Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold77
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: 1374688
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.34
Warning! 47366 characters in sequence are not A, C, G, or T
File 7 of 9
Found at i:792996 original size:64 final size:64
Alignment explanation
Indices: 792729--793263 Score: 303
Period size: 56 Copynumber: 9.0 Consensus size: 64
792719 GCCACTGAAA
* * * * * * * *
792729 GTGTGGACTTTTGAAA-GAGGTTCCCATCAACTTGTATAGGCTTTGAAAAGGGTTGCCCCCAACT
1 GTGTGGGC-TTTGAAATGA-GTTGCCATTAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACT
*
792793 C
64 T
* * * **
792794 GTGTGGGCTTTGAAATGAGTTGCCACTGACTCGTGTGGGCTTTGAAATGAGTTGCCACTGAC-T
1 GTGTGGGCTTTGAAATGAGTTGCCATTAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTT
* * * * **
792857 -TGTGGGCTTTAAAATGA--TGCCATGAAC-T-TGTGGGCTTTAAAATGGGTTGCCATTAACTT
1 GTGTGGGCTTTGAAATGAGTTGCCATTAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTT
* * * *
792916 GTGTGGGCTTTAAAATGGGTTACCATTAACTTGTGTGGGCTTTCAAATGAGTTGCCACCAACTT
1 GTGTGGGCTTTGAAATGAGTTGCCATTAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTT
* * * *
792980 GTGTGGGCTTTGAAATGAGTTGCCAATGAC-T-TGTGAGCTTTGAAATGA-TT-CCACGAAC-T
1 GTGTGGGCTTTGAAATGAGTTGCCATTAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTT
* * * * * *
793039 -TGTGGGCTTTGAAA-G-GATGCTACTGAC-T-TGTAGGCTTTGGAAA-GA--TGCCACTAAC-T
1 GTGTGGGCTTTGAAATGAGTTGCCATTAACTTGTGTGGGCTTT-GAAATGAGTTGCCACCAACTT
* * * * **
793095 -TGTGGGTTTTGAAAT-A-ATGCCACTGAC-T-TGTGGGCTTTGAAATGA--TGCCACTGAC-T
1 GTGTGGGCTTTGAAATGAGTTGCCATTAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTT
* * * **
793151 -TGTGAGCTTTGAAATGA--TGCCACTAAC-T-TGTGGGCTTTGAAA--AGATGCCACTGAC-T
1 GTGTGGGCTTTGAAATGAGTTGCCATTAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTT
* * *
793207 -TGTGGGCTTTAAAATGA--TGCCACTAAC-T-TGTGGGCTTTGAAATGA--TGCCACTAACTT
1 GTGTGGGCTTTGAAATGAGTTGCCATTAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTT
793264 ATAGGCTTTG
Statistics
Matches: 398, Mismatches: 54, Indels: 44
0.80 0.11 0.09
Matches are distributed among these distances:
54 1 0.00
55 5 0.01
56 170 0.43
57 7 0.02
58 40 0.10
59 2 0.01
60 30 0.08
61 2 0.01
62 39 0.10
63 2 0.01
64 91 0.23
65 9 0.02
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (64 bp):
GTGTGGGCTTTGAAATGAGTTGCCATTAACTTGTGTGGGCTTTGAAATGAGTTGCCACCAACTT
Found at i:793077 original size:56 final size:55
Alignment explanation
Indices: 792795--793620 Score: 669
Period size: 56 Copynumber: 14.4 Consensus size: 55
792785 CCCCAACTCG
*
792795 TGTGGGCTTTGAAATGAGTTGCCACTGACTCGTGTGGGCTTTGAAATGAGTTGCCACTGACT
1 TGTGGGCTTTGAAA-G-GATGCCACTGACT--TGTGGGCTTTGAAATGA--TGCCAC-GACT
* * * * **
792857 TGTGGGCTTTAAAATGATGCCA-TGAACTTGTGGGCTTTAAAATGGGTTGCCATTAACTT
1 TGTGGGCTTTGAAAGGATGCCACTG-ACTTGTGGGCTTTGAAAT--GATGCCA-CGAC-T
* * * * * * *
792916 GTGTGGGCTTTAAAATGGGTTACCATTAACTTGTGTGGGCTTTCAAATGAGTTGCCACCAACTT
1 -TGTGGGCTTTGAAA--GGATGCCACTGAC-T-TGTGGGCTTTGAAATGA--TGCCA-CGAC-T
* * * *
792980 GTGTGGGCTTTGAAATGAGTTGCCAATGACTTGTGAGCTTTGAAATGATTCCACGAACT
1 -TGTGGGCTTTGAAA-G-GATGCCACTGACTTGTGGGCTTTGAAATGATGCCACG-ACT
* * *
793039 TGTGGGCTTTGAAAGGATGCTACTGACTTGTAGGCTTTGGAAA-GATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTT-GAAATGATGCCAC-GACT
* **
793095 TGTGGGTTTTGAAATAATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAATGATGCCAC-GACT
* * * *
793151 TGTGAGCTTTGAAATGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAATGATGCCAC-GACT
* * * *
793207 TGTGGGCTTTAAAATGATGCCACTAACTTGTGGGCTTTGAAATGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAATGATGCCAC-GACT
* * * * *
793263 TATAGGCTTTGAAAAGATGCCACTGACTTATGGGCTTTGAAATGATGCTACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAATGATGCCAC-GACT
* * *
793319 TGTGGGCTTTGAAAGGATGCCATTGACTTGTGGGCCTTAAAATGATGCCACCGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAATGATGCCA-CGACT
* * * *
793375 TGTAGGCTTTGAAAAGGATGCCACTGACTTGTAGGCTTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTGAAATGATGCCAC-GACT
*
793432 TGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTG-AAATGATGCCAC-GACT
* * * * * *
793490 TGTGAGCTTTGAAAGG-TGCCAC-GAAGTTGTGGAC-TTAAAAAGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTG-ACTTGTGGGCTTTGAAATGATGCCAC-GACT
* * * * * * * * *
793544 TGT-GGATTTAAAAGGGTGTCACGGAGTTGTGGACTTT-AAAAGAGTGCCACAGAAT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAATGA-TGCCAC-GACT
* *
793599 TGTGGAC-TTAAAAGGATGCCAC
1 TGTGGGCTTTGAAAGGATGCCAC
793621 GAAGTTGTGG
Statistics
Matches: 646, Mismatches: 90, Indels: 63
0.81 0.11 0.08
Matches are distributed among these distances:
53 9 0.01
54 38 0.06
55 35 0.05
56 296 0.46
57 86 0.13
58 60 0.09
59 5 0.01
60 30 0.05
62 36 0.06
63 4 0.01
64 47 0.07
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (55 bp):
TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAATGATGCCACGACT
Found at i:793519 original size:27 final size:25
Alignment explanation
Indices: 793007--793994 Score: 358
Period size: 28 Copynumber: 35.7 Consensus size: 25
792997 AGTTGCCAAT
* * *
793007 GACTTGTGAGCTTTGAAATGATTCCAC
1 GACTTGTG-GCTTT-AAAAGGTGCCAC
* *
793034 GAACTTGTGGGCTTTGAAAGGATGCTAC
1 G-ACTTGT-GGCTTTAAAAGG-TGCCAC
* *
793062 TGACTTGTAGGCTTTGGAAAGATGCCAC
1 -GACTTGT-GGCTTT-AAAAGGTGCCAC
* * *
793090 TAACTTGTGGGTTTTGAAATA-ATGCCAC
1 -GACTTGT-GGCTTT-AAA-AGGTGCCAC
* *
793118 TGACTTGTGGGCTTTGAAATGATGCCAC
1 -GACTTGT-GGCTTT-AAAAGGTGCCAC
* *
793146 TGACTTGTGAGCTTTGAAATGATGCCAC
1 -GACTTGTG-GCTTT-AAAAGGTGCCAC
* *
793174 TAACTTGTGGGCTTTGAAAAGATGCCAC
1 -GACTTGT-GGCTTT-AAAAGGTGCCAC
*
793202 TGACTTGTGGGCTTTAAAATGATGCCAC
1 -GACTTGT-GGCTTTAAAA-GGTGCCAC
* * *
793230 TAACTTGTGGGCTTTGAAATGATGCCAC
1 -GACTTGT-GGCTTT-AAAAGGTGCCAC
* * *
793258 TAACTTATAGGCTTTGAAAAGATGCCAC
1 -GACTTGT-GGCTTT-AAAAGGTGCCAC
* * * *
793286 TGACTTATGGGCTTTGAAATGATGCTAC
1 -GACTTGT-GGCTTT-AAAAGGTGCCAC
* *
793314 TGACTTGTGGGCTTTGAAAGGATGCCATT
1 -GACTTGT-GGCTTTAAAAGG-TGCCA-C
* *
793343 GACTTGTGGGCCTTAAAATGATGCCACC
1 GACTTGT-GGCTTTAAAA-GGTGCCA-C
793371 GACTTGTAGGCTTTGAAAAGGATGCCAC
1 GACTTGT-GGCTTT-AAAAGG-TGCCAC
*
793399 TGACTTGTAGGCTTTGAAAAGATGCCAC
1 -GACTTGT-GGCTTT-AAAAGGTGCCAC
*
793427 TAACTTGTGGGCTTTGAAAAGGATGCCAC
1 -GACTTGT-GGCTTT-AAAAGG-TGCCAC
793456 TGACTTGTGGGCTTTGAAAAGGATGCCAC
1 -GACTTGT-GGCTTT-AAAAGG-TGCCAC
*
793485 TGACTTGTGAGCTTTGAAAGGTGCCAC
1 -GACTTGTG-GCTTTAAAAGGTGCCAC
* * *
793512 GAAGTTGTGGACTTAAAAAGATGCCAC
1 G-ACTTGTGG-CTTTAAAAGGTGCCAC
* * *
793539 GGAGTTGTGGATTTAAAAGGGTGTCAC
1 -GACTTGTGGCTTTAAAA-GGTGCCAC
*
793566 GGAGTTGTGGACTTTAAAAGAGTGCCAC
1 -GACTTGTGG-CTTTAAAAG-GTGCCAC
*
793594 AGAATTGTGGAC-TTAAAAGGATGCCAC
1 -GACTTGTGG-CTTTAAAAGG-TGCCAC
* *
793621 GAAGTTGTGGAC-TTAAAAGGGTGCCATG
1 G-ACTTGTGG-CTTTAAAA-GGTGCCA-C
* *
793649 GAGTTGTGGACTTAAAAAGGTGCCAC
1 GACTTGTGG-CTTTAAAAGGTGCCAC
* *
793675 GGAGTTGTGGATTTTAAAAGAGTGCCAC
1 -GACTTGTGG-CTTTAAAAG-GTGCCAC
*
793703 GGAGTTGTGGAC-TTAAAAGGGTGCCAC
1 -GACTTGTGG-CTTTAAAA-GGTGCCAC
* *
793730 GGAGTTGTGGATTTTAAAAGAGTGCCACC
1 -GACTTGTGG-CTTTAAAAG-GTGCCA-C
*
793759 GAGTTGTGGAC-TTAAAAGGGTGCCAC
1 GACTTGTGG-CTTTAAAA-GGTGCCAC
*
793785 GAAGTTGTGGAC-TTAAAAGGGTGCCAC
1 G-ACTTGTGG-CTTTAAAA-GGTGCCAC
* *
793812 GGAGTTGTGGATTTTAAAAGGGTGCCAC
1 -GACTTGTGG-CTTTAAAA-GGTGCCAC
*
793840 GGAGTTGTGGAC-TTAAAAGGATGCCAC
1 -GACTTGTGG-CTTTAAAAGG-TGCCAC
* * *
793867 GGAGTTGTGAAC-TTAAAAGGGTGCCATG
1 -GACTTGTG-GCTTTAAAA-GGTGCCA-C
* *
793895 GAGTTGTGGAC-TAAAAAGGGTGCCAC
1 GACTTGTGG-CTTTAAAA-GGTGCCAC
* *
793921 GGAGTTGTGGACTTTAAAAGGATGTCAC
1 -GACTTGTGG-CTTTAAAAGG-TGCCAC
* *
793949 AGAGTTGTGGAC-TTAAAAGGATGCCAT
1 -GACTTGTGG-CTTTAAAAGG-TGCCAC
*
793976 GAAATTGTGGACTTTAAAA
1 G-ACTTGTGG-CTTTAAAA
793995 AGAAATACCA
Statistics
Matches: 830, Mismatches: 81, Indels: 99
0.82 0.08 0.10
Matches are distributed among these distances:
26 15 0.02
27 290 0.35
28 435 0.52
29 90 0.11
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (25 bp):
GACTTGTGGCTTTAAAAGGTGCCAC
Found at i:793604 original size:82 final size:82
Alignment explanation
Indices: 793354--793994 Score: 722
Period size: 82 Copynumber: 7.8 Consensus size: 82
793344 ACTTGTGGGC
* * * * * *
793354 CTTAAAATGATGCCACCGACTTGTAGG-CTTTGAAAAGGATGCCACTGACTTGTAGG-CTTTGAA
1 CTTAAAAGGATGCCACGGAGTTGT-GGAC-TT-AAAAGGGTGCCACGGAGTTGT-GGACTTT-AA
** * *
793417 AAGA-TGCCACTAACTTGTGGG
61 AAGAGTGCCACGGAGTTGTGGA
* * * * * * *
793438 CTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGT-GAGCTTTGA
1 C-TT-AAAAGGATGCCACGGAGTTGTGGAC-TT-AAAAGGGTGCCACGGAGTTGTGGA-CTTTAA
*
793502 AAG-GTGCCACGAAGTTGTGGA
61 AAGAGTGCCACGGAGTTGTGGA
* * *
793523 CTTAAAAAGATGCCACGGAGTTGTGGATTTAAAAGGGTGTCACGGAGTTGTGGACTTTAAAAGAG
1 CTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAG
* *
793588 TGCCACAGAATTGTGGA
66 TGCCACGGAGTTGTGGA
* * *
793605 CTTAAAAGGATGCCACGAAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGACTTAAAAAG-G
1 CTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAG
793669 TGCCACGGAGTTGTGGA
66 TGCCACGGAGTTGTGGA
* *
793686 TTTTAAAA-GAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGATTTTAAAAG
1 -CTTAAAAGGA-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAG
*
793750 AGTGCCACCGAGTTGTGGA
64 AGTGCCACGGAGTTGTGGA
* * * *
793769 CTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGATTTTAAAAGGG
1 CTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAG
793834 TGCCACGGAGTTGTGGA
66 TGCCACGGAGTTGTGGA
* * * *
793851 CTTAAAAGGATGCCACGGAGTTGTGAACTTAAAAGGGTGCCATGGAGTTGTGGAC-TAAAAAGGG
1 CTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAG
793915 TGCCACGGAGTTGTGGA
66 TGCCACGGAGTTGTGGA
* * * * * *
793932 CTTTAAAAGGATGTCACAGAGTTGTGGACTTAAAAGGATGCCATGAAATTGTGGACTTTAAAA
1 C-TTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAA
793995 AGAAATACCA
Statistics
Matches: 492, Mismatches: 51, Indels: 29
0.86 0.09 0.05
Matches are distributed among these distances:
81 69 0.14
82 304 0.62
83 43 0.09
84 4 0.01
85 23 0.05
86 49 0.10
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.26
Consensus pattern (82 bp):
CTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAG
TGCCACGGAGTTGTGGA
Found at i:793619 original size:109 final size:108
Alignment explanation
Indices: 793501--793994 Score: 661
Period size: 109 Copynumber: 4.5 Consensus size: 108
793491 GTGAGCTTTG
* * *
793501 AAAGG-TGCCACGAAGTTGTGGACTTAAAAAGATGCCACGGAGTTGTGGATTTAAAAGGGTGTCA
1 AAAGGATGCCACGAAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
* *
793565 CGGAGTTGTGGACTTTAAAAGAGTGCCACAGAATTGTGGACTTA
66 CGGAGTTGTGGAC-TTAAAAGAGTGCCACGGAGTTGTGGACTTA
* * *
793609 AAAGGATGCCACGAAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGACTTAAAAAGGTGCCA
1 AAAGGATGCCACGAAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
*
793674 CGGAGTTGTGGATTTTAAAAGAGTGCCACGGAGTTGTGGACTTA
66 CGGAGTTGTGGA-CTTAAAAGAGTGCCACGGAGTTGTGGACTTA
* * * *
793718 AAAGGGTGCCACGGAGTTGTGGATTTTAAAA-GAGTGCCACCGAGTTGTGGACTTAAAAGGGTGC
1 AAAGGATGCCACGAAGTTGTGGA-CTTAAAAGGA-TGCCACGGAGTTGTGGACTTAAAAGGGTGC
* * *
793782 CACGAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGATTTTA
64 CACGGAGTTGTGGACTTAAAAGAGTGCCACGGAGTTGTGGA-CTTA
* * *
793828 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGAACTTAAAAGGGTGCCA
1 AAAGGATGCCACGAAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
* * *
793893 TGGAGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGACTTTA
66 CGGAGTTGTGGACTTAAAAGAGTGCCACGGAGTTGTGGAC-TTA
* * * *
793937 AAAGGATGTCAC-AGAGTTGTGGACTTAAAAGGATGCCATGAAATTGTGGACTTTAAAA
1 AAAGGATGCCACGA-AGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAA
793995 AGAAATACCA
Statistics
Matches: 343, Mismatches: 34, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
108 5 0.01
109 258 0.75
110 80 0.23
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.25
Consensus pattern (108 bp):
AAAGGATGCCACGAAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
CGGAGTTGTGGACTTAAAAGAGTGCCACGGAGTTGTGGACTTA
Found at i:795346 original size:21 final size:21
Alignment explanation
Indices: 795322--795390 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
795312 TTGTTGTTCC
795322 CTTTTTTATTTTGCTTTTGCA
1 CTTTTTTATTTTGCTTTTGCA
* *
795343 CTTTTTTGTTTTTCTTTT-CA
1 CTTTTTTATTTTGCTTTTGCA
*
795363 TTTTTTGTACTTTTGCTTTTG-A
1 CTTTTT-TA-TTTTGCTTTTGCA
795385 CTTTTT
1 CTTTTT
795391 CATCATTTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 7 0.18
21 17 0.44
22 15 0.38
ACGTcount: A:0.07, C:0.13, G:0.09, T:0.71
Consensus pattern (21 bp):
CTTTTTTATTTTGCTTTTGCA
Found at i:795348 original size:22 final size:23
Alignment explanation
Indices: 795323--795390 Score: 85
Period size: 22 Copynumber: 3.2 Consensus size: 23
795313 TGTTGTTCCC
795323 TTTTT-TATTTTGCTTTTGCACT
1 TTTTTGTATTTTGCTTTTGCACT
795345 TTTTTGT-TTTT-CTTTT-CA-T
1 TTTTTGTATTTTGCTTTTGCACT
795364 TTTTTGTACTTTTGCTTTTG-ACT
1 TTTTTGTA-TTTTGCTTTTGCACT
795387 TTTT
1 TTTT
795391 CATCATTTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
19 8 0.20
20 2 0.05
21 9 0.22
22 15 0.38
23 6 0.15
ACGTcount: A:0.07, C:0.12, G:0.09, T:0.72
Consensus pattern (23 bp):
TTTTTGTATTTTGCTTTTGCACT
Found at i:795349 original size:42 final size:42
Alignment explanation
Indices: 795302--795390 Score: 110
Period size: 42 Copynumber: 2.1 Consensus size: 42
795292 CATGTCCTTA
* *
795302 TTTTTTATTTTTGTTGTTCCCTTTTT-TA-TTTTGCTTTTGCAC
1 TTTTTTATTTTTCTT-TTCACTTTTTGTACTTTTGCTTTTG-AC
* *
795344 TTTTTTGTTTTTCTTTTCATTTTTTGTACTTTTGCTTTTGAC
1 TTTTTTATTTTTCTTTTCACTTTTTGTACTTTTGCTTTTGAC
795386 TTTTT
1 TTTTT
795391 CATCATTTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
41 8 0.20
42 22 0.54
43 11 0.27
ACGTcount: A:0.07, C:0.12, G:0.09, T:0.72
Consensus pattern (42 bp):
TTTTTTATTTTTCTTTTCACTTTTTGTACTTTTGCTTTTGAC
Found at i:801389 original size:29 final size:29
Alignment explanation
Indices: 801356--801413 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
801346 TGATTGAGGC
*
801356 TAACATGCTTAACTTCGGGA-AGGTTTTTG
1 TAACATCCTTAACTT-GGGAGAGGTTTTTG
801385 TAACATCCTTAACTTGGGAGAGGTTTTTG
1 TAACATCCTTAACTTGGGAGAGGTTTTTG
801414 AAAAATCGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (29 bp):
TAACATCCTTAACTTGGGAGAGGTTTTTG
Found at i:802476 original size:20 final size:20
Alignment explanation
Indices: 802411--802527 Score: 94
Period size: 20 Copynumber: 5.7 Consensus size: 20
802401 TTTTAACTAG
*
802411 ATGTATCAATACATTG-AGCA
1 ATGTATCGATACATTGAAG-A
* *
802431 ATATATTGATACATCTGGATAGA
1 ATGTATCGATACAT-T-GA-AGA
802454 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAGA
* ***
802474 ATGTATCGATACATTCATCC
1 ATGTATCGATACATTGAAGA
*
802494 ATGTACCGATACATTG-AGAA
1 ATGTATCGATACATTGAAG-A
*
802514 ATATATCGATACAT
1 ATGTATCGATACAT
802528 CTAGTTAAAA
Statistics
Matches: 76, Mismatches: 16, Indels: 10
0.75 0.16 0.10
Matches are distributed among these distances:
20 56 0.74
21 3 0.04
22 2 0.03
23 13 0.17
24 2 0.03
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACATTGAAGA
Found at i:803230 original size:91 final size:91
Alignment explanation
Indices: 803044--803293 Score: 265
Period size: 91 Copynumber: 2.7 Consensus size: 91
803034 CAACTGTGAT
* * * * * * *
803044 ATTTATAATCAATTAACTTTTCTTTTTTTTCTATCAATAGGAATCTGAA-TCTCAAATATAATTT
1 ATTTACAATCAATTAACTTTTC-TTTTTTT-TACCAAAAAGAATAT-AATTCTCATATATAATTC
* **
803108 ATGCATTAGTCTAATCCTTGTAGTCTTAC
63 ATGCATCAGTCTAATCCTTACAGTCTTAC
803137 ATTTACAATCAATTAACTTTTCTTTTTTTTACCAAAAAGAAT-TCAATTCTCATATATAATTCAT
1 ATTTACAATCAATTAACTTTTCTTTTTTTTACCAAAAAGAATAT-AATTCTCATATATAATTCAT
* *
803201 GCATCAGTCTAGTCTTTACAGT-TTGAC
65 GCATCAGTCTAATCCTTACAGTCTT-AC
* * *
803228 ATTTACAATCAATCAACTTTTCTTTTTTTT-CTATAAAAAGAAATATGATTCTCATATATAATTC
1 ATTTACAATCAATTAACTTTTCTTTTTTTTAC--CAAAAAG-AATATAATTCTCATATATAATTC
803292 AT
63 AT
803294 ATATTAGTCT
Statistics
Matches: 136, Mismatches: 15, Indels: 12
0.83 0.09 0.07
Matches are distributed among these distances:
90 6 0.04
91 73 0.54
92 13 0.10
93 43 0.32
94 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.06, T:0.45
Consensus pattern (91 bp):
ATTTACAATCAATTAACTTTTCTTTTTTTTACCAAAAAGAATATAATTCTCATATATAATTCATG
CATCAGTCTAATCCTTACAGTCTTAC
Found at i:803753 original size:38 final size:39
Alignment explanation
Indices: 803668--803775 Score: 128
Period size: 38 Copynumber: 2.8 Consensus size: 39
803658 TGCATCAGTC
* * * *
803668 ATATCTTTTGAATTTTAATAAAAAAATTTATATTTTATTC
1 ATATCTTTTAAATTCTAAT-AAAAAATTTATATATTATTA
* *
803708 ACATCTTTTAAATTCTAATAAATAATTTATA-ATTATTA
1 ATATCTTTTAAATTCTAATAAAAAATTTATATATTATTA
* *
803746 ATATCTTTCAAAATCTAATAAAAAATTTAT
1 ATATCTTTTAAATTCTAATAAAAAATTTAT
803776 GCATTAGCTT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 31 0.53
39 11 0.19
40 16 0.28
ACGTcount: A:0.44, C:0.07, G:0.01, T:0.47
Consensus pattern (39 bp):
ATATCTTTTAAATTCTAATAAAAAATTTATATATTATTA
Found at i:804424 original size:97 final size:96
Alignment explanation
Indices: 804244--804601 Score: 354
Period size: 95 Copynumber: 3.8 Consensus size: 96
804234 AACATCTACA
* * * * * *
804244 TGGATGTCTAATGCAGTGACAAATTCTTTTTGAATTTTAATGATAATTGAA-AGATTGATAAATG
1 TGGATGTCCAATGAAATGACAAATTGTTTTTGAATTTTAATGATAATTGAAGAGAGTGATAAAGG
* * * * *
804308 T-CTCGTGAAAGAGGCCAAAAAAAAAAAAAAAGT
66 TAGT-GTAAAACA-G-TACAAAAAAAAAAAAAGT
* *
804341 TGGATGTCCAATGATATGACAAATTGTTTTTGAATTTTAGTGATAATTGAAGAG-GTGATAAAGG
1 TGGATGTCCAATGAAATGACAAATTGTTTTTGAATTTTAATGATAATTGAAGAGAGTGATAAAGG
* * **
804405 TGGTGTAAAACACTACAAAAAAAAGGAAAGT
66 TAGTGTAAAACAGTACAAAAAAAAAAAAAGT
* * * * * *
804436 TGGACGTCCAACGAAATGACAAATTGTTTTTGAATTTTAGTGATAATTGGA-ACAGTGACAAAGG
1 TGGATGTCCAATGAAATGACAAATTGTTTTTGAATTTTAATGATAATTGAAGAGAGTGATAAAGG
* * **
804500 CAGTGTAAAATAGTAC--CCAAAAAAAAAGT
66 TAGTGTAAAACAGTACAAAAAAAAAAAAAGT
** *
804529 TGGATGTATAATGAAATGACAAATTG-TTTTGAATTTTAATGATAATTGAAG-GATTGATAAAGG
1 TGGATGTCCAATGAAATGACAAATTGTTTTTGAATTTTAATGATAATTGAAGAGAGTGATAAAGG
*
804592 TAGTTTAAAA
66 TAGTGTAAAA
804602 TAAAAATAAA
Statistics
Matches: 216, Mismatches: 41, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
92 39 0.18
93 31 0.14
94 1 0.00
95 82 0.38
97 60 0.28
98 3 0.01
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (96 bp):
TGGATGTCCAATGAAATGACAAATTGTTTTTGAATTTTAATGATAATTGAAGAGAGTGATAAAGG
TAGTGTAAAACAGTACAAAAAAAAAAAAAGT
Found at i:805226 original size:22 final size:22
Alignment explanation
Indices: 805184--805226 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
805174 TTATCTTTAA
*
805184 GAAAAAAGGGACATTTCTTATC
1 GAAAAAAGGAACATTTCTTATC
805206 GAAAAAAGGAAGCATTT-TTAT
1 GAAAAAAGGAA-CATTTCTTAT
805227 TTTACTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (22 bp):
GAAAAAAGGAACATTTCTTATC
Found at i:807388 original size:19 final size:20
Alignment explanation
Indices: 807348--807396 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
807338 AAGGCTAAGG
807348 CCTAAAAAGGCATTGACAAT
1 CCTAAAAAGGCATTGACAAT
* *
807368 CCTAAAAAGGTATTG-CGAT
1 CCTAAAAAGGCATTGACAAT
807387 CCTAAAAAGG
1 CCTAAAAAGG
807397 ATTTTAGCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.20
Consensus pattern (20 bp):
CCTAAAAAGGCATTGACAAT
Found at i:808094 original size:15 final size:14
Alignment explanation
Indices: 808074--808117 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
808064 AGCTCGTTAG
808074 AAAAGAGCTCATCA
1 AAAAGAGCTCATCA
808088 AACAAGAGCTCAT-A
1 AA-AAGAGCTCATCA
*
808102 AAAATGAGTTCATCA
1 AAAA-GAGCTCATCA
808117 A
1 A
808118 TGATGACCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 2 0.08
14 12 0.46
15 12 0.46
ACGTcount: A:0.50, C:0.18, G:0.14, T:0.18
Consensus pattern (14 bp):
AAAAGAGCTCATCA
Found at i:808170 original size:16 final size:16
Alignment explanation
Indices: 808149--808188 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
808139 GTTTGTTGAT
808149 AAAGAGCTTATAAAAA
1 AAAGAGCTTATAAAAA
*
808165 AAAGAGCTTCTAAAAA
1 AAAGAGCTTATAAAAA
*
808181 AATGAGCT
1 AAAGAGCT
808189 CATCAATAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.55, C:0.10, G:0.15, T:0.20
Consensus pattern (16 bp):
AAAGAGCTTATAAAAA
Found at i:808534 original size:30 final size:30
Alignment explanation
Indices: 808495--808582 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
808485 GAGTTCATCA
* * *
808495 AAAGGGAGATCATCAAAGGAAAGCTCATTG
1 AAAGAGAGATCATCAAAAGAGAGCTCATTG
** * *
808525 AAAGAGAGATTGTTAAAAGAGAGCTCGTTG
1 AAAGAGAGATCATCAAAAGAGAGCTCATTG
* *
808555 AAAAAGAGCTCATCAAAAGAGAGCTCAT
1 AAAGAGAGATCATCAAAAGAGAGCTCAT
808583 CAAATAGGAA
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.44, C:0.12, G:0.25, T:0.18
Consensus pattern (30 bp):
AAAGAGAGATCATCAAAAGAGAGCTCATTG
Found at i:808577 original size:15 final size:15
Alignment explanation
Indices: 808484--808586 Score: 73
Period size: 15 Copynumber: 6.9 Consensus size: 15
808474 TTATGGAACA
*
808484 AGAGTTCATCAAAAG
1 AGAGCTCATCAAAAG
* * *
808499 GGAGATCATCAAAGG
1 AGAGCTCATCAAAAG
* **
808514 AAAGCTCATTGAAAG
1 AGAGCTCATCAAAAG
* ** *
808529 AGAGATTGTTAAAAG
1 AGAGCTCATCAAAAG
* *
808544 AGAGCTCGTTGAAAA-
1 AGAGCTC-ATCAAAAG
808559 AGAGCTCATCAAAAG
1 AGAGCTCATCAAAAG
808574 AGAGCTCATCAAA
1 AGAGCTCATCAAA
808587 TAGGAACTTA
Statistics
Matches: 66, Mismatches: 20, Indels: 4
0.73 0.22 0.04
Matches are distributed among these distances:
14 5 0.08
15 56 0.85
16 5 0.08
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.18
Consensus pattern (15 bp):
AGAGCTCATCAAAAG
Found at i:808797 original size:45 final size:45
Alignment explanation
Indices: 808741--808836 Score: 156
Period size: 45 Copynumber: 2.1 Consensus size: 45
808731 ATTGATGTTG
* *
808741 AGCTCGTCAGAAAATAGCTCATCCGTGGGGAGATCTTAAAAAAAA
1 AGCTCGCCAGAAAATAGCTCATCCGTGAGGAGATCTTAAAAAAAA
* *
808786 AGCTCGCCAGAAAATAGCTCATCCGTGAGGAGATCTTTAAAAAGA
1 AGCTCGCCAGAAAATAGCTCATCCGTGAGGAGATCTTAAAAAAAA
808831 AGCTCG
1 AGCTCG
808837 TAAAAAAAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.20
Consensus pattern (45 bp):
AGCTCGCCAGAAAATAGCTCATCCGTGAGGAGATCTTAAAAAAAA
Found at i:809133 original size:15 final size:15
Alignment explanation
Indices: 809041--809239 Score: 79
Period size: 15 Copynumber: 13.3 Consensus size: 15
809031 GTCAGAAAAT
809041 AGCTCATCAAAAGAG
1 AGCTCATCAAAAGAG
* * *
809056 AACTCGTTGAAAA-AG
1 AGCTC-ATCAAAAGAG
* *
809071 AGTTCGTCAGAAAG-G
1 AGCTCATCA-AAAGAG
*
809086 AGCTCATCCAAAG-G
1 AGCTCATCAAAAGAG
* *
809100 TAGCTCATTAGAAA-TG
1 -AGCTCATCA-AAAGAG
*
809116 AGCTCATCAATAGAG
1 AGCTCATCAAAAGAG
*
809131 AGCTCATCAAAAGGG
1 AGCTCATCAAAAGAG
* * * *
809146 AGCTCGT-TAATGACA
1 AGCTCATCAAAAGA-G
*
809161 AGCTCATCGAAAGAG
1 AGCTCATCAAAAGAG
** *
809176 AGCTTGTCAAAAAAG
1 AGCTCATCAAAAGAG
* * *
809191 AGCTCGTCGAAAGGG
1 AGCTCATCAAAAGAG
809206 AGCTC-TCCAAAA-AGG
1 AGCTCAT-CAAAAGA-G
* *
809221 AGCTCATAAAAATAG
1 AGCTCATCAAAAGAG
809236 AGCT
1 AGCT
809240 TGTCAATGGG
Statistics
Matches: 134, Mismatches: 37, Indels: 26
0.68 0.19 0.13
Matches are distributed among these distances:
14 13 0.10
15 106 0.79
16 15 0.11
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.19
Consensus pattern (15 bp):
AGCTCATCAAAAGAG
Found at i:809149 original size:30 final size:30
Alignment explanation
Indices: 809115--809210 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 30
809105 CATTAGAAAT
* *
809115 GAGCTCATCAATAGAGAGCTCATCAAAAGG
1 GAGCTCGTCAATAGAGAGCTCATCGAAAGG
* * *
809145 GAGCTCGTTAAT-GACAAGCTCATCGAAAGA
1 GAGCTCGTCAATAGA-GAGCTCATCGAAAGG
* * * *
809175 GAGCTTGTCAAAAAAGAGCTCGTCGAAAGG
1 GAGCTCGTCAATAGAGAGCTCATCGAAAGG
809205 GAGCTC
1 GAGCTC
809211 TCCAAAAAGG
Statistics
Matches: 51, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
29 2 0.04
30 48 0.94
31 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.26, T:0.18
Consensus pattern (30 bp):
GAGCTCGTCAATAGAGAGCTCATCGAAAGG
Found at i:809792 original size:22 final size:23
Alignment explanation
Indices: 809767--809817 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
809757 CTAAAGAAAT
809767 GATAAATCTGAAA-CAACCATAA
1 GATAAATCTGAAAGCAACCATAA
* * *
809789 GATAGATTTTAAAGCAACCATAA
1 GATAAATCTGAAAGCAACCATAA
809812 GA-AAAT
1 GATAAAT
809818 GTTAGGAATC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.53, C:0.14, G:0.12, T:0.22
Consensus pattern (23 bp):
GATAAATCTGAAAGCAACCATAA
Found at i:816370 original size:2 final size:2
Alignment explanation
Indices: 816365--816422 Score: 98
Period size: 2 Copynumber: 29.0 Consensus size: 2
816355 CTAATATATA
*
816365 TG TG TG TG TG TG TG TG TG TG TG TG CG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
*
816407 TG TG TG CG TG TG TG TG
1 TG TG TG TG TG TG TG TG
816423 CGAAGGAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.03, G:0.50, T:0.47
Consensus pattern (2 bp):
TG
Found at i:817132 original size:18 final size:18
Alignment explanation
Indices: 817102--817147 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
817092 AAATAAATAT
817102 AAATTTA-ATTTTTTAAA
1 AAATTTATATTTTTTAAA
*
817119 AATTTTATA-TTTTTAAA
1 AAATTTATATTTTTTAAA
817136 AAATTTATATTT
1 AAATTTATATTT
817148 GATATATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 22 0.88
18 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AAATTTATATTTTTTAAA
Found at i:817142 original size:26 final size:25
Alignment explanation
Indices: 817118--817165 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
817108 AATTTTTTAA
817118 AAATTT-TATATTTTTAAAAAATTT
1 AAATTTATATATTTTTAAAAAATTT
*
817142 ATATTTGATATATTTTTAAAAAAT
1 AAATTT-ATATATTTTTAAAAAAT
817166 ATATTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
26 16 0.76
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
AAATTTATATATTTTTAAAAAATTT
Found at i:817178 original size:26 final size:26
Alignment explanation
Indices: 817124--817186 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
817114 TTAAAAATTT
* *
817124 TATATTTTTAAAAAATTTATATTTGA
1 TATATTTTTAAAAAATATATATTTAA
817150 TATATTTTTAAAAAATATAT-TTTAA
1 TATATTTTTAAAAAATATATATTTAA
817175 -ATATTATTTAAA
1 TATATT-TTTAAA
817187 TATATAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
24 5 0.15
25 10 0.29
26 19 0.56
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
TATATTTTTAAAAAATATATATTTAA
Found at i:817191 original size:24 final size:24
Alignment explanation
Indices: 817125--817192 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
817115 TAAAAATTTT
* *
817125 ATATTTTTAAAAAATTTATATTTGAT
1 ATATTTTT--AAAATATATATTTGAA
* *
817151 ATATTTTTAAAAAATATATTTTAA
1 ATATTTTTAAAATATATATTTGAA
817175 ATATTATTT-AAATATATA
1 ATATT-TTTAAAATATATA
817193 AAAATTTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 25 0.69
25 3 0.08
26 8 0.22
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (24 bp):
ATATTTTTAAAATATATATTTGAA
Found at i:822523 original size:16 final size:16
Alignment explanation
Indices: 822502--822542 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
822492 GGTAAGCTTC
822502 TTCTTTTTCTTTTCTT
1 TTCTTTTTCTTTTCTT
* *
822518 TTCTTTTTTTTTTTTT
1 TTCTTTTTCTTTTCTT
822534 TTCATTTTT
1 TTC-TTTTT
822543 TGCTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.85
Consensus pattern (16 bp):
TTCTTTTTCTTTTCTT
Found at i:822866 original size:20 final size:19
Alignment explanation
Indices: 822830--822868 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
822820 TTTTTTATTG
*
822830 AATTAATTCAAATAAAAAT
1 AATTAATTCAAAAAAAAAT
*
822849 AATTCAATTTAAAAAAAAAT
1 AATT-AATTCAAAAAAAAAT
822869 TAATGCTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
AATTAATTCAAAAAAAAAT
Found at i:825044 original size:2 final size:2
Alignment explanation
Indices: 825037--825073 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
825027 CTACCAACCT
825037 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
825074 TTCGGACAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:826607 original size:14 final size:16
Alignment explanation
Indices: 826578--826611 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
826568 ATTAGTTAAC
826578 AAAATTTATATAATAT
1 AAAATTTATATAATAT
826594 AAAATTT-T-TAATAT
1 AAAATTTATATAATAT
826608 AAAA
1 AAAA
826612 ATAATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.56
15 1 0.06
16 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAATTTATATAATAT
Found at i:826642 original size:25 final size:25
Alignment explanation
Indices: 826581--826646 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
826571 AGTTAACAAA
*
826581 ATTTATATAATATAA-AATTTTTAAT
1 ATTTATATAA-ATAATAAATTTTAAT
** *
826606 ATAAAAAT-AATAATAAATTTTAAT
1 ATTTATATAAATAATAAATTTTAAT
826630 ATTTATATAAAT-ATAAA
1 ATTTATATAAATAATAAA
826647 AATAAATAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
23 4 0.12
24 20 0.62
25 8 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
ATTTATATAAATAATAAATTTTAAT
Found at i:826880 original size:17 final size:17
Alignment explanation
Indices: 826858--826925 Score: 75
Period size: 17 Copynumber: 4.1 Consensus size: 17
826848 TAACAACTAC
*
826858 ACATATCAAAATCATTA
1 ACATATCAAAATTATTA
826875 ACATATCAAAATTATT-
1 ACATATCAAAATTATTA
***
826891 GTGTATCAAAATTATTA
1 ACATATCAAAATTATTA
* *
826908 ACTTATCAAAATTTTTA
1 ACATATCAAAATTATTA
826925 A
1 A
826926 ATTATAAAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
16 13 0.31
17 29 0.69
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (17 bp):
ACATATCAAAATTATTA
Found at i:826930 original size:17 final size:17
Alignment explanation
Indices: 826861--826935 Score: 68
Period size: 17 Copynumber: 4.5 Consensus size: 17
826851 CAACTACACA
*
826861 TATCAAAATCATTAACA-
1 TATCAAAATTATTAA-AT
*
826878 TATCAAAATTATT--GT
1 TATCAAAATTATTAAAT
*
826893 GTATCAAAATTATTAACT
1 -TATCAAAATTATTAAAT
*
826911 TATCAAAATTTTTAAAT
1 TATCAAAATTATTAAAT
826928 TAT-AAAAT
1 TATCAAAAT
826936 ACATTTACCG
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
16 18 0.37
17 30 0.61
18 1 0.02
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.40
Consensus pattern (17 bp):
TATCAAAATTATTAAAT
Found at i:827984 original size:27 final size:26
Alignment explanation
Indices: 827948--828000 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
827938 GTATCAGCAG
827948 GTTCATGTTACAG-TAAGTTCAGTGTT
1 GTTCATGTTACAGTTAAGTTCA-TGTT
*
827974 GTTCAGTGTTACTGTTAAGTTCATGTT
1 GTTCA-TGTTACAGTTAAGTTCATGTT
828001 ATCATATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 5 0.21
27 11 0.46
28 8 0.33
ACGTcount: A:0.21, C:0.11, G:0.23, T:0.45
Consensus pattern (26 bp):
GTTCATGTTACAGTTAAGTTCATGTT
Found at i:828047 original size:43 final size:43
Alignment explanation
Indices: 827986--828078 Score: 123
Period size: 43 Copynumber: 2.2 Consensus size: 43
827976 TCAGTGTTAC
* * *
827986 TGTTAAGTTCATGTTATCATATAAATATCAGCAAGTGCAGAGT
1 TGTTAAGGTCAGGTTATCACATAAATATCAGCAAGTGCAGAGT
* * * *
828029 TGTTAAGGTCAGGTTATCACATAAGTATCAGCATGTTCAGTGT
1 TGTTAAGGTCAGGTTATCACATAAATATCAGCAAGTGCAGAGT
828072 TGTTAAG
1 TGTTAAG
828079 TATTGGCCTC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (43 bp):
TGTTAAGGTCAGGTTATCACATAAATATCAGCAAGTGCAGAGT
Found at i:828961 original size:13 final size:13
Alignment explanation
Indices: 828943--828968 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
828933 GATATCAAGC
828943 CCAAGAACATATA
1 CCAAGAACATATA
828956 CCAAGAACATATA
1 CCAAGAACATATA
828969 GAAAAGGCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.23, G:0.08, T:0.15
Consensus pattern (13 bp):
CCAAGAACATATA
Found at i:829035 original size:2 final size:2
Alignment explanation
Indices: 829028--829080 Score: 81
Period size: 2 Copynumber: 26.5 Consensus size: 2
829018 TTACCCTCTT
*
829028 TA TA TA TA TA TA TA GA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
829070 T- TCA TA TA TA T
1 TA T-A TA TA TA T
829081 CTGCAAGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
1 1 0.02
2 45 0.96
3 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:835138 original size:21 final size:21
Alignment explanation
Indices: 835112--835156 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
835102 TATACATGTT
835112 ATACGACTAAATAGTTTGAGG
1 ATACGACTAAATAGTTTGAGG
835133 ATACGACTAAATAGTTTGAGG
1 ATACGACTAAATAGTTTGAGG
835154 ATA
1 ATA
835157 TTATATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (21 bp):
ATACGACTAAATAGTTTGAGG
Found at i:836237 original size:161 final size:157
Alignment explanation
Indices: 835971--836289 Score: 451
Period size: 161 Copynumber: 2.0 Consensus size: 157
835961 ATAACGATAA
*
835971 ATTTGTGAACATCCTTAACAAAGAATATGATTTAAATAACGAATATAACATGATACAACGATCAT
1 ATTTGTGAACATCCTTAACAAAGAATATGATTTAAATAACGAATATAACATAATACAACGATCAT
* * * * *
836036 TATTTTATGATTCAAAGTTTATTCATCGTCAACTTTCATCTTAATAAGATATAAATGATTAGGGA
66 TATTTTATAATTCAAAATTTATTCATCATCAACATTCATCTTAATAAG--AT--ATGATTAGAGA
836101 TCCATAACAATTAAGTTCACTATACAAATAT
127 TCCATAACAATTAAGTTCACTATACAAATAT
* * * * **
836132 ATTTGTGGACATCCTTAACAAA-AATTATGCTTTAAATAACGAATATAACGTAATACAGCGATTG
1 ATTTGTGAACATCCTTAACAAAGAA-TATGATTTAAATAACGAATATAACATAATACAACGATCA
* *
836196 TTATTTTATAATTTAAAATTTTTTCATCATCAACATTCATCTTAATAAGATATGATTAGAGATCC
65 TTATTTTATAATTCAAAATTTATTCATCATCAACATTCATCTTAATAAGATATGATTAGAGATCC
*
836261 ATAACAATTAAGTTCACTTTACAAATAT
130 ATAACAATTAAGTTCACTATACAAATAT
836289 A
1 A
836290 AACATATATA
Statistics
Matches: 142, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
157 41 0.29
159 2 0.01
160 2 0.01
161 97 0.68
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.36
Consensus pattern (157 bp):
ATTTGTGAACATCCTTAACAAAGAATATGATTTAAATAACGAATATAACATAATACAACGATCAT
TATTTTATAATTCAAAATTTATTCATCATCAACATTCATCTTAATAAGATATGATTAGAGATCCA
TAACAATTAAGTTCACTATACAAATAT
Found at i:836369 original size:56 final size:56
Alignment explanation
Indices: 836283--836408 Score: 138
Period size: 55 Copynumber: 2.3 Consensus size: 56
836273 TTCACTTTAC
* *
836283 AAATATAAACA-TAT-ATATATAAATTTAATTTATAATT-TATAAATAAT-TTTTTTAT
1 AAATATAAATATTATAATATATAAATTTAATTTA-AATTAT-TAAA-AATATTTTTAAT
836338 AAATA-AAATATTATAATATCATAAA-TTAATTTAAATTATTAAAAATATTTTTAAT
1 AAATATAAATATTATAATAT-ATAAATTTAATTTAAATTATTAAAAATATTTTTAAT
* *
836393 AATTATAATTATTATA
1 AAATATAAATATTATA
836409 TTTTATCATT
Statistics
Matches: 61, Mismatches: 4, Indels: 11
0.80 0.05 0.14
Matches are distributed among these distances:
54 7 0.11
55 27 0.44
56 22 0.36
57 5 0.08
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (56 bp):
AAATATAAATATTATAATATATAAATTTAATTTAAATTATTAAAAATATTTTTAAT
Found at i:836470 original size:23 final size:23
Alignment explanation
Indices: 836419--836476 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
836409 TTTTATCATT
* *
836419 AATTTTAAAAATAAAAGAAAATT
1 AATTATAAAAATAAAAGAAAATA
*
836442 AA-TATAAAAATAAATATAAAA-A
1 AATTATAAAAATAAA-AGAAAATA
*
836464 AATTATAATAATA
1 AATTATAAAAATA
836477 TTTATTAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 13 0.45
23 16 0.55
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (23 bp):
AATTATAAAAATAAAAGAAAATA
Found at i:840039 original size:2 final size:2
Alignment explanation
Indices: 840032--840058 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
840022 GATAAATGGC
840032 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
840059 GTAAACTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:840455 original size:2 final size:2
Alignment explanation
Indices: 840443--840481 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
840433 ATGCAAAACT
*
840443 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
840482 TTGTAGATTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:840835 original size:48 final size:51
Alignment explanation
Indices: 840783--840887 Score: 114
Period size: 47 Copynumber: 2.1 Consensus size: 51
840773 TTTTCTCTTT
* *
840783 TCTTATATGT-GAAAA-TTCTATTAGATTTGAAT-AAA-TTAGATGATTCTC
1 TCTTATATGTACAAAATTTC-ATTAGATTTGAATAAAAGTTAGACGATTCTC
*
840831 TC-T-TATGTACAAAATTTCATTGGATTTGAATAAAAAAGTTAGACGATTCTC
1 TCTTATATGTACAAAATTTCATTAGATTTGAAT--AAAAGTTAGACGATTCTC
840882 TCTTAT
1 TCTTAT
840888 GTACGTAGAT
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
46 5 0.11
47 17 0.37
48 5 0.11
50 3 0.07
51 14 0.30
52 1 0.02
53 1 0.02
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (51 bp):
TCTTATATGTACAAAATTTCATTAGATTTGAATAAAAGTTAGACGATTCTC
Found at i:841055 original size:36 final size:32
Alignment explanation
Indices: 840982--841047 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
840972 ATTCAACTTG
*
840982 AATTATAATTTAAATAATAAAAAAATTATTTA
1 AATTTTAATTTAAATAATAAAAAAATTATTTA
841014 AATTTTAATTATAAATAATAATATAAAATTATTT
1 AATTTTAATT-TAAATAATAA-A-AAAATTATTT
841048 TTAATTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 9 0.30
33 10 0.33
34 1 0.03
35 10 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (32 bp):
AATTTTAATTTAAATAATAAAAAAATTATTTA
Found at i:842681 original size:57 final size:55
Alignment explanation
Indices: 842562--842668 Score: 128
Period size: 56 Copynumber: 1.9 Consensus size: 55
842552 ATACGCATAT
* * *
842562 ATATATATATATATAAATTAAATTTATAATTTATGAATAATTTTTTTATAAATAAA
1 ATAT-TATATATATAAATTAAATTTATAAATTATGAAAAATTTTTTAATAAATAAA
*
842618 ATATTATAGTATCATAAATT-AATTTA-AAATTATTAAAAATATTTTTAATAA
1 ATATTATA-TAT-ATAAATTAAATTTATAAATTATGAAAAAT-TTTTTAATAA
842669 TTATAATTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
55 15 0.34
56 22 0.50
57 7 0.16
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (55 bp):
ATATTATATATATAAATTAAATTTATAAATTATGAAAAATTTTTTAATAAATAAA
Found at i:842728 original size:12 final size:12
Alignment explanation
Indices: 842711--842751 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
842701 AAAATAAAAG
842711 AAAATAAATATA
1 AAAATAAATATA
842723 AAAATAAATATA
1 AAAATAAATATA
*
842735 AAAA-AATTATA
1 AAAATAAATATA
*
842746 ATAATA
1 AAAATA
842752 TTATTAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 9 0.35
12 17 0.65
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
AAAATAAATATA
Found at i:842737 original size:23 final size:22
Alignment explanation
Indices: 842693--842751 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
842683 TTTTATAATT
842693 AATTATACAAAATAAAAGAAAATA
1 AATTATA-AAAATAAAAGAAAA-A
*
842717 AA-TATAAAAATAAATATAAAAA
1 AATTATAAAAATAAA-AGAAAAA
*
842739 AATTATAATAATA
1 AATTATAAAAATA
842752 TTATTAAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 11 0.35
23 18 0.58
24 2 0.06
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (22 bp):
AATTATAAAAATAAAAGAAAAA
Found at i:852770 original size:91 final size:91
Alignment explanation
Indices: 852651--852841 Score: 346
Period size: 91 Copynumber: 2.1 Consensus size: 91
852641 TTAATGAAGT
*
852651 TAATACATATACTCATGTGTTTTACAAAATAATAATATAAGTACGTATTTGAATCAAATTTTTTT
1 TAATACATATACTCATGTGTTTTACAAAATAATAATATAAGTACATATTTGAATCAAATTTTTTT
852716 CTTAATATTCAATTAAAAAAATAATA
66 CTTAATATTCAATTAAAAAAATAATA
* *
852742 TAATACATATTCTCATGTGTTTTACAAAATAATAATATAAGTACATATTTGAATCAATTTTTTTT
1 TAATACATATACTCATGTGTTTTACAAAATAATAATATAAGTACATATTTGAATCAAATTTTTTT
*
852807 CTTAATATTCAATTAAAAAAATGATA
66 CTTAATATTCAATTAAAAAAATAATA
852833 TAATACATA
1 TAATACATA
852842 GGCCATTTAT
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 96 1.00
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (91 bp):
TAATACATATACTCATGTGTTTTACAAAATAATAATATAAGTACATATTTGAATCAAATTTTTTT
CTTAATATTCAATTAAAAAAATAATA
Found at i:861196 original size:24 final size:24
Alignment explanation
Indices: 861169--861243 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
861159 AAAATATAAA
*
861169 AATATTTAAAAATTTATTTAT-ATT
1 AATATTTAAATATTT-TTTATAATT
*
861193 AATATTTATATA-TTTTTATAATT
1 AATATTTAAATATTTTTTATAATT
*
861216 AA-ATTTAAATATTTTTTAATAATA
1 AATATTTAAATATTTTTT-ATAATT
861240 AATA
1 AATA
861244 ATAATTCAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
22 13 0.30
23 12 0.28
24 17 0.40
25 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
AATATTTAAATATTTTTTATAATT
Found at i:864393 original size:12 final size:13
Alignment explanation
Indices: 864355--864397 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
864345 CTAAATTCGG
*
864355 TATATTTGTATAT
1 TATATTTTTATAT
864368 TCATATTTTT-TAT
1 T-ATATTTTTATAT
864381 TAT-TTTTTATAT
1 TATATTTTTATAT
864393 TATAT
1 TATAT
864398 ATTATTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
11 5 0.19
12 8 0.31
13 6 0.23
14 7 0.27
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (13 bp):
TATATTTTTATAT
Found at i:868306 original size:21 final size:22
Alignment explanation
Indices: 868292--868341 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
868282 AATTTTTAAT
868292 TATTTATAAAAAATTTAGTTATA
1 TATTTATAAAAAATTTA-TTATA
*
868315 TATTTATAAATATATTTATT-TA
1 TATTTATAAA-AAATTTATTATA
868337 -ATTTA
1 TATTTA
868342 AGTTAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 5 0.20
22 2 0.08
23 12 0.48
24 6 0.24
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TATTTATAAAAAATTTATTATA
Found at i:868371 original size:24 final size:25
Alignment explanation
Indices: 868337--868383 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
868327 TATTTATTTA
* *
868337 ATTTAAGTT-AATAAATTTAAATAC
1 ATTTAACTTAAATAAATTAAAATAC
868361 ATTTAACTTAAATAAATTAAAAT
1 ATTTAACTTAAATAAATTAAAAT
868384 TAAATATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (25 bp):
ATTTAACTTAAATAAATTAAAATAC
Found at i:869092 original size:12 final size:11
Alignment explanation
Indices: 869075--869123 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
869065 TTTTAATTTA
*
869075 AATTTTAAAAT
1 AATTTTTAAAT
*
869086 AATTTTTTAAT
1 AATTTTTAAAT
869097 ATATTTTT-AAT
1 A-ATTTTTAAAT
869108 AATATTTTAAAT
1 AAT-TTTTAAAT
869120 AATT
1 AATT
869124 AATATAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 2 0.06
11 19 0.58
12 12 0.36
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
AATTTTTAAAT
Found at i:869111 original size:25 final size:24
Alignment explanation
Indices: 869063--869115 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
869053 ATAAGATAGT
*
869063 TTTTTTAATTTAAATTTTAAAATAA
1 TTTTTTAATATAAATTTTAAAAT-A
*
869088 TTTTTTAATAT-ATTTTTAATAATA
1 TTTTTTAATATAAATTTTAA-AATA
869112 TTTT
1 TTTT
869116 AAATAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTTTAATATAAATTTTAAAATA
Found at i:869417 original size:33 final size:37
Alignment explanation
Indices: 869379--869456 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 37
869369 TTAAATTTAG
869379 ATAAAT-TTAGTTT-TTAAAATTA-TTATTTAAAA-A-
1 ATAAATATT-GTTTATTAAAATTATTTATTTAAAATAT
* *
869412 ATAAATATTTTTTATTAAATTTATTTATTTAAAATAT
1 ATAAATATTGTTTATTAAAATTATTTATTTAAAATAT
869449 ATAAATAT
1 ATAAATAT
869457 AATTAAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
33 9 0.24
34 10 0.26
35 10 0.26
36 1 0.03
37 8 0.21
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (37 bp):
ATAAATATTGTTTATTAAAATTATTTATTTAAAATAT
Found at i:869989 original size:18 final size:18
Alignment explanation
Indices: 869976--870020 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 18
869966 TGATAACTTT
869976 AAAAATCAATATAATTTCA
1 AAAAATCAATATAATTT-A
*
869995 AAAAATTAATATAATATTA
1 AAAAATCAATATAAT-TTA
870014 AACAAAT
1 AA-AAAT
870021 TCAAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAATCAATATAATTTA
Found at i:870289 original size:18 final size:18
Alignment explanation
Indices: 870244--870291 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
870234 TTACATAATG
*
870244 TTAAA-TAT-TAATATAT
1 TTAAATTATATAAAATAT
*
870260 TATAATTTATATAAAATAT
1 T-TAAATTATATAAAATAT
870279 TTAAATTATATAA
1 TTAAATTATATAA
870292 TATGTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 1 0.04
17 3 0.12
18 14 0.54
19 8 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TTAAATTATATAAAATAT
Found at i:870569 original size:7 final size:7
Alignment explanation
Indices: 870557--870614 Score: 64
Period size: 7 Copynumber: 8.0 Consensus size: 7
870547 ATTATAATAA
870557 ATATTTT
1 ATATTTT
870564 ATATTTT
1 ATATTTT
870571 CA-ATTTAT
1 -ATATTT-T
870579 ATATTATT
1 ATATT-TT
* *
870587 AAATTTA
1 ATATTTT
870594 ATATTTT
1 ATATTTT
870601 ATATTTT
1 ATATTTT
870608 ATATTTT
1 ATATTTT
870615 TAAAATTATA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
7 32 0.74
8 10 0.23
9 1 0.02
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (7 bp):
ATATTTT
Found at i:870593 original size:29 final size:28
Alignment explanation
Indices: 870561--870624 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
870551 TAATAAATAT
870561 TTTATATTTTCA-ATTTATATATTATTAAA
1 TTTATATTTT-ATATTT-TATATTATTAAA
*
870590 TTTAATATTTTATATTTTATATTTTTAAA
1 TTT-ATATTTTATATTTTATATTATTAAA
*
870619 ATTATA
1 TTTATA
870625 ATAAATATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 3 0.10
29 17 0.55
30 11 0.35
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTATATTTTATATTTTATATTATTAAA
Found at i:870637 original size:18 final size:17
Alignment explanation
Indices: 870614--870653 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
870604 TTTTATATTT
870614 TTAAAATTATAATAAATA
1 TTAAAATTATAA-AAATA
*
870632 TTAAAAATTATTAAAATA
1 TT-AAAATTATAAAAATA
870650 TTAA
1 TTAA
870654 TAAAATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 2 0.10
18 9 0.45
19 9 0.45
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TTAAAATTATAAAAATA
Found at i:871668 original size:22 final size:22
Alignment explanation
Indices: 871624--871693 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
871614 GCGGTTTAAA
*
871624 ATTT-TTTAAAATTAAA--ATT
1 ATTTATTTAAATTTAAATTATT
*
871643 -TTTATTT-AATTTAATTTATT
1 ATTTATTTAAATTTAAATTATT
871663 AATTTATTTAAATTTAAATTATT
1 -ATTTATTTAAATTTAAATTATT
871686 ATTTATTT
1 ATTTATTT
871694 TATTAAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
18 9 0.21
19 3 0.07
20 3 0.07
22 15 0.36
23 12 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
ATTTATTTAAATTTAAATTATT
Found at i:871684 original size:23 final size:21
Alignment explanation
Indices: 871643--871707 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
871633 AATTAAAATT
*
871643 TTTATTTAATTTAATTTATTAA
1 TTTATTTAATTTAAATTATT-A
871665 TTTATTTAAATTTAAATTATTA
1 TTTATTT-AATTTAAATTATTA
* * *
871687 TTTATTTTATTAAAAATATTA
1 TTTATTTAATTTAAATTATTA
871708 AAATATTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 11 0.29
22 15 0.39
23 12 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTATTTAATTTAAATTATTA
Found at i:871709 original size:29 final size:27
Alignment explanation
Indices: 871672--871727 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 27
871662 TAATTTATTT
* *
871672 AAATTTAAATTATTATTTATTTTATTAA
1 AAATTTAAAATATTATTT-TTATATTAA
871700 AAATATTAAAATATTATTTTTATATTAA
1 AAAT-TTAAAATATTATTTTTATATTAA
871728 TATTTTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
AAATTTAAAATATTATTTTTATATTAA
Found at i:871857 original size:13 final size:14
Alignment explanation
Indices: 871834--871872 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
871824 ATATATTAAT
871834 AATTAATAAAATAA
1 AATTAATAAAATAA
871848 AATT-ATAAAATAA
1 AATTAATAAAATAA
* *
871861 ATTTAATTAAAT
1 AATTAATAAAAT
871873 TTAAATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATTAATAAAATAA
Found at i:871928 original size:17 final size:17
Alignment explanation
Indices: 871906--871952 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
871896 TAAAAAGGAC
*
871906 TTATTTTCTAAATAAAT
1 TTATTTTTTAAATAAAT
** *
871923 TTATTTTTTACTTAATT
1 TTATTTTTTAAATAAAT
871940 TTATTTTTTAAAT
1 TTATTTTTTAAAT
871953 CTATATATAC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTTTTTAAATAAAT
Found at i:872708 original size:2 final size:2
Alignment explanation
Indices: 872701--872777 Score: 93
Period size: 2 Copynumber: 39.0 Consensus size: 2
872691 TATTACTCGG
** *
872701 AT AT AT AT AT AT -T AT AT GC AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
872742 AT AT AT AT AC AT GT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
872778 GTGTTTGTGT
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
1 1 0.02
2 61 0.98
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:873572 original size:3 final size:3
Alignment explanation
Indices: 873564--873605 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
873554 GAGAAACACA
873564 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG
873606 CGAGTGTGGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (3 bp):
TGG
Found at i:875624 original size:25 final size:27
Alignment explanation
Indices: 875593--875659 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 27
875583 AAGATATTAG
875593 ATTAAAAAATATA-TAATAA-TAAATA
1 ATTAAAAAATATATTAATAATTAAATA
* *
875618 ATT-AAAATTATATTTATAATTAAATA
1 ATTAAAAAATATATTAATAATTAAATA
* *
875644 A-TAAAATATAAATTAA
1 ATTAAAAAATATATTAA
875660 AAACATATTA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
24 8 0.24
25 9 0.27
26 16 0.48
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (27 bp):
ATTAAAAAATATATTAATAATTAAATA
Found at i:875655 original size:40 final size:38
Alignment explanation
Indices: 875599--875724 Score: 110
Period size: 34 Copynumber: 3.5 Consensus size: 38
875589 TTAGATTAAA
875599 AAATATATAATAATA-AATAATTAAAATTATATTTATAATT
1 AAATA-ATAA-AATATAATAATTAAAATTATATTTAT-ATT
** * *
875639 AAATAATAAAATAT-A-AATTAAAAACATATTAATGTT
1 AAATAATAAAATATAATAATTAAAATTATATTTATATT
*
875675 AAAT-A-AAAAT-TAATTATT-AAATTATATTTATATT
1 AAATAATAAAATATAATAATTAAAATTATATTTATATT
875709 AAA-AAT-AAAT-TAATAA
1 AAATAATAAAATATAATAA
875725 ACTTCATTTA
Statistics
Matches: 71, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
33 1 0.01
34 31 0.44
35 4 0.06
36 6 0.08
37 15 0.21
38 5 0.07
39 4 0.06
40 5 0.07
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.39
Consensus pattern (38 bp):
AAATAATAAAATATAATAATTAAAATTATATTTATATT
Found at i:875715 original size:36 final size:34
Alignment explanation
Indices: 875607--875717 Score: 102
Period size: 36 Copynumber: 3.2 Consensus size: 34
875597 AAAAATATAT
875607 AATAATAAA-TAATTAAAATTATATTTATAATTAAA
1 AATAA-AAATTAATTAAAATTATATTTAT-ATTAAA
* ** * *
875642 TAATAAAATATAAATTAAAAACATATTAATGTT--A
1 -AATAAAA-ATTAATTAAAATTATATTTATATTAAA
875676 AATAAAAATTAATTATTAAATTATATTTATATTAAA
1 AATAAAAATTAATTA--AAATTATATTTATATTAAA
875712 AATAAA
1 AATAAA
875718 TTAATAAACT
Statistics
Matches: 59, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
32 7 0.12
33 7 0.12
34 13 0.22
35 2 0.03
36 15 0.25
37 15 0.25
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (34 bp):
AATAAAAATTAATTAAAATTATATTTATATTAAA
Found at i:875734 original size:30 final size:30
Alignment explanation
Indices: 875678--875734 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
875668 TAATGTTAAA
* * *
875678 TAAAAATTAATTATTAAATTATATTTATAT
1 TAAAAATAAATTAATAAATTACATTTATAT
875708 TAAAAATAAATTAATAAACTT-CATTTA
1 TAAAAATAAATTAATAAA-TTACATTTA
875735 AATAATCCTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 21 0.91
31 2 0.09
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (30 bp):
TAAAAATAAATTAATAAATTACATTTATAT
Found at i:876002 original size:14 final size:15
Alignment explanation
Indices: 875973--876013 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
875963 TTAATCATTC
875973 AAAAATTATAAATTA
1 AAAAATTATAAATTA
*
875988 AAAAATTA-AACTTA
1 AAAAATTATAAATTA
876002 AAAAATTGATAA
1 AAAAATT-ATAA
876014 CTAATTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 12 0.52
15 9 0.39
16 2 0.09
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (15 bp):
AAAAATTATAAATTA
Found at i:876578 original size:20 final size:20
Alignment explanation
Indices: 876533--876584 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
876523 AATATTATCG
876533 AATTTT-AATTTTTGATAAAA
1 AATTTTAAATTTTT-ATAAAA
876553 AA-TTTAAATTTTT-TAAAA
1 AATTTTAAATTTTTATAAAA
*
876571 TAATTTTATATTTT
1 -AATTTTAAATTTT
876585 ATTCAAAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 5 0.18
19 5 0.18
20 18 0.64
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
AATTTTAAATTTTTATAAAA
Found at i:878709 original size:16 final size:17
Alignment explanation
Indices: 878685--878728 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
878675 TTTTATTTAA
* *
878685 ATTTAAATATATAAT-T
1 ATTTTAATATAAAATAT
878701 ATTTTAATATAAAATAAT
1 ATTTTAATATAAAAT-AT
878719 ATTTTAATAT
1 ATTTTAATAT
878729 TATTATCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 13 0.54
18 11 0.46
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTTAATATAAAATAT
Found at i:879732 original size:32 final size:32
Alignment explanation
Indices: 879695--879755 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
879685 TTAATATTTT
*
879695 ATTTTAATCCATAGCCTT-TAAAAATTATTATC
1 ATTTTAATCCATA-ACTTCTAAAAATTATTATC
879727 ATTTTAATCCATAACTTCTAAAAATTATT
1 ATTTTAATCCATAACTTCTAAAAATTATT
879756 TTTACCATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 3 0.11
32 24 0.89
ACGTcount: A:0.39, C:0.15, G:0.02, T:0.44
Consensus pattern (32 bp):
ATTTTAATCCATAACTTCTAAAAATTATTATC
Found at i:881061 original size:2 final size:2
Alignment explanation
Indices: 881050--881082 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
881040 TTACACTACT
*
881050 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
881083 AACAATACCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:881355 original size:5 final size:6
Alignment explanation
Indices: 881338--881372 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
881328 AATATTTTAC
881338 ATAAAA ATAAAA ATAAAAA TATAAAA ATAAAA ATA
1 ATAAAA ATAAAA AT-AAAA -ATAAAA ATAAAA ATA
881373 TAATTATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 17 0.63
7 8 0.30
8 2 0.07
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
ATAAAA
Found at i:881363 original size:14 final size:14
Alignment explanation
Indices: 881340--881375 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
881330 TATTTTACAT
881340 AAAA-ATAAAAATA
1 AAAATATAAAAATA
881353 AAAATATAAAAATA
1 AAAATATAAAAATA
881367 AAAATATAA
1 AAAATATAA
881376 TTATTTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATATAAAAATA
Found at i:881617 original size:15 final size:16
Alignment explanation
Indices: 881582--881611 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
881572 TTTTTAATTT
881582 TTTAATATAAATTTAA
1 TTTAATATAAATTTAA
881598 TTTAAT-TAAATTTA
1 TTTAATATAAATTTA
881612 TATTAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTAATATAAATTTAA
Found at i:905125 original size:29 final size:30
Alignment explanation
Indices: 905002--905143 Score: 200
Period size: 30 Copynumber: 4.8 Consensus size: 30
904992 CTTTGAAGGT
**
905002 TGCCACTGACTTGTGGGCTTTT-AAAGGT-
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
905030 TGCCACTGACTTGTGGGCTTTTGAAAAATA
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
***
905060 TGCCACTGACTTGTGGGCTTTTGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
*
905090 TGCCACTAACTTGTGGGCTTTT-AAAAATA
1 TGCCACTGACTTGTGGGCTTTTGAAAAATA
*
905119 TGCCACTGACTTGTGGACTTTTGAA
1 TGCCACTGACTTGTGGGCTTTTGAA
905144 GGGTGATAAA
Statistics
Matches: 100, Mismatches: 11, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
28 22 0.22
29 28 0.28
30 50 0.50
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (30 bp):
TGCCACTGACTTGTGGGCTTTTGAAAAATA
Found at i:905140 original size:59 final size:60
Alignment explanation
Indices: 905002--905143 Score: 236
Period size: 59 Copynumber: 2.4 Consensus size: 60
904992 CTTTGAAGGT
* *
905002 TGCCACTGACTTGTGGGCTTTT--AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATA
1 TGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAATA
905060 TGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTT-AAAAATA
1 TGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAATA
*
905119 TGCCACTGACTTGTGGACTTTTGAA
1 TGCCACTGACTTGTGGGCTTTTGAA
905144 GGGTGATAAA
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
58 22 0.28
59 31 0.39
60 26 0.33
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (60 bp):
TGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAATA
Found at i:906586 original size:1 final size:1
Alignment explanation
Indices: 906582--906680 Score: 63
Period size: 1 Copynumber: 99.0 Consensus size: 1
906572 CCGGACCCCC
* * * * * ** ** * *
906582 TTTTTTGTTTTTGTTTATTTTTTTTGTTTTTGTTTTTGGTTTTTTTTTTGGTTGTTTTTTTTGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
906647 TTTTTTGTTTTTTTTTTGTTTTGTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
906681 GGAGGACACC
Statistics
Matches: 72, Mismatches: 26, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 72 1.00
ACGTcount: A:0.01, C:0.00, G:0.14, T:0.85
Consensus pattern (1 bp):
T
Found at i:906604 original size:19 final size:19
Alignment explanation
Indices: 906582--906680 Score: 123
Period size: 19 Copynumber: 5.3 Consensus size: 19
906572 CCGGACCCCC
*
906582 TTTTTTGTTTTTGTTTATT
1 TTTTTTGTTTTTGTTTGTT
906601 TTTTTTGTTTTTGTTT-TT
1 TTTTTTGTTTTTGTTTGTT
* *
906619 GGTTTTT-TTTTTGGTTGTT
1 -TTTTTTGTTTTTGTTTGTT
906638 TTTTTTGTTTTT-TTTGTT
1 TTTTTTGTTTTTGTTTGTT
*
906656 TTTTTTTTGTTTTGTTTGTT
1 TTTTTTGT-TTTTGTTTGTT
906676 TTTTT
1 TTTTT
906681 GGAGGACACC
Statistics
Matches: 70, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
18 27 0.39
19 32 0.46
20 11 0.16
ACGTcount: A:0.01, C:0.00, G:0.14, T:0.85
Consensus pattern (19 bp):
TTTTTTGTTTTTGTTTGTT
Found at i:906611 original size:25 final size:24
Alignment explanation
Indices: 906583--906681 Score: 112
Period size: 25 Copynumber: 4.0 Consensus size: 24
906573 CGGACCCCCT
906583 TTTTTGTTTTTGTTTATTTTTTTTG
1 TTTTTGTTTTTGTTT-TTTTTTTTG
*
906608 TTTTTGTTTTTGGTTTTTTTTTTGG
1 TTTTTGTTTTT-GTTTTTTTTTTTG
906633 TTGTTT-TTTTTGTTTTTTTTGTTT-
1 TT-TTTGTTTTTGTTTTTTTT-TTTG
* *
906657 TTTTTTTGTTTTGTTTGTTTTTTTG
1 TTTTTGT-TTTTGTTTTTTTTTTTG
906682 GAGGACACCG
Statistics
Matches: 65, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
23 3 0.05
24 15 0.23
25 40 0.62
26 7 0.11
ACGTcount: A:0.01, C:0.00, G:0.15, T:0.84
Consensus pattern (24 bp):
TTTTTGTTTTTGTTTTTTTTTTTG
Found at i:906640 original size:34 final size:31
Alignment explanation
Indices: 906582--906680 Score: 105
Period size: 33 Copynumber: 3.1 Consensus size: 31
906572 CCGGACCCCC
*
906582 TTTTTT-GTTTTTGTTTAT-TTTTTTTGTTTT
1 TTTTTTGGTTTTT-TTTTTGTTTTTTTGTTTT
906612 TGTTTTTGGTTTTTTTTTTGGTTGTTTTT-TTTGT
1 T-TTTTTGGTTTTTTTTTT-GTT-TTTTTGTTT-T
*
906646 TTTTTTTGTTTTTTTTTTGTTTTGTTTGTTTT
1 TTTTTTGGTTTTTTTTTTGTTTT-TTTGTTTT
906678 TTT
1 TTT
906681 GGAGGACACC
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
30 1 0.02
31 11 0.19
32 16 0.27
33 24 0.41
34 7 0.12
ACGTcount: A:0.01, C:0.00, G:0.14, T:0.85
Consensus pattern (31 bp):
TTTTTTGGTTTTTTTTTTGTTTTTTTGTTTT
Found at i:906640 original size:37 final size:37
Alignment explanation
Indices: 906583--906680 Score: 126
Period size: 37 Copynumber: 2.6 Consensus size: 37
906573 CGGACCCCCT
*
906583 TTTTTGTTTTTGTTTATTTTTTTTGTTTTTGTTT-TTGG
1 TTTTT-TTTTTGTTTGTTTTTTTTGTTTTT-TTTGTTGG
* **
906621 TTTTTTTTTTGGTTGTTTTTTTTGTTTTTTTTGTTTT
1 TTTTTTTTTTGTTTGTTTTTTTTGTTTTTTTTGTTGG
906658 TTTTTTGTTTTGTTTGTTTTTTT
1 TTTTTT-TTTTGTTTGTTTTTTT
906681 GGAGGACACC
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
36 3 0.06
37 30 0.57
38 20 0.38
ACGTcount: A:0.01, C:0.00, G:0.14, T:0.85
Consensus pattern (37 bp):
TTTTTTTTTTGTTTGTTTTTTTTGTTTTTTTTGTTGG
Found at i:906681 original size:12 final size:11
Alignment explanation
Indices: 906583--906680 Score: 96
Period size: 13 Copynumber: 8.6 Consensus size: 11
906573 CGGACCCCCT
906583 TTTTTGTTTTTG
1 TTTTT-TTTTTG
906595 TTTATTTTTTTTG
1 -TT-TTTTTTTTG
906608 TTTTTGTTTTTGG
1 TTTTT-TTTTT-G
906621 TTTTTTTTTTGG
1 TTTTTTTTTT-G
906633 TTGTTTTTTTTG
1 TT-TTTTTTTTG
906645 --TTTTTTTTG
1 TTTTTTTTTTG
906654 TTTTTTTTTTG
1 TTTTTTTTTTG
*
906665 --TTTTGTTTG
1 TTTTTTTTTTG
906674 TTTTTTT
1 TTTTTTT
906681 GGAGGACACC
Statistics
Matches: 75, Mismatches: 2, Indels: 18
0.79 0.02 0.19
Matches are distributed among these distances:
9 17 0.23
11 16 0.21
12 17 0.23
13 22 0.29
14 3 0.04
ACGTcount: A:0.01, C:0.00, G:0.14, T:0.85
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:914552 original size:20 final size:20
Alignment explanation
Indices: 914524--914582 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
914514 AAGTTAGGTA
914524 AAAAAGAAAGAAAGAAAATG
1 AAAAAGAAAGAAAGAAAATG
* *
914544 AAGAAGAAAGAAAGAAAAAG
1 AAAAAGAAAGAAAGAAAATG
* *
914564 AAAAAAAAAGAAAAAAAAT
1 AAAAAGAAAGAAAGAAAAT
914583 ATGAAATGGA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (20 bp):
AAAAAGAAAGAAAGAAAATG
Found at i:914565 original size:10 final size:10
Alignment explanation
Indices: 914530--914581 Score: 63
Period size: 10 Copynumber: 5.3 Consensus size: 10
914520 GGTAAAAAAG
914530 AAAGAAAGAA
1 AAAGAAAGAA
*
914540 AATG-AAGAA
1 AAAGAAAGAA
914549 GAAAGAAAGAA
1 -AAAGAAAGAA
*
914560 AAAGAAAAAA
1 AAAGAAAGAA
914570 AAAGAAA-AA
1 AAAGAAAGAA
914579 AAA
1 AAA
914582 TATGAAATGG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
9 10 0.27
10 22 0.59
11 5 0.14
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:914573 original size:16 final size:17
Alignment explanation
Indices: 914544--914578 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
914534 AAAGAAAATG
*
914544 AAGAAGAAAGAAAGAAA
1 AAGAAGAAAAAAAGAAA
914561 AAGAA-AAAAAAAGAAA
1 AAGAAGAAAAAAAGAAA
914577 AA
1 AA
914579 AAATATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAGAAGAAAAAAAGAAA
Found at i:914574 original size:24 final size:23
Alignment explanation
Indices: 914526--914576 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 23
914516 GTTAGGTAAA
*
914526 AAAGAAAGAAAGAAAATGAAGAAG
1 AAAGAAAGAAAGAAAA-GAAAAAG
914550 AAAGAAAGAAAAAGAAAA-AAAAAG
1 AAAGAAAG--AAAGAAAAGAAAAAG
914574 AAA
1 AAA
914577 AAAAATATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 16 0.67
26 8 0.33
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (23 bp):
AAAGAAAGAAAGAAAAGAAAAAG
Found at i:922465 original size:27 final size:27
Alignment explanation
Indices: 922410--922507 Score: 94
Period size: 27 Copynumber: 3.6 Consensus size: 27
922400 AAACAACATT
* * *
922410 TCACCATTTTTGATAAATA-AAAAGAAA
1 TCACTATTTTTGACAAATATAAAA-TAA
922437 TCATCT-TTTTTGACAAATATAAAATAA
1 TCA-CTATTTTTGACAAATATAAAATAA
* *
922464 TCACTATATTTGACAAACATAAAATAA
1 TCACTATTTTTGACAAATATAAAATAA
*
922491 -CTACTATATTTGACAAA
1 TC-ACTATTTTTGACAAA
922508 CAAATGGTTA
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
26 3 0.05
27 54 0.87
28 5 0.08
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (27 bp):
TCACTATTTTTGACAAATATAAAATAA
Found at i:922508 original size:27 final size:27
Alignment explanation
Indices: 922445--922509 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
922435 AATCATCTTT
*
922445 TTTGACAAATATAAAATAATCACTATA
1 TTTGACAAACATAAAATAATCACTATA
922472 TTTGACAAACATAAAATAA-CTACTATA
1 TTTGACAAACATAAAATAATC-ACTATA
922499 TTTGACAAACA
1 TTTGACAAACA
922510 AATGGTTACT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 1 0.03
27 35 0.97
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.31
Consensus pattern (27 bp):
TTTGACAAACATAAAATAATCACTATA
Found at i:923887 original size:24 final size:24
Alignment explanation
Indices: 923832--923888 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
923822 AATGCAATAT
*
923832 ATATATATT-AAATATATCGTATT
1 ATATATATTAAAATATATCGTATC
923855 A-ATCATATTAAAATATATCGTATC
1 ATAT-ATATTAAAATATATCGTATC
*
923879 ATATTTATTA
1 ATATATATTA
923889 TTTATTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 2 0.07
23 6 0.21
24 19 0.66
25 2 0.07
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.46
Consensus pattern (24 bp):
ATATATATTAAAATATATCGTATC
Found at i:936560 original size:2 final size:2
Alignment explanation
Indices: 936553--936610 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
936543 TCAGGGATGA
936553 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
936595 AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG
936611 GAATGTGACT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:938254 original size:2 final size:2
Alignment explanation
Indices: 938247--938293 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
938237 ATGTCTTATT
* * *
938247 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TG TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
938289 TA TA T
1 TA TA T
938294 TTGAGGCTGC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (2 bp):
TA
Found at i:938266 original size:14 final size:14
Alignment explanation
Indices: 938247--938293 Score: 76
Period size: 14 Copynumber: 3.4 Consensus size: 14
938237 ATGTCTTATT
*
938247 TATATATATATATA
1 TATATATATGTATA
938261 TATATATATGTATA
1 TATATATATGTATA
*
938275 TATATATATGTATG
1 TATATATATGTATA
938289 TATAT
1 TATAT
938294 TTGAGGCTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (14 bp):
TATATATATGTATA
Found at i:940552 original size:2 final size:2
Alignment explanation
Indices: 940545--940572 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
940535 ATATTCATCT
940545 AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC
940573 GTCTGCATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:942074 original size:1 final size:1
Alignment explanation
Indices: 942039--942064 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
942029 TTACATACCC
942039 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
942065 GGAAGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:942480 original size:31 final size:31
Alignment explanation
Indices: 942445--942514 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
942435 TTATAATTGA
* *
942445 TAAAATTTTATTTTTTATAATTAAAT-TTAAT
1 TAAAATTATA-TTTTAATAATTAAATATTAAT
* *
942476 TAAAAATATATTTTAATTATTAAATATTAAT
1 TAAAATTATATTTTAATAATTAAATATTAAT
*
942507 TTAAATTA
1 TAAAATTA
942515 AATCGACTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 13 0.41
31 19 0.59
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (31 bp):
TAAAATTATATTTTAATAATTAAATATTAAT
Found at i:942508 original size:20 final size:19
Alignment explanation
Indices: 942464--942516 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 19
942454 ATTTTTTATA
*
942464 ATTAAATTTAATTAAAAAT
1 ATTAATTTTAATTAAAAAT
*
942483 A-T-ATTTTAATTATTAAAT
1 ATTAATTTTAATTA-AAAAT
*
942501 ATTAATTTAAATTAAA
1 ATTAATTTTAATTAAA
942517 TCGACTTAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
17 9 0.33
18 6 0.22
19 3 0.11
20 9 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTAATTTTAATTAAAAAT
Found at i:943435 original size:25 final size:25
Alignment explanation
Indices: 943397--943464 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 25
943387 TTTATTATTA
* *
943397 ATAAAAATATAATAATATAACTT-G
1 ATAAAATTAAAATAATATAACTTAG
* *
943421 ATAAAATTAAAA-ATATATAATTTAT
1 ATAAAATTAAAATA-ATATAACTTAG
*
943446 ATAAAATTAATATAATATA
1 ATAAAATTAAAATAATATA
943465 TAATGATTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
23 1 0.03
24 18 0.50
25 16 0.44
26 1 0.03
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (25 bp):
ATAAAATTAAAATAATATAACTTAG
Found at i:948456 original size:4 final size:4
Alignment explanation
Indices: 948447--948477 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
948437 ATCACATACC
948447 TTTA TTTA TTTA TTTA TTTA TTTA TTT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
948478 AATATCACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:952691 original size:19 final size:20
Alignment explanation
Indices: 952667--952704 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
952657 TTATAACATG
952667 ATAAATATACGAA-TATCAC
1 ATAAATATACGAATTATCAC
*
952686 ATAAATATATGAATTATCA
1 ATAAATATACGAATTATCA
952705 AAATTTTCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.32
Consensus pattern (20 bp):
ATAAATATACGAATTATCAC
Found at i:954021 original size:19 final size:19
Alignment explanation
Indices: 953997--954033 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
953987 TTCATATCAT
953997 TTTCCTTT-TCTTTCTTTTA
1 TTTCCTTTCT-TTTCTTTTA
954016 TTTCCTTTCTTTTCTTTT
1 TTTCCTTTCTTTTCTTTT
954034 TCTTTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTCCTTTCTTTTCTTTTA
Found at i:954396 original size:17 final size:17
Alignment explanation
Indices: 954365--954397 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
954355 TAATACAACC
954365 TATAATTAAGTTGATTT
1 TATAATTAAGTTGATTT
954382 TATAAGTTAAG-TGATT
1 TATAA-TTAAGTTGATT
954398 ATAAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.48
Consensus pattern (17 bp):
TATAATTAAGTTGATTT
Found at i:955306 original size:22 final size:22
Alignment explanation
Indices: 955278--955321 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
955268 TATAAAATTA
*
955278 ATTTAATTATACA-TTTATATTT
1 ATTTAA-TATAAATTTTATATTT
955300 ATTTAATATAAATTTTATATTT
1 ATTTAATATAAATTTTATATTT
955322 CATGCTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTTAATATAAATTTTATATTT
Found at i:955632 original size:22 final size:21
Alignment explanation
Indices: 955576--955633 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
955566 ATTTTACACA
955576 AATATAAATTAATCTTTCAAT
1 AATATAAATTAATCTTTCAAT
* *
955597 -ATATATAACT-ATCTTTATAAT
1 AATATA-AATTAATCTTT-CAAT
955618 AATATAAATTAATCTT
1 AATATAAATTAATCTT
955634 CCCATATACT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
20 11 0.37
21 9 0.30
22 10 0.33
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.45
Consensus pattern (21 bp):
AATATAAATTAATCTTTCAAT
Found at i:960404 original size:2 final size:2
Alignment explanation
Indices: 960397--960424 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
960387 AAAGAGATGG
960397 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
960425 TTTTTTTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:965254 original size:22 final size:24
Alignment explanation
Indices: 965202--965280 Score: 76
Period size: 23 Copynumber: 3.3 Consensus size: 24
965192 ATGCTATTAA
*
965202 TTTAATTAAAGTAAA-ATTA-ATTT
1 TTTAA-TAAATTAAATATTATATTT
*
965225 TTTAAATAAA-TACATATT-TATTT
1 TTT-AATAAATTAAATATTATATTT
965248 TTTAATAAATTAAATATTATATTAT
1 TTTAATAAATTAAATATTATATT-T
*
965273 ATTAATAA
1 TTTAATAA
965281 TTATAATTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
22 9 0.19
23 24 0.51
24 6 0.13
25 8 0.17
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (24 bp):
TTTAATAAATTAAATATTATATTT
Found at i:965264 original size:23 final size:23
Alignment explanation
Indices: 965202--965294 Score: 75
Period size: 23 Copynumber: 3.9 Consensus size: 23
965192 ATGCTATTAA
* *
965202 TTTAATTAAAGTAAA-ATTAATTT
1 TTTAA-TAAATTAAATATTTATTT
*
965225 TTTAAATAAA-TACATATTTATTT
1 TTT-AATAAATTAAATATTTATTT
965248 TTTAATAAATTAAATATTATATTAT
1 TTTAATAAATTAAATATT-TATT-T
*
965273 ATTAAT-AATTATAATTATTTAT
1 TTTAATAAATTA-AA-TATTTAT
965295 AATTATTTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
22 9 0.15
23 24 0.41
24 11 0.19
25 11 0.19
26 4 0.07
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (23 bp):
TTTAATAAATTAAATATTTATTT
Found at i:966229 original size:2 final size:2
Alignment explanation
Indices: 966222--966262 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
966212 TGAAACAGTG
966222 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
966263 CTAAACCAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:966722 original size:15 final size:15
Alignment explanation
Indices: 966704--966739 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
966694 TCATATCAAT
* *
966704 ATTAAATTTTATTTA
1 ATTAAATTTAATTAA
966719 ATTAAATTTAATTAA
1 ATTAAATTTAATTAA
966734 ATTAAA
1 ATTAAA
966740 ATAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTAAATTTAATTAA
Found at i:966732 original size:25 final size:24
Alignment explanation
Indices: 966667--966736 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
966657 TTATGTCACG
966667 TATTATAATTTAATTAAATTTTATT
1 TATTA-AATTTAATTAAATTTTATT
* * **
966692 TATCATATCAATATTAAATTTTATT
1 TATTAAATTTA-ATTAAATTTTATT
966717 TAATTAAATTTAATTAAATT
1 T-ATTAAATTTAATTAAATT
966737 AAAATAATAT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
24 3 0.09
25 26 0.74
26 6 0.17
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (24 bp):
TATTAAATTTAATTAAATTTTATT
Found at i:967253 original size:21 final size:21
Alignment explanation
Indices: 967213--967253 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
967203 TTAAGTATAA
*
967213 ATATTTTTCAAGCTATAAATC
1 ATATTTTTCAAGCTAAAAATC
967234 ATATGTTTTCAAG-TAAAAAT
1 ATAT-TTTTCAAGCTAAAAAT
967254 AATCCAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (21 bp):
ATATTTTTCAAGCTAAAAATC
Found at i:978023 original size:18 final size:18
Alignment explanation
Indices: 978000--978036 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
977990 ACCATCAAAA
*
978000 ATGATGATGATGAAGAAG
1 ATGATGATCATGAAGAAG
*
978018 ATGATGATCATGATGAAG
1 ATGATGATCATGAAGAAG
978036 A
1 A
978037 AGTTGACTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.03, G:0.30, T:0.24
Consensus pattern (18 bp):
ATGATGATCATGAAGAAG
Found at i:978871 original size:31 final size:32
Alignment explanation
Indices: 978812--978887 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 32
978802 TCTCTTTAGT
*
978812 TTTAATTAAATTAGTTGATTAAAATAAAAA-A
1 TTTAATTAAATTAATTGATTAAAATAAAAATA
** ** *
978843 TTTAATTCGATTAATTGATTAATTTAAAAATT
1 TTTAATTAAATTAATTGATTAAAATAAAAATA
*
978875 TTTAATTTAATTA
1 TTTAATTAAATTA
978888 TCAGTTAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 25 0.69
32 11 0.31
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.47
Consensus pattern (32 bp):
TTTAATTAAATTAATTGATTAAAATAAAAATA
Done.