Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009582.1 Hibiscus syriacus cultivar Beakdansim tig00116959_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: 4978262
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 22 of 24
Found at i:4355594 original size:15 final size:15
Alignment explanation
Indices: 4355571--4355608 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
4355561 CATTACTATA
4355571 GTATCGATACCCTTG
1 GTATCGATACCCTTG
*
4355586 GTATTGATACCCTTG
1 GTATCGATACCCTTG
4355601 GTATCGAT
1 GTATCGAT
4355609 GCTGCTCCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (15 bp):
GTATCGATACCCTTG
Found at i:4359651 original size:18 final size:18
Alignment explanation
Indices: 4359627--4359672 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
4359617 CTATGTAATC
*
4359627 ATTATCATCATCAACATT
1 ATTATCATCATCAACAGT
* * *
4359645 CTTATCATTATCAATAGT
1 ATTATCATCATCAACAGT
4359663 ATTATCATCA
1 ATTATCATCA
4359673 ATCCCAGTTA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.37, C:0.20, G:0.02, T:0.41
Consensus pattern (18 bp):
ATTATCATCATCAACAGT
Found at i:4359919 original size:21 final size:21
Alignment explanation
Indices: 4359895--4360025 Score: 95
Period size: 21 Copynumber: 6.1 Consensus size: 21
4359885 TTATCCCAAT
*
4359895 GGACCGCATATATGTCCCGAA
1 GGACCACATATATGTCCCGAA
* * *
4359916 GGACCACATAGAATTGTCCCTAT
1 GGACCACATA-TA-TGTCCCGAA
* * *
4359939 GGACAACATATATGTTCCAAA
1 GGACCACATATATGTCCCGAA
*
4359960 GGACCAAATATATGTCCCGAA
1 GGACCACATATATGTCCCGAA
* * * *
4359981 TGA-CATCATACATGTGCCAAA
1 GGACCA-CATATATGTCCCGAA
*
4360002 GGATCACATATAT-TACCCGAA
1 GGACCACATATATGT-CCCGAA
4360023 GGA
1 GGA
4360026 TCGCTTAGAA
Statistics
Matches: 83, Mismatches: 22, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
20 3 0.04
21 60 0.72
22 4 0.05
23 16 0.19
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (21 bp):
GGACCACATATATGTCCCGAA
Found at i:4359928 original size:44 final size:44
Alignment explanation
Indices: 4359865--4359965 Score: 121
Period size: 44 Copynumber: 2.3 Consensus size: 44
4359855 TATAAAATTT
* * * **
4359865 TCCCGAATGACCTCGTAGAATTATCCCAATGGACCGCATATATG
1 TCCCGAAGGACCACATAGAATTATCCCAATGGACAACATATATG
* *
4359909 TCCCGAAGGACCACATAGAATTGTCCCTATGGACAACATATATG
1 TCCCGAAGGACCACATAGAATTATCCCAATGGACAACATATATG
* *
4359953 TTCCAAAGGACCA
1 TCCCGAAGGACCA
4359966 AATATATGTC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.23
Consensus pattern (44 bp):
TCCCGAAGGACCACATAGAATTATCCCAATGGACAACATATATG
Found at i:4359942 original size:23 final size:23
Alignment explanation
Indices: 4359880--4359948 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 23
4359870 AATGACCTCG
* *
4359880 TAGAATTATCCCAATGGACCGCA
1 TAGAATTGTCCCAATGGACCACA
*
4359903 TA-TA-TGTCCCGAA-GGACCACA
1 TAGAATTGTCCC-AATGGACCACA
* *
4359924 TAGAATTGTCCCTATGGACAACA
1 TAGAATTGTCCCAATGGACCACA
4359947 TA
1 TA
4359949 TATGTTCCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
21 14 0.39
22 5 0.14
23 17 0.47
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (23 bp):
TAGAATTGTCCCAATGGACCACA
Found at i:4360001 original size:42 final size:42
Alignment explanation
Indices: 4359940--4360022 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
4359930 TGTCCCTATG
* *
4359940 GACAACATATATGTTCCAAAGGACCAAATATATGT-CCCGAAT
1 GACAACATACATGTGCCAAAGGACCAAATATAT-TACCCGAAT
* * *
4359982 GACATCATACATGTGCCAAAGGATCACATATATTACCCGAA
1 GACAACATACATGTGCCAAAGGACCAAATATATTACCCGAA
4360023 GGATCGCTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 1 0.03
42 34 0.97
ACGTcount: A:0.40, C:0.23, G:0.14, T:0.23
Consensus pattern (42 bp):
GACAACATACATGTGCCAAAGGACCAAATATATTACCCGAAT
Found at i:4364770 original size:18 final size:18
Alignment explanation
Indices: 4364726--4364771 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
4364716 CTATGTCATC
* *
4364726 ATTATCATCATCAATATT
1 ATTATCATTATCAATAGT
*
4364744 CTTATCATTATCAATAGT
1 ATTATCATTATCAATAGT
4364762 ATTATCATTA
1 ATTATCATTA
4364772 ATCCCAGTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.37, C:0.15, G:0.02, T:0.46
Consensus pattern (18 bp):
ATTATCATTATCAATAGT
Found at i:4365050 original size:23 final size:23
Alignment explanation
Indices: 4364983--4365050 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 23
4364973 TGAGTGCCAT
* *
4364983 ATAAAATTGTCCTTAAGTACCTC
1 ATAAAATTGTCCCTAAGTACCAC
* * * * *
4365006 GTAGAATTATCCCAAATTACCAC
1 ATAAAATTGTCCCTAAGTACCAC
*
4365029 ATAAAATTGTCCCTAAGGACCA
1 ATAAAATTGTCCCTAAGTACCA
4365051 TATATATATT
Statistics
Matches: 32, Mismatches: 13, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (23 bp):
ATAAAATTGTCCCTAAGTACCAC
Found at i:4365107 original size:21 final size:21
Alignment explanation
Indices: 4365046--4365122 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 21
4365036 TGTCCCTAAG
* * *
4365046 GACCATATATATATTCCAAAG
1 GACCACATATATGTTCCAAAA
* *
4365067 GACCAAATATAAG-TCTCAAAA
1 GACCACATATATGTTC-CAAAA
*
4365088 GACCGCATATATGTTCCAAAA
1 GACCACATATATGTTCCAAAA
*
4365109 GATCACATATATGT
1 GACCACATATATGT
4365123 CCCGAAGGAC
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
20 2 0.04
21 41 0.91
22 2 0.04
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.26
Consensus pattern (21 bp):
GACCACATATATGTTCCAAAA
Found at i:4365134 original size:42 final size:42
Alignment explanation
Indices: 4365036--4365135 Score: 101
Period size: 42 Copynumber: 2.4 Consensus size: 42
4365026 CACATAAAAT
* ** *
4365036 TGTCCCTAAGGACCATATATATATTCCAAAGGACCAAATATA
1 TGTCCCAAAGGACCGCATATATATTCCAAAAGACCAAATATA
* * * * * *
4365078 AGTCTCAAAAGACCGCATATATGTTCCAAAAGATCACATATA
1 TGTCCCAAAGGACCGCATATATATTCCAAAAGACCAAATATA
*
4365120 TGTCCCGAAGGACCGC
1 TGTCCCAAAGGACCGC
4365136 GTAGAACCCT
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.23
Consensus pattern (42 bp):
TGTCCCAAAGGACCGCATATATATTCCAAAAGACCAAATATA
Found at i:4373335 original size:2 final size:2
Alignment explanation
Indices: 4373328--4373403 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
4373318 TATACCCAAC
4373328 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
4373370 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
4373404 GAGTATACAT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4373789 original size:18 final size:18
Alignment explanation
Indices: 4373766--4373817 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
4373756 GAATGCATTT
*
4373766 CATGCACCGATGCACTCC
1 CATGCATCGATGCACTCC
4373784 CATGCATCGATGCACTCC
1 CATGCATCGATGCACTCC
4373802 CATGCATCGATGCACT
1 CATGCATCGATGCACT
4373818 TGGATTTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.21
Consensus pattern (18 bp):
CATGCATCGATGCACTCC
Found at i:4373898 original size:64 final size:65
Alignment explanation
Indices: 4373784--4373927 Score: 206
Period size: 64 Copynumber: 2.2 Consensus size: 65
4373774 GATGCACTCC
*
4373784 CATGCATCGATGCAC-TCCCATGCATCGATGCACTTGGATTTTATGAAAAACATCGAATGCATTT
1 CATGCATCGATGCACATCCCATGCATCGATGCACTAGGATTTTATGAAAAACATCGAATGCATTT
* * *
4373848 GATGCATCGATGCACAT-CCATGCATCGATGCACTCAGGCTATTT-T-CAAAACATCGAATGCAT
1 CATGCATCGATGCACATCCCATGCATCGATGCACT-AGGAT-TTTATGAAAAACATCGAATGCAT
4373910 TT
64 TT
4373912 CATGCATCGATGCACA
1 CATGCATCGATGCACA
4373928 CTTGGTGCAC
Statistics
Matches: 72, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
64 64 0.89
65 5 0.07
66 3 0.04
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (65 bp):
CATGCATCGATGCACATCCCATGCATCGATGCACTAGGATTTTATGAAAAACATCGAATGCATTT
Found at i:4379792 original size:23 final size:22
Alignment explanation
Indices: 4379695--4379797 Score: 88
Period size: 23 Copynumber: 4.7 Consensus size: 22
4379685 TTTGTGCTTA
*
4379695 ATGCATCGATGCA--CTT-AACA
1 ATGCATCGATGCATCCTTGAA-T
4379715 ATGCATCGATGCATCCCTTTGAAT
1 ATGCATCGATGCAT-CC-TTGAAT
* * * *
4379739 GTACATCGATGCATCC-TCATT
1 ATGCATCGATGCATCCTTGAAT
*
4379760 ATGCACCGATGCATGCCTTGAAT
1 ATGCATCGATGCAT-CCTTGAAT
4379783 ATGCATCGATGCATC
1 ATGCATCGATGCATC
4379798 GATCGGGTTT
Statistics
Matches: 65, Mismatches: 11, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
20 13 0.20
21 14 0.22
22 3 0.05
23 19 0.29
24 14 0.22
25 2 0.03
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.29
Consensus pattern (22 bp):
ATGCATCGATGCATCCTTGAAT
Found at i:4382501 original size:64 final size:65
Alignment explanation
Indices: 4382371--4382530 Score: 211
Period size: 64 Copynumber: 2.5 Consensus size: 65
4382361 GAATAAATTG
* **
4382371 AACATCGAATGCATTTCATGCACCGATGCAC-TCCCATGCATCGATGCACTTGGATTTTATGAAA
1 AACATCGAATGCATTTCATGCATCGATGCACATCCCATGCATCGATGCACTAAGATTTTATGAAA
* * *
4382435 AACATCGAATGCATTTGATGCATCGATGCACAT-CCATGCATCGATGCACTCAAGCTATTT-T-C
1 AACATCGAATGCATTTCATGCATCGATGCACATCCCATGCATCGATGCACT-AAGAT-TTTATGA
4382497 AA
64 AA
*
4382499 AACATTGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
4382531 CTTGGTGCAC
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
64 78 0.92
65 4 0.05
66 3 0.04
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACATCCCATGCATCGATGCACTAAGATTTTATGAAA
Found at i:4385916 original size:214 final size:213
Alignment explanation
Indices: 4385292--4386151 Score: 1123
Period size: 214 Copynumber: 3.9 Consensus size: 213
4385282 TTCACAATTT
* * *
4385292 ATAAGTCCTTCGGGCCATCCATAAAACCTTCGGATAGGATGTTTTCACATGAATTTGAAAAAAAT
1 ATAAGTCCCTC-GGCCATCCATAAAACCTTCGGGTAGGATGTTTTCAAATGAATTTG---AAAAT
* * * * * * ***
4385357 GAGGAAGTAATGTTTTAAGAAAATGAAATCTTTGAAAA-GTAAGAA-AATTTTCTTACCTAGTAA
62 G-GAAAATGATGTTTTAAGAAGATGGAATTTTTGAAAATG-AAGAATACGATT-TT--C----AA
* * *
4385420 ATTATTTTCAAAATTTAGTAAGTCCTTCGTGCCATCAATAAGTCTTTCGAGCATGATGCTTAAAT
118 A--A-TTTCACAATTTA-TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAAT
*
4385485 CCTTCGGGTCATCTGTAAGCCTTTCGAGGAAGATG
179 CCTTCGGGTCATCTGTAAGCCTTTCGAGCAAGATG
*
4385520 ATAAGTCCCTCGGACCATCCATAAAACCTTCGAGTAGGATGTGTTTCAAATGAATTTGAAAATGA
1 ATAAGTCCCTCGG-CCATCCATAAAACCTTCGGGTAGGATGT-TTTCAAATGAATTTGAAAATG-
* * * * *
4385585 GAAAATGATGTTTCAAGAAGACGAAATTTTTGAAAATGAAGAATGCGATTTTCAAAATTTCATAA
63 GAAAATGATGTTTTAAGAAGATGGAATTTTTGAAAATGAAGAATACGATTTTCAAAATTTCACAA
*
4385650 TTTATAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCT
128 TTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCT
4385715 GTAAGCCTTTCGAGCAAGATG
193 GTAAGCCTTTCGAGCAAGATG
* * *
4385736 ATAAGTCCCTCGAGCCATCCATAAGACCTTCGGGTAGGATATTTTCAAATGAATTTCAAAATGGA
1 ATAAGTCCCTCG-GCCATCCATAAAACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGGA
* *
4385801 AAATGATGTTTTAAGATGATGGAATTTTTGAAAATGAAGAATACGATTTTCAAATTTTCACAATT
65 AAATGATGTTTTAAGAAGATGGAATTTTTGAAAATGAAGAATACGATTTTCAAAATTTCACAATT
*
4385866 TATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATTCTTAAATCCTTCGGGTCATCTGT
130 TATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGT
*
4385931 AAGCCTTTAGAGCAAGATG
195 AAGCCTTTCGAGCAAGATG
* * * *
4385950 ATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTATGATGTTTTCACAA-GATTTTGAAAATGA
1 ATAAGTCCCTC-GGCCATCCATAAAACCTTCGGGTAGGATGTTTTCA-AATGAATTTGAAAATGG
* *
4386014 AAAATGATGTTTTAAGAAGATGGAATTTTTGAAAACGAAGAATATGATTTTCAAAATTTCACAAT
64 AAAATGATGTTTTAAGAAGATGGAATTTTTGAAAATGAAGAATACGATTTTCAAAATTTCACAAT
* * * * *
4386079 TTATAAGTCCTTTGGGCCATCAGTAAGTTTTTCGAGCATGATGCTTAAATCCTTCGGGTAATTTT
129 TTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTG
4386144 TAAGCCTT
194 TAAGCCTT
4386152 CACAAGAGAG
Statistics
Matches: 574, Mismatches: 51, Indels: 28
0.88 0.08 0.04
Matches are distributed among these distances:
214 321 0.56
215 23 0.04
216 115 0.20
217 12 0.02
218 1 0.00
220 3 0.01
224 1 0.00
226 43 0.07
227 5 0.01
228 36 0.06
229 14 0.02
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (213 bp):
ATAAGTCCCTCGGCCATCCATAAAACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGGAA
AATGATGTTTTAAGAAGATGGAATTTTTGAAAATGAAGAATACGATTTTCAAAATTTCACAATTT
ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
AGCCTTTCGAGCAAGATG
Found at i:4392777 original size:35 final size:35
Alignment explanation
Indices: 4392738--4392819 Score: 128
Period size: 35 Copynumber: 2.3 Consensus size: 35
4392728 GCCATTATTA
* *
4392738 TAGTATCGATACCTTTAGTATCAATGCTACTCCTC
1 TAGTATCGATACCCTTAGTATCAACGCTACTCCTC
*
4392773 TAGTATCGATACCCTTAGTATCGACGCTACTCCTC
1 TAGTATCGATACCCTTAGTATCAACGCTACTCCTC
*
4392808 TAGTATTGATAC
1 TAGTATCGATAC
4392820 TACACTACTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (35 bp):
TAGTATCGATACCCTTAGTATCAACGCTACTCCTC
Found at i:4392778 original size:20 final size:18
Alignment explanation
Indices: 4392753--4392813 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 18
4392743 TCGATACCTT
4392753 TAGTATCAATGCTACTCCTC
1 TAGTATC-A-GCTACTCCTC
*
4392773 TAGTATC-GATAC-CCT-
1 TAGTATCAGCTACTCCTC
4392788 TAGTATCGACGCTACTCCTC
1 TAGTATC-A-GCTACTCCTC
4392808 TAGTAT
1 TAGTAT
4392814 TGATACTACA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
15 7 0.21
16 3 0.09
17 4 0.12
18 4 0.12
19 3 0.09
20 13 0.38
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (18 bp):
TAGTATCAGCTACTCCTC
Found at i:4396125 original size:31 final size:31
Alignment explanation
Indices: 4396090--4396151 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
4396080 AATCATTTCA
*
4396090 AAATTTGTCGCATAAATAATAATATTTTTAT
1 AAATTTGTCGCATAAATAATAATACTTTTAT
4396121 AAATTTGTCGCATAAATAATAATACTTTTAT
1 AAATTTGTCGCATAAATAATAATACTTTTAT
4396152 CTCATAAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (31 bp):
AAATTTGTCGCATAAATAATAATACTTTTAT
Found at i:4396810 original size:2 final size:2
Alignment explanation
Indices: 4396803--4396841 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4396793 GTGTTACGTC
4396803 AT AT AT AT 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 AT AT AT AT A
4396842 CAAAAACTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4397886 original size:17 final size:16
Alignment explanation
Indices: 4397858--4397922 Score: 96
Period size: 17 Copynumber: 3.9 Consensus size: 16
4397848 AATCTCGTTG
4397858 CGACCACGACCACGACCA
1 CGACC-CGACC-CGACCA
4397876 CGACCCGACCACGACCA
1 CGACCCGACC-CGACCA
4397893 CGACCCGACCCGACC-
1 CGACCCGACCCGACCA
4397908 CGACCCGACCCGACC
1 CGACCCGACCCGACC
4397923 CGAGACGAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
15 15 0.32
16 5 0.11
17 22 0.47
18 5 0.11
ACGTcount: A:0.26, C:0.55, G:0.18, T:0.00
Consensus pattern (16 bp):
CGACCCGACCCGACCA
Found at i:4397901 original size:5 final size:5
Alignment explanation
Indices: 4397858--4397925 Score: 91
Period size: 5 Copynumber: 12.6 Consensus size: 5
4397848 AATCTCGTTG
4397858 CGACC ACGACC ACGACC ACGACC CGACC ACGACC ACGACC CGACC CGACC
1 CGACC -CGACC -CGACC -CGACC CGACC -CGACC -CGACC CGACC CGACC
4397908 CGACC CGACC CGACC CGA
1 CGACC CGACC CGACC CGA
4397926 GACGAGACGG
Statistics
Matches: 61, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
5 33 0.54
6 28 0.46
ACGTcount: A:0.26, C:0.54, G:0.19, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:4398591 original size:20 final size:20
Alignment explanation
Indices: 4398566--4398635 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
4398556 ACTGTACACT
4398566 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* **
4398586 ATCGCAA--CGACACTGCAGACT
1 ATCGCAACGCGA-AATG--GAAA
4398607 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
4398627 ATTGCAACG
1 ATCGCAACG
4398636 ACACTGTAGG
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
18 3 0.08
19 3 0.08
20 17 0.45
21 9 0.24
22 3 0.08
23 3 0.08
ACGTcount: A:0.40, C:0.24, G:0.23, T:0.13
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:4398599 original size:41 final size:41
Alignment explanation
Indices: 4398516--4398741 Score: 271
Period size: 41 Copynumber: 5.5 Consensus size: 41
4398506 TTTTTAATTT
* * *
4398516 ACTGTAGACTATCGCAA--CGAATTTGGAAAATCGTAACAAC
1 ACTGTAGACTATCGCAACGCGAA-ATGGAAAATCGCAACGAC
*
4398556 ACTGTACACTATCGCAACGCGAAATGGAAAATCGCAACGAC
1 ACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGAC
* *
4398597 ACTGCAGACTATCGCAACGCGAAATGGAAAATTGCAACGAC
1 ACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGAC
* * * **
4398638 ACTGTAGGCTATCGCAATGCGAAAAGGAAAATCGCGTTGCGA-
1 ACTGTAGACTATCGCAACGCGAAATGGAAAATCGC--AACGAC
** *
4398680 TTTTTA-ACTATCGCAACGCGAAATGGAAAATCGCAACGAC
1 ACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGAC
4398720 ACTGTAGACTATCGCAACGCGA
1 ACTGTAGACTATCGCAACGCGA
4398742 TTTTCAACTA
Statistics
Matches: 155, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
39 3 0.02
40 19 0.12
41 123 0.79
42 7 0.05
43 3 0.02
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (41 bp):
ACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGAC
Found at i:4400326 original size:53 final size:54
Alignment explanation
Indices: 4400243--4400367 Score: 180
Period size: 53 Copynumber: 2.3 Consensus size: 54
4400233 TACCCCTTGG
* * *
4400243 GGGGGAATCGGTTCCCTCTGAGCATACTGGAATTCTCGGAGCC-AAACTATTCA
1 GGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCCAAAACCATTCA
* *
4400296 GGGGGAATCGGTTCCCTCCGATCATTCTGGAAATCTCGGAGCCAAAACCATTCA
1 GGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCCAAAACCATTCA
* *
4400350 GGGGGGATCGGTACCCTC
1 GGGGGAATCGGTTCCCTC
4400368 TTGGGGGGGG
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
53 39 0.61
54 25 0.39
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.22
Consensus pattern (54 bp):
GGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCCAAAACCATTCA
Found at i:4407685 original size:76 final size:76
Alignment explanation
Indices: 4407489--4407693 Score: 301
Period size: 75 Copynumber: 2.7 Consensus size: 76
4407479 GTTATATAAG
* *
4407489 GGGGGGAATCGGTA-CCCCTTGGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAGC
1 GGGGGG-ATCGGTACCCCCTTGGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGC
*
4407553 CAAACTATTCAT
65 CAAACCATTCAT
*
4407565 GGGGGAATCGGTACCCCCTAT--GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGC
1 GGGGGGATCGGTACCCCCT-TGGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGC
4407628 CAAAACCATTCA-
65 C-AAACCATTCAT
* *
4407640 GGGGGGATCGGTACCCCCTTGGGGGGGAATCGGTTCCCTCTGAGCAATCTGGAA
1 GGGGGGATCGGTACCCCCTTGGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAA
4407694 TTTTTGGCTT
Statistics
Matches: 117, Mismatches: 7, Indels: 10
0.87 0.05 0.07
Matches are distributed among these distances:
74 1 0.01
75 66 0.56
76 49 0.42
77 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.32, T:0.21
Consensus pattern (76 bp):
GGGGGGATCGGTACCCCCTTGGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGCC
AAACCATTCAT
Found at i:4408305 original size:2 final size:2
Alignment explanation
Indices: 4408298--4408349 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
4408288 AAGTGGATCT
4408298 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
4408340 TA TA TA TA TA
1 TA TA TA TA TA
4408350 ATTCCTTCTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4410805 original size:21 final size:20
Alignment explanation
Indices: 4410776--4410820 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
4410766 ATAACCAGTG
4410776 AAAACAATATCAAC-AATTTT
1 AAAACAATAT-AACTAATTTT
*
4410796 AAAACCAATATAACTCATTTT
1 AAAA-CAATATAACTAATTTT
4410817 AAAA
1 AAAA
4410821 GCAAGCAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAACAATATAACTAATTTT
Found at i:4411612 original size:3 final size:3
Alignment explanation
Indices: 4411599--4411649 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
4411589 ACTCATTTCA
4411599 ATT ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4411646 ATT A
1 ATT A
4411650 ACGTTTATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:4416021 original size:20 final size:21
Alignment explanation
Indices: 4415980--4416022 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
4415970 AATCAGATTG
4415980 CCCAGGGGGTACAGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
*
4416001 CCCAGGGGGTACCGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
4416022 C
1 C
4416023 TGTCTAACGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.42, G:0.28, T:0.14
Consensus pattern (21 bp):
CCCAGGGGGTACAGATTCCCC
Found at i:4419448 original size:20 final size:20
Alignment explanation
Indices: 4419410--4419509 Score: 103
Period size: 20 Copynumber: 4.9 Consensus size: 20
4419400 CAGATTGAAC
4419410 GGGGGTACAGATTCTCCCCCA
1 GGGGGTACAGATTC-CCCCCA
* *
4419431 GGGGGTACATATTCCCCCTA
1 GGGGGTACAGATTCCCCCCA
* * * *
4419451 GGGAGAACAAATTTCCCCCA
1 GGGGGTACAGATTCCCCCCA
*
4419471 GGGGGAACAGATTCCCCCCCA
1 GGGGGTACAGATT-CCCCCCA
4419492 GGGGGTACCA-ATTCCCCC
1 GGGGGTA-CAGATTCCCCC
4419510 TGTCTAACAG
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
20 36 0.55
21 28 0.42
22 2 0.03
ACGTcount: A:0.23, C:0.34, G:0.26, T:0.17
Consensus pattern (20 bp):
GGGGGTACAGATTCCCCCCA
Found at i:4419505 original size:21 final size:21
Alignment explanation
Indices: 4419410--4419509 Score: 98
Period size: 21 Copynumber: 4.9 Consensus size: 21
4419400 CAGATTGAAC
*
4419410 GGGGGTACAGATTCTCCCCCA
1 GGGGGTACAGATTCCCCCCCA
* *
4419431 GGGGGTACATATT-CCCCCTA
1 GGGGGTACAGATTCCCCCCCA
* * * *
4419451 GGGAGAACAAATT-TCCCCCA
1 GGGGGTACAGATTCCCCCCCA
*
4419471 GGGGGAACAGATTCCCCCCCA
1 GGGGGTACAGATTCCCCCCCA
4419492 GGGGGTACCA-ATTCCCCC
1 GGGGGTA-CAGATTCCCCC
4419510 TGTCTAACAG
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
20 31 0.48
21 32 0.49
22 2 0.03
ACGTcount: A:0.23, C:0.34, G:0.26, T:0.17
Consensus pattern (21 bp):
GGGGGTACAGATTCCCCCCCA
Found at i:4419896 original size:34 final size:31
Alignment explanation
Indices: 4419857--4419925 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 31
4419847 TTTTGTAAAG
* *
4419857 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTATAGCTTAACCCG-G-AAAA-CTA
*
4419891 GGGAAAGGTTATAGTTTAACCCGGAAAACTA
1 GGGAAAGGTTATAGCTTAACCCGGAAAACTA
4419922 GGGA
1 GGGA
4419926 GTTTGTAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 7 0.22
32 4 0.12
33 1 0.03
34 20 0.62
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.22
Consensus pattern (31 bp):
GGGAAAGGTTATAGCTTAACCCGGAAAACTA
Found at i:4422892 original size:22 final size:21
Alignment explanation
Indices: 4422854--4422956 Score: 84
Period size: 22 Copynumber: 4.7 Consensus size: 21
4422844 ATAAAGAGAA
* *
4422854 AAAAAATAAAAGA-AAAATAT
1 AAAAAAGAAAAGAGAAAAGAT
4422874 AAAAAAGGAAAAGAGAAAAGAT
1 AAAAAA-GAAAAGAGAAAAGAT
* *
4422896 AGAATAAGAAAAGGGAAAAGAT
1 A-AAAAAGAAAAGAGAAAAGAT
* *
4422918 AAAAAAAGAAAAATAGAAAA-AA
1 -AAAAAAG-AAAAGAGAAAAGAT
4422940 AAAAGAAGAAAATGAGA
1 AAAA-AAGAAAA-GAGA
4422957 GAAAAAGAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
20 6 0.09
21 14 0.21
22 33 0.49
23 14 0.21
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (21 bp):
AAAAAAGAAAAGAGAAAAGAT
Found at i:4422926 original size:10 final size:9
Alignment explanation
Indices: 4422911--4422970 Score: 50
Period size: 10 Copynumber: 6.3 Consensus size: 9
4422901 AAGAAAAGGG
4422911 AAAAGATAAA
1 AAAAGA-AAA
4422921 AAAAGAAAA
1 AAAAGAAAA
4422930 ATAGAA-AAAA
1 A-A-AAGAAAA
*
4422940 AAAAGAAGA
1 AAAAGAAAA
* *
4422949 AAATGAGAGA
1 AAAAGA-AAA
4422959 AAAAGAAAA
1 AAAAGAAAA
4422968 AAA
1 AAA
4422971 TGAGATAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
8 2 0.05
9 18 0.43
10 20 0.48
11 2 0.05
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:4422928 original size:37 final size:38
Alignment explanation
Indices: 4422882--4422968 Score: 97
Period size: 37 Copynumber: 2.3 Consensus size: 38
4422872 ATAAAAAAGG
* * * * *
4422882 AAAAGAGAAAAGATAGAATAAGAAAAG-GGAAAA-GATA
1 AAAAAAGAAAA-ATAGAAAAAAAAAAGAAGAAAATGAGA
4422919 AAAAAAGAAAAATAGAAAAAAAAAAGAAGAAAATGAGA
1 AAAAAAGAAAAATAGAAAAAAAAAAGAAGAAAATGAGA
*
4422957 GAAAAAGAAAAA
1 AAAAAAGAAAAA
4422969 AATGAGATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
36 13 0.31
37 15 0.36
38 14 0.33
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.06
Consensus pattern (38 bp):
AAAAAAGAAAAATAGAAAAAAAAAAGAAGAAAATGAGA
Found at i:4422949 original size:44 final size:45
Alignment explanation
Indices: 4422850--4422951 Score: 106
Period size: 45 Copynumber: 2.4 Consensus size: 45
4422840 ATAGATAAAG
* *
4422850 AGAAAAAA-AATAAAA--GAAAAATATAAAAAAGGAAAAGAGAAA
1 AGAAAAAAGAAGAAAAGGGAAAAATATAAAAAAGAAAAAGAGAAA
* * * *
4422892 AGATAGAATAAGAAAAGGGAAAAGATA-AAAAAAGAAAAATAGAAA
1 AGAAAAAAGAAGAAAAGGGAAAA-ATATAAAAAAGAAAAAGAGAAA
4422937 A-AAAAAAGAAGAAAA
1 AGAAAAAAGAAGAAAA
4422952 TGAGAGAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
42 6 0.12
43 6 0.12
44 11 0.23
45 22 0.46
46 3 0.06
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (45 bp):
AGAAAAAAGAAGAAAAGGGAAAAATATAAAAAAGAAAAAGAGAAA
Found at i:4422961 original size:19 final size:19
Alignment explanation
Indices: 4422939--4422980 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
4422929 AATAGAAAAA
*
4422939 AAAAAGAAGAAAATGAGAG
1 AAAAAGAAAAAAATGAGAG
*
4422958 AAAAAGAAAAAAATGAGAT
1 AAAAAGAAAAAAATGAGAG
4422977 AAAA
1 AAAA
4422981 TAAATCAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (19 bp):
AAAAAGAAAAAAATGAGAG
Found at i:4422962 original size:22 final size:19
Alignment explanation
Indices: 4422854--4422946 Score: 64
Period size: 17 Copynumber: 4.7 Consensus size: 19
4422844 ATAAAGAGAA
*
4422854 AAAAAATAAAAGAAAAATATA
1 AAAAAA-AAAAGAAAAATA-G
4422875 AAAAAGGAAAAGAGAAAAGATAG
1 AAAAA--AAAA-AGAAAA-ATAG
* * **
4422898 AATAAGAAAAGGGAAA-AG
1 AAAAAAAAAAGAAAAATAG
*
4422916 -ATAAAAAAAGAAAAATAG
1 AAAAAAAAAAGAAAAATAG
4422934 AAAAAAAAAAGAA
1 AAAAAAAAAAGAA
4422947 GAAAATGAGA
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
17 12 0.21
18 4 0.07
19 12 0.21
20 4 0.07
21 8 0.14
22 3 0.05
23 11 0.19
24 3 0.05
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (19 bp):
AAAAAAAAAAGAAAAATAG
Found at i:4424970 original size:38 final size:38
Alignment explanation
Indices: 4424871--4425365 Score: 437
Period size: 38 Copynumber: 12.8 Consensus size: 38
4424861 GAAGCTTCGA
* *
4424871 CTTGACTCCCTCATGAAGA-AGAGTCAATCTTTCAATGTTATT
1 CTTGACTTCCTCGTGAAGAGA-AGTCAATC-TT---TGTTATT
* * * * *
4424913 CTTGACCTCTTCATTAAGAGAAGTTAATCTTTGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
* *
4424951 CTTGGCTTCCTCGTGAAGAGAAGTCAATATTT-TTCATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTT-ATT
* * * * *
4424989 CTTGAATTCTTCATGAAGGGAAGTCAATATTTGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
* * * * *
4425027 CATGACTTCCTTGTGAAGAGAAGCCGATCTTTTTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
* *
4425065 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTATTTTT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
** * * ** *
4425103 CAAGACTTACTCGTGAAGAGCAGTTGATCTTT-TTCCTT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTT-ATT
* *
4425141 CTTAACTTCCTCGTGAAGAGAATTCAATCTTTGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
* *
4425179 CTTGAC-TCACTTGTGAAGACAAGTCAATCTTTCTATGTTATT
1 CTTGACTTC-CTCGTGAAGAGAAGTCAATC--T-T-TGTTATT
*
4425221 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTTTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
* * *
4425259 CTTGATTTCCTCGTGAAGAGAAGTGAATCTTT-ATATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
* * * *
4425296 CTTGATTTCCTCGTGAAGATAAGTCAGTCTTT-TTCTT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
* *
4425333 CCTTTACTTTCTCGTGAAGATG-AGTCAATCTTT
1 -CTTGACTTCCTCGTGAAGA-GAAGTCAATCTTT
4425366 TAATGTTTTC
Statistics
Matches: 371, Mismatches: 69, Indels: 30
0.79 0.15 0.06
Matches are distributed among these distances:
37 42 0.11
38 263 0.71
39 5 0.01
40 2 0.01
41 3 0.01
42 53 0.14
43 3 0.01
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (38 bp):
CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
Found at i:4425390 original size:45 final size:45
Alignment explanation
Indices: 4425338--4425638 Score: 196
Period size: 45 Copynumber: 6.7 Consensus size: 45
4425328 TTCTTCCTTT
* *
4425338 ACTTTCTCGTGAAGATGAGTCAATCTTTTAATGTTTTCCTTCTTG
1 ACTTTCTCGTGAAGAGGAGTCAATCTTTTAATGTTTTCATTCTTG
*** * * * * * *
4425383 ACTTTCTCACAAAGAGGAGTTAATCTCTCAGTATTGTC-TTCCTTG
1 ACTTTCTCGTGAAGAGGAGTCAATCTTTTAATGTTTTCATT-CTTG
* * *
4425428 ACTTTCTCGTGAAGAGGAGTTAATC-TCTAA-GTATTGTCATTCTTA
1 ACTTTCTCGTGAAGAGGAGTCAATCTTTTAATGT-TT-TCATTCTTG
** * * * * * *
4425473 ACTTTCTCGTGAAGAAAAGTCAATCTCTCAATCTTTGTCCTTTTTT
1 ACTTTCTCGTGAAGAGGAGTCAATCTTTTAATGTTT-TCATTCTTG
* * ** * *
4425519 ACTTTCTCGCGAAGAGGAGTCAATATTTTGGTGTTGTCATACTTG
1 ACTTTCTCGTGAAGAGGAGTCAATCTTTTAATGTTTTCATTCTTG
* * * * * * *
4425564 ACTTTCTCATGAAGAGAAGTTAACCTTTTAGTAGTGTT-ATTCTGG
1 ACTTTCTCGTGAAGAGGAGTCAATCTTTTAAT-GTTTTCATTCTTG
* *
4425609 ACTTTCTCATGAAGAGGAGTCAACCTTTTA
1 ACTTTCTCGTGAAGAGGAGTCAATCTTTTA
4425639 GTAATGTCAT
Statistics
Matches: 192, Mismatches: 57, Indels: 14
0.73 0.22 0.05
Matches are distributed among these distances:
43 1 0.01
44 4 0.02
45 144 0.75
46 42 0.22
47 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (45 bp):
ACTTTCTCGTGAAGAGGAGTCAATCTTTTAATGTTTTCATTCTTG
Found at i:4425498 original size:90 final size:90
Alignment explanation
Indices: 4425329--4425657 Score: 279
Period size: 90 Copynumber: 3.6 Consensus size: 90
4425319 TCAGTCTTTT
* * * *
4425329 TCTTCCTTTACTTTCTCGTGAAGATGAGTCAATCTTTTAATGT-TT-TCCTTCTTGACTTTCTCA
1 TCTTCCTTGACTTTCTCGTGAAGAGGAGTCAATC-TTTAA-GTATTGTCATTCTTAACTTTCTCA
** *
4425392 CAAAGAGGAGTTAATCTCTCAGTATTG
64 TGAAGAGAAGTTAATCTCTCAGTATTG
* * *
4425419 TCTTCCTTGACTTTCTCGTGAAGAGGAGTTAATCTCTAAGTATTGTCATTCTTAACTTTCTCGTG
1 TCTTCCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTAAGTATTGTCATTCTTAACTTTCTCATG
* * * *
4425484 AAGAAAAGTCAATCTCTCAATCTTTG
66 AAGAGAAGTTAATCTCTCAGT-ATTG
* * * * ** * * *
4425510 TCCTT-TTTTACTTTCTCGCGAAGAGGAGTCAATATTTTGGTGTTGTCATACTTGACTTTCTCAT
1 T-CTTCCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTAAGTATTGTCATTCTTAACTTTCTCAT
* * * *
4425574 GAAGAGAAGTTAACCTTTTAGTAGTG
65 GAAGAGAAGTTAATCTCTCAGTATTG
* * * * * * *
4425600 T-TATTCTGGACTTTCTCATGAAGAGGAGTCAACCTTTTAGTAATGTCATTCTCAACTT
1 TCT-TCCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTAAGTATTGTCATTCTTAACTT
4425658 GACTTTCTTG
Statistics
Matches: 186, Mismatches: 47, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
88 3 0.02
89 7 0.04
90 106 0.57
91 67 0.36
92 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.41
Consensus pattern (90 bp):
TCTTCCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTAAGTATTGTCATTCTTAACTTTCTCATG
AAGAGAAGTTAATCTCTCAGTATTG
Found at i:4425630 original size:136 final size:135
Alignment explanation
Indices: 4425338--4425631 Score: 327
Period size: 136 Copynumber: 2.2 Consensus size: 135
4425328 TTCTTCCTTT
* * * *
4425338 ACTTTCTCGTGAAGATGAGTCAATCTTTTAATGTTTTCCTTCTTGACTTTCTCACAAAGAGGAGT
1 ACTTTCTCGTGAAGAAGAGTCAATCTCTCAATCTTTTCCTTCTTGACTTTCTCACAAAGAGGAGT
* * * * * * * *
4425403 TAATCTCTCAGTATTGTCTTCCTTGACTTTCTCGTGAAGAGGAGTTAATCTCTAAGTATTGTCAT
66 CAATATCTCAGTATTGTCATACTTGACTTTCTCATGAAGAGAAGTTAACCTCTAAGTAGTGTCAT
*
4425468 TCTTA
131 TCTGA
* * * * *
4425473 ACTTTCTCGTGAAGAAAAGTCAATCTCTCAATCTTTGTCCTTTTTTACTTTCTCGCGAAGAGGAG
1 ACTTTCTCGTGAAGAAGAGTCAATCTCTCAATCTTT-TCCTTCTTGACTTTCTCACAAAGAGGAG
* ** * * * *
4425538 TCAATATTTTGGTGTTGTCATACTTGACTTTCTCATGAAGAGAAGTTAACCTTTTAGTAGTGTTA
65 TCAATATCTCAGTATTGTCATACTTGACTTTCTCATGAAGAGAAGTTAACCTCTAAGTAGTGTCA
*
4425603 TTCTGG
130 TTCTGA
* *
4425609 ACTTTCTCATGAAGAGGAGTCAA
1 ACTTTCTCGTGAAGAAGAGTCAA
4425632 CCTTTTAGTA
Statistics
Matches: 129, Mismatches: 29, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
135 31 0.24
136 98 0.76
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.40
Consensus pattern (135 bp):
ACTTTCTCGTGAAGAAGAGTCAATCTCTCAATCTTTTCCTTCTTGACTTTCTCACAAAGAGGAGT
CAATATCTCAGTATTGTCATACTTGACTTTCTCATGAAGAGAAGTTAACCTCTAAGTAGTGTCAT
TCTGA
Found at i:4426247 original size:3 final size:3
Alignment explanation
Indices: 4426239--4426272 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
4426229 ACTCAATTCA
4426239 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
4426273 ATGTTTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:4432339 original size:14 final size:14
Alignment explanation
Indices: 4432320--4432358 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
4432310 AAAGTCAAAG
4432320 AGTTGACTCAGAAA
1 AGTTGACTCAGAAA
* **
4432334 AGTTGACTTAGACG
1 AGTTGACTCAGAAA
4432348 AGTTGACTCAG
1 AGTTGACTCAG
4432359 TTCAGGTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (14 bp):
AGTTGACTCAGAAA
Found at i:4433590 original size:2 final size:2
Alignment explanation
Indices: 4433585--4433621 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
4433575 TTAATCATTA
4433585 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4433622 ATTACTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:4436780 original size:3 final size:3
Alignment explanation
Indices: 4436772--4436799 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4436762 TATTTTATTG
4436772 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4436800 GTACATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4442625 original size:128 final size:125
Alignment explanation
Indices: 4442411--4442768 Score: 269
Period size: 127 Copynumber: 2.8 Consensus size: 125
4442401 GAAGAGTTCG
* *
4442411 GGTTGTCTAAGGGTGACACGACTCCTACATAATGAGGAGATCTAGTCAGGTAATGAAACTGCTCA
1 GGTTATCTAAGGGTGACACGACTCCTACATAATGAGGAGATATAGTCAGGTAATGAAACTGCTCA
* *
4442476 TACTATGATAAGTCTTGGCCATATATGAAGGGTGATAACACTGCTCATACTATAATAAGTCTT
66 TACTATCATAAGTCTTAGCC--ATAT-AAGGGTGATAACACTGCTCATACTATAATAAGTCTT
* * * *
4442539 GGTTATCT-AGGGTTGACACGACTCCTACATGATGAGGAGA-ATAGATCAGGTGATGACATTGCT
1 GGTTATCTAAGGG-TGACACGACTCCTACATAATGAGGAGATATAG-TCAGGTAATGAAACTGCT
* ** * * * * * * * ** * * *
4442602 TATTTTTTCATGAGTTTTAGCCATCTAAGGGTGATAACAC-GATTC-CACTCTGCTAGGGACAGA
64 CATACTATCATAAGTCTTAGCCATATAAGGGTGATAACACTG-CTCATACTATAATA-AGTC--T
4442665 T
125 T
* * * * * * * * *
4442666 GGTTATCAAAGGTTGACACGGCTCCTACGTGATGAGGAGATCA-GGTCAGGTGATGACACTGCTA
1 GGTTATCTAAGGGTGACACGACTCCTACATAATGAGGAGAT-ATAGTCAGGTAATGAAACTGCTC
* *
4442730 AT-CTATTCATTAGTCTTTGCCATATAAGGGTGATAACAC
65 ATACTA-TCATAAGTCTTAGCCATATAAGGGTGATAACAC
4442769 GATTCCACTC
Statistics
Matches: 184, Mismatches: 36, Indels: 21
0.76 0.15 0.09
Matches are distributed among these distances:
124 7 0.04
125 18 0.10
126 4 0.02
127 88 0.48
128 66 0.36
129 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (125 bp):
GGTTATCTAAGGGTGACACGACTCCTACATAATGAGGAGATATAGTCAGGTAATGAAACTGCTCA
TACTATCATAAGTCTTAGCCATATAAGGGTGATAACACTGCTCATACTATAATAAGTCTT
Found at i:4442995 original size:126 final size:126
Alignment explanation
Indices: 4442538--4443001 Score: 565
Period size: 127 Copynumber: 3.7 Consensus size: 126
4442528 TAATAAGTCT
* * * * *
4442538 TGGTTATCTAGGGTTGACACGACTCCTACATGATGAGGAGAAT-AGATCAGGTGATGACATTGCT
1 TGGTTATCAAAGGTTGACACGACTCCTACATGATGAGGAG-ATCAGGTCAGGTGATGACACTACT
* * * * *
4442602 TATTTTTTCATGAGTTTTAGCCATCTAAGGGTGATAACACGATTCCACTCTGCTAGGGACAGA
65 TATCTGTTCATGAGTCTTGGCCATCTAAGGGTGATAACACGATTCCACTCTGATAGGGA-AGA
* * * *
4442665 TGGTTATCAAAGGTTGACACGGCTCCTACGTGATGAGGAGATCAGGTCAGGTGATGACACTGCTA
1 TGGTTATCAAAGGTTGACACGACTCCTACATGATGAGGAGATCAGGTCAGGTGATGACACTACTT
* * * * *
4442730 ATCTATTCATTAGTCTTTGCCATATAAGGGTGATAACACGATTCCACTCTGATAGGGACGA
66 ATCTGTTCATGAGTCTTGGCCATCTAAGGGTGATAACACGATTCCACTCTGATAGGGAAGA
* * * * *
4442791 CTGTTTATCAAAGGTTGACATGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACTACT
1 -TGGTTATCAAAGGTTGACACGACTCCTACATGATGAGGAGATCAGGTCAGGTGATGACACTACT
* * *
4442856 CATCTGTTCATGAGTCTTGGCCATCTAAGGGTGATAACACTG-TTCCACTCTGATGGGGATGGA
65 TATCTGTTCATGAGTCTTGGCCATCTAAGGGTGATAACAC-GATTCCACTCTGATAGGGA-AGA
* * * * *
4442919 TGGTTATCTAA-GTTGGCACAACTCCTACATAATGAGGAGATCTGGTCAGGTGATGACACTACTT
1 TGGTTATCAAAGGTTGACACGACTCCTACATGATGAGGAGATCAGGTCAGGTGATGACACTACTT
*
4442983 ATTTGTTCATGAGTCTTGG
66 ATCTGTTCATGAGTCTTGG
4443002 TCAGGGGAAT
Statistics
Matches: 295, Mismatches: 38, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
126 66 0.22
127 226 0.77
128 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (126 bp):
TGGTTATCAAAGGTTGACACGACTCCTACATGATGAGGAGATCAGGTCAGGTGATGACACTACTT
ATCTGTTCATGAGTCTTGGCCATCTAAGGGTGATAACACGATTCCACTCTGATAGGGAAGA
Found at i:4443343 original size:32 final size:31
Alignment explanation
Indices: 4443268--4443352 Score: 82
Period size: 32 Copynumber: 2.6 Consensus size: 31
4443258 TTCGTATCAG
* *
4443268 GATGTTAAATCTCTAAAGATGACCCAATATTC
1 GATGTT-AATCTCCAAAGATGACCCAACATTC
* *
4443300 GATGTCTAATCTCCAAATAT-ACCTCAACATTT
1 GATGT-TAATCTCCAAAGATGACC-CAACATTC
*
4443332 GATGTTGAATCTTCAAAGATG
1 GATGTT-AATCTCCAAAGATG
4443353 TCCCCATTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
31 4 0.09
32 38 0.88
33 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (31 bp):
GATGTTAATCTCCAAAGATGACCCAACATTC
Found at i:4443525 original size:24 final size:22
Alignment explanation
Indices: 4443498--4443554 Score: 60
Period size: 25 Copynumber: 2.4 Consensus size: 22
4443488 TTTCAAGATC
4443498 TGAAAATATCAATTAAAAGAGTTT
1 TGAAAATATCAA-TAAAA-AGTTT
* *
4443522 TGAAAAATGTTTAATAAAAAGTTT
1 TG-AAAAT-ATCAATAAAAAGTTT
4443546 TGAAAATAT
1 TGAAAATAT
4443555 TTCTCCTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 1 0.04
23 5 0.18
24 9 0.32
25 10 0.36
26 3 0.11
ACGTcount: A:0.51, C:0.02, G:0.12, T:0.35
Consensus pattern (22 bp):
TGAAAATATCAATAAAAAGTTT
Found at i:4444494 original size:17 final size:18
Alignment explanation
Indices: 4444474--4444507 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4444464 TTTTGTTGCT
4444474 CTTTTA-TTTTCTTTTTG
1 CTTTTATTTTTCTTTTTG
4444491 CTTTTATTTTTCTTTTT
1 CTTTTATTTTTCTTTTT
4444508 TTGCTTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.06, C:0.12, G:0.03, T:0.79
Consensus pattern (18 bp):
CTTTTATTTTTCTTTTTG
Found at i:4444518 original size:18 final size:18
Alignment explanation
Indices: 4444457--4444519 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
4444447 CTTCTTTTCT
4444457 TTTTTCTTTTTGTTGC-TC
1 TTTTTCTTTTT-TTGCTTC
* *
4444475 TTTTATTTTCTTTTTGCTTTTA
1 TTTT-TCTT-TTTTTGC--TTC
4444497 TTTTTCTTTTTTTGCTTC
1 TTTTTCTTTTTTTGCTTC
4444515 TTTTT
1 TTTTT
4444520 TTGCTTATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
18 11 0.31
19 7 0.19
20 10 0.28
21 3 0.08
22 5 0.14
ACGTcount: A:0.03, C:0.13, G:0.06, T:0.78
Consensus pattern (18 bp):
TTTTTCTTTTTTTGCTTC
Found at i:4444538 original size:21 final size:20
Alignment explanation
Indices: 4444456--4444531 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
4444446 GCTTCTTTTC
4444456 TTTTTTCTTTTTGTTGC-TCT
1 TTTTTTCTTTTT-TTGCTTCT
*
4444476 TTTATTT-TCTTTTTGCTT-T
1 TTT-TTTCTTTTTTTGCTTCT
4444495 TATTTTTCTTTTTTTGCTTCT
1 T-TTTTTCTTTTTTTGCTTCT
4444516 TTTTTTGCTTATTTTT
1 TTTTTT-CTT-TTTTT
4444532 TCTCTTTATT
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
19 9 0.19
20 25 0.53
21 8 0.17
22 5 0.11
ACGTcount: A:0.04, C:0.12, G:0.07, T:0.78
Consensus pattern (20 bp):
TTTTTTCTTTTTTTGCTTCT
Found at i:4456937 original size:13 final size:14
Alignment explanation
Indices: 4456919--4456947 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4456909 TTTAAACGAG
4456919 TTAAATTAT-AATA
1 TTAAATTATAAATA
4456932 TTAAATTATAAATA
1 TTAAATTATAAATA
4456946 TT
1 TT
4456948 TGAATGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTAAATTATAAATA
Found at i:4460190 original size:29 final size:29
Alignment explanation
Indices: 4460143--4460201 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
4460133 TCAATTATTG
* *
4460143 TTTTACTCAACAGTGTTTAA-CATTTCATC
1 TTTTACTCAACAATATTTAACCA-TTCATC
4460172 TTTTACTCAACAATATTTAACCATTCATC
1 TTTTACTCAACAATATTTAACCATTCATC
4460201 T
1 T
4460202 AACTGGCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 25 0.93
30 2 0.07
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.44
Consensus pattern (29 bp):
TTTTACTCAACAATATTTAACCATTCATC
Found at i:4460610 original size:79 final size:79
Alignment explanation
Indices: 4460511--4460678 Score: 266
Period size: 79 Copynumber: 2.1 Consensus size: 79
4460501 CCTTTAGGTT
* * * *
4460511 AATAATACACCCATATGCATTATTCTTTTTTGTTGATAATGCACCCATATGCATTTCAGC-TATG
1 AATAATGCACCCATATGCATTATTCTTTTATGCTGATAATGCACCCATATGCATTTAAGCGT-TG
4460575 ACATCCTTTCATGCC
65 ACATCCTTTCATGCC
* *
4460590 AATAATGCATCCATATGCATTATTCTTTTATGCTGATAATGCACCCATATGCATTTAAGCGTTGT
1 AATAATGCACCCATATGCATTATTCTTTTATGCTGATAATGCACCCATATGCATTTAAGCGTTGA
4460655 CATCCTTTCATGCC
66 CATCCTTTCATGCC
4460669 AATAATGCAC
1 AATAATGCAC
4460679 ACACAGTGCC
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
79 80 0.99
80 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (79 bp):
AATAATGCACCCATATGCATTATTCTTTTATGCTGATAATGCACCCATATGCATTTAAGCGTTGA
CATCCTTTCATGCC
Found at i:4461219 original size:22 final size:22
Alignment explanation
Indices: 4461171--4461221 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
4461161 GGTATCGATG
* * *
4461171 CCCTTACCATGGTATCGATACT
1 CCCTTACCAAGGTACCGATACC
* *
4461193 ACCTTACTAAGGTACCGATACC
1 CCCTTACCAAGGTACCGATACC
4461215 CCCTTAC
1 CCCTTAC
4461222 GGTATCATTA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.25, C:0.35, G:0.12, T:0.27
Consensus pattern (22 bp):
CCCTTACCAAGGTACCGATACC
Found at i:4473725 original size:14 final size:12
Alignment explanation
Indices: 4473695--4473726 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
4473685 ATCCAAAAAA
4473695 GTATATATTATG
1 GTATATATTATG
4473707 GTATATATTATG
1 GTATATATTATG
4473719 GTATATAT
1 GTATATAT
4473727 GAAGCCTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (12 bp):
GTATATATTATG
Found at i:4480424 original size:17 final size:17
Alignment explanation
Indices: 4480402--4480435 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4480392 GATAACATTG
4480402 CCTTTAATTGTTTTAGA
1 CCTTTAATTGTTTTAGA
4480419 CCTTTAATTGTTTTAGA
1 CCTTTAATTGTTTTAGA
4480436 GAATGAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (17 bp):
CCTTTAATTGTTTTAGA
Found at i:4486097 original size:10 final size:10
Alignment explanation
Indices: 4486082--4486109 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
4486072 GGCTTATTTT
4486082 TTCATTTTGA
1 TTCATTTTGA
4486092 TTCATTTTGA
1 TTCATTTTGA
4486102 TTCATTTT
1 TTCATTTT
4486110 CTATGCAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.18, C:0.11, G:0.07, T:0.64
Consensus pattern (10 bp):
TTCATTTTGA
Found at i:4486492 original size:84 final size:82
Alignment explanation
Indices: 4486330--4486499 Score: 234
Period size: 84 Copynumber: 2.0 Consensus size: 82
4486320 AAACTCAAGT
4486330 TTTAGGATAATATTTTAAACATTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGATGT
1 TTTAGGATAATATTTTAAACATTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGATGT
*
4486395 TAGTATTTCAATTAGGA
66 TAGTATTTCAATTAGAA
* * * *
4486412 TTTAGGATATTATTTTAAATATATTTTATTTTATTTTTGTTTTAGGTATTTTAGTTTAAATAG-T
1 TTTAGGATAATATTTT-AA-ACATTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGAT
* * *
4486476 TTTAAGTTTTTTAATTAGAA
64 GTT-AGTATTTCAATTAGAA
4486496 TTTA
1 TTTA
4486500 ATATATTCTT
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
82 15 0.19
83 5 0.06
84 57 0.74
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.56
Consensus pattern (82 bp):
TTTAGGATAATATTTTAAACATTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGATGT
TAGTATTTCAATTAGAA
Found at i:4488935 original size:21 final size:21
Alignment explanation
Indices: 4488909--4488958 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
4488899 AGCAATTTCA
*
4488909 CAAGAAAAACTGGTTACATCC
1 CAAGAAAAACTCGTTACATCC
**
4488930 CAAGAAAAGTTCGTTACATCC
1 CAAGAAAAACTCGTTACATCC
4488951 C-AGAAAAA
1 CAAGAAAAA
4488959 GCTAATTGCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.46, C:0.22, G:0.14, T:0.18
Consensus pattern (21 bp):
CAAGAAAAACTCGTTACATCC
Found at i:4495314 original size:86 final size:85
Alignment explanation
Indices: 4495174--4495334 Score: 200
Period size: 86 Copynumber: 1.9 Consensus size: 85
4495164 TTAAACATTA
* * *
4495174 TATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATATATGATAGTATTTCAATTAGGATTT-AGA
1 TATTTTATCTTTGTTTTAAGTATTTTAATTTAAATATATGATAGTATTTCAATTAGAATTTAAG-
*
4495238 ATGTTATTTTAAATAGTATTT
65 ATATTATTTTAAATAGTATTT
* * * * *
4495259 TATTTTATTTTTTGTTTTAAGTATTTTAATTTAAATAGTTTTA-AGTGTTTTAATTAGAATTTAA
1 TATTTTA-TCTTTGTTTTAAGTATTTTAATTTAAATA-TATGATAGTATTTCAATTAGAATTTAA
4495323 GATATTATTTTA
64 GATATTATTTTA
4495335 GGAATTTTTT
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
85 7 0.11
86 52 0.81
87 5 0.08
ACGTcount: A:0.31, C:0.01, G:0.11, T:0.57
Consensus pattern (85 bp):
TATTTTATCTTTGTTTTAAGTATTTTAATTTAAATATATGATAGTATTTCAATTAGAATTTAAGA
TATTATTTTAAATAGTATTT
Found at i:4495346 original size:86 final size:84
Alignment explanation
Indices: 4495150--4495334 Score: 198
Period size: 86 Copynumber: 2.2 Consensus size: 84
4495140 AAACTCAAGT
* * * * *
4495150 TTTAGAATAATATTTT-AA-ACATTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATATAT
1 TTTAGAATATTATTTTAAATATATTTTATTTTATCTTTGTTTTAAGTATTTTAATTTAAATATAT
*
4495213 GATAGTATTTCAATTAGGA
66 GATAGTATTTCAATTAGAA
* *
4495232 TTTAGAATGTTATTTTAAATAGTATTTTATTTTATTTTTTGTTTTAAGTATTTTAATTTAAATAG
1 TTTAGAATATTATTTTAAATA-TATTTTATTTTA-TCTTTGTTTTAAGTATTTTAATTTAAATA-
* * * *
4495297 TTTTA-AGTGTTTTAATTAGAA
63 TATGATAGTATTTCAATTAGAA
4495318 TTTA-AGATATTATTTTA
1 TTTAGA-ATATTATTTTA
4495335 GGAATTTTTT
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
82 14 0.17
83 2 0.02
84 1 0.01
85 11 0.13
86 53 0.63
87 3 0.04
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (84 bp):
TTTAGAATATTATTTTAAATATATTTTATTTTATCTTTGTTTTAAGTATTTTAATTTAAATATAT
GATAGTATTTCAATTAGAA
Found at i:4508545 original size:13 final size:13
Alignment explanation
Indices: 4508524--4508558 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
4508514 TGCGTCATAA
* *
4508524 ATTTCTGACTCGT
1 ATTTATGACACGT
4508537 ATTTATGACACGT
1 ATTTATGACACGT
4508550 ATTTATGAC
1 ATTTATGAC
4508559 GCTCATTGCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (13 bp):
ATTTATGACACGT
Found at i:4508689 original size:85 final size:85
Alignment explanation
Indices: 4508537--4508702 Score: 192
Period size: 85 Copynumber: 2.0 Consensus size: 85
4508527 TCTGACTCGT
* * * *
4508537 ATTTATGACACGTATTTATGACGCTCATTGCGCGTCATTGAAGCCCCCATCATAAATAAAGACGA
1 ATTTATGACACGCATTTATAACGCTCATTGCGCGTCATTGAAGCACACATCATAAATAAAGACGA
*
4508602 CACACATTTATGTGTCATAA
66 CACACATTCATGTGTCATAA
* * * * * *
4508622 ATTTATGACACGCATTTATAAC-TTACATTGCGTGTCATTGAAGCACACATGATTAGA-AAATAT
1 ATTTATGACACGCATTTATAACGCT-CATTGCGCGTCATTGAAGCACACATCA-TAAATAAAGAC
*
4508685 GACACATATTCATGTGTC
64 GACACACATTCATGTGTC
4508703 GTGATTGTAT
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
84 1 0.01
85 63 0.94
86 3 0.04
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (85 bp):
ATTTATGACACGCATTTATAACGCTCATTGCGCGTCATTGAAGCACACATCATAAATAAAGACGA
CACACATTCATGTGTCATAA
Found at i:4514145 original size:15 final size:16
Alignment explanation
Indices: 4514122--4514152 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
4514112 AAAGATTCTG
4514122 ACATCAATAATAACAT
1 ACATCAATAATAACAT
4514138 ACAT-AATAATAACAT
1 ACATCAATAATAACAT
4514153 TTCAATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.26
Consensus pattern (16 bp):
ACATCAATAATAACAT
Found at i:4514693 original size:46 final size:46
Alignment explanation
Indices: 4514554--4514781 Score: 321
Period size: 46 Copynumber: 4.9 Consensus size: 46
4514544 TAATTTATGA
* * *
4514554 CATCCTTTCATGCATTTTAGTTTATGACATTCTTTCATGCCTTAATG
1 CATCCTTTCATGCATTTTA-ATTATGGCATCCTTTCATGCCTTAATG
* * *
4514601 CATCCTTTTATGCATTTTAGTTTATGGTATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCATTTTA-ATTATGGCATCCTTTCATGCCTTAATG
* * *
4514648 CATCCTTTCATGCATTTTAATTATGGCATCATTTCCTGTCTTAATG
1 CATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATG
*
4514694 AATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATG
* * *
4514740 CATCCTTTTATGCATTTTAATTATGGCGTTCTTTCATGCCTT
1 CATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTT
4514782 TTAGTTTACG
Statistics
Matches: 163, Mismatches: 18, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
46 102 0.63
47 61 0.37
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (46 bp):
CATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATG
Found at i:4514783 original size:26 final size:26
Alignment explanation
Indices: 4514537--4514784 Score: 132
Period size: 20 Copynumber: 10.4 Consensus size: 26
4514527 ACATTCATTT
*
4514537 ATGCA-TTTAATTTATGACATCCTTTC
1 ATGCATTTTAA-TTATGGCATCCTTTC
* * *
4514563 ATGCATTTTAGTTTATGACATTCTTTC
1 ATGCATTTTA-ATTATGGCATCCTTTC
* *
4514590 ATGC--CTT-A--AT-GCATCCTTTT
1 ATGCATTTTAATTATGGCATCCTTTC
* *
4514610 ATGCATTTTAGTTTATGGTATCCTTTC
1 ATGCATTTTA-ATTATGGCATCCTTTC
*
4514637 ATGC--CTT-A--AT-GCATCCTTTC
1 ATGCATTTTAATTATGGCATCCTTTC
*
4514657 ATGCATTTTAATTATGGCATCATTTC
1 ATGCATTTTAATTATGGCATCCTTTC
* * *
4514683 CTG--TCTT-A--AT-GAATCCTTTC
1 ATGCATTTTAATTATGGCATCCTTTC
4514703 ATGCATTTTAATTATGGCATCCTTTC
1 ATGCATTTTAATTATGGCATCCTTTC
* *
4514729 ATGC--CTT-A--AT-GCATCCTTTT
1 ATGCATTTTAATTATGGCATCCTTTC
* *
4514749 ATGCATTTTAATTATGGCGTTCTTTC
1 ATGCATTTTAATTATGGCATCCTTTC
*
4514775 ATGCCTTTTA
1 ATGCATTTTA
4514785 GTTTACGGAT
Statistics
Matches: 165, Mismatches: 30, Indels: 54
0.66 0.12 0.22
Matches are distributed among these distances:
20 47 0.28
21 8 0.05
22 9 0.05
23 5 0.03
24 5 0.03
25 10 0.06
26 47 0.28
27 34 0.21
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (26 bp):
ATGCATTTTAATTATGGCATCCTTTC
Found at i:4522640 original size:13 final size:14
Alignment explanation
Indices: 4522622--4522651 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
4522612 TTCCTTTTAA
4522622 TTTAGTTTT-AATT
1 TTTAGTTTTCAATT
4522635 TTTAGTTTTCAATT
1 TTTAGTTTTCAATT
4522649 TTT
1 TTT
4522652 GTTAGTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (14 bp):
TTTAGTTTTCAATT
Found at i:4539358 original size:181 final size:184
Alignment explanation
Indices: 4539054--4539421 Score: 706
Period size: 181 Copynumber: 2.0 Consensus size: 184
4539044 ATATCAACAC
4539054 ATGTCATGTTTTATTTTAGCATTCTGCATACTTATTTTGCCTTGACCAAACTTTTCTGCAATCGT
1 ATGTCATGTTTTATTTTAGCATTCTGCATACTTATTTTGCCTTGACCAAACTTTTCTGCAATCGT
4539119 TAAATCACTTCTTGTTTTATTAATATTAGTTCTTAAGCTGACACTTAGTATGATTTAGTTTGGGG
66 TAAATCACTTCTTGTTTTATTAATATTAGTTCTTAAGCTGACACTTAGTATGATTTAGTTTGGGG
4539184 -AC-AGTTCTAGTTGTGGTG-AAATATATTTCTCGCCCAATCCCAGTGGAGACG
131 AACTAGTTCTAGTTGTGGTGAAAATATATTTCTCGCCCAATCCCAGTGGAGACG
4539235 ATGTCATGTTTTATTTTAGCATTCTGCATACTTATTTTGCCTTGACCAAACTTTTCTGCAATCGT
1 ATGTCATGTTTTATTTTAGCATTCTGCATACTTATTTTGCCTTGACCAAACTTTTCTGCAATCGT
4539300 TAAATCACTTCTTGTTTTATTAATATTAGTTCTTAAGCTGACACTTAGTATGATTTAGTTTGGGG
66 TAAATCACTTCTTGTTTTATTAATATTAGTTCTTAAGCTGACACTTAGTATGATTTAGTTTGGGG
4539365 ACACTAGTTCTAGTTGTGGTGAAAATATATTTCTCGCCCAATCCCAGTGGAGACG
131 A-ACTAGTTCTAGTTGTGGTGAAAATATATTTCTCGCCCAATCCCAGTGGAGACG
4539420 AT
1 AT
4539422 CCCTATATTA
Statistics
Matches: 183, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
181 130 0.71
183 2 0.01
184 16 0.09
185 35 0.19
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (184 bp):
ATGTCATGTTTTATTTTAGCATTCTGCATACTTATTTTGCCTTGACCAAACTTTTCTGCAATCGT
TAAATCACTTCTTGTTTTATTAATATTAGTTCTTAAGCTGACACTTAGTATGATTTAGTTTGGGG
AACTAGTTCTAGTTGTGGTGAAAATATATTTCTCGCCCAATCCCAGTGGAGACG
Found at i:4542242 original size:18 final size:18
Alignment explanation
Indices: 4542216--4542250 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4542206 GTGAATTTCG
4542216 CCTTCCTTTCATTTTTTA
1 CCTTCCTTTCATTTTTTA
* *
4542234 CCTTTCTTTGATTTTTT
1 CCTTCCTTTCATTTTTT
4542251 TTGGAATAGT
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:0.09, C:0.23, G:0.03, T:0.66
Consensus pattern (18 bp):
CCTTCCTTTCATTTTTTA
Found at i:4551929 original size:85 final size:85
Alignment explanation
Indices: 4551786--4551955 Score: 340
Period size: 85 Copynumber: 2.0 Consensus size: 85
4551776 TTGACCCAAA
4551786 GACGAATGAATGCATCTACCTTCATTCACCTAAGGATGAATTCGATTATCAGCTTTGGGATTCAG
1 GACGAATGAATGCATCTACCTTCATTCACCTAAGGATGAATTCGATTATCAGCTTTGGGATTCAG
4551851 TCAATAAGAAGGTTGTCCAC
66 TCAATAAGAAGGTTGTCCAC
4551871 GACGAATGAATGCATCTACCTTCATTCACCTAAGGATGAATTCGATTATCAGCTTTGGGATTCAG
1 GACGAATGAATGCATCTACCTTCATTCACCTAAGGATGAATTCGATTATCAGCTTTGGGATTCAG
4551936 TCAATAAGAAGGTTGTCCAC
66 TCAATAAGAAGGTTGTCCAC
4551956 AGTAGAGACG
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (85 bp):
GACGAATGAATGCATCTACCTTCATTCACCTAAGGATGAATTCGATTATCAGCTTTGGGATTCAG
TCAATAAGAAGGTTGTCCAC
Found at i:4563727 original size:11 final size:11
Alignment explanation
Indices: 4563711--4563742 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
4563701 ATTGTATGGC
4563711 ATTTAGTTTAT
1 ATTTAGTTTAT
4563722 ATTTAGTTTAT
1 ATTTAGTTTAT
4563733 ATTTAGTTTA
1 ATTTAGTTTA
4563743 GTTCACTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.62
Consensus pattern (11 bp):
ATTTAGTTTAT
Found at i:4570210 original size:17 final size:17
Alignment explanation
Indices: 4570190--4570223 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4570180 GTATAGTTTC
4570190 TTATTTGGCTTAATTAA
1 TTATTTGGCTTAATTAA
4570207 TTATTTGGCTTAATTAA
1 TTATTTGGCTTAATTAA
4570224 GATATTATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (17 bp):
TTATTTGGCTTAATTAA
Found at i:4574918 original size:20 final size:20
Alignment explanation
Indices: 4574893--4574938 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
4574883 GCATTGCTAT
*
4574893 AGAGCCATAGTTCGTCTTTA
1 AGAGCCATAGTTAGTCTTTA
*
4574913 AGAGCCATATTTAGTCTTTA
1 AGAGCCATAGTTAGTCTTTA
4574933 AGAGCC
1 AGAGCC
4574939 TTAGAAACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (20 bp):
AGAGCCATAGTTAGTCTTTA
Found at i:4577051 original size:3 final size:3
Alignment explanation
Indices: 4577043--4577082 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
4577033 TCGTAAAAGA
* *
4577043 AAT AAT AAT AAT AAT AAT AAT ATT AAT AAT AAT AGT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
4577083 GTAGTAGTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:4578794 original size:57 final size:57
Alignment explanation
Indices: 4578728--4578848 Score: 242
Period size: 57 Copynumber: 2.1 Consensus size: 57
4578718 CACAGTTCCA
4578728 TTTGTTTTGGGTCTTCAATCTTTGAATCATCATGAGAAGCCTTGTGATTGTATGTCT
1 TTTGTTTTGGGTCTTCAATCTTTGAATCATCATGAGAAGCCTTGTGATTGTATGTCT
4578785 TTTGTTTTGGGTCTTCAATCTTTGAATCATCATGAGAAGCCTTGTGATTGTATGTCT
1 TTTGTTTTGGGTCTTCAATCTTTGAATCATCATGAGAAGCCTTGTGATTGTATGTCT
4578842 TTTGTTT
1 TTTGTTT
4578849 AATCTCTGTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 64 1.00
ACGTcount: A:0.18, C:0.13, G:0.21, T:0.48
Consensus pattern (57 bp):
TTTGTTTTGGGTCTTCAATCTTTGAATCATCATGAGAAGCCTTGTGATTGTATGTCT
Found at i:4579560 original size:29 final size:29
Alignment explanation
Indices: 4579528--4579657 Score: 100
Period size: 29 Copynumber: 4.8 Consensus size: 29
4579518 TGAACCTTTC
4579528 TCCTTTAATGTAATTTATAAAAAGTTTTA
1 TCCTTTAATGTAATTTATAAAAAGTTTTA
* *
4579557 TCC-TTAATTTTAATTTATATAAAGTTTTA
1 TCCTTTAA-TGTAATTTATAAAAAGTTTTA
* * *
4579586 TCC-TT--T-T-A---CTAAAATGTTTTG
1 TCCTTTAATGTAATTTATAAAAAGTTTTA
*
4579607 TCCTTTAGTGTAATTTAT-AAAAGTTTTA
1 TCCTTTAATGTAATTTATAAAAAGTTTTA
* * *
4579635 TCCTTAAATTTGATTTATAAAAA
1 TCCTTTAATGTAATTTATAAAAA
4579658 TTTGTGTTGT
Statistics
Matches: 78, Mismatches: 13, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
21 12 0.15
22 2 0.03
24 2 0.03
25 2 0.03
26 2 0.03
28 26 0.33
29 32 0.41
ACGTcount: A:0.35, C:0.08, G:0.07, T:0.50
Consensus pattern (29 bp):
TCCTTTAATGTAATTTATAAAAAGTTTTA
Found at i:4579621 original size:50 final size:48
Alignment explanation
Indices: 4579541--4579639 Score: 135
Period size: 50 Copynumber: 2.0 Consensus size: 48
4579531 TTTAATGTAA
* *
4579541 TTTATAAAAAGTTTTATCCTTAATTTTAATTTATATAAAGTTTTATCCT
1 TTTATAAAAAGTTTTATCCTTAAGTGTAATTTATA-AAAGTTTTATCCT
* * *
4579590 TTTACTAAAATGTTTTGTCCTTTAGTGTAATTTATAAAAGTTTTATCCT
1 TTTA-TAAAAAGTTTTATCCTTAAGTGTAATTTATAAAAGTTTTATCCT
4579639 T
1 T
4579640 AAATTTGATT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 18 0.41
50 26 0.59
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.53
Consensus pattern (48 bp):
TTTATAAAAAGTTTTATCCTTAAGTGTAATTTATAAAAGTTTTATCCT
Found at i:4579632 original size:28 final size:28
Alignment explanation
Indices: 4579590--4579712 Score: 88
Period size: 28 Copynumber: 4.3 Consensus size: 28
4579580 GTTTTATCCT
*
4579590 TTTACTAAAATGTTTTGTCCTTTAGTGTAA
1 TTTA-TAAAA-GTTTTGTCCTTTATTGTAA
* * *
4579620 TTTATAAAAGTTTTATCCTTAAATT-TGA
1 TTTATAAAAGTTTTGTCCTT-TATTGTAA
* ** *
4579648 TTTATAAAAATTTGTGTTGTATATTGTAA
1 TTTATAAAAGTTT-TGTCCTTTATTGTAA
* * * *
4579677 TTTCTAAAAGTTTAGTCATTTATTATAA
1 TTTATAAAAGTTTTGTCCTTTATTGTAA
4579705 TTT-TAAAA
1 TTTATAAAA
4579713 AATTTATTTA
Statistics
Matches: 72, Mismatches: 18, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
27 5 0.07
28 40 0.56
29 23 0.32
30 4 0.06
ACGTcount: A:0.34, C:0.06, G:0.10, T:0.50
Consensus pattern (28 bp):
TTTATAAAAGTTTTGTCCTTTATTGTAA
Found at i:4579731 original size:19 final size:20
Alignment explanation
Indices: 4579694--4579738 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
4579684 AAGTTTAGTC
4579694 ATTTATTATAATTTTAAAAA
1 ATTTATTATAATTTTAAAAA
4579714 ATTTATT-T-ATTATTAAAAA
1 ATTTATTATAATT-TTAAAAA
*
4579733 AATTAT
1 ATTTAT
4579739 AACAATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 3 0.13
19 13 0.57
20 7 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTATTATAATTTTAAAAA
Found at i:4586430 original size:107 final size:107
Alignment explanation
Indices: 4586301--4586617 Score: 580
Period size: 107 Copynumber: 3.0 Consensus size: 107
4586291 AAGTTCCATT
* * *
4586301 GATTTTATACCAGTGCTTGCTCAATACAAAAAACGTGCTAGTACTCGAAGCTTGACAAATATAAT
1 GATTTTATACCAGTGTTTGCTCAATACGAAAAACGTGCTAGCACTCGAAGCTTGACAAATATAAT
4586366 GTCAGGCAAGCACCTAACCATACACGACAAGTATAAAACATG
66 GTCAGGCAAGCACCTAACCATACACGACAAGTATAAAACATG
4586408 GATTTTATACCAGTGTTTGCTCAATACGAAAAACGTGCTAGCACTCGAAGCTTGACAAATATAAT
1 GATTTTATACCAGTGTTTGCTCAATACGAAAAACGTGCTAGCACTCGAAGCTTGACAAATATAAT
4586473 GTCAGGCAAGCACCTAACCATACACGACAAGTATAAAACATG
66 GTCAGGCAAGCACCTAACCATACACGACAAGTATAAAACATG
* * *
4586515 GATTTTATACCAGTGTTTTCTCAATACGAAAAACGTGTTGGCACTCGAAGCTTGACAAATATAAT
1 GATTTTATACCAGTGTTTGCTCAATACGAAAAACGTGCTAGCACTCGAAGCTTGACAAATATAAT
4586580 GTCAGGCAAGCACCTAACCATACACGACAAGTATAAAA
66 GTCAGGCAAGCACCTAACCATACACGACAAGTATAAAA
4586618 AAATCTTCCA
Statistics
Matches: 204, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
107 204 1.00
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.24
Consensus pattern (107 bp):
GATTTTATACCAGTGTTTGCTCAATACGAAAAACGTGCTAGCACTCGAAGCTTGACAAATATAAT
GTCAGGCAAGCACCTAACCATACACGACAAGTATAAAACATG
Found at i:4587722 original size:13 final size:12
Alignment explanation
Indices: 4587700--4587736 Score: 56
Period size: 13 Copynumber: 2.9 Consensus size: 12
4587690 AGAATATTAG
4587700 ATAAAGATAAAAA
1 ATAAA-ATAAAAA
4587713 ATAAGAATAAAAA
1 ATAA-AATAAAAA
4587726 ATAAAATAAAA
1 ATAAAATAAAA
4587737 TAGATAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.30
13 15 0.65
14 1 0.04
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.16
Consensus pattern (12 bp):
ATAAAATAAAAA
Found at i:4588743 original size:44 final size:45
Alignment explanation
Indices: 4588625--4588761 Score: 115
Period size: 44 Copynumber: 3.1 Consensus size: 45
4588615 ATAAGGAAAA
*
4588625 TAAATCCTAATT-AAAATACTTAAAACTATTTAAACTAAAATACC
1 TAAATCCTAATTAAAAATACTTAAAACTATTTAAAATAAAATACC
* ** * * *
4588669 TAAAACAGAGA-TAAGATAA-A-ATATAA-TATTTAAAATAATAT-CC
1 TAAATCCTA-ATTAA-A-AATACTTAAAACTATTTAAAATAAAATACC
* *
4588712 TAAATCCTAATTAAAAATACTTAAAACTATTTAAACTAAAAAAACC
1 TAAATCCTAATTAAAAATACTTAAAACTATTTAAAAT-AAAATACC
4588758 TAAA
1 TAAA
4588762 ACAAAGATAA
Statistics
Matches: 68, Mismatches: 15, Indels: 18
0.67 0.15 0.18
Matches are distributed among these distances:
41 2 0.03
42 3 0.04
43 15 0.22
44 29 0.43
45 9 0.13
46 8 0.12
47 2 0.03
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.29
Consensus pattern (45 bp):
TAAATCCTAATTAAAAATACTTAAAACTATTTAAAATAAAATACC
Found at i:4588794 original size:84 final size:84
Alignment explanation
Indices: 4588625--4588799 Score: 282
Period size: 84 Copynumber: 2.0 Consensus size: 84
4588615 ATAAGGAAAA
*
4588625 TAAATCCTAATTAAAATACTTAAAACTATTTAAACTAAAATACCTAAAACAGAGATAAGATAAAA
1 TAAATCCTAATTAAAATACTTAAAACTATTTAAACTAAAAAACCTAAAAC--A-ATAAGATAAAA
4588690 TATAATATTTAAAATAATATCC
63 TATAATATTTAAAATAATATCC
4588712 TAAATCCTAATTAAAAATACTTAAAACTATTTAAACTAAAAAAACCTAAAAC-A-AAGATAAAAT
1 TAAATCCTAATT-AAAATACTTAAAACTATTTAAACT-AAAAAACCTAAAACAATAAGATAAAAT
4588775 ATAATATTTAAAATAATATCC
64 ATAATATTTAAAATAATATCC
4588796 TAAA
1 TAAA
4588800 ACATGAGTTT
Statistics
Matches: 85, Mismatches: 1, Indels: 7
0.91 0.01 0.08
Matches are distributed among these distances:
84 35 0.41
85 1 0.01
87 12 0.14
88 24 0.28
89 13 0.15
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.29
Consensus pattern (84 bp):
TAAATCCTAATTAAAATACTTAAAACTATTTAAACTAAAAAACCTAAAACAATAAGATAAAATAT
AATATTTAAAATAATATCC
Found at i:4591214 original size:12 final size:13
Alignment explanation
Indices: 4591199--4591257 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
4591189 TTAAAAACAA
4591199 AAAAATTG-AAAT
1 AAAAATTGAAAAT
4591211 AAAAATTGAAAAT
1 AAAAATTGAAAAT
*
4591224 AAAAA-TAAAAATT
1 AAAAATTGAAAA-T
*
4591237 AAACAAATGGAAAAT
1 -AA-AAATTGAAAAT
4591252 AAAAAT
1 AAAAAT
4591258 AATAATGGGT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
12 13 0.33
13 14 0.36
14 4 0.10
15 4 0.10
16 4 0.10
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.20
Consensus pattern (13 bp):
AAAAATTGAAAAT
Found at i:4591214 original size:13 final size:14
Alignment explanation
Indices: 4591198--4591256 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 14
4591188 ATTAAAAACA
4591198 AAAAAATTG-AAAT
1 AAAAAATTGAAAAT
4591211 -AAAAATTGAAAAT
1 AAAAAATTGAAAAT
*
4591224 -AAAAA-TAAAAATT
1 AAAAAATTGAAAA-T
*
4591237 AAACAAATGGAAAAT
1 AAA-AAATTGAAAAT
4591252 AAAAA
1 AAAAA
4591257 TAATAATGGG
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
12 13 0.34
13 10 0.26
14 4 0.11
15 7 0.18
16 4 0.11
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.19
Consensus pattern (14 bp):
AAAAAATTGAAAAT
Found at i:4591488 original size:13 final size:12
Alignment explanation
Indices: 4591438--4591499 Score: 78
Period size: 12 Copynumber: 5.4 Consensus size: 12
4591428 GTAGATTTTG
4591438 GCTTTCTCATAT
1 GCTTTCTCATAT
*
4591450 G-TTT-T-TTA-
1 GCTTTCTCATAT
4591458 GCTTTCTCATAT
1 GCTTTCTCATAT
4591470 GCTTTCTCATAT
1 GCTTTCTCATAT
4591482 AGCTTTCTCATAT
1 -GCTTTCTCATAT
4591495 GCTTT
1 GCTTT
4591500 TTTAGCTTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
8 1 0.02
9 5 0.12
10 2 0.05
11 5 0.12
12 18 0.42
13 12 0.28
ACGTcount: A:0.16, C:0.21, G:0.10, T:0.53
Consensus pattern (12 bp):
GCTTTCTCATAT
Found at i:4591490 original size:25 final size:21
Alignment explanation
Indices: 4591433--4591508 Score: 100
Period size: 25 Copynumber: 3.5 Consensus size: 21
4591423 TTCTTGTAGA
*
4591433 TTTTGGCTTTCTCATATG-TT
1 TTTTAGCTTTCTCATATGCTT
4591453 TTTTAGCTTTCTCATATGCTT
1 TTTTAGCTTTCTCATATGCTT
4591474 TCTCATATAGCTTTCTCATATGCTT
1 T-T--T-TAGCTTTCTCATATGCTT
4591499 TTTTAGCTTT
1 TTTTAGCTTT
4591509 GAAGCTTATC
Statistics
Matches: 50, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
20 17 0.34
21 10 0.20
22 2 0.04
24 2 0.04
25 19 0.38
ACGTcount: A:0.14, C:0.18, G:0.11, T:0.57
Consensus pattern (21 bp):
TTTTAGCTTTCTCATATGCTT
Found at i:4592754 original size:21 final size:21
Alignment explanation
Indices: 4592728--4592774 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
4592718 GCTTTGGAAT
* * *
4592728 TTTTCCTGGGATGTAACTAGC
1 TTTTCCTGGGACGTAACCAAC
4592749 TTTTCCTGGGACGTAACCAAC
1 TTTTCCTGGGACGTAACCAAC
4592770 TTTTC
1 TTTTC
4592775 TTGTGAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (21 bp):
TTTTCCTGGGACGTAACCAAC
Found at i:4594195 original size:14 final size:15
Alignment explanation
Indices: 4594175--4594223 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 15
4594165 TATAGAATTT
4594175 TAGATAAAGATAAAA
1 TAGATAAAGATAAAA
4594190 -AGAT-AAGAATAAAA
1 TAGATAAAG-ATAAAA
4594204 TA-ATAAA-ATAAAA
1 TAGATAAAGATAAAA
4594217 TAGATAA
1 TAGATAA
4594224 TTAAATATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.37
14 16 0.53
15 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.20
Consensus pattern (15 bp):
TAGATAAAGATAAAA
Found at i:4595053 original size:21 final size:22
Alignment explanation
Indices: 4595008--4595060 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 22
4594998 ATAGCATTCA
4595008 AAATCCTAAAAAAAGCTAAAGAT
1 AAATCCTAAAAAAAGC-AAAGAT
*
4595031 AATTCCTAAAATAAAG-AAA-AT
1 AAATCCTAAAA-AAAGCAAAGAT
4595052 AAATCCTAA
1 AAATCCTAA
4595061 TTAAAATACT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 10 0.37
22 3 0.11
23 10 0.37
24 4 0.15
ACGTcount: A:0.60, C:0.13, G:0.06, T:0.21
Consensus pattern (22 bp):
AAATCCTAAAAAAAGCAAAGAT
Found at i:4598143 original size:223 final size:224
Alignment explanation
Indices: 4597741--4598188 Score: 789
Period size: 223 Copynumber: 2.0 Consensus size: 224
4597731 AATTAAGGGG
4597741 CAATACTTTATAAAGAAATGAGAAAAACATTTCAAGCAAGACAGTCTCAAATGTGAAATGTCCTT
1 CAATACTTTATAAAGAAATGAGAAAAACATTTCAAGCAAGACAGTCTCAAATGTGAAATGTCCTT
*
4597806 GAAGCTGTGTGCATTTGTGAAGAAAAGATAACAATGCCAGAATGATAAGATAGAACTGGTAATAC
66 GAAGCTGTGTGCA-TTGTGAAGAAAAGATAACAATGCCAGAATGATAAGATAGAACTAGTAATAC
4597871 TCCCCTTGTGACATTGTCAGCAACCCGAGAAGAAAATGGGGCATGATTGATTCCAAAGACAAGAC
130 TCCCCTTGTGACATTGTCAGCAACCCGAGAAGAAAATGGGGCATGATTGATTCCAAAGACAAGAC
4597936 CAGTAGACAAAAATGAGGCTCCATCCAGGA
195 CAGTAGACAAAAATGAGGCTCCATCCAGGA
* *
4597966 CAATACTTTATAAAAGAAATGAGAAAAACATTTTTAAGCAAGACAGTCTCAAATTTGAAATGTCC
1 CAATACTTTAT-AAAGAAATGAGAAAAACA-TTTCAAGCAAGACAGTCTCAAATGTGAAATGTCC
4598031 TTGAAGCTG-GTG-A-TGTGAAG-AAAGAATAAACAATGCCAGAATGATAAGATAGAACTAGTAA
64 TTGAAGCTGTGTGCATTGTGAAGAAAAG-AT-AACAATGCCAGAATGATAAGATAGAACTAGTAA
4598092 TACT-CCCTTGTGACATTGTCAGCAACCCGAGAAGAAAATGGGGCATGATTGATTCCAAAGACAA
127 TACTCCCCTTGTGACATTGTCAGCAACCCGAGAAGAAAATGGGGCATGATTGATTCCAAAGACAA
4598156 GACCAGTAGACAAAAATGAGGCTCCATCCAGGA
192 GACCAGTAGACAAAAATGAGGCTCCATCCAGGA
4598189 GATAAAACAA
Statistics
Matches: 216, Mismatches: 3, Indels: 10
0.94 0.01 0.04
Matches are distributed among these distances:
222 4 0.02
223 102 0.47
224 36 0.17
225 12 0.06
226 21 0.10
227 41 0.19
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.22
Consensus pattern (224 bp):
CAATACTTTATAAAGAAATGAGAAAAACATTTCAAGCAAGACAGTCTCAAATGTGAAATGTCCTT
GAAGCTGTGTGCATTGTGAAGAAAAGATAACAATGCCAGAATGATAAGATAGAACTAGTAATACT
CCCCTTGTGACATTGTCAGCAACCCGAGAAGAAAATGGGGCATGATTGATTCCAAAGACAAGACC
AGTAGACAAAAATGAGGCTCCATCCAGGA
Found at i:4599263 original size:175 final size:175
Alignment explanation
Indices: 4599005--4599325 Score: 419
Period size: 175 Copynumber: 1.8 Consensus size: 175
4598995 CCTATTTAGT
* * * *
4599005 ATAGCTCAAGGCAAGAAAGGCTATCTATCAACAAAAACTTTCGAGTTCAATTCCATTCAGCTTAA
1 ATAGCTCAAGGCAAGAAAGGCTATCTATCAACAAAAAATCTCAAGTTCAATTCCATTCAGCTCAA
** * *
4599070 TGACATATCAGTCGCATGGTAACAACGAGGAACTACTTTATGGTTGAAGTTTAAAC-CAAATCTT
66 TGACATATCAACCGCATGGTAACAACGAGAAACTACTTTATAGTTGAAGTTTAAACTCAAATCTT
*
4599134 TAAGTCAATAAGAAGATATGGGGTTATCTCCAAGCCTATTACACC
131 TAAGTCAAGAAGAAGATATGGGGTTATCTCCAAGCCTATTACACC
* * * * * * * *
4599179 ATAGCTCAAGGCGAGAAGGGTTATTTGTCAACAAAAAAATCTCAAGTTCGATTTCATTCAGCTCG
1 ATAGCTCAAGGCAAGAAAGGCTATCTATCAAC-AAAAAATCTCAAGTTCAATTCCATTCAGCTCA
* * * * **
4599244 ATGACATATCAACCGCATGGTAGCAGCGAGAAACTACTTTCTAGTTGAAGTTTAAACTGAGCTCT
65 ATGACATATCAACCGCATGGTAACAACGAGAAACTACTTTATAGTTGAAGTTTAAACTCAAATCT
4599309 TTAAGTCAAGAAGAAGA
130 TTAAGTCAAGAAGAAGA
4599326 CCTAGGTTGG
Statistics
Matches: 122, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
174 27 0.22
175 75 0.61
176 20 0.16
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (175 bp):
ATAGCTCAAGGCAAGAAAGGCTATCTATCAACAAAAAATCTCAAGTTCAATTCCATTCAGCTCAA
TGACATATCAACCGCATGGTAACAACGAGAAACTACTTTATAGTTGAAGTTTAAACTCAAATCTT
TAAGTCAAGAAGAAGATATGGGGTTATCTCCAAGCCTATTACACC
Found at i:4599700 original size:175 final size:175
Alignment explanation
Indices: 4599374--4599702 Score: 410
Period size: 175 Copynumber: 1.9 Consensus size: 175
4599364 CAGCCGAATT
* * * * * * *
4599374 TACATCATAACTCAAGGTGAGAATGGCTATTTGTCAACAAAAACTTTCGAGTTCGATTCCATTTA
1 TACAACATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAATTCGATTCCATTCA
** * ** *
4599439 ACTCGAGGGTGTATCAGCTGCATGGTAGTCTCGAGGAACTACTTTTTGGTTGAAGTTTAAATCGA
66 ACTCGAGGGCATATCAACCACATGGTAGTCTCGAGGAACTACTTTTCGGTTGAAGTTTAAATCGA
***
4599504 GGTCTTTAAGTTAAAAAGAAGATCTGGGGCAATCTCTCAGTCTAG
131 GGTCTTTAAACCAAAAAGAAGATCTGGGGCAATCTCTCAGTCTAG
*
4599549 TACAACATAACTCAAGGCGATG-AGGGTTATCTGTCAACAAAAACCTTCGAATTCGATTCCATTC
1 TACAACATAACTCAAGGCGA-GAAGGGCTATCTGTCAACAAAAACCTTCGAATTCGATTCCATTC
* * * *
4599613 AGCTTGAGGGCATATCAACCACATGGTAG-CATCGAGGAACTACTTTTCGGTTGAATTTTCAATC
65 AACTCGAGGGCATATCAACCACATGGTAGTC-TCGAGGAACTACTTTTCGGTTGAAGTTTAAATC
* * *
4599677 GAGGTTTTTAAACCGAGAAGAAGATC
129 GAGGTCTTTAAACCAAAAAGAAGATC
4599703 AAGGTCGACT
Statistics
Matches: 128, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
174 1 0.01
175 126 0.98
176 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (175 bp):
TACAACATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAATTCGATTCCATTCA
ACTCGAGGGCATATCAACCACATGGTAGTCTCGAGGAACTACTTTTCGGTTGAAGTTTAAATCGA
GGTCTTTAAACCAAAAAGAAGATCTGGGGCAATCTCTCAGTCTAG
Found at i:4601743 original size:42 final size:41
Alignment explanation
Indices: 4601663--4601744 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 41
4601653 TAATTTTTAT
* * *
4601663 TTAGATTCTCATTTTAAATGTATCCTCTCTGATTTTTATTA
1 TTAGATTCTCATTTTAAATGTATCATCTCTAATCTTTATTA
4601704 TTAGATTTCTCATTTTAAAT-TCATCATCGT-TAATCTTTATT
1 TTAGA-TTCTCATTTTAAATGT-ATCATC-TCTAATCTTTATT
4601745 TTTTTACAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
41 6 0.17
42 28 0.80
43 1 0.03
ACGTcount: A:0.26, C:0.15, G:0.06, T:0.54
Consensus pattern (41 bp):
TTAGATTCTCATTTTAAATGTATCATCTCTAATCTTTATTA
Found at i:4603014 original size:14 final size:14
Alignment explanation
Indices: 4602995--4603023 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4602985 ATTTAATTTT
4602995 GCTAATCCCTTGAA
1 GCTAATCCCTTGAA
4603009 GCTAATCCCTTGAA
1 GCTAATCCCTTGAA
4603023 G
1 G
4603024 GATACGAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (14 bp):
GCTAATCCCTTGAA
Found at i:4605864 original size:18 final size:18
Alignment explanation
Indices: 4605829--4605864 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4605819 AAAATGGGTA
* *
4605829 CATATGTTATATGTATTG
1 CATATGTTACATGAATTG
4605847 CATATGTTACATGAATTG
1 CATATGTTACATGAATTG
4605865 AATGAATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (18 bp):
CATATGTTACATGAATTG
Found at i:4607393 original size:147 final size:148
Alignment explanation
Indices: 4607222--4607525 Score: 556
Period size: 149 Copynumber: 2.1 Consensus size: 148
4607212 GAGTCGAGGG
*
4607222 TCTACGCGGTCCTTCAGG-ATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACATA
1 TCTACGCGGTCCTTCAGGAATATATATATTCTGTGGAACATGTATGAAGTCTTGAAAGACACATA
4607286 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTAT
66 CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTAT
*
4607351 ATGGCACTACGGTGCAAT
131 ATGGCACTACAGTGCAAT
* *
4607369 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTATGAAGTCTTGTAAGACACAT
1 TCTACGCGGTCCTTCAGGA-ATATATATATTCTGTGGAACATGTATGAAGTCTTGAAAGACACAT
4607434 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
65 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
4607499 TATGGCACTACAGTGCAAT
130 TATGGCACTACAGTGCAAT
4607518 TCTACGCG
1 TCTACGCG
4607526 CCACTTCGGT
Statistics
Matches: 151, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
147 17 0.11
149 134 0.89
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (148 bp):
TCTACGCGGTCCTTCAGGAATATATATATTCTGTGGAACATGTATGAAGTCTTGAAAGACACATA
CTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTAT
ATGGCACTACAGTGCAAT
Found at i:4609407 original size:13 final size:13
Alignment explanation
Indices: 4609391--4609418 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4609381 CGTTTTTGGG
4609391 TTTTATTTTTTAT
1 TTTTATTTTTTAT
4609404 TTTTATTTTTTAT
1 TTTTATTTTTTAT
4609417 TT
1 TT
4609419 CATGTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:4616338 original size:83 final size:81
Alignment explanation
Indices: 4616243--4616589 Score: 349
Period size: 83 Copynumber: 4.2 Consensus size: 81
4616233 AATCATACTT
* * * *
4616243 TAGTGGCGTTTTTTAAACAAACGCCGCAATAGAGTGGTAGTTTAGCGGTGTTTATAGCTCAAACG
1 TAGTGGCGTTTTTTAAACAAACGCCGCAATAGAGTAGTAATTTAGCGGCGTTTATA--ACAAACG
*
4616308 TCGCAATAGAGTTGTTTA
64 CCGCAATAGAGTTGTTTA
* * * * *
4616326 TAGTGACGTTTTTTCAACAAATGCCGCAATAGAGTAGTAATTTAGCGGCGTTCTTTTACAAACGC
1 TAGTGGCGTTTTTTAAACAAACGCCGCAATAGAGTAGTAATTTAGCGGCGTT-TATAACAAACGC
* * *
4616391 CGCGATAGTGTTATTTA
65 CGCAATAGAGTTGTTTA
* * ** * *
4616408 TAGTGGCGTTTGTTCAACAAACGATGCTATAGAGAAGTAATTTAGCGGCGTTTATCAAACAAACG
1 TAGTGGCGTTTTTTAAACAAACGCCGCAATAGAGTAGTAATTTAGCGGCGTTTAT--AACAAACG
*
4616473 CCGTAATAGTA-TTGTTTA
64 CCGCAATAG-AGTTGTTTA
* * * *
4616491 TAGTGGCATTTGTGTAAA-AAACGCCGCAATAGAGTAATAATTTAGCGGCGTTTGTAGACAAACG
1 TAGTGGCGTTT-TTTAAACAAACGCCGCAATAGAGTAGTAATTTAGCGGCGTTTATA-ACAAACG
*
4616555 CCGCAATA-TGTTGTTTA
64 CCGCAATAGAGTTGTTTA
**
4616572 TCCTGGCGTTTTTATAAA
1 TAGTGGCGTTTTT-TAAA
4616590 AACTCCGCAA
Statistics
Matches: 214, Mismatches: 42, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
80 1 0.00
81 22 0.10
82 79 0.37
83 107 0.50
84 5 0.02
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (81 bp):
TAGTGGCGTTTTTTAAACAAACGCCGCAATAGAGTAGTAATTTAGCGGCGTTTATAACAAACGCC
GCAATAGAGTTGTTTA
Found at i:4616360 original size:41 final size:41
Alignment explanation
Indices: 4616243--4616584 Score: 161
Period size: 41 Copynumber: 8.3 Consensus size: 41
4616233 AATCATACTT
* *
4616243 TAGTGGCGTTTTTTAAACAAACGCCGCAATAGAGTGGTAGTT-
1 TAGTGGCGTTTTTTCAACAAACGCCGCAATAGAGTTGT--TTA
* * ** * *
4616285 TAGCGGTGTTTATAGC-TCAAACGTCGCAATAGAGTTGTTTA
1 TAGTGGCGTTT-TTTCAACAAACGCCGCAATAGAGTTGTTTA
* * *
4616326 TAGTGACGTTTTTTCAACAAATGCCGCAATAGAGTAGTAATT-
1 TAGTGGCGTTTTTTCAACAAACGCCGCAATAGAGTTGT--TTA
* * * *
4616368 TAGCGGCGTTCTTTT--ACAAACGCCGCGATAGTGTTATTTA
1 TAGTGGCGTT-TTTTCAACAAACGCCGCAATAGAGTTGTTTA
* ** * **
4616408 TAGTGGCGTTTGTTCAACAAACGATGCTATAGAGAAGTAATT-
1 TAGTGGCGTTTTTTCAACAAACGCCGCAATAGAGTTGT--TTA
* * *
4616450 TAGCGGCG-TTTATCAAACAAACGCCGTAATAGTA-TTGTTTA
1 TAGTGGCGTTTTTTC-AACAAACGCCGCAATAG-AGTTGTTTA
* * * **
4616491 TAGTGGCATTTGTGT-AAAAAACGCCGCAATAGAGTAATAATT-
1 TAGTGGCGTTT-TTTCAACAAACGCCGCAATAGAGT--TGTTTA
* * *
4616533 TAGCGGCG-TTTGT-AGACAAACGCCGCAATA-TGTTGTTTA
1 TAGTGGCGTTTTTTCA-ACAAACGCCGCAATAGAGTTGTTTA
**
4616572 TCCTGGCGTTTTT
1 TAGTGGCGTTTTT
4616585 ATAAAAACTC
Statistics
Matches: 219, Mismatches: 59, Indels: 46
0.68 0.18 0.14
Matches are distributed among these distances:
38 3 0.01
39 10 0.05
40 25 0.11
41 100 0.46
42 66 0.30
43 15 0.07
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (41 bp):
TAGTGGCGTTTTTTCAACAAACGCCGCAATAGAGTTGTTTA
Found at i:4616454 original size:165 final size:164
Alignment explanation
Indices: 4616243--4616582 Score: 382
Period size: 165 Copynumber: 2.1 Consensus size: 164
4616233 AATCATACTT
* * ** * * **
4616243 TAGTGGCGTTTTTTAAACAAACGCCGCAATAGAGTGGTAGTTTAGCGGTGTTTAT-AGCTCAAAC
1 TAGTGGCGTTTGTTAAACAAACGACGCAATAGAGAAGTAATTTAGCGGCGTTTATCA-AACAAAC
* * * * * *
4616307 GTCGCAATAG-AGTTGTTTATAGTGACGTTT-TTTCAACAAATGCCGCAATAGAGTAGTAATTTA
65 GCCGCAATAGTA-TTGTTTATAGTGACATTTGTGT-AAAAAACGCCGCAATAGAGTAATAATTTA
** *
4616370 GCGGCGTTCT-TTTACAAACGCCGCGATAGTGTTATTTA
128 GCGGCGTT-TGTAGACAAACGCCGCAATA-TGTTATTTA
* * *
4616408 TAGTGGCGTTTGTTCAACAAACGATGCTATAGAGAAGTAATTTAGCGGCGTTTATCAAACAAACG
1 TAGTGGCGTTTGTTAAACAAACGACGCAATAGAGAAGTAATTTAGCGGCGTTTATCAAACAAACG
* *
4616473 CCGTAATAGTATTGTTTATAGTGGCATTTGTGTAAAAAACGCCGCAATAGAGTAATAATTTAGCG
66 CCGCAATAGTATTGTTTATAGTGACATTTGTGTAAAAAACGCCGCAATAGAGTAATAATTTAGCG
*
4616538 GCGTTTGTAGACAAACGCCGCAATATGTTGTTTA
131 GCGTTTGTAGACAAACGCCGCAATATGTTATTTA
**
4616572 TCCTGGCGTTT
1 TAGTGGCGTTT
4616583 TTATAAAAAC
Statistics
Matches: 146, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
164 18 0.12
165 124 0.85
166 4 0.03
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (164 bp):
TAGTGGCGTTTGTTAAACAAACGACGCAATAGAGAAGTAATTTAGCGGCGTTTATCAAACAAACG
CCGCAATAGTATTGTTTATAGTGACATTTGTGTAAAAAACGCCGCAATAGAGTAATAATTTAGCG
GCGTTTGTAGACAAACGCCGCAATATGTTATTTA
Found at i:4617026 original size:22 final size:22
Alignment explanation
Indices: 4617000--4617050 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
4616990 AAGTTTTTTT
4617000 TTGCTTTCGAATAGAAAAATAA
1 TTGCTTTCGAATAGAAAAATAA
*
4617022 TTGCTTTCGAATAGGAAAATAA
1 TTGCTTTCGAATAGAAAAATAA
*
4617044 TAGCTTT
1 TTGCTTT
4617051 TAAAAACGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (22 bp):
TTGCTTTCGAATAGAAAAATAA
Found at i:4618336 original size:41 final size:40
Alignment explanation
Indices: 4618279--4618356 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 40
4618269 GCCAACGCCG
*
4618279 CAATAGAGTTGAATAATAGAAGCTTTTTTCTACAAACGTCA
1 CAATAGAGTTGAATAATAGAAGC-GTTTTCTACAAACGTCA
*
4618320 CAATAGAGTTGAATAATAGAGGCGTTTTCTACAAACG
1 CAATAGAGTTGAATAATAGAAGCGTTTTCTACAAACG
4618357 CCGTAATCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 13 0.37
41 22 0.63
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.29
Consensus pattern (40 bp):
CAATAGAGTTGAATAATAGAAGCGTTTTCTACAAACGTCA
Found at i:4618369 original size:40 final size:41
Alignment explanation
Indices: 4618272--4618377 Score: 142
Period size: 40 Copynumber: 2.6 Consensus size: 41
4618262 TACAAACGCC
*
4618272 AACGCCGCAATAGAGTTGAATAATAGAAGCTTTTTTCTACA
1 AACGCCGCAATAGAGTTGAATAATAGAAGCTGTTTTCTACA
* * *
4618313 AACGTCACAATAGAGTTGAATAATAGAGGC-GTTTTCTACA
1 AACGCCGCAATAGAGTTGAATAATAGAAGCTGTTTTCTACA
* * *
4618353 AACGCCGTAATCGAGTTGAACAATA
1 AACGCCGCAATAGAGTTGAATAATA
4618378 ATGGTGTTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
40 29 0.52
41 27 0.48
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (41 bp):
AACGCCGCAATAGAGTTGAATAATAGAAGCTGTTTTCTACA
Found at i:4620490 original size:43 final size:42
Alignment explanation
Indices: 4620408--4620496 Score: 99
Period size: 43 Copynumber: 2.1 Consensus size: 42
4620398 AAAAAAGCCA
* *
4620408 CTAAATCTCAAAACTTATTACGACGTTTATGATAAAAACGCCG
1 CTAAATCTCAAAACCTATTACGACG-TTATGATAAAAACGACG
* * *
4620451 CTAAATCTCAACACCTATTGCGAC-TTATGTTTAACAAACGACG
1 CTAAATCTCAAAACCTATTACGACGTTATG-ATAA-AAACGACG
4620494 CTA
1 CTA
4620497 TATATCGTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
41 5 0.13
42 3 0.08
43 31 0.79
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.28
Consensus pattern (42 bp):
CTAAATCTCAAAACCTATTACGACGTTATGATAAAAACGACG
Found at i:4623256 original size:19 final size:19
Alignment explanation
Indices: 4623212--4623264 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 19
4623202 TTTATTGTTC
* *
4623212 TGTATTGCTAAAATATATA
1 TGTATTTCTAAAATATACA
4623231 TGTATTTCTAAAATATACA
1 TGTATTTCTAAAATATACA
*
4623250 TGTATTTCGAAAATA
1 TGTATTTCTAAAATA
4623265 AAATGAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.42
Consensus pattern (19 bp):
TGTATTTCTAAAATATACA
Found at i:4624168 original size:23 final size:23
Alignment explanation
Indices: 4624142--4624213 Score: 117
Period size: 23 Copynumber: 3.1 Consensus size: 23
4624132 CAACTGCTAG
*
4624142 AAATGTTGAAAACATCCTGGCGA
1 AAATGTTGAAAACATCCTGCCGA
4624165 AAATGTTGAAAACATCCTGCCGA
1 AAATGTTGAAAACATCCTGCCGA
*
4624188 AAATGTTGAAAACATCATGCCCGA
1 AAATGTTGAAAACATCCTG-CCGA
4624212 AA
1 AA
4624214 GTCTTATGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
23 40 0.87
24 6 0.13
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (23 bp):
AAATGTTGAAAACATCCTGCCGA
Found at i:4624267 original size:36 final size:37
Alignment explanation
Indices: 4624222--4624291 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 37
4624212 AAGTCTTATG
* * * *
4624222 GATGGCCCGAATGACTTA-TCATCTTGCTCGAAAACA
1 GATGACCCGAAGGACTTACGCATCATGCTCGAAAACA
*
4624258 GATGACCCGAAGGATTTACGCATCATGCTCGAAA
1 GATGACCCGAAGGACTTACGCATCATGCTCGAAA
4624292 GACTTACTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
36 15 0.54
37 13 0.46
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.23
Consensus pattern (37 bp):
GATGACCCGAAGGACTTACGCATCATGCTCGAAAACA
Found at i:4624443 original size:36 final size:36
Alignment explanation
Indices: 4624357--4624461 Score: 122
Period size: 36 Copynumber: 2.8 Consensus size: 36
4624347 CAGTTTCTTA
*
4624357 AAATCTTTTGTTTCGAGCGGAACTATCTCAAGTGAGAT
1 AAATCTTATGTTTCGAG-GGAACTATCTCAAG-GAGAT
* * *
4624395 AAATTTTATGTTTCGAGTGAATCTATCTCAA-GCGAT
1 AAATCTTATGTTTCGAGGGAA-CTATCTCAAGGAGAT
*
4624431 AAATCTTCTGTTTCGAGGGAAACTATCTCAA
1 AAATCTTATGTTTCGAGGG-AACTATCTCAA
4624462 ATGTGGGTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
36 29 0.50
37 5 0.09
38 24 0.41
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.35
Consensus pattern (36 bp):
AAATCTTATGTTTCGAGGGAACTATCTCAAGGAGAT
Found at i:4624546 original size:36 final size:36
Alignment explanation
Indices: 4624469--4624554 Score: 111
Period size: 36 Copynumber: 2.4 Consensus size: 36
4624459 CAAATGTGGG
* *
4624469 TGTTTCAAGGGAAAATGTCTCAAGACAGATTAAACT
1 TGTTTCAAGGGAAAATGTCTCAAGACAGATCAAAAT
* **
4624505 CGTTTCAAGGGAAAATGTCTCAAGGGAGA-CAAAAT
1 TGTTTCAAGGGAAAATGTCTCAAGACAGATCAAAAT
4624540 ATGTTTCAAGGGAAA
1 -TGTTTCAAGGGAAA
4624555 CAATCTTAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 4 0.09
36 39 0.91
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (36 bp):
TGTTTCAAGGGAAAATGTCTCAAGACAGATCAAAAT
Found at i:4625436 original size:28 final size:29
Alignment explanation
Indices: 4625364--4625468 Score: 131
Period size: 29 Copynumber: 3.7 Consensus size: 29
4625354 ACCGTTGACC
*
4625364 GGTGTTATTCTGGTAAATAATTCGGTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
*
4625393 GGTGCTATTCTTGTAAATAATTCGGTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
* *** *
4625422 -GTGCTATTCTGGTAATTAATTCGAAATG
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
*
4625450 GGTGCTATTTTGGTAAATA
1 GGTGCTATTCTGGTAAATA
4625469 TTTTAAAAAG
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 22 0.34
29 43 0.66
ACGTcount: A:0.24, C:0.09, G:0.23, T:0.45
Consensus pattern (29 bp):
GGTGCTATTCTGGTAAATAATTCGGTTTT
Found at i:4625481 original size:29 final size:29
Alignment explanation
Indices: 4625422--4625488 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
4625412 ATTCGGTTTT
* * * *
4625422 GTGCTATTCTGGTAATTAATTCGAAATGG
1 GTGCTATTTTGGTAAATAATTCAAAAAGG
* *
4625451 GTGCTATTTTGGTAAATATTTTAAAAAGG
1 GTGCTATTTTGGTAAATAATTCAAAAAGG
4625480 GTGCTATTT
1 GTGCTATTT
4625489 GTGTAAAATG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.42
Consensus pattern (29 bp):
GTGCTATTTTGGTAAATAATTCAAAAAGG
Found at i:4632603 original size:13 final size:13
Alignment explanation
Indices: 4632585--4632617 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
4632575 CGGTCACGAC
4632585 CCGACCCGTTGAA
1 CCGACCCGTTGAA
*
4632598 CCGACCCGTTGAC
1 CCGACCCGTTGAA
4632611 CCGACCC
1 CCGACCC
4632618 AATCGTTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.18, C:0.48, G:0.21, T:0.12
Consensus pattern (13 bp):
CCGACCCGTTGAA
Found at i:4632726 original size:58 final size:57
Alignment explanation
Indices: 4632636--4632770 Score: 198
Period size: 58 Copynumber: 2.3 Consensus size: 57
4632626 ACCGTTGACC
* **
4632636 GGTGCTATTCTGGTAAATAATTTAGTTTTGGTGCTATTCTGGTAAATAATTCGATTTT
1 GGTGCTATTCTGGTAAATAATTCAGTTTTGGTGCTATTCTGGTAAATAATTCGA-AAT
* *
4632694 GGTGCTATTCTGGTAAATAATTCAGTTTTGGTGTTATTCTGGTAATTAATTCGAAAT
1 GGTGCTATTCTGGTAAATAATTCAGTTTTGGTGCTATTCTGGTAAATAATTCGAAAT
*
4632751 GTGTGCTATTTTGGTAAATA
1 G-GTGCTATTCTGGTAAATA
4632771 TTTTAAAAAG
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
57 2 0.03
58 68 0.97
ACGTcount: A:0.25, C:0.08, G:0.21, T:0.45
Consensus pattern (57 bp):
GGTGCTATTCTGGTAAATAATTCAGTTTTGGTGCTATTCTGGTAAATAATTCGAAAT
Found at i:4632745 original size:29 final size:29
Alignment explanation
Indices: 4632636--4632745 Score: 177
Period size: 29 Copynumber: 3.8 Consensus size: 29
4632626 ACCGTTGACC
*
4632636 GGTGCTATTCTGGTAAATAATTTAGTTTT
1 GGTGCTATTCTGGTAAATAATTCAGTTTT
4632665 GGTGCTATTCTGGTAAATAATTC-GATTTT
1 GGTGCTATTCTGGTAAATAATTCAG-TTTT
4632694 GGTGCTATTCTGGTAAATAATTCAGTTTT
1 GGTGCTATTCTGGTAAATAATTCAGTTTT
* *
4632723 GGTGTTATTCTGGTAATTAATTC
1 GGTGCTATTCTGGTAAATAATTC
4632746 GAAATGTGTG
Statistics
Matches: 76, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
28 1 0.01
29 74 0.97
30 1 0.01
ACGTcount: A:0.24, C:0.09, G:0.21, T:0.46
Consensus pattern (29 bp):
GGTGCTATTCTGGTAAATAATTCAGTTTT
Found at i:4632760 original size:29 final size:30
Alignment explanation
Indices: 4632636--4632770 Score: 170
Period size: 29 Copynumber: 4.6 Consensus size: 30
4632626 ACCGTTGACC
* *
4632636 GGTGCTATTCTGGTAAATAATT-TAGTTTT
1 GGTGCTATTCTGGTAAATAATTCGAATTTT
4632665 GGTGCTATTCTGGTAAATAATTCG-ATTTT
1 GGTGCTATTCTGGTAAATAATTCGAATTTT
*
4632694 GGTGCTATTCTGGTAAATAATTC-AGTTTT
1 GGTGCTATTCTGGTAAATAATTCGAATTTT
* * * *
4632723 GGTGTTATTCTGGTAATTAATTCGAAATGT
1 GGTGCTATTCTGGTAAATAATTCGAATTTT
*
4632753 -GTGCTATTTTGGTAAATA
1 GGTGCTATTCTGGTAAATA
4632771 TTTTAAAAAG
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
29 89 0.97
30 3 0.03
ACGTcount: A:0.25, C:0.08, G:0.21, T:0.45
Consensus pattern (30 bp):
GGTGCTATTCTGGTAAATAATTCGAATTTT
Done.