Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 109 of 141
Found at i:31441937 original size:102 final size:102
Alignment explanation
Indices: 31441815--31442015 Score: 267
Period size: 102 Copynumber: 2.0 Consensus size: 102
31441805 AGTGATTCGA
** * * * * *
31441815 GGAATCAGTACTTAGCAACCCCTTTCACATTTAAGATAAGGTGGGACCAGCACTTAGCAACCACC
1 GGAATCAACACTTAGCAACCCCCTTCACATTTAAAATAAGATGGAACCAGCACTTAACAACCACC
*
31441880 AATGATTCGAGGAACCAGCACTTAGCAACCCCTTGGG
66 AATGAATCGAGGAACCAGCACTTAGCAACCCCTTGGG
** * *
31441917 GGAATCAACACTTAGCAACCCCCTTCACATTTAAAATACTATGGAATCAGCACTTAATAACCACC
1 GGAATCAACACTTAGCAACCCCCTTCACATTTAAAATAAGATGGAACCAGCACTTAACAACCACC
* * *
31441982 AATGAATCGGGGAATCAGCACTTAGTAACCCCTT
66 AATGAATCGAGGAACCAGCACTTAGCAACCCCTT
31442016 TATATTCAAT
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
102 84 1.00
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (102 bp):
GGAATCAACACTTAGCAACCCCCTTCACATTTAAAATAAGATGGAACCAGCACTTAACAACCACC
AATGAATCGAGGAACCAGCACTTAGCAACCCCTTGGG
Found at i:31454087 original size:39 final size:40
Alignment explanation
Indices: 31453987--31454171 Score: 177
Period size: 40 Copynumber: 4.7 Consensus size: 40
31453977 TTGAATGATG
31453987 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGAT-ACTAA-A
* * * *
31454027 TCCGGACCAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGATACTAAA
* *
31454067 TCCGGGCTAAG-GCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGATACTAAA
* * *
31454106 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAA-TTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTG-CAAGATACTA-AA
*
31454147 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31454172 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 16
0.80 0.09 0.10
Matches are distributed among these distances:
39 34 0.28
40 74 0.60
41 15 0.12
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGATACTAAA
Found at i:31454123 original size:79 final size:80
Alignment explanation
Indices: 31453987--31454171 Score: 202
Period size: 79 Copynumber: 2.3 Consensus size: 80
31453977 TTGAATGATG
31453987 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACAATATCCGGACCAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACAATATCCGGACCAAGATCCGAAGGCATTT
31454052 GTGCGAGATACTAAT
66 GTGCGAGATACTAAT
* * ***
31454067 TCCGGGCTAAG-GCCGAAGGCATTTGTGC-AAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-AATATCCGGACCAAGAT-CCGAAGGCA
*
31454128 TTTGTGTGA-ATTACT-AT
63 TTTGTGCGAGA-TACTAAT
* *
31454145 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGC-TTTG
31454172 AACGAGGAGC
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
78 4 0.04
79 53 0.59
80 33 0.37
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACAATATCCGGACCAAGATCCGAAGGCATTT
GTGCGAGATACTAAT
Found at i:31458817 original size:21 final size:21
Alignment explanation
Indices: 31458791--31458840 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
31458781 ATTGTTGGGA
* *
31458791 AGGAAGTTATTGTTGCAGAAG
1 AGGAAGTTATTGCTGAAGAAG
*
31458812 AGGAAGTTGTTGCTGAAGAAG
1 AGGAAGTTATTGCTGAAGAAG
*
31458833 AAGAAGTT
1 AGGAAGTT
31458841 GCTAAAAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.34, T:0.26
Consensus pattern (21 bp):
AGGAAGTTATTGCTGAAGAAG
Found at i:31458821 original size:18 final size:18
Alignment explanation
Indices: 31458800--31458835 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
31458790 AAGGAAGTTA
*
31458800 TTGTTGCAGAAGAGGAAG
1 TTGTTGCAGAAGAAGAAG
*
31458818 TTGTTGCTGAAGAAGAAG
1 TTGTTGCAGAAGAAGAAG
31458836 AAGTTGCTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.36, T:0.25
Consensus pattern (18 bp):
TTGTTGCAGAAGAAGAAG
Found at i:31470759 original size:25 final size:25
Alignment explanation
Indices: 31470725--31470793 Score: 102
Period size: 25 Copynumber: 2.8 Consensus size: 25
31470715 TGTACATATA
* *
31470725 TGCTTACACGAGTTGTGAATAAGTG
1 TGCTCACACGAGCTGTGAATAAGTG
31470750 TGCTCACACGAGCTGTGAATAAGTG
1 TGCTCACACGAGCTGTGAATAAGTG
* *
31470775 TGCTCACACAAGCTATGAA
1 TGCTCACACGAGCTGTGAA
31470794 AATGGGCCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (25 bp):
TGCTCACACGAGCTGTGAATAAGTG
Found at i:31475939 original size:35 final size:35
Alignment explanation
Indices: 31475888--31475954 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
31475878 ACAATCAGTA
31475888 TACAGAAACAGAATCAGTCTAGGCCTGAGCCCTTT
1 TACAGAAACAGAATCAGTCTAGGCCTGAGCCCTTT
* * * * *
31475923 TACAGTAACAGTATCAGTGTGGGCCTTAGCCC
1 TACAGAAACAGAATCAGTCTAGGCCTGAGCCC
31475955 AATACGATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.24
Consensus pattern (35 bp):
TACAGAAACAGAATCAGTCTAGGCCTGAGCCCTTT
Found at i:31478532 original size:27 final size:28
Alignment explanation
Indices: 31478453--31478672 Score: 172
Period size: 27 Copynumber: 8.1 Consensus size: 28
31478443 AGGGGCATTA
* *
31478453 CGGTCATTTTACCCTA-C-AGGGGTAATT
1 CGGTAATTTTACCCTATCGA-GGGTATTT
* * **
31478480 CGGTCATTTTA-CCTATCAAGAATATTT
1 CGGTAATTTTACCCTATCGAGGGTATTT
*
31478507 CGGTCATTTTA-CCTATCGAGGGTATTT
1 CGGTAATTTTACCCTATCGAGGGTATTT
** * *
31478534 CAATAATTTTACCCT-TTGAGGGTATAT
1 CGGTAATTTTACCCTATCGAGGGTATTT
* *
31478561 CGATAATTTTACCCT-TTGAGGGTATTT
1 CGGTAATTTTACCCTATCGAGGGTATTT
* * *
31478588 CGATAATTTCACCAT-TCGAGGGTATTT
1 CGGTAATTTTACCCTATCGAGGGTATTT
*
31478615 TGGTAATTTTACCCT-TCGAGGGTATTTT
1 CGGTAATTTTACCCTATCGAGGGTA-TTT
* * *
31478643 C-GTAATTTTATCTTAT-AAGGGTATTT
1 CGGTAATTTTACCCTATCGAGGGTATTT
31478669 CGGT
1 CGGT
31478673 CATTCTAGTA
Statistics
Matches: 163, Mismatches: 24, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
26 8 0.05
27 147 0.90
28 8 0.05
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (28 bp):
CGGTAATTTTACCCTATCGAGGGTATTT
Found at i:31478607 original size:81 final size:81
Alignment explanation
Indices: 31478522--31478670 Score: 203
Period size: 81 Copynumber: 1.8 Consensus size: 81
31478512 ATTTTACCTA
* *
31478522 TCGAGGGTATTTCAATAATTTTACCCTTTGAGGGTA-TATCGATAATTTTACCCTT-TGAGGGTA
1 TCGAGGGTATTTCAATAATTTTACCCTTCGAGGGTATTATCG-TAATTTTA-CCTTATAAGGGTA
31478585 TTTCGATAATTTCACCAT
64 TTTCGATAATTTCACCAT
*** * *
31478603 TCGAGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTTCGTAATTTTATCTTATAAGGGTATT
1 TCGAGGGTATTTCAATAATTTTACCCTTCGAGGGTATTATCGTAATTTTACCTTATAAGGGTATT
31478668 TCG
66 TCG
31478671 GTCATTCTAG
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
80 3 0.05
81 52 0.88
82 4 0.07
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.43
Consensus pattern (81 bp):
TCGAGGGTATTTCAATAATTTTACCCTTCGAGGGTATTATCGTAATTTTACCTTATAAGGGTATT
TCGATAATTTCACCAT
Found at i:31480192 original size:25 final size:25
Alignment explanation
Indices: 31480140--31480193 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
31480130 TGAACCTTTG
*
31480140 ACCTCCTTACCAAACCTGTGATGTC
1 ACCTCCTTACCAAACCTGTGATGCC
* *
31480165 ACCTCCTTGCCACACCTGTG-TCGCC
1 ACCTCCTTACCAAACCTGTGAT-GCC
31480190 ACCT
1 ACCT
31480194 TTCCACTACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.19, C:0.43, G:0.13, T:0.26
Consensus pattern (25 bp):
ACCTCCTTACCAAACCTGTGATGCC
Found at i:31483264 original size:40 final size:40
Alignment explanation
Indices: 31483208--31483388 Score: 265
Period size: 40 Copynumber: 4.5 Consensus size: 40
31483198 AATTATAGAA
31483208 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* *
31483248 TGAATGCACATGCGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * *
31483288 TGAATGCACATATGTGCCCTTGTTTGTACTTCAGTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
*
31483328 T-AACTGCACATACGTGCCCCTATTTGTACTTTGGTACCCC
1 TGAA-TGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* *
31483368 TGAATGCACTTCCGTGCCCCT
1 TGAATGCACATACGTGCCCCT
31483389 GTTTATCTCC
Statistics
Matches: 126, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.18, C:0.32, G:0.18, T:0.31
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
Found at i:31483287 original size:20 final size:20
Alignment explanation
Indices: 31483224--31483289 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
31483214 CACATACGTG
*
31483224 CCCCTATTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
** * * *
31483244 CCCCTGAATGCACAT-GCGTG
1 CCCCTGTTTGTACTTCG-GTA
31483264 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
31483284 CCCCTG
1 CCCCTG
31483290 AATGCACATA
Statistics
Matches: 33, Mismatches: 11, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
19 1 0.03
20 31 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.35, G:0.20, T:0.32
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:31483387 original size:20 final size:20
Alignment explanation
Indices: 31483208--31483389 Score: 55
Period size: 20 Copynumber: 9.1 Consensus size: 20
31483198 AATTATAGAA
* *
31483208 TGAATGCACATACGTGCCCC
1 TGAATGCACTTCCGTGCCCC
* * * *
31483228 T-ATTTGTACTTCGGTACCCC
1 TGA-ATGCACTTCCGTGCCCC
* *
31483248 TGAATGCACATGCGTGCCCC
1 TGAATGCACTTCCGTGCCCC
** * * *
31483268 TGTTTGTACTTCGGTACCCC
1 TGAATGCACTTCCGTGCCCC
* ** *
31483288 TGAATGCACATATGTGCCCT
1 TGAATGCACTTCCGTGCCCC
** * * *
31483308 TGTTTGTACTTCAGTACCCC
1 TGAATGCACTTCCGTGCCCC
* *
31483328 T-AACTGCACATACGTGCCCC
1 TGAA-TGCACTTCCGTGCCCC
* * ** *
31483348 T-ATTTGTACTTTGGTACCCC
1 TGA-ATGCACTTCCGTGCCCC
31483368 TGAATGCACTTCCGTGCCCC
1 TGAATGCACTTCCGTGCCCC
31483388 TG
1 TG
31483390 TTTATCTCCA
Statistics
Matches: 104, Mismatches: 53, Indels: 10
0.62 0.32 0.06
Matches are distributed among these distances:
19 1 0.01
20 101 0.97
21 2 0.02
ACGTcount: A:0.18, C:0.32, G:0.19, T:0.31
Consensus pattern (20 bp):
TGAATGCACTTCCGTGCCCC
Found at i:31491764 original size:22 final size:22
Alignment explanation
Indices: 31491736--31491778 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
31491726 CAGTGTTATC
31491736 AGTGGCAGTTTATCTACAAATT
1 AGTGGCAGTTTATCTACAAATT
*
31491758 AGTGGCAGTTTATCTATAAAT
1 AGTGGCAGTTTATCTACAAAT
31491779 CAATGGTGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (22 bp):
AGTGGCAGTTTATCTACAAATT
Found at i:31492478 original size:21 final size:21
Alignment explanation
Indices: 31492454--31492495 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
31492444 TGATTTTAAA
31492454 ATTAAATCTATTTATTTCAAC
1 ATTAAATCTATTTATTTCAAC
* *
31492475 ATTATATCTGTTTATTTCAAC
1 ATTAAATCTATTTATTTCAAC
31492496 TCATGTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.14, G:0.02, T:0.50
Consensus pattern (21 bp):
ATTAAATCTATTTATTTCAAC
Found at i:31492946 original size:26 final size:26
Alignment explanation
Indices: 31492906--31492960 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
31492896 CATTTCATCA
*
31492906 TCTCTCATTCATCCATTCTTCTCTATTT
1 TCTCTCATT-ATCCATTCTTC-CAATTT
31492934 TCTCTCATT-TCCATTCTTCCAATTT
1 TCTCTCATTATCCATTCTTCCAATTT
31492959 TC
1 TC
31492961 AAGAGAGCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 7 0.27
26 10 0.38
28 9 0.35
ACGTcount: A:0.15, C:0.33, G:0.00, T:0.53
Consensus pattern (26 bp):
TCTCTCATTATCCATTCTTCCAATTT
Found at i:31495126 original size:50 final size:50
Alignment explanation
Indices: 31495051--31495293 Score: 251
Period size: 50 Copynumber: 4.9 Consensus size: 50
31495041 CATTTGGGTA
*
31495051 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGAT
* * * *
31495101 AAGAGGTCTCATGTAAGACCATGTCTGTGACATGGCTTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGAT
* * * *
31495151 GAGAGGTCCC-TCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATAT
1 AAGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCATCGAGAT
* ** * * * *
31495201 GAGAACTCTCATGTAAGACCATATATGGGATATGGCATTGGCAGTAC-A-A-
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-T-CGAGAT
* ** *
31495250 AAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
31495294 GTTATTATCA
Statistics
Matches: 162, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
48 1 0.01
49 35 0.22
50 123 0.76
51 2 0.01
52 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGAT
Found at i:31495640 original size:25 final size:25
Alignment explanation
Indices: 31495610--31495664 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
31495600 ACTTGTAAAC
31495610 TTATTAAGCTTTATGCTTACTTCTT
1 TTATTAAGCTTTATGCTTACTTCTT
31495635 TTATTAAGCTTTATGCTTACTTCTT
1 TTATTAAGCTTTATGCTTACTTCTT
31495660 TTATT
1 TTATT
31495665 TATTTTTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.20, C:0.15, G:0.07, T:0.58
Consensus pattern (25 bp):
TTATTAAGCTTTATGCTTACTTCTT
Found at i:31520328 original size:13 final size:13
Alignment explanation
Indices: 31520312--31520348 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
31520302 GTTGATATCG
31520312 ATGATATATGTAC
1 ATGATATATGTAC
31520325 ATGATATATGTAC
1 ATGATATATGTAC
31520338 ATGATATATGT
1 ATGATATATGT
31520349 TTAAGGGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (13 bp):
ATGATATATGTAC
Found at i:31530998 original size:13 final size:13
Alignment explanation
Indices: 31530977--31531011 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
31530967 TAAATGCTCC
*
31530977 AATTCAGCTGATT
1 AATTAAGCTGATT
31530990 AATTAAGCTGATT
1 AATTAAGCTGATT
*
31531003 ACTTAAGCT
1 AATTAAGCT
31531012 TGAAGAGTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.37
Consensus pattern (13 bp):
AATTAAGCTGATT
Found at i:31532425 original size:27 final size:27
Alignment explanation
Indices: 31532359--31532427 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
31532349 GGGGCATTAG
* *
31532359 GGTCATTTTACCCTA-CAGGGGTAATTC
1 GGTCATTTTA-CCTATCAAGGATAATTC
* *
31532386 GATCATTTTACCTATCAAGGATATTTC
1 GGTCATTTTACCTATCAAGGATAATTC
31532413 GGTCATTTTACCTAT
1 GGTCATTTTACCTAT
31532428 TGAGGGTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
26 4 0.11
27 32 0.89
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (27 bp):
GGTCATTTTACCTATCAAGGATAATTC
Found at i:31532437 original size:27 final size:27
Alignment explanation
Indices: 31532407--31532577 Score: 182
Period size: 27 Copynumber: 6.3 Consensus size: 27
31532397 CTATCAAGGA
* *
31532407 TATTTCGGTCATTTTA-CCTATTGAGGG
1 TATTTCGATAATTTTACCCT-TTGAGGG
*
31532434 TATTTCAATAATTTTACCCTTTGAGGG
1 TATTTCGATAATTTTACCCTTTGAGGG
* * *
31532461 TATATCGATAATTTTTCCCTTTGAGGT
1 TATTTCGATAATTTTACCCTTTGAGGG
* *
31532488 TATTTCGATAATTTCACCCTTCGAGGG
1 TATTTCGATAATTTTACCCTTTGAGGG
* *
31532515 TATTTTGGTAATTTTACCCTTTGAGGG
1 TATTTCGATAATTTTACCCTTTGAGGG
* * *** *
31532542 TATTTTGGTAATTTTATATTTTAAGGG
1 TATTTCGATAATTTTACCCTTTGAGGG
31532569 TATTTCGAT
1 TATTTCGAT
31532578 CATTCTAATA
Statistics
Matches: 121, Mismatches: 22, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
27 118 0.98
28 3 0.02
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.47
Consensus pattern (27 bp):
TATTTCGATAATTTTACCCTTTGAGGG
Found at i:31532462 original size:81 final size:82
Alignment explanation
Indices: 31532377--31532543 Score: 180
Period size: 81 Copynumber: 2.1 Consensus size: 82
31532367 TACCCTACAG
* * * * *
31532377 GGGTAAT-TCGATCA-TTTTACCTATCAAGGATATTTCGGTCATTTTA-CCTATTGAGGGTATTT
1 GGGTAATATCGATAATTTTTACCT-TCAAGGATATTTCGATAATTTCACCCT-TCGAGGGTATTT
31532439 CAATAATTTTACCCTTTGA
64 CAATAATTTTACCCTTTGA
* ** * **
31532458 GGGT-ATATCGATAATTTTTCCCTTTGAGGTTATTTCGATAATTTCACCCTTCGAGGGTATTTTG
1 GGGTAATATCGATAATTTTTACCTTCAAGGATATTTCGATAATTTCACCCTTCGAGGGTATTTCA
*
31532522 GTAATTTTACCCTTTGA
66 ATAATTTTACCCTTTGA
31532539 GGGTA
1 GGGTA
31532544 TTTTGGTAAT
Statistics
Matches: 70, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
80 2 0.03
81 58 0.83
82 10 0.14
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.43
Consensus pattern (82 bp):
GGGTAATATCGATAATTTTTACCTTCAAGGATATTTCGATAATTTCACCCTTCGAGGGTATTTCA
ATAATTTTACCCTTTGA
Found at i:31534121 original size:25 final size:25
Alignment explanation
Indices: 31534084--31534138 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
31534074 TGAACCTTTG
*
31534084 ACCTCCTTACCACACCTGTGACGCC
1 ACCTTCTTACCACACCTGTGACGCC
* *
31534109 ACCTTCTTGCCACACCTGTGTCGCC
1 ACCTTCTTACCACACCTGTGACGCC
31534134 ACCTT
1 ACCTT
31534139 TCCACTACAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.16, C:0.45, G:0.13, T:0.25
Consensus pattern (25 bp):
ACCTTCTTACCACACCTGTGACGCC
Found at i:31537490 original size:40 final size:40
Alignment explanation
Indices: 31537310--31537478 Score: 241
Period size: 40 Copynumber: 4.2 Consensus size: 40
31537300 AATTATAGAA
31537310 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * *
31537350 AGAATGCACATGCGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * * *
31537390 TTAATGCACATATGTGCCCTTGTTTGTACTTCAGTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
*
31537430 TAAATGCACATACGTGCCCCTATTTGTACGTT-GGTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTAC-TTCGGTACCCC
31537470 TGAATGCAC
1 TGAATGCAC
31537479 TTCCATGCCC
Statistics
Matches: 113, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
40 111 0.98
41 2 0.02
ACGTcount: A:0.21, C:0.30, G:0.18, T:0.31
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
Found at i:31538231 original size:12 final size:12
Alignment explanation
Indices: 31538211--31538240 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
31538201 GTAGTGAGTT
31538211 ACACAGCCTAGC
1 ACACAGCCTAGC
*
31538223 ACACGGCCTAGC
1 ACACAGCCTAGC
31538235 ACACAG
1 ACACAG
31538241 GCATGTGCGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.33, C:0.40, G:0.20, T:0.07
Consensus pattern (12 bp):
ACACAGCCTAGC
Found at i:31542807 original size:22 final size:22
Alignment explanation
Indices: 31542777--31542828 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
31542767 CATCAGTGTT
*
31542777 ATCAATGGCAGTTTATCTACAA
1 ATCAGTGGCAGTTTATCTACAA
*
31542799 ATCAGTGGCAGTTTATCTATAA
1 ATCAGTGGCAGTTTATCTACAA
31542821 ATCAGTGG
1 ATCAGTGG
31542829 TGGCATGTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (22 bp):
ATCAGTGGCAGTTTATCTACAA
Found at i:31543523 original size:21 final size:21
Alignment explanation
Indices: 31543499--31543539 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
31543489 TGATTTTAAA
*
31543499 ATTAAATCTATTTATTTCAAT
1 ATTAAACCTATTTATTTCAAT
*
31543520 ATTATACCTATTTATTTCAA
1 ATTAAACCTATTTATTTCAA
31543540 CTCATGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTAAACCTATTTATTTCAAT
Found at i:31553154 original size:58 final size:58
Alignment explanation
Indices: 31553064--31553178 Score: 212
Period size: 58 Copynumber: 2.0 Consensus size: 58
31553054 CAGATCGTCA
*
31553064 AAATCGTATGCGGATTTGAAACGAAAAGACATTGAATATCAGGTGGGAGATAAAGTGG
1 AAATCGTATGCGGACTTGAAACGAAAAGACATTGAATATCAGGTGGGAGATAAAGTGG
*
31553122 AAATCGTATGCGGACTTGAAACGAAAGGACATTGAATATCAGGTGGGAGATAAAGTG
1 AAATCGTATGCGGACTTGAAACGAAAAGACATTGAATATCAGGTGGGAGATAAAGTG
31553179 TTCCTTAAAG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.39, C:0.10, G:0.30, T:0.22
Consensus pattern (58 bp):
AAATCGTATGCGGACTTGAAACGAAAAGACATTGAATATCAGGTGGGAGATAAAGTGG
Found at i:31555224 original size:29 final size:28
Alignment explanation
Indices: 31555188--31555265 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
31555178 TCATGAGATT
31555188 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
31555218 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
31555245 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
31555266 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:31555483 original size:174 final size:174
Alignment explanation
Indices: 31555218--31555545 Score: 595
Period size: 174 Copynumber: 1.9 Consensus size: 174
31555208 AAATTGTACA
*
31555218 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
31555283 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATT-AAGGGTGCGACCTTACCGAGTCG
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTT-CATTGAAGGGTGCGACCTTACCGAGTCA
31555347 ATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
130 ATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
31555392 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
31555457 TGTGCGAACCCAATATATATTTTCTATAAATTATTTCATTGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTCATTGAAGGGTGCGACCTTACCGAGTCAA
31555522 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
31555546 ACCTTGAGTT
Statistics
Matches: 148, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
173 4 0.03
174 144 0.97
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTCATTGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:31564651 original size:43 final size:41
Alignment explanation
Indices: 31564505--31564696 Score: 147
Period size: 42 Copynumber: 4.5 Consensus size: 41
31564495 CCATCACACG
* *** *
31564505 GTGGAATCAGCACTTAGCAACCACCTCATGTTCAAAGGATCCC
1 GTGGAATCAGCACTTAGCAACCACCTTACAATC-AAGGAT-AC
* *
31564548 GGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATAC
1 -GTGGAATCAGCACTTAGCAACCACCTTACAATCAAGGATAC
*
31564590 GGGGAATCAGCA-TATAGCAAGCC-CCTTAACAATCAAGGATAC
1 GTGGAATCAGCACT-TAGCAA-CCACCTT-ACAATCAAGGATAC
* * * ** *
31564632 GATGGAATCAGTACTTAGCAACCACATTAGTAATCAATAATTC
1 G-TGGAATCAGCACTTAGCAACCACCTTA-CAATCAAGGATAC
*
31564675 AG-GGAATCTGCACTTAGCAACC
1 -GTGGAATCAGCACTTAGCAACC
31564697 CTTTTTTGAT
Statistics
Matches: 123, Mismatches: 17, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
40 1 0.01
41 21 0.17
42 37 0.30
43 32 0.26
44 32 0.26
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.22
Consensus pattern (41 bp):
GTGGAATCAGCACTTAGCAACCACCTTACAATCAAGGATAC
Found at i:31566492 original size:40 final size:41
Alignment explanation
Indices: 31566413--31566508 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 41
31566403 TGGCGCTAAC
* * *
31566413 GAAAAACGCCACAAAAGGTCAAGCAGTAGTGGCGTTTATGA
1 GAAAAACGCCACAAAAGGTCAACCAATAGCGGCGTTTATGA
* *
31566454 GAAAAACGCCGCAACAGGT-AACCAATAGCGGCGTTTATGA
1 GAAAAACGCCACAAAAGGTCAACCAATAGCGGCGTTTATGA
*
31566494 GAAAAATGCCACAAA
1 GAAAAACGCCACAAA
31566509 GTATCATTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 30 0.64
41 17 0.36
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.15
Consensus pattern (41 bp):
GAAAAACGCCACAAAAGGTCAACCAATAGCGGCGTTTATGA
Found at i:31568758 original size:71 final size:72
Alignment explanation
Indices: 31568602--31568969 Score: 321
Period size: 72 Copynumber: 5.1 Consensus size: 72
31568592 ATTAATTATC
* * * *
31568602 AAGTAAAGTCGTTTATTTAATTATGTGTTTTTAAAAAGGTTGATTTAGTTAAATTTATT-AAGTT
1 AAGTAAAATCGTTTATTCAATTATGTGTTTTTAAAAAGGTTAATTTAGTTCAATTTATTGAA-TT
*
31568666 TTGATCTT
65 TTGATATT
** * *
31568674 AAGCGAAATCGTTTATTTAATTATGTGTTTTTAAAAA-TTTAATTTAGTTCAATTTATTGAATTT
1 AAGTAAAATCGTTTATTCAATTATGTGTTTTTAAAAAGGTTAATTTAGTTCAATTTATTGAATTT
31568738 TGATATT
66 TGATATT
* * * * * * * * *
31568745 AAGTAGAACCGTTTATCCAATTATGTATTTTAAAAAAGGCTATTTTAGTTCAATTCATTGAGTTT
1 AAGTAAAATCGTTTATTCAATTATGTGTTTTTAAAAAGGTTAATTTAGTTCAATTTATTGAATTT
*
31568810 CGATATT
66 TGATATT
* * * * * * ** *
31568817 AAGTAAAATCGTTTATTCAAGTTATATG-TTTTGAGAAGATTAAATTAATTTGATTTATTGAGTT
1 AAGTAAAATCGTTTATTCAA-TTATGTGTTTTTAAAAAGGTTAATTTAGTTCAATTTATTGAATT
31568881 TTGATATT
65 TTGATATT
** * * * * ** *
31568889 AAGTAAAATCGTTTATTCGGTAATATGTTTTT-AGAAGGTTAGTTTAGTTTTTTATTTATTGAAA
1 AAGTAAAATCGTTTATTCAATTATGTGTTTTTAAAAAGGTTAATTTAG--TTCAATTTATTGAAT
*
31568953 TTTGGTATT
64 TTTGATATT
*
31568962 AAATAAAA
1 AAGTAAAA
31568970 CCATTGTTTT
Statistics
Matches: 240, Mismatches: 50, Indels: 11
0.80 0.17 0.04
Matches are distributed among these distances:
71 73 0.30
72 135 0.56
73 32 0.13
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.47
Consensus pattern (72 bp):
AAGTAAAATCGTTTATTCAATTATGTGTTTTTAAAAAGGTTAATTTAGTTCAATTTATTGAATTT
TGATATT
Found at i:31569361 original size:36 final size:34
Alignment explanation
Indices: 31569308--31569379 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 34
31569298 GTATTGAAAA
*
31569308 AATAAACAAAAGAAATAA-CAAATCTTTAATATCTTT
1 AATAAAAAAAAGAAATAATC-AA--TTTAATATCTTT
31569344 AATAAAAAAATAG-AATAATCAATTTAATATCTTT
1 AATAAAAAAA-AGAAATAATCAATTTAATATCTTT
31569378 AA
1 AA
31569380 AATTCAAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
34 14 0.42
36 16 0.48
37 3 0.09
ACGTcount: A:0.57, C:0.08, G:0.03, T:0.32
Consensus pattern (34 bp):
AATAAAAAAAAGAAATAATCAATTTAATATCTTT
Found at i:31569757 original size:13 final size:13
Alignment explanation
Indices: 31569735--31569764 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
31569725 TATAATTAAA
31569735 AAAGTCAATATTT
1 AAAGTCAATATTT
*
31569748 AAAGTTAATATTT
1 AAAGTCAATATTT
31569761 AAAG
1 AAAG
31569765 ATGATAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.10, T:0.37
Consensus pattern (13 bp):
AAAGTCAATATTT
Found at i:31574968 original size:50 final size:50
Alignment explanation
Indices: 31574896--31575137 Score: 229
Period size: 50 Copynumber: 4.9 Consensus size: 50
31574886 CATTTGGATA
* * *
31574896 AAGAGGTCCCATGTAAGACCATGTCTGGGACATAGCGTTGGCAGCGAGAT
1 AAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
*
31574946 AAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGAT
1 AAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * * * *
31574996 GAGAGGTC-CCTCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATAT
1 AAGAGGTCTCAT-GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** * * * * * *
31575046 GAGAACTCTCATGTAAGACCATATATGGGATATGGCATTGGCA--GTACAA
1 AAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGAT
* ** * * *
31575095 AAAACATCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 AAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
31575138 TGTTATTATC
Statistics
Matches: 161, Mismatches: 28, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
48 1 0.01
49 38 0.24
50 120 0.75
51 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (50 bp):
AAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:31575075 original size:100 final size:100
Alignment explanation
Indices: 31574897--31575088 Score: 260
Period size: 100 Copynumber: 1.9 Consensus size: 100
31574887 ATTTGGATAA
* * * **
31574897 AGAGGTCCCATGTAAGACCATGTCTGGGACATAGCGTTGGCAGCGAGATAAGAGGTCTCATGTAA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATAGCATGGGCACCGAGATAAGAACTCTCATGTAA
* * *
31574962 GACCATGTCTGGGACATGGCGTTGGCACCAAGATG
66 GACCATATATGGGACATGGCATTGGCACCAAGATG
* * *
31574997 AGAGGTCCC-TCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCTCATGTA
1 AGAGGTCCCAT-GTAAGACCATGTCTGGGACATAGCATGGGCACCGAGATAAGAACTCTCATGTA
*
31575061 AGACCATATATGGGATATGGCATTGGCA
65 AGACCATATATGGGACATGGCATTGGCA
31575089 GTACAAAAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 1 0.01
100 78 0.99
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (100 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATAGCATGGGCACCGAGATAAGAACTCTCATGTAA
GACCATATATGGGACATGGCATTGGCACCAAGATG
Found at i:31583246 original size:38 final size:38
Alignment explanation
Indices: 31583196--31583271 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
31583186 TCAAGGTTTA
31583196 AAAACTTTACAAGTTAATAAGTCGCTTGTTGATAAGAT
1 AAAACTTTACAAGTTAATAAGTCGCTTGTTGATAAGAT
31583234 AAAACTTTACAAGTTAATAAGTCGCTTGTTGATAAGAT
1 AAAACTTTACAAGTTAATAAGTCGCTTGTTGATAAGAT
31583272 TCATAAGTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (38 bp):
AAAACTTTACAAGTTAATAAGTCGCTTGTTGATAAGAT
Found at i:31616546 original size:40 final size:40
Alignment explanation
Indices: 31616486--31616712 Score: 391
Period size: 40 Copynumber: 5.7 Consensus size: 40
31616476 AGCATTGGAT
* *
31616486 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
*
31616526 TATATCCGGGCTATGGCCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
31616566 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
**
31616606 TAGGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
31616646 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
* *
31616686 TATATCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTATGACCCGAAGGCAA
31616713 ATGTGTTTGC
Statistics
Matches: 177, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 177 1.00
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
Found at i:31625239 original size:40 final size:40
Alignment explanation
Indices: 31625184--31625811 Score: 1220
Period size: 40 Copynumber: 15.7 Consensus size: 40
31625174 GAGCATTGGA
31625184 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
31625224 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
31625264 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
31625304 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
31625344 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
31625384 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
31625424 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
31625464 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
31625504 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
31625544 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
31625584 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
31625624 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
31625664 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
31625704 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
31625744 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
31625784 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
31625812 ATGTGTTTGC
Statistics
Matches: 583, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 583 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:31627779 original size:19 final size:19
Alignment explanation
Indices: 31627752--31627788 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
31627742 TTATAACTGA
31627752 TCTTAATTAATTAATTTTT
1 TCTTAATTAATTAATTTTT
*
31627771 TCTTCATTAATTAATTTT
1 TCTTAATTAATTAATTTT
31627789 GTAATTAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (19 bp):
TCTTAATTAATTAATTTTT
Found at i:31629797 original size:6 final size:6
Alignment explanation
Indices: 31629788--31629817 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
31629778 ATGCATGTGC
31629788 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
31629818 TGGAGGTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (6 bp):
GTGTAT
Found at i:31637304 original size:40 final size:40
Alignment explanation
Indices: 31637151--31637336 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
31637141 TCGAATGATG
* * * *
31637151 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* *
31637191 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31637231 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31637271 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
31637312 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31637337 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31637343 original size:80 final size:79
Alignment explanation
Indices: 31637204--31637369 Score: 203
Period size: 80 Copynumber: 2.1 Consensus size: 79
31637194 GGACTAAGAT
**
31637204 CCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCT
*
31637268 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
* * *
31637284 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAGC
1 CCGAAGGCATTTGTACGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGC
* *
31637347 TATATCCGGTTAAATT
64 TAAATCCGGTTAAATC
31637363 CCGAAGG
1 CCGAAGG
31637370 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
79 17 0.23
80 56 0.75
81 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:31645361 original size:40 final size:40
Alignment explanation
Indices: 31645208--31645393 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
31645198 TTGAATGATG
* * * *
31645208 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* * *
31645248 TCCGGACTAAGAT-CCGAAGGAATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31645288 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31645328 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
31645369 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31645394 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 118 0.91
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31645400 original size:80 final size:79
Alignment explanation
Indices: 31645261--31645426 Score: 194
Period size: 80 Copynumber: 2.1 Consensus size: 79
31645251 GGACTAAGAT
**
31645261 CCGAAGGAATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGAATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCT
*
31645325 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
* * * *
31645341 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAGC
1 CCGAAGGAATTTGTACGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGC
* *
31645404 TATATCCGGTTAAATT
64 TAAATCCGGTTAAATC
31645420 CCGAAGG
1 CCGAAGG
31645427 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
79 17 0.23
80 55 0.74
81 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGAATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:31647271 original size:40 final size:40
Alignment explanation
Indices: 31647187--31647312 Score: 110
Period size: 40 Copynumber: 3.1 Consensus size: 40
31647177 ATTACTTACA
* * * * * * *
31647187 GCTTGTCTACATTACGGGCAATTTATATACATTACTGTTA
1 GCTTGTCTACAATACCGGCAGTTTATCTGCATTACTGGTG
* *
31647227 GCTTGTCTACACTACCGGCAGTTTATCTGCATAACTGGTG
1 GCTTGTCTACAATACCGGCAGTTTATCTGCATTACTGGTG
* * * *
31647267 GCTTGAAC-ACAATACTGGCAGCTTGTCTGCATTACTGGTG
1 GCTTG-TCTACAATACCGGCAGTTTATCTGCATTACTGGTG
*
31647307 CCTTGT
1 GCTTGT
31647313 TCACAAATTG
Statistics
Matches: 69, Mismatches: 16, Indels: 3
0.78 0.18 0.03
Matches are distributed among these distances:
40 68 0.99
41 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (40 bp):
GCTTGTCTACAATACCGGCAGTTTATCTGCATTACTGGTG
Found at i:31652129 original size:24 final size:24
Alignment explanation
Indices: 31652097--31652145 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
31652087 ATGTTATGTT
31652097 TAAATATTAGGTGTTTATGTTTAG
1 TAAATATTAGGTGTTTATGTTTAG
31652121 TAAATATTAGGTGTTTATGTTTAG
1 TAAATATTAGGTGTTTATGTTTAG
31652145 T
1 T
31652146 TTAATATGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (24 bp):
TAAATATTAGGTGTTTATGTTTAG
Found at i:31658936 original size:28 final size:28
Alignment explanation
Indices: 31658873--31659026 Score: 265
Period size: 28 Copynumber: 5.5 Consensus size: 28
31658863 ATATTAAGTC
* *
31658873 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
31658900 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
31658928 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
31658956 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
31658984 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
31659012 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31659027 GTACAATTTA
Statistics
Matches: 123, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
27 22 0.18
28 101 0.82
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:31659786 original size:10 final size:10
Alignment explanation
Indices: 31659771--31659795 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
31659761 ATGGGCTTAC
31659771 ATATATATGT
1 ATATATATGT
31659781 ATATATATGT
1 ATATATATGT
31659791 ATATA
1 ATATA
31659796 GCCGAATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (10 bp):
ATATATATGT
Found at i:31661229 original size:22 final size:23
Alignment explanation
Indices: 31661175--31661229 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
31661165 AAATAAAAAA
*
31661175 ATTATTT-TTTAG-TTTTATTTTT
1 ATTATTTCTTT-GCTTTTATCTTT
*
31661197 ATTCTTTCTTTGCTTTTATCTTT
1 ATTATTTCTTTGCTTTTATCTTT
31661220 -TTATTTCTTT
1 ATTATTTCTTT
31661230 TCTGTTCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 16 0.57
23 12 0.43
ACGTcount: A:0.13, C:0.09, G:0.04, T:0.75
Consensus pattern (23 bp):
ATTATTTCTTTGCTTTTATCTTT
Found at i:31662417 original size:28 final size:28
Alignment explanation
Indices: 31662364--31662418 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
31662354 AGAGAGAAAG
* *
31662364 ATGGGAAAGAGAAGAAGGGAAGAAAAAA
1 ATGGGAAAAAGAAGAAGGGAAAAAAAAA
*
31662392 ATGGGAAAAAG-AGAACGTGAAAAAAAA
1 ATGGGAAAAAGAAGAA-GGGAAAAAAAA
31662419 TGAAAGGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.62, C:0.02, G:0.31, T:0.05
Consensus pattern (28 bp):
ATGGGAAAAAGAAGAAGGGAAAAAAAAA
Found at i:31668904 original size:16 final size:16
Alignment explanation
Indices: 31668883--31668923 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
31668873 ATTTGGTTGA
*
31668883 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
31668899 GAAAATTAATTAATT-
1 GAAAATTAATTAATTG
31668914 -AAAATTAATT
1 GAAAATTAATT
31668924 TGAGATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 10 0.42
16 14 0.58
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:31675271 original size:15 final size:16
Alignment explanation
Indices: 31675237--31675274 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
31675227 CCACATACAT
* *
31675237 ATATATATACTTTACC
1 ATATAAATACTATACC
31675253 ATATAAATACTAT-CC
1 ATATAAATACTATACC
31675268 ATATAAA
1 ATATAAA
31675275 ATTAAACCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (16 bp):
ATATAAATACTATACC
Found at i:31676918 original size:50 final size:50
Alignment explanation
Indices: 31676807--31677004 Score: 198
Period size: 50 Copynumber: 3.8 Consensus size: 50
31676797 ATTTGGATAA
* *
31676807 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGACTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
*
31676863 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
31676913 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** ** * * * *
31676963 AGAACTCTTATGTAAGACAATATCCGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
31677005 GTACAAGAAA
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
50 78 0.64
53 3 0.02
55 1 0.01
56 40 0.33
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:31676997 original size:100 final size:104
Alignment explanation
Indices: 31676818--31677004 Score: 229
Period size: 100 Copynumber: 1.8 Consensus size: 104
31676808 GAGATCCCAT
* * ** *
31676818 GTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGACTATGAGAGGTCCCATGTAAGACCA
1 GTAAGACCATGTCTGGGACATGGCATGGGCATCACT--GACTATGAGAACTCCCATGTAAGACAA
* * *
31676883 TGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCC
64 TATCCGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCC
**
31676924 GTAAGACCATGTCTGGGACATGGCATGGGCA-C-CT-A-TATGAGAACTCTTATGTAAGACAATA
1 GTAAGACCATGTCTGGGACATGGCATGGGCATCACTGACTATGAGAACTCCCATGTAAGACAATA
*
31676985 TCCGGGATATGGCATTGGCA
66 TCCGGGACATGGCATTGGCA
31677005 GTACAAGAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
100 37 0.53
101 1 0.01
104 1 0.01
105 1 0.01
106 30 0.43
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (104 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCATCACTGACTATGAGAACTCCCATGTAAGACAATA
TCCGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCC
Found at i:31679114 original size:27 final size:31
Alignment explanation
Indices: 31679076--31679138 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 31
31679066 CACTTAGAAA
31679076 ATTTTTTGGATA-T-AAAATA-AATTATA-T
1 ATTTTTTGGATAGTAAAAATATAATTATATT
*
31679103 ATTTTTAT-GATAGTAAAAATATAATTTTATT
1 ATTTTT-TGGATAGTAAAAATATAATTATATT
31679134 ATTTT
1 ATTTT
31679139 AATAGGTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
27 10 0.33
28 2 0.07
29 6 0.20
30 6 0.20
31 6 0.20
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.52
Consensus pattern (31 bp):
ATTTTTTGGATAGTAAAAATATAATTATATT
Found at i:31680732 original size:16 final size:18
Alignment explanation
Indices: 31680697--31680733 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
31680687 CAAAAATACT
*
31680697 TTTTAAAGACATTTTTTA
1 TTTTAAAGACATTGTTTA
31680715 TTTTAAA-A-ATTGTTTA
1 TTTTAAAGACATTGTTTA
31680731 TTT
1 TTT
31680734 AGTATTACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 10 0.56
17 1 0.06
18 7 0.39
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (18 bp):
TTTTAAAGACATTGTTTA
Found at i:31694726 original size:48 final size:48
Alignment explanation
Indices: 31694659--31695080 Score: 491
Period size: 48 Copynumber: 8.8 Consensus size: 48
31694649 GTGAACATGC
* * * * * * * *
31694659 GTATGTGTGATAAGGCCGAATGGCTAATGTGAAATATATGTGTGATAT
1 GTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATAG
31694707 GTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATAG
1 GTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATAG
*
31694755 GTATATGTGGTAAAGCCGAATGGCGCATGTGAAATATGTATGAGATAG
1 GTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATAG
*
31694803 GTATATGTGGTAAAGCCGAATGGCGCATGTGAAATATGTATGAGATAG
1 GTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATAG
*
31694851 GTATATGTGGTAAAGCCGAATGGCGCATGTGAAATATGTATGAGATAG
1 GTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATAG
* * * * *
31694899 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATAT
1 GTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATAG
*
31694947 GTATATGTGGTAAAGCCGAATGGCCAATGTGATAA-ATG--TGAGCAT-G
1 GTATATGTGGTAAAGCCGAATGGCGAATGTGA-AATATGTATGAG-ATAG
* * * * * *
31694993 CATATATGTGATAAGGCCGAATGGCCAATGTGGTGAATATG-A--AAAT-G
1 -GTATATGTGGTAAAGCCGAATGGCGAATGT-G-AAATATGTATGAGATAG
* * * *
31695040 CATATATGCGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 -GTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTA
31695081 GGTGATGTGC
Statistics
Matches: 336, Mismatches: 30, Indels: 18
0.88 0.08 0.05
Matches are distributed among these distances:
45 6 0.02
46 5 0.01
47 58 0.17
48 262 0.78
49 5 0.01
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.28
Consensus pattern (48 bp):
GTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATAG
Found at i:31695329 original size:37 final size:37
Alignment explanation
Indices: 31695279--31695383 Score: 165
Period size: 37 Copynumber: 2.8 Consensus size: 37
31695269 GCCCGGATAC
31695279 ACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAG
1 ACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAG
*
31695316 ACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAG
1 ACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAG
* * * *
31695353 ATCCGATAACTTCGTGTGGAGATTACGTCCG
1 ACCCGATGACTACGTGTGGAGATTATGTCCG
31695384 AGCTAAAGGT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (37 bp):
ACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAG
Found at i:31696146 original size:33 final size:33
Alignment explanation
Indices: 31696104--31696168 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
31696094 AAGAAAAAGT
31696104 TCAAAATTTTACTGTTCTGACATGAGTTACAAA
1 TCAAAATTTTACTGTTCTGACATGAGTTACAAA
31696137 TCAAAATTTTACTGTTCTGACATGAGTTACAA
1 TCAAAATTTTACTGTTCTGACATGAGTTACAA
31696169 GTCCGGTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.37
Consensus pattern (33 bp):
TCAAAATTTTACTGTTCTGACATGAGTTACAAA
Found at i:31696734 original size:40 final size:40
Alignment explanation
Indices: 31696679--31697350 Score: 1017
Period size: 40 Copynumber: 16.8 Consensus size: 40
31696669 GAGAATTGAG
* *
31696679 AGTGATATACCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
31696719 AGTGACGTATCCGGACTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
31696759 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
31696799 AGTGACGTATCCGGACTAAGTTTCGAAGAGCACTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
31696839 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
31696879 AGTGACGTATCCGGACTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
31696919 AGTGATGTATCCGGACTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
31696959 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
31696999 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
31697039 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
31697079 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
31697119 AGTGGTGTATCCGGGCTAA-ATCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTC-CGAAGAGCATTCGTGCT
31697159 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
31697199 AGTGGTGTATCCGGGCTAA-ATCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTC-CGAAGAGCATTCGTGCT
31697239 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *** *
31697279 AGTGATATATCCGTG-CTAAACCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCG-GACTAAGTTCCGAAGAGCATTCGTGCT
* * * * * *
31697319 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
31697351 ATCATGCTGG
Statistics
Matches: 580, Mismatches: 46, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
39 5 0.01
40 570 0.98
41 5 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:31699577 original size:36 final size:35
Alignment explanation
Indices: 31699529--31699659 Score: 124
Period size: 36 Copynumber: 3.7 Consensus size: 35
31699519 TACTCTCTGT
*
31699529 TTTGGTGTGTTTCGGTTGGATTAGCTTTTCGAAGCGA
1 TTTGGTGTGTTTCGGATGGATTAGCTTTT-GAAGC-A
*
31699566 -TTGGTGTGTTTCGGATGGATTTGCTCTTAT-AAGCA
1 TTTGGTGTGTTTCGGATGGATTAGCT-TT-TGAAGCA
* * *
31699601 TTTGGTGTGTTTTGGATGGACTAGATCTTATG-AGCA
1 TTTGGTGTGTTTCGGATGGATTAG--CTTTTGAAGCA
* *
31699637 TTTGGTGTGTTTCAGTTGGATTA
1 TTTGGTGTGTTTCGGATGGATTA
31699660 TCGATTTACT
Statistics
Matches: 78, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
35 1 0.01
36 71 0.91
37 3 0.04
38 3 0.04
ACGTcount: A:0.16, C:0.09, G:0.31, T:0.44
Consensus pattern (35 bp):
TTTGGTGTGTTTCGGATGGATTAGCTTTTGAAGCA
Found at i:31700613 original size:8 final size:8
Alignment explanation
Indices: 31700589--31700627 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
31700579 GACTTATGAT
31700589 ATGTTTCAA
1 ATGTTT-AA
31700598 AT-TATTAA
1 ATGT-TTAA
31700606 ATGTTTAA
1 ATGTTTAA
31700614 ATGTTTAA
1 ATGTTTAA
31700622 ATGTTT
1 ATGTTT
31700628 TGATTGATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 23 0.82
9 5 0.18
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (8 bp):
ATGTTTAA
Found at i:31701251 original size:9 final size:9
Alignment explanation
Indices: 31701237--31701268 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
31701227 ACGACAGACA
31701237 AATGAAAAG
1 AATGAAAAG
31701246 AATGAAAAG
1 AATGAAAAG
31701255 AATGAAAAG
1 AATGAAAAG
31701264 AATGA
1 AATGA
31701269 TATGGCTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.22, T:0.12
Consensus pattern (9 bp):
AATGAAAAG
Found at i:31705911 original size:19 final size:18
Alignment explanation
Indices: 31705865--31705913 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
31705855 GATGGATTTT
*
31705865 TTGTCATAAAATAATTAAT
1 TTGT-ATAAAATAATTAAA
*
31705884 TTTTATAAAATAATTAAA
1 TTGTATAAAATAATTAAA
31705902 TTGTATTAAAAT
1 TTGTA-TAAAAT
31705914 TTTGAACATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (18 bp):
TTGTATAAAATAATTAAA
Found at i:31705971 original size:20 final size:21
Alignment explanation
Indices: 31705927--31705974 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
31705917 GAACATGTTA
31705927 ATTTTTAGTCAATTTTACAATT
1 ATTTTTAGTCAATTTTA-AATT
* *
31705949 ATTTTTAGTGAATTTT-GATT
1 ATTTTTAGTCAATTTTAAATT
31705969 ATTTTT
1 ATTTTT
31705975 TCCAAATTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
22 15 0.62
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.60
Consensus pattern (21 bp):
ATTTTTAGTCAATTTTAAATT
Found at i:31706597 original size:161 final size:161
Alignment explanation
Indices: 31706332--31706656 Score: 596
Period size: 161 Copynumber: 2.0 Consensus size: 161
31706322 CCACAAGATT
*
31706332 AGATGATGCTTTATGGGCTTACAGAATAGCATACGAGGCACCTTTAGGAATGTCACCCTATAGGT
1 AGATGATGCTTTATGGGCTTACAGAATAGCATACGAGACACCTTTAGGAATGTCACCCTATAGGT
31706397 TGGTCTTTGGGAAAGCCTGTCATCTAGCTCTGGAGTTAGAGCACAAAGCTTACTAGGCTCTTCAA
66 TGGTCTTTGGGAAAGCCTGTCATCTAGCTCTGGAGTTAGAGCACAAAGCTTACTAGGCTCTTCAA
31706462 CGACTCAACCTGGATCTTAAGCTTGCTAGAG
131 CGACTCAACCTGGATCTTAAGCTTGCTAGAG
*
31706493 AGATGATGCTTTATGGGCTTACAGAATAGCATATGAGACACCTTTAGGAATGTCACCCTATAGGT
1 AGATGATGCTTTATGGGCTTACAGAATAGCATACGAGACACCTTTAGGAATGTCACCCTATAGGT
* * *
31706558 TGGTCTTTGGGAAAGCCTGTCATCTAGTTCTGGAGTTAGAGCACAAAGCTTACTGGGCTCTTCGA
66 TGGTCTTTGGGAAAGCCTGTCATCTAGCTCTGGAGTTAGAGCACAAAGCTTACTAGGCTCTTCAA
*
31706623 CGACTGAACCTGGATCTTAAGCTTGCTAGAG
131 CGACTCAACCTGGATCTTAAGCTTGCTAGAG
31706654 AGA
1 AGA
31706657 AACGGGTGCT
Statistics
Matches: 158, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
161 158 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (161 bp):
AGATGATGCTTTATGGGCTTACAGAATAGCATACGAGACACCTTTAGGAATGTCACCCTATAGGT
TGGTCTTTGGGAAAGCCTGTCATCTAGCTCTGGAGTTAGAGCACAAAGCTTACTAGGCTCTTCAA
CGACTCAACCTGGATCTTAAGCTTGCTAGAG
Found at i:31707418 original size:22 final size:21
Alignment explanation
Indices: 31707393--31707436 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
31707383 TGATAAACTT
31707393 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
31707415 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
31707436 T
1 T
31707437 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:31708420 original size:17 final size:16
Alignment explanation
Indices: 31708398--31708429 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
31708388 GAGTCTAGGG
31708398 TTTTTTTTAAACCTAA
1 TTTTTTTTAAACCTAA
31708414 TTTTTTTTAAACCTAA
1 TTTTTTTTAAACCTAA
31708430 AATTATCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTTTTTTAAACCTAA
Found at i:31709626 original size:14 final size:14
Alignment explanation
Indices: 31709603--31709632 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
31709593 CATCCCTCAT
*
31709603 TCACATCTCTTCTC
1 TCACAACTCTTCTC
31709617 TCACAACTCTTCTC
1 TCACAACTCTTCTC
31709631 TC
1 TC
31709633 CTCTCTCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.43, G:0.00, T:0.40
Consensus pattern (14 bp):
TCACAACTCTTCTC
Found at i:31711189 original size:75 final size:77
Alignment explanation
Indices: 31711086--31711234 Score: 250
Period size: 75 Copynumber: 2.0 Consensus size: 77
31711076 TAGTGGACAA
31711086 CATTAGGTGATAACATATATATTTTTTATATTATTAATATTATTTATAAATATTATAATAATGTA
1 CATTAGGTGATAACATATATATTTTTTATATTATTAATATTATTTATAAATATTATAATAATGTA
31711151 TATTATATTCGG
66 TATTATATTCGG
* *
31711163 CATTAGGTGAT-A-ATATAT-TGTTTTTATATTATTAATATTATTTCTAAATGTTATAATAATGT
1 CATTAGGTGATAACATATATAT-TTTTTATATTATTAATATTATTTATAAATATTATAATAATGT
31711225 ATATTATATT
65 ATATTATATT
31711235 ATTATGATAT
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
74 1 0.01
75 56 0.81
76 1 0.01
77 11 0.16
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (77 bp):
CATTAGGTGATAACATATATATTTTTTATATTATTAATATTATTTATAAATATTATAATAATGTA
TATTATATTCGG
Found at i:31712271 original size:41 final size:41
Alignment explanation
Indices: 31712166--31712308 Score: 135
Period size: 41 Copynumber: 3.5 Consensus size: 41
31712156 TCGGGCTCTG
* * * * ** *
31712166 TGCCTAGCAGGCTTTATGCCAGTGAATTATAGCAGGCTTTA
1 TGCCTAGAAGGCTTCATGCCGGTGTACCATATCAGGCTTTA
*
31712207 TGCCTAGTAGGCTTCATGCCGGTGTACCATATCAGGCTTTA
1 TGCCTAGAAGGCTTCATGCCGGTGTACCATATCAGGCTTTA
* * * * *
31712248 TGCCTAGCAGGCTTCGTGTCGGTGTATCATATCTA-GCTTTG
1 TGCCTAGAAGGCTTCATGCCGGTGTACCATATC-AGGCTTTA
* *
31712289 TGGCTAGAAGGCTTTATGCC
1 TGCCTAGAAGGCTTCATGCC
31712309 ATTGTATTTT
Statistics
Matches: 84, Mismatches: 17, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
41 83 0.99
42 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.33
Consensus pattern (41 bp):
TGCCTAGAAGGCTTCATGCCGGTGTACCATATCAGGCTTTA
Found at i:31724986 original size:106 final size:106
Alignment explanation
Indices: 31724537--31724964 Score: 829
Period size: 106 Copynumber: 4.0 Consensus size: 106
31724527 GAATGATGCT
*
31724537 AAGCCCGGATTAATTTGATAGATATTGCTACTGTAGGAATTTGATCTGGAGGTTAGAGATAGGAA
1 AAGCCCAGATTAATTTGATAGATATTGCTACTGTAGGAATTTGATCTGGAGGTTAGAGATAGGAA
31724602 GGCCACAGAAGATCAAGTGGTTGATCATTTATCAAGCTTGG
66 GGCCACAGAAGATCAAGTGGTTGATCATTTATCAAGCTTGG
31724643 AAGCCCAGATTAATTTGATAGATATTGCTACTGTAGGAATTTGATCTGGAGGTTAGAGATAGGAA
1 AAGCCCAGATTAATTTGATAGATATTGCTACTGTAGGAATTTGATCTGGAGGTTAGAGATAGGAA
31724708 GGCCACAGAAGATCAAGTGGTTGATCATTTATCAAGCTTGG
66 GGCCACAGAAGATCAAGTGGTTGATCATTTATCAAGCTTGG
*
31724749 AAGCCCAGATTAATTTGATAGATATTGCTACTGTAGGAATTTGATCTTGAGGTTAGAGATAGGAA
1 AAGCCCAGATTAATTTGATAGATATTGCTACTGTAGGAATTTGATCTGGAGGTTAGAGATAGGAA
31724814 GGCCACAGAAGATCAAGTGGTTGATCATTTATCAAGCTTGG
66 GGCCACAGAAGATCAAGTGGTTGATCATTTATCAAGCTTGG
*
31724855 AAGCCCAGATTAATTTGATAGATATTGCTACTGTAGGAATTTGATCTTGAGGTTAGAGATAGGAA
1 AAGCCCAGATTAATTTGATAGATATTGCTACTGTAGGAATTTGATCTGGAGGTTAGAGATAGGAA
31724920 GGCCACAGAAGATCAAGTGGTTGATCATTTATCAAGCTTGG
66 GGCCACAGAAGATCAAGTGGTTGATCATTTATCAAGCTTGG
31724961 AAGC
1 AAGC
31724965 AGGGAATGAA
Statistics
Matches: 320, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 320 1.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.29
Consensus pattern (106 bp):
AAGCCCAGATTAATTTGATAGATATTGCTACTGTAGGAATTTGATCTGGAGGTTAGAGATAGGAA
GGCCACAGAAGATCAAGTGGTTGATCATTTATCAAGCTTGG
Found at i:31741644 original size:22 final size:22
Alignment explanation
Indices: 31741619--31741663 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
31741609 TAGTCATGCA
31741619 TTAGGGTCTTGGCCCGTTACAT
1 TTAGGGTCTTGGCCCGTTACAT
31741641 TTAGGGTCTTGGCCCGTTACAT
1 TTAGGGTCTTGGCCCGTTACAT
31741663 T
1 T
31741664 AGCAATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.22, G:0.27, T:0.38
Consensus pattern (22 bp):
TTAGGGTCTTGGCCCGTTACAT
Found at i:31751526 original size:15 final size:15
Alignment explanation
Indices: 31751506--31751538 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
31751496 GAAAGGATAC
31751506 TTAAAGATACAGTAG
1 TTAAAGATACAGTAG
*
31751521 TTAAAGATATAGTAG
1 TTAAAGATACAGTAG
31751536 TTA
1 TTA
31751539 TAACTTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.18, T:0.33
Consensus pattern (15 bp):
TTAAAGATACAGTAG
Found at i:31752554 original size:24 final size:24
Alignment explanation
Indices: 31752506--31752552 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
31752496 ACTGGTCATA
*
31752506 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
31752530 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
31752553 GGGATTTAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:31753076 original size:27 final size:26
Alignment explanation
Indices: 31753032--31753163 Score: 122
Period size: 27 Copynumber: 4.9 Consensus size: 26
31753022 TATATGATTG
* * *
31753032 AAATGCCCCAATAGGGTAAAATGATCA
1 AAATACCCC-ATAAGGTAAAATGACCA
*
31753059 AAATACCCTCATAAGGTAAAATGACCG
1 AAATACCC-CATAAGGTAAAATGACCA
* * **
31753086 AAATACCCCATAGGGTAAAACGATAA
1 AAATACCCCATAAGGTAAAATGACCA
*
31753112 AAATACCCC-TATAGGATAAAATGACCG
1 AAATACCCCATA-AGG-TAAAATGACCA
*
31753139 AAATACCCCCATACGGTAAAATGAC
1 AAATA-CCCCATAAGGTAAAATGAC
31753164 TGTTATACCT
Statistics
Matches: 85, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
25 2 0.02
26 24 0.28
27 50 0.59
28 7 0.08
29 2 0.02
ACGTcount: A:0.45, C:0.22, G:0.15, T:0.17
Consensus pattern (26 bp):
AAATACCCCATAAGGTAAAATGACCA
Found at i:31753115 original size:53 final size:53
Alignment explanation
Indices: 31753031--31753159 Score: 172
Period size: 53 Copynumber: 2.4 Consensus size: 53
31753021 ATATATGATT
* * *
31753031 GAAATGCCCCAATAGGGTAAAATGATCAAAATA-CCCTCATAAGG-TAAAATGACC
1 GAAATACCCC-ATAGGGTAAAACGATAAAAATACCCCT-AT-AGGATAAAATGACC
31753085 GAAATACCCCATAGGGTAAAACGATAAAAATACCCCTATAGGATAAAATGACC
1 GAAATACCCCATAGGGTAAAACGATAAAAATACCCCTATAGGATAAAATGACC
*
31753138 GAAATACCCCCATACGGTAAAA
1 GAAATA-CCCCATAGGGTAAAA
31753160 TGACTGTTAT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
52 3 0.04
53 38 0.56
54 27 0.40
ACGTcount: A:0.46, C:0.22, G:0.16, T:0.17
Consensus pattern (53 bp):
GAAATACCCCATAGGGTAAAACGATAAAAATACCCCTATAGGATAAAATGACC
Found at i:31754901 original size:51 final size:51
Alignment explanation
Indices: 31754843--31755129 Score: 260
Period size: 51 Copynumber: 5.6 Consensus size: 51
31754833 CCAGTTCACA
* ** * *
31754843 TAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATGCTCATTCGGTACACG
** * * * * *
31754894 TAGTAGCCACCACATAGTACTATACACGTGATCGAAGCT-ATTCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATGCTCATTCGGTACACG
** * *
31754945 TAGTAGCCTGCACATAGTACTACACACGTGACCATTTTCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATGCTCATTCGGTACACG
** * * * * *
31754996 TAGTAGCCACCACATAGTACTATACACGTGATCGAAGCT-ATTCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATGCTCATTCGGTACACG
* *
31755047 TAGTAGCCTGCACATAGTACTACACA--TG-CAACTGATCATTTCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TGCTCA-TTCGGTACACG
* *
31755097 TAGTAGCCTACACATAGTACTACACATGTGACC
1 TAGTAGCCTGCACATAGTACTACACACGTGACC
31755130 TAGGAACTTC
Statistics
Matches: 183, Mismatches: 44, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
47 2 0.01
48 2 0.01
49 3 0.02
50 37 0.20
51 130 0.71
52 8 0.04
53 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATGCTCATTCGGTACACG
Found at i:31754962 original size:102 final size:102
Alignment explanation
Indices: 31754841--31755074 Score: 459
Period size: 102 Copynumber: 2.3 Consensus size: 102
31754831 ACCCAGTTCA
31754841 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATACACGTAGTAGCCACCA
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATACACGTAGTAGCCACCA
31754906 CATAGTACTATACACGTGATCGAAGCTATTCGGTACG
66 CATAGTACTATACACGTGATCGAAGCTATTCGGTACG
*
31754943 CATAGTAGCCTGCACATAGTACTACACACGTGACCATTTTCATCCGATACACGTAGTAGCCACCA
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATACACGTAGTAGCCACCA
31755008 CATAGTACTATACACGTGATCGAAGCTATTCGGTACG
66 CATAGTACTATACACGTGATCGAAGCTATTCGGTACG
31755045 CATAGTAGCCTGCACATAGTACTACACATG
1 CATAGTAGCCTGCACATAGTACTACACATG
31755075 CAACTGATCA
Statistics
Matches: 130, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 130 1.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATACACGTAGTAGCCACCA
CATAGTACTATACACGTGATCGAAGCTATTCGGTACG
Found at i:31755381 original size:50 final size:50
Alignment explanation
Indices: 31755324--31755700 Score: 343
Period size: 50 Copynumber: 7.6 Consensus size: 50
31755314 CCAGTTCACA
* * *
31755324 TAGTAGCCTGCACATAGTACTACACATGCGACCGATCATTTTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCGAGCATTTTGGTACACG
* * ** * *
31755374 TAGTAGCCTACACATAGTACTACACACGTGACCTAGCAACTT--CACTCG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCGAGCATTTTGGTACACG
* * ** * * *
31755422 TAGTAGCCAGCACATAGTACTACACACATGATTGAAGC-TATTCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCG-AGCAT-TTTGGTACACG
* * *
31755473 TAGTAGCCTGCACATAGTACTACACATGCGACCGATCATTTTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCGAGCATTTTGGTACACG
* * ** * *
31755523 TAGTAGCCTACACATAGTACTACACACGTGACCTAGCAACTT--CACTCG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCGAGCATTTTGGTACACG
* * ** * ***
31755571 TAGTAGCCAGCACATAGTACTACACACATGATTGAAGC-TATTCGGTACGTA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCG-AGCAT-TTTGGTACACG
* * *
31755622 TAGTAGCCTGCACATAGTACTACACATGCGACCGATCATTTTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCGAGCATTTTGGTACACG
*
31755672 TAGTAGCCTACACATAGTACTACACACGT
1 TAGTAGCCTGCACATAGTACTACACACGT
31755701 TACCTAGAAC
Statistics
Matches: 250, Mismatches: 67, Indels: 20
0.74 0.20 0.06
Matches are distributed among these distances:
48 64 0.26
49 8 0.03
50 115 0.46
51 63 0.25
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCGAGCATTTTGGTACACG
Found at i:31755437 original size:48 final size:48
Alignment explanation
Indices: 31755372--31755721 Score: 221
Period size: 48 Copynumber: 7.1 Consensus size: 48
31755362 TTTTGGTACA
31755372 CGTAGTAGCCTA-CACATAGTACTACACACGTGACCTAGCAACTTCACT
1 CGTAGTAGCC-AGCACATAGTACTACACACGTGACCTAGCAACTTCACT
* * * *
31755420 CGTAGTAGCCAGCACATAGTACTACACACATGA-TTGAAGCTA-TTCGGTACG
1 CGTAGTAGCCAGCACATAGTACTACACACGTGACCT--AGCAACTTC---ACT
* * * * * * ** * *
31755471 CATAGTAGCCTGCACATAGTACTACACATGCGACCGATCATTTTGGTACA
1 CGTAGTAGCCAGCACATAGTACTACACACGTGACCTAGCAACTT--CACT
31755521 CGTAGTAGCCTA-CACATAGTACTACACACGTGACCTAGCAACTTCACT
1 CGTAGTAGCC-AGCACATAGTACTACACACGTGACCTAGCAACTTCACT
* * * **
31755569 CGTAGTAGCCAGCACATAGTACTACACACATGA-TTGAAGCTA-TTCGGT
1 CGTAGTAGCCAGCACATAGTACTACACACGTGACCT--AGCAACTTCACT
* * * * * ** * *
31755617 ACGTATAGTAGCCTGCACATAGTACTACACATGCGACCGATCATTTTGGTACA
1 -CG--TAGTAGCCAGCACATAGTACTACACACGTGACCTAGCAACTT--CACT
*
31755670 CGTAGTAGCCTA-CACATAGTACTACACACGTTACCTAG-AACCTTCACT
1 CGTAGTAGCC-AGCACATAGTACTACACACGTGACCTAGCAA-CTTCACT
31755718 CGTA
1 CGTA
31755722 TCTCTTTCAT
Statistics
Matches: 225, Mismatches: 54, Indels: 46
0.69 0.17 0.14
Matches are distributed among these distances:
47 4 0.02
48 75 0.33
49 11 0.05
50 72 0.32
51 61 0.27
52 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (48 bp):
CGTAGTAGCCAGCACATAGTACTACACACGTGACCTAGCAACTTCACT
Found at i:31755553 original size:149 final size:149
Alignment explanation
Indices: 31755322--31755721 Score: 766
Period size: 149 Copynumber: 2.7 Consensus size: 149
31755312 ACCCAGTTCA
31755322 CATAGTAGCCTGCACATAGTACTACACATGCGACCGATCATTTTGGTACACGTAGTAGCCTACAC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCGATCATTTTGGTACACGTAGTAGCCTACAC
31755387 ATAGTACTACACACGTGACCTAGCAACTTCACTCGTAGTAGCCAGCACATAGTACTACACACATG
66 ATAGTACTACACACGTGACCTAGCAACTTCACTCGTAGTAGCCAGCACATAGTACTACACACATG
31755452 ATTGAAGCTATTCGGTACG
131 ATTGAAGCTATTCGGTACG
31755471 CATAGTAGCCTGCACATAGTACTACACATGCGACCGATCATTTTGGTACACGTAGTAGCCTACAC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCGATCATTTTGGTACACGTAGTAGCCTACAC
31755536 ATAGTACTACACACGTGACCTAGCAACTTCACTCGTAGTAGCCAGCACATAGTACTACACACATG
66 ATAGTACTACACACGTGACCTAGCAACTTCACTCGTAGTAGCCAGCACATAGTACTACACACATG
31755601 ATTGAAGCTATTCGGTACG
131 ATTGAAGCTATTCGGTACG
*
31755620 TATAGTAGCCTGCACATAGTACTACACATGCGACCGATCATTTTGGTACACGTAGTAGCCTACAC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCGATCATTTTGGTACACGTAGTAGCCTACAC
*
31755685 ATAGTACTACACACGTTACCTAG-AACCTTCACTCGTA
66 ATAGTACTACACACGTGACCTAGCAA-CTTCACTCGTA
31755722 TCTCTTTCAT
Statistics
Matches: 248, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
148 2 0.01
149 246 0.99
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (149 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCGATCATTTTGGTACACGTAGTAGCCTACAC
ATAGTACTACACACGTGACCTAGCAACTTCACTCGTAGTAGCCAGCACATAGTACTACACACATG
ATTGAAGCTATTCGGTACG
Found at i:31756895 original size:26 final size:26
Alignment explanation
Indices: 31756859--31756913 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
31756849 TTTGCCACAT
*
31756859 ATACTGTTACTGACAGCTTTGCTGCG
1 ATACTATTACTGACAGCTTTGCTGCG
*
31756885 ATACTATTACTGGCAGCTTTGCTGCG
1 ATACTATTACTGACAGCTTTGCTGCG
31756911 ATA
1 ATA
31756914 TTGGTGTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (26 bp):
ATACTATTACTGACAGCTTTGCTGCG
Found at i:31757092 original size:28 final size:28
Alignment explanation
Indices: 31757023--31757183 Score: 222
Period size: 28 Copynumber: 5.8 Consensus size: 28
31757013 TGCATTGTTA
31757023 CTGTATTGGGCTAAGGCCCACACTGA-T
1 CTGTATTGGGCTAAGGCCCACACTGATT
* *
31757050 CTGTATTGGGTTAAGGCCCAAACTGATT
1 CTGTATTGGGCTAAGGCCCACACTGATT
31757078 CTGTATTGGGCTAAGGCCCACACTGATT
1 CTGTATTGGGCTAAGGCCCACACTGATT
*
31757106 CTGTATTGGGCTAAGGCCCACATTG-TT
1 CTGTATTGGGCTAAGGCCCACACTGATT
* *
31757133 ACTGT-TTGGGCAAAGGCCCACACT-CTT
1 -CTGTATTGGGCTAAGGCCCACACTGATT
*
31757160 ACTATATTGGGCTAAGGCCCACAC
1 -CTGTATTGGGCTAAGGCCCACAC
31757184 AGTACTATTG
Statistics
Matches: 121, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
27 49 0.40
28 72 0.60
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (28 bp):
CTGTATTGGGCTAAGGCCCACACTGATT
Found at i:31757142 original size:55 final size:56
Alignment explanation
Indices: 31757015--31757182 Score: 236
Period size: 55 Copynumber: 3.0 Consensus size: 56
31757005 TATTGGACTG
*
31757015 CATTGTTACTGTATTGGGCTAAGGCCCACACTGA-TCTGTATTGGGTTAAGGCCCA
1 CATTGTTACTGTATTGGGCTAAGGCCCACACTGATTCTGTATTGGGCTAAGGCCCA
* *
31757070 AACTGATT-CTGTATTGGGCTAAGGCCCACACTGATTCTGTATTGGGCTAAGGCCCA
1 CATTG-TTACTGTATTGGGCTAAGGCCCACACTGATTCTGTATTGGGCTAAGGCCCA
* * *
31757126 CATTGTTACTGT-TTGGGCAAAGGCCCACACT-CTTACTATATTGGGCTAAGGCCCA
1 CATTGTTACTGTATTGGGCTAAGGCCCACACTGATT-CTGTATTGGGCTAAGGCCCA
31757181 CA
1 CA
31757183 CAGTACTATT
Statistics
Matches: 101, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
54 2 0.02
55 70 0.69
56 29 0.29
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (56 bp):
CATTGTTACTGTATTGGGCTAAGGCCCACACTGATTCTGTATTGGGCTAAGGCCCA
Found at i:31757168 original size:83 final size:83
Alignment explanation
Indices: 31757023--31757183 Score: 227
Period size: 83 Copynumber: 1.9 Consensus size: 83
31757013 TGCATTGTTA
** *
31757023 CTGTATTGGGCTAAGGCCCACACTGATCTGTATTGGGTTAAGGCCCAAACTGATTCTGTATTGGG
1 CTGTATTGGGCTAAGGCCCACACTGATCTGTATTGGGCAAAGGCCCAAACTGATTCTATATTGGG
31757088 CTAAGGCCCACACTGATT
66 CTAAGGCCCACACTGATT
* * * *
31757106 CTGTATTGGGCTAAGGCCCACATTGTTACTGT-TTGGGCAAAGGCCCACACT-CTTACTATATTG
1 CTGTATTGGGCTAAGGCCCACACTGAT-CTGTATTGGGCAAAGGCCCAAACTGATT-CTATATTG
31757169 GGCTAAGGCCCACAC
64 GGCTAAGGCCCACAC
31757184 AGTACTATTG
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
82 2 0.03
83 63 0.91
84 4 0.06
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (83 bp):
CTGTATTGGGCTAAGGCCCACACTGATCTGTATTGGGCAAAGGCCCAAACTGATTCTATATTGGG
CTAAGGCCCACACTGATT
Found at i:31770241 original size:16 final size:18
Alignment explanation
Indices: 31770215--31770249 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
31770205 CATACTTCGA
31770215 AGGTCACATGG-CGTGTG
1 AGGTCACATGGCCGTGTG
31770232 AGGT-ACATGGCCGTGTG
1 AGGTCACATGGCCGTGTG
31770249 A
1 A
31770250 CCCCTGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.20, C:0.17, G:0.40, T:0.23
Consensus pattern (18 bp):
AGGTCACATGGCCGTGTG
Found at i:31770676 original size:14 final size:15
Alignment explanation
Indices: 31770646--31770676 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
31770636 TTAGGTTTTT
31770646 TATAATAAAACGAAA
1 TATAATAAAACGAAA
31770661 TATAATAAAA-GAAA
1 TATAATAAAACGAAA
31770675 TA
1 TA
31770677 AATTTCAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.23
Consensus pattern (15 bp):
TATAATAAAACGAAA
Found at i:31778239 original size:20 final size:19
Alignment explanation
Indices: 31778209--31778250 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
31778199 CATCGAAGAT
*
31778209 GTGTAACAGAGGTACCGAA
1 GTGTAACAGAGGCACCGAA
31778228 GTGTAGACAGAGGCACCGAA
1 GTGTA-ACAGAGGCACCGAA
31778248 GTG
1 GTG
31778251 CAATCCGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.33, C:0.17, G:0.36, T:0.14
Consensus pattern (19 bp):
GTGTAACAGAGGCACCGAA
Found at i:31780668 original size:69 final size:67
Alignment explanation
Indices: 31780558--31780705 Score: 199
Period size: 69 Copynumber: 2.2 Consensus size: 67
31780548 TTCTCTATAC
* * * *
31780558 CTCGTGTGAGCAGCATAGTAGCTTAACATCCTGACCTACATCTCTTGTGAGCAAGCCCACTTCAC
1 CTCGTGTGAGCAGCATAGTAGCTTAACATCCTGACCCACATCTCGTGTAAGCAAGCCCACGTCAC
31780623 AG
66 AG
* * *
31780625 CTCGTGTGAGCAGCATCGTGTAGCTTAACAT-CTCGACCCACATCTCGTGTAAGTAGGCCCACGT
1 CTCGTGTGAGCAGCAT--AGTAGCTTAACATCCT-GACCCACATCTCGTGTAAGCAAGCCCACGT
31780689 CACAG
63 CACAG
31780694 CTCGTGTGAGCA
1 CTCGTGTGAGCA
31780706 TTTTAGATAC
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
67 16 0.23
68 2 0.03
69 53 0.75
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (67 bp):
CTCGTGTGAGCAGCATAGTAGCTTAACATCCTGACCCACATCTCGTGTAAGCAAGCCCACGTCAC
AG
Found at i:31782712 original size:17 final size:17
Alignment explanation
Indices: 31782690--31782729 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
31782680 GAAAAGTTAG
* * *
31782690 GGTTTTAAGTGTTTTTA
1 GGTTTTAAGAGGTTTAA
31782707 GGTTTTAAGAGGTTTAA
1 GGTTTTAAGAGGTTTAA
31782724 GGTTTT
1 GGTTTT
31782730 TGGAGAGGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.53
Consensus pattern (17 bp):
GGTTTTAAGAGGTTTAA
Found at i:31784939 original size:17 final size:17
Alignment explanation
Indices: 31784917--31784951 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
31784907 AAGAACTTCT
31784917 TTAGCTCCAACCAATCC
1 TTAGCTCCAACCAATCC
31784934 TTAGCTCCAACCAATCC
1 TTAGCTCCAACCAATCC
31784951 T
1 T
31784952 GACCTTGCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.40, G:0.06, T:0.26
Consensus pattern (17 bp):
TTAGCTCCAACCAATCC
Found at i:31798353 original size:28 final size:28
Alignment explanation
Indices: 31798321--31798395 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 28
31798311 CACTCACTTT
31798321 TTCTTTTTCATCTCTCTCTTTTTTCGCA
1 TTCTTTTTCATCTCTCTCTTTTTTCGCA
* **
31798349 TTC-TTTTCA-CTCTCT-TTTTTTAGTT
1 TTCTTTTTCATCTCTCTCTTTTTTCGCA
31798374 TTCTTTTT--TCT-TCTCTTTTTTC
1 TTCTTTTTCATCTCTCTCTTTTTTC
31798396 TTTTTTTTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
24 3 0.08
25 18 0.45
26 10 0.25
27 6 0.15
28 3 0.08
ACGTcount: A:0.05, C:0.24, G:0.03, T:0.68
Consensus pattern (28 bp):
TTCTTTTTCATCTCTCTCTTTTTTCGCA
Found at i:31798381 original size:26 final size:26
Alignment explanation
Indices: 31798319--31798394 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 26
31798309 TTCACTCACT
*
31798319 TTTTCTTTTTCATCTCTCTCTTTTTTCG
1 TTTTCTTTTTCA-CTCTCT-TTTTTTAG
**
31798347 CATTC-TTTTCACTCTCTTTTTTTAG
1 TTTTCTTTTTCACTCTCTTTTTTTAG
*
31798372 TTTTCTTTTTTC-TTCTCTTTTTT
1 TTTTC-TTTTTCACTCTCTTTTTT
31798395 CTTTTTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
25 10 0.25
26 16 0.40
27 11 0.28
28 3 0.08
ACGTcount: A:0.05, C:0.22, G:0.03, T:0.70
Consensus pattern (26 bp):
TTTTCTTTTTCACTCTCTTTTTTTAG
Found at i:31798399 original size:24 final size:24
Alignment explanation
Indices: 31798319--31798404 Score: 59
Period size: 25 Copynumber: 3.4 Consensus size: 24
31798309 TTCACTCACT
31798319 TTTTCTTTTTCATCTCTCTCTTTTTTC
1 TTTTCTTTTT--TCT-TCTCTTTTTTC
** ** *
31798346 GCATTCTTTTCAC-TCTCTTTTTTTAG
1 -TTTTCTTTTTTCTTCTC-TTTTTT-C
31798372 TTTTCTTTTTTCTTCTCTTTTTTC
1 TTTTCTTTTTTCTTCTCTTTTTTC
31798396 TTTT-TTTTT
1 TTTTCTTTTT
31798405 GTGTTTTCAT
Statistics
Matches: 45, Mismatches: 10, Indels: 11
0.68 0.15 0.17
Matches are distributed among these distances:
23 5 0.11
24 8 0.18
25 20 0.44
26 5 0.11
28 7 0.16
ACGTcount: A:0.05, C:0.21, G:0.02, T:0.72
Consensus pattern (24 bp):
TTTTCTTTTTTCTTCTCTTTTTTC
Found at i:31798411 original size:18 final size:17
Alignment explanation
Indices: 31798372--31798426 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
31798362 CTTTTTTTAG
31798372 TTTTCTTTTTTCTTCTCTT
1 TTTTCTTTTTT-TTCTC-T
*
31798391 TTTTCTTTTTTTT-TGT
1 TTTTCTTTTTTTTCTCT
*
31798407 GTTTTCATTTTTTTCT-T
1 -TTTTCTTTTTTTTCTCT
31798424 TTT
1 TTT
31798427 CCCTCATTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
16 4 0.12
17 14 0.44
18 3 0.09
19 11 0.34
ACGTcount: A:0.02, C:0.13, G:0.04, T:0.82
Consensus pattern (17 bp):
TTTTCTTTTTTTTCTCT
Found at i:31800559 original size:17 final size:17
Alignment explanation
Indices: 31800539--31800582 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
31800529 ATGTATATAT
31800539 ATTTTTTTAATTTCAAA
1 ATTTTTTTAATTTCAAA
**
31800556 ATTTTCTTTTTTTTCAAA
1 ATTTT-TTTAATTTCAAA
*
31800574 CTTTTTTTA
1 ATTTTTTTA
31800583 CAACTTCGAG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTTTTTTAATTTCAAA
Found at i:31802578 original size:42 final size:43
Alignment explanation
Indices: 31802511--31802594 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 43
31802501 AAATTTGAAA
* * **
31802511 AAAATAAGAGTTTTGAAAAGGAGAAGATAATTTTGGGTTGTTC
1 AAAATAAGAATTTTAAAAAGGAGAAGATAAACTTGGGTTGTTC
*
31802554 AAAA-AAGAATTTTAAAAAGTAGAAGATAAACTTGGGTTGTT
1 AAAATAAGAATTTTAAAAAGGAGAAGATAAACTTGGGTTGTT
31802595 GGATTTACCC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 32 0.89
43 4 0.11
ACGTcount: A:0.44, C:0.02, G:0.23, T:0.31
Consensus pattern (43 bp):
AAAATAAGAATTTTAAAAAGGAGAAGATAAACTTGGGTTGTTC
Found at i:31814938 original size:25 final size:26
Alignment explanation
Indices: 31814893--31814946 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
31814883 TTCCCCTAAA
*
31814893 TTTCAATTTTATTTAACTATTTAAT-T
1 TTTCAATTTTATTGAACTA-TTAATAT
*
31814919 TTTCAA-TTTATTGAATTATTAATAT
1 TTTCAATTTTATTGAACTATTAATAT
31814944 TTT
1 TTT
31814947 ATACTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 14 0.56
26 6 0.24
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (26 bp):
TTTCAATTTTATTGAACTATTAATAT
Found at i:31822988 original size:18 final size:18
Alignment explanation
Indices: 31822965--31823003 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
31822955 GAGAGTAAAC
*
31822965 TCTAATTAGTATTTGGAG
1 TCTAATTAGTATTCGGAG
*
31822983 TCTAATTATTATTCGGAG
1 TCTAATTAGTATTCGGAG
31823001 TCT
1 TCT
31823004 GTGTATGCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.46
Consensus pattern (18 bp):
TCTAATTAGTATTCGGAG
Found at i:31837492 original size:27 final size:28
Alignment explanation
Indices: 31837354--31837479 Score: 209
Period size: 28 Copynumber: 4.5 Consensus size: 28
31837344 TAAATTGTAC
*
31837354 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
31837382 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
31837410 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
31837438 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
31837465 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31837480 GACTTAATAT
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.25
28 71 0.75
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATAT
Found at i:31844129 original size:12 final size:12
Alignment explanation
Indices: 31844114--31844139 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31844104 CAATCTGTGA
31844114 CTAATTCTGATT
1 CTAATTCTGATT
31844126 CTAATTCTGATT
1 CTAATTCTGATT
31844138 CT
1 CT
31844140 GATTGGAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.19, G:0.08, T:0.50
Consensus pattern (12 bp):
CTAATTCTGATT
Found at i:31844581 original size:30 final size:30
Alignment explanation
Indices: 31844547--31844617 Score: 124
Period size: 30 Copynumber: 2.3 Consensus size: 30
31844537 CAGGACTTAG
31844547 TTTAATTTTGGTTGTAACTAGACTTGGACA
1 TTTAATTTTGGTTGTAACTAGACTTGGACA
31844577 TTTAATTTTGGTTGTAACTAGACTTGGACA
1 TTTAATTTTGGTTGTAACTAGACTTGGACA
31844607 TTGTACATTTT
1 TT-TA-ATTTT
31844618 TTATTTTGGA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 32 0.82
31 2 0.05
32 5 0.13
ACGTcount: A:0.25, C:0.10, G:0.18, T:0.46
Consensus pattern (30 bp):
TTTAATTTTGGTTGTAACTAGACTTGGACA
Found at i:31850499 original size:32 final size:29
Alignment explanation
Indices: 31850458--31850529 Score: 85
Period size: 32 Copynumber: 2.4 Consensus size: 29
31850448 TCAAAGAAGA
31850458 AAGAAGAAGGAACAA-AGGAAAAGGGAAAG
1 AAGAAGAAGGAA-AAGAGGAAAAGGGAAAG
31850487 NNNAAGAAGAAGGAAAAGAGGAAAAGGGAAAG
1 ---AAGAAGAAGGAAAAGAGGAAAAGGGAAAG
31850519 -AGAACGAAGGA
1 AAGAA-GAAGGA
31850530 GGTGAAACAT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
28 4 0.11
29 6 0.16
31 2 0.05
32 26 0.68
ACGTcount: A:0.58, C:0.03, G:0.35, T:0.00
Consensus pattern (29 bp):
AAGAAGAAGGAAAAGAGGAAAAGGGAAAG
Found at i:31852972 original size:52 final size:53
Alignment explanation
Indices: 31852894--31853000 Score: 148
Period size: 52 Copynumber: 2.0 Consensus size: 53
31852884 CTCATTTTCA
*
31852894 TTTCTATTTTGAGAAAATCACAATCATTTCC-AAATGATTT-CATTTTCTCCAT
1 TTTCTATTTTGAGAAAACCACAATCATTTCCTAAATGATTTCCA-TTTCTCCAT
* *
31852946 TTTC-ATTTTGGAGAAAACCATAATCATTTCCTAAATGTTTTCCATTTCTCCAT
1 TTTCTATTTT-GAGAAAACCACAATCATTTCCTAAATGATTTCCATTTCTCCAT
31852999 TT
1 TT
31853001 GTATTCATTC
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
51 5 0.10
52 23 0.47
53 19 0.39
54 2 0.04
ACGTcount: A:0.29, C:0.20, G:0.07, T:0.45
Consensus pattern (53 bp):
TTTCTATTTTGAGAAAACCACAATCATTTCCTAAATGATTTCCATTTCTCCAT
Found at i:31863657 original size:20 final size:21
Alignment explanation
Indices: 31863632--31863683 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 21
31863622 AGGAAGACAG
31863632 AAAAAGAAATTGAAAAAG-AA
1 AAAAAGAAATTGAAAAAGTAA
*
31863652 AAAAAG-AA-TGAAAAAGTAC
1 AAAAAGAAATTGAAAAAGTAA
*
31863671 AAAAAGAGATTGA
1 AAAAAGAAATTGA
31863684 GAGTGAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 8 0.30
19 9 0.33
20 7 0.26
21 3 0.11
ACGTcount: A:0.69, C:0.02, G:0.17, T:0.12
Consensus pattern (21 bp):
AAAAAGAAATTGAAAAAGTAA
Found at i:31868349 original size:28 final size:27
Alignment explanation
Indices: 31868292--31868443 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
31868282 TAAATTGTGC
*
31868292 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
31868319 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
31868347 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
31868374 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
31868402 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
31868429 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31868444 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:31868356 original size:55 final size:55
Alignment explanation
Indices: 31868292--31868443 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
31868282 TAAATTGTGC
*
31868292 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
31868347 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
31868402 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
31868444 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:31868829 original size:54 final size:54
Alignment explanation
Indices: 31868723--31868829 Score: 187
Period size: 54 Copynumber: 2.0 Consensus size: 54
31868713 TGATGAGTAT
* *
31868723 ATGGAATGTGAATGCATGATTTGGTATGAGATTGAACCGATAGGTCGGAGGAAC
1 ATGGAATGTGAATGCATGACTTGGTATGAGATTGAACCGATAGGTCGAAGGAAC
*
31868777 ATGGAATGTGAATGCATGACTTGGTATGAGATTGAACCGATAGGTCTAAGGAA
1 ATGGAATGTGAATGCATGACTTGGTATGAGATTGAACCGATAGGTCGAAGGAA
31868830 TTATGGTATG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.33, C:0.09, G:0.32, T:0.26
Consensus pattern (54 bp):
ATGGAATGTGAATGCATGACTTGGTATGAGATTGAACCGATAGGTCGAAGGAAC
Found at i:31876263 original size:56 final size:56
Alignment explanation
Indices: 31876197--31876346 Score: 171
Period size: 56 Copynumber: 2.7 Consensus size: 56
31876187 GAGATTGGCG
* *
31876197 CTAAGAGTGCGGGTTTAAAT-TGTGCAGCACTAAGTGTGCGAAT-TGACTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATATGT--AGCACTAAGTGTGCGAATATGACTATGTAGCA
* * * *
31876253 CTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATATGTAGCACTAAGTGTGCGAATATGACTATGTAGCA
* * * *
31876309 CTAAGTGTGCGAG-TTGATTATATAGCACTGAGTGTGCG
1 CTAAGTGTGCGAGTTTAAATATGTAGCACTAAGTGTGCG
31876347 GACTTAATAA
Statistics
Matches: 83, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
55 39 0.47
56 41 0.49
57 3 0.04
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATATGTAGCACTAAGTGTGCGAATATGACTATGTAGCA
Found at i:31876279 original size:28 final size:28
Alignment explanation
Indices: 31876222--31876346 Score: 182
Period size: 28 Copynumber: 4.5 Consensus size: 28
31876212 TAAATTGTGC
*
31876222 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
31876249 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
31876277 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
31876305 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
31876332 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31876347 GACTTAATAA
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
27 38 0.42
28 53 0.58
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:31876286 original size:55 final size:55
Alignment explanation
Indices: 31876222--31876346 Score: 189
Period size: 55 Copynumber: 2.3 Consensus size: 55
31876212 TAAATTGTGC
*
31876222 AGCACTAAGTGTGCGAAT-TGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATATGACTATGTAGCACTAAGTGTGCGAG-TTGACTATAT
* * *
31876277 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATATGACTATGTAGCACTAAGTGTGCGAGTTGACTATAT
*
31876332 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31876347 GACTTAATAA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 39 0.61
56 25 0.39
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAATATGACTATGTAGCACTAAGTGTGCGAGTTGACTATAT
Found at i:31884181 original size:19 final size:20
Alignment explanation
Indices: 31884139--31884181 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
31884129 TAATGTTTTC
*
31884139 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
31884159 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
31884177 TATTC
1 TATTC
31884182 CACTTAGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:31884403 original size:51 final size:51
Alignment explanation
Indices: 31884348--31884535 Score: 193
Period size: 51 Copynumber: 3.7 Consensus size: 51
31884338 TCAATGGTAC
* * * **
31884348 CCGATTCACATAGTAGCCTACACACAGTACTACACAAGTGA-CCATTTCCAT
1 CCGATACACATAGTAGCCTGCACATAGTACTACACAAGTGATCCA-AGCCAT
* * * *
31884399 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTAT
1 CCGATACACATAGTAGCCTGCACATAGTACTACACAAGTGATCCAAGCCAT
* * * * *
31884450 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGCGA-CCCA-TCATT
1 CCGATACACATAGTAGCCTGCACATAGTACTACACAAGTGATCCAAGCCA-T
* *
31884500 CCGATACACGTAGTAGCTTGCACATAGTACTACACA
1 CCGATACACATAGTAGCCTGCACATAGTACTACACA
31884536 CATGAAAATC
Statistics
Matches: 115, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
49 1 0.01
50 36 0.31
51 76 0.66
52 2 0.02
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (51 bp):
CCGATACACATAGTAGCCTGCACATAGTACTACACAAGTGATCCAAGCCAT
Found at i:31884530 original size:101 final size:101
Alignment explanation
Indices: 31884354--31884536 Score: 280
Period size: 101 Copynumber: 1.8 Consensus size: 101
31884344 GTACCCGATT
*
31884354 CACATAGTAGCCTACACACAGTACTACACAAGTGACCATTTCCATCCGATACACGTAGTAGCCTG
1 CACATAGTAGCCTACACACAGTACTACACAAGCGACCA-TTCCATCCGATACACGTAGTAGCCTG
31884419 CACATAGTACTACACACGTGATCGAAGCTATCCGGTA
65 CACATAGTACTACACACGTGATCGAAGCTATCCGGTA
* * * *
31884456 CACATAGTAGCCTGCACATAGTACTACACATGCGACCCA-T-CATTCCGATACACGTAGTAGCTT
1 CACATAGTAGCCTACACACAGTACTACACAAGCGA-CCATTCCA-TCCGATACACGTAGTAGCCT
31884519 GCACATAGTACTACACAC
64 GCACATAGTACTACACAC
31884537 ATGAAAATCA
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
100 2 0.03
101 38 0.51
102 31 0.42
103 3 0.04
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (101 bp):
CACATAGTAGCCTACACACAGTACTACACAAGCGACCATTCCATCCGATACACGTAGTAGCCTGC
ACATAGTACTACACACGTGATCGAAGCTATCCGGTA
Found at i:31890012 original size:128 final size:128
Alignment explanation
Indices: 31889784--31890018 Score: 391
Period size: 128 Copynumber: 1.8 Consensus size: 128
31889774 TTATTTAGTT
* * **
31889784 CAAGTAATTTCTTGCATACTACAACAACTTGTTAGAATTCATTAGGCTCAAATTGGACTAATTGG
1 CAAGTAATTTATTGCACACTACAACAACTCATTAGAATTCATTAGGCTCAAATTGGACTAATTGG
31889849 TCAAGAAACATCATAAAAAGACTCATTTTATTCAATTATAGACTCATTTTATTCATTAGTGTG
66 TCAAGAAACATCATAAAAAGACTCATTTTATTCAATTATAGACTCATTTTATTCATTAGTGTG
* *
31889912 CAAGTAATTTATTGCACACTACATCAACTCATTAGAATTCATTAGGCTCAAATTGGCCTAATTGG
1 CAAGTAATTTATTGCACACTACAACAACTCATTAGAATTCATTAGGCTCAAATTGGACTAATTGG
*
31889977 TCACA-AAACATCATAAAAAGATTCATTTTATTCAATTATAGA
66 TCA-AGAAACATCATAAAAAGACTCATTTTATTCAATTATAGA
31890019 TAACTAACAT
Statistics
Matches: 99, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
128 98 0.99
129 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.34
Consensus pattern (128 bp):
CAAGTAATTTATTGCACACTACAACAACTCATTAGAATTCATTAGGCTCAAATTGGACTAATTGG
TCAAGAAACATCATAAAAAGACTCATTTTATTCAATTATAGACTCATTTTATTCATTAGTGTG
Found at i:31892383 original size:16 final size:16
Alignment explanation
Indices: 31892362--31892395 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
31892352 TTCATCTCAC
31892362 TCTAAAAATTAAAAGT
1 TCTAAAAATTAAAAGT
31892378 TCTAAAAATTAAAAGT
1 TCTAAAAATTAAAAGT
31892394 TC
1 TC
31892396 CATGGAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (16 bp):
TCTAAAAATTAAAAGT
Done.