Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold405
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: 752937
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.30
Warning! 86412 characters in sequence are not A, C, G, or T
File 3 of 5
Found at i:349683 original size:11 final size:11
Alignment explanation
Indices: 349622--349684 Score: 60
Period size: 11 Copynumber: 5.8 Consensus size: 11
349612 AAATAAAATA
349622 AATTTAAA-TT
1 AATTTAAATTT
*
349632 -ATTAAAATATT
1 AATTTAAAT-TT
*
349643 AATTCAAATTT
1 AATTTAAATTT
349654 AATTTAAA-TT
1 AATTTAAATTT
*
349664 ATTTATAAATTT
1 AATT-TAAATTT
349676 AATTTAAAT
1 AATTTAAAT
349685 ATATTAATGC
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
9 6 0.14
10 5 0.12
11 20 0.47
12 12 0.28
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (11 bp):
AATTTAAATTT
Found at i:354437 original size:12 final size:13
Alignment explanation
Indices: 354411--354456 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
354401 TGAAATAAGG
*
354411 TATA-TTTATTGT
1 TATATTTTATTAT
354423 TATATTTTATT-T
1 TATATTTTATTAT
*
354435 TATTTTTTATTAT
1 TATATTTTATTAT
*
354448 TATTTTTTA
1 TATATTTTA
354457 AAAAAAATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
12 15 0.48
13 16 0.52
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (13 bp):
TATATTTTATTAT
Found at i:354438 original size:18 final size:18
Alignment explanation
Indices: 354415--354453 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
354405 ATAAGGTATA
354415 TTTATTGTTATATT-TTAT
1 TTTATT-TTATATTATTAT
*
354433 TTTATTTTTTATTATTAT
1 TTTATTTTATATTATTAT
354451 TTT
1 TTT
354454 TTAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTATTTTATATTATTAT
Found at i:355302 original size:12 final size:12
Alignment explanation
Indices: 355273--355301 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
355263 AAAGTTTATG
355273 GAAAAACAACAT
1 GAAAAACAACAT
355285 GAAAAAC-ACAT
1 GAAAAACAACAT
355296 GAAAAA
1 GAAAAA
355302 ATGATTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.69, C:0.14, G:0.10, T:0.07
Consensus pattern (12 bp):
GAAAAACAACAT
Found at i:355523 original size:17 final size:16
Alignment explanation
Indices: 355501--355539 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
355491 TTTTTTTATC
*
355501 CTTTTTTTCCTTTTTT
1 CTTTTTTTCCTTCTTT
*
355517 CTCTTTTTTTCTTCTTT
1 CT-TTTTTTCCTTCTTT
355534 CTTTTT
1 CTTTTT
355540 CTCTCCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
CTTTTTTTCCTTCTTT
Found at i:356455 original size:165 final size:164
Alignment explanation
Indices: 356139--356457 Score: 361
Period size: 165 Copynumber: 1.9 Consensus size: 164
356129 TAAATTGAAG
* ** * * ** * *
356139 AAAACCCCTCGAAAACATTTATGGGATAAAAAATTCGATTTTTCAGAAATAAGGGCATTTTAAGG
1 AAAACCCCTCAAAAACATTTATGAAATAAAAAACTCGATTTTTCAAAAATAAAAGAATTTCAAGG
* ** * *
356204 AAAAAATGAAAAACTCATGGAAATAAATGAAAATTTCAAAACTGATTTATCAAAAATTAAATGAT
66 AAAAAATAAAAAACTCATAAAAATAAATGAAAATTTCAAAACTAATTTATCAAAAATTAAATAAT
* *
356269 GACATTTTATGAATATTAAAATTTTGGACTGAGA
131 AACATTTGATGAATATTAAAATTTTGGACTGAGA
* * *
356303 AAAACCCTCTCAAAAACCTTTATGAAATAGAAAACTCGATTTTTTAAAAATAAAAGAATTTCAAG
1 AAAACCC-CTCAAAAACATTTATGAAATAAAAAACTCGATTTTTCAAAAATAAAAGAATTTCAAG
* ** * ***
356368 GGAAAAATAAAAAACTCATAAAAATAAATGAATTTTTCAAAACTAATTTAAT-GATGTTTAAATA
65 GAAAAAATAAAAAACTCATAAAAATAAATGAAAATTTCAAAACTAATTT-ATCAAAAATTAAATA
* *
356432 ATAATATTTGATGAATTTTAAAATTT
129 ATAACATTTGATGAATATTAAAATTT
356458 ATAAAACAAG
Statistics
Matches: 125, Mismatches: 28, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
164 7 0.06
165 116 0.93
166 2 0.02
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (164 bp):
AAAACCCCTCAAAAACATTTATGAAATAAAAAACTCGATTTTTCAAAAATAAAAGAATTTCAAGG
AAAAAATAAAAAACTCATAAAAATAAATGAAAATTTCAAAACTAATTTATCAAAAATTAAATAAT
AACATTTGATGAATATTAAAATTTTGGACTGAGA
Found at i:357622 original size:83 final size:83
Alignment explanation
Indices: 357413--357703 Score: 279
Period size: 84 Copynumber: 3.5 Consensus size: 83
357403 GACTGGGATA
* * * * *
357413 AAATCGACAAGTCAACAAAGGATAACTAA-A-TTTACAAAGGACTAAGCCTACAAGTAAACAAGG
1 AAATCGATAAGTCAACAAAGGGTAA--AAGAGTTCACCAAGGACTAAGCCAACAAGTAAACAAGG
*
357476 GATGAAAGGTTGACCATA-GCT
64 GATGAAAGGTT-AACA-AGGCT
* * ** * *
357497 CAACCGATAAGTCAACAAAGGGTAAGGGAGTTTACCAAGGACTAAGCCAACAAGTAAAC-AGAGA
1 AAATCGATAAGTCAACAAAGGGTAAAAGAGTTCACCAAGGACTAAGCCAACAAGTAAACAAGGGA
*
357561 TGAAAAGTTAATCAAGGCT
66 TGAAAGGTTAA-CAAGGCT
* * * * * * * *
357580 AAATCGATAAGTCAACAAAAGATAAAAGAGTTCACTAGGGACTGAGGCGACAAGTAAGCAAGGGA
1 AAATCGATAAGTCAACAAAGGGTAAAAGAGTTCACCAAGGACTAAGCCAACAAGTAAACAAGGGA
*
357645 T-ACAAGGTTAACTAGGGCT
66 TGA-AAGGTTAAC-AAGGCT
357664 AAATCGATAAGTCAACAAAGGGTAAAAGAGTT-ACCAAGGA
1 AAATCGATAAGTCAACAAAGGGTAAAAGAGTTCACCAAGGA
357704 TCGAGCCAAC
Statistics
Matches: 169, Mismatches: 31, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
82 2 0.01
83 72 0.43
84 95 0.56
ACGTcount: A:0.45, C:0.15, G:0.23, T:0.16
Consensus pattern (83 bp):
AAATCGATAAGTCAACAAAGGGTAAAAGAGTTCACCAAGGACTAAGCCAACAAGTAAACAAGGGA
TGAAAGGTTAACAAGGCT
Found at i:357685 original size:42 final size:43
Alignment explanation
Indices: 357576--357696 Score: 126
Period size: 42 Copynumber: 2.9 Consensus size: 43
357566 AGTTAATCAA
* *
357576 GGCTAAATCGATAAGTCAACAAA-AGATAAAAGAGTTCACTAG
1 GGCTAAATCGATAAGTCAACAAAGGGATAAAAGAGTTAACTAG
* ** * *
357618 GGACTGAGGCGACAAGT-AAGC-AAGGGATACAAG-GTTAACTAG
1 GG-CTAAATCGATAAGTCAA-CAAAGGGATAAAAGAGTTAACTAG
357660 GGCTAAATCGATAAGTCAACAAAGGG-TAAAAGAGTTA
1 GGCTAAATCGATAAGTCAACAAAGGGATAAAAGAGTTA
357697 CCAAGGATCG
Statistics
Matches: 61, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
41 16 0.26
42 27 0.44
43 18 0.30
ACGTcount: A:0.44, C:0.13, G:0.26, T:0.17
Consensus pattern (43 bp):
GGCTAAATCGATAAGTCAACAAAGGGATAAAAGAGTTAACTAG
Found at i:358367 original size:132 final size:132
Alignment explanation
Indices: 358113--358729 Score: 647
Period size: 132 Copynumber: 4.7 Consensus size: 132
358103 TGAAAAGAGC
* ** * * * *
358113 TTAACCAGGGTGGTAACCACACATTAAGT-AGGAATGAAAGGAGTCTGACCAGGGTGGT-ATCCA
1 TTAACCAAGGTGGTAACCATGCATAAAATCA-GAATGAAAAGAATCTGACCAGGGTGGTAAT-CA
* * ** *
358176 TACGTCAAACCGACTTGAAAAAAGTTTGACCAAGGTGGTAACCATA-AGTCAAACAGGAAGGAGG
64 TACGTTAGACCGAAATGAAAAGAGTTTGACCAAGGTGGTAACCATACA-TCAAACAGGAAGGAGG
358240 CAGAT
128 CAGAT
* * * *
358245 TTAACCAAGGTGGTAACCATGCGTAAAATTAGAATTG-AAATAATCTGTCCAGGGTGGTAATCAT
1 TTAACCAAGGTGGTAACCATGCATAAAATCAGAA-TGAAAAGAATCTGACCAGGGTGGTAATCAT
* * * * *
358309 GCGTCAGACCGAAATGAAAAGAGTTTGACCAGGGTGGTAACCATACATTAAATAGGAAGGAGGCA
65 ACGTTAGACCGAAATGAAAAGAGTTTGACCAAGGTGGTAACCATACATCAAACAGGAAGGAGGCA
358374 GAT
130 GAT
* ** * ** *
358377 TTAACCAAGGTGGTAATCATGTGTCAAATCAGAATGAAAAGAATCTGAATAGGGTGGTAATCATG
1 TTAACCAAGGTGGTAACCATGCATAAAATCAGAATGAAAAGAATCTGACCAGGGTGGTAATCATA
* * * * * * *
358442 CATTAGACCGAAATGAAAAGAGTTTGACCAAGGTAGCAACCATACATCAAATAAGAAGAAGGTAG
66 CGTTAGACCGAAATGAAAAGAGTTTGACCAAGGTGGTAACCATACATCAAACAGGAAGGAGGCAG
358507 AT
131 AT
* * * * * * * *
358509 TTGACCAGGGTGGTAACCATACATCAAATCAGAATGGAAAGAATTTGACCATGGTGGTAACCATA
1 TTAACCAAGGTGGTAACCATGCATAAAATCAGAATGAAAAGAATCTGACCAGGGTGGTAATCATA
* * * * *
358574 TGTTAGACCGAATTGAGAAGAGTTTGACCAAGGTGGTAACCATAAATCAAACAGGAAGG-GAACA
66 CGTTAGACCGAAATGAAAAGAGTTTGACCAAGGTGGTAACCATACATCAAACAGGAAGGAG-GCA
358638 GAT
130 GAT
* * * *
358641 TTGACTAAGGTGGTAACCATGCATAAAATCAGAATGAAAAGAATCTGACTAGGGTGGTAACCAT-
1 TTAACCAAGGTGGTAACCATGCATAAAATCAGAATGAAAAGAATCTGACCAGGGTGGTAATCATA
* *
358705 --TTAGACTGAAATGAGAAGAGTTTGA
66 CGTTAGACCGAAATGAAAAGAGTTTGA
358730 GTAGATACAG
Statistics
Matches: 409, Mismatches: 70, Indels: 15
0.83 0.14 0.03
Matches are distributed among these distances:
129 23 0.06
131 3 0.01
132 377 0.92
133 6 0.01
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (132 bp):
TTAACCAAGGTGGTAACCATGCATAAAATCAGAATGAAAAGAATCTGACCAGGGTGGTAATCATA
CGTTAGACCGAAATGAAAAGAGTTTGACCAAGGTGGTAACCATACATCAAACAGGAAGGAGGCAG
AT
Found at i:358701 original size:44 final size:44
Alignment explanation
Indices: 357936--358704 Score: 304
Period size: 44 Copynumber: 17.5 Consensus size: 44
357926 ACAAGAAATG
* * * *
357936 TTTGACCAGAGTGGTAATCATACGTCAAAT-AGGAATGAAAAGAG
1 TTTGACCAGGGTGGTAACCATACATCAAATCA-GAATGAAAAGAA
* * * * ** ** **
357980 CTTAACCAAGGTGATAACCGCATGTCAAATGGGAATGAAAA-AA
1 TTTGACCAGGGTGGTAACCATACATCAAATCAGAATGAAAAGAA
* * * * **
358023 GTCTGACCATGGAGGTAACCATACACCTGATC-GAAATGAGAAACG--
1 -TTTGACCAGGGTGGTAACCATACATCAAATCAG-AATGA-AAA-GAA
* * * *
358068 TTTGACCAGAGTTGTAATCATACATCAAA-CGAGAATGAAAAGAG
1 TTTGACCAGGGTGGTAACCATACATCAAATC-AGAATGAAAAGAA
* * * * * * *
358112 CTTAACCAGGGTGGTAACCACACATTAAGT-AGGAATGAAAGGAG
1 TTTGACCAGGGTGGTAACCATACATCAAATCA-GAATGAAAAGAA
* * * * *
358156 TCTGACCAGGGTGGTATCCATACGTCAAA-CCGACTTGAAAA-AA
1 TTTGACCAGGGTGGTAACCATACATCAAATCAGA-ATGAAAAGAA
* * **
358199 GTTTGACCAAGGTGGTAACCATA-AGTCAAA-CAGGAAGGAGGCAG-A
1 -TTTGACCAGGGTGGTAACCATACA-TCAAATCA-GAATGA-AAAGAA
* * * * * * *
358244 TTTAACCAAGGTGGTAACCATGCGTAAAATTAGAATTG-AAATAA
1 TTTGACCAGGGTGGTAACCATACATCAAATCAGAA-TGAAAAGAA
* * * * * * * *
358288 TCTGTCCAGGGTGGTAATCATGCGTCAGA-CCGAAATGAAAAGAG
1 TTTGACCAGGGTGGTAACCATACATCAAATCAG-AATGAAAAGAA
* * **
358332 TTTGACCAGGGTGGTAACCATACATTAAAT-AGGAAGGAGGCAG-A
1 TTTGACCAGGGTGGTAACCATACATCAAATCA-GAATGA-AAAGAA
* * * ***
358376 TTTAACCAAGGTGGTAATCATGTGTCAAATCAGAATGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACATCAAATCAGAATGAAAAGAA
* ** * * * * * *
358420 TCTGAATAGGGTGGTAATCATGCATTAGA-CCGAAATGAAAAGAG
1 TTTGACCAGGGTGGTAACCATACATCAAATCAG-AATGAAAAGAA
* * * * *
358464 TTTGACCAAGGTAGCAACCATACATCAAATAAGAA-G-AAGGTAGA
1 TTTGACCAGGGTGGTAACCATACATCAAATCAGAATGAAAAG-A-A
*
358508 TTTGACCAGGGTGGTAACCATACATCAAATCAGAATGGAAAGAA
1 TTTGACCAGGGTGGTAACCATACATCAAATCAGAATGAAAAGAA
* ** * * * * *
358552 TTTGACCATGGTGGTAACCATATGTTAGA-CCGAATTGAGAAGAG
1 TTTGACCAGGGTGGTAACCATACATCAAATCAGAA-TGAAAAGAA
* * * *
358596 TTTGACCAAGGTGGTAACCATAAATCAAA-CAGGAAGGGAACAG-A
1 TTTGACCAGGGTGGTAACCATACATCAAATCA-GAA-TGAAAAGAA
* * * *
358640 TTTGACTAAGGTGGTAACCATGCATAAAATCAGAATGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACATCAAATCAGAATGAAAAGAA
* *
358684 TCTGACTAGGGTGGTAACCAT
1 TTTGACCAGGGTGGTAACCAT
358705 TTAGACTGAA
Statistics
Matches: 521, Mismatches: 164, Indels: 80
0.68 0.21 0.10
Matches are distributed among these distances:
42 4 0.01
43 29 0.06
44 459 0.88
45 26 0.05
46 3 0.01
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (44 bp):
TTTGACCAGGGTGGTAACCATACATCAAATCAGAATGAAAAGAA
Found at i:358818 original size:54 final size:54
Alignment explanation
Indices: 358742--358846 Score: 192
Period size: 54 Copynumber: 1.9 Consensus size: 54
358732 AGATACAGCT
* *
358742 AAACGATGATGGGAAGATTTTGACCAGATACAGTCAAATGATGGTAGAAAGAAC
1 AAACGATGATGGGAAGAGTTTGACCAGATACAGTCAAATGATGATAGAAAGAAC
358796 AAACGATGATGGGAAGAGTTTGACCAGATACAGTCAAATGATGATAGAAAG
1 AAACGATGATGGGAAGAGTTTGACCAGATACAGTCAAATGATGATAGAAAG
358847 CATTTGATAC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.43, C:0.10, G:0.27, T:0.20
Consensus pattern (54 bp):
AAACGATGATGGGAAGAGTTTGACCAGATACAGTCAAATGATGATAGAAAGAAC
Found at i:358898 original size:35 final size:35
Alignment explanation
Indices: 358852--358968 Score: 130
Period size: 35 Copynumber: 3.3 Consensus size: 35
358842 GAAAGCATTT
* *
358852 GATACAATCAAACAATTGTGGAAATAGTTTGACTA
1 GATACAGTCAAACAATTGTGAAAATAGTTTGACTA
* *
358887 GATACAGTCAAACTATGGTGAAAATAGTTTGAGC-A
1 GATACAGTCAAACAATTGTGAAAATAGTTTGA-CTA
* * * *
358922 AATATAGTCAAACGA-TGATGCAAATAGTTTGACTA
1 GATACAGTCAAACAATTG-TGAAAATAGTTTGACTA
358957 GATACAGTCAAA
1 GATACAGTCAAA
358969 TGATAGAAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
34 2 0.03
35 65 0.96
36 1 0.01
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.26
Consensus pattern (35 bp):
GATACAGTCAAACAATTGTGAAAATAGTTTGACTA
Found at i:358918 original size:65 final size:67
Alignment explanation
Indices: 358812--358972 Score: 161
Period size: 70 Copynumber: 2.4 Consensus size: 67
358802 TGATGGGAAG
* * *
358812 AGTTTGACCAGATACAGTCAAATGATGATAGAAAGCATTT-G-ATACAATCAAACAATTG-TGGA
1 AGTTTGACTAGATACAGTCAAATGATGATAGAAAACATTTAGAATACAATCAAACAA-TGATGCA
358874 AAT
65 AAT
* * * * *
358877 AGTTTGACTAGATACAGTCAAACT-ATGGT-GAAAATAGTTTGAGCAAATATAGTCAAACGATGA
1 AGTTTGACTAGATACAGTCAAA-TGATGATAGAAAACA-TTT-AG--AATACAATCAAACAATGA
358940 TGCAAAT
61 TGCAAAT
358947 AGTTTGACTAGATACAGTCAAATGAT
1 AGTTTGACTAGATACAGTCAAATGAT
358973 AGAAAATTTG
Statistics
Matches: 79, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
64 5 0.06
65 28 0.35
66 1 0.01
67 1 0.01
69 3 0.04
70 41 0.52
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (67 bp):
AGTTTGACTAGATACAGTCAAATGATGATAGAAAACATTTAGAATACAATCAAACAATGATGCAA
AT
Found at i:359813 original size:74 final size:75
Alignment explanation
Indices: 359683--359865 Score: 203
Period size: 75 Copynumber: 2.4 Consensus size: 75
359673 ATTTTTACAC
* * * * * *
359683 TTTCCATTAATAGCTGAAACAAACTGAA-AAGATA-CTGACGAAGATAATCATGATGGGGAATAC
1 TTTCCATCAAAAGCTAAAACAAACT-AACAAGA-AGTTGA-GAAGATAATCATAATGGGAAATAC
359746 ATGG-TTCTAAAA
63 ATGGTTTCTAAAA
* * **
359758 TTTCCATTAAAAG-TCAAAACAAGCTAACAAGAAGTTGAGAAGATAATCATAATGGGAAATATGT
1 TTTCCATCAAAAGCT-AAAACAAACTAACAAGAAGTTGAGAAGATAATCATAATGGGAAATACAT
359822 GGTTTCTAAAA
65 GGTTTCTAAAA
*
359833 TTTTCATCAAAAGCTAAAACAAACTAACAAGAA
1 TTTCCATCAAAAGCTAAAACAAACTAACAAGAA
359866 TGATGATATT
Statistics
Matches: 92, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
74 28 0.30
75 63 0.68
76 1 0.01
ACGTcount: A:0.46, C:0.13, G:0.16, T:0.25
Consensus pattern (75 bp):
TTTCCATCAAAAGCTAAAACAAACTAACAAGAAGTTGAGAAGATAATCATAATGGGAAATACATG
GTTTCTAAAA
Found at i:360621 original size:88 final size:87
Alignment explanation
Indices: 360506--360771 Score: 234
Period size: 88 Copynumber: 3.0 Consensus size: 87
360496 GAAAAATTAG
* * *
360506 TAAAGAGGCAAATACATATGATATGATGCAGATACCAATGTCATGTAAAATGCAAATATGCATGA
1 TAAAGAGGCAAATGCATATGAAATGATGCAAATACCAATGTCAT-TAAAATGCAAATATGCATGA
*
360571 AACAATGCAAATACAGGCATCAA
65 AACAATGCAAATACAAGCATCAA
* * * * **
360594 TAAAGTGGCAAATGCATATTAAATGATGCAAATGCCAAATGTTATTTGAATG-AAAT-TGCATGT
1 TAAAGAGGCAAATGCATATGAAATGATGCAAATACC-AATGTCATTAAAATGCAAATATGCATG-
** *
360657 AAA-ATGATATAAATGCAAGCATCAA
64 AAACA--ATGCAAATACAAGCATCAA
* * * * * * *
360682 CAAAGGGGCAAACGCATATGCAATGATGCAAAAACCAATGTCATATAAAATCCAAATATAG-GTG
1 TAAAGAGGCAAATGCATATGAAATGATGCAAATACCAATGTCAT-TAAAATGCAAATAT-GCATG
* * *
360746 AGACAATGCAAATGCAATCATCAA
64 AAACAATGCAAATACAAGCATCAA
360770 TA
1 TA
360772 GTATAACAAA
Statistics
Matches: 139, Mismatches: 30, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
86 7 0.05
87 14 0.10
88 100 0.72
89 13 0.09
90 4 0.03
91 1 0.01
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (87 bp):
TAAAGAGGCAAATGCATATGAAATGATGCAAATACCAATGTCATTAAAATGCAAATATGCATGAA
ACAATGCAAATACAAGCATCAA
Found at i:362086 original size:21 final size:20
Alignment explanation
Indices: 362062--362105 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
362052 TGCAACTGAA
362062 TTTTCCTTTTCTCTTTGTTTT
1 TTTTCCTTTTCTCTTT-TTTT
** *
362083 TTTTTGTTTTTTCTTTTTTT
1 TTTTCCTTTTCTCTTTTTTT
362103 TTT
1 TTT
362106 CTTTTTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (20 bp):
TTTTCCTTTTCTCTTTTTTT
Found at i:362090 original size:10 final size:10
Alignment explanation
Indices: 362075--362117 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
362065 TCCTTTTCTC
362075 TTTGTTTTTT
1 TTTGTTTTTT
362085 TTTGTTTTTT
1 TTTGTTTTTT
362095 CTTT-TTTTTT
1 -TTTGTTTTTT
*
362105 TCT-TTTTTT
1 TTTGTTTTTT
362114 TTTG
1 TTTG
362118 AAAATCCATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 10 0.34
10 16 0.55
11 3 0.10
ACGTcount: A:0.00, C:0.05, G:0.07, T:0.88
Consensus pattern (10 bp):
TTTGTTTTTT
Found at i:362093 original size:11 final size:11
Alignment explanation
Indices: 362068--362116 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
362058 TGAATTTTCC
* *
362068 TTTTCTCTTTG
1 TTTTTTCTTTT
*
362079 TTTTTT-TTTG
1 TTTTTTCTTTT
362089 TTTTTTCTTTT
1 TTTTTTCTTTT
362100 TTTTTTCTTTT
1 TTTTTTCTTTT
362111 TTTTTT
1 TTTTTT
362117 GAAAATCCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
10 10 0.29
11 25 0.71
ACGTcount: A:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:362093 original size:28 final size:28
Alignment explanation
Indices: 362062--362115 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
362052 TGCAACTGAA
*
362062 TTTTCCTTTTCTCTTTGTTTTTTTTTGT
1 TTTTCCTTTTCTCTTTCTTTTTTTTTGT
* * *
362090 TTTTTCTTTTTTTTTTCTTTTTTTTT
1 TTTTCCTTTTCTCTTTCTTTTTTTTT
362116 TGAAAATCCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.00, C:0.11, G:0.04, T:0.85
Consensus pattern (28 bp):
TTTTCCTTTTCTCTTTCTTTTTTTTTGT
Found at i:362100 original size:18 final size:17
Alignment explanation
Indices: 362079--362116 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
362069 TTTCTCTTTG
*
362079 TTTTTTTTTGTTTTTTCT
1 TTTTTTTTTCTTTTTT-T
362097 TTTTTTTTTCTTTTTTT
1 TTTTTTTTTCTTTTTTT
362114 TTT
1 TTT
362117 GAAAATCCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.00, C:0.05, G:0.03, T:0.92
Consensus pattern (17 bp):
TTTTTTTTTCTTTTTTT
Found at i:362113 original size:21 final size:21
Alignment explanation
Indices: 362068--362116 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
362058 TGAATTTTCC
*
362068 TTTTCTCTTTGTTTTTTTTTG
1 TTTTTTCTTTGTTTTTTTTTG
* *
362089 TTTTTTCTTTTTTTTTTCTTTT
1 TTTTTTCTTTGTTTTTT-TTTG
362111 TTTTTT
1 TTTTTT
362117 GAAAATCCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (21 bp):
TTTTTTCTTTGTTTTTTTTTG
Found at i:372056 original size:26 final size:25
Alignment explanation
Indices: 372014--372067 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
372004 ATAATTAATG
372014 AATAAAATAATATTATATTATTAAA
1 AATAAAATAATATTATATTATTAAA
* * *
372039 AATAAAATTATTTATATATTTTTAAA
1 AATAAAATAATAT-TATATTATTAAA
372065 AAT
1 AAT
372068 TTTTAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 11 0.44
26 14 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
AATAAAATAATATTATATTATTAAA
Found at i:377057 original size:16 final size:14
Alignment explanation
Indices: 377034--377086 Score: 63
Period size: 14 Copynumber: 3.7 Consensus size: 14
377024 GTTCTTTTCC
377034 AAAAAAAGAAACAA
1 AAAAAAAGAAACAA
*
377048 AATGAAAAAGGAA-AA
1 AA--AAAAAGAAACAA
*
377063 AAAAGAAGAAACAA
1 AAAAAAAGAAACAA
377077 AAAAAAAGAA
1 AAAAAAAGAA
377087 GAAGAAGAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
13 7 0.22
14 13 0.41
15 4 0.12
16 8 0.25
ACGTcount: A:0.81, C:0.04, G:0.13, T:0.02
Consensus pattern (14 bp):
AAAAAAAGAAACAA
Found at i:377081 original size:26 final size:28
Alignment explanation
Indices: 377034--377096 Score: 69
Period size: 26 Copynumber: 2.3 Consensus size: 28
377024 GTTCTTTTCC
*
377034 AAAAA-AAGAAACAAAATGAAAAAGGAAA
1 AAAAAGAAGAAACAAAA-GAAAAAAGAAA
*
377062 AAAAAGAAGAAAC-AAA-AAAAAAGAAG
1 AAAAAGAAGAAACAAAAGAAAAAAGAAA
*
377088 AAGAAGAAG
1 AAAAAGAAG
377097 GGAAAAACCC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 16 0.52
28 8 0.26
29 7 0.23
ACGTcount: A:0.78, C:0.03, G:0.17, T:0.02
Consensus pattern (28 bp):
AAAAAGAAGAAACAAAAGAAAAAAGAAA
Found at i:378085 original size:32 final size:32
Alignment explanation
Indices: 378046--378329 Score: 278
Period size: 32 Copynumber: 8.9 Consensus size: 32
378036 AAATACCTTC
*
378046 TTAAAGTCCACGATTCAGTGGCATCCTTTTCT
1 TTAAAGTCCACGACTCAGTGGCATCCTTTTCT
378078 TTAAAGTCCACGACTCAGTGGCATCCTTTTCT
1 TTAAAGTCCACGACTCAGTGGCATCCTTTTCT
*
378110 TCAAAGTCCACGACTCAGTGGCATCCTTTTCT
1 TTAAAGTCCACGACTCAGTGGCATCCTTTTCT
*
378142 TCAAAGTCCACGACTCAGTGGCAT--TTTGTC-
1 TTAAAGTCCACGACTCAGTGGCATCCTTT-TCT
* * *
378172 TCAAAGTCCATGACTCAGTGGCAT-TTTTTCT
1 TTAAAGTCCACGACTCAGTGGCATCCTTTTCT
* * * *
378203 TCAAAGCCCACAACTCCGTGGCA-CCTTTTCCT
1 TTAAAGTCCACGACTCAGTGGCATCCTTTT-CT
* * *
378235 TTAAAGCCCACAACTCTGTGGCA-CCTTCTTCTT
1 TTAAAGTCCACGACTCAGTGGCATCCTT-TTC-T
* * * *
378268 TTCAAAGCCCACAACTCCGTGGCA-CCTTTCCT
1 TT-AAAGTCCACGACTCAGTGGCATCCTTTTCT
* * *
378300 TCT-AAGTCCACAACTCCGTGGCACCCTTTT
1 T-TAAAGTCCACGACTCAGTGGCATCCTTTT
378330 AAAGCCCACA
Statistics
Matches: 228, Mismatches: 14, Indels: 20
0.87 0.05 0.08
Matches are distributed among these distances:
30 28 0.12
31 47 0.21
32 121 0.53
33 8 0.04
34 24 0.11
ACGTcount: A:0.22, C:0.32, G:0.15, T:0.32
Consensus pattern (32 bp):
TTAAAGTCCACGACTCAGTGGCATCCTTTTCT
Found at i:378149 original size:64 final size:63
Alignment explanation
Indices: 378043--378357 Score: 306
Period size: 64 Copynumber: 5.0 Consensus size: 63
378033 GTCAAATACC
* * * *
378043 TTCTT-AAAGTCCACGATTCAGTGGCATCCTTTTCTTTAAAGTCCACGACTCAGTGGCATCCTT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGCCCACAACTCAGTGGCA-CCTT
* *
378106 TTCTTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGTCCACGACTCAGTGGCA--TT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGCCCACAACTCAGTGGCACCTT
* * * *
378167 TTGTCTCAAAGTCCATGACTCAGTGGCAT-TTTTTCTTCAAAGCCCACAACTCCGTGGCACCTT
1 TTCT-TCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGCCCACAACTCAGTGGCACCTT
* * * * *
378230 TTCCTTTAAAGCCCACAACTCTGTGGCA-CCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACC
1 TT-CTTCAAAGTCCACGACTCAGTGGCATCCTT-TTC--TTCAAAGCCCACAACTCAGTGGCACC
378294 TT
62 TT
* * * * * * *
378296 TCCTTCTAAGTCCACAACTCCGTGGCA-CC-CTT-TT-AAAGCCCACAATTCCGTGGCACTCTT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGCCCACAACTCAGTGGCAC-CTT
378356 TT
1 TT
378358 TTTCTTTTAA
Statistics
Matches: 219, Mismatches: 23, Indels: 23
0.83 0.09 0.09
Matches are distributed among these distances:
59 21 0.10
60 6 0.03
61 31 0.14
62 23 0.11
63 31 0.14
64 55 0.25
65 23 0.11
66 29 0.13
ACGTcount: A:0.22, C:0.32, G:0.15, T:0.32
Consensus pattern (63 bp):
TTCTTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGCCCACAACTCAGTGGCACCTT
Found at i:378311 original size:97 final size:95
Alignment explanation
Indices: 378046--378421 Score: 311
Period size: 93 Copynumber: 3.9 Consensus size: 95
378036 AAATACCTTC
* * * * *
378046 TTAAAGTCCACGATTCAGTGGCATCCTTTTC-TTTAAAGTCCACGACTCAGTGGCATCCTTTTCT
1 TTAAAGCCCACAACTCAGTGGCA-CCTTTTCTTTTAAAGCCCACGACTCAGTGGCA-CCTTTCCT
* *
378110 TCAAAGTCCACGACTCAGTGGCATCCTTTT-CT
64 TCAAAGTCCACAACTCCGTGGCA-CCTTTTCCT
* * * * * * * * ** *
378142 TCAAAGTCCACGACTCAGTGGCA--TTTTGTCTCAAAGTCCATGACTCAGTGGCATTTTTTCTTC
1 TTAAAGCCCACAACTCAGTGGCACCTTTTCTTTTAAAGCCCACGACTCAGTGGCACCTTTCCTTC
*
378205 AAAGCCCACAACTCCGTGGCACCTTTTCCT
66 AAAGTCCACAACTCCGTGGCACCTTTTCCT
* * *
378235 TTAAAGCCCACAACTCTGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTCCT
1 TTAAAGCCCACAACTCAGTGGCACCTT-TTCTTTT-AAAGCCCACGACTCAGTGGCACCTTTCCT
* *
378300 TCTAAGTCCACAACTCCGTGGCACC----CTT
64 TCAAAGTCCACAACTCCGTGGCACCTTTTCCT
* * * *
378328 TTAAAGCCCACAATTCCGTGGCACTCTTTTTTTCTTTT-AAGCCCATGACTCCGTGGCACCTTTT
1 TTAAAGCCCACAACTCAGTGGCAC-C---TTTTCTTTTAAAGCCCACGACTCAGTGGCACC--TT
* *
378392 TCTTTTCTAAGTCCACAACTCCGTGGCACC
60 TC-CTTCAAAGTCCACAACTCCGTGGCACC
378422 CGTTTAAGCC
Statistics
Matches: 234, Mismatches: 33, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
92 6 0.03
93 75 0.32
94 42 0.18
95 2 0.01
96 36 0.15
97 73 0.31
ACGTcount: A:0.21, C:0.32, G:0.15, T:0.32
Consensus pattern (95 bp):
TTAAAGCCCACAACTCAGTGGCACCTTTTCTTTTAAAGCCCACGACTCAGTGGCACCTTTCCTTC
AAAGTCCACAACTCCGTGGCACCTTTTCCT
Found at i:378372 original size:35 final size:35
Alignment explanation
Indices: 378325--378421 Score: 117
Period size: 34 Copynumber: 2.8 Consensus size: 35
378315 CCGTGGCACC
*
378325 CTTTTAAAGCCCACAATTCCGTGGCACTCTTTTT-TT
1 CTTTT-AAGCCCACAACTCCGTGGCAC-CTTTTTCTT
**
378361 CTTTTAAGCCCATGACTCCGTGGCACCTTTTTCTT
1 CTTTTAAGCCCACAACTCCGTGGCACCTTTTTCTT
* *
378396 -TTCTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGCCCACAACTCCGTGGCACC
378422 CGTTTAAGCC
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
34 28 0.53
35 20 0.38
36 5 0.09
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.36
Consensus pattern (35 bp):
CTTTTAAGCCCACAACTCCGTGGCACCTTTTTCTT
Found at i:378397 original size:32 final size:32
Alignment explanation
Indices: 378046--378421 Score: 265
Period size: 32 Copynumber: 11.8 Consensus size: 32
378036 AAATACCTTC
* * *
378046 TTAAAGTCCACGATTCAGTGGCATCC-TTTTCT
1 TTAAAGTCCACAACTCCGTGGCA-CCTTTTTCT
* *
378078 TTAAAGTCCACGACTCAGTGGCATCC-TTTTCT
1 TTAAAGTCCACAACTCCGTGGCA-CCTTTTTCT
* * *
378110 TCAAAGTCCACGACTCAGTGGCATCC-TTTTCT
1 TTAAAGTCCACAACTCCGTGGCA-CCTTTTTCT
* * *
378142 TCAAAGTCCACGACTCAGTGGCA--TTTTGTC-
1 TTAAAGTCCACAACTCCGTGGCACCTTTT-TCT
* ** * *
378172 TCAAAGTCCATGACTCAGTGGCA-TTTTTTCT
1 TTAAAGTCCACAACTCCGTGGCACCTTTTTCT
* * *
378203 TCAAAGCCCACAACTCCGTGGCACCTTTTCCT
1 TTAAAGTCCACAACTCCGTGGCACCTTTTTCT
* * *
378235 TTAAAGCCCACAACTCTGTGGCACCTTCTTCTT
1 TTAAAGTCCACAACTCCGTGGCACCTTTTTC-T
* *
378268 TTCAAAGCCCACAACTCCGTGGCACC-TTTCCT
1 TT-AAAGTCCACAACTCCGTGGCACCTTTTTCT
*
378300 TCT-AAGTCCACAACTCCGTGGCACC---CT-T
1 T-TAAAGTCCACAACTCCGTGGCACCTTTTTCT
* *
378328 TTAAAGCCCACAATTCCGTGGCACTCTTTTTTTCT
1 TTAAAGTCCACAACTCCGTGGCAC-C--TTTTTCT
* * **
378363 TTTAAGCCCATGACTCCGTGGCACCTTTTTCTT
1 TTAAAGTCCACAACTCCGTGGCACCTTTTTC-T
*
378396 TTCTAAGTCCACAACTCCGTGGCACC
1 TT-AAAGTCCACAACTCCGTGGCACC
378422 CGTTTAAGCC
Statistics
Matches: 297, Mismatches: 29, Indels: 34
0.82 0.08 0.09
Matches are distributed among these distances:
27 1 0.00
28 21 0.07
29 1 0.00
30 27 0.09
31 46 0.15
32 126 0.42
33 10 0.03
34 44 0.15
35 21 0.07
ACGTcount: A:0.21, C:0.32, G:0.15, T:0.32
Consensus pattern (32 bp):
TTAAAGTCCACAACTCCGTGGCACCTTTTTCT
Found at i:378422 original size:97 final size:97
Alignment explanation
Indices: 378179--378467 Score: 321
Period size: 97 Copynumber: 3.0 Consensus size: 97
378169 GTCTCAAAGT
* * *
378179 CCATGACTCAGTGGCA--TTTTT-TCTTCAAAGCCCACAACTCCGTGGCACCTTTTCCTTTAAAG
1 CCATGACTCCGTGGCACCTTTTTCTCTTCTAAGTCCACAACTCCGTGGCACC----CCTTTAAAG
* *
378241 CCCACAACTCTGTGGCAC-C--TTCTTCTTTTCAAAGC
62 CCCACAACTCCGTGGCACTCTTTTTTTCTTTT--AAGC
** *
378276 CCACAACTCCGTGGCACC--TTTC-CTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCA
1 CCATGACTCCGTGGCACCTTTTTCTCTTCTAAGTCCACAACTCCGTGGCACCCCTTTAAAGCCCA
*
378338 CAATTCCGTGGCACTCTTTTTTTCTTTTAAGC
66 CAACTCCGTGGCACTCTTTTTTTCTTTTAAGC
* *
378370 CCATGACTCCGTGGCACCTTTTTCTTTTCTAAGTCCACAACTCCGTGGCACCCGTTT-AAGCCCA
1 CCATGACTCCGTGGCACCTTTTTCTCTTCTAAGTCCACAACTCCGTGGCACCCCTTTAAAGCCCA
* * *
378434 CAACTCCATGGCACT-TTTTTTCCTTCTAAGC
66 CAACTCCGTGGCACTCTTTTTTTCTTTTAAGC
378465 CCA
1 CCA
378468 CACAAGTCGG
Statistics
Matches: 166, Mismatches: 17, Indels: 20
0.82 0.08 0.10
Matches are distributed among these distances:
93 24 0.14
94 21 0.13
95 17 0.10
96 33 0.20
97 71 0.43
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.32
Consensus pattern (97 bp):
CCATGACTCCGTGGCACCTTTTTCTCTTCTAAGTCCACAACTCCGTGGCACCCCTTTAAAGCCCA
CAACTCCGTGGCACTCTTTTTTTCTTTTAAGC
Found at i:378503 original size:33 final size:34
Alignment explanation
Indices: 378461--378556 Score: 142
Period size: 33 Copynumber: 2.9 Consensus size: 34
378451 TTTTCCTTCT
378461 AAGCCCACACAAGTCGGTGGCAACCTTCT-TCCA
1 AAGCCCACACAAGTCGGTGGCAACCTTCTCTCCA
* * *
378494 AAGCCCACACAAGTTGGTGGCAACC-ACTCTCTA
1 AAGCCCACACAAGTCGGTGGCAACCTTCTCTCCA
378527 AAGCCCACACAAGTCGGTGGCAACCCTTCT
1 AAGCCCACACAAGTCGGTGGCAA-CCTTCT
378557 AAGCCCAATA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
32 2 0.04
33 49 0.89
34 2 0.04
35 2 0.04
ACGTcount: A:0.28, C:0.35, G:0.19, T:0.18
Consensus pattern (34 bp):
AAGCCCACACAAGTCGGTGGCAACCTTCTCTCCA
Found at i:378614 original size:49 final size:49
Alignment explanation
Indices: 378556--379253 Score: 847
Period size: 49 Copynumber: 14.7 Consensus size: 49
378546 GCAACCCTTC
* * * * *
378556 TAAGCCCAATATAGTTGGCCCTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
378605 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
378653 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C--CA---T
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * **
378696 TAAGTCCAATATAGCTGGCCTTGAATTAGCATATTGGCACCTTTGTCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
378745 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
378794 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
378843 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
378892 TAAGTCCAATGTAGCTGGCCTTGACTCAACACATTGGCACC-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
378940 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
378983 TAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCATCTTCATTTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
379032 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
379075 TAAG-CCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
379123 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
379166 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
379218 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
379254 ACATCCTTTT
Statistics
Matches: 565, Mismatches: 56, Indels: 53
0.84 0.08 0.08
Matches are distributed among these distances:
42 30 0.05
43 120 0.21
44 1 0.00
45 3 0.01
46 3 0.01
47 2 0.00
48 96 0.17
49 273 0.48
50 1 0.00
52 36 0.06
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:379038 original size:140 final size:141
Alignment explanation
Indices: 378551--379262 Score: 885
Period size: 140 Copynumber: 5.0 Consensus size: 141
378541 CGGTGGCAAC
* * *
378551 CCTTCTAAGCCCAATATAGTTGGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
*
378616 TAGCTGGCCTTGACTCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGACTCA
65 TAGCTGGCCTTGACTCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
378681 GCACATTGGCA-
130 GCACATTGGCAT
* * **
378692 CCATTAAGTCCAATATAGCTGGCCTTGAATTAGCATATTGGCACCTTTGTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
* *
378757 AGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCA
66 AGCTGGCCTTGACTCAGCACATTGGCACC-TCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
*
378822 GCATATTGGCACCTTT
130 GCACATTGGCA----T
* * * *
378838 ATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
1 -CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
* *
378903 TAGCTGGCCTTGACTCAACACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGACTCA
65 TAGCTGGCCTTGACTCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
378968 GCACATTGGCA-
130 GCACATTGGCAT
* * *
378979 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCATCTTCATTTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
* * * *
379044 AGCTGGCCTTGAATCAGCACATTGG-----CACCTTTAAG-CCAATATCGTTGGCCTTGAATCAG
66 AGCTGGCCTTGACTCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
*
379103 CATATTGGCATCTT
131 CACATTGGCA---T
* *
379117 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAAT
1 C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAT
* * * * *
379176 ATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTG
64 GTAGCTGGCCTTGACTCAGCACATTGGCACC---T-CACCTTTAAGTCCAATGTAGCTGGCCTTG
*
379241 AATCAGCACATTGACAT
125 AATCAGCACATTGGCAT
379258 CCTTT
1 CCTTT
379263 TTCTCATCTT
Statistics
Matches: 497, Mismatches: 51, Indels: 48
0.83 0.09 0.08
Matches are distributed among these distances:
134 66 0.13
135 10 0.02
136 1 0.00
138 1 0.00
139 4 0.01
140 204 0.41
141 47 0.09
143 9 0.02
144 28 0.06
146 42 0.08
147 85 0.17
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (141 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGACTCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
CACATTGGCAT
Found at i:379207 original size:43 final size:43
Alignment explanation
Indices: 378889--379209 Score: 365
Period size: 43 Copynumber: 7.1 Consensus size: 43
378879 GCACCTTCAT
* * *
378889 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAACACATTGGCACCTCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG-----CAC
* *
378937 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
378980 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C
*
379024 TTCATTTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --C---TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
379072 CTTTAAG-CCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
*
379118 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
379163 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
379206 CTTT
1 CTTT
379210 TCCATCTTTA
Statistics
Matches: 242, Mismatches: 18, Indels: 31
0.83 0.06 0.11
Matches are distributed among these distances:
42 30 0.12
43 92 0.38
44 1 0.00
45 1 0.00
46 3 0.01
48 47 0.19
49 68 0.28
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:379241 original size:52 final size:53
Alignment explanation
Indices: 379163--379316 Score: 193
Period size: 52 Copynumber: 2.9 Consensus size: 53
379153 ACATTGGCAC
379163 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * * *
379215 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * * *
379270 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
379317 ATCACTTTCC
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
52 38 0.45
53 5 0.06
54 6 0.07
55 36 0.42
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:379374 original size:67 final size:68
Alignment explanation
Indices: 379266--379392 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
379256 ATCCTTTTTC
* * *
379266 TCATCTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCA-CTTTCCTCA
1 TCATCTTTAAGCCCAATATCGCTGGCCATGAATCAACATATTGGCACCTTCATCATCTTTCCTCA
379330 TCA
66 TCA
* * * *
379333 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATATCGCTGGCCATGAATCAACATATTGGCACCTTCATCATCTTT
379393 AAAACCCAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.37
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATATCGCTGGCCATGAATCAACATATTGGCACCTTCATCATCTTTCCTCA
TCA
Found at i:380221 original size:13 final size:13
Alignment explanation
Indices: 380203--380227 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
380193 CATAAAGTGT
380203 TGTATCGATACAA
1 TGTATCGATACAA
380216 TGTATCGATACA
1 TGTATCGATACA
380228 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:380239 original size:33 final size:33
Alignment explanation
Indices: 380183--380249 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
380173 TTCAACGATT
*
380183 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCAATACAA
*** *
380216 TGTATCGATACATATTTTTTTGTATCAATACAA
1 TGTATCGATACATAAAGTGTTGTATCAATACAA
380249 T
1 T
380250 TTAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCAATACAA
Found at i:380308 original size:13 final size:13
Alignment explanation
Indices: 380290--380317 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
380280 ATCACTTAAA
380290 TGTATCGATACAT
1 TGTATCGATACAT
380303 TGTATCGATACAT
1 TGTATCGATACAT
380316 TG
1 TG
380318 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:380449 original size:52 final size:51
Alignment explanation
Indices: 380323--380452 Score: 206
Period size: 51 Copynumber: 2.5 Consensus size: 51
380313 CATTGATCTT
* *
380323 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATCATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATCACTATAAAA
* **
380374 TGTATCGATACATACAGGCAAATTTTCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGAT-CACTATAAAA
380426 TGTATCGATACATGCAGGCAAATTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
380453 ATATTTCGGG
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
51 39 0.54
52 33 0.46
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (51 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATCACTATAAAA
Found at i:388857 original size:19 final size:20
Alignment explanation
Indices: 388813--388865 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
388803 CTGCCCGTTT
**
388813 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
*
388833 CATGTATCGATATAA-TGAA
1 CATGTATCGATACAATTGAA
*
388852 CATGTATCAATACA
1 CATGTATCGATACA
388866 TCTGGGTGTG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:392351 original size:3 final size:3
Alignment explanation
Indices: 392343--392370 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
392333 TTTAATTTTA
392343 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
392371 TTAAAATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:393419 original size:8 final size:8
Alignment explanation
Indices: 393408--393455 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
393398 TTGTTTTGTT
393408 TTTTTTCC
1 TTTTTTCC
393416 TTTTTTCTC
1 TTTTTTC-C
393425 TTTTTTCC
1 TTTTTTCC
* *
393433 TTCTCTCC
1 TTTTTTCC
393441 TTTTCTCTCC
1 TTTT-T-TCC
393451 TTTTT
1 TTTTT
393456 CTTACTTGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
8 17 0.52
9 9 0.27
10 7 0.21
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (8 bp):
TTTTTTCC
Found at i:397082 original size:20 final size:20
Alignment explanation
Indices: 397057--397099 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
397047 GTTGAAAGAT
397057 GAATTATCTAGATCTGTGGA
1 GAATTATCTAGATCTGTGGA
397077 GAATTATCTAGATCTGTGGA
1 GAATTATCTAGATCTGTGGA
397097 GAA
1 GAA
397100 GTTAATACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.33
Consensus pattern (20 bp):
GAATTATCTAGATCTGTGGA
Found at i:401512 original size:39 final size:40
Alignment explanation
Indices: 401456--401536 Score: 103
Period size: 39 Copynumber: 2.0 Consensus size: 40
401446 TTTTCTTTTT
*
401456 CCCTTAACTAAAGTAATTTTAACAAATTCGTACATTCTCC
1 CCCTTAACTAAAGTAATTTTAACAAATTCATACATTCTCC
* * *
401496 CCCTTAA-T-AAGATAATTTTAGCAAATTTATGCATTCTCC
1 CCCTTAACTAAAG-TAATTTTAACAAATTCATACATTCTCC
401535 CC
1 CC
401537 TTTTATTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 3 0.08
39 26 0.72
40 7 0.19
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.36
Consensus pattern (40 bp):
CCCTTAACTAAAGTAATTTTAACAAATTCATACATTCTCC
Found at i:402729 original size:21 final size:20
Alignment explanation
Indices: 402700--402742 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
402690 GGCTAGTATG
* *
402700 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
402721 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
402741 GG
1 GG
402743 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:403201 original size:13 final size:13
Alignment explanation
Indices: 403183--403221 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
403173 ATAATCCCCC
*
403183 TGTATCGATATAA
1 TGTATCGATACAA
*
403196 TGTATCGATACAT
1 TGTATCGATACAA
403209 TGTATCGATACAA
1 TGTATCGATACAA
403222 AGAAAAATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:409416 original size:13 final size:13
Alignment explanation
Indices: 409398--409423 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
409388 CAACTTTATG
409398 TGTATCGATACAT
1 TGTATCGATACAT
409411 TGTATCGATACAT
1 TGTATCGATACAT
409424 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:409437 original size:32 final size:33
Alignment explanation
Indices: 409378--409441 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
409368 TACAGGCCAA
409378 TGTATCGATACAACTTTATGTGTATCGATACAT
1 TGTATCGATACAACTTTATGTGTATCGATACAT
409411 TGTATCGATACATAC-TT-TGTGTATCGATACA
1 TGTATCGATACA-ACTTTATGTGTATCGATACA
409442 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 14 0.47
33 14 0.47
34 2 0.07
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAACTTTATGTGTATCGATACAT
Found at i:416907 original size:151 final size:149
Alignment explanation
Indices: 416649--417101 Score: 364
Period size: 151 Copynumber: 3.0 Consensus size: 149
416639 TAAAACGTCC
* * * * * *
416649 TAAAATGATGAACCTATTCCTAAATATGCACATTTGGCATAAAAGCGACTTGGTGATTACCTAAG
1 TAAAAGGATGAACCTA-TCCTAAATAT--ACCTTTGGCATAAAAGCAACCTAGTGACTACCTAAG
* * * * * * **
416714 ACTCGATTATAAAAAATTACTAAATTTCCCTTAGGTTATACCTTCGATGTGAAAATATCC-AGTA
63 ACTAGATTATAAAAAATTACCAAAATGCCCATAGGTTATACCTTCAACATGAAAATA-CCTAGT-
* *
416778 AAT-TAAAGAACATGAAAATGATAA
126 AATCCAAAAAACATGAAAAT-ATAA
*
416802 GTAAAAGGATGAACCTATCCTAAATAATACCTTTGGGATAAAAGCAACCTAGTGACTA-CT-AGA
1 -TAAAAGGATGAACCTATCCTAAAT-ATACCTTTGGCATAAAAGCAACCTAGTGACTACCTAAGA
* *
416865 TCTAGATTTTAAAAAATTACCAAAATGCCCATATGG-TATACCTTCAACATGGAAATACCTAGTA
64 -CTAGATTATAAAAAATTACCAAAATGCCCATA-GGTTATACCTTCAACATGAAAATACCTAGTA
* *
416929 ATCCCAAAAAATATGAAAATATTA
127 AT-CCAAAAAACATGAAAATATAA
** * *
416953 TAAAAGGATGAACCTATCCTAAATGTATACCTTTGGCATAAAAGTGA-CTCGATGACTACCTATG
1 TAAAAGGATGAACCTATCCTAAA--TATACCTTTGGCATAAAAGCAACCTAG-TGACTACCTAAG
* * * * * * * * *
417017 ATTTGGTTCTAAGAAAAATTACCAAAAATACCCCCTAGG-TATACCTTCGACGT-AAAGTACCTA
63 ACTAGATTAT-A-AAAAATTACC-AAAAT-GCCCATAGGTTATACCTTCAACATGAAAATACCTA
*
417080 GTAATCCTAAAAGACATGAAAA
124 GTAATCC-AAAAAACATGAAAA
417102 AGATATGAAA
Statistics
Matches: 245, Mismatches: 38, Indels: 32
0.78 0.12 0.10
Matches are distributed among these distances:
150 34 0.14
151 75 0.31
152 47 0.19
153 13 0.05
154 52 0.21
155 19 0.08
156 5 0.02
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (149 bp):
TAAAAGGATGAACCTATCCTAAATATACCTTTGGCATAAAAGCAACCTAGTGACTACCTAAGACT
AGATTATAAAAAATTACCAAAATGCCCATAGGTTATACCTTCAACATGAAAATACCTAGTAATCC
AAAAAACATGAAAATATAA
Found at i:417083 original size:154 final size:151
Alignment explanation
Indices: 416786--417106 Score: 357
Period size: 154 Copynumber: 2.1 Consensus size: 151
416776 TAAATTAAAG
*
416786 AACATGAAAATGATAAGTAAAAGGATGAACCTATCCTAAATAATACCTTTGGGATAAAAGCAACC
1 AACATGAAAATGATAAGTAAAAGGATGAACCTATCCTAAATAATACCTTTGGCATAAAAGCAACC
* * *
416851 TAGTGACTACTAGATCTAGATTTTAAAAAATTACCAAAATGCCCATATGGTATACCTTCAACATG
66 GAGTGACTACTAGATCTAGATTTAAAAAAATTACCAAAATCCCCATATGGTATACCTTCAACA-G
416916 GAAATACCTAGTAATCCCAAAA
130 GAAATACCTAGTAATCCCAAAA
* * * **
416938 AATATGAAAAT-ATTA-TAAAAGGATGAACCTATCCTAAATGTATACCTTTGGCATAAAAGTGAC
1 AACATGAAAATGATAAGTAAAAGGATGAACCTATCCTAAAT-AATACCTTTGGCATAAAAGCAAC
* * *
417001 TCGA-TGACTACCTATGAT-TTGGTTCTAAGAAAAATTACCAAAAATACCCCCTA-GGTATACCT
65 -CGAGTGACTA-CTA-GATCTAGATT-TAA-AAAAATTACC-AAAAT-CCCCATATGGTATACCT
* * *
417063 TCGAC-GTAAAGTACCTAGTAATCCTAAAA
123 TCAACAGGAAA-TACCTAGTAATCCCAAAA
* *
417092 GACATGAAAAAGATA
1 AACATGAAAATGATA
417107 TGAAAGGATG
Statistics
Matches: 140, Mismatches: 19, Indels: 17
0.80 0.11 0.10
Matches are distributed among these distances:
150 24 0.17
151 28 0.20
152 19 0.14
153 9 0.06
154 35 0.25
155 20 0.14
156 5 0.04
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (151 bp):
AACATGAAAATGATAAGTAAAAGGATGAACCTATCCTAAATAATACCTTTGGCATAAAAGCAACC
GAGTGACTACTAGATCTAGATTTAAAAAAATTACCAAAATCCCCATATGGTATACCTTCAACAGG
AAATACCTAGTAATCCCAAAA
Found at i:417741 original size:21 final size:21
Alignment explanation
Indices: 417715--417784 Score: 104
Period size: 21 Copynumber: 3.3 Consensus size: 21
417705 AGTGAAAATA
*
417715 TATCGATACATTATGTGAATG
1 TATCGATACATTATGGGAATG
*
417736 TATCGATACATTAAGGGAATG
1 TATCGATACATTATGGGAATG
*
417757 TATTGATACATTATGGGAATG
1 TATCGATACATTATGGGAATG
*
417778 TAACGAT
1 TATCGAT
417785 CCATCTAGCT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (21 bp):
TATCGATACATTATGGGAATG
Found at i:417804 original size:134 final size:135
Alignment explanation
Indices: 417596--417859 Score: 302
Period size: 134 Copynumber: 2.0 Consensus size: 135
417586 AATTCACGAT
* * * * *
417596 TGAATGTATCAATACATTCACAGAATGTTTCGATACATTTTGTGAATGTATCGATACATATAGTT
1 TGAATGTATCAATACATTAACAGAATGTTTCGATACATTATGGGAATGTAACGATACATATAGCT
* * * * * *
417661 GGTCGTAGCTACA-AAATGCTAAAACCCTTATTTTTATCGATAC-AAGTGAAAATATATCGATAC
66 AGTCATAGCTAAACAAATCCTAAAACCCTTATTATTATCAATACGAA-TGAAAATATATCGATAC
417724 ATTATG
130 ATTATG
* ** * *
417730 TGAATGTATCGATACATTAAGGGAATGTATT-GATACATTATGGGAATGTAACGATCCATCTAGC
1 TGAATGTATCAATACATTAACAGAATGT-TTCGATACATTATGGGAATGTAACGATACATATAGC
* * *
417794 TAG-CAATAGCTAAACAAATCCTGAAACCCTTATTATTATCAATACGCATGAAAATGTATCGATA
65 TAGTC-ATAGCTAAACAAATCCTAAAACCCTTATTATTATCAATACGAATGAAAATATATCGATA
417858 CA
129 CA
417860 GTACACAATG
Statistics
Matches: 107, Mismatches: 19, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
133 1 0.01
134 60 0.56
135 45 0.42
136 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (135 bp):
TGAATGTATCAATACATTAACAGAATGTTTCGATACATTATGGGAATGTAACGATACATATAGCT
AGTCATAGCTAAACAAATCCTAAAACCCTTATTATTATCAATACGAATGAAAATATATCGATACA
TTATG
Found at i:425352 original size:38 final size:38
Alignment explanation
Indices: 425301--425420 Score: 204
Period size: 38 Copynumber: 3.2 Consensus size: 38
425291 TTCCTTTCGT
*
425301 CCCTTTACTAATGTATTTATATATGATGATGGTGTTAA
1 CCCTTTAATAATGTATTTATATATGATGATGGTGTTAA
*
425339 CCCTTTAATAATGTATTTATATATAATGATGGTGTTAA
1 CCCTTTAATAATGTATTTATATATGATGATGGTGTTAA
*
425377 CCCTTTAATAATGTATTTATGTATGATGATGGTGTTAA
1 CCCTTTAATAATGTATTTATATATGATGATGGTGTTAA
*
425415 GCCTTT
1 CCCTTT
425421 TTAAACTTTG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 77 1.00
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.45
Consensus pattern (38 bp):
CCCTTTAATAATGTATTTATATATGATGATGGTGTTAA
Found at i:429494 original size:80 final size:78
Alignment explanation
Indices: 429392--429624 Score: 211
Period size: 79 Copynumber: 2.9 Consensus size: 78
429382 TAAAATAGGG
* * * * *
429392 TTAGAATATCCCCTCAGAGATGGTCGGGTTAGAGTATCCCTTGAGATGAAAATTTTGGTGTTTTA
1 TTAGAGTATCCCCTCGGAGATGGTAGGGTT-GAGTATCCC-TGAGATGAAAAATTCGGTGTTTTA
429457 GAATAAAAAACGAGA
64 GAATAAAAAACGAGA
* ** **
429472 TTAGAGTATCCCCTCGGAGATGGTAGGGTTGAAGTAT-CCTGAAAATGAAAAATTCAATGTTTGG
1 TTAGAGTATCCCCTCGGAGATGGTAGGGTTG-AGTATCCCTG-AGATGAAAAATTCGGTGTTTTA
* * *
429536 GAA-ACAAAAATGGGG
64 GAATA-AAAAACGAGA
* * * **
429551 TTAGAGTATCCCCTTGGAAATGG-GGGGTTGGAGTATCCCCACAGATGAAAAATTCGGTGTTTTA
1 TTAGAGTATCCCCTCGGAGATGGTAGGGTT-GAGTAT-CCCTGAGATGAAAAATTCGGTGTTTTA
429615 GAAGTAAAAA
64 GAA-TAAAAA
429625 TGGGGTTCGA
Statistics
Matches: 122, Mismatches: 23, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
78 13 0.11
79 70 0.57
80 38 0.31
81 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.27
Consensus pattern (78 bp):
TTAGAGTATCCCCTCGGAGATGGTAGGGTTGAGTATCCCTGAGATGAAAAATTCGGTGTTTTAGA
ATAAAAAACGAGA
Found at i:429599 original size:79 final size:78
Alignment explanation
Indices: 429472--429671 Score: 211
Period size: 79 Copynumber: 2.5 Consensus size: 78
429462 AAAAACGAGA
* * * ** *
429472 TTAGAGTATCCCCTCGGAGATGGTAGGGTTGAAGTATCCTGAAAATGAAAAATTCAATGTTTGGG
1 TTAGAGTATCCCCTCGGAAATGG-GGGGTTGGAGTATCCCCAAAATGAAAAATTCAATGTTTGAG
429537 AAACAAAAATGGGG
65 AAACAAAAATGGGG
* * ** *
429551 TTAGAGTATCCCCTTGGAAATGGGGGGTTGGAGTATCCCCACAGATGAAAAATTCGGTGTTTTAG
1 TTAGAGTATCCCCTCGGAAATGGGGGGTTGGAGTATCCCCA-AAATGAAAAATTCAATGTTTGAG
**
429616 AAGTAAAAATGGGG
65 AAACAAAAATGGGG
* * ** *
429630 TTCGAGTATCCTCTCAAAAATAGTGGGGTTGGAGTATCCCCA
1 TTAGAGTATCCCCTCGGAAAT-GGGGGGTTGGAGTATCCCCA
429672 TATATGAAGA
Statistics
Matches: 100, Mismatches: 19, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.14
79 67 0.67
80 19 0.19
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.27
Consensus pattern (78 bp):
TTAGAGTATCCCCTCGGAAATGGGGGGTTGGAGTATCCCCAAAATGAAAAATTCAATGTTTGAGA
AACAAAAATGGGG
Found at i:429617 original size:158 final size:160
Alignment explanation
Indices: 429316--429624 Score: 374
Period size: 159 Copynumber: 1.9 Consensus size: 160
429306 ACTAAGGTTG
* * * *
429316 GAGTATCCCTTCAGAGATGGTAGGGTTGGAGTAACCCTAAAAATGAAGAATTCAATATTGTGGAT
1 GAGTATCCCCTCAGAGATGGTAGGGTTGAAGTAACCCTAAAAATGAAAAATTCAATATTGTGGAA
** * *** *
429381 GTAAAATAGGGTTAGAATATCCCCTCAGAGATGGTCGGGTTAGAGTATCCCTTGAGATGAAAATT
66 CAAAAATAGGGTTAGAATATCCCCTCAGAAATGGTCGGGTTAGAGTATCCCCACAGATGAAAAAT
*
429446 TTGGTGTTTTAGAA-TAAAAAACGAGATTA
131 TCGGTGTTTTAGAAGTAAAAAACGAGATTA
* * * *
429475 GAGTATCCCCTCGGAGATGGTAGGGTTGAAGT-ATCCTGAAAATGAAAAATTCAATGTT-TGGGA
1 GAGTATCCCCTCAGAGATGGTAGGGTTGAAGTAACCCTAAAAATGAAAAATTCAATATTGT-GG-
* * ** * *
429538 AACAAAAATGGGGTTAGAGTATCCCCTTGGAAATGG-GGGGTTGGAGTATCCCCACAGATGAAAA
64 AACAAAAATAGGGTTAGAATATCCCCTCAGAAATGGTCGGGTTAGAGTATCCCCACAGATGAAAA
429602 ATTCGGTGTTTTAGAAGTAAAAA
129 ATTCGGTGTTTTAGAAGTAAAAA
429625 TGGGGTTCGA
Statistics
Matches: 125, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
157 1 0.01
158 61 0.49
159 63 0.50
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.27
Consensus pattern (160 bp):
GAGTATCCCCTCAGAGATGGTAGGGTTGAAGTAACCCTAAAAATGAAAAATTCAATATTGTGGAA
CAAAAATAGGGTTAGAATATCCCCTCAGAAATGGTCGGGTTAGAGTATCCCCACAGATGAAAAAT
TCGGTGTTTTAGAAGTAAAAAACGAGATTA
Found at i:429659 original size:158 final size:159
Alignment explanation
Indices: 429383--429668 Score: 342
Period size: 158 Copynumber: 1.8 Consensus size: 159
429373 TTGTGGATGT
* *** * *
429383 AAAATAGGGTTAGAATATCCCCTCAGAGATGGTCGGGTTAGAGTATCCCTTGAGATGAAAATTTT
1 AAAATAGGGTTAGAATATCCCCTCAGAAATGGTCGGGTTAGAGTATCCCCACAGATGAAAAATTC
** * *
429448 GGTGTTTTAGAATAAAAAACGAGATTAGAGTATCCCCTCGGAGATGGTAGGGTTGAAGTATCCTG
66 GGTGTTTTAGAATAAAAAACGAGATTAGAGTATCCCCTCAAAAATAGTAGGGTTGAAGTATCCTG
429513 AAAATGAAAAATTCAATGTTTGGGAAACA
131 AAAATGAAAAATTCAATGTTTGGGAAACA
* * ** * *
429542 AAAATGGGGTTAGAGTATCCCCTTGGAAATGG-GGGGTTGGAGTATCCCCACAGATGAAAAATTC
1 AAAATAGGGTTAGAATATCCCCTCAGAAATGGTCGGGTTAGAGTATCCCCACAGATGAAAAATTC
* * * * * * *
429606 GGTGTTTTAGAAGT-AAAAATGGGGTTCGAGTATCCTCTCAAAAATAGTGGGGTTGGAGTATCC
66 GGTGTTTTAGAA-TAAAAAACGAGATTAGAGTATCCCCTCAAAAATAGTAGGGTTGAAGTATCC
429669 CCATATATGA
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
158 75 0.73
159 28 0.27
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (159 bp):
AAAATAGGGTTAGAATATCCCCTCAGAAATGGTCGGGTTAGAGTATCCCCACAGATGAAAAATTC
GGTGTTTTAGAATAAAAAACGAGATTAGAGTATCCCCTCAAAAATAGTAGGGTTGAAGTATCCTG
AAAATGAAAAATTCAATGTTTGGGAAACA
Found at i:429692 original size:80 final size:79
Alignment explanation
Indices: 429383--429714 Score: 229
Period size: 80 Copynumber: 4.2 Consensus size: 79
429373 TTGTGGATGT
* * * * * * *** * *
429383 AAAATAGGGTTAGAATATCCCCTCAGAGATGGTCGGGTTAGAGTATCCCTTGAGATGAAAATTTT
1 AAAATGGGGTTAGAGTATCCCCTCAAAAATGG-GGGGTTGGAGTATCCCCACAGATGAAAAATTC
* *
429448 GGTGTTTTAGAA-TAA
65 GATGTTTTAAAAGT-A
* * * ** * * * ** *
429463 AAAACGAGATTAGAGTATCCCCTCGGAGATGGTAGGGTTGAAGTATCCTGA-AAATGAAAAATTC
1 AAAATGGGGTTAGAGTATCCCCTCAAAAATGG-GGGGTTGGAGTATCCCCACAGATGAAAAATTC
* ** *
429527 AATGTTTGGGAAA-CA
65 GATGTTT-TAAAAGTA
***
429542 AAAATGGGGTTAGAGTATCCCCTTGGAAATGGGGGGTTGGAGTATCCCCACAGATGAAAAATTCG
1 AAAATGGGGTTAGAGTATCCCCTCAAAAATGGGGGGTTGGAGTATCCCCACAGATGAAAAATTCG
* *
429607 GTGTTTTAGAAGTA
66 ATGTTTTAAAAGTA
* * * * * * *
429621 AAAATGGGGTTCGAGTATCCTCTCAAAAATAGTGGGGTTGGAGTATCCCCATATATGAAGAATTT
1 AAAATGGGGTTAGAGTATCCCCTCAAAAAT-GGGGGGTTGGAGTATCCCCACAGATGAAAAATTC
429686 GATGTTTTAAAAGTA
65 GATGTTTTAAAAGTA
*
429701 AAAATAGGGTTAGA
1 AAAATGGGGTTAGA
429715 ATATGCACAG
Statistics
Matches: 197, Mismatches: 51, Indels: 8
0.77 0.20 0.03
Matches are distributed among these distances:
78 16 0.08
79 86 0.44
80 95 0.48
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.28
Consensus pattern (79 bp):
AAAATGGGGTTAGAGTATCCCCTCAAAAATGGGGGGTTGGAGTATCCCCACAGATGAAAAATTCG
ATGTTTTAAAAGTA
Found at i:432162 original size:21 final size:22
Alignment explanation
Indices: 432133--432191 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
432123 GGTCAAAAAC
* *
432133 CTAGAATGTATCGATATATT-A
1 CTAGTATGTATCGATACATTCA
432154 CTAGTATGTATCGATACATTCA
1 CTAGTATGTATCGATACATTCA
432176 CT--TATGTATCGATACA
1 CTAGTATGTATCGATACA
432192 ATTTTTGACT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
20 14 0.40
21 18 0.51
22 3 0.09
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (22 bp):
CTAGTATGTATCGATACATTCA
Found at i:432183 original size:20 final size:20
Alignment explanation
Indices: 432138--432191 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
432128 AAAACCTAGA
*
432138 ATGTATCGATATATTACTAGT
1 ATGTATCGATACATTACTA-T
432159 ATGTATCGATACATTCACT-T
1 ATGTATCGATACATT-ACTAT
432179 ATGTATCGATACA
1 ATGTATCGATACA
432192 ATTTTTGACT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 14 0.45
21 14 0.45
22 3 0.10
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTACTAT
Found at i:433087 original size:18 final size:19
Alignment explanation
Indices: 433046--433088 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
433036 TAATATATAT
* *
433046 TTTATTTAAATATGTCATA
1 TTTAATTAAATATCTCATA
*
433065 CTTAATTAAA-ATCTCATA
1 TTTAATTAAATATCTCATA
433083 TTTAAT
1 TTTAAT
433089 CCAACAAATC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (19 bp):
TTTAATTAAATATCTCATA
Found at i:435586 original size:59 final size:58
Alignment explanation
Indices: 435520--435651 Score: 142
Period size: 58 Copynumber: 2.3 Consensus size: 58
435510 ACACTTGGGT
**
435520 CATTTAGGTTATTTTATGTAATCGAGGTACCA-TTTAGCATTTTTCATGCATCTTAGGGC
1 CATTTAGGTTATTTTACCTAATCGAGG-ACCATTTTAGCA-TTTTCATGCATCTTAGGGC
* * * * * * *
435579 CATTTAGGTCATCTCACCTAATCTAGGATCATTTTAGGATTTTCATGCATGTTAGGGC
1 CATTTAGGTTATTTTACCTAATCGAGGACCATTTTAGCATTTTCATGCATCTTAGGGC
435637 CATTTAGAG-TATTTT
1 CATTTAG-GTTATTTT
435652 GCAAAATTTA
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
58 31 0.53
59 28 0.47
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (58 bp):
CATTTAGGTTATTTTACCTAATCGAGGACCATTTTAGCATTTTCATGCATCTTAGGGC
Found at i:435918 original size:78 final size:78
Alignment explanation
Indices: 435780--435992 Score: 184
Period size: 78 Copynumber: 2.7 Consensus size: 78
435770 GATTATGCGA
* * * * ** * *
435780 GAACTTTCATGTCAAAACA-AGTCAATTAGGGT-ATTTAGGTAATAGTACCTTTAA-ATCGAGTC
1 GAACTTTCATATCAAAACACA-CCTATTAAGGTGATTTAGGTAATA-TTGCATTAATACCGAGTC
435842 -CTGAGGATCAAGTGG
64 TCT-AGGATCAAGTGG
** * * ***
435857 GATTTTTTATATCGAAACATGTCTATT-AGAGTGATTTAGGTAATATTGCATTAATACCGAGTCT
1 GAACTTTCATATCAAAACACACCTATTAAG-GTGATTTAGGTAATATTGCATTAATACCGAGTCT
* *
435921 CTAGGGTCATGTGG
65 CTAGGATCAAGTGG
* *
435935 GAACTTTCATGTCAAAACACACCTATTAAGGTTATTTAGGTAATATTGCATTAATACC
1 GAACTTTCATATCAAAACACACCTATTAAGGTGATTTAGGTAATATTGCATTAATACC
435993 TAATCTAGGG
Statistics
Matches: 107, Mismatches: 23, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
76 1 0.01
77 27 0.25
78 75 0.70
79 4 0.04
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.34
Consensus pattern (78 bp):
GAACTTTCATATCAAAACACACCTATTAAGGTGATTTAGGTAATATTGCATTAATACCGAGTCTC
TAGGATCAAGTGG
Found at i:437328 original size:50 final size:50
Alignment explanation
Indices: 437253--437387 Score: 189
Period size: 50 Copynumber: 2.7 Consensus size: 50
437243 TTTCACAATT
* * * *
437253 TGTATTGATACATTCTTCATTGTATCTATACATTCTGGGTTTTACCTAGA
1 TGTATCGATACATTCTTCATTGTATCGATACATTCTGGGTTTTACCCAAA
437303 TGTATCGATACATTCTTCATTGTATCGATACATTCTGGGTTTTACCCAAA
1 TGTATCGATACATTCTTCATTGTATCGATACATTCTGGGTTTTACCCAAA
* * * * *
437353 CGTATCGATATATTTTTTAATGTATCGATACATTC
1 TGTATCGATACATTCTTCATTGTATCGATACATTC
437388 AAGCATTTTT
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 76 1.00
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.44
Consensus pattern (50 bp):
TGTATCGATACATTCTTCATTGTATCGATACATTCTGGGTTTTACCCAAA
Found at i:439625 original size:51 final size:51
Alignment explanation
Indices: 439568--439685 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 51
439558 TCATTCATGT
* * * * *
439568 TTTTATTTCTAAAATA-CTGATTTTCCATAATCAGGGATACTCCAACCCCGG
1 TTTTATTTCTAAAACATC-GATTTTACACAAACAGGGATACTCCAACCCCAG
439619 TTTTATTTCTAAAACATCGATTTTACACAAACAGGGATACTCCAACCCCAG
1 TTTTATTTCTAAAACATCGATTTTACACAAACAGGGATACTCCAACCCCAG
*
439670 TTTTATTTCCAAAACA
1 TTTTATTTCTAAAACA
439686 CAAACTTTTC
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 59 0.98
52 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.34
Consensus pattern (51 bp):
TTTTATTTCTAAAACATCGATTTTACACAAACAGGGATACTCCAACCCCAG
Found at i:439818 original size:78 final size:78
Alignment explanation
Indices: 439652--440211 Score: 468
Period size: 79 Copynumber: 7.1 Consensus size: 78
439642 TACACAAACA
* * *** *
439652 GGGATACTCCAACCCCAGTTTTATTTCCAAAACACAAACTTTTCACCATCGGGGATACTCCAATC
1 GGGATACTCCAACCCCGGTTTTATTTCTAAAACATTGA-TTTTCACAATCGGGGATACTCCAA-C
439717 CC-GTTA--TTTTAG
64 CCTGTTATTTTTTAG
* * *
439729 CGAAGATACTCTAACCCCGGTTTTATTT-TCAAAACATTGATTTTCTACTATC-GGGATACTCCA
1 -G-GGATACTCCAACCCCGGTTTTATTTCT-AAAACATTGATTTTC-ACAATCGGGGATACTCCA
439792 ACCCTGTTATTTTTTAG
62 ACCCTGTTATTTTTTAG
* * *
439809 GGGATACTCTAACCCCAGTTTTATTTCTAAAACATTGATTTTCACAATCGGGGATACTCCAA-TC
1 GGGATACTCCAACCCCGGTTTTATTTCTAAAACATTGATTTTCACAATCGGGGATACTCCAACCC
*
439873 TCATTATTTTTTAG
66 T-GTTATTTTTTAG
* * * * ** *
439887 GAGATACTCTAACCTCGATTTTTATTTCTAAAACATCAATTTTCTACAATCGAGGATACTCCAAC
1 GGGATACTCCAACCCCG-GTTTTATTTCTAAAACATTGATTTTC-ACAATCGGGGATACTCCAAC
* ***
439952 CCTTTTATTTCCAAG
64 CCTGTTATTTTTTAG
** * * * ** *
439967 GGGATACTCCAACCCTAGTTTTATTTC-CAAACACTGATGTTTCACAATCAGGGATACTTTAGCC
1 GGGATACTCCAACCCCGGTTTTATTTCTAAAACATTGAT-TTTCACAATCGGGGATACTCCAACC
***
440031 CTGTTATTTCCAAG
65 CTGTTATTTTTTAG
* * * ** * *
440045 GGGATACTCCAACCTCGATTTTATTTCTAAAGCACCGATTTTCCACCATCGGGGATACTCTAACC
1 GGGATACTCCAACCCCGGTTTTATTTCTAAAACATTGATTTT-CACAATCGGGGATACTCCAACC
* **
440110 CTATTATTTTCGAG
65 CTGTTATTTTTTAG
* * ** * * *
440124 AGAATACTCCAACCTTGATTTTATTTCTAAAACATTGATTTCTCATAATCGGTGATACTCCAACC
1 GGGATACTCCAACCCCGGTTTTATTTCTAAAACATTGATTT-TCACAATCGGGGATACTCCAACC
* * *
440189 CCGTTATTTTTGAA
65 CTGTTATTTTTTAG
440203 GGGATACTC
1 GGGATACTC
440212 TAATCTCATT
Statistics
Matches: 395, Mismatches: 71, Indels: 31
0.79 0.14 0.06
Matches are distributed among these distances:
77 10 0.03
78 159 0.40
79 179 0.45
80 45 0.11
81 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (78 bp):
GGGATACTCCAACCCCGGTTTTATTTCTAAAACATTGATTTTCACAATCGGGGATACTCCAACCC
TGTTATTTTTTAG
Found at i:439972 original size:28 final size:29
Alignment explanation
Indices: 439940--439996 Score: 89
Period size: 28 Copynumber: 1.9 Consensus size: 29
439930 CTACAATCGA
439940 GGATACTCCAACCC-TTTTATTTCCAAGG
1 GGATACTCCAACCCATTTTATTTCCAAGG
439968 GGATACTCCAACCCTAGTTTTATTTCCAA
1 GGATACTCCAACCC-A-TTTTATTTCCAA
439997 ACACTGATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 14 0.54
31 12 0.46
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.33
Consensus pattern (29 bp):
GGATACTCCAACCCATTTTATTTCCAAGG
Found at i:440209 original size:236 final size:235
Alignment explanation
Indices: 439654--440211 Score: 566
Period size: 236 Copynumber: 2.4 Consensus size: 235
439644 CACAAACAGG
* * * * *
439654 GATACTCCAACC-CCAGTTTTATTTCCAAAACA-CAAACTTTTC-ACCATCGGGGATACTCCAAT
1 GATACTCCAACCTCGATTTTTATTTCTAAAACATC-AA-TTTTCTACAATC-GGGATACTCCAAC
* * * *
439716 CCCGTTATTTTAGCGAA--GATACTCTAACCCCGGTTTTATTTTCAAAACATTGATTTTCTACTA
63 CCCGTTATTTT--CGAAGGGATACTCCAACCCCAGTTTTATTTTCAAAACACTGATTTTCTACAA
*** * *
439779 TCGGGATACTCCAACCCTGTTATTTTTTAGGGGATACTCTAACCCCAGTTTTATTTCTAAAACAT
126 TCGGGATACTCCAACCCTGTTATTTCCAAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACAC
* * **
439844 TGATTTTCACAATCGGGGATACTCCAATCTCATTATTTTTTAGGA
191 CGATTTTCACAATCGGGGATACTCCAACCTCATTATTTTCGAGGA
*
439889 GATACTCTAACCTCGATTTTTATTTCTAAAACATCAATTTTCTACAATCGAGGATACTCCAACCC
1 GATACTCCAACCTCGATTTTTATTTCTAAAACATCAATTTTCTACAATCG-GGATACTCCAACCC
** * * *
439954 TTTTA-TTTCCAAGGGGATACTCCAACCCTAGTTTTA-TTTCCAAACACTGATGTTTC-ACAATC
65 CGTTATTTTCGAA-GGGATACTCCAACCCCAGTTTTATTTTCAAAACACTGAT-TTTCTACAATC
** * * *
440016 AGGGATACTTTAGCCCTGTTATTTCCAAGGGGATACTCCAACCTC-GATTTTATTTCTAAAGCAC
128 -GGGATACTCCAACCCTGTTATTTCCAAGGGGATACTCCAACCCCAG-TTTTATTTCTAAAACAC
* *
440080 CGATTTTCCACCATCGGGGATACTCTAACC-CTATTATTTTCGA-GA
191 CGATTTT-CACAATCGGGGATACTCCAACCTC-ATTATTTTCGAGGA
* ** *
440125 GAATACTCCAACCTTGA-TTTTATTTCTAAAACATTGA-TTTCTCATAATCGGTGATACTCCAAC
1 G-ATACTCCAACCTCGATTTTTATTTCTAAAACATCAATTTTCT-ACAATCGG-GATACTCCAAC
*
440188 CCCGTTATTTTTGAAGGGATACTC
63 CCCGTTATTTTCGAAGGGATACTC
440212 TAATCTCATT
Statistics
Matches: 267, Mismatches: 40, Indels: 31
0.79 0.12 0.09
Matches are distributed among these distances:
233 3 0.01
235 45 0.17
236 172 0.64
237 47 0.18
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (235 bp):
GATACTCCAACCTCGATTTTTATTTCTAAAACATCAATTTTCTACAATCGGGATACTCCAACCCC
GTTATTTTCGAAGGGATACTCCAACCCCAGTTTTATTTTCAAAACACTGATTTTCTACAATCGGG
ATACTCCAACCCTGTTATTTCCAAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCGATT
TTCACAATCGGGGATACTCCAACCTCATTATTTTCGAGGA
Found at i:441797 original size:21 final size:20
Alignment explanation
Indices: 441767--441817 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
441757 TTTTATGATT
*
441767 TGTATAGATATAAAAAGTGAA
1 TGTATCGATA-AAAAAGTGAA
* *
441788 TGTATCGATACAATAGTGAA
1 TGTATCGATAAAAAAGTGAA
441808 TGTATCGATA
1 TGTATCGATA
441818 CATATCTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.31
Consensus pattern (20 bp):
TGTATCGATAAAAAAGTGAA
Found at i:441807 original size:20 final size:20
Alignment explanation
Indices: 441782--441819 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
441772 AGATATAAAA
441782 AGTGAATGTATCGATACAAT
1 AGTGAATGTATCGATACAAT
441802 AGTGAATGTATCGATACA
1 AGTGAATGTATCGATACA
441820 TATCTGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (20 bp):
AGTGAATGTATCGATACAAT
Found at i:441984 original size:51 final size:51
Alignment explanation
Indices: 441876--442014 Score: 161
Period size: 51 Copynumber: 2.7 Consensus size: 51
441866 TTTGGAATGA
* * * * *
441876 AAATGTATCGACACATTTTTTAATTGTATTGATACATTCTAGGTTTTAACCT
1 AAATGTATCGAAACA-TTTTTCATTATATTGATACATTCTAGGTATTAACCC
* * * *
441928 AAATGTATCGAAACATTTTTCATTATATCGATACATTTTGGGTATTGACCC
1 AAATGTATCGAAACATTTTTCATTATATTGATACATTCTAGGTATTAACCC
* * *
441979 GAATGTATCGATACATTTTTCAATATATTGATACAT
1 AAATGTATCGAAACATTTTTCATTATATTGATACAT
442015 GCAGGCAAAT
Statistics
Matches: 74, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
51 60 0.81
52 14 0.19
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (51 bp):
AAATGTATCGAAACATTTTTCATTATATTGATACATTCTAGGTATTAACCC
Found at i:447349 original size:19 final size:19
Alignment explanation
Indices: 447325--447387 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
447315 TAGCCAAACT
447325 TGTATCGATACAGCAAGTA
1 TGTATCGATACAGCAAGTA
447344 TGTATCGAT--A-C-A--A
1 TGTATCGATACAGCAAGTA
447357 TGTATCGATACAGCAAGTA
1 TGTATCGATACAGCAAGTA
447376 TGTATCGATACA
1 TGTATCGATACA
447388 ATGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 10 0.26
15 2 0.05
16 2 0.05
17 2 0.05
19 22 0.58
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.29
Consensus pattern (19 bp):
TGTATCGATACAGCAAGTA
Found at i:447361 original size:13 final size:13
Alignment explanation
Indices: 447343--447400 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
447333 TACAGCAAGT
447343 ATGTATCGATACA
1 ATGTATCGATACA
447356 ATGTATCGATACAGCAA
1 ATGTATCGAT--A-C-A
447373 GTATGTATCGATACA
1 --ATGTATCGATACA
447388 ATGTATCGATACA
1 ATGTATCGATACA
447401 CAAAAAATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.59
15 2 0.05
16 2 0.05
17 2 0.05
19 10 0.26
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:447366 original size:32 final size:32
Alignment explanation
Indices: 447325--447400 Score: 152
Period size: 32 Copynumber: 2.4 Consensus size: 32
447315 TAGCCAAACT
447325 TGTATCGATACAGCAAGTATGTATCGATACAA
1 TGTATCGATACAGCAAGTATGTATCGATACAA
447357 TGTATCGATACAGCAAGTATGTATCGATACAA
1 TGTATCGATACAGCAAGTATGTATCGATACAA
447389 TGTATCGATACA
1 TGTATCGATACA
447401 CAAAAAATTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (32 bp):
TGTATCGATACAGCAAGTATGTATCGATACAA
Found at i:449650 original size:21 final size:21
Alignment explanation
Indices: 449617--449661 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
449607 TTGCAAGTTG
*
449617 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
449639 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
449659 AAA
1 AAA
449662 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:451485 original size:15 final size:15
Alignment explanation
Indices: 451465--451495 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
451455 TAAAAATGTC
*
451465 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
451480 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
451495 C
1 C
451496 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:453589 original size:13 final size:13
Alignment explanation
Indices: 453571--453609 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
453561 ATACATTTTC
453571 TTGTATCGATACA
1 TTGTATCGATACA
453584 TTGTATCGATACA
1 TTGTATCGATACA
453597 TTGTATCGATACA
1 TTGTATCGATACA
453610 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:453773 original size:20 final size:20
Alignment explanation
Indices: 453730--453775 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
453720 AAATCTTTTG
453730 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
453751 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
453771 CAAAA
1 CAAAA
453776 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:455446 original size:30 final size:30
Alignment explanation
Indices: 455410--455471 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
455400 TAAATTTTTG
455410 ATATGAATTACTTGATTAAGGGGGAGAATT
1 ATATGAATTACTTGATTAAGGGGGAGAATT
455440 ATATGAATTACTTGATTAAGGGGGAGAATT
1 ATATGAATTACTTGATTAAGGGGGAGAATT
455470 AT
1 AT
455472 TAATAAACGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (30 bp):
ATATGAATTACTTGATTAAGGGGGAGAATT
Found at i:456213 original size:13 final size:13
Alignment explanation
Indices: 456195--456220 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
456185 TACAGCAAGT
456195 ATGTATCGATACA
1 ATGTATCGATACA
456208 ATGTATCGATACA
1 ATGTATCGATACA
456221 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:457314 original size:24 final size:24
Alignment explanation
Indices: 457278--457333 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 24
457268 TCCGACATTG
*
457278 AAGAAGAAGAGTTTGAACAAGCCGA
1 AAGAAGAAAAGTTTGAACAAGCC-A
457303 AA-AAGAAAAGTTTGAACAAGCCA
1 AAGAAGAAAAGTTTGAACAAGCCA
457326 AAGAAGAA
1 AAGAAGAA
457334 GGCAATGGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 3 0.10
24 24 0.83
25 2 0.07
ACGTcount: A:0.55, C:0.11, G:0.23, T:0.11
Consensus pattern (24 bp):
AAGAAGAAAAGTTTGAACAAGCCA
Found at i:462478 original size:28 final size:28
Alignment explanation
Indices: 462444--462513 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
462434 TAAAATCGAA
* *
462444 TTGGAGTATCCCCTCGGAAATAACAAGG
1 TTGGAGTATCCCCACGAAAATAACAAGG
**
462472 TTGGAGTATCCCCACGAAAATAACGGGG
1 TTGGAGTATCCCCACGAAAATAACAAGG
462500 TTGGAGTATCCCCA
1 TTGGAGTATCCCCA
462514 ATTGCGAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (28 bp):
TTGGAGTATCCCCACGAAAATAACAAGG
Found at i:462510 original size:106 final size:107
Alignment explanation
Indices: 462389--462591 Score: 282
Period size: 106 Copynumber: 1.9 Consensus size: 107
462379 GAAATAAAAT
* ** *
462389 CGGGGTTGGAGTATCCCCGATGGCGAAAAATTGGTGTTTTAGAAATAAAA-TCGAATTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATGGCGAAAAATCAGTGTTTTAGAAATAAAACTCGAATTGGAATAT
** *
462453 CCCCTCGGAAATAACAAGGTTGGAGTATCCCCACGAAAATAA
66 CCCCTCAAAAATAACAAGATTGGAGTATCCCCACGAAAATAA
* * * *
462495 CGGGGTTGGAGTATCCCCAATTGCGAAAAATCAGTGTTTTGGAAATAAAACTGGAGTTGGAATAT
1 CGGGGTTGGAGTATCCCCAATGGCGAAAAATCAGTGTTTTAGAAATAAAACTCGAATTGGAATAT
**
462560 CCCCTCAAAAATAATGAGATTGGAGTATCCCC
66 CCCCTCAAAAATAACAAGATTGGAGTATCCCC
462592 GATTGTGAAA
Statistics
Matches: 83, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
106 45 0.54
107 38 0.46
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (107 bp):
CGGGGTTGGAGTATCCCCAATGGCGAAAAATCAGTGTTTTAGAAATAAAACTCGAATTGGAATAT
CCCCTCAAAAATAACAAGATTGGAGTATCCCCACGAAAATAA
Found at i:462562 original size:79 final size:77
Alignment explanation
Indices: 462471--462877 Score: 350
Period size: 79 Copynumber: 5.3 Consensus size: 77
462461 AAATAACAAG
* * *
462471 GTTGGAGTATCCCCACGAAAATAACGGGGTTGGAGTATCCCCAATTGCGAAAAATCAGTGTTTTG
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAAT-AGTGTTTTG
462536 GAAATAAAACTGGA
65 GAAATAAAA-TGGA
* * * * *
462550 GTTGGAATATCCCCTCAAAAATAATGAGATTGGAGTATCCCCGATTGTG---AA-A------TGG
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATAGTGTTTTGG
*
462605 AAATAAAATTGA
66 AAATAAAATGGA
* * ** * * *
462617 GATTGGAGTATCACCTCGAAAATAACAGAATTAGAGTATCCCCAATTGTGAAAAATTGATGTTTT
1 G-TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATAG-TGTTTT
*
462682 GGAAATAAAATCGGG
64 GGAAATAAAAT-GGA
* * * * * *
462697 GTTGGAGTATCCCCTCGAAAATAACAGGGTTAGAGT-GCCCTTGATTGTGGAAAATCGATGTTTT
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCC-CGATTGTGAAAAATAG-TGTTTT
* *
462761 AGAAATAAAACTGGG
64 GGAAATAAAA-TGGA
* * * * * *
462776 GTTGGAGTATCCCCTTGAAAATAATGGGGTTGGAGTATCCCCGGTTATGAAAAATGGTGTTTTGA
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATAGTGTTTTGG
*
462841 AAATAAAATCGGG
66 AAATAAAAT-GGA
* *
462854 GTTGGAGCATCCCCTCGGAAATAA
1 GTTGGAGTATCCCCTCGAAAATAA
462878 AAACATGAAA
Statistics
Matches: 266, Mismatches: 45, Indels: 35
0.77 0.13 0.10
Matches are distributed among these distances:
67 4 0.02
68 50 0.19
71 2 0.01
74 1 0.00
76 2 0.01
77 1 0.00
78 41 0.15
79 159 0.60
80 6 0.02
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (77 bp):
GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATAGTGTTTTGG
AAATAAAATGGA
Found at i:462654 original size:68 final size:68
Alignment explanation
Indices: 462534--462669 Score: 177
Period size: 68 Copynumber: 2.0 Consensus size: 68
462524 ATCAGTGTTT
* * * *
462534 TGGAAATAAAACTGGAGTTGGAATATCCCCTCAAAAATAATGAGATTGGAGTATCCCCGATTGTG
1 TGGAAATAAAACTGGAGTTGGAATATCACCTCAAAAATAAAGAGATTAGAGTATCCCCAATTGTG
462599 AAA
66 AAA
* * *
462602 TGGAAATAAAA-TTGAGATTGGAGTATCACCTCGAAAATAACAGA-ATTAGAGTATCCCCAATTG
1 TGGAAATAAAACTGGAG-TTGGAATATCACCTCAAAAATAA-AGAGATTAGAGTATCCCCAATTG
462665 TGAAA
64 TGAAA
462670 AATTGATGTT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
67 4 0.07
68 53 0.90
69 2 0.03
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (68 bp):
TGGAAATAAAACTGGAGTTGGAATATCACCTCAAAAATAAAGAGATTAGAGTATCCCCAATTGTG
AAA
Found at i:462743 original size:147 final size:150
Alignment explanation
Indices: 462472--462878 Score: 405
Period size: 147 Copynumber: 2.7 Consensus size: 150
462462 AATAACAAGG
* * *
462472 TTGGAGTATCCCCACGAAAATAACGGGGTTGGAGTATCCCCAATTGCGAAAAATCAGTGTTTTGG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAATGA-TGTTTTGG
* * * * * *
462537 AAATAAAA-CTGGAGTTGGAATATCCCCTCAAAAATAATGAGATTGGAGTATCCCCGATTGT-G-
65 AAATAAAATC-GGGGTTGGAGTATCCCCTCGAAAATAAAGAGATTAGAGTAGCCCCGATTGTGGA
*
462599 AA-ATG-GAAATAAAATTGAGA
129 AACATGTGAAATAAAACTGAGA
* * ** *
462619 TTGGAGTATCACCTCGAAAATAACAGAATTAGAGTATCCCCAATTGTGAAAAATTGATGTTTTGG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAA-TGATGTTTTGG
* *
462684 AAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACAG-GGTTAGAGT-GCCCTTGATTGTGG
65 AAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAA-AGAGATTAGAGTAGCCC-CGATTGTGG
* *
462747 AAAATCGATGTTTTAGAAATAAAACTGGGG
128 -AAA-C-ATG---T-GAAATAAAACTGAGA
* * ** * * *
462777 TTGGAGTATCCCCTTGAAAATAATGGGGTTGGAGTATCCCCGGTTATGAAAAATGGTGTTTTGAA
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAATGATGTTTTGGA
* *
462842 AATAAAATCGGGGTTGGAGCATCCCCTCGGAAATAAA
66 AATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAAA
462879 AACATGAAAG
Statistics
Matches: 212, Mismatches: 33, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
146 3 0.01
147 99 0.47
148 5 0.02
150 2 0.01
153 3 0.01
156 1 0.00
157 44 0.21
158 55 0.26
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (150 bp):
TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAATGATGTTTTGGA
AATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAAAGAGATTAGAGTAGCCCCGATTGTGGAAA
CATGTGAAATAAAACTGAGA
Found at i:465876 original size:13 final size:13
Alignment explanation
Indices: 465841--465877 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
465831 AATGTTCTAA
*
465841 GTATCGATACATT
1 GTATCGATATATT
465854 GTATCGATATATT
1 GTATCGATATATT
465867 GTATCGATATA
1 GTATCGATATA
465878 GGGTTACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (13 bp):
GTATCGATATATT
Found at i:466165 original size:21 final size:21
Alignment explanation
Indices: 466123--466166 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
466113 TCCCTTCAAA
* *
466123 TCTTACGTTTTAGGTTGGTTT
1 TCTTACGATTTAGGTTGCTTT
466144 TCTTACAGATTTAGGTT-CTTT
1 TCTTAC-GATTTAGGTTGCTTT
466165 TC
1 TC
466167 CACTCACCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.14, C:0.14, G:0.18, T:0.55
Consensus pattern (21 bp):
TCTTACGATTTAGGTTGCTTT
Found at i:468541 original size:20 final size:19
Alignment explanation
Indices: 468498--468549 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
468488 ACATTATGCT
***
468498 TTGTATCGATACATGTTCA
1 TTGTATCGATACACACTCA
468517 TTGTATCGATACACACTCAA
1 TTGTATCGATACACACTC-A
*
468537 TTGTATTGATACA
1 TTGTATCGATACA
468550 TGAAACTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACACACTCA
Found at i:468637 original size:20 final size:20
Alignment explanation
Indices: 468612--468658 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
468602 GTATCGATAC
468612 AATGTATCGATGCATAGTAA
1 AATGTATCGATGCATAGTAA
468632 AATGTATCGATGCATAGTAA
1 AATGTATCGATGCATAGTAA
468652 AATGTAT
1 AATGTAT
468659 TGATACATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (20 bp):
AATGTATCGATGCATAGTAA
Found at i:470085 original size:66 final size:63
Alignment explanation
Indices: 469962--470122 Score: 209
Period size: 66 Copynumber: 2.5 Consensus size: 63
469952 TAACTTTACA
* **
469962 ACACTATCTTTCAAGGCTAAGATAGAAACCTCCTTATCTTTTCACGGGCAAAGATAGAACCTTTC
1 ACACTATCTTTCAAGGCTAAGATAG-AACCTCCCTATCTTTTCAAAGGCAAAGATAGAACC--TC
470027 T
63 T
* *
470028 -CCCTATCTTTTGC-AGGCTAAGATAGAACCTCCCTATCTTTTACAAAGGCTAAGATAGAACCTC
1 ACACTATC-TTT-CAAGGCTAAGATAGAACCTCCCTATCTTTT-CAAAGGCAAAGATAGAACCTC
470091 T
63 T
470092 ACACTATCTTTCAAGGCTAAGATAGAACCTC
1 ACACTATCTTTCAAGGCTAAGATAGAACCTC
470123 TCAATCACTT
Statistics
Matches: 84, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
63 1 0.01
64 24 0.29
65 27 0.32
66 31 0.37
67 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (63 bp):
ACACTATCTTTCAAGGCTAAGATAGAACCTCCCTATCTTTTCAAAGGCAAAGATAGAACCTCT
Found at i:470123 original size:32 final size:31
Alignment explanation
Indices: 469965--470124 Score: 168
Period size: 32 Copynumber: 5.0 Consensus size: 31
469955 CTTTACAACA
469965 CTATC-TTTCAAGGCTAAGATAGAAACCTC-C
1 CTATCTTTTCAAGGCTAAGATAG-AACCTCTC
* * *
469995 TTATCTTTTCACGGGCAAAGATAGAACCTTTCTCC
1 CTATCTTTTCA-AGGCTAAGATAGAACC--TCT-C
470030 CTATCTTTTGC-AGGCTAAGATAGAACCTC-C
1 CTATCTTTT-CAAGGCTAAGATAGAACCTCTC
470060 CTATCTTTTACAAAGGCTAAGATAGAACCTCTAC
1 CTATCTTTT-C-AAGGCTAAGATAGAACCTCT-C
470094 ACTATC-TTTCAAGGCTAAGATAGAACCTCTC
1 -CTATCTTTTCAAGGCTAAGATAGAACCTCTC
470125 AATCACTTAG
Statistics
Matches: 111, Mismatches: 7, Indels: 23
0.79 0.05 0.16
Matches are distributed among these distances:
30 15 0.14
31 10 0.09
32 50 0.45
33 3 0.03
34 18 0.16
35 14 0.13
36 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.30
Consensus pattern (31 bp):
CTATCTTTTCAAGGCTAAGATAGAACCTCTC
Found at i:472843 original size:13 final size:13
Alignment explanation
Indices: 472824--472862 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
472814 ACTATTTATG
*
472824 ATGTATCAATACA
1 ATGTATCGATACA
*
472837 CTGTATCGATACA
1 ATGTATCGATACA
472850 ATGTATCGATACA
1 ATGTATCGATACA
472863 TGAATAGTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:472965 original size:21 final size:21
Alignment explanation
Indices: 472940--472980 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
472930 CCTATGAACA
472940 GTGATGTATCGATACATGAAG
1 GTGATGTATCGATACATGAAG
472961 GTGATGTATCGATACATGAA
1 GTGATGTATCGATACATGAA
472981 CAGTGATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (21 bp):
GTGATGTATCGATACATGAAG
Found at i:472995 original size:10 final size:10
Alignment explanation
Indices: 472976--473006 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
472966 GTATCGATAC
472976 ATGAACAGTG
1 ATGAACAGTG
*
472986 ATGAATAGTG
1 ATGAACAGTG
472996 ATGAACAGTG
1 ATGAACAGTG
473006 A
1 A
473007 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:473095 original size:53 final size:53
Alignment explanation
Indices: 473030--473166 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
473020 CTACTACCAA
*
473030 TGTATCAATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
473083 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
473136 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
473167 TATGCAATCT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 66 0.84
54 13 0.16
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:473199 original size:20 final size:20
Alignment explanation
Indices: 473136--473206 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
473126 GCCAATGTCC
**
473136 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
473156 TGTATCGATAC-TATGCAATC
1 TGTATCGATACATAT-TAATG
473176 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
473196 TGTATCGATAC
1 TGTATCGATAC
473207 TTTTCAAGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:474641 original size:34 final size:34
Alignment explanation
Indices: 474598--474765 Score: 284
Period size: 34 Copynumber: 4.9 Consensus size: 34
474588 ATTCCTCACC
474598 CTTTT-AAAGCCCACAACTCCGTGGCACCTTTTT
1 CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
474631 CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
*
474665 CTTTTCAAAGCCCACAACTCTGTGGCACCTTTTT
1 CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
474699 CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
* *
474733 CTTTTCAAAAGCCCACAAGTCAGTGGCAACCTT
1 CTTTTC-AAAGCCCACAACTCCGTGGC-ACCTT
474766 CAAAAGCCCA
Statistics
Matches: 128, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
33 5 0.04
34 100 0.78
35 18 0.14
36 5 0.04
ACGTcount: A:0.23, C:0.33, G:0.12, T:0.32
Consensus pattern (34 bp):
CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
Found at i:474922 original size:49 final size:49
Alignment explanation
Indices: 474794--475083 Score: 352
Period size: 48 Copynumber: 5.9 Consensus size: 49
474784 GGTGGCGTCT
* * * *
474794 TCTTCTAAGTCCAATATCACTGGCCTTAAATTAGCATATTGGCACCTTCA
1 TCTT-TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * * * *
474844 CCTTTAA-ACCAATGTCGCTGGCCTTGAATCAGCACATTGGTATCTTCA
1 TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
*
474892 TCTTTAAG-CCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-G
1 TCTTTAAGACC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * *
474940 TCTTTAAGACCAATGTCGCTGGCCATGAATCAGCATATTGGCGCCTTAACCA
1 TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT---CA
*
474992 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
1 TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * * *
475041 TCTCTAAGTCCAATATTGTTGGCCTTGAATCAGCATATTGGCA
1 TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA
475084 TCTTTAAAAT
Statistics
Matches: 207, Mismatches: 26, Indels: 15
0.83 0.10 0.06
Matches are distributed among these distances:
48 82 0.40
49 77 0.37
50 3 0.01
52 45 0.22
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (49 bp):
TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
Found at i:475064 original size:149 final size:146
Alignment explanation
Indices: 474794--475083 Score: 395
Period size: 149 Copynumber: 2.0 Consensus size: 146
474784 GGTGGCGTCT
* * *
474794 TCTTCTAAGTCCAATATCACTGGCCTTAAATTAGCATATTGGCACCTTCACCTTTAAACCAATGT
1 TCTTCTAAGACCAATATCACTGGCCATAAATCAGCATATTGGCACCTTCACCTTTAAACCAATGT
* * *
474859 CGCTGGCCTTGAATCAGCACATTGGTATCTTCATCTTTAAGCCTAATATCGCTGGCCTTGAATCA
66 CGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTCTAAGCCTAATATCGCTGGCCTTGAATCA
474924 GCATATTGGCACCTTG
131 GCATATTGGCACCTTG
* * * * *
474940 TCTT-TAAGACCAATGTCGCTGGCCATGAATCAGCATATTGGCGCCTTAACCATCTTTAAGACCA
1 TCTTCTAAGACCAATATCACTGGCCATAAATCAGCATATTGGCACCTT---CACCTTTAA-ACCA
* * *
475004 ATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTCTAAGTCC-AATATTGTTGGCCTTG
62 ATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTCTAAG-CCTAATATCGCTGGCCTTG
475068 AATCAGCATATTGGCA
126 AATCAGCATATTGGCA
475084 TCTTTAAAAT
Statistics
Matches: 125, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
145 36 0.29
146 4 0.03
148 8 0.06
149 75 0.60
150 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (146 bp):
TCTTCTAAGACCAATATCACTGGCCATAAATCAGCATATTGGCACCTTCACCTTTAAACCAATGT
CGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTCTAAGCCTAATATCGCTGGCCTTGAATCA
GCATATTGGCACCTTG
Found at i:475127 original size:52 final size:50
Alignment explanation
Indices: 474796--475119 Score: 285
Period size: 49 Copynumber: 6.5 Consensus size: 50
474786 TGGCGTCTTC
* * * * * *
474796 TTCTAAGTCCAATATCACTGGCCTTAAATTAGCATATTGGCA-CCTTCACC
1 TTCTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCCTT-ACA
* *
474846 TT-TAA-ACCAATGTCGCTGGCCTTGAATCAGCACATTGGTAT-CTT-CA
1 TTCTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCCTTACA
* * *
474892 TCTTTAAG-CCTAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTTGTC-
1 T-TCTAAGACC-AATGTCGCTGGCCTTGAATCAGCATATTGGCATCCTT-ACA
* *
474942 TT-TAAGACCAATGTCGCTGGCCATGAATCAGCATATTGGC-GCCTTAACCA
1 TTCTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCCTT-A-CA
*
474992 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CCTT-CA
1 T-TCTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCCTTACA
* * * * * *
475041 TCTCTAAGTCCAATATTGTTGGCCTTGAATCAGCATATTGGCATCTTTAAAA
1 T-TCTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCCTT-ACA
*
475093 TTCCTAAGCCCAATGTCGCTGGCCTTG
1 TT-CTAAGACCAATGTCGCTGGCCTTG
475120 TCTCAGCACA
Statistics
Matches: 228, Mismatches: 27, Indels: 36
0.78 0.09 0.12
Matches are distributed among these distances:
46 2 0.01
47 1 0.00
48 73 0.32
49 79 0.35
50 7 0.03
51 3 0.01
52 63 0.28
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (50 bp):
TTCTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCCTTACA
Found at i:475889 original size:19 final size:19
Alignment explanation
Indices: 475865--475928 Score: 59
Period size: 19 Copynumber: 3.7 Consensus size: 19
475855 TTTCAACAAT
475865 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
475884 TTGTATTGATAC--AA---
1 TTGTATCGATACATAAGTG
*
475898 -TGTATCGATACATAGGTG
1 TTGTATCGATACATAAGTG
*
475916 TTGTATCAATACA
1 TTGTATCGATACA
475929 ATGTATTGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
13 10 0.29
15 1 0.03
17 2 0.06
19 22 0.63
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:475903 original size:32 final size:32
Alignment explanation
Indices: 475866--476000 Score: 198
Period size: 32 Copynumber: 4.2 Consensus size: 32
475856 TTCAACAATT
*
475866 TGTATCGATACATAAGTGTTGTATTGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
475898 TGTATCGATACATAGGTGTTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* * *
475930 TGTATTGATACATAGGTATTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
475962 TGTATCGATACATAAGTTTTGTATGGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
475994 TGTATCG
1 TGTATCG
476001 CTGTGAAGCT
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 93 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:475958 original size:19 final size:19
Alignment explanation
Indices: 475898--475960 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 19
475888 ATTGATACAA
*
475898 TGTATCGATACATAGGTGT
1 TGTATCGATACATAGGTAT
*
475917 TGTATCAATAC--A---A-
1 TGTATCGATACATAGGTAT
*
475930 TGTATTGATACATAGGTAT
1 TGTATCGATACATAGGTAT
475949 TGTATCGATACA
1 TGTATCGATACA
475961 ATGTATCGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 12
0.66 0.10 0.24
Matches are distributed among these distances:
13 9 0.27
15 1 0.03
17 1 0.03
18 1 0.03
19 21 0.64
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATAGGTAT
Found at i:475967 original size:13 final size:13
Alignment explanation
Indices: 475949--475973 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
475939 ACATAGGTAT
475949 TGTATCGATACAA
1 TGTATCGATACAA
475962 TGTATCGATACA
1 TGTATCGATACA
475974 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:567282 original size:2 final size:2
Alignment explanation
Indices: 567272--567332 Score: 113
Period size: 2 Copynumber: 30.0 Consensus size: 2
567262 AAACATTAGG
567272 GA GA CGA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA -GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
567315 GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA
567333 ATTGATTTTT
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 56 0.97
3 2 0.03
ACGTcount: A:0.49, C:0.02, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:569254 original size:24 final size:24
Alignment explanation
Indices: 569226--569273 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
569216 ATATTATTTA
*
569226 TTTTTATTTTTTTAAAATTTTTAAC
1 TTTTAATTTTTTT-AAATTTTTAAC
*
569251 TTTTAATTTTTTTTAATTTTTAA
1 TTTTAATTTTTTTAAATTTTTAA
569274 TTATTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTTAATTTTTTTAAATTTTTAAC
Found at i:569263 original size:17 final size:17
Alignment explanation
Indices: 569223--569292 Score: 81
Period size: 17 Copynumber: 4.2 Consensus size: 17
569213 CTTATATTAT
*
569223 TTATTTTTATTTTTTTAA
1 TTATTTTTA-ATTTTTAA
* *
569241 -AATTTTTAACTTTTAA
1 TTATTTTTAATTTTTAA
*
569257 TTTTTTTTAATTTTTAA
1 TTATTTTTAATTTTTAA
569274 TTATTTTT-ATTTTTAA
1 TTATTTTTAATTTTTAA
569290 TTA
1 TTA
569293 CTTAATATCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
16 17 0.39
17 27 0.61
ACGTcount: A:0.27, C:0.01, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTTTTAATTTTTAA
Found at i:570007 original size:29 final size:30
Alignment explanation
Indices: 569941--570053 Score: 124
Period size: 29 Copynumber: 3.8 Consensus size: 30
569931 ATATTTTCTT
* **
569941 ATGGATATTCATATTAATATT-TATTAT-CA
1 ATGGATATTTATATTAAT-TTGTATTATGTG
*
569970 ATTGATATTTATATTAATTT-TATTATGTG
1 ATGGATATTTATATTAATTTGTATTATGTG
* *
569999 ATGGGTATTTATATTAATTTGTATTTTGTG
1 ATGGATATTTATATTAATTTGTATTATGTG
* *
570029 ATTGATATTCATATTAATTTGTATT
1 ATGGATATTTATATTAATTTGTATT
570054 TGATGGGTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
28 8 0.11
29 34 0.47
30 30 0.42
ACGTcount: A:0.31, C:0.03, G:0.12, T:0.55
Consensus pattern (30 bp):
ATGGATATTTATATTAATTTGTATTATGTG
Found at i:571072 original size:69 final size:69
Alignment explanation
Indices: 570999--571138 Score: 183
Period size: 69 Copynumber: 2.0 Consensus size: 69
570989 CTCTTGGAGG
* *
570999 AATAAGGTTGGAGTATCATCGAAAATGATAATTTAGGCAAAAATAAGATTTAAAT-TTGACAAGT
1 AATAAGGTTGGAGTATCATCGAAAATGACAATTTAAGCAAAAATAAGATTTAAATCTTGACAAGT
571063 TTGAA
66 TT-AA
* ** ** * *
571068 AATAAGGTTGGAGTATCCTTTATGATGACAATTTAAGTAAAAATAATATTTAAATCTTGACAAGT
1 AATAAGGTTGGAGTATCATCGAAAATGACAATTTAAGCAAAAATAAGATTTAAATCTTGACAAGT
571133 TTAA
66 TTAA
571137 AA
1 AA
571139 CAGAATTGGA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
69 50 0.82
70 11 0.18
ACGTcount: A:0.44, C:0.06, G:0.16, T:0.33
Consensus pattern (69 bp):
AATAAGGTTGGAGTATCATCGAAAATGACAATTTAAGCAAAAATAAGATTTAAATCTTGACAAGT
TTAA
Found at i:571148 original size:69 final size:69
Alignment explanation
Indices: 571023--571152 Score: 174
Period size: 69 Copynumber: 1.9 Consensus size: 69
571013 ATCATCGAAA
* * * *
571023 ATGATAATTTAGGCAAAAATAAGATTTAAATTTGACAAGTTTGAAAATAAGGTTGGAGTATCCTT
1 ATGACAATTTAAGCAAAAATAAGATTTAAATTTGACAAGTTTGAAAACAAGATTGGAGTATCCTT
571088 TATG
66 TATG
* *
571092 ATGACAATTTAAGTAAAAATAATATTTAAATCTTGACAAGTTT-AAAAC-AGAATTGGAGTAT
1 ATGACAATTTAAGCAAAAATAAGATTTAAAT-TTGACAAGTTTGAAAACAAG-ATTGGAGTAT
571153 TCCCTCGAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
68 2 0.04
69 40 0.75
70 11 0.21
ACGTcount: A:0.44, C:0.06, G:0.16, T:0.34
Consensus pattern (69 bp):
ATGACAATTTAAGCAAAAATAAGATTTAAATTTGACAAGTTTGAAAACAAGATTGGAGTATCCTT
TATG
Found at i:571253 original size:96 final size:97
Alignment explanation
Indices: 571073--571274 Score: 268
Period size: 96 Copynumber: 2.1 Consensus size: 97
571063 TTGAAAATAA
* * * *
571073 GGTTGGAGTATCCTTTATGATGACAATTTAAGTAAAAATAATATTTAAATCTTGACAAGTTTAAA
1 GGTTGGAGTATCCTTAATGATGACAATTTAAGAAAAAACAAGATTTAAATCTTGACAAGTTTAAA
*
571138 ACAGAATTGGAGTATTCCC-TCGAAAGAATGT
66 ACAGAATTGGAATATTCCCTTCGAAAGAATGT
* **
571169 GGTTGGAGTAT-CTTCAATGATGACGATTTAAGAAAAAACAAGATTTAAATCTTGATGAGTTTAA
1 GGTTGGAGTATCCTT-AATGATGACAATTTAAGAAAAAACAAGATTTAAATCTTGACAAGTTT-A
*
571233 AAACATG-ATTGGAATA-TCCCTTCGGAAGAATGT
64 AAACA-GAATTGGAATATTCCCTTCGAAAGAATGT
571266 GGTTGGAGT
1 GGTTGGAGT
571275 GTCCCCGTAA
Statistics
Matches: 93, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
95 3 0.03
96 55 0.59
97 34 0.37
98 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (97 bp):
GGTTGGAGTATCCTTAATGATGACAATTTAAGAAAAAACAAGATTTAAATCTTGACAAGTTTAAA
ACAGAATTGGAATATTCCCTTCGAAAGAATGT
Found at i:576327 original size:13 final size:13
Alignment explanation
Indices: 576309--576334 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
576299 ACAAAGATCC
576309 ATGTATCGATACA
1 ATGTATCGATACA
576322 ATGTATCGATACA
1 ATGTATCGATACA
576335 TTTTGTAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:577298 original size:49 final size:49
Alignment explanation
Indices: 577181--578369 Score: 1074
Period size: 49 Copynumber: 24.8 Consensus size: 49
577171 GAAGAATGCT
** * * * **
577181 AATGTGCTGAGACAAGGCCAGCGACATTGGGCTTTAAAGATGACGAAAGCACC
1 AATGTGCTGATTCAAGGCCAACGACATTGGAC-TTAAAGAT---GAAGGTGCC
* * * *
577234 AATATGCTGATTCAAGGTCAACGATATTGGACTTAAAGATGAAGGTGTC
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCC
* * * * *
577283 AATGTGCTGAGTCAAGGCCAGCGACATTGGACTTAAAAAAGAA--TGCT
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCC
* ** *
577330 AATGTGTTGATTCAAGGCCAACGACATTAGGTTTTAAAGATGACGAAGGCGCC
1 AATGTGCTGATTCAAGGCCAACGACATT-GGACTTAAAGAT---GAAGGTGCC
* * *
577383 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCC
* * * *
577432 AATGTGCTGAGTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCC
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCC
* * *
577481 AATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGGTGAAGGTGCC
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCC
* * * *
577530 AACGTGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGAAGAA--TGCC
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCC
* ** *
577577 AATGTGTTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGGCGCC
1 AATGTGCTGATTCAAGGCCAACGACATT-GGACTTAAAGAT---GAAGGTGCC
* * * *
577630 AATATGATGATTCAAGG-C--CGATATTGGAATTAAAGATGAAGGTGCC
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCC
* ** * *
577676 AATGTGCTGAGTCAAGGCCAACGGTATTGGTCTTAAAGATAAAGGTGCC
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCC
* * *
577725 AATATGCTGATTCAAGGCCAACGATATTGGACTT----A--AAGGTGCT
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCC
* * *
577768 AATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGGTAAAGGTGCC
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCC
* * * *
577817 AATATGCTGATTCAAGGCCAACGATATTAGACTTAAAGGTGAAGGTGCC
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCC
* * * *
577866 AATGTGCTGAGTCAAGGCCAGCGACATTGGACTTAAAAAAGAA--TGCC
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCC
* * ** *
577913 AATGTGTTGATTCAAGGCCAACAACATTGGGTTTTAAAGATGACGAAGGCGCC
1 AATGTGCTGATTCAAGGCCAACGACATT-GGACTTAAAGAT---GAAGGTGCC
* * *
577966 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCC
* * * * *
578015 AATGTGCTGAGTCAGGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCC
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCC
* * *
578064 AATATGCTGATTCAAGGCCAATGATATTGGACTT----A--AAGGTGCC
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCC
* *
578107 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCC
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCC
* * * *
578156 AATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T----GTGCC
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCC
* * * *
578195 GATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCC
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCC
* * *
578244 AATGTGCTGATTCTAGGCCAGCGACATTGGGC-T-----T----GTGCC
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCC
* * * *
578283 AATGTGCGGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCC
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCC
* * *
578332 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAG
578370 GTGTCGGAGT
Statistics
Matches: 933, Mismatches: 150, Indels: 110
0.78 0.13 0.09
Matches are distributed among these distances:
39 67 0.07
40 2 0.00
43 78 0.08
45 4 0.00
46 22 0.02
47 85 0.09
48 27 0.03
49 509 0.55
50 6 0.01
51 9 0.01
52 29 0.03
53 95 0.10
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (49 bp):
AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCC
Found at i:577526 original size:247 final size:245
Alignment explanation
Indices: 577181--578369 Score: 1294
Period size: 247 Copynumber: 5.0 Consensus size: 245
577171 GAAGAATGCT
* * * **
577181 AATGTGCTGAGACAAGGCCAGCGACATTGGGCTTTAAAGATGACGAAAGCACCAATATGCTGATT
1 AATGTGCTGAGTCAAGGCCAGCGACATTGGTC-TTAAAGAT-A--AAGGTGCCAATATGCTGATT
* *
577246 CAAGGTCAACGATATTGGACTTAAAGATGAAGGTGTCAATGTGCTGAGTCAAGGCCAGCGACATT
62 CAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCGACATT
* * *
577311 GGACTTAAAAAAGAATGCTAATGTGTTGATTCAAGGCCAACGACATTAGGTTTTAAAGATGACGA
127 GGACTTAAAAAAGAATGCCAATGTGCTGATTCAAGGCCAACGACATT-GGTCTTAAAGATGA-GA
*
577376 AGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
190 AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
577432 AATGTGCTGAGTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAG
1 AATGTGCTGAGTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAG
* *
577497 GCCAACGATATTGGACTTAAAGGTGAAGGTGCCAACGTGCTGAGTCAAGGCCAGCGACATTGGAC
66 GCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCGACATTGGAC
* * * *
577562 TTAAAGAAGAATGCCAATGTGTTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGGC
131 TTAAAAAAGAATGCCAATGTGCTGATTCAAGGCCAACGACATT-GGTCTTAAAGATGA-GAAGGT
* *
577627 GCCAATATGATGATTCAAGG-C--CGATATTGGAATTAAAGATGAAGGTGCC
194 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
* **
577676 AATGTGCTGAGTCAAGGCCAACGGTATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAG
1 AATGTGCTGAGTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAG
* * * *
577741 GCCAACGATATTGGACTT----A--AAGGTGCTAATGTGCTGATTCAAGGCCAACGACATTGGTC
66 GCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCGACATTGGAC
* * * * * *
577800 TTAAAGGTAAAG-GTGCCAATATGCTGATTCAAGGCCAACGATATTAGACTTAAAG--GTGAAGG
131 TTAAA---AAAGAATGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAGAAGG
* * * * *
577862 TGCCAATGTGCTGAGTCAAGGCCAGCGACATTGGACTTAAAAAAGAA--TGCC
193 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
* * * * * *
577913 AATGTGTTGATTCAAGGCCAACAACATTGGGTTTTAAAGATGACGAAGGCGCCAATATGCTGATT
1 AATGTGCTGAGTCAAGGCCAGCGACATT-GGTCTTAAAGAT-A--AAGGTGCCAATATGCTGATT
* *
577978 CAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAGGGCCAGCGACATT
62 CAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCGACATT
* * * * * *
578043 GGTCTTAAAGATAA-AGGTGCCAATATGCTGATTCAAGGCCAATGATATTGGAC-T-----T-A-
127 GGACTTAAA-A-AAGA-ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAG
* * *
578099 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCC
189 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
* * * * * *
578156 AATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T----GTGCCGATGTGCTGATTCAAG
1 AATGTGCTGAGTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAG
* * * * * * *
578211 GCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATGTGCTGATTCTAGGCCAGCGACATTGGGC
66 GCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCGACATTGGAC
* *
578276 TT------G--TGCCAATGTGCGGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-A-AAGGTGC
131 TTAAAAAAGAATGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAGAAGGTGC
578331 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
196 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
578370 GTGTCGGAGT
Statistics
Matches: 824, Mismatches: 85, Indels: 84
0.83 0.09 0.08
Matches are distributed among these distances:
219 30 0.04
220 1 0.00
225 46 0.06
229 78 0.09
236 23 0.03
237 29 0.04
238 51 0.06
239 26 0.03
240 29 0.04
241 91 0.11
242 2 0.00
243 27 0.03
244 107 0.13
245 2 0.00
246 4 0.00
247 239 0.29
249 1 0.00
250 8 0.01
251 30 0.04
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (245 bp):
AATGTGCTGAGTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAG
GCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCGACATTGGAC
TTAAAAAAGAATGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAGAAGGTGC
CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
Found at i:577802 original size:336 final size:338
Alignment explanation
Indices: 577181--578274 Score: 1434
Period size: 336 Copynumber: 3.2 Consensus size: 338
577171 GAAGAATGCT
* * * * *
577181 AATGTGCTGAGACAAGGCCAGCGACATTGGGCTTTAAAGATGACGAAAGCACCAATATGCTGATT
1 AATGTGCTGAGTCAAGGCCAGCGACATTGGAC-TTAAAGA--A-GAATG--CCAATGTGTTGATT
* * ** * * * * *
577246 CAAGGTCAACGATATT-GGACTTAAAGAT---GAAGGTGTCAATGTGCTGAGTCAAGGCCAGCGA
60 CAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGGCGCCAATATGATGATTCAAGGCCA-CGA
* * * * * * * *
577307 CATTGGACTTAAAAAAGAA--TGCTAATGTGTTGATTCAAGGCCAACGACATTAGGTTTTAAAGA
124 TATTGGAATTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAACGACATT-GGTCTTAAAGA
* *
577370 TGACGAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
188 T-A--AAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT----A--AAGGTGCCAAT
*
577435 GTGCTGAGTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
244 GTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
577500 AACGATATTGGACTTAAAGGTGAAGGTGCC
309 AACGATATTGGACTTAAAGGTGAAGGTGCC
*
577530 AACGTGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGAAGAATGCCAATGTGTTGATTCAAGGC
1 AATGTGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGAAGAATGCCAATGTGTTGATTCAAGGC
577595 CAACGACATTGGGTTTTAAAGATGACGAAGGCGCCAATATGATGATTCAAGG-C-CGATATTGGA
66 CAACGACATTGGGTTTTAAAGATGACGAAGGCGCCAATATGATGATTCAAGGCCACGATATTGGA
**
577658 ATTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAACGGTATTGGTCTTAAAGATAAAGGTG
131 ATTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAACGACATTGGTCTTAAAGATAAAGGTG
*
577723 CCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGGTGCTAATGTGCTGATTCAAGGCCA
196 CCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCA
* * *
577788 ACGACATTGGTCTTAAAGGTAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTAGACTTAA
261 GCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAA
577853 AGGTGAAGGTGCC
326 AGGTGAAGGTGCC
*
577866 AATGTGCTGAGTCAAGGCCAGCGACATTGGACTTAAAAAAGAATGCCAATGTGTTGATTCAAGGC
1 AATGTGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGAAGAATGCCAATGTGTTGATTCAAGGC
* *
577931 CAACAACATTGGGTTTTAAAGATGACGAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGG
66 CAACGACATTGGGTTTTAAAGATGACGAAGGCGCCAATATGATGATTCAAGGCCA-CGATATTGG
* * *
577996 ACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAGGGCCAGCGACATTGGTCTTAAAGATAAAGGT
130 AATTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAACGACATTGGTCTTAAAGATAAAGGT
*
578061 GCCAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCC
195 GCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCC
* * *
578126 AGCGACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-
260 AGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTA
578189 ----T----GTGCC
325 AAGGTGAAGGTGCC
* * * * *
578195 GATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATA-AAGGTGCCAATGTGCTGATTCTA
1 AATGTGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGA-AGAA--TGCCAATGTGTTGATTCAA
*
578259 GGCCAGCGACATTGGG
63 GGCCAACGACATTGGG
578275 CTTGTGCCAA
Statistics
Matches: 676, Mismatches: 57, Indels: 42
0.87 0.07 0.05
Matches are distributed among these distances:
329 42 0.06
330 1 0.00
331 31 0.05
333 1 0.00
336 214 0.32
337 1 0.00
338 2 0.00
339 188 0.28
342 40 0.06
343 26 0.04
344 29 0.04
345 15 0.02
346 29 0.04
347 21 0.03
348 7 0.01
349 29 0.04
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (338 bp):
AATGTGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGAAGAATGCCAATGTGTTGATTCAAGGC
CAACGACATTGGGTTTTAAAGATGACGAAGGCGCCAATATGATGATTCAAGGCCACGATATTGGA
ATTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAACGACATTGGTCTTAAAGATAAAGGTG
CCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCA
GCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAA
AGGTGAAGGTGCC
Found at i:578085 original size:19 final size:19
Alignment explanation
Indices: 578061--578126 Score: 51
Period size: 19 Copynumber: 3.2 Consensus size: 19
578051 AGATAAAGGT
578061 GCCAATATGCTGATTCAAG
1 GCCAATATGCTGATTCAAG
** *
578080 GCCAATGATATTGGACTTAAAGG
1 GCCAAT-ATGCT-GA-TTCAA-G
*
578103 TGCCAATGTGCTGATTCAAG
1 -GCCAATATGCTGATTCAAG
578123 GCCA
1 GCCA
578127 GCGACATTGG
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
19 10 0.29
20 4 0.11
21 6 0.17
22 6 0.17
23 3 0.09
24 6 0.17
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (19 bp):
GCCAATATGCTGATTCAAG
Found at i:578164 original size:92 final size:92
Alignment explanation
Indices: 577622--578372 Score: 708
Period size: 92 Copynumber: 8.1 Consensus size: 92
577612 AAAGATGACG
* * * * * * *
577622 AAGGCGCCAATATGATGATTCAAGG-C--CGATATTGGAATTAAAGATGAAGGTGCCAATGTGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGCT
* * * *
577684 GAGTCAAGGCCAACGGTATTGGTCTTAAAGATA
66 GATTCAAGGCCAGCGATATTGGAC-T-----TA
* * * * *
577717 AAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGAC-T-----TAAAGGTGCTAATGTGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGCT
* * *
577776 GATTCAAGGCCAACGACATTGGTCTTAAAGGTA
66 GATTCAAGGCCAGCGATATTGGAC-T-----TA
* * * * * * *
577809 AAGGTGCCAATATGCTGATTCAAGGCCAACGATATTAGACTTAAAGGTGAAGGTGCCAATGTGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGCT
* *
577874 GAGTCAAGGCCAGCGACATTGGACTTAAAA
66 GATTCAAGGCCAGCGATATTGGACTT---A
* * * * ** *
577904 AAGAATGCCAATGTGTTGATTCAAGGCCAACAACATTGGGTTTTAAAGATGACGAAGGCGCCAAT
1 AAG-GTGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGAT-A--AAGGTGCCAAT
577969 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
61 ATGCTGATTCAAGGCCAGCGATATTGGACTT----A
* * *
578005 TGAAGGTGCCAATGTGCTGAGTCAGGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATG
1 --AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATG
**
578070 CTGATTCAAGGCCAATGATATTGGACTTA
64 CTGATTCAAGGCCAGCGATATTGGACTTA
578099 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGCT
*
578164 GATTCAAGGCCAGCGATATTGGGCTT-
66 GATTCAAGGCCAGCGATATTGGACTTA
* * *
578190 ---GTGCCGATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATGTGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGCT
* * *
578252 GATTCTAGGCCAGCGACATTGGGCTT-
66 GATTCAAGGCCAGCGATATTGGACTTA
* *
578278 ---GTGCCAATGTGCGGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGCT
578340 GATTCAAGGCCAGCGATATTGGACTTA
66 GATTCAAGGCCAGCGATATTGGACTTA
578367 AAGGTG
1 AAGGTG
578373 TCGGAGTTGT
Statistics
Matches: 575, Mismatches: 57, Indels: 51
0.84 0.08 0.07
Matches are distributed among these distances:
88 165 0.29
92 173 0.30
93 1 0.00
94 1 0.00
95 27 0.05
96 29 0.05
97 10 0.02
98 86 0.15
100 39 0.07
101 14 0.02
102 27 0.05
103 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.25
Consensus pattern (92 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGCT
GATTCAAGGCCAGCGATATTGGACTTA
Found at i:578205 original size:39 final size:39
Alignment explanation
Indices: 578151--578312 Score: 180
Period size: 39 Copynumber: 3.9 Consensus size: 39
578141 AAAGATAAAG
* *
578151 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
* *
578190 GTGCCGATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGC-T-----T
*
578235 AAAGGTGCCAATGTGCTGATTCTAGGCCAGCGACATTGGGCTT
1 ----GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
*
578278 GTGCCAATGTGCGGATTCAAGGCCAGCGACATTGG
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
578313 TCTTAAAGAT
Statistics
Matches: 104, Mismatches: 9, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
39 66 0.63
40 1 0.01
43 1 0.01
45 1 0.01
48 1 0.01
49 34 0.33
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.25
Consensus pattern (39 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
Done.