Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 232 of 444
Found at i:65496467 original size:15 final size:15
Alignment explanation
Indices: 65496430--65496458 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
65496420 CTTTCCTATC
65496430 TAATAATAATAATTA
1 TAATAATAATAATTA
65496445 TAATAATAATAATT
1 TAATAATAATAATT
65496459 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:65496964 original size:30 final size:30
Alignment explanation
Indices: 65496930--65496989 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
65496920 ATTTAATACG
65496930 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
65496960 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
65496990 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:65497828 original size:17 final size:19
Alignment explanation
Indices: 65497808--65497851 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
65497798 ACACATACAG
65497808 TAAT-ATTTT-TCTAATAA
1 TAATAATTTTATCTAATAA
*
65497825 TAATAATTTTATCTCATAA
1 TAATAATTTTATCTAATAA
*
65497844 TACTAATT
1 TAATAATT
65497852 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (19 bp):
TAATAATTTTATCTAATAA
Found at i:65501191 original size:50 final size:50
Alignment explanation
Indices: 65501119--65501553 Score: 517
Period size: 50 Copynumber: 8.8 Consensus size: 50
65501109 TGCTAGGGAG
*
65501119 ATATGAGAGCTAGTGTAAGACCATGT-TGGGGACATGGCATCGGTCTCGAT
1 ATATGAGAGCTAGTGTAAGACCATGTCT-GGGACATGGCATCGGCCTCGAT
* *
65501169 ATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
* * * ** * *
65501219 ATATGAGAGTTAGTGTAAGACCTTGTCTGGGATATGGCATCAACCTTGAA
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
* * *
65501269 ATATGAGAGCTAGTGTAAGACTATGTTTGGGACATGGCATCGGCCTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
* *
65501319 ATATGAGAGCTAGTGTAAGACCATGTCTGGGTCATGGCATCGGCCTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
* * * *
65501369 ATATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATTGG-CTTGAT
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
* * * *
65501418 ATAT--G-TC-AGTGTAAGACTATGTTTGGGAGATGGCATCGGCAC-CGAT
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAT
* * *
65501464 AGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCAAT
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
* * * *
65501514 ATACGAGAG-TCAATGTAAGACCATGTTTGGGACACGGCAT
1 ATATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCAT
65501554 TGACTTTGAT
Statistics
Matches: 328, Mismatches: 48, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
45 27 0.08
46 7 0.02
47 2 0.01
48 1 0.00
49 11 0.03
50 279 0.85
51 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (50 bp):
ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
Found at i:65501390 original size:150 final size:148
Alignment explanation
Indices: 65501119--65501605 Score: 599
Period size: 150 Copynumber: 3.3 Consensus size: 148
65501109 TGCTAGGGAG
* * *
65501119 ATATGAGAGCTAGTGTAAGACCATGTTGGGGACATGGCATCGGTCTCGATATATGAGAGCTAGTG
1 ATATGAGAGCTAGTGTAAGACTATGTTTGGGACATGGCATCGGCCTCGATATATGAGAGCTAGTG
* * *
65501184 TAAGACCATGTCTAGGACATGGCATCGGCCTCGAGATATGAGAGTTAGTGTAAGACCTTGTCTGG
66 TAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAGTCAGTGTAAGACCATGTCTGG
*
65501249 GATATGGCATCAACCTTGAA
131 GACATGGCAT-AACCTTG-A
*
65501269 ATATGAGAGCTAGTGTAAGACTATGTTTGGGACATGGCATCGGCCTCGAGATATGAGAGCTAGTG
1 ATATGAGAGCTAGTGTAAGACTATGTTTGGGACATGGCATCGGCCTCGATATATGAGAGCTAGTG
* * *
65501334 TAAGACCATGTCTGGGTCATGGCATCGGCCTCGAGATATGAGAGCCAGTGTAAGACCATGTCTAG
66 TAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAGTCAGTGTAAGACCATGTCTGG
***
65501399 GACATGGCATTGGCTTG-
131 GACATGGCATAACCTTGA
* * *
65501416 ATAT-A-TG-TCAGTGTAAGACTATGTTTGGGAGATGGCATCGGCAC-CGATAGATGAGAGCTAG
1 ATATGAGAGCT-AGTGTAAGACTATGTTTGGGACATGGCATCGGC-CTCGATATATGAGAGCTAG
* * * * * *
65501477 TGTAAGACCATGTCTGGGACATGGCATCGACCTCAATATACGAGAGTCAATGTAAGACCATGTTT
64 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAGTCAGTGTAAGACCATGTCT
* * *
65501542 GGGACACGGCATTGACTTTG-
129 GGGACATGGCA-TAACCTTGA
* * * * * *
65501562 ATGTGTGAGCCAATGTAAGACTATGTTCGGGACATGGCGTCGGC
1 ATATGAGAGCTAGTGTAAGACTATGTTTGGGACATGGCATCGGC
65501606 ACCTTACCCT
Statistics
Matches: 291, Mismatches: 40, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
144 1 0.00
145 114 0.39
146 9 0.03
147 4 0.01
148 30 0.10
149 4 0.01
150 129 0.44
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (148 bp):
ATATGAGAGCTAGTGTAAGACTATGTTTGGGACATGGCATCGGCCTCGATATATGAGAGCTAGTG
TAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAGTCAGTGTAAGACCATGTCTGG
GACATGGCATAACCTTGA
Found at i:65504598 original size:27 final size:27
Alignment explanation
Indices: 65504553--65504647 Score: 120
Period size: 27 Copynumber: 3.5 Consensus size: 27
65504543 CGAGATGTAA
* * *
65504553 AAGTACAATCCAAAATGGCAGATAGTCC
1 AAGTACAAGCC-AAGTGGCAGACAGTCC
* *
65504581 AAGTGCAAGCCAAGTGGC-GAACAATCC
1 AAGTACAAGCCAAGTGGCAG-ACAGTCC
65504608 AAGTACAAGCCAAGTGGCAGACAGTCC
1 AAGTACAAGCCAAGTGGCAGACAGTCC
65504635 AAGTACAAGCCAA
1 AAGTACAAGCCAA
65504648 AGGGAGGATA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.02
27 47 0.81
28 10 0.17
ACGTcount: A:0.41, C:0.24, G:0.22, T:0.13
Consensus pattern (27 bp):
AAGTACAAGCCAAGTGGCAGACAGTCC
Found at i:65504660 original size:27 final size:27
Alignment explanation
Indices: 65504576--65504671 Score: 106
Period size: 27 Copynumber: 3.6 Consensus size: 27
65504566 AATGGCAGAT
* * *
65504576 AGTCCAAGTGCAAGCCAAGTGGCGAAC
1 AGTCCAAGTACAAGCCAAGTGGAGGAC
*
65504603 AATCCAAGTACAAGCCAAGTGGCA-GAC
1 AGTCCAAGTACAAGCCAAGTGG-AGGAC
*
65504630 AGTCCAAGTACAAGCCAAAG-GGAGGAT
1 AGTCCAAGTACAAGCC-AAGTGGAGGAC
*
65504657 AGTCCAAGTGCAAGC
1 AGTCCAAGTACAAGC
65504672 TAAAATGGTG
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.02
27 55 0.93
28 3 0.05
ACGTcount: A:0.38, C:0.24, G:0.27, T:0.11
Consensus pattern (27 bp):
AGTCCAAGTACAAGCCAAGTGGAGGAC
Found at i:65504663 original size:54 final size:55
Alignment explanation
Indices: 65504553--65504679 Score: 141
Period size: 54 Copynumber: 2.3 Consensus size: 55
65504543 CGAGATGTAA
* * * *
65504553 AAGTACAATCCAAAATGGCAGATAGTCCAAGTGCAAGCCAAGTGGCGAACAATCC
1 AAGTACAAGCCAAAATGGCAGACAGTCCAAGTACAAGCCAAGTGGAGAACAATCC
* * * *
65504608 AAGTACAAGCC-AAGTGGCAGACAGTCCAAGTACAAGCCAAAG-GGAGGATAGTCC
1 AAGTACAAGCCAAAATGGCAGACAGTCCAAGTACAAGCC-AAGTGGAGAACAATCC
* *
65504662 AAGTGCAAGCTAAAATGG
1 AAGTACAAGCCAAAATGG
65504680 TGAACACTCA
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
54 41 0.69
55 18 0.31
ACGTcount: A:0.40, C:0.21, G:0.25, T:0.13
Consensus pattern (55 bp):
AAGTACAAGCCAAAATGGCAGACAGTCCAAGTACAAGCCAAGTGGAGAACAATCC
Found at i:65505808 original size:55 final size:55
Alignment explanation
Indices: 65505724--65505834 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
65505714 ATATATATAC
65505724 TTTATACATACTTACATTGTAACAGCCCTAACCCCTCTCCATCGTCGAAATAGGA
1 TTTATACATACTTACATTGTAACAGCCCTAACCCCTCTCCATCGTCGAAATAGGA
*
65505779 TTTATACATGCTTACATTGTAACAGCCCTAACCCCTCTCCATCGTCGAAATAGGA
1 TTTATACATACTTACATTGTAACAGCCCTAACCCCTCTCCATCGTCGAAATAGGA
65505834 T
1 T
65505835 CACGAGCATT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.30
Consensus pattern (55 bp):
TTTATACATACTTACATTGTAACAGCCCTAACCCCTCTCCATCGTCGAAATAGGA
Found at i:65506361 original size:54 final size:55
Alignment explanation
Indices: 65506275--65506403 Score: 145
Period size: 56 Copynumber: 2.3 Consensus size: 55
65506265 ACTTTTGAAG
* * * * * *
65506275 TTGGGACACATGGCCGTGTCCCAGCTCGTG-TCTCTGCCCGTGTAACTCATTTAC
1 TTGGGACACACGGCCGTGTCCCAACCCATGCTCTCTGCCCGTGTAACTCACTAAC
* *
65506329 TTGGGACACACGGGCGTGTCCCAACCCATGTCTCTCTGCCTGTGTAACTCACTAAC
1 TTGGGACACACGGCCGTGTCCCAACCCATG-CTCTCTGCCCGTGTAACTCACTAAC
*
65506385 TTGGGTA-ACACGGTCGTGT
1 TTGGG-ACACACGGCCGTGT
65506404 GTCAGCAAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
54 25 0.40
56 37 0.59
57 1 0.02
ACGTcount: A:0.17, C:0.30, G:0.25, T:0.28
Consensus pattern (55 bp):
TTGGGACACACGGCCGTGTCCCAACCCATGCTCTCTGCCCGTGTAACTCACTAAC
Found at i:65506475 original size:12 final size:12
Alignment explanation
Indices: 65506458--65506482 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65506448 TTAGGACACA
65506458 TGCCCATGTGTG
1 TGCCCATGTGTG
65506470 TGCCCATGTGTG
1 TGCCCATGTGTG
65506482 T
1 T
65506483 CACATGGCCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.32, T:0.36
Consensus pattern (12 bp):
TGCCCATGTGTG
Found at i:65506819 original size:24 final size:26
Alignment explanation
Indices: 65506792--65506840 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
65506782 TGCTAGCAAG
*
65506792 CATTAAGCTAAAC-A-CATACCAAAA
1 CATTAAACTAAACTACCATACCAAAA
*
65506816 CATTAAACTAAGCTACCATACCAAA
1 CATTAAACTAAACTACCATACCAAA
65506841 CATAGTCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 11 0.52
25 1 0.05
26 9 0.43
ACGTcount: A:0.51, C:0.27, G:0.04, T:0.18
Consensus pattern (26 bp):
CATTAAACTAAACTACCATACCAAAA
Found at i:65507360 original size:27 final size:27
Alignment explanation
Indices: 65507306--65507360 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
65507296 ATATATGACT
* *
65507306 TCATTTCAATATTCATATCTCATTTCA
1 TCATTTCAATATTCATATCCCATCTCA
*
65507333 TCATTTC-ATATTTCATTTCCCATCTCA
1 TCATTTCAATA-TTCATATCCCATCTCA
65507360 T
1 T
65507361 ATCCATTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.12
27 21 0.88
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.49
Consensus pattern (27 bp):
TCATTTCAATATTCATATCCCATCTCA
Found at i:65508371 original size:15 final size:16
Alignment explanation
Indices: 65508353--65508384 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
65508343 CTTTCTTTAT
65508353 TGTTTCTTT-TTATTA
1 TGTTTCTTTCTTATTA
65508368 TGTTTCTTTCTTATTA
1 TGTTTCTTTCTTATTA
65508384 T
1 T
65508385 TATATGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.12, C:0.09, G:0.06, T:0.72
Consensus pattern (16 bp):
TGTTTCTTTCTTATTA
Found at i:65508530 original size:16 final size:16
Alignment explanation
Indices: 65508509--65508542 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
65508499 TCCTTTTAAT
*
65508509 TTATTTTAATCTATAA
1 TTATTTCAATCTATAA
65508525 TTATTTCAATCTATAA
1 TTATTTCAATCTATAA
65508541 TT
1 TT
65508543 CAACTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATTTCAATCTATAA
Found at i:65510953 original size:44 final size:44
Alignment explanation
Indices: 65510903--65510992 Score: 144
Period size: 44 Copynumber: 2.0 Consensus size: 44
65510893 TAAATTTAAT
* * *
65510903 TTAAATTCTAATTATTTTTAAATGTGTAGTTATCACAACTTCTA
1 TTAAATTATAATTATTTTTAAATGTATAATTATCACAACTTCTA
*
65510947 TTAAATTATAATTATTTTTAAATGTATAATTATCACAACTTTTA
1 TTAAATTATAATTATTTTTAAATGTATAATTATCACAACTTCTA
65510991 TT
1 TT
65510993 TTATTTCAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.50
Consensus pattern (44 bp):
TTAAATTATAATTATTTTTAAATGTATAATTATCACAACTTCTA
Found at i:65511451 original size:17 final size:17
Alignment explanation
Indices: 65511429--65511473 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
65511419 TGCTAACTTG
65511429 TTAAAA-TAGTATTAAAA
1 TTAAAATTA-TATTAAAA
65511446 TTAAAATTATATT-AAA
1 TTAAAATTATATTAAAA
65511462 TTATAAATTATA
1 TTA-AAATTATA
65511474 AAAGTAAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.23
17 18 0.69
18 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
TTAAAATTATATTAAAA
Found at i:65513356 original size:16 final size:16
Alignment explanation
Indices: 65513335--65513367 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
65513325 GTTTGATTGA
65513335 ATGGTATTATTTGGTT
1 ATGGTATTATTTGGTT
65513351 ATGGTATTATTTGGTT
1 ATGGTATTATTTGGTT
65513367 A
1 A
65513368 ATTAATAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.55
Consensus pattern (16 bp):
ATGGTATTATTTGGTT
Found at i:65513514 original size:20 final size:20
Alignment explanation
Indices: 65513491--65513535 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
65513481 TGATATTGGT
65513491 TAGAATGCATATAAGGCATA
1 TAGAATGCATATAAGGCATA
65513511 TAGAATGCATATAAGGCATA
1 TAGAATGCATATAAGGCATA
65513531 T-GAAT
1 TAGAAT
65513536 TGGTATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.27
Consensus pattern (20 bp):
TAGAATGCATATAAGGCATA
Found at i:65519975 original size:70 final size:70
Alignment explanation
Indices: 65519862--65520000 Score: 260
Period size: 70 Copynumber: 2.0 Consensus size: 70
65519852 TTAGTAGAAC
*
65519862 AAAGTAAAAAGGTAATAGGCCAAAATGTTATTTAGATCAACTTTAACATAAAAGAAACATGTTAA
1 AAAGTAAAAAGGTAATAGGCCAAAATGTTATTTAGATAAACTTTAACATAAAAGAAACATGTTAA
65519927 GCAAT
66 GCAAT
*
65519932 AAAGTAAAAAGGTACTAGGCCAAAATGTTATTTAGATAAACTTTAACATAAAAGAAACATGTTAA
1 AAAGTAAAAAGGTAATAGGCCAAAATGTTATTTAGATAAACTTTAACATAAAAGAAACATGTTAA
65519997 GCAA
66 GCAA
65520001 AACATTAAGG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.50, C:0.10, G:0.14, T:0.25
Consensus pattern (70 bp):
AAAGTAAAAAGGTAATAGGCCAAAATGTTATTTAGATAAACTTTAACATAAAAGAAACATGTTAA
GCAAT
Found at i:65524313 original size:69 final size:69
Alignment explanation
Indices: 65524212--65524350 Score: 251
Period size: 69 Copynumber: 2.0 Consensus size: 69
65524202 GATAGGAAAA
*
65524212 ACAGGTTCCAAAACAGGAACAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTTGTGATAGG
1 ACAGGTTCCAAAACAGGAACAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGATAGG
65524277 GCTG
66 GCTG
* *
65524281 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
1 ACAGGTTCCAAAACAGGAACAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGATAGG
65524346 GCTG
66 GCTG
65524350 A
1 A
65524351 TAGAGTCTTG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (69 bp):
ACAGGTTCCAAAACAGGAACAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGATAGG
GCTG
Found at i:65533376 original size:43 final size:43
Alignment explanation
Indices: 65533281--65533377 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 43
65533271 ACACATTGCA
* *
65533281 TTATGGATAAACCACCAGTAATTACAAATAAACTGCTACTAAG
1 TTATAGATAAACCACCAGGAATTACAAATAAACTGCTACTAAG
* * *
65533324 TTATGGATAAACCACCAGGAATTGCAAATAAACTG-TCAGTAAG
1 TTATAGATAAACCACCAGGAATTACAAATAAACTGCT-ACTAAG
*
65533367 TTGTAGATAAA
1 TTATAGATAAA
65533378 TTGGTAGTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 1 0.02
43 47 0.98
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.26
Consensus pattern (43 bp):
TTATAGATAAACCACCAGGAATTACAAATAAACTGCTACTAAG
Found at i:65533414 original size:43 final size:43
Alignment explanation
Indices: 65533361--65533509 Score: 158
Period size: 43 Copynumber: 3.4 Consensus size: 43
65533351 ATAAACTGTC
* * *
65533361 AGTAAGTTGTAGATAAATTGGTAGTAAGTTGTGGATAAACCATCT
1 AGTAA-TTGTAGATAAACTGATAGTAAGTTGTGAATAAACCA-CT
*
65533406 -GTAATTGTAGAAAAACT-ATCAGTAAGTTGTGAATAAACCACT
1 AGTAATTGTAGATAAACTGAT-AGTAAGTTGTGAATAAACCACT
* * * *
65533448 AGTAATTATAGATAAACTGCTAGTAATTTATGAATAAACCACT
1 AGTAATTGTAGATAAACTGATAGTAAGTTGTGAATAAACCACT
* * *
65533491 AATAATTGCAAATAAACTG
1 AGTAATTGTAGATAAACTG
65533510 TCAGTAACTT
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
42 3 0.03
43 80 0.91
44 5 0.06
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (43 bp):
AGTAATTGTAGATAAACTGATAGTAAGTTGTGAATAAACCACT
Found at i:65533451 original size:22 final size:21
Alignment explanation
Indices: 65533382--65533507 Score: 80
Period size: 21 Copynumber: 5.9 Consensus size: 21
65533372 GATAAATTGG
*
65533382 TAGTAAGTTGTGGATAAACCATC
1 TAGTAA-TTGTGAATAAACCA-C
*
65533405 T-GTAATTGTAGAA-AAACTA-
1 TAGTAATTGT-GAATAAACCAC
65533424 TCAGTAAGTTGTGAATAAACCAC
1 T-AGTAA-TTGTGAATAAACCAC
* **
65533447 TAGTAATTAT-AGATAAACTGC
1 TAGTAATTGTGA-ATAAACCAC
*
65533468 TAGTAATTTATGAATAAACCAC
1 TAGTAA-TTGTGAATAAACCAC
* **
65533490 TAATAATTGCAAATAAAC
1 TAGTAATTGTGAATAAAC
65533508 TGTCAGTAAC
Statistics
Matches: 82, Mismatches: 12, Indels: 20
0.72 0.11 0.18
Matches are distributed among these distances:
19 1 0.01
20 1 0.01
21 41 0.50
22 36 0.44
23 3 0.04
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (21 bp):
TAGTAATTGTGAATAAACCAC
Found at i:65533451 original size:65 final size:65
Alignment explanation
Indices: 65533320--65533464 Score: 152
Period size: 65 Copynumber: 2.2 Consensus size: 65
65533310 AAACTGCTAC
* ****
65533320 TAAGTTATGGATAAACCACCAGGAATTGCAAATAAACTGTCAGTAAGTTGTAGATAAATTGGTAG
1 TAAGTTATGGATAAACCACCAGGAATTGCAAATAAACTATCAGTAAGTTGTAGATAAACCACTAG
* * * * *
65533385 TAAGTTGTGGATAAACCATCTGTAATTGTAGAA-AAACTATCAGTAAGTTGT-GAATAAACCACT
1 TAAGTTATGGATAAACCACCAGGAATTGCA-AATAAACTATCAGTAAGTTGTAG-ATAAACCACT
65533448 AG
64 AG
*
65533450 TAA-TTATAGATAAAC
1 TAAGTTATGGATAAAC
65533465 TGCTAGTAAT
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
64 11 0.17
65 53 0.80
66 2 0.03
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.29
Consensus pattern (65 bp):
TAAGTTATGGATAAACCACCAGGAATTGCAAATAAACTATCAGTAAGTTGTAGATAAACCACTAG
Found at i:65535621 original size:2 final size:2
Alignment explanation
Indices: 65535614--65535669 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
65535604 GAATAAGAAT
65535614 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA -A CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
65535655 CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA C
65535670 TCATAGCGTA
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 52 0.98
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:65537516 original size:28 final size:28
Alignment explanation
Indices: 65537451--65537551 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
65537441 ATAGTGAATC
*
65537451 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
65537480 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
65537508 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
65537538 CGCACACTTAGTGC
1 CGCACACTTAGTGC
65537552 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:65545474 original size:28 final size:28
Alignment explanation
Indices: 65545409--65545509 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
65545399 ATAGTGAATC
*
65545409 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
65545438 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
65545466 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
65545496 CGCACACTTAGTGC
1 CGCACACTTAGTGC
65545510 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:65556405 original size:39 final size:40
Alignment explanation
Indices: 65556190--65556395 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
65556180 GGATTGATAC
* *
65556190 CCGGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
65556229 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
65556268 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
65556308 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
65556348 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
65556388 CC-GGCTAA
1 CCGGGCTAA
65556396 ACTCCGAAGG
Statistics
Matches: 157, Mismatches: 6, Indels: 8
0.92 0.04 0.05
Matches are distributed among these distances:
38 10 0.06
39 42 0.27
40 105 0.67
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:65560628 original size:40 final size:40
Alignment explanation
Indices: 65560573--65560713 Score: 194
Period size: 40 Copynumber: 3.5 Consensus size: 40
65560563 TGAATGATAC
* * * * *
65560573 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTTTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
*
65560613 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
65560653 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
65560693 CCGGGTTAAGACCCGAAGGCA
1 CCGGGCTAAGACCCGAAGGCA
65560714 ATTGAGCTTG
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 89 0.98
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:65560732 original size:80 final size:80
Alignment explanation
Indices: 65560573--65560740 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 80
65560563 TGAATGATAC
* * * * * *
65560573 CCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGTTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGTTAAGACCCGAAGGCAATTG
* *
65560638 TGCGAGTTGCTATAT
66 AGCGAGTGGCTATAT
*
65560653 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGCAATT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATACCCGGGTTAAGACCCGAAGGCAATT
** *
65560717 GAGCTTGTGGTTATAT
65 GAGCGAGTGGCTATAT
65560733 CC-GGCTAA
1 CCGGGCTAA
65560741 ATTCCGAAGA
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
79 6 0.08
80 67 0.89
81 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGTTAAGACCCGAAGGCAATTG
AGCGAGTGGCTATAT
Found at i:65567808 original size:39 final size:40
Alignment explanation
Indices: 65567671--65567775 Score: 201
Period size: 40 Copynumber: 2.6 Consensus size: 40
65567661 GGATTGATAC
*
65567671 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
65567711 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
65567751 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
65567776 AGCTAGTAGC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
Found at i:65573271 original size:15 final size:15
Alignment explanation
Indices: 65573251--65573280 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
65573241 CTACCGTCTC
*
65573251 CCTTATGTGTTTTAT
1 CCTTATGTGATTTAT
65573266 CCTTATGTGATTTAT
1 CCTTATGTGATTTAT
65573281 TTAGGTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.13, G:0.13, T:0.57
Consensus pattern (15 bp):
CCTTATGTGATTTAT
Found at i:65576242 original size:30 final size:30
Alignment explanation
Indices: 65576206--65576265 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
65576196 GGCATTTAGA
*
65576206 CTTAGATAAGTCTTTTGGATTTCTGGTTCT
1 CTTAGATAAATCTTTTGGATTTCTGGTTCT
65576236 CTTAGATAAATCTTTTGGATTTCTGGTTCT
1 CTTAGATAAATCTTTTGGATTTCTGGTTCT
65576266 ATTCCTTTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.18, C:0.13, G:0.18, T:0.50
Consensus pattern (30 bp):
CTTAGATAAATCTTTTGGATTTCTGGTTCT
Found at i:65581114 original size:29 final size:28
Alignment explanation
Indices: 65581082--65581136 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
65581072 TGTGAGATAA
65581082 ATTGATTTGGCTTCGGGCCATGCATATCG
1 ATTGATTTGGCTTCGGGCCATG-ATATCG
*
65581111 ATTGATTTGGCTTTGGGCCATGATAT
1 ATTGATTTGGCTTCGGGCCATGATAT
65581137 TAGTGTTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.18, C:0.16, G:0.27, T:0.38
Consensus pattern (28 bp):
ATTGATTTGGCTTCGGGCCATGATATCG
Found at i:65584040 original size:21 final size:20
Alignment explanation
Indices: 65583999--65584037 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
65583989 AAGATGACCA
65583999 TTTTAATTAAATTTTTTTATG
1 TTTTAATT-AATTTTTTTATG
*
65584020 TTTTAATT-ATTTTATTAT
1 TTTTAATTAATTTTTTTAT
65584038 ATGAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
21 8 0.47
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (20 bp):
TTTTAATTAATTTTTTTATG
Found at i:65594457 original size:27 final size:26
Alignment explanation
Indices: 65594426--65594519 Score: 98
Period size: 27 Copynumber: 3.5 Consensus size: 26
65594416 TTAGTTTACC
* *
65594426 AAATTACTAAAATACCTTCAACTTGTA
1 AAATTACCAAAATACC-TCAATTTGTA
* * * *
65594453 AAATTACCAAAGTACCCCGATTTATA
1 AAATTACCAAAATACCTCAATTTGTA
*
65594479 AAATTACCCAAATATCCTCAATTTGTA
1 AAATTACCAAAATA-CCTCAATTTGTA
*
65594506 AAATTACCGAAATA
1 AAATTACCAAAATA
65594520 AGATAGAATT
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
26 18 0.33
27 36 0.67
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (26 bp):
AAATTACCAAAATACCTCAATTTGTA
Found at i:65594554 original size:27 final size:27
Alignment explanation
Indices: 65594524--65594639 Score: 189
Period size: 27 Copynumber: 4.3 Consensus size: 27
65594514 GAAATAAGAT
65594524 AGAATTACCATTTTACCCTCGATTTAA
1 AGAATTACCATTTTACCCTCGATTTAA
* *
65594551 AGAATTACCGTTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAA
*
65594578 AGAATTACCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAA
65594605 AGAATTACCATTTTACCCTCGATTTACA
1 AGAATTACCATTTTACCCTCGATTTA-A
65594633 A-AATTAC
1 AGAATTAC
65594640 TGAAATCCCC
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
27 82 0.99
28 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAA
Found at i:65594650 original size:27 final size:27
Alignment explanation
Indices: 65594537--65594757 Score: 142
Period size: 27 Copynumber: 8.2 Consensus size: 27
65594527 ATTACCATTT
****
65594537 TACCCTCGATTTA-AAGAATTACCGTTT
1 TACCCTCGATTTACAA-AATTACCAAAA
* ***
65594564 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * ***
65594591 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
**
65594618 TACCCTCGATTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* * *
65594645 TCCCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
** *
65594672 TACCCTCGATCAATAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
65594699 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
*** *
65594726 TACCC-CTGATTTGTGAAATTACCGAAA
1 TACCCTC-GATTTACAAAATTACCAAAA
65594753 TACCC
1 TACCC
65594758 CTGTAGGGTA
Statistics
Matches: 163, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.01
27 159 0.98
28 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:65594658 original size:81 final size:81
Alignment explanation
Indices: 65594522--65594695 Score: 206
Period size: 81 Copynumber: 2.1 Consensus size: 81
65594512 CCGAAATAAG
*** *
65594522 ATAGAATTACCATTTTACCCTCGATTTAAAGAATTACCGTTTTACCCTCGATTTACAGAATTACC
1 ATAGAATTACCATTTTACCCTCGATTTAAAGAATTACCGAAATACCCTCGATTTACAAAATTACC
*** **
65594587 ATTTTACCCTCGATTT
66 AAAATACCCTCGATCA
* * * *
65594603 ATAGAATTACCATTTTACCCTCGATTTACAA-AATTACTGAAATCCCCTTGGTTTACAAAATTAC
1 ATAGAATTACCATTTTACCCTCGATTTA-AAGAATTACCGAAATACCCTCGATTTACAAAATTAC
65594667 CAAAATACCCTCGATCA
65 CAAAATACCCTCGATCA
*
65594684 ATAAAATTACCA
1 ATAGAATTACCA
65594696 AAATACCCCT
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 76 0.97
82 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.34
Consensus pattern (81 bp):
ATAGAATTACCATTTTACCCTCGATTTAAAGAATTACCGAAATACCCTCGATTTACAAAATTACC
AAAATACCCTCGATCA
Found at i:65594772 original size:27 final size:27
Alignment explanation
Indices: 65594742--65594883 Score: 185
Period size: 27 Copynumber: 5.3 Consensus size: 27
65594732 TGATTTGTGA
65594742 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** **
65594769 AATTACTTAAATACCTTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
65594796 AATTACTGAAATACCCCTGTAGAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
65594823 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
65594850 AATTACAGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
65594877 AATTACC
1 AATTACC
65594884 ATTTTGCCCC
Statistics
Matches: 99, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 99 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:65594773 original size:54 final size:54
Alignment explanation
Indices: 65594661--65594841 Score: 154
Period size: 54 Copynumber: 3.4 Consensus size: 54
65594651 TGGTTTACAA
* * * * ** *
65594661 AATTACCAAAATA-CCCTCGATCAATAAAATTACCAAAATACCCCTAGT-TTGTAA
1 AATTACCAAAATACCCCT-GATTAGTGAAATTACCGAAATACCCCT-GTAGAGTAG
* *
65594715 AATTACCAAAATACCCCTGATTTGTGAAATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGATTAGTGAAATTACCGAAATACCCCTGTAGAGTAG
** ** * *
65594769 AATTACTTAAATACCTTTG--TAGGGTAGAATTACTGAAATACCCCTGTAGAGTAG
1 AATTACCAAAATACCCCTGATTAGTG-A-AATTACCGAAATACCCCTGTAGAGTAG
*
65594823 AATTACCGAAATACCCCTG
1 AATTACCAAAATACCCCTG
65594842 TAGGGTAGAA
Statistics
Matches: 103, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
52 3 0.03
53 3 0.03
54 93 0.90
55 4 0.04
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (54 bp):
AATTACCAAAATACCCCTGATTAGTGAAATTACCGAAATACCCCTGTAGAGTAG
Found at i:65594773 original size:81 final size:81
Alignment explanation
Indices: 65594688--65594884 Score: 204
Period size: 81 Copynumber: 2.4 Consensus size: 81
65594678 CGATCAATAA
** **
65594688 AATTACCAAAATACCCCTAGT-TTGTAAAATTACCAAAATACCCCTG-ATTTGT-GAAATTACCG
1 AATTACCAAAATA-CCCTAGTAGGGTAAAATTACCAAAATACCCCTGTA-GAGTAG-AATTACCG
65594750 AAATACCCCTGTAGGGTAG
63 AAATACCCCTGTAGGGTAG
** * * * **
65594769 AATTACTTAAATACCTTTGTAGGGTAGAATTACTGAAATACCCCTGTAGAGTAGAATTACCGAAA
1 AATTACCAAAATACCCTAGTAGGGTAAAATTACCAAAATACCCCTGTAGAGTAGAATTACCGAAA
65594834 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* * *
65594850 AATTA-CAGAGATACCCTTGTGGGGTAAAATTACCA
1 AATTACCA-AAATACCCTAGTAGGGTAAAATTACCA
65594885 TTTTGCCCCT
Statistics
Matches: 93, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
80 5 0.05
81 86 0.92
82 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.27
Consensus pattern (81 bp):
AATTACCAAAATACCCTAGTAGGGTAAAATTACCAAAATACCCCTGTAGAGTAGAATTACCGAAA
TACCCCTGTAGGGTAG
Found at i:65594894 original size:54 final size:54
Alignment explanation
Indices: 65594711--65594883 Score: 170
Period size: 54 Copynumber: 3.2 Consensus size: 54
65594701 CCCCTAGTTT
* ** * *
65594711 GTAAAATTACCAAAATACCCCTG-ATTTGT-GAAATTACCGAAATACCCCTGTAGG
1 GTAAAATTACCGAAATACCCCTGTA-GGGTAG-AATTACAGAAATACCCCTGTAGA
* ** ** *
65594765 GTAGAATTACTTAAATACCTTTGTAGGGTAGAATTACTGAAATACCCCTGTAGA
1 GTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACAGAAATACCCCTGTAGA
* * * * *
65594819 GTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACAGAGATACCCTTGTGGG
1 GTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACAGAAATACCCCTGTAGA
65594873 GTAAAATTACC
1 GTAAAATTACC
65594884 ATTTTGCCCC
Statistics
Matches: 98, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
54 96 0.98
55 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (54 bp):
GTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACAGAAATACCCCTGTAGA
Found at i:65595340 original size:6 final size:6
Alignment explanation
Indices: 65595278--65595356 Score: 54
Period size: 6 Copynumber: 12.8 Consensus size: 6
65595268 TTGCATTCAC
* * * * *
65595278 ATTCTG ATTTTG ATTATG -TTACCTG ATACTA ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
65595327 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCT
65595357 AGTTTTGATA
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
5 3 0.05
6 46 0.82
7 5 0.09
8 2 0.04
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:65595355 original size:31 final size:31
Alignment explanation
Indices: 65595278--65595356 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
65595268 TTGCATTCAC
* *
65595278 ATTCTGATTTTGATTATGTTACCTGATACTA
1 ATTCTGATTTTGATTCTGTCACCTGATACTA
* *
65595309 ATTCTGATTTTGATTCTGTCACCTGATTCTG
1 ATTCTGATTTTGATTCTGTCACCTGATACTA
*
65595340 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
65595357 AGTTTTGATA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTCACCTGATACTA
Found at i:65595365 original size:18 final size:18
Alignment explanation
Indices: 65595278--65595356 Score: 54
Period size: 19 Copynumber: 4.3 Consensus size: 18
65595268 TTGCATTCAC
* *
65595278 ATTCTGATTTTGATTATG
1 ATTCTGATTCTGATTCTG
* *
65595296 -TTACCTGATACTAATTCTG
1 ATT--CTGATTCTGATTCTG
* *
65595315 ATTTTGATTCTG-TCACCTG
1 ATTCTGATTCTGAT--TCTG
65595334 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
65595352 ATTCT
1 ATTCT
65595357 AGTTTTGATA
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
17 3 0.07
18 14 0.31
19 25 0.56
20 3 0.07
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.49
Consensus pattern (18 bp):
ATTCTGATTCTGATTCTG
Found at i:65601279 original size:18 final size:20
Alignment explanation
Indices: 65601256--65601299 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
65601246 GTAATACATG
65601256 TATTTAATTA-T-TAAAAGA
1 TATTTAATTATTATAAAAGA
65601274 TATTT-ATTATTTATAAAAGA
1 TATTTAATTA-TTATAAAAGA
65601294 TATTTA
1 TATTTA
65601300 TATGATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.18
18 5 0.23
19 1 0.05
20 12 0.55
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
TATTTAATTATTATAAAAGA
Found at i:65601541 original size:2 final size:2
Alignment explanation
Indices: 65601534--65601578 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
65601524 TTAAGTTAAC
65601534 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
65601576 AT A
1 AT A
65601579 AAGTAAAAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:65601599 original size:11 final size:11
Alignment explanation
Indices: 65601583--65601609 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
65601573 TATATAAAGT
65601583 AAAAGAAATGA
1 AAAAGAAATGA
65601594 AAAAGAAATGA
1 AAAAGAAATGA
65601605 AAAAG
1 AAAAG
65601610 GATAGAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (11 bp):
AAAAGAAATGA
Found at i:65601676 original size:17 final size:17
Alignment explanation
Indices: 65601654--65601686 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
65601644 GCAAGGGAGA
65601654 AAAAGAAAGAAAGAAAG
1 AAAAGAAAGAAAGAAAG
*
65601671 AAAAGAAAGGAAGAAA
1 AAAAGAAAGAAAGAAA
65601687 AGAGAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AAAAGAAAGAAAGAAAG
Found at i:65601677 original size:13 final size:13
Alignment explanation
Indices: 65601655--65601689 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
65601645 CAAGGGAGAA
65601655 AAAG-AAAGAAAG
1 AAAGAAAAGAAAG
65601667 AAAGAAAAGAAAG
1 AAAGAAAAGAAAG
*
65601680 GAAGAAAAGA
1 AAAGAAAAGA
65601690 GAAAATTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
AAAGAAAAGAAAG
Found at i:65603699 original size:20 final size:22
Alignment explanation
Indices: 65603674--65603722 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
65603664 GGGCTAAGGG
*
65603674 CACGGGCGTG-T-CCTAAGCCA
1 CACGGGCGTGATACATAAGCCA
65603694 CACGGGCGTGATACATAAGCCA
1 CACGGGCGTGATACATAAGCCA
*
65603716 TACGGGC
1 CACGGGC
65603723 CTGTGGTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.40
21 1 0.04
22 14 0.56
ACGTcount: A:0.24, C:0.31, G:0.31, T:0.14
Consensus pattern (22 bp):
CACGGGCGTGATACATAAGCCA
Found at i:65605866 original size:27 final size:28
Alignment explanation
Indices: 65605828--65605910 Score: 75
Period size: 27 Copynumber: 3.1 Consensus size: 28
65605818 AAGCGTCCTA
*
65605828 GTGGCTATGCCAC-ATATTTCTGT-TCTG
1 GTGGCTATGCCACGAT-TATCTGTATCTG
*
65605855 GTGGCTCTGCCACGATTATCTGTATCTG
1 GTGGCTATGCCACGATTATCTGTATCTG
* * **
65605883 GTGACTTTATCAC-ATTATCTGT-TCTG
1 GTGGCTATGCCACGATTATCTGTATCTG
65605909 GT
1 GT
65605911 AGCCATGCTA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
26 6 0.12
27 27 0.56
28 15 0.31
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.41
Consensus pattern (28 bp):
GTGGCTATGCCACGATTATCTGTATCTG
Found at i:65608012 original size:40 final size:39
Alignment explanation
Indices: 65607950--65608192 Score: 267
Period size: 40 Copynumber: 6.1 Consensus size: 39
65607940 CGGATGATAA
* * *
65607950 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGT-ACTATA-T
*
65607990 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
*
65608030 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
** * *
65608070 CCGGGCTAAGTCTTGAAGGCGTTTGTGCGAGTTATTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* *
65608109 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* **
65608149 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATAT
65608189 CCGG
1 CCGG
65608193 TTAAATTCCG
Statistics
Matches: 178, Mismatches: 20, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
39 36 0.20
40 138 0.78
41 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAT
Found at i:65608206 original size:79 final size:80
Alignment explanation
Indices: 65607990--65608192 Score: 266
Period size: 79 Copynumber: 2.5 Consensus size: 80
65607980 GTGGCTAATT
*
65607990 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTCG
* *
65608055 TGCGAGCTACTATAT
66 TGCAAGCTACTATAA
** * * * *
65608070 CCGGGCTAAGTCTTGAAGGCGTTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTCG
*
65608134 TGCAAGTTACTATAA
66 TGCAAGCTACTATAA
* **
65608149 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTA-CTATATCCGG
65608193 TTAAATTCCG
Statistics
Matches: 104, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
78 2 0.02
79 65 0.62
80 37 0.36
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTCG
TGCAAGCTACTATAA
Found at i:65616202 original size:40 final size:39
Alignment explanation
Indices: 65616140--65616381 Score: 285
Period size: 40 Copynumber: 6.1 Consensus size: 39
65616130 CGGATGATAA
* * *
65616140 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGT-ACTATA-T
*
65616180 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
65616220 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* *
65616259 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTATTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* *
65616298 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* **
65616338 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATAT
65616378 CCGG
1 CCGG
65616382 TTAAATTGAA
Statistics
Matches: 180, Mismatches: 16, Indels: 12
0.87 0.08 0.06
Matches are distributed among these distances:
39 75 0.42
40 101 0.56
41 4 0.02
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAT
Found at i:65616258 original size:39 final size:39
Alignment explanation
Indices: 65616179--65616381 Score: 268
Period size: 39 Copynumber: 5.1 Consensus size: 39
65616169 AGTGGCTAAT
65616179 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATT-GTGCGAGCTACTATA
65616219 TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGCTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGCTACTATA
* * *
65616258 TCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTATTATA
1 TCCGGGCTAAGTCCCGAAGGC-ATTGTGCGAGCTACTATA
* *
65616298 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGCTACTATA
* *
65616337 ACCGGGCTATGTCCCGAAGGCATT-TGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTGTG--CGAGCTA-CTATA
65616377 TCCGG
1 TCCGG
65616382 TTAAATTGAA
Statistics
Matches: 148, Mismatches: 9, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 75 0.51
40 71 0.48
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGCTACTATA
Found at i:65616369 original size:79 final size:79
Alignment explanation
Indices: 65616139--65616362 Score: 292
Period size: 79 Copynumber: 2.8 Consensus size: 79
65616129 TCGGATGATA
* * **
65616139 ACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATTCCGGGCTAAGTCCCGAAGGCAT
1 ACCGGGCTAAGTCCCGAAG-GCATTTGTGCAAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCAT
* *
65616202 TCGTGCGAGCTACTAT
64 TTGTGCGAGTTACTAT
* * *
65616218 ATCCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTT
1 A-CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
*
65616282 TGTGCGAGTTATTAT
65 TGTGCGAGTTACTAT
* *
65616297 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
65616362 G
66 G
65616363 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
78 21 0.17
79 85 0.67
80 19 0.15
81 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (79 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGTTACTAT
Found at i:65625007 original size:27 final size:27
Alignment explanation
Indices: 65624967--65625054 Score: 97
Period size: 27 Copynumber: 3.2 Consensus size: 27
65624957 AGGAAGCATC
65624967 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
* *
65624994 CTGGTGGCTTTGCCACATATT-TCTGTT
1 CTGGTGGCTATGCCACA-ATTATCTGAT
* * **
65625021 CTGGTAGCTCTGCCATGATTATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTG-AT
65625049 CTGGTG
1 CTGGTG
65625055 ACTCTGTTAC
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
26 3 0.06
27 38 0.76
28 9 0.18
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:65626276 original size:17 final size:16
Alignment explanation
Indices: 65626240--65626280 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
65626230 GCCACATTCT
* *
65626240 TATTGCCGTCGCAGCC
1 TATTGCTGTCGCAACC
65626256 TATTGCTGTCGCACACC
1 TATTGCTGTCGCA-ACC
65626273 TATTGCTG
1 TATTGCTG
65626281 CTGTAATCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.15, C:0.32, G:0.22, T:0.32
Consensus pattern (16 bp):
TATTGCTGTCGCAACC
Found at i:65630529 original size:40 final size:40
Alignment explanation
Indices: 65630476--65630660 Score: 309
Period size: 40 Copynumber: 4.6 Consensus size: 40
65630466 ACTACTTGCT
*
65630476 CAAATGCCTTCGGGACTTAGCCCGGCTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
65630516 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
65630556 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
65630596 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
*
65630636 CAAATGCCTTCAGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
65630661 TTATCATCCG
Statistics
Matches: 138, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 1 0.01
40 137 0.99
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:65632671 original size:55 final size:55
Alignment explanation
Indices: 65632584--65632840 Score: 247
Period size: 55 Copynumber: 4.8 Consensus size: 55
65632574 ATTAGGGTTT
*
65632584 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTCTAAGGC
* * * * *
65632639 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAA-GTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTT--TCTAAGGC
* *
65632694 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGG--AGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG-GTTTC-TAAGGC
* *
65632747 AATGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAA-GTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTCTAAGGC
* *
65632796 AAGGATACCACT-TAAGACCATGACAAGTCATGGCAA-TGGTAAGGT
1 AAGGATACCA-TGTAAGACCATGCCAAGACATGGCAATTGGTAAGGT
65632841 ACCCGTGTAT
Statistics
Matches: 169, Mismatches: 20, Indels: 31
0.77 0.09 0.14
Matches are distributed among these distances:
49 37 0.22
50 3 0.02
52 6 0.04
53 40 0.24
54 12 0.07
55 67 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (55 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTCTAAGGC
Found at i:65632790 original size:108 final size:110
Alignment explanation
Indices: 65632591--65632791 Score: 311
Period size: 108 Copynumber: 1.8 Consensus size: 110
65632581 TTTAAGGATA
*
65632591 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
65632656 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
65632701 CCATGTAAGACCATGCCAAGGCATGGC-ATTGG--AGAG-TTCATAAGGCAATGATACCATGTAA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAG-GTTTC-TAAGGCAAGGAAACCATGTAA
*
65632762 GACCATGTCAAGACATGGCAATGGTAAGTT
64 GACCATGTCAAGACATGGCAATGATAAGTT
65632792 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
107 5 0.06
108 47 0.56
109 5 0.06
110 27 0.32
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:65633027 original size:16 final size:16
Alignment explanation
Indices: 65633006--65633036 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65632996 ATAAATTTGA
65633006 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
65633022 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
65633037 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:65635131 original size:37 final size:37
Alignment explanation
Indices: 65635090--65635163 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
65635080 ATGACTTTGA
65635090 AATGCATGCATACTACAACTCATGTTGACATTATGTT
1 AATGCATGCATACTACAACTCATGTTGACATTATGTT
*
65635127 AATGCATGCATACTATAACTCATGTTGACATTATGTT
1 AATGCATGCATACTACAACTCATGTTGACATTATGTT
65635164 GTACTTAGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (37 bp):
AATGCATGCATACTACAACTCATGTTGACATTATGTT
Found at i:65637643 original size:27 final size:27
Alignment explanation
Indices: 65637601--65637708 Score: 144
Period size: 27 Copynumber: 4.0 Consensus size: 27
65637591 AATCTCATAT
* * *
65637601 CTGTAGGCTAGTATTACTAAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
65637628 TTGTAGGGTAGAATTACTGAAATGCCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * *
65637655 CTATAGGATAGAATTACTGAAATGCCC
1 CTGTAGGGTAGAATTACTGAAATACCC
65637682 CTGTAGGGTAGAATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
65637709 TTGGTATACA
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTGAAATACCC
Found at i:65637724 original size:54 final size:54
Alignment explanation
Indices: 65637613--65637734 Score: 144
Period size: 54 Copynumber: 2.3 Consensus size: 54
65637603 GTAGGCTAGT
* * * *
65637613 ATTACTAAAATACCCTTGTAGGGTAGAATTACTGAAATGCCCCTATAGGATAGA
1 ATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATGACCCTATAGGATAAA
*
65637667 ATTACTGAAATGCCCCTGTAGGGTAGAATTACTGAAAT-ACCCT-T-GGTATACAAA
1 ATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATGACCCTATAGG-AT--AAA
65637721 ATTACTG-AATACCC
1 ATTACTGAAATACCC
65637735 TTAGTTTACA
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
51 2 0.03
52 3 0.05
53 10 0.17
54 44 0.75
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (54 bp):
ATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATGACCCTATAGGATAAA
Found at i:65637731 original size:26 final size:27
Alignment explanation
Indices: 65637693--65637760 Score: 93
Period size: 26 Copynumber: 2.6 Consensus size: 27
65637683 TGTAGGGTAG
*
65637693 AATTACTGAAATACCCTTGGTATACAA
1 AATTACTGAAATACCCTTAGTATACAA
*
65637720 AATTACTG-AATACCCTTAGTTTACAA
1 AATTACTGAAATACCCTTAGTATACAA
**
65637746 AATTACCAAAATACC
1 AATTACTGAAATACC
65637761 TCTAGTTTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 22 0.61
27 14 0.39
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (27 bp):
AATTACTGAAATACCCTTAGTATACAA
Found at i:65637766 original size:27 final size:27
Alignment explanation
Indices: 65637701--65638066 Score: 135
Period size: 27 Copynumber: 13.6 Consensus size: 27
65637691 AGAATTACTG
* * *
65637701 AAATACCCTTGGTATACAAAATTA-CT
1 AAATACCCTTAGTTTACAAAATTACCA
*
65637727 GAATACCCTTAGTTTACAAAATTACCA
1 AAATACCCTTAGTTTACAAAATTACCA
**
65637754 AAATA-CCTCTAGTTTGTAAAATTACCA
1 AAATACCCT-TAGTTTACAAAATTACCA
** * *
65637781 AAATACCCATTA-TTTGTAAAATTTCTA
1 AAATACCC-TTAGTTTACAAAATTACCA
*** * *
65637808 AAATACCCTT-GATTTGTGAAATTATCG
1 AAATACCCTTAG-TTTACAAAATTACCA
* * **
65637835 AAATACCCTCGACTTGT--AAAATTACTG
1 AAATACCCT-TAGTT-TACAAAATTACCA
* ***
65637862 AAATACCC-TCGATTGGTAAAATTACCA
1 AAATACCCTTAG-TTTACAAAATTACCA
** **
65637889 AAATACCCTT-GATTTGTAAAATTTTCA
1 AAATACCCTTAG-TTTACAAAATTACCA
* * ** * *
65637916 AAATACCCCTAATTTGGAAAATTATCG
1 AAATACCCTTAGTTTACAAAATTACCA
** *
65637943 AAATACCCTT-GATTTGGAAAATTACAA
1 AAATACCCTTAG-TTTACAAAATTACCA
* **
65637970 AAATACCCCT-GATTTACAAAATTATAA
1 AAATACCCTTAG-TTTACAAAATTACCA
*
65637997 AAATACCCTTGACTTT-CGAAAATTA-CA
1 AAATACCCTT-AGTTTAC-AAAATTACCA
* * **
65638024 GAAATATCATTAGTTTGTAAAATTACCA
1 -AAATACCCTTAGTTTACAAAATTACCA
*
65638052 AAATACCCTTGGTTT
1 AAATACCCTTAGTTT
65638067 GTAGATTTAC
Statistics
Matches: 267, Mismatches: 52, Indels: 41
0.74 0.14 0.11
Matches are distributed among these distances:
26 28 0.10
27 210 0.79
28 27 0.10
29 2 0.01
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATACCCTTAGTTTACAAAATTACCA
Found at i:65638067 original size:27 final size:27
Alignment explanation
Indices: 65637744--65638081 Score: 308
Period size: 27 Copynumber: 12.5 Consensus size: 27
65637734 CTTAGTTTAC
*
65637744 AAAATTACCAAAATACCTCTAG-TTTGT
1 AAAATTACCAAAATACC-CTTGATTTGT
65637771 AAAATTACCAAAATACCCATT-ATTTGT
1 AAAATTACCAAAATACCC-TTGATTTGT
* *
65637798 AAAATTTCTAAAATACCCTTGATTTGT
1 AAAATTACCAAAATACCCTTGATTTGT
* * * * *
65637825 GAAATTATCGAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCTTGATTTGT
** * *
65637852 AAAATTACTGAAATACCCTCGATTGGT
1 AAAATTACCAAAATACCCTTGATTTGT
65637879 AAAATTACCAAAATACCCTTGATTTGT
1 AAAATTACCAAAATACCCTTGATTTGT
** * * *
65637906 AAAATTTTCAAAATACCCCTAATTTGG
1 AAAATTACCAAAATACCCTTGATTTGT
* * *
65637933 AAAATTATCGAAATACCCTTGATTTGG
1 AAAATTACCAAAATACCCTTGATTTGT
* * **
65637960 AAAATTACAAAAATACCCCTGATTTAC
1 AAAATTACCAAAATACCCTTGATTTGT
**
65637987 AAAATTATAAAAATACCCTTGACTTTCG-
1 AAAATTACCAAAATACCCTTGA-TTT-GT
* *
65638015 AAAATTA-CAGAAATATCATT-AGTTTGT
1 AAAATTACCA-AAATACCCTTGA-TTTGT
*
65638042 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGATTTGT
* *
65638069 AGATTTACCAAAA
1 AAAATTACCAAAA
65638082 CACCTTGTAG
Statistics
Matches: 256, Mismatches: 46, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
26 4 0.02
27 232 0.91
28 20 0.08
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGATTTGT
Found at i:65638371 original size:41 final size:41
Alignment explanation
Indices: 65638325--65638448 Score: 162
Period size: 41 Copynumber: 3.0 Consensus size: 41
65638315 CGGAGGAAGA
* * *
65638325 AATTGAGGATCGCATGGTCGCTTGACAACTGTGGATCCACC
1 AATTGAGGATCGTATGGTTGCTTGACGACTGTGGATCCACC
* * *
65638366 GATTGAGGATCGTATGGTTGCTTGACGACCGTGGATCCACT
1 AATTGAGGATCGTATGGTTGCTTGACGACTGTGGATCCACC
65638407 AATT-ATGGATCGTATGGTTGCTTGACGA-TCGTGGATCCACC
1 AATTGA-GGATCGTATGGTTGCTTGACGACT-GTGGATCCACC
65638448 A
1 A
65638449 GTGGCTTTTA
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
40 1 0.01
41 71 0.99
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (41 bp):
AATTGAGGATCGTATGGTTGCTTGACGACTGTGGATCCACC
Found at i:65638642 original size:22 final size:22
Alignment explanation
Indices: 65638590--65638651 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
65638580 GCCAATTATT
* *
65638590 CTGATTATGGCTTTGCGCTAAC
1 CTGATTATGGCTCTGTGCTAAC
*
65638612 CT-ACATATGGCTCTGTGCTAAC
1 CTGA-TTATGGCTCTGTGCTAAC
*
65638634 CTGATTATGGCTGTGTGC
1 CTGATTATGGCTCTGTGC
65638652 CAAACGTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCTAAC
Found at i:65649453 original size:92 final size:91
Alignment explanation
Indices: 65649288--65649456 Score: 216
Period size: 92 Copynumber: 1.8 Consensus size: 91
65649278 TTTGTGTGCT
* * *
65649288 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATAATGAGAGCCAGTGTAAGACATGTCTAGG
1 AGTGTAAGACATGTCTGGGACATACATCGGCCACATAAT-AGAGCCAATGCAAGACATGTCTAGG
65649353 ACATGCATCGGCCTCGAGATGTAAACC
65 ACATGCATCGGCCTCGAGATGTAAACC
* * * * *
65649380 AGTGTAAGACATGTCTGGGACATACATCGGCTAC-TAGAT-GTGTCAATGCAAGACCATGTTTGG
1 AGTGTAAGACATGTCTGGGACATACATCGGCCACATA-ATAGAGCCAATGCAAGA-CATGTCTAG
65649443 GACATGGCATCGGC
64 GACAT-GCATCGGC
65649457 ACAGATATGC
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
90 10 0.15
91 14 0.21
92 42 0.64
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (91 bp):
AGTGTAAGACATGTCTGGGACATACATCGGCCACATAATAGAGCCAATGCAAGACATGTCTAGGA
CATGCATCGGCCTCGAGATGTAAACC
Found at i:65649486 original size:50 final size:49
Alignment explanation
Indices: 65649288--65649554 Score: 187
Period size: 46 Copynumber: 5.7 Consensus size: 49
65649278 TTTGTGTGCT
* *
65649288 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATAAT-GA-GAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGG-CACATGATGGATGAGCC
* * *
65649334 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGC-C-TCGA--GATGTAAACC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACAT-GATGGATG--AGCC
* * * *
65649380 AGTGTAAGA-CATGTCTGGGACAT-ACATCGGCTAC-T-A--GATGTGTC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGC-ACATGATGGATGAGCC
* * *
65649424 AATGCAAGACCATGTTTGGGACATGGCATCGGCACA-GATATGCGA-GAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACATG--ATG-GATGAGCC
* *
65649474 AGTGTAAGACCATATTTGGGACATGGCATC-G-ACTTGATGGATGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACATGATGGATGAGCC
*
65649521 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCA
65649555 TTCTACCTCA
Statistics
Matches: 180, Mismatches: 22, Indels: 35
0.76 0.09 0.15
Matches are distributed among these distances:
43 3 0.02
44 11 0.06
45 16 0.09
46 75 0.42
47 35 0.19
48 6 0.03
49 3 0.02
50 29 0.16
51 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (49 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCACATGATGGATGAGCC
Found at i:65654237 original size:3 final size:3
Alignment explanation
Indices: 65654222--65654254 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
65654212 AAAATTCGGA
*
65654222 TAT TAT CAT TAT TAT TAT T-T TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
65654255 TCGTATGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:65654248 original size:14 final size:14
Alignment explanation
Indices: 65654229--65654255 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
65654219 GGATATTATC
65654229 ATTATTATTATTTT
1 ATTATTATTATTTT
65654243 ATTATTATTATTT
1 ATTATTATTATTT
65654256 CGTATGTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTATTATTATTTT
Found at i:65667606 original size:47 final size:47
Alignment explanation
Indices: 65667550--65667670 Score: 163
Period size: 46 Copynumber: 2.6 Consensus size: 47
65667540 GTATTGGCAC
* *
65667550 TAAGACAAGGATAGCGTGTAAGACCATGTTTGGAAAATGACATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAAAATGACATTTGG
** *
65667597 TAAGACAAGGATACCATGTAAGA-CATGTTTGGATCATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAAAATGACATTTGG
* * *
65667643 TATGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
65667671 CCAAGGCATG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
46 40 0.62
47 25 0.38
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.27
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAAAATGACATTTGG
Found at i:65667778 original size:55 final size:54
Alignment explanation
Indices: 65667649--65667845 Score: 254
Period size: 55 Copynumber: 3.6 Consensus size: 54
65667639 TTGGTATGAT
* * *
65667649 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
65667703 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * *
65667758 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
65667811 AAGGATACCACGTAAGACCATGTCAATACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
65667846 ATGGTAAGTT
Statistics
Matches: 125, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
52 4 0.03
53 32 0.26
54 42 0.34
55 43 0.34
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:65691786 original size:92 final size:92
Alignment explanation
Indices: 65691629--65691813 Score: 334
Period size: 92 Copynumber: 2.0 Consensus size: 92
65691619 CGTTCTGGAG
65691629 TCCTGATTGGCTAAAGTAACCTAGGCGAACGTTGATGCTCAGATTTAACCCTCTGGCAAACTAAA
1 TCCTGATTGGCTAAAGTAACCTAGGCGAACGTTGATGCTCAGATTTAACCCTCTGGCAAACTAAA
65691694 CATCTACTAACAAAATCAGCTACATCC
66 CATCTACTAACAAAATCAGCTACATCC
* * *
65691721 TCCTGATTGGCTGAAGTAACCTAGGCGGACTTTGATGCTCAGATTTAACCCTCTGGCAAACTAAA
1 TCCTGATTGGCTAAAGTAACCTAGGCGAACGTTGATGCTCAGATTTAACCCTCTGGCAAACTAAA
*
65691786 CATCTACTAACAAAATCAGCTACGTCC
66 CATCTACTAACAAAATCAGCTACATCC
65691813 T
1 T
65691814 TCTTCAACCT
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (92 bp):
TCCTGATTGGCTAAAGTAACCTAGGCGAACGTTGATGCTCAGATTTAACCCTCTGGCAAACTAAA
CATCTACTAACAAAATCAGCTACATCC
Found at i:65695338 original size:10 final size:10
Alignment explanation
Indices: 65695324--65695359 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
65695314 TAAGCTCGGT
65695324 TGAGCTCAAA
1 TGAGCTCAAA
* *
65695334 CGAGCTGAAA
1 TGAGCTCAAA
65695344 TGAGCTCAAA
1 TGAGCTCAAA
65695354 TGAGCT
1 TGAGCT
65695360 GAATTAAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.19
Consensus pattern (10 bp):
TGAGCTCAAA
Found at i:65695347 original size:20 final size:20
Alignment explanation
Indices: 65695324--65695362 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
65695314 TAAGCTCGGT
65695324 TGAGCTCAAACGAGCTGAAA
1 TGAGCTCAAACGAGCTGAAA
*
65695344 TGAGCTCAAATGAGCTGAA
1 TGAGCTCAAACGAGCTGAA
65695363 TTAAGCTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (20 bp):
TGAGCTCAAACGAGCTGAAA
Found at i:65695369 original size:20 final size:20
Alignment explanation
Indices: 65695326--65695369 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
65695316 AGCTCGGTTG
*
65695326 AGCTCAAACGAGCTGAAATG
1 AGCTCAAACGAGCTGAAATA
* *
65695346 AGCTCAAATGAGCTGAATTA
1 AGCTCAAACGAGCTGAAATA
65695366 AGCT
1 AGCT
65695370 GGACGGAGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (20 bp):
AGCTCAAACGAGCTGAAATA
Found at i:65697802 original size:40 final size:40
Alignment explanation
Indices: 65697747--65697964 Score: 352
Period size: 40 Copynumber: 5.5 Consensus size: 40
65697737 CGGATGATAA
* *
65697747 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
65697787 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
65697827 CCGGGCTACGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
65697867 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
65697907 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
65697947 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
65697965 TACTTGGGTT
Statistics
Matches: 170, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
39 17 0.10
40 152 0.89
41 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:65705940 original size:40 final size:40
Alignment explanation
Indices: 65705885--65706101 Score: 343
Period size: 40 Copynumber: 5.5 Consensus size: 40
65705875 CGGATGATAA
* *
65705885 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
65705925 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
65705965 -CGGGCTACGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
65706004 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
65706044 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
65706084 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
65706102 TACTTGGGTT
Statistics
Matches: 168, Mismatches: 6, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
39 55 0.33
40 112 0.67
41 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:65706017 original size:79 final size:80
Alignment explanation
Indices: 65705885--65706101 Score: 343
Period size: 79 Copynumber: 2.7 Consensus size: 80
65705875 CGGATGATAA
* *
65705885 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTT
65705949 GTGCGAGTTACTATAT
65 GTGCGAGTTACTATAT
*
65705965 -CGGGCTACGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
65706029 TGCGAGTTACTATAT
66 TGCGAGTTACTATAT
* *
65706044 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
65706102 TACTTGGGTT
Statistics
Matches: 128, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
79 91 0.71
80 37 0.29
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATAT
Found at i:65706097 original size:119 final size:119
Alignment explanation
Indices: 65705885--65706101 Score: 348
Period size: 119 Copynumber: 1.8 Consensus size: 119
65705875 CGGATGATAA
*
65705885 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
* * **
65705950 TGCGAGTTACTATATCGGGCTACGTCCCGAAGGCATTTGTGCGAGTTACTATAT
66 AGCGAGTTACTATATCCGGCTAAATCCCGAAGGCATTTGTGCGAGTTACTATAT
*
65706004 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTT
65706068 GAGCGAG-TAGCTATATCCGGCTAAATCCCGAAGG
65 GAGCGAGTTA-CTATATCCGGCTAAATCCCGAAGG
65706102 TACTTGGGTT
Statistics
Matches: 90, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
118 4 0.04
119 86 0.96
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
AGCGAGTTACTATATCCGGCTAAATCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:65710338 original size:40 final size:40
Alignment explanation
Indices: 65710294--65710485 Score: 321
Period size: 40 Copynumber: 4.8 Consensus size: 40
65710284 CCAGCATGAT
* * * *
65710294 TGCTCTTCGGGACCTAGCCCAGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
65710334 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
65710374 TGCTCTTCAGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
65710414 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
65710454 TGCTCTTCGAAACTTAGTCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
65710486 CTCAATTCTC
Statistics
Matches: 144, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 144 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:65712738 original size:49 final size:49
Alignment explanation
Indices: 65712611--65712966 Score: 533
Period size: 49 Copynumber: 7.3 Consensus size: 49
65712601 CCCTTCGGGA
* * * * * *
65712611 CTTATCACAT-T-TATACACTTCCACATCCATCACTTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65712658 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65712705 CTTATCACATATATATACACCTTCTCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65712754 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65712803 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65712852 CTTATCACATATATACACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65712901 CTTATCACATATAT-TCACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATAT-ACACTTTCACATTCATCACATCGGCCATTAGGC
65712950 CTTATCACATATATATA
1 CTTATCACATATATATA
65712967 TCTCATACAT
Statistics
Matches: 285, Mismatches: 18, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 45 0.16
49 238 0.84
50 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65719211 original size:13 final size:13
Alignment explanation
Indices: 65719192--65719226 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
65719182 CAATTAATTG
65719192 AAAAATTAATAAAT
1 AAAAATTAA-AAAT
65719206 -AAAATTAAAAAT
1 AAAAATTAAAAAT
65719218 AAAAATTAA
1 AAAAATTAA
65719227 GGGAGACTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
AAAAATTAAAAAT
Found at i:65734809 original size:24 final size:24
Alignment explanation
Indices: 65734758--65734945 Score: 269
Period size: 24 Copynumber: 8.0 Consensus size: 24
65734748 GCTTTATCAT
*
65734758 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
65734783 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
65734807 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
65734830 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
65734854 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
65734878 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
65734901 ATAACT-AGGCATAAGCCC-TTAA
1 ATAACTGGGGCATAAGCCCTTTTA
65734923 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
65734946 GCACTTCCTC
Statistics
Matches: 150, Mismatches: 9, Indels: 9
0.89 0.05 0.05
Matches are distributed among these distances:
22 20 0.13
23 43 0.29
24 75 0.50
25 12 0.08
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:65734833 original size:47 final size:47
Alignment explanation
Indices: 65734779--65734945 Score: 266
Period size: 47 Copynumber: 3.6 Consensus size: 47
65734769 CCTAGCCTCT
*
65734779 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
65734826 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
* *
65734873 TTTTGATAACTGGGGCATAAGCCC-TTTAATAACT-AGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
65734919 TTAAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
65734946 GCACTTCCTC
Statistics
Matches: 111, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
45 21 0.19
46 14 0.13
47 54 0.49
48 22 0.20
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:65734858 original size:71 final size:71
Alignment explanation
Indices: 65734758--65734945 Score: 283
Period size: 71 Copynumber: 2.7 Consensus size: 71
65734748 GCTTTATCAT
* *
65734758 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAA
65734822 GCCCTTTA
64 GCCCTTTA
* *
65734830 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGC
65734895 CCTTTA
66 CCTTTA
* *
65734901 ATAACT-AGGCATAAGCCC-TTAAATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
65734946 GCACTTCCTC
Statistics
Matches: 108, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
69 25 0.23
70 11 0.10
71 60 0.56
72 12 0.11
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGC
CCTTTA
Found at i:65735017 original size:9 final size:9
Alignment explanation
Indices: 65735003--65735059 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
65734993 ATCTCATGTG
65735003 CATATCATA
1 CATATCATA
*
65735012 CATATCATGTG
1 CATATCA--TA
65735023 CATATCATA
1 CATATCATA
* *
65735032 CATGTCATGTG
1 CATATCA--TA
65735043 CATATCATA
1 CATATCATA
65735052 CATATCAT
1 CATATCAT
65735060 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:65735019 original size:20 final size:20
Alignment explanation
Indices: 65734991--65735061 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
65734981 GCATTTATGA
*
65734991 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
65735011 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
65735031 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
65735051 ACATATCATGT
1 ACATATCATGT
65735062 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:65735026 original size:11 final size:11
Alignment explanation
Indices: 65734996--65735050 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
65734986 TATGAACATC
65734996 TCATGTGCATA
1 TCATGTGCATA
*
65735007 TCA--TACATA
1 TCATGTGCATA
65735016 TCATGTGCATA
1 TCATGTGCATA
* *
65735027 TCA--TACATG
1 TCATGTGCATA
65735036 TCATGTGCATA
1 TCATGTGCATA
65735047 TCAT
1 TCAT
65735051 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:65735126 original size:25 final size:25
Alignment explanation
Indices: 65735098--65735145 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
65735088 ATATATAAAC
* *
65735098 CCTAGGGGTATAATGGTCATTTTGA
1 CCTAGGGGCAAAATGGTCATTTTGA
65735123 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
65735146 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTGA
Found at i:65736406 original size:27 final size:27
Alignment explanation
Indices: 65736385--65736780 Score: 368
Period size: 27 Copynumber: 14.7 Consensus size: 27
65736375 AAGGGTATTT
*
65736385 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
65736412 TAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
65736439 CAGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
65736466 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
**
65736493 CGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* * *
65736520 -CGATAATTATGTAAATCGGGGGTAAAA
1 TAG-TAATTCTGTAAATCGAGGGTAAAA
* * *
65736547 TGGTAATTATGTAAAT-TAGGGGTAAAA
1 TAGTAATTCTGTAAATCGA-GGGTAAAA
** *
65736574 CGGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
65736601 TAGTAATTCTATAAA-CTGAGGGTAAAA
1 TAGTAATTCTGTAAATC-GAGGGTAAAA
** *
65736628 CGGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
** * ** *
65736655 CGGTAATTTTACAAATTGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
** *
65736682 CGGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
** * **
65736709 CGGTAATTTTACAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* * *
65736736 CAGTAATTCTATAAA-CTAAGGGTAAAA
1 TAGTAATTCTGTAAATC-GAGGGTAAAA
** *
65736763 CGGTAATTCTATAAATCG
1 TAGTAATTCTGTAAATCG
65736781 GGAGTACTTT
Statistics
Matches: 322, Mismatches: 39, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
26 3 0.01
27 315 0.98
28 4 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.29
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:65736472 original size:81 final size:81
Alignment explanation
Indices: 65736387--65736780 Score: 517
Period size: 81 Copynumber: 4.9 Consensus size: 81
65736377 GGGTATTTTA
** * *
65736387 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
*
65736452 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAACG
* * * *
65736468 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-GATAATTATGT
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG-TAATTCTAT
* *
65736532 AAATCGGGGGTAAAATG
65 AAATCGAGGGTAAAACG
* * *
65736549 GTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTAT
1 GTAATTTTGTAAATCGA-GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTAT
65736613 AAA-CTGAGGGTAAAACG
65 AAATC-GAGGGTAAAACG
* * * *
65736630 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTACAAATTGAGGGTAAAACGGTAATTCTATA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
65736695 AATCGAGGGTAAAACG
66 AATCGAGGGTAAAACG
** * * *
65736711 GTAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAA-CTAAGGGTAAAACGGTAATTCTAT
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATC-GAGGGTAAAACAGTAATTCTAT
65736775 AAATCG
65 AAATCG
65736781 GGAGTACTTT
Statistics
Matches: 277, Mismatches: 29, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
80 3 0.01
81 271 0.98
82 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (81 bp):
GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
AATCGAGGGTAAAACG
Found at i:65736797 original size:54 final size:54
Alignment explanation
Indices: 65736397--65736780 Score: 423
Period size: 54 Copynumber: 7.1 Consensus size: 54
65736387 GTAATTTTGT
** * * *
65736397 AAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTAT
1 AAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAACGGTAATTCTAC
* * * **
65736451 AAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGT
1 AAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAACGGTAATTCTAC
* * * ** * * **
65736505 AAATCGAGGGTAAAACGATAATTATGTAAATCGGGGGTAAAATGGTAATTATGT
1 AAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAACGGTAATTCTAC
* * ** *
65736559 AAAT-TAGGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTAT
1 AAATCGA-GGGTAAAACGGTAATTCTATAAATCAAGGGTAAAACGGTAATTCTAC
* * * *
65736613 AAA-CTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTAC
1 AAATC-GAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAACGGTAATTCTAC
* * *
65736667 AAATTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTAC
1 AAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAACGGTAATTCTAC
* *
65736721 AAATCGAGGGTAAAACAGTAATTCTATAAA-CTAAGGGTAAAACGGTAATTCTAT
1 AAATCGAGGGTAAAACGGTAATTCTATAAATC-AAGGGTAAAACGGTAATTCTAC
65736775 AAATCG
1 AAATCG
65736781 GGAGTACTTT
Statistics
Matches: 292, Mismatches: 33, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
53 2 0.01
54 289 0.99
55 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (54 bp):
AAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAACGGTAATTCTAC
Found at i:65740171 original size:20 final size:22
Alignment explanation
Indices: 65740132--65740171 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
65740122 CTGAAAGCCT
65740132 TTGATTCGAGCTCGATTTAGTG
1 TTGATTCGAGCTCGATTTAGTG
65740154 TTGATTCGAG-TC-ATTTAG
1 TTGATTCGAGCTCGATTTAG
65740172 ATGGCTTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 2 0.11
22 10 0.56
ACGTcount: A:0.20, C:0.12, G:0.25, T:0.42
Consensus pattern (22 bp):
TTGATTCGAGCTCGATTTAGTG
Found at i:65742616 original size:40 final size:40
Alignment explanation
Indices: 65742551--65742798 Score: 365
Period size: 40 Copynumber: 6.2 Consensus size: 40
65742541 TCTTCGGAAT
* ** *
65742551 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
65742590 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
65742630 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
65742670 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* *
65742710 TTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
65742750 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGGC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
65742790 TTAGCCCGG
1 TTAGCCCGG
65742799 GTATCATTCA
Statistics
Matches: 190, Mismatches: 17, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
39 3 0.02
40 186 0.98
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:65745822 original size:17 final size:17
Alignment explanation
Indices: 65745802--65745835 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
65745792 CTATAAGCCC
65745802 AATTAAACAAGTTAAAT
1 AATTAAACAAGTTAAAT
*
65745819 AATTAAGCAAGTTAAAT
1 AATTAAACAAGTTAAAT
65745836 GGCTGTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.09, T:0.29
Consensus pattern (17 bp):
AATTAAACAAGTTAAAT
Found at i:65755133 original size:40 final size:39
Alignment explanation
Indices: 65755082--65755272 Score: 174
Period size: 40 Copynumber: 4.8 Consensus size: 39
65755072 GGATATAACG
* *
65755082 ACTCGCTCGAATGCCTTCGGGACAAAGCCCGGTTATAGTA
1 ACTCGCACGAATGCCTTCGGGACTAAGCCCGGTT-TAGTA
65755122 ACTCGCACGAATGCCTTCGGGACTTAA-CCCGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGGGAC-TAAGCCC-GGTTTAGTA
* * *
65755162 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACGAATGCCTTCGGGACTAAGCCCGG-TTTAGTA
* * * * *
65755201 ACTCACACGAATGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCACGAATGCCTTCGGGA-CTAAGCCCGG-TTTAGTA
* * *
65755241 ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACGAATGCCTTCGGGACTAAGCCCGG
65755273 ACATCATTCA
Statistics
Matches: 128, Mismatches: 15, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
38 6 0.05
39 26 0.20
40 83 0.65
41 13 0.10
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
ACTCGCACGAATGCCTTCGGGACTAAGCCCGGTTTAGTA
Found at i:65755203 original size:79 final size:81
Alignment explanation
Indices: 65755082--65755273 Score: 223
Period size: 79 Copynumber: 2.4 Consensus size: 81
65755072 GGATATAACG
* * ** *
65755082 ACTCGCTCGAATGCCTTCGGGACAAAGCCCGG-TTATAGTAACTCGCACGAATGCCTTCGGGA-C
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCACACGAATGCCTTC-GGATC
* *
65755145 TTAACCCGGGTTTAGTA
65 TTAACCCGGATATAGTA
*
65755162 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATT-TATTAACTCACACGAATGCCTTCGGATCT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCACACGAATGCCTTCGGATCT
** *
65755225 TAGTCCGGATATAGTC
66 TAACCCGGATATAGTA
*
65755241 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
65755274 CATCATTCAA
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.55
80 40 0.42
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCACACGAATGCCTTCGGATCT
TAACCCGGATATAGTA
Found at i:65768413 original size:40 final size:39
Alignment explanation
Indices: 65768248--65768431 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
65768238 AAATTGATTG
* * *
65768248 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
65768288 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
65768328 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
65768368 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
65768407 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
65768432 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:65768456 original size:80 final size:81
Alignment explanation
Indices: 65768288--65768476 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
65768278 GCTGGAAATT
* * * *
65768288 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
65768353 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
65768369 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
65768432 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
65768448 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
65768477 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:65773187 original size:2 final size:2
Alignment explanation
Indices: 65773180--65773276 Score: 194
Period size: 2 Copynumber: 48.5 Consensus size: 2
65773170 CCTCTCATTT
65773180 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
65773222 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
65773264 TC TC TC TC TC TC T
1 TC TC TC TC TC TC T
65773277 TTTTCCATTT
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 95 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:65777326 original size:46 final size:46
Alignment explanation
Indices: 65777259--65777385 Score: 195
Period size: 46 Copynumber: 2.8 Consensus size: 46
65777249 TGTAACCCGC
* * *
65777259 CCATAAGTGAACTCGGACTCAACTTAACGA-TCTC-AGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGT-TCGA-ACATTCGCAT
65777305 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
65777351 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
65777386 GATGCCCAAA
Statistics
Matches: 76, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
46 74 0.97
47 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
Found at i:65780251 original size:40 final size:39
Alignment explanation
Indices: 65780194--65780377 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 39
65780184 ATTAAATGAT
* * *
65780194 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
65780234 ATCCGGGTTAAGACCCGAA-GCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
65780273 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
65780313 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
65780353 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
65780378 CGTGCATGTG
Statistics
Matches: 124, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 34 0.27
40 87 0.70
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:65780329 original size:79 final size:80
Alignment explanation
Indices: 65780193--65780398 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
65780183 AATTAAATGA
* * ** * *
65780193 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAA-GCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
65780257 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
65780270 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
65780335 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
65780352 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
65780399 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
77 1 0.01
79 51 0.47
80 54 0.50
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:65780383 original size:40 final size:40
Alignment explanation
Indices: 65780192--65780398 Score: 204
Period size: 40 Copynumber: 5.2 Consensus size: 40
65780182 CAATTAAATG
* * ** * *
65780192 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * * * *
65780232 AAATCCGGGTTAAGACCCGAA-GCAATT-ATGCTAGT-GACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCG-TT
* *
65780271 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * *
65780311 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * *
65780351 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
65780391 ATATCCGG
1 ATATCCGG
65780399 TTGTATTCCG
Statistics
Matches: 143, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
38 1 0.01
39 33 0.23
40 108 0.76
41 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
Found at i:65786841 original size:24 final size:25
Alignment explanation
Indices: 65786809--65786858 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
65786799 GGAAGAATAA
65786809 AGAAATGAA-AAAAA-AAAAAAAAG
1 AGAAATGAAGAAAAACAAAAAAAAG
*
65786832 AGAATATGAAGAAAAACAAAGAAAAG
1 AGAA-ATGAAGAAAAACAAAAAAAAG
65786858 A
1 A
65786859 AAAAAAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 5 0.22
25 5 0.22
26 9 0.39
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.06
Consensus pattern (25 bp):
AGAAATGAAGAAAAACAAAAAAAAG
Found at i:65786859 original size:24 final size:22
Alignment explanation
Indices: 65786807--65786867 Score: 63
Period size: 25 Copynumber: 2.7 Consensus size: 22
65786797 TAGGAAGAAT
65786807 AAAGAAATGAAAAAAAAAAAAA
1 AAAGAAATGAAAAAAAAAAAAA
* *
65786829 AAGAGAATATGAAGAAAAACAAAGA
1 AA-AGAA-ATGAA-AAAAAAAAAAA
65786854 AAAGAAA--AAAAAAA
1 AAAGAAATGAAAAAAA
65786868 GTGTTCATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
20 5 0.15
21 2 0.06
22 2 0.06
23 5 0.15
24 9 0.26
25 11 0.32
ACGTcount: A:0.80, C:0.02, G:0.13, T:0.05
Consensus pattern (22 bp):
AAAGAAATGAAAAAAAAAAAAA
Found at i:65788103 original size:30 final size:29
Alignment explanation
Indices: 65788031--65788095 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
65788021 TGACGAGATT
* *
65788031 GGCACTAAGTGTGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAC
65788060 GGCACTAAGTGTGCATGCTGGAAAAAATAC
1 GGCACTAAGTGTGCATGCTGG-AAAAATAC
65788090 GGCACT
1 GGCACT
65788096 GGGTGTGCGA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
29 21 0.64
30 12 0.36
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAC
Found at i:65789621 original size:40 final size:39
Alignment explanation
Indices: 65789572--65789682 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 39
65789562 CAAACCACGT
*
65789572 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAA-GCACTA
*
65789612 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAAG-CACTA
*
65789652 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
65789683 TAATTTCCAG
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
38 1 0.02
39 4 0.06
40 58 0.92
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAAGCACTA
Found at i:65789706 original size:80 final size:80
Alignment explanation
Indices: 65789572--65789721 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 80
65789562 CAAACCACGT
* * *
65789572 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAACGCCTTCGGGGCTTAGCC
65789637 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** ** *
65789652 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCATTAACGTCTTCGGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAACGCCTTCGGGGCTTAGC
65789716 CCGGAT
65 CCGGAT
65789722 ATCATTCAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.02
80 58 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAACGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:65796107 original size:40 final size:39
Alignment explanation
Indices: 65796050--65796234 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
65796040 ATTAAATGAT
* * *
65796050 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
65796090 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
65796130 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
65796170 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
65796210 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
65796235 CGTGCATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:65796186 original size:80 final size:80
Alignment explanation
Indices: 65796049--65796255 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
65796039 AATTAAATGA
* * ** * *
65796049 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
65796114 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
65796127 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
65796192 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
65796209 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
65796256 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:65796240 original size:40 final size:39
Alignment explanation
Indices: 65796048--65796255 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
65796038 CAATTAAATG
* * ** *
65796048 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
65796088 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
65796128 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
65796168 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
65796208 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
65796248 ATATCCGG
1 ATATCCGG
65796256 TTGTATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Done.