGAAAATCCACAAGA
1 ATATCCCAGAGAAAATCCACAAGA
50895055 ATATCCCAGAGAAAATCCACAAGA
1 ATATCCCAGAGAAAATCCACAAGA
50895079 A
1 A
50895080 GAATATCGCT
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:0.51, C:0.24, G:0.12, T:0.12
Consensus pattern (24 bp):
ATATCCCAGAGAAAATCCACAAGA
Found at i:50896422 original size:25 final size:25
Alignment explanation
Indices: 50896394--50896465 Score: 94
Period size: 25 Copynumber: 2.9 Consensus size: 25
50896384 CATCAGAGAG
*
50896394 CGTGCTAATATTCAGAGAGCACTGA
1 CGTGCTAATATTCAGAGAGCACCGA
50896419 CGTGCTAA-ATATCAGAGAGCACCGA
1 CGTGCTAATAT-TCAGAGAGCACCGA
*
50896444 TGTGCTAATAATT-AGAGAGCAC
1 CGTGCTAAT-ATTCAGAGAGCAC
50896466 GCTAAACTCC
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
24 2 0.05
25 37 0.88
26 1 0.02
27 2 0.05
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (25 bp):
CGTGCTAATATTCAGAGAGCACCGA
Found at i:50901921 original size:54 final size:54
Alignment explanation
Indices: 50901838--50901943 Score: 176
Period size: 54 Copynumber: 2.0 Consensus size: 54
50901828 ACAAATCTCA
*
50901838 ACTTTAAAATGAACCTGAACGACAACGTTTCGTAACTTTGACTAATTGACTTCC
1 ACTTTAAAATGAACCTAAACGACAACGTTTCGTAACTTTGACTAATTGACTTCC
* **
50901892 ACTTTAAAATTAACCTAAACGACGGCGTTTCGTAACTTTGACTAATTGACTT
1 ACTTTAAAATGAACCTAAACGACAACGTTTCGTAACTTTGACTAATTGACTT
50901944 GGAATAGTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (54 bp):
ACTTTAAAATGAACCTAAACGACAACGTTTCGTAACTTTGACTAATTGACTTCC
Found at i:50902245 original size:16 final size:17
Alignment explanation
Indices: 50902214--50902247 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
50902204 TCTCCACCCG
*
50902214 CCTCAACTCTCCTCCTC
1 CCTCAAATCTCCTCCTC
50902231 CCTCAAATC-CCTCCTC
1 CCTCAAATCTCCTCCTC
50902247 C
1 C
50902248 TTTCCCTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.15, C:0.59, G:0.00, T:0.26
Consensus pattern (17 bp):
CCTCAAATCTCCTCCTC
Found at i:50906466 original size:20 final size:22
Alignment explanation
Indices: 50906418--50906471 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 22
50906408 CACTTAAGTT
* *
50906418 ATAAGTAAATTTTTTTTGTAAA
1 ATAAGTAAAGTTTTTTTGCAAA
50906440 A-AA-TAAA-TTTTTTT-CAAA
1 ATAAGTAAAGTTTTTTTGCAAA
50906458 ATAAGTAAAGTTTT
1 ATAAGTAAAGTTTT
50906472 CGTTATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 4 0.14
19 9 0.32
20 8 0.29
21 6 0.21
22 1 0.04
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.46
Consensus pattern (22 bp):
ATAAGTAAAGTTTTTTTGCAAA
Found at i:50908390 original size:17 final size:17
Alignment explanation
Indices: 50908370--50908420 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
50908360 GCTTTCATGC
50908370 TTGGTGAGCTCGCAGTG
1 TTGGTGAGCTCGCAGTG
* * *
50908387 TTGGTGAGCTCACACATT
1 TTGGTGAGCTCGCA-GTG
*
50908405 TTGGTGAGCTTGCAGT
1 TTGGTGAGCTCGCAGT
50908421 TTGCAATTCG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 14 0.52
18 13 0.48
ACGTcount: A:0.16, C:0.18, G:0.33, T:0.33
Consensus pattern (17 bp):
TTGGTGAGCTCGCAGTG
Found at i:50911381 original size:84 final size:85
Alignment explanation
Indices: 50911274--50911428 Score: 233
Period size: 85 Copynumber: 1.8 Consensus size: 85
50911264 CAAACGATCC
* *
50911274 CGGTGGAATCAACACTTAACAACCACC-TTATAATCAATGATACGGGAAATCAGTA-TATAGCAA
1 CGGTGGAATCAACACTTAACAACCACCTTTATAATCAACGATACGGGAAATCAGCACT-TAGCAA
50911337 CCCCTTTCACAATCAAGGATA
65 CCCCTTTCACAATCAAGGATA
* * * *
50911358 CGGTGGAATCAACACTTAGCAACCACCTTTATAATCAACGATTCGGGGAATCTGCACTTAGCAAC
1 CGGTGGAATCAACACTTAACAACCACCTTTATAATCAACGATACGGGAAATCAGCACTTAGCAAC
50911423 CCCTTT
66 CCCTTT
50911429 TTGATTAATG
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
84 26 0.41
85 36 0.57
86 1 0.02
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (85 bp):
CGGTGGAATCAACACTTAACAACCACCTTTATAATCAACGATACGGGAAATCAGCACTTAGCAAC
CCCTTTCACAATCAAGGATA
Found at i:50911442 original size:41 final size:41
Alignment explanation
Indices: 50911286--50911468 Score: 154
Period size: 41 Copynumber: 4.4 Consensus size: 41
50911276 GTGGAATCAA
* * * *
50911286 CACTTAACAACCACC-TTATAATCAATGATACGGGAAATCAG
1 CACTTAGCAACC-CCTTTATAATCAACGATTCGGGAAATCTG
* * * * * **
50911327 TA-TATAGCAACCCCTTTCACAATCAAGGATACGGTGGAATCAA
1 CACT-TAGCAACCCCTTT-ATAATCAACGATTCGG-GAAATCTG
*
50911370 CACTTAGCAACCACCTTTATAATCAACGATTCGGGGAATCTG
1 CACTTAGCAACC-CCTTTATAATCAACGATTCGGGAAATCTG
* * * *
50911412 CACTTAGCAACCCCTTTTTGATTAATGATTCGGGAAATCTG
1 CACTTAGCAACCCCTTTATAATCAACGATTCGGGAAATCTG
*
50911453 CACTTAGTAACCCCTT
1 CACTTAGCAACCCCTT
50911469 ACATTCAAAG
Statistics
Matches: 118, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
40 3 0.03
41 49 0.42
42 32 0.27
43 28 0.24
44 6 0.05
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (41 bp):
CACTTAGCAACCCCTTTATAATCAACGATTCGGGAAATCTG
Found at i:50924586 original size:18 final size:17
Alignment explanation
Indices: 50924548--50924608 Score: 70
Period size: 17 Copynumber: 3.5 Consensus size: 17
50924538 GCAATTCACA
*
50924548 GGTGAGCTTGTA-ATCTT
1 GGTGAGCTTGCACAT-TT
*
50924565 GGTGAGCTTGCATCTTTT
1 GGTGAGCTTGCA-CATTT
*
50924583 GGTGAGCTCGCACATTT
1 GGTGAGCTTGCACATTT
50924600 GGTGAGCTT
1 GGTGAGCTT
50924609 CGCAGTTCGC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 23 0.62
18 13 0.35
19 1 0.03
ACGTcount: A:0.15, C:0.16, G:0.31, T:0.38
Consensus pattern (17 bp):
GGTGAGCTTGCACATTT
Found at i:50924602 original size:17 final size:18
Alignment explanation
Indices: 50924563--50924612 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
50924553 GCTTGTAATC
* *
50924563 TTGGTGAGCTTGCATCTT
1 TTGGTGAGCTCGCATCAT
50924581 TTGGTGAGCTCGCA-CAT
1 TTGGTGAGCTCGCATCAT
50924598 TTGGTGAGCTTCGCA
1 TTGGTGAGC-TCGCA
50924613 GTTCGCAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.38
18 18 0.62
ACGTcount: A:0.14, C:0.20, G:0.30, T:0.36
Consensus pattern (18 bp):
TTGGTGAGCTCGCATCAT
Found at i:50946473 original size:2 final size:2
Alignment explanation
Indices: 50946468--50946500 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
50946458 ATATATATAT
50946468 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
50946501 AGCATGTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:50947844 original size:22 final size:22
Alignment explanation
Indices: 50947813--50947862 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
50947803 ATAAAAAAAA
50947813 ATATAATTTTAT-ATTAATATTT
1 ATATAATTTTATAATTAA-ATTT
*
50947835 ATATATTTTTATAATTAAATTT
1 ATATAATTTTATAATTAAATTT
*
50947857 AAATAA
1 ATATAA
50947863 ATCGTACTCG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATATAATTTTATAATTAAATTT
Found at i:50949479 original size:37 final size:37
Alignment explanation
Indices: 50949437--50949510 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
50949427 AAATCCAAAT
50949437 CCAAATCATCAACAATCCTATTACAAAACAATTCAGA
1 CCAAATCATCAACAATCCTATTACAAAACAATTCAGA
50949474 CCAAATCATCAACAATCCTATTACAAAACAATTCAGA
1 CCAAATCATCAACAATCCTATTACAAAACAATTCAGA
50949511 TATGTCTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.49, C:0.27, G:0.03, T:0.22
Consensus pattern (37 bp):
CCAAATCATCAACAATCCTATTACAAAACAATTCAGA
Found at i:50953391 original size:23 final size:23
Alignment explanation
Indices: 50953351--50953394 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
50953341 TATATTAATT
50953351 ATTTATAAAGTATTTAAAATTTA
1 ATTTATAAAGTATTTAAAATTTA
*
50953374 ATTTATATA-TATTATAAAATT
1 ATTTATAAAGTATT-TAAAATT
50953395 AACAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
ATTTATAAAGTATTTAAAATTTA
Found at i:50953396 original size:22 final size:22
Alignment explanation
Indices: 50953319--50953396 Score: 61
Period size: 23 Copynumber: 3.3 Consensus size: 22
50953309 GTATATATTC
*
50953319 AAATTAAATTTAATAAATTATTTA
1 AAATT-AATTT-ATAAAGTATTTA
50953343 TATTAATT-ATTTATAAAGTATTTA
1 -A--AATTAATTTATAAAGTATTTA
*
50953367 AAATTTAATTTATATA-TATTATA
1 AAA-TTAATTTATAAAGTATT-TA
50953390 AAATTAA
1 AAATTAA
50953397 CAAATTAACT
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
21 2 0.04
22 10 0.22
23 14 0.30
24 11 0.24
25 5 0.11
27 4 0.09
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (22 bp):
AAATTAATTTATAAAGTATTTA
Found at i:50963001 original size:23 final size:23
Alignment explanation
Indices: 50962974--50963017 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
50962964 AATAACAACT
*
50962974 AAAA-TTTGAAAAGTAAAAATACC
1 AAAATTTTCAAAA-TAAAAATACC
50962997 AAAATTTTCAAAATAAAAATA
1 AAAATTTTCAAAATAAAAATA
50963018 TAGATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.25
Consensus pattern (23 bp):
AAAATTTTCAAAATAAAAATACC
Found at i:50965305 original size:29 final size:31
Alignment explanation
Indices: 50965273--50965334 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 31
50965263 GTTATAAAAA
*
50965273 ATTATAAAAAAATTAAAAT-TTAT-AAATTT
1 ATTATAAAAAAATTAAAATCATATAAAATTT
**
50965302 ATTATAAATTAATTAAAATCATATAAAATTT
1 ATTATAAAAAAATTAAAATCATATAAAATTT
50965333 AT
1 AT
50965335 AAAAAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 17 0.61
30 3 0.11
31 8 0.29
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (31 bp):
ATTATAAAAAAATTAAAATCATATAAAATTT
Found at i:50965616 original size:23 final size:21
Alignment explanation
Indices: 50965573--50965623 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
50965563 ATTTTTTTTC
***
50965573 TAAATTTTTTTATGGTTTTTAA
1 TAAATTTTTTTATGAAATTT-A
50965595 TAAATTATTTTTATGAAATTTA
1 TAAATT-TTTTTATGAAATTTA
50965617 TAAATTT
1 TAAATTT
50965624 ATGGTTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 13 0.52
23 11 0.44
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (21 bp):
TAAATTTTTTTATGAAATTTA
Found at i:50978009 original size:44 final size:43
Alignment explanation
Indices: 50977954--50978097 Score: 105
Period size: 44 Copynumber: 3.2 Consensus size: 43
50977944 ATATTTAATA
*
50977954 ATAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATT
1 ATAATAATTTTAAATTATATAAATTCATATAAGAAAATTTATT
* * * *
50977997 ATCAATAATTTTATGAAATTATATATTATT-AT-TAA-ATTATATGTAATA
1 AT-AATAA-TTT-T-AAATTATATA-AATTCATATAAGA--AAAT-TTATT
* * *
50978045 ATAATTATTTTAAATTATACAAATTCATATAAGATAATTTATT
1 ATAATAATTTTAAATTATATAAATTCATATAAGAAAATTTATT
*
50978088 AGTTATAATT
1 A-TAATAATT
50978098 ATTTTAAATT
Statistics
Matches: 75, Mismatches: 14, Indels: 23
0.67 0.12 0.21
Matches are distributed among these distances:
43 9 0.12
44 23 0.31
45 8 0.11
46 8 0.11
47 19 0.25
48 8 0.11
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (43 bp):
ATAATAATTTTAAATTATATAAATTCATATAAGAAAATTTATT
Found at i:50978016 original size:47 final size:46
Alignment explanation
Indices: 50977951--50978107 Score: 146
Period size: 47 Copynumber: 3.4 Consensus size: 46
50977941 ATTATATTTA
*
50977951 ATAATAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATT
1 ATAATAATTATTTGAAATTATATAAATTCATATAAGAAAATTTATT
**
50977997 ATCAATAATT-TTATGAAATTATAT--ATT-AT-T-ATTAAATTATATGT
1 AT-AATAATTATT-TGAAATTATATAAATTCATATAAGAAAATT-TAT-T
* * *
50978041 AATAATAATTATTTTAAATTATACAAATTCATATAAGATAATTTATT
1 -ATAATAATTATTTGAAATTATATAAATTCATATAAGAAAATTTATT
* *
50978088 AGTTATAATTATTTTAAATT
1 A-TAATAATTATTTGAAATT
50978108 TTGTTAAATC
Statistics
Matches: 90, Mismatches: 9, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
42 6 0.07
43 4 0.04
44 19 0.21
45 7 0.08
46 8 0.09
47 37 0.41
48 4 0.04
49 5 0.06
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (46 bp):
ATAATAATTATTTGAAATTATATAAATTCATATAAGAAAATTTATT
Found at i:50978259 original size:16 final size:16
Alignment explanation
Indices: 50978238--50978279 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
50978228 TTATTAAATT
*
50978238 ATATATTTTAATTATA
1 ATATATTTTAATAATA
50978254 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
50978269 AT-TATGTTTAA
1 ATATAT-TTTAA
50978280 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:50978264 original size:15 final size:15
Alignment explanation
Indices: 50978229--50978270 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
50978219 TTAAGAATTT
*
50978229 TATTAAATTAT-ATA
1 TATTTAATTATAATA
50978243 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
50978257 TATTTAATAATAAT
1 TATTTAATTATAAT
50978271 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:50978450 original size:39 final size:40
Alignment explanation
Indices: 50978407--50978510 Score: 111
Period size: 43 Copynumber: 2.5 Consensus size: 40
50978397 TTCCATTATG
50978407 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
50978446 CTATTACGCCTCTATTCCTTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C---CATTCAACCAAACACAAGATTTA
*
50978490 CTATTACACATCTATTCCATT
1 CTATTACACCTCTATTCCATT
50978511 ACACCTCTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
43 17 0.32
44 16 0.30
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.35
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:50983727 original size:2 final size:2
Alignment explanation
Indices: 50983720--50983756 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
50983710 NNNNNNNNNN
50983720 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
50983757 TATTAAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:50985249 original size:3 final size:3
Alignment explanation
Indices: 50985241--50985303 Score: 83
Period size: 3 Copynumber: 20.7 Consensus size: 3
50985231 TATTACTTGT
* *
50985241 TTA TTA TTA CTA TTA TTG TCTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
50985287 TTA TTA TT- TCTA TTA TT
1 TTA TTA TTA T-TA TTA TT
50985304 TTACTATAGT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
2 1 0.02
3 49 0.92
4 3 0.06
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:50989694 original size:7 final size:7
Alignment explanation
Indices: 50989657--50989688 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
50989647 TTTGAGTCCG
50989657 AAAAAGA
1 AAAAAGA
50989664 AAAAAGA
1 AAAAAGA
50989671 AAAAAGA
1 AAAAAGA
50989678 AAAAAGA
1 AAAAAGA
50989685 AAAA
1 AAAA
50989689 GTAAAATGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:50989694 original size:14 final size:13
Alignment explanation
Indices: 50989656--50989694 Score: 60
Period size: 14 Copynumber: 2.9 Consensus size: 13
50989646 GTTTGAGTCC
50989656 GAAAAAGAAAAAA
1 GAAAAAGAAAAAA
50989669 GAAAAAAGAAAAAA
1 G-AAAAAGAAAAAA
*
50989683 GAAAAAGTAAAA
1 GAAAAAGAAAAA
50989695 TGGAGAGGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (13 bp):
GAAAAAGAAAAAA
Found at i:50991186 original size:100 final size:100
Alignment explanation
Indices: 50991011--50991283 Score: 474
Period size: 100 Copynumber: 2.7 Consensus size: 100
50991001 CGGAACCATA
50991011 GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTG
1 GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTG
* **
50991076 ATATTACAATTAAAAAGATTGAAGCCACAATGGCG
66 ATATTGCAATTAAAAAGATTGAAGCCACAACAGCG
*
50991111 GATCTTACTTCCTTAGCGGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTG
1 GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTG
*
50991176 ATATTGCAATTAAAAAGATTGAAGCCACAACAGTG
66 ATATTGCAATTAAAAAGATTGAAGCCACAACAGCG
* * *
50991211 GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACAGCAGATCTAGTTTCCCTG
1 GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTG
50991276 ATATTGCA
66 ATATTGCA
50991284 NNNNNNNNNN
Statistics
Matches: 164, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 164 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (100 bp):
GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTG
ATATTGCAATTAAAAAGATTGAAGCCACAACAGCG
Found at i:50991245 original size:50 final size:50
Alignment explanation
Indices: 50991011--50991250 Score: 187
Period size: 50 Copynumber: 4.8 Consensus size: 50
50991001 CGGAACCATA
* *
50991011 GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCG
1 GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCCACAACGGCG
*** * * * * * ** * *
50991061 GATCTGGTTTCCCT-GATATTACAATTAAAAAGATTGAAGCCACAATGGCG
1 GATCTTACTTCCTTAG-CAGTGCAGTGGAACAGATTGAAGCCACAACGGCG
* * *
50991111 GATCTTACTTCCTTAGCGGTGCAGTGGAACAGATTGAAGCTACGACGGCG
1 GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCCACAACGGCG
*** * * * * ** * * *
50991161 GATCTGGTTTCCCT-GATATTGCAATTAAAAAGATTGAAGCCACAACAGTG
1 GATCTTACTTCCTTAG-CAGTGCAGTGGAACAGATTGAAGCCACAACGGCG
50991211 GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
1 GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
50991251 TACGACAGCA
Statistics
Matches: 132, Mismatches: 54, Indels: 8
0.68 0.28 0.04
Matches are distributed among these distances:
49 2 0.02
50 128 0.97
51 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (50 bp):
GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCCACAACGGCG
Found at i:50991474 original size:50 final size:50
Alignment explanation
Indices: 50991420--50991573 Score: 159
Period size: 50 Copynumber: 3.1 Consensus size: 50
50991410 TCCTTAGCAG
* *
50991420 TGCAATGGAATAGATTGAAACTACGACGGCGGATCTAGTTTTCCTGACAT
1 TGCAATGGAAAAGATTGAAGCTACGACGGCGGATCTAGTTTTCCTGACAT
** * * * * **
50991470 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTA-CTTCCCTGACGG
1 TGCAATGGAAAAGATTGAAGCTACGACGGCGGATC-TAGTTTTCCTGACAT
* * *
50991520 TGCGATGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCTCC-GACAT
1 TGCAATGGAAAAGATTGAAGCTACGACGGCGGATCTAGTTT-TCCTGACAT
50991570 TGCA
1 TGCA
50991574 GTTGAACAAA
Statistics
Matches: 79, Mismatches: 22, Indels: 6
0.74 0.21 0.06
Matches are distributed among these distances:
49 1 0.01
50 74 0.94
51 4 0.05
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (50 bp):
TGCAATGGAAAAGATTGAAGCTACGACGGCGGATCTAGTTTTCCTGACAT
Found at i:50991581 original size:50 final size:51
Alignment explanation
Indices: 50991431--50991589 Score: 157
Period size: 50 Copynumber: 3.2 Consensus size: 51
50991421 GCAATGGAAT
* * * *
50991431 AGATTGAAACTACGACGGCGGATCTAGTTT-TCCTGACATTGCAATTAAAA
1 AGATTGAAGCTACGACGGCGGATCTAGTTTCTCCTGACATTGCAGTTGAAC
* * * ** *
50991481 AGATTGAAGCCACAACGGCGGATCTTA-CTTC-CCTGACGGTGC-GATGGAAC
1 AGATTGAAGCTACGACGGCGGATC-TAGTTTCTCCTGACATTGCAG-TTGAAC
*
50991531 AGATTGAAGCTACGACGGCGGATCTGGTTTCTCC-GACATTGCAGTTGAAC
1 AGATTGAAGCTACGACGGCGGATCTAGTTTCTCCTGACATTGCAGTTGAAC
*
50991581 AAATTGAAG
1 AGATTGAAG
50991590 ATTACAGATC
Statistics
Matches: 85, Mismatches: 18, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
49 1 0.01
50 79 0.93
51 5 0.06
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (51 bp):
AGATTGAAGCTACGACGGCGGATCTAGTTTCTCCTGACATTGCAGTTGAAC
Found at i:50991589 original size:100 final size:100
Alignment explanation
Indices: 50991384--50991573 Score: 294
Period size: 100 Copynumber: 1.9 Consensus size: 100
50991374 NNNNNNNNNN
* *
50991384 TTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGGAATAGATTGAAACTACGACGG
1 TTGAAGCCACAACGGCGGATCTTACTTCCTGAGCAGTGCAATGGAACAGATTGAAACTACGACGG
50991449 CGGATCTAGTTTTCCTGACATTGCAATTAAAAAGA
66 CGGATCTAGTTTTCCTGACATTGCAATTAAAAAGA
* * *
50991484 TTGAAGCCACAACGGCGGATCTTACTTCCCTGA-CGGTGCGATGGAACAGATTGAAGCTACGACG
1 TTGAAGCCACAACGGCGGATCTTACTT-CCTGAGCAGTGCAATGGAACAGATTGAAACTACGACG
*
50991548 GCGGATCTGGTTTCTCC-GACATTGCA
65 GCGGATCTAGTTT-TCCTGACATTGCA
50991574 GTTGAACAAA
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
100 75 0.91
101 7 0.09
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (100 bp):
TTGAAGCCACAACGGCGGATCTTACTTCCTGAGCAGTGCAATGGAACAGATTGAAACTACGACGG
CGGATCTAGTTTTCCTGACATTGCAATTAAAAAGA
Found at i:50991634 original size:44 final size:44
Alignment explanation
Indices: 50991586--50991767 Score: 111
Period size: 44 Copynumber: 4.1 Consensus size: 44
50991576 TGAACAAATT
*
50991586 GAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATC
1 GAAGATTACAGATCTTATCTCCCTAGGCAGCAGTGGAGTAGATC
** * * * * *
50991630 GAAGATGGCAGATTTTACCTCCCTGAGGTTA-CAGTGGAGTACATT
1 GAAGATTACAGATCTTATCTCCCT-AGG-CAGCAGTGGAGTAGATC
* * * * * *
50991675 GAGGCCAATA-A-TTC-TATCTCCCTGGGCAGCAGTGGAATAGATT
1 GAAG--ATTACAGATCTTATCTCCCTAGGCAGCAGTGGAGTAGATC
* * * * * *
50991718 GAAGATTTCAGATATTGTCTCCCTAAGCAGTAGTGGAGCAGATC
1 GAAGATTACAGATCTTATCTCCCTAGGCAGCAGTGGAGTAGATC
*
50991762 AAAGAT
1 GAAGAT
50991768 GGTGAATTTT
Statistics
Matches: 98, Mismatches: 32, Indels: 16
0.67 0.22 0.11
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 18 0.18
44 55 0.56
45 18 0.18
46 2 0.02
47 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (44 bp):
GAAGATTACAGATCTTATCTCCCTAGGCAGCAGTGGAGTAGATC
Found at i:50991808 original size:132 final size:126
Alignment explanation
Indices: 50991583--50991935 Score: 430
Period size: 132 Copynumber: 2.8 Consensus size: 126
50991573 AGTTGAACAA
* * * * *
50991583 ATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGATGG-CAGATTTTA
1 ATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATCAAAGATGGTGA-ATTTTA
* *
50991647 CCTCCCTG-AGGTTACAGTGGAGTACATTGAGGCCAATAATTCTATCTCCCTGGGCAGCAGTGGA
65 CCTCCCTGTA-GTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGAGCAGC--T-G-
50991711 ATAG
125 -T-G
* *
50991715 ATTGAAGATTTCAGATATTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTAC
1 ATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATCAAAGATGGTGAATTTTAC
* * *
50991780 CTCCCTGTAGTTACAGTGGAGTATATTGAAGCCAGTAATTCTATTTCCCTGAGCAGCTGTG
66 CTCCCTGTAGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGAGCAGCTGTG
* * * *
50991841 ---G-AGATTTCAGATCTTGTCTCTCTAAGCAGTGGTGGAGTAGATCAAAGATAGTGGATTTTAC
1 ATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATCAAAGATGGTGAATTTTAC
* *
50991902 CTCCATGTGGTTACAGTGGAGTACATTGAAGCCA
66 CTCCCTGTAGTTACAGTGGAGTACATTGAAGCCA
50991936 GTTACCCTAT
Statistics
Matches: 198, Mismatches: 21, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
122 85 0.43
123 1 0.01
126 1 0.01
127 1 0.01
129 1 0.01
130 1 0.01
132 106 0.54
133 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (126 bp):
ATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATCAAAGATGGTGAATTTTAC
CTCCCTGTAGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGAGCAGCTGTG
Found at i:50991937 original size:122 final size:122
Alignment explanation
Indices: 50991720--50991953 Score: 360
Period size: 122 Copynumber: 1.9 Consensus size: 122
50991710 AATAGATTGA
* *
50991720 AGATTTCAGATATTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACCTCCC
1 AGATTTCAGATATTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATAGTGAATTTTACCTCCA
* **
50991785 TGTAGTTACAGTGGAGTATATTGAAGCCAGTAATTCTATTTCCCTGAGCAGCTGTGG
66 TGTAGTTACAGTGGAGTACATTGAAGCCAGTAACCCTATTTCCCTGAGCAGCTGTGG
* * * * *
50991842 AGATTTCAGATCTTGTCTCTCTAAGCAGTGGTGGAGTAGATCAAAGATAGTGGATTTTACCTCCA
1 AGATTTCAGATATTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATAGTGAATTTTACCTCCA
* *
50991907 TGTGGTTACAGTGGAGTACATTGAAGCCAGTTACCCTATTTCCCTGA
66 TGTAGTTACAGTGGAGTACATTGAAGCCAGTAACCCTATTTCCCTGA
50991954 TATTGCAGTG
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
122 100 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (122 bp):
AGATTTCAGATATTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATAGTGAATTTTACCTCCA
TGTAGTTACAGTGGAGTACATTGAAGCCAGTAACCCTATTTCCCTGAGCAGCTGTGG
Found at i:50993440 original size:3 final size:3
Alignment explanation
Indices: 50993432--50993492 Score: 86
Period size: 3 Copynumber: 19.7 Consensus size: 3
50993422 CTATTACTTG
* *
50993432 TTA TTA TTA CTA TTA TTG TCTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
50993478 TTA TTA TTCA TTA TT
1 TTA TTA TT-A TTA TT
50993493 TTCATGTACA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
3 47 0.90
4 5 0.10
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:50993630 original size:2 final size:2
Alignment explanation
Indices: 50993619--50993662 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
50993609 CTGCATTTTC
*
50993619 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
50993660 TA T
1 TA T
50993663 GTTCTTAGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:51002097 original size:15 final size:15
Alignment explanation
Indices: 51002077--51002106 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
51002067 TGATAAATTA
*
51002077 AAAAAATTAATTATT
1 AAAAAATTAAGTATT
51002092 AAAAAATTAAGTATT
1 AAAAAATTAAGTATT
51002107 GCATTTTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (15 bp):
AAAAAATTAAGTATT
Found at i:51009417 original size:19 final size:20
Alignment explanation
Indices: 51009385--51009423 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
51009375 AACATTTATC
* *
51009385 TTGTATTTTTATTAT-TTTA
1 TTGTATTATAATTATGTTTA
51009404 TTGTATTATAATTATGTTTA
1 TTGTATTATAATTATGTTTA
51009424 AAGAAAGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.67
Consensus pattern (20 bp):
TTGTATTATAATTATGTTTA
Found at i:51009775 original size:20 final size:20
Alignment explanation
Indices: 51009752--51009790 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
51009742 TTAAAGGGTC
51009752 TTTTTGATGCA-TTTTATAAT
1 TTTTTGATG-ATTTTTATAAT
*
51009772 TTTTTTATGATTTTTATAA
1 TTTTTGATGATTTTTATAA
51009791 AATTTTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.26, C:0.03, G:0.08, T:0.64
Consensus pattern (20 bp):
TTTTTGATGATTTTTATAAT
Found at i:51009776 original size:10 final size:10
Alignment explanation
Indices: 51009763--51009880 Score: 63
Period size: 10 Copynumber: 12.4 Consensus size: 10
51009753 TTTTGATGCA
51009763 TTTTATAATTT
1 TTTTATAA-TT
*
51009774 TTTTATGA-T
1 TTTTATAATT
**
51009783 TTTTATAAAA
1 TTTTATAATT
*
51009793 TTTTACAATT
1 TTTTATAATT
*
51009803 TTTTACAATT
1 TTTTATAATT
*
51009813 TTTTAT-AGT
1 TTTTATAATT
*
51009822 TTTTATTAAAT
1 TTTTA-TAATT
*
51009833 TTTAATAA--
1 TTTTATAATT
**
51009841 TTTTAT-ACC
1 TTTTATAATT
51009850 TTTTAT--TT
1 TTTTATAATT
*
51009858 ATTTAT-ATT
1 TTTTATAATT
51009867 TTTTATAATT
1 TTTTATAATT
51009877 TTTT
1 TTTT
51009881 TGGCCACATG
Statistics
Matches: 85, Mismatches: 15, Indels: 15
0.74 0.13 0.13
Matches are distributed among these distances:
7 1 0.01
8 10 0.12
9 28 0.33
10 33 0.39
11 13 0.15
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTTATAATT
Found at i:51009796 original size:19 final size:18
Alignment explanation
Indices: 51009774--51009847 Score: 51
Period size: 19 Copynumber: 3.8 Consensus size: 18
51009764 TTTATAATTT
51009774 TTTTATGATTTTTATAAAA
1 TTTTAT-ATTTTTATAAAA
* *
51009793 TTTTACAATTTTT-TACAATT
1 TTTTA-TATTTTTATA-AA-A
*
51009813 TTTTATAGTTTTTATTAAA
1 TTTTATA-TTTTTATAAAA
*
51009832 TTTTAATAATTTTATA
1 TTTT-ATATTTTTATA
51009848 CCTTTTATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 12
0.69 0.11 0.20
Matches are distributed among these distances:
18 2 0.05
19 24 0.57
20 15 0.36
21 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (18 bp):
TTTTATATTTTTATAAAA
Found at i:51010504 original size:18 final size:18
Alignment explanation
Indices: 51010469--51010506 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
51010459 GTTCTTTAAA
*
51010469 CTTTCTTTTTCTTTTTTT
1 CTTTCTTTTTCTTCTTTT
51010487 CTTT-TTTTTCATTCTTTT
1 CTTTCTTTTTC-TTCTTTT
51010505 CT
1 CT
51010507 CCTTTTCCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (18 bp):
CTTTCTTTTTCTTCTTTT
Found at i:51026371 original size:23 final size:22
Alignment explanation
Indices: 51026341--51026384 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
51026331 GGATGATTTG
*
51026341 TTTAAAATTCATATAATAAATTA
1 TTTAAAATTCAT-TAAAAAATTA
51026364 TTTAAAATTCATTAAAAAATT
1 TTTAAAATTCATTAAAAAATT
51026385 TTACAGTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTAAAATTCATTAAAAAATTA
Found at i:51028110 original size:49 final size:49
Alignment explanation
Indices: 51028038--51028139 Score: 186
Period size: 49 Copynumber: 2.1 Consensus size: 49
51028028 ATGTGGTTTA
*
51028038 TTGATAAGCTATAAAAGTAACATATTTTAATCACATTCTTAATACATTT
1 TTGATAAGCTATAAAACTAACATATTTTAATCACATTCTTAATACATTT
*
51028087 TTGATAAGCTATAAAACTAACATATTTTAATCACATTTTTAATACATTT
1 TTGATAAGCTATAAAACTAACATATTTTAATCACATTCTTAATACATTT
51028136 TTGA
1 TTGA
51028140 ATGATTAATT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (49 bp):
TTGATAAGCTATAAAACTAACATATTTTAATCACATTCTTAATACATTT
Found at i:51030243 original size:10 final size:10
Alignment explanation
Indices: 51030228--51030255 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
51030218 TTAGTGAGGA
51030228 TGTCGATTCT
1 TGTCGATTCT
51030238 TGTCGATTCT
1 TGTCGATTCT
51030248 TGTCGATT
1 TGTCGATT
51030256 TTGAGTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.18, G:0.21, T:0.50
Consensus pattern (10 bp):
TGTCGATTCT
Found at i:51031571 original size:14 final size:14
Alignment explanation
Indices: 51031549--51031575 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
51031539 TAGTTAAATT
51031549 AGATTAGTATATTC
1 AGATTAGTATATTC
51031563 AGATTAGTATATT
1 AGATTAGTATATT
51031576 TAAATTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (14 bp):
AGATTAGTATATTC
Found at i:51033474 original size:17 final size:17
Alignment explanation
Indices: 51033452--51033485 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
51033442 AAGCCATTTT
51033452 CTCTTTCTGATTAGCAA
1 CTCTTTCTGATTAGCAA
51033469 CTCTTTCTGATTAGCAA
1 CTCTTTCTGATTAGCAA
51033486 TGAAGGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.41
Consensus pattern (17 bp):
CTCTTTCTGATTAGCAA
Found at i:51033798 original size:32 final size:32
Alignment explanation
Indices: 51033754--51033817 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
51033744 ATTATCCAAC
51033754 GATATGGCAGTGAGATACTCAAATAACCTAGA
1 GATATGGCAGTGAGATACTCAAATAACCTAGA
*
51033786 GATATGGGAGTGAGATACTCAAATAACCTAGA
1 GATATGGCAGTGAGATACTCAAATAACCTAGA
51033818 AAAGTATTTG
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:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (32 bp):
GATATGGCAGTGAGATACTCAAATAACCTAGA
Found at i:51038919 original size:113 final size:113
Alignment explanation
Indices: 51038716--51038942 Score: 436
Period size: 113 Copynumber: 2.0 Consensus size: 113
51038706 ACCGTTTCCT
51038716 CAAAATTGATCCCAGCAATTGATGGCATGGATGATCGATCTGGTCTTTTCAAGCACAAAATTTGA
1 CAAAATTGATCCCAGCAATTGATGGCATGGATGATCGATCTGGTCTTTTCAAGCACAAAATTTGA
51038781 ACACCAACAAGAAGCTTACTCATAGTAAAGCCTCTGAATATTCAAATG
66 ACACCAACAAGAAGCTTACTCATAGTAAAGCCTCTGAATATTCAAATG
51038829 CAAAATTGATCCCAGCAATTGATGGCATGGATGATCGATCTGGTCTTTTCAAGCACAAAATTTGA
1 CAAAATTGATCCCAGCAATTGATGGCATGGATGATCGATCTGGTCTTTTCAAGCACAAAATTTGA
* *
51038894 ACACCAACAAGAAGCTTGCTTATAGTAAAGCCTCTGAATATTCAAATG
66 ACACCAACAAGAAGCTTACTCATAGTAAAGCCTCTGAATATTCAAATG
51038942 C
1 C
51038943 CTGCAAAAAA
Statistics
Matches: 112, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
113 112 1.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (113 bp):
CAAAATTGATCCCAGCAATTGATGGCATGGATGATCGATCTGGTCTTTTCAAGCACAAAATTTGA
ACACCAACAAGAAGCTTACTCATAGTAAAGCCTCTGAATATTCAAATG
Found at i:51042107 original size:189 final size:189
Alignment explanation
Indices: 51041787--51042169 Score: 601
Period size: 189 Copynumber: 2.0 Consensus size: 189
51041777 TTCAGAAATA
*
51041787 GCAGCATTCTCCTCAGGCAAATCCTTCTCTGAACCAGAAACTTCATTTACCGAACTCGTCGCAAT
1 GCAGCATTCTCCTCAGGCAAATCCTTCTCTGAACCAGAAACTTCATTTACCGAACTAGTCGCAAT
*
51041852 TCTGGATTCTCCTGAAAACTTTGTTTCACACTGAACCTTATCTACACAATCAGGCAATGATGCTG
66 TCTAGATTCTCCTGAAAACTTTGTTTCACACTGAACCTTATCTACACAATCAGGCAATGATGCTG
* *
51041917 GGTTTTCAGACTCAGATACTGCCTGCCCTTGTGCTTGCTCACTTGGTCTAGTGATTGAT
131 GGTTTTCAGACTCAGATACTACCAGCCCTTGTGCTTGCTCACTTGGTCTAGTGATTGAT
*
51041976 GCAGCATTCTCCTCAGGCAAATCCTTCTGC-GAACCAGAAACTTCATTTACTGAACTAGTCGC-A
1 GCAGCATTCTCCTCAGGCAAATCCTTCT-CTGAACCAGAAACTTCATTTACCGAACTAGTCGCAA
* * * * *
51042039 TTTTCAGATTCTTCTGAAACCTTTGTTTCACACTGAA-CTCTCTCTACAGAATCAGGCAATGATG
65 TTCT-AGATTCTCCTGAAAACTTTGTTTCACACTGAACCT-TATCTACACAATCAGGCAATGATG
* * *
51042103 CTGGGTTTTCAGACTCGGATACTACCAGTCCTTGTGCTTGCTCACTTGGTCTAGTGATTGGT
128 CTGGGTTTTCAGACTCAGATACTACCAGCCCTTGTGCTTGCTCACTTGGTCTAGTGATTGAT
51042165 GCAGC
1 GCAGC
51042170 CACCCTGCCG
Statistics
Matches: 178, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
188 6 0.03
189 171 0.96
190 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.32
Consensus pattern (189 bp):
GCAGCATTCTCCTCAGGCAAATCCTTCTCTGAACCAGAAACTTCATTTACCGAACTAGTCGCAAT
TCTAGATTCTCCTGAAAACTTTGTTTCACACTGAACCTTATCTACACAATCAGGCAATGATGCTG
GGTTTTCAGACTCAGATACTACCAGCCCTTGTGCTTGCTCACTTGGTCTAGTGATTGAT
Found at i:51044164 original size:29 final size:29
Alignment explanation
Indices: 51044109--51044165 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
51044099 GACATTTGAT
* **
51044109 AAGTTTAGGTACCAAATTAACCTAAAAGA
1 AAGTTTAAGTACCAAATTAACAAAAAAGA
*
51044138 AAGTTTAAGTACCAAATTAGAAAAAAAA
1 AAGTTTAAGTACCAAATTA-ACAAAAAA
51044166 TATCAAGTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 18 0.78
30 5 0.22
ACGTcount: A:0.54, C:0.11, G:0.12, T:0.23
Consensus pattern (29 bp):
AAGTTTAAGTACCAAATTAACAAAAAAGA
Found at i:51045040 original size:13 final size:11
Alignment explanation
Indices: 51045012--51045054 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
51045002 AGTTAAATAT
51045012 TATTTTATTAA
1 TATTTTATTAA
51045023 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
51045036 TA-TTTATTAT
1 TATTTTATTAA
51045046 TATTTTATT
1 TATTTTATT
51045055 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:51045041 original size:23 final size:23
Alignment explanation
Indices: 51045015--51045058 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
51045005 TAAATATTAT
51045015 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
51045038 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
51045059 AAATGGTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:51046384 original size:2 final size:2
Alignment explanation
Indices: 51046379--51046425 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
51046369 AAAAATATGA
51046379 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
51046421 AT AT A
1 AT AT A
51046426 GTAGATGAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:51047781 original size:20 final size:21
Alignment explanation
Indices: 51047740--51047797 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
51047730 GGCCCGACCC
51047740 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA-CAAAA
51047762 ATTTATTTTAAAAATA-AAAA
1 ATTTATTTTAAAAATACAAAA
**
51047782 AAGTATTTTAAAAATA
1 ATTTATTTTAAAAATA
51047798 TTTTAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 18 0.55
22 9 0.27
23 6 0.18
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (21 bp):
ATTTATTTTAAAAATACAAAA
Found at i:51047799 original size:11 final size:11
Alignment explanation
Indices: 51047779--51047879 Score: 95
Period size: 11 Copynumber: 9.4 Consensus size: 11
51047769 TTAAAAATAA
51047779 AAAAAGTATTTT
1 AAAAA-TATTTT
51047791 AAAAATATTTT
1 AAAAATATTTT
***
51047802 -AAAAT-TAAA
1 AAAAATATTTT
51047811 AAAAAGTATTTT
1 AAAAA-TATTTT
51047823 AAAAATATTTT
1 AAAAATATTTT
51047834 AAAAATATTTT
1 AAAAATATTTT
**
51047845 --AAA-ATTAA
1 AAAAATATTTT
51047853 AAAAAGTATTTT
1 AAAAA-TATTTT
51047865 AAAAATATTTT
1 AAAAATATTTT
51047876 AAAA
1 AAAA
51047880 TTAAAAAAAT
Statistics
Matches: 72, Mismatches: 10, Indels: 15
0.74 0.10 0.15
Matches are distributed among these distances:
8 3 0.04
9 4 0.06
10 12 0.17
11 34 0.47
12 19 0.26
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:51047818 original size:32 final size:31
Alignment explanation
Indices: 51047765--51047840 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 31
51047755 ACCAAAAATT
51047765 TATTTTAAAAATAAAAAAAGTATTTTAAAAA
1 TATTTTAAAAATAAAAAAAGTATTTTAAAAA
*
51047796 TATTTTAAAATTAAAAAAAAGTATTTTAAAAA
1 TATTTTAAAAAT-AAAAAAAGTATTTTAAAAA
51047828 TATTTTAAAAATA
1 TATTTTAAAAATA
51047841 TTTTAAAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
31 12 0.29
32 30 0.71
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (31 bp):
TATTTTAAAAATAAAAAAAGTATTTTAAAAA
Found at i:51047866 original size:31 final size:30
Alignment explanation
Indices: 51047823--51047899 Score: 136
Period size: 31 Copynumber: 2.5 Consensus size: 30
51047813 AAAGTATTTT
51047823 AAAAATATTTTAAAAATATTTTAAAATTAA
1 AAAAATATTTTAAAAATATTTTAAAATTAA
51047853 AAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAA-TATTTTAAAAATATTTTAAAATTAA
51047884 AAAAATTATTTTAAAA
1 AAAAA-TATTTTAAAA
51047900 TTTAAAAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 5 0.11
31 40 0.89
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (30 bp):
AAAAATATTTTAAAAATATTTTAAAATTAA
Found at i:51047868 original size:42 final size:43
Alignment explanation
Indices: 51047779--51047879 Score: 186
Period size: 42 Copynumber: 2.3 Consensus size: 43
51047769 TTAAAAATAA
51047779 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAAGTATTTT
1 AAAAA-TATTTTAAAAATATTTTAAAATTAAAAAAAAGTATTTT
51047823 AAAAATATTTTAAAAATATTTTAAAATT-AAAAAAAGTATTTT
1 AAAAATATTTTAAAAATATTTTAAAATTAAAAAAAAGTATTTT
51047865 AAAAATATTTTAAAA
1 AAAAATATTTTAAAA
51047880 TTAAAAAAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
42 29 0.51
43 23 0.40
44 5 0.09
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (43 bp):
AAAAATATTTTAAAAATATTTTAAAATTAAAAAAAAGTATTTT
Found at i:51047901 original size:11 final size:11
Alignment explanation
Indices: 51047780--51047901 Score: 83
Period size: 11 Copynumber: 11.5 Consensus size: 11
51047770 TAAAAATAAA
*
51047780 AAAAGTATTTT
1 AAAATTATTTT
*
51047791 AAAAATATTTT
1 AAAATTATTTT
***
51047802 AAAATTA-AAA
1 AAAATTATTTT
*
51047812 AAAAGTATTTT
1 AAAATTATTTT
*
51047823 AAAAATATTTT
1 AAAATTATTTT
*
51047834 AAAAATATTTT
1 AAAATTATTTT
**
51047845 AAAATTA--AA
1 AAAATTATTTT
*
51047854 AAAAGTATTTT
1 AAAATTATTTT
*
51047865 AAAAATATTTT
1 AAAATTATTTT
**
51047876 AAAATTA--AA
1 AAAATTATTTT
51047885 AAAATTATTTT
1 AAAATTATTTT
51047896 AAAATT
1 AAAATT
51047902 TAAAAAATAA
Statistics
Matches: 84, Mismatches: 22, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
9 13 0.15
10 6 0.07
11 65 0.77
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
AAAATTATTTT
Done.