Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
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: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 78
Found at i:3918748 original size:37 final size:37
Alignment explanation
Indices: 3918592--3918764 Score: 165
Period size: 37 Copynumber: 4.6 Consensus size: 37
3918582 AACACGTTTT
3918592 TATATAGTTTTGAAAACATATTTTTGAAAACATATATAA
1 TATATAGTTTTGAAAACATATTTTTGAAAAC--ATATAA
** * *
3918631 TATATAGTTTTTTAAA-ATAGGTTTTGGAAGACATATAA
1 TATATAGTTTTGAAAACATA--TTTTTGAAAACATATAA
* * *
3918669 TATATAGTTTTGAAAACACATTTCTAAAAACA-AGTAA
1 TATATAGTTTTGAAAACATATTTTTGAAAACATA-TAA
* *
3918706 TATATAGTTTT-CAAA-ATATTTTTGAAAACGTATATA
1 TATATAGTTTTGAAAACATATTTTTGAAAACATATA-A
3918742 TAATATAGTTTTTGAAAACATAT
1 T-ATATAG-TTTTGAAAACATAT
3918765 AGTATATAGT
Statistics
Matches: 107, Mismatches: 17, Indels: 19
0.75 0.12 0.13
Matches are distributed among these distances:
35 13 0.12
36 7 0.07
37 28 0.26
38 27 0.25
39 19 0.18
40 13 0.12
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (37 bp):
TATATAGTTTTGAAAACATATTTTTGAAAACATATAA
Found at i:3918771 original size:24 final size:25
Alignment explanation
Indices: 3918724--3918782 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 25
3918714 TTTCAAAATA
3918724 TTTTTGAAAACGTATATATAATATAG
1 TTTTTGAAAACG-ATATATAATATAG
3918750 TTTTTGAAAAC-ATATAGT-ATATAG
1 TTTTTGAAAACGATATA-TAATATAG
3918774 TTTTT-AAAA
1 TTTTTGAAAA
3918783 TGGTTTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
23 4 0.12
24 16 0.50
25 1 0.03
26 11 0.34
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.44
Consensus pattern (25 bp):
TTTTTGAAAACGATATATAATATAG
Found at i:3918851 original size:21 final size:21
Alignment explanation
Indices: 3918825--3918879 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
3918815 TACATATATA
3918825 TATATATATTATTTAT-TTAT
1 TATATATATTATTTATATTAT
3918845 TAT-TATATTATATTATATTAT
1 TATATATATTAT-TTATATTAT
3918866 TAT-TAATATTATTT
1 TATAT-ATATTATTT
3918880 TTCGTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.25
20 7 0.22
21 10 0.31
22 7 0.22
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TATATATATTATTTATATTAT
Found at i:3918857 original size:24 final size:21
Alignment explanation
Indices: 3918829--3918877 Score: 75
Period size: 19 Copynumber: 2.4 Consensus size: 21
3918819 TATATATATA
3918829 TATATTAT-TTAT-TTATTAT
1 TATATTATATTATATTATTAT
3918848 TATATTATATTATATTATTAT
1 TATATTATATTATATTATTAT
3918869 TAATATTAT
1 T-ATATTAT
3918878 TTTTCGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.30
20 4 0.15
21 8 0.30
22 7 0.26
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TATATTATATTATATTATTAT
Found at i:3920084 original size:14 final size:14
Alignment explanation
Indices: 3920067--3920093 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3920057 CATTGTCTTT
3920067 TTATTTTATTATTA
1 TTATTTTATTATTA
3920081 TTATTTTATTATT
1 TTATTTTATTATT
3920094 TATTTTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTTTATTATTA
Found at i:3920138 original size:14 final size:14
Alignment explanation
Indices: 3920067--3920152 Score: 50
Period size: 14 Copynumber: 5.9 Consensus size: 14
3920057 CATTGTCTTT
3920067 TTATTTTATTATT-A
1 TTATTTTATT-TTAA
*
3920081 TTATTTTATTATTTA
1 TTATTTTATT-TTAA
* *
3920096 TT-TTTAAATTTAA
1 TTATTTTATTTTAA
*
3920109 TATTTTCTTCATTTTAA
1 T-TATT-TT-ATTTTAA
*
3920126 TTATTTTATTTTAT
1 TTATTTTATTTTAA
*
3920140 TCTATTCTATTTT
1 T-TATTTTATTTT
3920153 TTAACATTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 11
0.75 0.10 0.14
Matches are distributed among these distances:
13 4 0.07
14 26 0.45
15 17 0.29
16 4 0.07
17 7 0.12
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATTTTATTTTAA
Found at i:3921693 original size:31 final size:32
Alignment explanation
Indices: 3921644--3921712 Score: 113
Period size: 31 Copynumber: 2.2 Consensus size: 32
3921634 GTACCGATAC
*
3921644 TACTCTTAAGCCCATTTCAACACAAAATTTTT
1 TACTCTTAAGCCCATTTCAACACAAAAGTTTT
*
3921676 TACTCTT-AGGCCATTTCAACACAAAAGTTTT
1 TACTCTTAAGCCCATTTCAACACAAAAGTTTT
3921707 TACTCT
1 TACTCT
3921713 CAATAAAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 28 0.80
32 7 0.20
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.38
Consensus pattern (32 bp):
TACTCTTAAGCCCATTTCAACACAAAAGTTTT
Found at i:3923854 original size:5 final size:5
Alignment explanation
Indices: 3923846--3923880 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
3923836 TTTATCTTGT
*
3923846 CCTAC CCTAC CCTAC CCTAC CCTGC CCTAC CCTAC
1 CCTAC CCTAC CCTAC CCTAC CCTAC CCTAC CCTAC
3923881 ATATTGTCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.17, C:0.60, G:0.03, T:0.20
Consensus pattern (5 bp):
CCTAC
Found at i:3928388 original size:2 final size:2
Alignment explanation
Indices: 3928381--3928443 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
3928371 TTTAATACAA
3928381 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3928423 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
3928444 CACAATACTT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3929009 original size:5 final size:5
Alignment explanation
Indices: 3928999--3929032 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
3928989 TTATGTAATC
3928999 AATAA AATAAAA AATAA AATAA AATAA AATAA AA
1 AATAA AAT--AA AATAA AATAA AATAA AATAA AA
3929033 ATTTAAAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 22 0.81
7 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:3930055 original size:25 final size:25
Alignment explanation
Indices: 3930024--3930071 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
3930014 TTACTTTGGC
* * *
3930024 TTTTAAATATATTTTTTGTTTTTAT
1 TTTTAAAAACATTTTTTATTTTTAT
3930049 TTTTAAAAACATTTTTTATTTTT
1 TTTTAAAAACATTTTTTATTTTT
3930072 TTAAACTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (25 bp):
TTTTAAAAACATTTTTTATTTTTAT
Found at i:3934386 original size:16 final size:18
Alignment explanation
Indices: 3934353--3934388 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
3934343 TGAAAAAAAA
3934353 AAATAAAACAACATAATG
1 AAATAAAACAACATAATG
3934371 AAATAAAA-AA-ATAATG
1 AAATAAAACAACATAATG
3934387 AA
1 AA
3934389 TATTTGCGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 2 0.11
18 8 0.44
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.17
Consensus pattern (18 bp):
AAATAAAACAACATAATG
Found at i:3941653 original size:23 final size:23
Alignment explanation
Indices: 3941623--3941678 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
3941613 AAACACGGAG
** *
3941623 ATGGCACACAGGTACAGTAGGAC
1 ATGGCACACAGGTACAACAGAAC
3941646 ATGGCACACAGGTACAACAGAAC
1 ATGGCACACAGGTACAACAGAAC
3941669 ATGGCACACA
1 ATGGCACACA
3941679 ATGATACGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.39, C:0.25, G:0.25, T:0.11
Consensus pattern (23 bp):
ATGGCACACAGGTACAACAGAAC
Found at i:3944197 original size:23 final size:20
Alignment explanation
Indices: 3944166--3944210 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
3944156 ATGTATCATT
3944166 ATTTATAAAACTTTGTTAGTTTA
1 ATTTATAAAA--TT-TTAGTTTA
*
3944189 ATTTGTAAAATTTTAGTTTA
1 ATTTATAAAATTTTAGTTTA
3944209 AT
1 AT
3944211 CTTTCTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 10 0.48
21 2 0.10
23 9 0.43
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (20 bp):
ATTTATAAAATTTTAGTTTA
Found at i:3945094 original size:32 final size:32
Alignment explanation
Indices: 3945058--3945137 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 32
3945048 ACAAAAAATG
* * *
3945058 ATTGATTTGATATTGACTCGACCTAAAAATCA
1 ATTGATTTGATATTGACCCGACCCAAAAAGCA
* * *
3945090 ATTGATTCGATATTAACCCTACCCAAAAAGCA
1 ATTGATTTGATATTGACCCGACCCAAAAAGCA
*
3945122 ATTGATTTGATTTTGA
1 ATTGATTTGATATTGA
3945138 TCTAAATCGA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.35
Consensus pattern (32 bp):
ATTGATTTGATATTGACCCGACCCAAAAAGCA
Found at i:3947163 original size:17 final size:18
Alignment explanation
Indices: 3947125--3947170 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
3947115 GTTTATGAGA
3947125 GAATTGGAATCTGTGAAG
1 GAATTGGAATCTGTGAAG
*
3947143 GAATTGGAATCTGT-CAG
1 GAATTGGAATCTGTGAAG
*
3947160 GAATTGAAATC
1 GAATTGGAATC
3947171 CAATTTCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.28
Consensus pattern (18 bp):
GAATTGGAATCTGTGAAG
Found at i:3947903 original size:263 final size:251
Alignment explanation
Indices: 3947556--3948057 Score: 752
Period size: 258 Copynumber: 2.0 Consensus size: 251
3947546 GACCCGGCCG
* * *
3947556 AAATAAAGTTTCACCGACCCGACCCGAATATATGAATTAGAAACTCGACCCGAAATAATAAAAAA
1 AAATAAAGTTTCACCGAACCGACCCAAATATATGAATTAGAAACCCGACCCGAAATAATAAAAAA
* *
3947621 ATTATTTTTATTCAATAAAAATAGTGACTTAATTGAAAAAAAATTATATATAGAGGGGTATTATT
66 ATTATTTTTATTCAATAAAAACAATGACTTAATTG-AAAAAAATTATATATAGAGGGGTATTATT
*
3947686 GTAATTATTCCTAAATATATAAGGTAAAATTATATATTTTTTGGGTCGGGTCAGGTCGGGTATTT
130 GTAATTATTCCTAAATATATAAGGTAAAATTATATA-TATTT---TCGGGTCAGGTCGGGTATTT
*
3947751 TTCACCCTAAACCCGAACCCGACCAGACCCGAATATCACACTTAAAAAAACCAATCCGACCA
191 TTCACCCTAAACCCGAACCCGACCAGACCAGAA-ATCACACTTAAAAAAACCAATCCGACCA
*
3947813 AAATAAAGTTTCACCCGAATCGACCCAAATATATGAATTAGAAACCCGACCTGACCCGAAATAAT
1 AAATAAAGTTTCA-CCGAACCGACCCAAATATATGAATTAGAAA--C--CC-GACCCGAAATAAT
*
3947878 AAAAAAATTATTTTTATTTAATAAAAACAATGACTTAATTGAAAAAAATTATATATAGAGGGGTA
60 AAAAAAATTATTTTTATTCAATAAAAACAATGACTTAATTGAAAAAAATTATATATAGAGGGGTA
* *
3947943 TTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCTGGTCGGGTCGGGTATT
125 TTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCAGGTCGGGTATT
** ** *
3948008 TTTCACCCTAAACCCTTACTTGACCCGACCAGAAATCACACTTAAAAAAA
190 TTTCACCCTAAACCCGAACCCGACCAGACCAGAAATCACACTTAAAAAAA
3948058 TCGACCCGAC
Statistics
Matches: 223, Mismatches: 16, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
257 29 0.13
258 72 0.32
260 1 0.00
261 4 0.02
262 66 0.30
263 51 0.23
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (251 bp):
AAATAAAGTTTCACCGAACCGACCCAAATATATGAATTAGAAACCCGACCCGAAATAATAAAAAA
ATTATTTTTATTCAATAAAAACAATGACTTAATTGAAAAAAATTATATATAGAGGGGTATTATTG
TAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCAGGTCGGGTATTTTTCAC
CCTAAACCCGAACCCGACCAGACCAGAAATCACACTTAAAAAAACCAATCCGACCA
Found at i:3949626 original size:14 final size:13
Alignment explanation
Indices: 3949607--3949648 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 13
3949597 CATAGCTCAC
3949607 TCGGATAGCCTCGG
1 TCGGAT-GCCTCGG
3949621 TCGGATGCCCTCGG
1 TCGGATG-CCTCGG
3949635 TCGGATGGCCTCGG
1 TCGGAT-GCCTCGG
3949649 ATGCCCATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.04
14 24 0.92
15 1 0.04
ACGTcount: A:0.10, C:0.31, G:0.38, T:0.21
Consensus pattern (13 bp):
TCGGATGCCTCGG
Found at i:3950800 original size:40 final size:40
Alignment explanation
Indices: 3950754--3950856 Score: 179
Period size: 40 Copynumber: 2.6 Consensus size: 40
3950744 AACGAGCCAT
* *
3950754 TTGTTCATGTTCGTTCATTTAATTAAATGAACGCAAAATC
1 TTGTTCATGTTCGTTCATTTAATTAAACGAACACAAAATC
3950794 TTGTTCATGTTCGTTCATTTAATTAAACGAACACAAAATC
1 TTGTTCATGTTCGTTCATTTAATTAAACGAACACAAAATC
*
3950834 TTGTTCATGTTTGTTCATTTAAT
1 TTGTTCATGTTCGTTCATTTAAT
3950857 ACATAAACGA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.44
Consensus pattern (40 bp):
TTGTTCATGTTCGTTCATTTAATTAAACGAACACAAAATC
Found at i:3958683 original size:80 final size:81
Alignment explanation
Indices: 3958590--3958796 Score: 362
Period size: 81 Copynumber: 2.6 Consensus size: 81
3958580 ACTTCAAAAT
*
3958590 TTAATTTAGTATAAACCTTAATAATAAATATTAACATAATGTAATTATTTAAATATATCAACATA
1 TTAA-TTAATATAAACCTTAATAATAAATATTAACATAATGTAATTATTTAAATATATCAACATA
*
3958655 T-AAAAAATATTTAATC
65 TAAAAAAATATCTAATC
*
3958671 TTAATTAATATAAACTTTAATAATAAATATTAACATAATGTAATTATTTAAATATATCAACATAT
1 TTAATTAATATAAACCTTAATAATAAATATTAACATAATGTAATTATTTAAATATATCAACATAT
3958736 AAAAAAATATCTAATC
66 AAAAAAATATCTAATC
*
3958752 TTAATTAATATAAACCTTAATAATAAATATTAACCTAATGTAATT
1 TTAATTAATATAAACCTTAATAATAAATATTAACATAATGTAATT
3958797 TAACAATAAT
Statistics
Matches: 120, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
80 59 0.49
81 61 0.51
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (81 bp):
TTAATTAATATAAACCTTAATAATAAATATTAACATAATGTAATTATTTAAATATATCAACATAT
AAAAAAATATCTAATC
Found at i:3963683 original size:2 final size:2
Alignment explanation
Indices: 3963676--3963706 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3963666 AATAACGTAA
3963676 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3963707 AATTAGTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3965820 original size:105 final size:105
Alignment explanation
Indices: 3965526--3966090 Score: 873
Period size: 105 Copynumber: 5.4 Consensus size: 105
3965516 GTATTGTTCC
* * * * * * *
3965526 GAGTCCAATATCCTCCGCTGTGAAGTTGAAACTGGTTCTGGAACTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA-TGTTTGTTGACAA
* * * *
3965591 CTAACGGTCCC-TCGTCGTGAAGTTGAACTTGTG-TGTCCG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * ** *
3965630 GAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTCGGTTGACAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAA
* *** *
3965695 TCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTACTGTCTT
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
3965736 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTTACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
3965801 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
3965841 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
3965906 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
3965946 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
3966011 CAGCGGTCCCTTCTTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
**
3966051 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
3966091 GGTAAAACCT
Statistics
Matches: 425, Mismatches: 33, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
104 60 0.14
105 312 0.73
106 53 0.12
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:3966933 original size:52 final size:53
Alignment explanation
Indices: 3966871--3966971 Score: 132
Period size: 53 Copynumber: 1.9 Consensus size: 53
3966861 CCTCTTTTTC
* * * *
3966871 TTTTTTTC-TTTTCTCAATTTAGGGCGCCCTTTTGGGTTTTCACCCTAAACGT
1 TTTTTTTCTTTTTCTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACGT
* * *
3966923 TTTTTTTCTTTTTTTTAACTTAGGACGCCCTCTCGGGTTTTCATCCTAA
1 TTTTTTTCTTTTTCTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAA
3966972 GCGAAGTATT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
52 8 0.20
53 33 0.80
ACGTcount: A:0.14, C:0.23, G:0.14, T:0.50
Consensus pattern (53 bp):
TTTTTTTCTTTTTCTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACGT
Found at i:3977282 original size:44 final size:47
Alignment explanation
Indices: 3977228--3977354 Score: 115
Period size: 44 Copynumber: 2.7 Consensus size: 47
3977218 AGAAAAAAGG
3977228 TAATCGAATAAAAAATAAATGAACATAATAATAATAGAATAA-ATAAATA
1 TAATC-AATAAAAAATAAATGAACATAATAATAATAGAATAAGA-AAA-A
* * * *
3977277 CAAT-AATAAAAATATATAT-AA-ATTA-AAT-ATAGCATAAGAAAAA
1 TAATCAATAAAAA-ATAAATGAACATAATAATAATAGAATAAGAAAAA
*
3977320 TAATCAATAAAAAA-AAATGTACATAAATAATAATA
1 TAATCAATAAAAAATAAATGAACAT-AATAATAATA
3977355 ATAACGTAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 18
0.70 0.09 0.20
Matches are distributed among these distances:
42 3 0.05
43 6 0.10
44 21 0.34
45 5 0.08
46 6 0.10
47 13 0.21
48 5 0.08
49 3 0.05
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.25
Consensus pattern (47 bp):
TAATCAATAAAAAATAAATGAACATAATAATAATAGAATAAGAAAAA
Found at i:3977371 original size:2 final size:2
Alignment explanation
Indices: 3977364--3977390 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3977354 AATAACGTAA
3977364 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
3977391 AATTAGTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3977438 original size:20 final size:20
Alignment explanation
Indices: 3977420--3977462 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
3977410 TAGTAATATT
3977420 TATATATATAAAATAATATAA
1 TATA-ATATAAAATAATATAA
* *
3977441 TATAATATATAATAATTTAA
1 TATAATATAAAATAATATAA
3977461 TA
1 TA
3977463 AACACAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TATAATATAAAATAATATAA
Found at i:3983643 original size:21 final size:21
Alignment explanation
Indices: 3983617--3983675 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
3983607 TGATTTATTA
3983617 TTATGGATTTCAAGTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
*
3983638 TTATGGATTTCAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
*
3983659 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
3983676 ATTGGATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.20, C:0.07, G:0.22, T:0.51
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:3983938 original size:44 final size:44
Alignment explanation
Indices: 3983886--3983971 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
3983876 GTATTTATTC
*
3983886 ACAAACGCCACTATATGAT-ATAACATTTAGCGGCATTTTTGGAA
1 ACAAACGCCACTATAT-ATCAGAACATTTAGCGGCATTTTTGGAA
*
3983930 ACAAACGCCACTATATATCAGAACATTTAGCGGCGTTTTTGG
1 ACAAACGCCACTATATATCAGAACATTTAGCGGCATTTTTGG
3983972 GACAAAACTC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 2 0.05
44 37 0.95
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (44 bp):
ACAAACGCCACTATATATCAGAACATTTAGCGGCATTTTTGGAA
Found at i:3984046 original size:41 final size:40
Alignment explanation
Indices: 3984013--3984093 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
3984003 CGGTGTTTGG
* *
3984013 AAAAACCGCCGCTAAATATCATAACCTTTAGCGGCGTTTGTA
1 AAAAAACGCCACTAAA-A-CATAACCTTTAGCGGCGTTTGTA
* **
3984055 AAAAAAGGCCACTAAAACATAACCTTTAGTTGCGTTTGT
1 AAAAAACGCCACTAAAACATAACCTTTAGCGGCGTTTGT
3984094 GAACGACAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 20 0.59
41 1 0.03
42 13 0.38
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (40 bp):
AAAAAACGCCACTAAAACATAACCTTTAGCGGCGTTTGTA
Found at i:3985156 original size:16 final size:16
Alignment explanation
Indices: 3985135--3985167 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3985125 AACTACAACG
3985135 TATACAAGACCTCTAA
1 TATACAAGACCTCTAA
*
3985151 TATACAAGCCCTCTAA
1 TATACAAGACCTCTAA
3985167 T
1 T
3985168 TATCCCACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.27, G:0.06, T:0.27
Consensus pattern (16 bp):
TATACAAGACCTCTAA
Found at i:3986112 original size:182 final size:181
Alignment explanation
Indices: 3985806--3986467 Score: 907
Period size: 182 Copynumber: 3.6 Consensus size: 181
3985796 TTGTCGGTAT
* * * * *
3985806 GTATCGATACAATTAAAATATGTATTGATACATAACAATATATCAGGTAAAAATATGACAAAA-T
1 GTATCGATAC-TTTAAAAAATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAAACC
* * * * *
3985870 TGATTCA-ATATGACAAAACCGGTAAAGCGCTTCCGAATATGTTGAAAGTATAGATTCCATTGAA
65 GGTTTCATA-ATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTATAGATTCCATTCAA
* *
3985934 ATAAGTATCGACACTTTTGGAATTTAAGAGAAAAGCG-ACATAGCGCCTATAGA
129 ATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGCGTA-ATAGCGCCTATAAA
* * *
3985987 GTATCGATACGTTATAAACATGTATCGATACATAACAATATAACAGGTAAAAATATGATAAAACC
1 GTATCGATACTTTA-AAAAATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAAACC
* * *
3986052 GGTTTCATAATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAATATTGATTCCATTTAAA
65 GGTTTCATAATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTATAGATTCCATTCAAA
* * *
3986117 TAAGTATTGACACTTTTAGAATTTAAAAGAAAAGTAGTAATAGCGCCTATAAA
130 TAAGTATCGACACTTTTGGAATTTAAAAGAAAAG-CGTAATAGCGCCTATAAA
* *
3986170 GTATCGATACTTTAAAAAATGTATCGATACATAACAATATAACAAGTAAAAATATGACAAAACCA
1 GTATCGATACTTTAAAAAATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAAACCG
* * * * ** * *
3986235 ATTTCATTATGAAAAAATCGGTAAAAAGCTATCGGATATGTTGAAAGTATCGATTCCATTCAAAT
66 GTTTCATAATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTATAGATTCCATTCAAAT
3986300 AAGTATCGACACTTTTGGAATTTAAAAGAAAAGCAGTAATAGCGCCTATAAA
131 AAGTATCGACACTTTTGGAATTTAAAAGAAAAGC-GTAATAGCGCCTATAAA
* * *
3986352 GTATCGATACTTTATAAAAATGTATCAATACATAACAATATAACAGGTAAAAATATGACAGAACT
1 GTATCGATACTTTA-AAAAATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAAACC
* * *
3986417 GGTTTCATCATGACAAAACCGGTAAAGCGCTACTGGATATGTTGAATGTAT
65 GGTTTCATAATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTAT
3986468 CGACACTTTA
Statistics
Matches: 424, Mismatches: 50, Indels: 12
0.87 0.10 0.02
Matches are distributed among these distances:
180 3 0.01
181 54 0.13
182 251 0.59
183 115 0.27
184 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.28
Consensus pattern (181 bp):
GTATCGATACTTTAAAAAATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAAACCG
GTTTCATAATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTATAGATTCCATTCAAAT
AAGTATCGACACTTTTGGAATTTAAAAGAAAAGCGTAATAGCGCCTATAAA
Found at i:3989369 original size:20 final size:20
Alignment explanation
Indices: 3989332--3989386 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
3989322 AAGGGTTCAT
* *
3989332 AGGTCCTTCAGGACATACAG
1 AGGTCCTTCGGGATATACAG
* *
3989352 AGGTCCTTTGGGATATACAT
1 AGGTCCTTCGGGATATACAG
*
3989372 AGGTCATTCGGGATA
1 AGGTCCTTCGGGATA
3989387 ATTTCATATG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
AGGTCCTTCGGGATATACAG
Found at i:3989473 original size:17 final size:17
Alignment explanation
Indices: 3989453--3989485 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3989443 CACAACCTCA
3989453 AAGTACTCACATATATT
1 AAGTACTCACATATATT
*
3989470 AAGTTCTCACATATAT
1 AAGTACTCACATATAT
3989486 ACATAAGCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.36
Consensus pattern (17 bp):
AAGTACTCACATATATT
Found at i:3996496 original size:24 final size:25
Alignment explanation
Indices: 3996467--3996516 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
3996457 TTTTTATTTT
3996467 TTATATAAAATGAT-AATATAATTA
1 TTATATAAAATGATAAATATAATTA
*
3996491 TTATATAAAATGATAAATTTAATTA
1 TTATATAAAATGATAAATATAATTA
3996516 T
1 T
3996517 AAATGTAGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (25 bp):
TTATATAAAATGATAAATATAATTA
Found at i:3996824 original size:15 final size:15
Alignment explanation
Indices: 3996806--3996836 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
3996796 GGTAGTAGGA
3996806 GGGATGACAGTGAGG
1 GGGATGACAGTGAGG
3996821 GGGATGACAGTGAGG
1 GGGATGACAGTGAGG
3996836 G
1 G
3996837 AAAATAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.55, T:0.13
Consensus pattern (15 bp):
GGGATGACAGTGAGG
Found at i:4002439 original size:105 final size:105
Alignment explanation
Indices: 4002245--4002454 Score: 285
Period size: 105 Copynumber: 2.0 Consensus size: 105
4002235 GACCACATAT
* * *
4002245 AAATTCCTTAAGAATCATATACATATACCAATGATCAAGTAAGTGTCTCAAAAGACCTCATACAT
1 AAATTCCTTAAGAATCATATACATATACCAAAGACCAAATAAGTGTCTCAAAAGACCTCATACAT
4002310 GATCCAAAGAATACATATACGTCCCAAAAGACCACGTAGA
66 GATCCAAAGAATACATATACGTCCCAAAAGACCACGTAGA
* * * *
4002350 AAATTCCTTAAGAATCATATACATATGCTAAAGACCAAATACGTGTCTCAAAAGACCTCATAGAT
1 AAATTCCTTAAGAATCATATACATATACCAAAGACCAAATAAGTGTCTCAAAAGACCTCATACAT
* * * * * * * *
4002415 GTTCCATAGGATACCTATATGTCCCGAAGGACCGCGTAGA
66 GATCCAAAGAATACATATACGTCCCAAAAGACCACGTAGA
4002455 CCCTCGACTC
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
105 90 1.00
ACGTcount: A:0.40, C:0.22, G:0.14, T:0.24
Consensus pattern (105 bp):
AAATTCCTTAAGAATCATATACATATACCAAAGACCAAATAAGTGTCTCAAAAGACCTCATACAT
GATCCAAAGAATACATATACGTCCCAAAAGACCACGTAGA
Found at i:4003927 original size:22 final size:22
Alignment explanation
Indices: 4003902--4004004 Score: 147
Period size: 22 Copynumber: 4.7 Consensus size: 22
4003892 TCGATTGAGG
*
4003902 GGGTATCGATTCCCCTTTGAAT
1 GGGTACCGATTCCCCTTTGAAT
*
4003924 GGGTACCGATTCCCCCTTGAAT
1 GGGTACCGATTCCCCTTTGAAT
4003946 GGGTACCGATTCTCCC-TTGAAT
1 GGGTACCGATTC-CCCTTTGAAT
* *
4003968 GGGTACTGATT-CCCATTGAAT
1 GGGTACCGATTCCCCTTTGAAT
4003989 GGGTACCGATTCCCCT
1 GGGTACCGATTCCCCT
4004005 AGCCCAGAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
20 3 0.04
21 16 0.22
22 51 0.70
23 3 0.04
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.31
Consensus pattern (22 bp):
GGGTACCGATTCCCCTTTGAAT
Found at i:4007499 original size:105 final size:105
Alignment explanation
Indices: 4007290--4007484 Score: 255
Period size: 105 Copynumber: 1.9 Consensus size: 105
4007280 GACCACATAT
* * * *
4007290 AAATTCCTTAAGAACCATATATATATACCAAGGATCAAGTAAGTGTCTCAAAAGACCTCATACAT
1 AAATTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTCTCAAAAGAACTCATACAT
4007355 GCTCCAAAGAATACATATACGTCCCGAAAGACCACGTAGA
66 GCTCCAAAGAATACATATACGTCCCGAAAGACCACGTAGA
* * * * * *
4007395 AAATTCCTTAAGAATCATATACATATGCTAAGGACCAAATACGTGTCTCAAAGGAACTCATAGAT
1 AAATTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTCTCAAAAGAACTCATACAT
* * * * *
4007460 GTTCCATAGGATACCTATATGTCCC
66 GCTCCAAAGAATACATATACGTCCC
4007485 TAAGGACCGT
Statistics
Matches: 75, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
105 75 1.00
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.25
Consensus pattern (105 bp):
AAATTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTCTCAAAAGAACTCATACAT
GCTCCAAAGAATACATATACGTCCCGAAAGACCACGTAGA
Found at i:4009031 original size:21 final size:22
Alignment explanation
Indices: 4008973--4009043 Score: 99
Period size: 22 Copynumber: 3.3 Consensus size: 22
4008963 GAGGGTGTAT
*
4008973 TGATTCCCCTTTGAATGGGTAC
1 TGATTCCCCATTGAATGGGTAC
*
4008995 TGATTCCCCCTTGAATGGGTAC
1 TGATTCCCCATTGAATGGGTAC
*
4009017 TGATT-CCCATTGAATTGGTAC
1 TGATTCCCCATTGAATGGGTAC
*
4009038 CGATTC
1 TGATTC
4009044 TCCTAGCCCA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.41
22 26 0.59
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (22 bp):
TGATTCCCCATTGAATGGGTAC
Found at i:4010108 original size:200 final size:200
Alignment explanation
Indices: 4009762--4011071 Score: 1998
Period size: 200 Copynumber: 6.5 Consensus size: 200
4009752 GGATGTTACA
* * *
4009762 ATAAAGTAATAGGCAAATTTACAATGTAACCGGTAAAAATATACCAGTTTTATGAGAAAATAGGT
1 ATAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCAGTTTAATTAGAAAATAGGT
*
4009827 CAACATAATGTATCAATA-CTTTTTAAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAA
66 CAACATAATGTATCGATACCTTTTT-AAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAA
*
4009891 CGAGGTGCA-GACATAAAGTGTCGATACATTTATTGTAAGTATCGATCCCAAAAACATCGAAACC
130 CGAGGTGCACG-CATAAAGTGTCGATACATTTATTGTAAGTATCGATCCCAAAAACATCAAAACC
4009955 GATAATT
194 GATAATT
* * *
4009962 ATAAAGTAATAGGTAAATTTACAATGTAACTGGTAAAAATATACCGGTTTAATTAGAAATTAGGT
1 ATAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCAGTTTAATTAGAAAATAGGT
* *
4010027 TAACATTATGTATCGATACCTTTTTAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAAC
66 CAACATAATGTATCGATACCTTTTTAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAAC
* * **
4010092 GAGGTGCACGCATAAAGTGTTGATACATTTATTGTAAGTATCGATCCCAAAAACATCGAAACTAA
131 GAGGTGCACGCATAAAGTGTCGATACATTTATTGTAAGTATCGATCCCAAAAACATCAAAACCGA
4010157 TAATT
196 TAATT
* *
4010162 ATAAAGTAATAGATAAATTTACAATGTAACTGGTAAAAATATACCAGTTTAATTAGAAAATAGGT
1 ATAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCAGTTTAATTAGAAAATAGGT
* * * *
4010227 CAAAATAATGTATCGATACCTTTTTAAATTTTGTCGATATTTTTGGTACAGAATGAATGCCCAAC
66 CAACATAATGTATCGATACCTTTTTAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAAC
4010292 GAGGTGCACGCATAAAGTGTCGATACATTTATTGTAAGTATCGATCCCAAAAACATCAAAACCGA
131 GAGGTGCACGCATAAAGTGTCGATACATTTATTGTAAGTATCGATCCCAAAAACATCAAAACCGA
4010357 TAATT
196 TAATT
* ** *
4010362 ATAAAGTAATATGTAAATTTACAATGTAACCGGTAAAAATATGTCGGTTTAATTAGAAAATAGGT
1 ATAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCAGTTTAATTAGAAAATAGGT
* * *
4010427 CAACGTAATGTATCAATACCTTTTTAAATTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAC
66 CAACATAATGTATCGATACCTTTTTAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAAC
* *
4010492 GAGGTGCACGCATAAAGTGTCGATACATTTATTGTAAGTATCGATCCCAAAAACATCGAAACTGA
131 GAGGTGCACGCATAAAGTGTCGATACATTTATTGTAAGTATCGATCCCAAAAACATCAAAACCGA
4010557 TAATT
196 TAATT
4010562 ATAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCAGTTTAATTAGAAAATAGGT
1 ATAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCAGTTTAATTAGAAAATAGGT
* * * * *
4010627 CAACATAATATATCGATACCTTTTCAAATTGTGTCGATATTTTTTGTCAAGAATGAATGCCCAAC
66 CAACATAATGTATCGATACCTTTTTAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAAC
* * * *
4010692 GAGGTGCACGTATAAAGTGTAGATACATTTATTGTAAGCATCGATCCCAAAAATATCAAAACCGA
131 GAGGTGCACGCATAAAGTGTCGATACATTTATTGTAAGTATCGATCCCAAAAACATCAAAACCGA
4010757 TAATT
196 TAATT
* * *
4010762 ATAAAGTAATAGGTAAATTTACAATATAACCGATAGAAATATACC-GATTTAATTAGAAAATAGG
1 ATAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCAG-TTTAATTAGAAAATAGG
* * * * *
4010826 TCAATATAATGTATCGATACCTTTTTAAATTGTGTCCATACTTTTTGACTAGAATGAATGCCCAA
65 TCAACATAATGTATCGATACCTTTTTAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAA
* * * * * * * *
4010891 CAAAGTGTACGTATAAAGTGTCGATATATTTATTATAAGTATTGATCCCAAAAGCATCAAAACCG
130 CGAGGTGCACGCATAAAGTGTCGATACATTTATTGTAAGTATCGATCCCAAAAACATCAAAACCG
4010956 ATAATT
195 ATAATT
* * * * *
4010962 ATAAAGTAATAAGTAAATTTACAATGTAACTGGTAAAAATATACCAGTTTTATGAGAGAATAGGT
1 ATAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCAGTTTAATTAGAAAATAGGT
* *
4011027 AAACATAATATATCGATA-CTTTTTAAAATTGTGTCGATACGTTTT
66 CAACATAATGTATCGATACCTTTTT-AAATTGTGTCGATAC-TTTT
4011072 CTAAATTACG
Statistics
Matches: 1016, Mismatches: 88, Indels: 11
0.91 0.08 0.01
Matches are distributed among these distances:
199 7 0.01
200 997 0.98
201 12 0.01
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (200 bp):
ATAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCAGTTTAATTAGAAAATAGGT
CAACATAATGTATCGATACCTTTTTAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAAC
GAGGTGCACGCATAAAGTGTCGATACATTTATTGTAAGTATCGATCCCAAAAACATCAAAACCGA
TAATT
Found at i:4011391 original size:15 final size:16
Alignment explanation
Indices: 4011371--4011416 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
4011361 TTCTTAACCT
4011371 TCTTCTCAACCAA-TC
1 TCTTCTCAACCAACTC
*
4011386 TCTTCTCAACGACAACTT
1 TCTTCTCAAC--CAACTC
4011404 TCTTCTCAACCAA
1 TCTTCTCAACCAA
4011417 GCGCTTCTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 10 0.37
16 3 0.11
17 3 0.11
18 11 0.41
ACGTcount: A:0.28, C:0.37, G:0.02, T:0.33
Consensus pattern (16 bp):
TCTTCTCAACCAACTC
Found at i:4015666 original size:22 final size:22
Alignment explanation
Indices: 4015641--4015683 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4015631 TATAAATATG
*
4015641 TTTTGATACATATATCGATACT
1 TTTTGACACATATATCGATACT
* *
4015663 TTTTGACACATGTATTGATAC
1 TTTTGACACATATATCGATAC
4015684 CAATGACAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (22 bp):
TTTTGACACATATATCGATACT
Found at i:4015696 original size:21 final size:21
Alignment explanation
Indices: 4015666--4015705 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4015656 CGATACTTTT
* *
4015666 TGACACATGTATTGATACCAA
1 TGACAAATGTATCGATACCAA
4015687 TGACAAATGTATCGATACC
1 TGACAAATGTATCGATACC
4015706 GTACATAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.28
Consensus pattern (21 bp):
TGACAAATGTATCGATACCAA
Found at i:4017306 original size:3 final size:3
Alignment explanation
Indices: 4017298--4017333 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
4017288 AACTTTAGCG
*
4017298 TTA TTA TTA TTA TTA TTA TTA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4017334 ATTTACAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:4020516 original size:91 final size:92
Alignment explanation
Indices: 4020360--4020542 Score: 316
Period size: 91 Copynumber: 2.0 Consensus size: 92
4020350 TGCTACAGTT
*
4020360 CCTTTGCTGACAAAAGAAAAAAATGGTATTGATGTCATTATAGATTCCTAATTTAGGGTTTGATT
1 CCTTTGCTGACAAAAGAAAAAAATGGGATTGATGTCATTATAGATTCCTAATTTAGGGTTTGATT
* *
4020425 GGTAT-GAGACTCATTGGGTTATTGGCA
66 GGCATAG-GACTCATTGGATTATTGGCA
4020452 CCTTTGCTGACAAAAG-AAAAAATGGGATTGATGTCATTATAGATTCCTAATTTAGGGTTTGATT
1 CCTTTGCTGACAAAAGAAAAAAATGGGATTGATGTCATTATAGATTCCTAATTTAGGGTTTGATT
4020516 GGCATAGGACTCATTGGATTATTGGCA
66 GGCATAGGACTCATTGGATTATTGGCA
4020543 TCAAGGGTTG
Statistics
Matches: 87, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
91 70 0.80
92 17 0.20
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (92 bp):
CCTTTGCTGACAAAAGAAAAAAATGGGATTGATGTCATTATAGATTCCTAATTTAGGGTTTGATT
GGCATAGGACTCATTGGATTATTGGCA
Found at i:4020907 original size:16 final size:15
Alignment explanation
Indices: 4020886--4020916 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
4020876 ATCATAGTAT
4020886 ACAATTATTAGATAAA
1 ACAATTATTA-ATAAA
4020902 ACAATTATTAATAAA
1 ACAATTATTAATAAA
4020917 CTCAACGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.32
Consensus pattern (15 bp):
ACAATTATTAATAAA
Found at i:4023556 original size:22 final size:22
Alignment explanation
Indices: 4023509--4023556 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
4023499 GAATAGGAGG
* **
4023509 ACCAAAAGAAGCAGAAACTTGG
1 ACCAAAAGAAACAGAAACTTCC
*
4023531 ACCAAAAGAAACAGAAATTTCC
1 ACCAAAAGAAACAGAAACTTCC
4023553 ACCA
1 ACCA
4023557 GTTCAGACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.52, C:0.23, G:0.15, T:0.10
Consensus pattern (22 bp):
ACCAAAAGAAACAGAAACTTCC
Found at i:4028479 original size:21 final size:22
Alignment explanation
Indices: 4028452--4028509 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
4028442 AGATTGTTGA
*
4028452 AAATCCACCGAAAGGTGGAATT
1 AAATCCACCGAAAAGTGGAATT
* *
4028474 -AATCCACCAAAAAGTGGATTT
1 AAATCCACCGAAAAGTGGAATT
4028495 AAAATCCACCGAAAA
1 -AAATCCACCGAAAA
4028510 ACAAATTGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 18 0.60
23 12 0.40
ACGTcount: A:0.47, C:0.21, G:0.16, T:0.17
Consensus pattern (22 bp):
AAATCCACCGAAAAGTGGAATT
Found at i:4035654 original size:2 final size:2
Alignment explanation
Indices: 4035649--4035690 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
4035639 TATATATATA
*
4035649 TG TG TG TG TG TG TG TG TG TG TG TG TG TG GG TG T- TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
4035690 T
1 T
4035691 TTTGTGATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:4037988 original size:110 final size:110
Alignment explanation
Indices: 4037795--4038016 Score: 444
Period size: 110 Copynumber: 2.0 Consensus size: 110
4037785 TCGACGTTCA
4037795 GATTGTTCATTACTCTCTGTAAAGCCCTTTGCTTCCCCTCTTCTAAATGGTTGAGTTTTTACACG
1 GATTGTTCATTACTCTCTGTAAAGCCCTTTGCTTCCCCTCTTCTAAATGGTTGAGTTTTTACACG
4037860 GCGTTCATATATAGGTGAATTTATTCCCCTTGGTCTCTGTGCACC
66 GCGTTCATATATAGGTGAATTTATTCCCCTTGGTCTCTGTGCACC
4037905 GATTGTTCATTACTCTCTGTAAAGCCCTTTGCTTCCCCTCTTCTAAATGGTTGAGTTTTTACACG
1 GATTGTTCATTACTCTCTGTAAAGCCCTTTGCTTCCCCTCTTCTAAATGGTTGAGTTTTTACACG
4037970 GCGTTCATATATAGGTGAATTTATTCCCCTTGGTCTCTGTGCACC
66 GCGTTCATATATAGGTGAATTTATTCCCCTTGGTCTCTGTGCACC
4038015 GA
1 GA
4038017 ATGATCTAGG
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 112 1.00
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (110 bp):
GATTGTTCATTACTCTCTGTAAAGCCCTTTGCTTCCCCTCTTCTAAATGGTTGAGTTTTTACACG
GCGTTCATATATAGGTGAATTTATTCCCCTTGGTCTCTGTGCACC
Found at i:4042127 original size:101 final size:101
Alignment explanation
Indices: 4041948--4042138 Score: 292
Period size: 101 Copynumber: 1.9 Consensus size: 101
4041938 CACATAAGGT
* * * * *
4041948 CATACAAGGAAAAAGATAAAAATATAATAAAAAAATTCGAACAAAATATAGATACGAATATATTT
1 CATACAAGGAAAAAGATAAAAATATAATAAAAAAACTCAAACAAAAGATAGATACAAACATATTT
*
4042013 GAATACACCGATGAACGAATCACAACACATAGAGAC
66 GAATACACCGATGAACGAAACACAACACATAGAGAC
* *
4042049 CATACAAGGAAAAAGATAAAAATCTAATAAAAAAACTCAAATAAAAGATAGATACAAACATATTT
1 CATACAAGGAAAAAGATAAAAATATAATAAAAAAACTCAAACAAAAGATAGATACAAACATATTT
**
4042114 GAATACATTGATGAACGAAACACAA
66 GAATACACCGATGAACGAAACACAA
4042139 AAGAAGATGG
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 80 1.00
ACGTcount: A:0.57, C:0.13, G:0.11, T:0.19
Consensus pattern (101 bp):
CATACAAGGAAAAAGATAAAAATATAATAAAAAAACTCAAACAAAAGATAGATACAAACATATTT
GAATACACCGATGAACGAAACACAACACATAGAGAC
Found at i:4042879 original size:63 final size:61
Alignment explanation
Indices: 4042753--4042881 Score: 145
Period size: 63 Copynumber: 2.1 Consensus size: 61
4042743 ACAGAAAGAT
*
4042753 AATAAATATATTTTAATTTAAAATATTCAAAAGATAAAATCACATTTTACTATTCAAACTTA
1 AATAAATATATTTTAATTTAAAATATTCAAAAGATAAAATCACA-TTTAATATTCAAACTTA
* * * * *
4042815 AATATATATTATTTTAATTTGAAATATTTAAAATGATAAAATTATC-TTTAATAATT-AAAGTTA
1 AATAAATA-TATTTTAATTTAAAATATTCAAAA-GATAAAATCA-CATTTAAT-ATTCAAACTTA
4042878 AATA
1 AATA
4042882 GATAAAAATA
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
62 7 0.12
63 37 0.65
64 12 0.21
65 1 0.02
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (61 bp):
AATAAATATATTTTAATTTAAAATATTCAAAAGATAAAATCACATTTAATATTCAAACTTA
Found at i:4043655 original size:43 final size:43
Alignment explanation
Indices: 4043576--4043657 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
4043566 CTAAATTATT
* * *
4043576 TTCAATCTCACTTTCTACCTTTATAATTAAGACCCCTAAATTC
1 TTCAATCTAACTTTCTACATTTATAACTAAGACCCCTAAATTC
* *
4043619 TTCAATCTAACTTTTTACATTTAT-ACTAGAGGCCCCTAA
1 TTCAATCTAACTTTCTACATTTATAACTA-AGACCCCTAA
4043658 TTTTTTTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 3 0.09
43 30 0.91
ACGTcount: A:0.30, C:0.26, G:0.05, T:0.39
Consensus pattern (43 bp):
TTCAATCTAACTTTCTACATTTATAACTAAGACCCCTAAATTC
Found at i:4045593 original size:30 final size:30
Alignment explanation
Indices: 4045557--4045633 Score: 154
Period size: 30 Copynumber: 2.6 Consensus size: 30
4045547 GAAGAAAAAA
4045557 TGACCGGTTTGACCGGTTTTGCTCCTATTT
1 TGACCGGTTTGACCGGTTTTGCTCCTATTT
4045587 TGACCGGTTTGACCGGTTTTGCTCCTATTT
1 TGACCGGTTTGACCGGTTTTGCTCCTATTT
4045617 TGACCGGTTTGACCGGT
1 TGACCGGTTTGACCGGT
4045634 AATAACCCGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.10, C:0.23, G:0.26, T:0.40
Consensus pattern (30 bp):
TGACCGGTTTGACCGGTTTTGCTCCTATTT
Found at i:4057680 original size:24 final size:24
Alignment explanation
Indices: 4057618--4057697 Score: 99
Period size: 24 Copynumber: 3.4 Consensus size: 24
4057608 GAATTCTATT
*
4057618 ATACCTGACCTGGATTCTGATCTG
1 ATACTTGACCTGGATTCTGATCTG
* * *
4057642 AT-GTTGACATAGATTCTGATCTG
1 ATACTTGACCTGGATTCTGATCTG
* *
4057665 ATACATGACCTGGATTCTGATATG
1 ATACTTGACCTGGATTCTGATCTG
4057689 ATACTTGAC
1 ATACTTGAC
4057698 TTGAATTATG
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
23 19 0.42
24 26 0.58
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (24 bp):
ATACTTGACCTGGATTCTGATCTG
Found at i:4059874 original size:18 final size:18
Alignment explanation
Indices: 4059853--4059887 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4059843 GACCCAACTC
*
4059853 GACCCGTTGACCCGACCT
1 GACCCATTGACCCGACCT
*
4059871 GACCCATTGACTCGACC
1 GACCCATTGACCCGACC
4059888 CGTTGACCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.43, G:0.20, T:0.17
Consensus pattern (18 bp):
GACCCATTGACCCGACCT
Found at i:4059905 original size:31 final size:30
Alignment explanation
Indices: 4059849--4059909 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 30
4059839 ACACGACCCA
4059849 ACTCGACCCGTTGACCCGACCTGACCCATTG
1 ACTCGACCCGTTGACCCGACCTGA-CCATTG
*
4059880 ACTCGACCCGTTGA-CCGACGTTGACCATTG
1 ACTCGACCCGTTGACCCGAC-CTGACCATTG
4059910 TTGACCAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 11 0.39
31 17 0.61
ACGTcount: A:0.20, C:0.38, G:0.21, T:0.21
Consensus pattern (30 bp):
ACTCGACCCGTTGACCCGACCTGACCATTG
Found at i:4062461 original size:24 final size:24
Alignment explanation
Indices: 4062399--4062480 Score: 121
Period size: 24 Copynumber: 3.5 Consensus size: 24
4062389 AATTTTGTTA
* *
4062399 TGATACCTGACCTGGATTCTGATC
1 TGATACTTGACATGGATTCTGATC
4062423 TGATA-TTGACATGGATTCTGATC
1 TGATACTTGACATGGATTCTGATC
* *
4062446 TGATACATGACATGGATTCTGATA
1 TGATACTTGACATGGATTCTGATC
4062470 TGATACTTGAC
1 TGATACTTGAC
4062481 TTAAATTATG
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
23 21 0.40
24 31 0.60
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (24 bp):
TGATACTTGACATGGATTCTGATC
Found at i:4062605 original size:35 final size:35
Alignment explanation
Indices: 4062558--4062629 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
4062548 TGGAGGAAGA
* *
4062558 TTACTTGGAGGC-TCATCGGGTTTGTGCTCAGGGCC
1 TTACTTGCAGGCTTC-TCGGCTTTGTGCTCAGGGCC
4062593 TTACTTGCAGGCTTCTCGGCTTTGTGCTCAGGGCC
1 TTACTTGCAGGCTTCTCGGCTTTGTGCTCAGGGCC
4062628 TT
1 TT
4062630 GCTGTACGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 32 0.94
36 2 0.06
ACGTcount: A:0.10, C:0.25, G:0.31, T:0.35
Consensus pattern (35 bp):
TTACTTGCAGGCTTCTCGGCTTTGTGCTCAGGGCC
Found at i:4067144 original size:24 final size:24
Alignment explanation
Indices: 4067126--4067216 Score: 112
Period size: 24 Copynumber: 3.8 Consensus size: 24
4067116 CCTGATTTGA
*
4067126 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATATGATACCTGACCTGG
* **
4067150 ATTCTGATATGATA-TTGATATGG
1 ATTCTGATATGATACCTGACCTGG
* *
4067173 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATATGATACCTGACCTGG
*
4067197 ATTCTGATATGATACTTGAC
1 ATTCTGATATGATACCTGAC
4067217 TTGAATTATG
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
23 19 0.34
24 37 0.66
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.38
Consensus pattern (24 bp):
ATTCTGATATGATACCTGACCTGG
Found at i:4067342 original size:35 final size:35
Alignment explanation
Indices: 4067295--4067366 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
4067285 TGGAGGAAGA
*
4067295 TTACTTGGAGGCTCCTCGACTTTGTGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGACTTTGTGCTCAGGGCC
* *
4067330 TTACTTGCAGGCTTCTCGGCTTTGTGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGACTTTGTGCTCAGGGCC
4067365 TT
1 TT
4067367 GCTGTACGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.10, C:0.28, G:0.28, T:0.35
Consensus pattern (35 bp):
TTACTTGCAGGCTCCTCGACTTTGTGCTCAGGGCC
Found at i:4068137 original size:6 final size:6
Alignment explanation
Indices: 4068126--4068150 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4068116 TTAACTCCTG
4068126 ATCACA ATCACA ATCACA ATCACA A
1 ATCACA ATCACA ATCACA ATCACA A
4068151 ACGATGAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (6 bp):
ATCACA
Found at i:4078624 original size:27 final size:27
Alignment explanation
Indices: 4078594--4078654 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
4078584 GTTTCCTTAA
* *
4078594 GATCTATTCAGTGATGATTCCGAATAT
1 GATCTATTCAGTGATGATTCCAAAGAT
4078621 GATCTATTCAGTGATGATTCCAAAGAT
1 GATCTATTCAGTGATGATTCCAAAGAT
4078648 GATCTAT
1 GATCTAT
4078655 GGACAAGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (27 bp):
GATCTATTCAGTGATGATTCCAAAGAT
Found at i:4081630 original size:13 final size:14
Alignment explanation
Indices: 4081602--4081631 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4081592 CCGTTGACCG
4081602 CCGTTGACTGTTGA
1 CCGTTGACTGTTGA
4081616 CCGTTGACT-TTGA
1 CCGTTGACTGTTGA
4081629 CCG
1 CCG
4081632 AAAAAGTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.13, C:0.27, G:0.27, T:0.33
Consensus pattern (14 bp):
CCGTTGACTGTTGA
Found at i:4083345 original size:27 final size:27
Alignment explanation
Indices: 4083314--4083370 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
4083304 CCTTAAGATT
* *
4083314 TATTCAGTGATGATTCCGAAGATGATC
1 TATTCAGTGATGATTCCAAAGATAATC
4083341 TATTCAGTGATGATTCCAAAGATAATC
1 TATTCAGTGATGATTCCAAAGATAATC
4083368 TAT
1 TAT
4083371 GGACAAGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (27 bp):
TATTCAGTGATGATTCCAAAGATAATC
Found at i:4087119 original size:3 final size:3
Alignment explanation
Indices: 4087113--4087157 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
4087103 AAATATTAAT
* * *
4087113 TAA TAA TAA TAA TAAA TAA TAA TAG TAA TAA TAA TTA TTA TAA TA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
4087158 GTATATATAG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:4087132 original size:16 final size:16
Alignment explanation
Indices: 4087095--4087157 Score: 58
Period size: 16 Copynumber: 4.1 Consensus size: 16
4087085 GGATCTGTAA
* *
4087095 AAATAA-AAAAATATT
1 AAATAATAATAATAAT
*
4087110 AATTAATAATAATAAT
1 AAATAATAATAATAAT
*
4087126 AAATAATAATAGTAAT
1 AAATAATAATAATAAT
* *
4087142 -AATAATTATTATAAT
1 AAATAATAATAATAAT
4087157 A
1 A
4087158 GTATATATAG
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
15 17 0.45
16 21 0.55
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (16 bp):
AAATAATAATAATAAT
Found at i:4087524 original size:66 final size:66
Alignment explanation
Indices: 4087444--4087569 Score: 198
Period size: 66 Copynumber: 1.9 Consensus size: 66
4087434 ACATTGTATC
* * *
4087444 GGGCAGACTTGTTCCGCTGTCACTCAGGGAATATCACATCTAGGAAGAGAGTGATATGTTGAATC
1 GGGCAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTAGGAAAAGAGGGATATGTTGAATC
4087509 A
66 A
* * *
4087510 GGGCAGATTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAAAGAGGGATTTGTT
1 GGGCAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTAGGAAAAGAGGGATATGTT
4087570 ACGCTTCTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 54 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (66 bp):
GGGCAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTAGGAAAAGAGGGATATGTTGAATC
A
Found at i:4088042 original size:111 final size:111
Alignment explanation
Indices: 4087516--4088042 Score: 644
Period size: 111 Copynumber: 4.7 Consensus size: 111
4087506 ATCAGGGCAG
* * * * *
4087516 ATTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAAAGAGGGATTTGTTACGCTTCTTTT
1 ATTTGTTCCGCTGTCACTCAGAGAATATCAAATCTTGGAAAAGAGTGATATGTTCCGCTTCTTCT
* ** * * *
4087581 AAGGGAATATCAGATATGGGGGAGTTGATATATTGAATCGGGGCAT
66 AAGGGAATATCAGATCTGGGGGAGTTGATCCATTAAATCGGGGAAA
* * * * * ** *
4087627 ATTTGTTCCGCTGTCACTCAAAGAATATCAAATATTGGAAAATAGGGATCTGTTATGCTTTTTCT
1 ATTTGTTCCGCTGTCACTCAGAGAATATCAAATCTTGGAAAAGAGTGATATGTTCCGCTTCTTCT
* * * * * *
4087692 AAGGGAATATCATATCTGGGGGACTTGATCCATTGAATTGGGGTAG
66 AAGGGAATATCAGATCTGGGGGAGTTGATCCATTAAATCGGGGAAA
* * * *
4087738 ACTTGTTTCGCTGTCACTCAGGGAATATCAAATCTTGGAAGAGAGTGATATGTTCCGCTTCTTCT
1 ATTTGTTCCGCTGTCACTCAGAGAATATCAAATCTTGGAAAAGAGTGATATGTTCCGCTTCTTCT
* *
4087803 AAGGTAATATCAGATCAGGGGGAGTTGATCCATTAAATCGGGGAAA
66 AAGGGAATATCAGATCTGGGGGAGTTGATCCATTAAATCGGGGAAA
* *
4087849 ACTTGTTCCGTTGTCACTCAGAGAATATCAAATCTTGGAAAAGAGTGATATGTTCCGCTTCTTCT
1 ATTTGTTCCGCTGTCACTCAGAGAATATCAAATCTTGGAAAAGAGTGATATGTTCCGCTTCTTCT
* * *
4087914 AAGGGAATATCAAATCTGGGGGAGTTGTTCCATTAAATCGGGGAAC
66 AAGGGAATATCAGATCTGGGGGAGTTGATCCATTAAATCGGGGAAA
* * * * *
4087960 ATTTGTTCCGCTGTTACTCTGAGAATATCAAATCTTAGAAGAA-AATGATATGTTCCGCTTATTC
1 ATTTGTTCCGCTGTCACTCAGAGAATATCAAATCTTGGAA-AAGAGTGATATGTTCCGCTTCTTC
*
4088024 TAA-GGATATATCATATCTG
65 TAAGGGA-ATATCAGATCTG
4088043 CAAATTAAAC
Statistics
Matches: 361, Mismatches: 53, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
110 3 0.01
111 356 0.99
112 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (111 bp):
ATTTGTTCCGCTGTCACTCAGAGAATATCAAATCTTGGAAAAGAGTGATATGTTCCGCTTCTTCT
AAGGGAATATCAGATCTGGGGGAGTTGATCCATTAAATCGGGGAAA
Found at i:4089704 original size:99 final size:98
Alignment explanation
Indices: 4089532--4089730 Score: 256
Period size: 99 Copynumber: 2.0 Consensus size: 98
4089522 TGTAATTACC
* *
4089532 TTTATCAAGCTAGTTGAATCTTATCCATAAAGTCTAGGTGTTTAACCAATTGCTCTAGAGGGACA
1 TTTATCAAGCTAGCTGAATCTTATCCATAAAGTCTAGGCGTTTAACCAATTGCTCTAGAGGGACA
** * *
4089597 GTTTAAGCTTTATTATATATATAATATAATCACA
66 ACTCAAGCTTTATTATATACAT-ATATAATCACA
* * * * *
4089631 TTTATCATGTTAGCTGAATCTTATCCATAAAG-CTGGGGCGTTTAACTAATTGCTCTAGAGTGAC
1 TTTATCAAGCTAGCTGAATCTTATCCATAAAGTCT-AGGCGTTTAACCAATTGCTCTAGAGGGAC
* *
4089695 AACTCAAGCTTTATTGTATACATATATAATTACA
65 AACTCAAGCTTTATTATATACATATATAATCACA
4089729 TT
1 TT
4089731 CTGGGTATAC
Statistics
Matches: 86, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
98 14 0.16
99 72 0.84
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (98 bp):
TTTATCAAGCTAGCTGAATCTTATCCATAAAGTCTAGGCGTTTAACCAATTGCTCTAGAGGGACA
ACTCAAGCTTTATTATATACATATATAATCACA
Found at i:4092534 original size:65 final size:65
Alignment explanation
Indices: 4092354--4092563 Score: 173
Period size: 65 Copynumber: 3.2 Consensus size: 65
4092344 TTTTTCAGAG
* * * **
4092354 TGATGCACCGATGCACCA-ATCCATGCATCGATGCAC-CATGAATTAAATTG-AACATCGAATGC
1 TGATGCATCGATGCACCATA-CCATGCACCGATGCACTCA-GGATTTTA-TGAAACATCGAATGC
4092416 ATT
63 ATT
* * *
4092419 TTATGCATCGATGCA-CATACCATGCACCGATGCACTGAGGATTTTATGAAAACATCGAATGAAT
1 TGATGCATCGATGCACCATACCATGCACCGATGCACTCAGGATTTTATG-AAACATCGAATGCAT
4092483 T
65 T
* * * ** *
4092484 TGATGCATCGATGCACCA-GCCA-GACATCGATGCACTCTGTCTATTT-TGAAACATCGAATTCA
1 TGATGCATCGATGCACCATACCATG-CACCGATGCACTCAGGAT-TTTATGAAACATCGAATGCA
*
4092546 CT
64 TT
*
4092548 TGATGCATCGGTGCAC
1 TGATGCATCGATGCAC
4092564 TCTTAGTGCA
Statistics
Matches: 119, Mismatches: 19, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
63 2 0.02
64 51 0.43
65 61 0.51
66 5 0.04
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (65 bp):
TGATGCATCGATGCACCATACCATGCACCGATGCACTCAGGATTTTATGAAACATCGAATGCATT
Found at i:4095658 original size:14 final size:14
Alignment explanation
Indices: 4095639--4095678 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
4095629 ACATCCAATC
4095639 ATCCAAAAACATAA
1 ATCCAAAAACATAA
4095653 ATCCAAAAACATAA
1 ATCCAAAAACATAA
*
4095667 ATTCAAAAACAT
1 ATCCAAAAACAT
4095679 CAAAAAGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.62, C:0.20, G:0.00, T:0.17
Consensus pattern (14 bp):
ATCCAAAAACATAA
Found at i:4101580 original size:171 final size:171
Alignment explanation
Indices: 4101295--4101638 Score: 634
Period size: 171 Copynumber: 2.0 Consensus size: 171
4101285 TCCAACTTTA
*
4101295 TTAAAGGAAGTTTTAAGATCATCAATTTTCTTTTGATAATCATCATGTACTCTTGAAAGTAAGTT
1 TTAAAGGAAGTTTTAAGATCATCAATTTTCTTTTAATAATCATCATGTACTCTTGAAAGTAAGTT
4101360 ATGCAAATCAATATTTTTCTTTTCAAATTCATCTAATTTGATTTGCAATTCTTTGATCTTACTTT
66 ATGCAAATCAATATTTTTCTTTTCAAATTCATCTAATTTGATTTGCAATTCTTTGATCTTACTTT
* *
4101425 TAAGATCATTGTTGGTTTTGGACATAAGATTATTTTCATTT
131 TAAGATCATTGTTGGCTTTGGACATAAGACTATTTTCATTT
*
4101466 TTAAAGGAAGTTTTAAGATCATCAATTTTCTTTTAATGATCATCATGTACTCTTGAAAGTAAGTT
1 TTAAAGGAAGTTTTAAGATCATCAATTTTCTTTTAATAATCATCATGTACTCTTGAAAGTAAGTT
* *
4101531 ATGCAAATTAGTATTTTTCTTTTCAAATTCATCTAATTTGATTTGCAATTCTTTGATCTTACTTT
66 ATGCAAATCAATATTTTTCTTTTCAAATTCATCTAATTTGATTTGCAATTCTTTGATCTTACTTT
4101596 TAAGATCATTGTTGGCTTTGGACATAAGACTATTTTCATTT
131 TAAGATCATTGTTGGCTTTGGACATAAGACTATTTTCATTT
4101637 TT
1 TT
4101639 CAATTTTGAA
Statistics
Matches: 167, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
171 167 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (171 bp):
TTAAAGGAAGTTTTAAGATCATCAATTTTCTTTTAATAATCATCATGTACTCTTGAAAGTAAGTT
ATGCAAATCAATATTTTTCTTTTCAAATTCATCTAATTTGATTTGCAATTCTTTGATCTTACTTT
TAAGATCATTGTTGGCTTTGGACATAAGACTATTTTCATTT
Found at i:4101673 original size:22 final size:21
Alignment explanation
Indices: 4101631--4101670 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
4101621 AAGACTATTT
4101631 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
4101652 TCATTTTT-ATATTTTGAAA
1 TCATTTTTCA-ATTTTGAAA
4101671 ATAAAATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:4103702 original size:20 final size:20
Alignment explanation
Indices: 4103677--4103727 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
4103667 TTTAATTAAG
4103677 AGTGCATCGATGCATGAACT
1 AGTGCATCGATGCATGAACT
4103697 AGTGCATCGATGCATGAACT
1 AGTGCATCGATGCATGAACT
4103717 AGTGCATCGAT
1 AGTGCATCGAT
4103728 TCATCCCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (20 bp):
AGTGCATCGATGCATGAACT
Found at i:4114284 original size:23 final size:23
Alignment explanation
Indices: 4114237--4114284 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
4114227 TTTAGTGGGT
* *
4114237 TTTATTTAATGGGTAGTGGATGA
1 TTTATTTAATGGGTAATGGAGGA
*
4114260 TTTATTTAATGGGTAATGGGGGA
1 TTTATTTAATGGGTAATGGAGGA
4114283 TT
1 TT
4114285 AGGTTAGGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (23 bp):
TTTATTTAATGGGTAATGGAGGA
Found at i:4114306 original size:3 final size:3
Alignment explanation
Indices: 4114300--4114325 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4114290 AGGTAATTAT
4114300 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
4114326 TTTTTTCGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:4114583 original size:40 final size:41
Alignment explanation
Indices: 4114526--4115360 Score: 217
Period size: 40 Copynumber: 19.5 Consensus size: 41
4114516 AAGGGTTGAT
* * * *
4114526 ACGGCTCCTACGTGATGAGGAGATCAGGTC-AGGTAATGAC
1 ACGGTTCCTACGTGATGAGGAGAGCAGGTCTAGGTGATAAC
*
4114566 ACGGTTCATACGTGATGAGGACG-GCAGGTCATTTAAGGGTGATAAC
1 ACGGTTCCTACGTGATGAGGA-GAGCAGGTC---T-A-GGTGATAAC
* *
4114612 ACGGTTCCTACGTGATGAGGACAGCTGGTTATCTGAGGT--TAAC
1 ACGGTTCCTACGTGATGAGGAGAGCAGG---TCT-AGGTGATAAC
* * *
4114655 ACGGCTCCTACGTGATGAGGAGATCAGGT-TAGGTGATGAC
1 ACGGTTCCTACGTGATGAGGAGAGCAGGTCTAGGTGATAAC
*
4114695 ACGGTTCCTACGTGATGAGGACG-GCAGACCATCTAAGGGTGATAAC
1 ACGGTTCCTACGTGATGAGGA-GAGCAG---GTCT-A-GGTGATAAC
* ** * * * *
4114741 ACGGTTCCTATGTGATGAGGACG-GTTGAT-TATCTGGGGTTGAC
1 ACGGTTCCTACGTGATGAGGA-GAGCAGGTCTA---GGTGATAAC
* * * * * * * *
4114784 ATGGCTCCTACATGATGAGAAGATCAAGTC-GGGTGATGAC
1 ACGGTTCCTACGTGATGAGGAGAGCAGGTCTAGGTGATAAC
* * *
4114824 ATGGTTCCTACGTGATGAGGACAGCATGTCATCTAAGGGTGATAAC
1 ACGGTTCCTACGTGATGAGGAGAGCA-G--GTCT-A-GGTGATAAC
* * ** * * * *
4114870 TCGGTTCCTATGTGATGAGGACG-GTTGGTTATATGGGGTTGAC
1 ACGGTTCCTACGTGATGAGGA-GAGCAGG-TCTA-GGTGATAAC
* * * * * *
4114913 ACGGCTCCTACGTGATGGGGAGATCAAGTC-AAGTGATGAC
1 ACGGTTCCTACGTGATGAGGAGAGCAGGTCTAGGTGATAAC
* * * * *
4114953 ACGGTTTCTACGTGATGAGGACAACTGGTTATCTA-G-GATTGAC
1 ACGGTTCCTACGTGATGAGGAGAGCAGG---TCTAGGTGA-TAAC
* * * *
4114996 ACGGCTCCTACATGATGAGGAGATCAGGTC-GGGTGATGAA-
1 ACGGTTCCTACGTGATGAGGAGAGCAGGTCTAGGTGAT-AAC
*
4115036 ACGGTTCCTACGTGATGAGGACG-GTAGGTAATCTAAGGGTGATAAC
1 ACGGTTCCTACGTGATGAGGA-GAGCAGG---TCT-A-GGTGATAAC
* * * * * * *
4115082 ATGGTTCATACGTTATGAGAACGA-CTGGTTATATAAGGT--TGAC
1 ACGGTTCCTACGTGATGAGGA-GAGCAGG---TCT-AGGTGATAAC
* * * *
4115125 ACGGCTCCTACGTGATGAGGAGATCAGGTC-GGGTGATGAC
1 ACGGTTCCTACGTGATGAGGAGAGCAGGTCTAGGTGATAAC
* **
4115165 ACGGTTCCTACGTGATTAGGACG-GCATACCATCTAAGGGTGATAAC
1 ACGGTTCCTACGTGATGAGGA-GAGC--A-GGTCT-A-GGTGATAAC
* * * * * * *
4115211 ACGCTTCCTACGTGATAAGGACG-GCTGGT-TATTTGGGGTTGAT
1 ACGGTTCCTACGTGATGAGGA-GAGCAGGTCTA---GGTGATAAC
* * * * *
4115254 ACGGCTCCTACGTGATGAGGAGATCAGGTC-GGGTGATGAT
1 ACGGTTCCTACGTGATGAGGAGAGCAGGTCTAGGTGATAAC
*
4115294 ACGGTTCCTATGTGATGAGGACG-GCAGGCCATCTAAGGGTGATAAC
1 ACGGTTCCTACGTGATGAGGA-GAGCAGG---TCT-A-GGTGATAAC
* *
4115340 ACGGTTCCTATGTGATAAGGA
1 ACGGTTCCTACGTGATGAGGA
4115361 AGATTGGTTA
Statistics
Matches: 584, Mismatches: 140, Indels: 136
0.68 0.16 0.16
Matches are distributed among these distances:
38 7 0.01
39 1 0.00
40 188 0.32
41 11 0.02
42 11 0.02
43 166 0.28
44 4 0.01
45 11 0.02
46 183 0.31
49 2 0.00
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (41 bp):
ACGGTTCCTACGTGATGAGGAGAGCAGGTCTAGGTGATAAC
Found at i:4114617 original size:46 final size:45
Alignment explanation
Indices: 4114564--4115360 Score: 310
Period size: 46 Copynumber: 18.5 Consensus size: 45
4114554 TCAGGTAATG
* *
4114564 ACACGGTTCATACGTGATGAGGACGGCAGGTCATTTAAGGGTGATA
1 ACACGGTTCCTACGTGATGAGGACGGCAGGTCATCTAA-GGTGATA
* * * *
4114610 ACACGGTTCCTACGTGATGAGGACAGCTGGTTATCTGAGGT--TA
1 ACACGGTTCCTACGTGATGAGGACGGCAGGTCATCTAAGGTGATA
* * *
4114653 ACACGGCTCCTACGTGATGAGGA-GATCAGG---T-T-AGGTGATG
1 ACACGGTTCCTACGTGATGAGGACG-GCAGGTCATCTAAGGTGATA
**
4114693 ACACGGTTCCTACGTGATGAGGACGGCAGACCATCTAAGGGTGATA
1 ACACGGTTCCTACGTGATGAGGACGGCAGGTCATCTAA-GGTGATA
* ** * * * * *
4114739 ACACGGTTCCTATGTGATGAGGACGGTTGATTATCT--GGGGTTG
1 ACACGGTTCCTACGTGATGAGGACGGCAGGTCATCTAAGGTGATA
* * * * ** ** *
4114782 ACATGGCTCCTACATGATGA-GA----AGATCAAGTCGGGTGATG
1 ACACGGTTCCTACGTGATGAGGACGGCAGGTCATCTAAGGTGATA
* * *
4114822 ACATGGTTCCTACGTGATGAGGACAGCATGTCATCTAAGGGTGATA
1 ACACGGTTCCTACGTGATGAGGACGGCAGGTCATCTAA-GGTGATA
* * ** * * * * *
4114868 ACTCGGTTCCTATGTGATGAGGACGGTTGGT--TATATGGGGTTG
1 ACACGGTTCCTACGTGATGAGGACGGCAGGTCATCTAAGGTGATA
* * *
4114911 ACACGGCTCCTACGTGAT--GG--GG-AGATCAAGTC-AA-GTGATG
1 ACACGGTTCCTACGTGATGAGGACGGCAGGTC-A-TCTAAGGTGATA
* ** * * *
4114951 ACACGGTTTCTACGTGATGAGGACAACTGGTTATCT-A-G-GATTG
1 ACACGGTTCCTACGTGATGAGGACGGCAGGTCATCTAAGGTGA-TA
* * * *
4114994 ACACGGCTCCTACATGATGAGGA-GATCAGG---TC--GGGTGATGA
1 ACACGGTTCCTACGTGATGAGGACG-GCAGGTCATCTAAGGTGAT-A
* *
4115035 A-ACGGTTCCTACGTGATGAGGACGGTAGGTAATCTAAGGGTGATA
1 ACACGGTTCCTACGTGATGAGGACGGCAGGTCATCTAA-GGTGATA
* * * * * * * * *
4115080 ACATGGTTCATACGTTATGAGAACGACTGGTTATATAAGGT--TG
1 ACACGGTTCCTACGTGATGAGGACGGCAGGTCATCTAAGGTGATA
* * * *
4115123 ACACGGCTCCTACGTGATGAGGA-GATCAGG---TC--GGGTGATG
1 ACACGGTTCCTACGTGATGAGGACG-GCAGGTCATCTAAGGTGATA
* ***
4115163 ACACGGTTCCTACGTGATTAGGACGGCATACCATCTAAGGGTGATA
1 ACACGGTTCCTACGTGATGAGGACGGCAGGTCATCTAA-GGTGATA
* * * * * **
4115209 ACACGCTTCCTACGTGATAAGGACGGCTGGTTATTTGGGGTTGAT-
1 ACACGGTTCCTACGTGATGAGGACGGCAGGTCATCTAAGG-TGATA
* * * *
4115254 --ACGGCTCCTACGTGATGAGGA-GATCAGG---TC--GGGTGATG
1 ACACGGTTCCTACGTGATGAGGACG-GCAGGTCATCTAAGGTGATA
* * *
4115292 ATACGGTTCCTATGTGATGAGGACGGCAGGCCATCTAAGGGTGATA
1 ACACGGTTCCTACGTGATGAGGACGGCAGGTCATCTAA-GGTGATA
* *
4115338 ACACGGTTCCTATGTGATAAGGA
1 ACACGGTTCCTACGTGATGAGGA
4115361 AGATTGGTTA
Statistics
Matches: 556, Mismatches: 132, Indels: 126
0.68 0.16 0.15
Matches are distributed among these distances:
37 4 0.01
38 17 0.03
39 3 0.01
40 146 0.26
41 12 0.02
42 9 0.02
43 145 0.26
44 5 0.01
45 18 0.03
46 197 0.35
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.25
Consensus pattern (45 bp):
ACACGGTTCCTACGTGATGAGGACGGCAGGTCATCTAAGGTGATA
Found at i:4114711 original size:129 final size:129
Alignment explanation
Indices: 4114518--4114974 Score: 671
Period size: 129 Copynumber: 3.5 Consensus size: 129
4114508 GGTCGTCTAA
* * * *
4114518 GGGTTGATACGGCTCCTACGTGATGAGGAGATCAGGTCAGGTAATGACACGGTTCATACGTGATG
1 GGGTTGACACGGCTCCTACGTGATGAGGAGATCAAGTCAGGTGATGACACGGTTCCTACGTGATG
* * * *
4114583 AGGACGGCAGGTCATTTAAGGGTGATAACACGGTTCCTACGTGATGAGGACAGCTGGTTATCTG
66 AGGACGGCAGGTCATCTAAGGGTGATAACACGGTTCCTATGTGATGAGGACGGTTGGTTATCTG
* * * *
4114647 AGGTTAACACGGCTCCTACGTGATGAGGAGATCAGGTTAGGTGATGACACGGTTCCTACGTGATG
1 GGGTTGACACGGCTCCTACGTGATGAGGAGATCAAGTCAGGTGATGACACGGTTCCTACGTGATG
** *
4114712 AGGACGGCAGACCATCTAAGGGTGATAACACGGTTCCTATGTGATGAGGACGGTTGATTATCTG
66 AGGACGGCAGGTCATCTAAGGGTGATAACACGGTTCCTATGTGATGAGGACGGTTGGTTATCTG
* * * * *
4114776 GGGTTGACATGGCTCCTACATGATGAGAAGATCAAGTCGGGTGATGACATGGTTCCTACGTGATG
1 GGGTTGACACGGCTCCTACGTGATGAGGAGATCAAGTCAGGTGATGACACGGTTCCTACGTGATG
* * * *
4114841 AGGACAGCATGTCATCTAAGGGTGATAACTCGGTTCCTATGTGATGAGGACGGTTGGTTATATG
66 AGGACGGCAGGTCATCTAAGGGTGATAACACGGTTCCTATGTGATGAGGACGGTTGGTTATCTG
* * *
4114905 GGGTTGACACGGCTCCTACGTGATGGGGAGATCAAGTCAAGTGATGACACGGTTTCTACGTGATG
1 GGGTTGACACGGCTCCTACGTGATGAGGAGATCAAGTCAGGTGATGACACGGTTCCTACGTGATG
4114970 AGGAC
66 AGGAC
4114975 AACTGGTTAT
Statistics
Matches: 291, Mismatches: 37, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
129 291 1.00
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (129 bp):
GGGTTGACACGGCTCCTACGTGATGAGGAGATCAAGTCAGGTGATGACACGGTTCCTACGTGATG
AGGACGGCAGGTCATCTAAGGGTGATAACACGGTTCCTATGTGATGAGGACGGTTGGTTATCTG
Found at i:4114847 original size:212 final size:211
Alignment explanation
Indices: 4114602--4115186 Score: 587
Period size: 212 Copynumber: 2.8 Consensus size: 211
4114592 GGTCATTTAA
* * *
4114602 GGGTGATAACACGGTTCCTACGTGATGAGGACAGC-TGGTTATCTGA-GGT-TAACACGGCTCCT
1 GGGTGATGACACGGTTCCTACGTGATGAGGACAGCAT-GTCATCTAAGGGTATAACACGGCTCCT
* *
4114664 ACGTGATGAGGA-GATCAGG-T-TA-GGTGATGACACGGTTCCTACGTGATGAGGACGGCAGA-C
65 ACGTGATGAGGACGAT-AGGTTATATGGGGATGACACGGCTCCTACGTGAT--GG--GG-AGATC
* * *** * * *
4114724 CA-TCTAAGGGTGATAACACGGTTCCTATGTGATGAGGACGGTTGATTATCTGGGGTTGACATGG
124 AAGTC-AA--GTGATAACACGGTTCCTACGTGATGAGGACAACTGATTATCTAGGATTGACACGG
4114788 CTCCTACATGATGAGAAGATCAAGTC
186 CTCCTACATGATGAGAAGATCAAGTC
* * *
4114814 GGGTGATGACATGGTTCCTACGTGATGAGGACAGCATGTCATCTAAGGGTGATAACTCGGTTCCT
1 GGGTGATGACACGGTTCCTACGTGATGAGGACAGCATGTCATCTAAGGGT-ATAACACGGCTCCT
* * * *
4114879 ATGTGATGAGGACGGTTGGTTATATGGGGTTGACACGGCTCCTACGTGATGGGGAGATCAAGTCA
65 ACGTGATGAGGACGATAGGTTATATGGGGATGACACGGCTCCTACGTGATGGGGAGATCAAGTCA
* * *
4114944 AGTGATGACACGGTTTCTACGTGATGAGGACAACTGGTTATCTAGGATTGACACGGCTCCTACAT
130 AGTGATAACACGGTTCCTACGTGATGAGGACAACTGATTATCTAGGATTGACACGGCTCCTACAT
* *
4115009 GATGAGGAGATCAGGTC
195 GATGAGAAGATCAAGTC
* * * * * * * *
4115026 GGGTGATGAAACGGTTCCTACGTGATGAGGACGGTAGGTAATCTAAGGGTGATAACATGGTTCAT
1 GGGTGATGACACGGTTCCTACGTGATGAGGACAGCATGTCATCTAAGGGT-ATAACACGGCTCCT
* * ** * * *
4115091 ACGTTATGAGAACGACT-GGTTATATAAGGTTGACACGGCTCCTACGTGATGAGGAGATCAGGTC
65 ACGTGATGAGGACGA-TAGGTTATATGGGGATGACACGGCTCCTACGTGATGGGGAGATCAAGTC
** * *
4115155 GGGTGATGACACGGTTCCTACGTGATTAGGAC
129 AAGTGATAACACGGTTCCTACGTGATGAGGAC
4115187 GGCATACCAT
Statistics
Matches: 316, Mismatches: 46, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
212 247 0.78
213 8 0.03
214 6 0.02
215 26 0.08
216 5 0.02
217 2 0.01
218 22 0.07
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (211 bp):
GGGTGATGACACGGTTCCTACGTGATGAGGACAGCATGTCATCTAAGGGTATAACACGGCTCCTA
CGTGATGAGGACGATAGGTTATATGGGGATGACACGGCTCCTACGTGATGGGGAGATCAAGTCAA
GTGATAACACGGTTCCTACGTGATGAGGACAACTGATTATCTAGGATTGACACGGCTCCTACATG
ATGAGAAGATCAAGTC
Found at i:4115078 original size:129 final size:128
Alignment explanation
Indices: 4114945--4115416 Score: 574
Period size: 129 Copynumber: 3.7 Consensus size: 128
4114935 ATCAAGTCAA
* * *
4114945 GTGATGACACGGTTTCTACGTGATGAGGACAACTGGTTATCTAGGATTGACACGGCTCCTACATG
1 GTGATAACACGGTTCCTACGTGATAAGGACAACTGGTTATCTAGG-TTGACACGGCTCCTACATG
*
4115010 ATGAGGAGATCAGGTCGGGTGATGAAACGGTTCCTACGTGATGAGGACGGTAGGTAATCTAAGG
65 ATGAGGAGATCAGGTCGGGTGATGAAACGGTTCCTACGTGATGAGGACGGCAGGTAATCTAAGG
* * * * * * * *
4115074 GTGATAACATGGTTCATACGTTATGAGAACGACTGGTTATATAAGGTTGACACGGCTCCTACGTG
1 GTGATAACACGGTTCCTACGTGATAAGGACAACTGGTTATCT-AGGTTGACACGGCTCCTACATG
* *
4115139 ATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATTAGGACGGCA--TACCATCTAAG
65 ATGAGGAGATCAGGTCGGGTGATGAAACGGTTCCTACGTGATGAGGACGGCAGGTA--ATCTAAG
4115202 G
128 G
* ** * * * *
4115203 GTGATAACACGCTTCCTACGTGATAAGGACGGCTGGTTATTTGGGGTTGATACGGCTCCTACGTG
1 GTGATAACACGGTTCCTACGTGATAAGGACAACTGGTTATCT-AGGTTGACACGGCTCCTACATG
* * **
4115268 ATGAGGAGATCAGGTCGGGTGATGATACGGTTCCTATGTGATGAGGACGGCAGGCCATCTAAGG
65 ATGAGGAGATCAGGTCGGGTGATGAAACGGTTCCTACGTGATGAGGACGGCAGGTAATCTAAGG
* * * * *
4115332 GTGATAACACGGTTCCTATGTGATAAGGA-AGATTGGTTATCTGGGTTTGAAACGGATCCTACGA
1 GTGATAACACGGTTCCTACGTGATAAGGACA-ACTGGTTATCTAGG-TTGACACGGCTCCTAC-A
4115396 -GATGAGGAGATCAGGTCGGGT
63 TGATGAGGAGATCAGGTCGGGT
4115417 TCGATATCCT
Statistics
Matches: 298, Mismatches: 37, Indels: 16
0.85 0.11 0.05
Matches are distributed among these distances:
127 2 0.01
128 3 0.01
129 290 0.97
130 3 0.01
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (128 bp):
GTGATAACACGGTTCCTACGTGATAAGGACAACTGGTTATCTAGGTTGACACGGCTCCTACATGA
TGAGGAGATCAGGTCGGGTGATGAAACGGTTCCTACGTGATGAGGACGGCAGGTAATCTAAGG
Found at i:4115078 original size:258 final size:255
Alignment explanation
Indices: 4114564--4115360 Score: 665
Period size: 258 Copynumber: 3.1 Consensus size: 255
4114554 TCAGGTAATG
* *
4114564 ACACGGTTCATACGTGATGAGGACGGCAGGTCATTTAAGGGTGATAACACGGTTCCTACGTGATG
1 ACACGGTTCATACGTGATGAGGAC-GCATGTCATATAAGGGTGATAACACGGTTCCTACGTGATG
* * * * * * *
4114629 AGGACAGCTGGTTATCTGAGGTTAACACGGCTCCTACGTGATGAGGAGATCAGGTTAGGTGATGA
65 AGGACGGTTGGTTAT-TGGGGTTGACACGGCTCCTACGTGATGAGGAGATCAAGTCAAGTGATGA
* *** * * *
4114694 CACGGTTCCTACGTGATGAGGACGGCAGACCATCTAAGGGTGATAACACGGTTCCTATGTGATGA
129 CACGGTTCCTACGTGATGAGGACGGCTGGTTATCT-AGGGT--TGACACGGCTCCTACGTGATGA
* * ** * * * * * *
4114759 GGACGGTTGATTATCTGGG-GTTGACATGGCTCCTACATGATGA-GA---AGATCAAGTC---GG
191 GGA--GATCA-GGTC-GGGTGATGAAACGGTTCCTACGTGATGAGGACGGAGGT-AA-TCTAAGG
*
4114816 GTGATG
250 GTGATA
* * * * *
4114822 ACATGGTTCCTACGTGATGAGGACAGCATGTCATCTAAGGGTGATAACTCGGTTCCTATGTGATG
1 ACACGGTTCATACGTGATGAGGAC-GCATGTCATATAAGGGTGATAACACGGTTCCTACGTGATG
*
4114887 AGGACGGTTGGTTATATGGGGTTGACACGGCTCCTACGTGATGGGGAGATCAAGTCAAGTGATGA
65 AGGACGGTTGGTTAT-TGGGGTTGACACGGCTCCTACGTGATGAGGAGATCAAGTCAAGTGATGA
* ** * *
4114952 CACGGTTTCTACGTGATGAGGACAACTGGTTATCTAGGATTGACACGGCTCCTACATGATGAGGA
129 CACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAGGGTTGACACGGCTCCTACGTGATGAGGA
4115017 GATCAGGTCGGGTGATGAAACGGTTCCTACGTGATGAGGACGGTAGGTAATCTAAGGGTGATA
194 GATCAGGTCGGGTGATGAAACGGTTCCTACGTGATGAGGACGG-AGGTAATCTAAGGGTGATA
* * * * * *
4115080 ACATGGTTCATACGTTATGAGAACG-ACTGGTTATATAA-GGT--TGACACGGCTCCTACGTGAT
1 ACACGGTTCATACGTGATGAGGACGCA-T-GTCATATAAGGGTGATAACACGGTTCCTACGTGAT
* * * * * * *
4115141 GAGGA-GATCAGG---TCGGGTGATGACACGGTTCCTACGTGATTAGGACGGCATACCA-TCTAA
64 GAGGACGGT-TGGTTATTGGG-GTTGACACGGCTCCTACGTGATGAGGA--G-AT-CAAGTC-AA
* * * * * *
4115201 GGGTGATAACACGCTTCCTACGTGATAAGGACGGCTGGTTATTTGGGGTTGATACGGCTCCTACG
122 --GTGATGACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAGGGTTGACACGGCTCCTACG
* * **
4115266 TGATGAGGAGATCAGGTCGGGTGATGATACGGTTCCTATGTGATGAGGACGGCAGGCCATCTAAG
185 TGATGAGGAGATCAGGTCGGGTGATGAAACGGTTCCTACGTGATGAGGACGG-AGGTAATCTAAG
4115331 GGTGATA
249 GGTGATA
* * *
4115338 ACACGGTTCCTATGTGATAAGGA
1 ACACGGTTCATACGTGATGAGGA
4115361 AGATTGGTTA
Statistics
Matches: 441, Mismatches: 78, Indels: 40
0.79 0.14 0.07
Matches are distributed among these distances:
251 6 0.01
252 45 0.10
253 5 0.01
254 3 0.01
255 50 0.11
256 7 0.02
257 12 0.03
258 313 0.71
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.25
Consensus pattern (255 bp):
ACACGGTTCATACGTGATGAGGACGCATGTCATATAAGGGTGATAACACGGTTCCTACGTGATGA
GGACGGTTGGTTATTGGGGTTGACACGGCTCCTACGTGATGAGGAGATCAAGTCAAGTGATGACA
CGGTTCCTACGTGATGAGGACGGCTGGTTATCTAGGGTTGACACGGCTCCTACGTGATGAGGAGA
TCAGGTCGGGTGATGAAACGGTTCCTACGTGATGAGGACGGAGGTAATCTAAGGGTGATA
Found at i:4115234 original size:341 final size:341
Alignment explanation
Indices: 4114604--4115315 Score: 1003
Period size: 341 Copynumber: 2.1 Consensus size: 341
4114594 TCATTTAAGG
* * *
4114604 GTGATAACACGGTTCCTACGTGATGAGGACAGCTGGTTATCTGAGGTTAACACGGCTCCTACGTG
1 GTGATGACACGGTTCCTACGTGATGAGGACAACTGGTTATCTGAGGTTAACACGGCTCCTACATG
* * *
4114669 ATGAGGAGATCAGGTTAGGTGATGACACGGTTCCTACGTGATGAGGACGGCAGACCATCTAAGGG
66 ATGAGGAGATCAGGTCAGGTGATGAAACGGTTCCTACGTGATGAGGACGGCAGACAATCTAAGGG
* * * ** * ** *
4114734 TGATAACACGGTTCCTATGTGATGAGGACGGTTGATTATCTGGGGTTGACATGGCTCCTACATGA
131 TGATAACACGGTTCATACGTGATGAGAACGACTGATTATATAAGGTTGACACGGCTCCTACATGA
* **
4114799 TGAGAAGATCAAGTCGGGTGATGACATGGTTCCTACGTGATGAGGACAGCATGTCATCTAAGGGT
196 TGAGAAGATCAAGTCGGGTGATGACACGGTTCCTACGTGATGAGGACAGCATACCATCTAAGGGT
* * * * *
4114864 GATAACTCGGTTCCTATGTGATGAGGACGGTTGGTTATATGGGGTTGACACGGCTCCTACGTGAT
261 GATAACACGCTTCCTACGTGATAAGGACGGCTGGTTATATGGGGTTGACACGGCTCCTACGTGAT
*
4114929 GGGGAGATCAAGTCAA
326 GAGGAGATCAAGTCAA
* *
4114945 GTGATGACACGGTTTCTACGTGATGAGGACAACTGGTTATCT-AGGATTGACACGGCTCCTACAT
1 GTGATGACACGGTTCCTACGTGATGAGGACAACTGGTTATCTGAGG-TTAACACGGCTCCTACAT
* * **
4115009 GATGAGGAGATCAGGTCGGGTGATGAAACGGTTCCTACGTGATGAGGACGGTAGGTAATCTAAGG
65 GATGAGGAGATCAGGTCAGGTGATGAAACGGTTCCTACGTGATGAGGACGGCAGACAATCTAAGG
* * * *
4115074 GTGATAACATGGTTCATACGTTATGAGAACGACTGGTTATATAAGGTTGACACGGCTCCTACGTG
130 GTGATAACACGGTTCATACGTGATGAGAACGACTGATTATATAAGGTTGACACGGCTCCTACATG
* * * *
4115139 ATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATTAGGACGGCATACCATCTAAGGG
195 ATGAGAAGATCAAGTCGGGTGATGACACGGTTCCTACGTGATGAGGACAGCATACCATCTAAGGG
* *
4115204 TGATAACACGCTTCCTACGTGATAAGGACGGCTGGTTATTTGGGGTTGATACGGCTCCTACGTGA
260 TGATAACACGCTTCCTACGTGATAAGGACGGCTGGTTATATGGGGTTGACACGGCTCCTACGTGA
* **
4115269 TGAGGAGATCAGGTCGG
325 TGAGGAGATCAAGTCAA
* *
4115286 GTGATGATACGGTTCCTATGTGATGAGGAC
1 GTGATGACACGGTTCCTACGTGATGAGGAC
4115316 GGCAGGCCAT
Statistics
Matches: 324, Mismatches: 46, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
340 3 0.01
341 321 0.99
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (341 bp):
GTGATGACACGGTTCCTACGTGATGAGGACAACTGGTTATCTGAGGTTAACACGGCTCCTACATG
ATGAGGAGATCAGGTCAGGTGATGAAACGGTTCCTACGTGATGAGGACGGCAGACAATCTAAGGG
TGATAACACGGTTCATACGTGATGAGAACGACTGATTATATAAGGTTGACACGGCTCCTACATGA
TGAGAAGATCAAGTCGGGTGATGACACGGTTCCTACGTGATGAGGACAGCATACCATCTAAGGGT
GATAACACGCTTCCTACGTGATAAGGACGGCTGGTTATATGGGGTTGACACGGCTCCTACGTGAT
GAGGAGATCAAGTCAA
Found at i:4115316 original size:83 final size:83
Alignment explanation
Indices: 4114602--4115318 Score: 324
Period size: 83 Copynumber: 8.4 Consensus size: 83
4114592 GGTCATTTAA
* * * * *
4114602 GGGTGATAACACGGTTCCTACGTGATGAGGACAGCTGGTTATCTGAGGTTAACACGGCTCCTACG
1 GGGTGATGACACGGTTCCTACGTGATGAGGACGGCTGGTTATTTGGGGTTGACACGGCTCCTACG
*
4114667 TGATGAGGAGATCAGGTT
66 TGATGAGGAGATCAGGTC
* * *** * * * *
4114685 AGGTGATGACACGGTTCCTACGTGATGAGGACGGCAGACCATCTAAGGGTGATAACACGGTTCCT
1 GGGTGATGACACGGTTCCTACGTGATGAGGACGGCTGGTTAT-T-TGGG-GTTGACACGGCTCCT
* * * **
4114750 ATGTGATGAGGACGGTTGATTATC
63 ACGTGATGAGGA--GATCA-GGTC
* * * * * * ** * * * * *
4114774 TGGG-GTTGACATGGCTCCTACATGATGA-GA-AGAT--CAAGTCGGGTGATGACATGGTTCCTA
1 -GGGTGATGACACGGTTCCTACGTGATGAGGACGGCTGGTTATTTGGG-GTTGACACGGCTCCTA
** *
4114834 CGTGATGAGGACAGCATGTCATCTAA
64 CGTGATGAGG--AG-A--TCAGGT-C
* * * * *
4114860 GGGTGATAACTCGGTTCCTATGTGATGAGGACGGTTGGTTATATGGGGTTGACACGGCTCCTACG
1 GGGTGATGACACGGTTCCTACGTGATGAGGACGGCTGGTTATTTGGGGTTGACACGGCTCCTACG
* *
4114925 TGATGGGGAGATCAAGTC
66 TGATGAGGAGATCAGGTC
** * ** * * * *
4114943 AAGTGATGACACGGTTTCTACGTGATGAGGACAACTGGTTATCTAGGATTGACACGGCTCCTACA
1 GGGTGATGACACGGTTCCTACGTGATGAGGACGGCTGGTTATTTGGGGTTGACACGGCTCCTACG
4115008 TGATGAGGAGATCAGGTC
66 TGATGAGGAGATCAGGTC
* * * * * * * *
4115026 GGGTGATGAAACGGTTCCTACGTGATGAGGACGG-TAGGTAATCTAAGGGTGATAACATGGTTCA
1 GGGTGATGACACGGTTCCTACGTGATGAGGACGGCT-GGTTAT-T-TGGG-GTTGACACGGCTCC
* * * *
4115090 TACGTTATGAGAACGA-CTGGTT
62 TACGTGATGAGGA-GATCAGGTC
*** * * * * * * *
4115112 ATATAAGGTTGACACGGCTCCTACGTGATGAGGA-GATCAGG----TCGGGTGATGACACGGTTC
1 GGGT---GATGACACGGTTCCTACGTGATGAGGACG-GCTGGTTATTTGGG-GTTGACACGGCTC
* ** *
4115172 CTACGTGATTAGGACGGCATACCATCTAA
61 CTACGTGATGAGGA--G-AT--CAGGT-C
* * * *
4115201 GGGTGATAACACGCTTCCTACGTGATAAGGACGGCTGGTTATTTGGGGTTGATACGGCTCCTACG
1 GGGTGATGACACGGTTCCTACGTGATGAGGACGGCTGGTTATTTGGGGTTGACACGGCTCCTACG
4115266 TGATGAGGAGATCAGGTC
66 TGATGAGGAGATCAGGTC
* *
4115284 GGGTGATGATACGGTTCCTATGTGATGAGGACGGC
1 GGGTGATGACACGGTTCCTACGTGATGAGGACGGC
4115319 AGGCCATCTA
Statistics
Matches: 459, Mismatches: 136, Indels: 78
0.68 0.20 0.12
Matches are distributed among these distances:
82 1 0.00
83 219 0.48
84 10 0.02
85 13 0.03
86 94 0.20
87 9 0.02
88 10 0.02
89 93 0.20
90 10 0.02
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (83 bp):
GGGTGATGACACGGTTCCTACGTGATGAGGACGGCTGGTTATTTGGGGTTGACACGGCTCCTACG
TGATGAGGAGATCAGGTC
Found at i:4115407 original size:470 final size:470
Alignment explanation
Indices: 4114521--4115408 Score: 1337
Period size: 470 Copynumber: 1.9 Consensus size: 470
4114511 CGTCTAAGGG
* * *
4114521 TTGATACGGCTCCTACGTGATGAGGAGATCAGGTCAGGTAATGACACGGTTCATACGTGATGAGG
1 TTGACACGGCTCCTACATGATGAGGAGATCAGGTCAGGTAATGAAACGGTTCATACGTGATGAGG
* * * * * *
4114586 ACGGCAGGTCATTTAAGGGTGATAACACGGTTCCTACGTGATGAGGACAGCTGGTTATCTGAGGT
66 ACGGCAGGTAATCTAAGGGTGATAACACGGTTCATACGTGATGAGAACAGCTGGTTATATAAGGT
*
4114651 TAACACGGCTCCTACGTGATGAGGAGATCAGGTTAGGTGATGACACGGTTCCTACGTGATGAGGA
131 TAACACGGCTCCTACGTGATGAGGAGATCAGGTCAGGTGATGACACGGTTCCTACGTGATGAGGA
* * * *
4114716 CGGCAGACCATCTAAGGGTGATAACACGGTTCCTATGTGATGAGGACGGTTGATTATCTGGGGTT
196 CGGCAGACCATCTAAGGGTGATAACACGCTTCCTACGTGATAAGGACGGCTGATTATCTGGGGTT
* *
4114781 GACATGGCTCCTACATGATGAGAAGATCAAGTCGGGTGATGACATGGTTCCTACGTGATGAGGAC
261 GACACGGCTCCTACATGATGAGAAGATCAAGTCGGGTGATGACACGGTTCCTACGTGATGAGGAC
* * * * * *
4114846 AGCATGTCATCTAAGGGTGATAACTCGGTTCCTATGTGATGAGGACGGTTGGTTATATGGGGTTG
326 AGCAGGCCATCTAAGGGTGATAACACGGTTCCTATGTGATAAGGAAGATTGGTTATATGGGGTTG
* * * *
4114911 ACACGGCTCCTACGTGATGGGGAGATCAAGTCAAGTGATGACACGGTTTCTACGTGATGAGGACA
391 AAACGGATCCTACGAGATGAGGAGATCAAGTCAAGTGATGACACGGTTTCTACGTGATGAGGACA
4114976 ACTGGTTATCTAGGA
456 ACTGGTTATCTAGGA
* * *
4114991 TTGACACGGCTCCTACATGATGAGGAGATCAGGTCGGGTGATGAAACGGTTCCTACGTGATGAGG
1 TTGACACGGCTCCTACATGATGAGGAGATCAGGTCAGGTAATGAAACGGTTCATACGTGATGAGG
* * *
4115056 ACGGTAGGTAATCTAAGGGTGATAACATGGTTCATACGTTATGAGAAC-GACTGGTTATATAAGG
66 ACGGCAGGTAATCTAAGGGTGATAACACGGTTCATACGTGATGAGAACAG-CTGGTTATATAAGG
* * *
4115120 TTGACACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATTAGG
130 TTAACACGGCTCCTACGTGATGAGGAGATCAGGTCAGGTGATGACACGGTTCCTACGTGATGAGG
* * *
4115185 ACGGCATACCATCTAAGGGTGATAACACGCTTCCTACGTGATAAGGACGGCTGGTTATTTGGGGT
195 ACGGCAGACCATCTAAGGGTGATAACACGCTTCCTACGTGATAAGGACGGCTGATTATCTGGGGT
* * * * * *
4115250 TGATACGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGATACGGTTCCTATGTGATGAGGA
260 TGACACGGCTCCTACATGATGAGAAGATCAAGTCGGGTGATGACACGGTTCCTACGTGATGAGGA
* * *
4115315 CGGCAGGCCATCTAAGGGTGATAACACGGTTCCTATGTGATAAGGAAGATTGGTTATCTGGGTTT
325 CAGCAGGCCATCTAAGGGTGATAACACGGTTCCTATGTGATAAGGAAGATTGGTTATATGGGGTT
4115380 GAAACGGATCCTACGAGATGAGGAGATCA
390 GAAACGGATCCTACGAGATGAGGAGATCA
4115409 GGTCGGGTTC
Statistics
Matches: 370, Mismatches: 47, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
469 1 0.00
470 369 1.00
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (470 bp):
TTGACACGGCTCCTACATGATGAGGAGATCAGGTCAGGTAATGAAACGGTTCATACGTGATGAGG
ACGGCAGGTAATCTAAGGGTGATAACACGGTTCATACGTGATGAGAACAGCTGGTTATATAAGGT
TAACACGGCTCCTACGTGATGAGGAGATCAGGTCAGGTGATGACACGGTTCCTACGTGATGAGGA
CGGCAGACCATCTAAGGGTGATAACACGCTTCCTACGTGATAAGGACGGCTGATTATCTGGGGTT
GACACGGCTCCTACATGATGAGAAGATCAAGTCGGGTGATGACACGGTTCCTACGTGATGAGGAC
AGCAGGCCATCTAAGGGTGATAACACGGTTCCTATGTGATAAGGAAGATTGGTTATATGGGGTTG
AAACGGATCCTACGAGATGAGGAGATCAAGTCAAGTGATGACACGGTTTCTACGTGATGAGGACA
ACTGGTTATCTAGGA
Found at i:4115630 original size:121 final size:121
Alignment explanation
Indices: 4115466--4115895 Score: 557
Period size: 121 Copynumber: 3.5 Consensus size: 121
4115456 TTGTGGGCAT
* **** * * * *
4115466 GATATCCTTCATCGTGAAGTTGAAATCACAAATGGCTCTTTCGTTC-TGAAGTTGAGCTTTGAAT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTCGTGAAGTTGAGCCTCGAAT
*
4115530 TGTATATCCTTCGTCGTGAAGTTAAAATCCAAGGGTTGCATTACTGCTGGTGGACAC
66 TGGATATCCTTCGTCGTGAAGTTAAAATCCAAGGGTTGCATTA-TGCTGGTGGACAC
4115587 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCG-TCGTGAAGTTGAGCCTCGAAT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTCGTGAAGTTGAGCCTCGAAT
* ** * *
4115651 TGGATATACTTCGTCGTGAAGTTAAAATCCAATCTAAAGATGAATGT-TGCTGGTGGACAC
66 TGGATATCCTTCGTCGTGAAGTTAAAATCC-A---AGGGTTGCAT-TATGCTGGTGGACAC
4115711 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTT-GTGAAGTTGAGCCTCGAAT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTCGTGAAGTTGAGCCTCGAAT
* * *
4115775 TGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTATTGCTTGT-GAGCAG
66 TGGATATCCTTCGTCGTGAAGTTAAAATCCAAGGGTTGCATTA-TGCTGGTGGA-CAC
* * *
4115832 GATATCCTTCTTCGTGAAGTTGAAATCGTGGATGGCCCCTTC-ATCGTGAAGTTGAGCCTTGAAT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTCGTGAAGTTGAGCCTCGAAT
4115896 CCATCAGGTT
Statistics
Matches: 272, Mismatches: 26, Indels: 22
0.85 0.08 0.07
Matches are distributed among these distances:
119 1 0.00
120 11 0.04
121 147 0.54
122 1 0.00
123 1 0.00
124 103 0.38
125 7 0.03
126 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (121 bp):
GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTCGTGAAGTTGAGCCTCGAAT
TGGATATCCTTCGTCGTGAAGTTAAAATCCAAGGGTTGCATTATGCTGGTGGACAC
Found at i:4115670 original size:66 final size:65
Alignment explanation
Indices: 4115587--4115803 Score: 204
Period size: 66 Copynumber: 3.4 Consensus size: 65
4115577 TGGTGGACAC
4115587 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAGCCTCGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGT-GTGAAGTTGAGCCTCGAATT
4115652 G
65 G
* * ** ** * * * *
4115653 GATATACTTCGTCGTGAAGTTAAAATC--CAAT-----CTAAAG-ATGAATGTTGCTG-GTGGAC
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCT-TCGTGTGAA-GTTG-AGCCTCGA-
*
4115709 A--C
62 ATTG
4115711 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTCGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCG-TGTGAAGTTGAGCCTCGAATT
4115776 G
65 G
4115777 GATATCCTTCGTCGTGAAGTTGAAATC
1 GATATCCTTCGTCGTGAAGTTGAAATC
4115804 CAAGGGTTGC
Statistics
Matches: 113, Mismatches: 22, Indels: 32
0.68 0.13 0.19
Matches are distributed among these distances:
58 29 0.26
59 9 0.08
60 5 0.04
64 5 0.04
65 9 0.08
66 56 0.50
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (65 bp):
GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTGTGAAGTTGAGCCTCGAATTG
Found at i:4119270 original size:35 final size:33
Alignment explanation
Indices: 4119190--4119272 Score: 85
Period size: 34 Copynumber: 2.5 Consensus size: 33
4119180 GAGTGGGTTT
* * *
4119190 TTTAGTGGGTAGTGGGTTTTTAGTGGATGATTG
1 TTTAATGGGTAGTGGGTTTTTAGTGGAGGATTA
** * *
4119223 TTTAATATGTAGTGTGTTTTTTAGTGGGGGATTTA
1 TTTAATGGGTAGTG-GGTTTTTAGTGGAGGA-TTA
4119258 TTTAATGGGTAGTGG
1 TTTAATGGGTAGTGG
4119273 AGGATTTATT
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
33 11 0.28
34 14 0.36
35 14 0.36
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.47
Consensus pattern (33 bp):
TTTAATGGGTAGTGGGTTTTTAGTGGAGGATTA
Found at i:4119277 original size:23 final size:23
Alignment explanation
Indices: 4119244--4119291 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
4119234 GTGTGTTTTT
*
4119244 TAGTGGGGGATTTATTTAATGGG
1 TAGTGGAGGATTTATTTAATGGG
4119267 TAGTGGAGGATTTATTTAATGGG
1 TAGTGGAGGATTTATTTAATGGG
4119290 TA
1 TA
4119292 ATGAGAGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.35, T:0.40
Consensus pattern (23 bp):
TAGTGGAGGATTTATTTAATGGG
Found at i:4123895 original size:3 final size:3
Alignment explanation
Indices: 4123887--4123950 Score: 101
Period size: 3 Copynumber: 20.7 Consensus size: 3
4123877 AGTTCTTAGG
4123887 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
*
4123933 TAA TAA TATT TAA TAA TA
1 TAA TAA TA-A TAA TAA TA
4123951 TTTTTTTATC
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
3 52 0.91
4 5 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:4125241 original size:21 final size:21
Alignment explanation
Indices: 4125190--4125242 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
4125180 ATTTTGACTA
4125190 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * **
4125211 TCACGTTGCGATTTCCTTAAT
1 TCGCATTGCGATTTCCCAAAT
*
4125232 TCGCAATGCGA
1 TCGCATTGCGA
4125243 ATACGTAAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:4125881 original size:21 final size:21
Alignment explanation
Indices: 4125820--4125916 Score: 107
Period size: 20 Copynumber: 4.9 Consensus size: 21
4125810 TTCTAAACTT
**
4125820 AAAATCGCAAC-ATAAAAATG
1 AAAATCGCAACGACGAAAATG
4125840 AAAATCGCAAC-ACGAAAATG
1 AAAATCGCAACGACGAAAATG
**
4125860 ACTATCGCAACGA-GAGAAATG
1 AAAATCGCAACGACGA-AAATG
4125881 AAAATCGCAACG-CG-AAATG
1 AAAATCGCAACGACGAAAATG
4125900 AAAATCGCAACG-CGAAA
1 AAAATCGCAACGACGAAA
4125917 CCAAAATCGC
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
19 19 0.28
20 31 0.46
21 17 0.25
ACGTcount: A:0.52, C:0.20, G:0.18, T:0.11
Consensus pattern (21 bp):
AAAATCGCAACGACGAAAATG
Found at i:4125883 original size:41 final size:40
Alignment explanation
Indices: 4125820--4125911 Score: 123
Period size: 40 Copynumber: 2.3 Consensus size: 40
4125810 TTCTAAACTT
* *
4125820 AAAATCGCAAC-ATAAAAATGAAAATCGCAACACGAAAATG
1 AAAATCGCAACGAGAGAAATGAAAATCGCAACACG-AAATG
** *
4125860 ACTATCGCAACGAGAGAAATGAAAATCGCAACGCGAAATG
1 AAAATCGCAACGAGAGAAATGAAAATCGCAACACGAAATG
4125900 AAAATCGCAACG
1 AAAATCGCAACG
4125912 CGAAACCAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 24 0.55
41 20 0.45
ACGTcount: A:0.51, C:0.20, G:0.17, T:0.12
Consensus pattern (40 bp):
AAAATCGCAACGAGAGAAATGAAAATCGCAACACGAAATG
Found at i:4125899 original size:19 final size:19
Alignment explanation
Indices: 4125835--4125927 Score: 105
Period size: 19 Copynumber: 4.7 Consensus size: 19
4125825 CGCAACATAA
*
4125835 AAATGAAAATCGCAACACG
1 AAATGAAAATCGCAACGCG
** *
4125854 AAAATGACTATCGCAACGAGAG
1 -AAATGAAAATCGCAAC--GCG
4125876 AAATGAAAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
4125895 AAATGAAAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
**
4125914 AAACCAAAATCGCA
1 AAATGAAAATCGCA
4125928 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
19 33 0.53
20 14 0.23
21 14 0.23
22 1 0.02
ACGTcount: A:0.49, C:0.22, G:0.18, T:0.11
Consensus pattern (19 bp):
AAATGAAAATCGCAACGCG
Found at i:4125983 original size:40 final size:39
Alignment explanation
Indices: 4125928--4126023 Score: 156
Period size: 40 Copynumber: 2.4 Consensus size: 39
4125918 CAAAATCGCA
4125928 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTT-TCTCG
**
4125968 TTGCGATAGTCATTTCCGCGTTGCGATTTTCATTTTCTCG
1 TTGCGATTTTCATTT-CGCGTTGCGATTTTCATTTTCTCG
4126008 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
4126024 AACCAAAAGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.02
40 31 0.61
41 19 0.37
ACGTcount: A:0.11, C:0.22, G:0.18, T:0.49
Consensus pattern (39 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTTCTCG
Found at i:4125991 original size:20 final size:20
Alignment explanation
Indices: 4125928--4126023 Score: 131
Period size: 20 Copynumber: 4.8 Consensus size: 20
4125918 CAAAATCGCA
4125928 TTGCGATTTTCATTT-CGCG
1 TTGCGATTTTCATTTCCGCG
*
4125947 TTGCGATTTTCATTTCTCTCG
1 TTGCGATTTTCATTTC-CGCG
**
4125968 TTGCGATAGTCATTTCCGCG
1 TTGCGATTTTCATTTCCGCG
* *
4125988 TTGCGATTTTCATTTTCTCG
1 TTGCGATTTTCATTTCCGCG
4126008 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
4126024 AACCAAAAGA
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
19 15 0.23
20 34 0.52
21 17 0.26
ACGTcount: A:0.11, C:0.22, G:0.18, T:0.49
Consensus pattern (20 bp):
TTGCGATTTTCATTTCCGCG
Found at i:4128030 original size:187 final size:183
Alignment explanation
Indices: 4127716--4128090 Score: 576
Period size: 187 Copynumber: 2.0 Consensus size: 183
4127706 TAGATTGCTT
4127716 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAATTGTTTATTAACACTGTGAAGTTAGTATTT
1 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAATTGTTTATTAACACTGTGAAGTTAGTATTT
* *
4127781 GTCTTTTTTTTTGTCTTTTGGTTGAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTG
66 GTCTTTTATTTTGTCTTTTGGTTAAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTG
*
4127846 TATTCTTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTCTTT-TGGTTGAA
131 TATTCTTTAACACTCTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTAT-GTTG-A
* * *
4127900 AGTAAATTTGA-TCGGTTGCTGCCAATTCTGCTAGACTGTGTATTCTTTAACACTGTGAAGTTAG
1 AGTAAATTT-ATTCGGTTGCTGCCAATACTGCTA-AAT-TGT-TT-ATTAACACTGTGAAGTTAG
* * *
4127964 TATTTGTC-TTTATTTTGTCTTTTGGTTAAAGTAAATTTGTTCGTTTGCTGCCAATTCTGTTAAA
61 TATTTGTCTTTTATTTTGTCTTTTGGTTAAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAA
*
4128028 CTGTGTATTCTTTAATACTCTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTATGTTGA
126 CTGTGTATTCTTTAACACTCTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTATGTTGA
4128086 AGTAA
1 AGTAA
4128091 TGCAATCCAT
Statistics
Matches: 175, Mismatches: 10, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
184 30 0.17
185 3 0.02
186 9 0.05
187 106 0.61
188 27 0.15
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.48
Consensus pattern (183 bp):
AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAATTGTTTATTAACACTGTGAAGTTAGTATTT
GTCTTTTATTTTGTCTTTTGGTTAAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTG
TATTCTTTAACACTCTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTATGTTGA
Found at i:4128089 original size:93 final size:93
Alignment explanation
Indices: 4127716--4128090 Score: 573
Period size: 94 Copynumber: 4.1 Consensus size: 93
4127706 TAGATTGCTT
* *
4127716 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAA-T-TGT-TT-ATTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
4127777 ATTTGTCTTTTTTTTTGTCTTTTGGTTGA
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGA
4127806 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
4127871 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
*
4127900 AGTAAATTTGA-TCGGTTGCTGCCAATTCTGCTAGACTGTGTATTCTTTAACACTGTGAAGTTAG
1 AGTAAATTT-ATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAG
* *
4127964 TATTTGTCTTTATTTTGTCTTTTGGTTAA
65 TATTTGTCTTTGTTTTGTCTTTTGGTTGA
* * * * *
4127993 AGTAAATTTGTTCGTTTGCTGCCAATTCTGTTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
4128058 ATTTGTCTTTGTTTTGTCTTTAT-GTTGA
66 ATTTGTCTTTGTTTTGTCTTT-TGGTTGA
4128086 AGTAA
1 AGTAA
4128091 TGCAATCCAT
Statistics
Matches: 263, Mismatches: 14, Indels: 13
0.91 0.05 0.04
Matches are distributed among these distances:
90 34 0.13
91 1 0.00
92 3 0.01
93 109 0.41
94 115 0.44
95 1 0.00
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.48
Consensus pattern (93 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:4128230 original size:19 final size:19
Alignment explanation
Indices: 4128181--4128306 Score: 100
Period size: 19 Copynumber: 6.8 Consensus size: 19
4128171 TCTTTTGGTT
* * *
4128181 GAAATGAAAATCACAACGA
1 GAAACGAAAATCGCAACGC
*
4128200 GAGAATGAAAATCGCAACGC
1 GA-AACGAAAATCGCAACGC
*
4128220 GAAACGAAAATCGCAATGC
1 GAAACGAAAATCGCAACGC
*
4128239 GAAATGAAAATCGCAA--C
1 GAAACGAAAATCGCAACGC
*
4128256 G--AC-AAAATCGCAACAC
1 GAAACGAAAATCGCAACGC
* *
4128272 GAAACCAAAAATCGCTACGC
1 GAAA-CGAAAATCGCAACGC
* *
4128292 GAAACTATAATCGCA
1 GAAACGAAAATCGCA
4128307 TTGCGATTTT
Statistics
Matches: 89, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
14 10 0.11
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 41 0.46
20 32 0.36
ACGTcount: A:0.49, C:0.22, G:0.17, T:0.11
Consensus pattern (19 bp):
GAAACGAAAATCGCAACGC
Found at i:4128275 original size:33 final size:36
Alignment explanation
Indices: 4128186--4128275 Score: 89
Period size: 33 Copynumber: 2.5 Consensus size: 36
4128176 TGGTTGAAAT
*
4128186 GAAAATCACAACGA-GAGAATGAAAATCGCAACGCGAAAC
1 GAAAATCGCAAC-ACGA-AATGAAAATCGCAAC-CG-AAC
**
4128225 GAAAATCGCAATGCGAAATGAAAATCGCAA-CG-AC
1 GAAAATCGCAACACGAAATGAAAATCGCAACCGAAC
4128259 -AAAATCGCAACACGAAA
1 GAAAATCGCAACACGAAA
4128276 CCAAAAATCG
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
33 15 0.33
34 2 0.04
36 2 0.04
38 14 0.31
39 12 0.27
ACGTcount: A:0.51, C:0.21, G:0.19, T:0.09
Consensus pattern (36 bp):
GAAAATCGCAACACGAAATGAAAATCGCAACCGAAC
Found at i:4128282 original size:20 final size:20
Alignment explanation
Indices: 4128259--4128296 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4128249 TCGCAACGAC
4128259 AAAATCGCAACACGAAACCA
1 AAAATCGCAACACGAAACCA
* *
4128279 AAAATCGCTACGCGAAAC
1 AAAATCGCAACACGAAAC
4128297 TATAATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.29, G:0.13, T:0.08
Consensus pattern (20 bp):
AAAATCGCAACACGAAACCA
Found at i:4128382 original size:20 final size:19
Alignment explanation
Indices: 4128338--4128428 Score: 110
Period size: 19 Copynumber: 4.6 Consensus size: 19
4128328 GTGATTCTCT
*
4128338 CGTTGCGATTTTTATTTCG
1 CGTTGCGATTTTCATTTCG
*
4128357 CGTTGCGATTTTCATTCTCT
1 CGTTGCGATTTTCATT-TCG
4128377 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
** *
4128396 CGTTGCGATAGTCATTTTTCA
1 CGTTGCGATTTTCA--TTTCG
4128417 CGTTGCGATTTT
1 CGTTGCGATTTT
4128429 AAGTTCCAGA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
19 29 0.48
20 18 0.30
21 14 0.23
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.48
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:4128385 original size:39 final size:39
Alignment explanation
Indices: 4128331--4128428 Score: 142
Period size: 39 Copynumber: 2.5 Consensus size: 39
4128321 TCGCATTGTG
* **
4128331 ATTCTCTCGTTGCGATTTTTATTTCGCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTCATTTCGCGTTGCGATAGTC
4128370 ATTCTCTCGTTGCGATTTTCATTTCGCGTTGCGATAGTC
1 ATTCTCTCGTTGCGATTTTCATTTCGCGTTGCGATAGTC
* *
4128409 ATTTTTCACGTTGCGATTTT
1 A-TTCTCTCGTTGCGATTTT
4128429 AAGTTCCAGA
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 37 0.70
40 16 0.30
ACGTcount: A:0.12, C:0.20, G:0.18, T:0.49
Consensus pattern (39 bp):
ATTCTCTCGTTGCGATTTTCATTTCGCGTTGCGATAGTC
Found at i:4128905 original size:42 final size:42
Alignment explanation
Indices: 4128829--4128917 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 42
4128819 GACTCGCCTG
* * * * *
4128829 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCACTA
* * *
4128871 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCACTA
4128913 TCATT
1 TCATT
4128918 GTTGAAGAGG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.21, C:0.37, G:0.17, T:0.25
Consensus pattern (42 bp):
TCATTCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCACTA
Found at i:4130316 original size:14 final size:14
Alignment explanation
Indices: 4130297--4130332 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
4130287 ATTGTTTAAT
4130297 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
4130311 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
4130325 TGATTTGT
1 TGATTTGT
4130333 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:4130455 original size:19 final size:19
Alignment explanation
Indices: 4130439--4130499 Score: 78
Period size: 19 Copynumber: 3.5 Consensus size: 19
4130429 AAAAATGACT
4130439 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
4130458 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
4130472 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
4130491 ATCGCAATG
1 ATCGCAATG
4130500 ACAAAATCGC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 10 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 19 0.54
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:4130525 original size:33 final size:33
Alignment explanation
Indices: 4130439--4130518 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
4130429 AAAAATGACT
* *
4130439 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
4130472 ATCGCAATGCGAAATGAAAATCGCAATGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
4130505 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
4130519 CTAAAATTGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.46, C:0.20, G:0.21, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:4130573 original size:19 final size:18
Alignment explanation
Indices: 4130549--4130693 Score: 98
Period size: 19 Copynumber: 8.4 Consensus size: 18
4130539 TAAATTTGCG
4130549 TTGCGATTTTCATTTCGC
1 TTGCGATTTTCATTTCGC
**
4130567 TTTGCGA--TTC-CCTCG-
1 -TTGCGATTTTCATTTCGC
4130582 TTGCGATTTTCATTTCGC
1 TTGCGATTTTCATTTCGC
*
4130600 ATTGCGA--TTC-TCTCG-
1 -TTGCGATTTTCATTTCGC
4130615 TTGCGATTTTCATTTCGC
1 TTGCGATTTTCATTTCGC
*
4130633 ATTGCGA--TTC-TCTCG-
1 -TTGCGATTTTCATTTCGC
4130648 TTGCGATTTTCATTTCGC
1 TTGCGATTTTCATTTCGC
**
4130666 ATTGCGATAGTCATTTTCGC
1 -TTGCGATTTTCA-TTTCGC
4130686 GTTGCGAT
1 -TTGCGAT
4130694 AGACATTAAG
Statistics
Matches: 99, Mismatches: 11, Indels: 31
0.70 0.08 0.22
Matches are distributed among these distances:
14 18 0.18
16 20 0.20
17 20 0.20
19 28 0.28
20 13 0.13
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.45
Consensus pattern (18 bp):
TTGCGATTTTCATTTCGC
Found at i:4130589 original size:33 final size:33
Alignment explanation
Indices: 4130547--4130673 Score: 236
Period size: 33 Copynumber: 3.8 Consensus size: 33
4130537 ACTAAATTTG
* *
4130547 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
4130580 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
4130613 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
4130646 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
4130674 AGTCATTTTC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 92 1.00
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:4130620 original size:14 final size:14
Alignment explanation
Indices: 4130568--4130655 Score: 59
Period size: 14 Copynumber: 5.6 Consensus size: 14
4130558 TCATTTCGCT
*
4130568 TTGCGATTCCCTCG
1 TTGCGATTCTCTCG
*
4130582 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
4130599 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
*
4130615 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
4130632 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
4130648 TTGCGATT
1 TTGCGATT
4130656 TTCATTTCGC
Statistics
Matches: 59, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
14 20 0.34
16 14 0.24
17 13 0.22
19 12 0.20
ACGTcount: A:0.11, C:0.25, G:0.19, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:4130685 original size:20 final size:20
Alignment explanation
Indices: 4130660--4130700 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
4130650 GCGATTTTCA
*
4130660 TTTCGCATTGCGATAGTCAT
1 TTTCGCATTGCGATAGACAT
*
4130680 TTTCGCGTTGCGATAGACAT
1 TTTCGCATTGCGATAGACAT
4130700 T
1 T
4130701 AAGATGATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.39
Consensus pattern (20 bp):
TTTCGCATTGCGATAGACAT
Found at i:4133276 original size:24 final size:24
Alignment explanation
Indices: 4133225--4133276 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
4133215 ATCTGAGTAT
** *
4133225 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
4133249 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
4133273 TGAC
1 TGAC
4133277 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:4134140 original size:20 final size:20
Alignment explanation
Indices: 4134125--4134291 Score: 169
Period size: 20 Copynumber: 8.3 Consensus size: 20
4134115 AGAATCTCAT
4134125 TGCGATTTAC-TAAATCGCAA
1 TGCGA-TTACGTAAATCGCAA
4134145 TGCGATTACGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
4134165 TGCGATTACGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
4134185 TGCGATTACGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
* *
4134205 TGTGAATACGT-AATCGC-A
1 TGCGATTACGTAAATCGCAA
* * * *
4134223 TGCGATTTTCCTAATTCGCAT
1 TGCGA-TTACGTAAATCGCAA
* *
4134244 TGCGATTTAGGAAAATCGCAA
1 TGCGA-TTACGTAAATCGCAA
* ** *
4134265 CGCGAATTTGGGAAATCGCAA
1 TGCG-ATTACGTAAATCGCAA
4134286 TGCGAT
1 TGCGAT
4134292 AGTCAGAATC
Statistics
Matches: 124, Mismatches: 18, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
18 5 0.04
19 13 0.10
20 71 0.57
21 34 0.27
22 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (20 bp):
TGCGATTACGTAAATCGCAA
Found at i:4134262 original size:21 final size:20
Alignment explanation
Indices: 4134238--4134291 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
4134228 TTTTCCTAAT
*
4134238 TCGCATTGCGATTTAGGAAAA
1 TCGCAATGCGATTT-GGAAAA
* *
4134259 TCGCAACGCGAATTTGGGAAA
1 TCGCAATGCG-ATTTGGAAAA
4134280 TCGCAATGCGAT
1 TCGCAATGCGAT
4134292 AGTCAGAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 2 0.07
21 22 0.79
22 4 0.14
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (20 bp):
TCGCAATGCGATTTGGAAAA
Found at i:4139214 original size:28 final size:29
Alignment explanation
Indices: 4139181--4139236 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
4139171 TTGACCCTTC
*
4139181 AATTTTCTAAAA-TTTCAATTTAGTCACT
1 AATTTTCTAAAACTTACAATTTAGTCACT
* *
4139209 AATTTTTTAAAACTTACATTTTAGTCAC
1 AATTTTCTAAAACTTACAATTTAGTCAC
4139237 AAAACAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.36, C:0.14, G:0.04, T:0.46
Consensus pattern (29 bp):
AATTTTCTAAAACTTACAATTTAGTCACT
Found at i:4140873 original size:2 final size:2
Alignment explanation
Indices: 4140866--4140926 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
4140856 TCAAATGAGT
4140866 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4140908 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
4140927 TAGTCGATTG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4142636 original size:3 final size:3
Alignment explanation
Indices: 4142623--4142652 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
4142613 GGCCCTGCAA
4142623 AAT AAT AAAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AA
4142653 ATAAATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:4143211 original size:30 final size:30
Alignment explanation
Indices: 4143177--4143238 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
4143167 GGTCTTTGTG
*
4143177 TTTCAAGAGAAAC-ATTTTCAAAGGTTTTTT
1 TTTCAAGAGAAACGA-CTTCAAAGGTTTTTT
4143207 TTTCAAGAGAAACGACTTCAAAGGTTTTTT
1 TTTCAAGAGAAACGACTTCAAAGGTTTTTT
4143237 TT
1 TT
4143239 GTGTTTCAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (30 bp):
TTTCAAGAGAAACGACTTCAAAGGTTTTTT
Found at i:4143253 original size:35 final size:34
Alignment explanation
Indices: 4143171--4143288 Score: 156
Period size: 34 Copynumber: 3.6 Consensus size: 34
4143161 CTCGAAGGTC
4143171 TTTGTGTTTCAAGAGAAAC-ATTTTCAAAGG--TT
1 TTTGTGTTTCAAGAGAAACGA-TTTCAAAGGTTTT
*
4143203 TTT-T-TTTCAAGAGAAACGACTTCAAAGGTTTTT
1 TTTGTGTTTCAAGAGAAACGATTTCAAAGG-TTTT
* *
4143236 TTTGTGTTTCAATAGAAACGATTTCAAAGATTTT
1 TTTGTGTTTCAAGAGAAACGATTTCAAAGGTTTT
4143270 TTTGTGTTTCAAGAGAAAC
1 TTTGTGTTTCAAGAGAAAC
4143289 TGTCTCCAGG
Statistics
Matches: 75, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
30 21 0.28
31 2 0.03
32 3 0.04
33 5 0.07
34 23 0.31
35 21 0.28
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (34 bp):
TTTGTGTTTCAAGAGAAACGATTTCAAAGGTTTT
Done.