Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 29 of 160
Found at i:7418532 original size:256 final size:252
Alignment explanation
Indices: 7418017--7418571 Score: 629
Period size: 254 Copynumber: 2.2 Consensus size: 252
7418007 TTAAAAGAGC
* * * *
7418017 TTTTTAAAATTATTGAGCTTCTATTTAGAGGAG-TAATTTTAAATTTTTTAAAGTTGTTGAGCCT
1 TTTTTAAAGTTATTGAGC-TCTACTTAGAGGAGCT--TTTTAAATTTTTTAAAGTTGTTAAACCT
* ** *
7418081 ATGCTTAGAAGTGCTTTCATTATCAAAATTCATAAGTCCTTTGAATAGAATATTTTAAATTATCA
63 ATACTTAGAAGAACTTTCATTATCAAAATTCATAAGTCCTTTGAATAAAATATTTTAAATTATCA
* * * *
7418146 AAAGTTATGGAGCTTTTTCTTATAGGAGTTTTTTAAAGTTGTTGAGCCTTTGCTTAGATGAGCTC
128 AAAGTTATGGAGCTTTTTCTTATAGAAGCTTTTTAAAGTTATTGAGCCTTTACTTAGATGAGCTC
* ** *
7418211 TTTTAAATTTTTTTAAAAGTTGTTAAACCTCTACTTAGAGGAGCTTTTTCAAGATGAAAA
193 TTTTAAATTTTTTTAAAAGTTGTTAAACCTCTACTTAAAAAAGCTTTTCCAAGATGAAAA
*
7418271 TTTTTAAAGTTATTGAGTCTCTACTTAGAGGAGCTCTTTTAAATTTTTTAAAGTTGTTAAACCTT
1 TTTTTAAAGTTATTGAG-CTCTACTTAGAGGAGCT-TTTTAAATTTTTTAAAGTTGTTAAACCTA
* * * * * * *
7418336 TACTTAGATGAACTTTTATTATCAAAATTCGTTAGTCTTTTTG-ATAAAATATTTTAAATTGTCG
64 TACTTAGAAGAACTTTCATTATCAAAATTCATAAGTC-CTTTGAATAAAATATTTTAAATTATCA
* * * * *
7418400 AAAGTTGTGGAGTTTTTTTTTTTAGATAAGCTTTTTAAAGTTATTGTG-CTTCTACTTAGATGAG
128 AAAGTTATGGAGCTTTTTCTTATAG--AAGCTTTTTAAAGTTATTGAGCCTT-TACTTAGATGAG
* * *
7418464 C-CTTTTTAAATTTTTTTTAAAA-TTGTTGAACCTCTGCTTAAAAAAGCTTTTCCAAGATGAAGA
190 CTC-TTTTAAA-TTTTTTTAAAAGTTGTTAAACCTCTACTTAAAAAAGCTTTTCCAAGATGAAAA
* * *
7418527 TTTTTAAAGTT-TCT-AGCCTTTACTTAAAGGAACTTTTTAAATTTT
1 TTTTTAAAGTTAT-TGAG-CTCTACTTAGAGGAGCTTTTTAAATTTT
7418572 CAAAAAAGTC
Statistics
Matches: 255, Mismatches: 37, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
254 135 0.53
255 27 0.11
256 82 0.32
257 11 0.04
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.45
Consensus pattern (252 bp):
TTTTTAAAGTTATTGAGCTCTACTTAGAGGAGCTTTTTAAATTTTTTAAAGTTGTTAAACCTATA
CTTAGAAGAACTTTCATTATCAAAATTCATAAGTCCTTTGAATAAAATATTTTAAATTATCAAAA
GTTATGGAGCTTTTTCTTATAGAAGCTTTTTAAAGTTATTGAGCCTTTACTTAGATGAGCTCTTT
TAAATTTTTTTAAAAGTTGTTAAACCTCTACTTAAAAAAGCTTTTCCAAGATGAAAA
Found at i:7418601 original size:256 final size:254
Alignment explanation
Indices: 7418094--7418580 Score: 567
Period size: 256 Copynumber: 1.9 Consensus size: 254
7418084 CTTAGAAGTG
*
7418094 CTTTCATTATCAAAATTCATAAGTCCTTTGAATAGAATATTTTAAATTATCAAAAGTTATGGAGC
1 CTTTCATTATCAAAATTCATAAGTCCTTTGAATAAAATATTTTAAATTATCAAAAGTTATGGAGC
* * * *
7418159 TTTTTCTTATAGGAGTTTTTTAAAGTTGTTGAGCCTTTGCTTAGATGAGCTCTTTTAAATTTTTT
66 TTTTTCTTATAGAAGCTTTTTAAAGTTATTGAGCCTTTACTTAGATGAGCTCTTTTAAATTTTTT
* ** * *
7418224 TAAAAGTTGTTAAACCTCTACTTAGAGGAGCTTTTTCAAGATGAAAATTTTTAAAGTTATTGAGT
131 TAAAAGTTGTTAAACCTCTACTTAAAAAAGCTTTTCCAAGATGAAAATTTTTAAAGTTATTGAGC
* * * *** *
7418289 CTCTACTTAGAGGAGCTCTTTTAAATTTTTTAAAGTTGTTAAACCTTTACTTAGATGAA
196 CTCTACTTAAAGGAACTCTTTTAAATTTTTCAAAAAAGTTAAACCTCTACTTAGATGAA
* * * * * * *
7418348 CTTTTATTATCAAAATTCGTTAGTCTTTTTG-ATAAAATATTTTAAATTGTCGAAAGTTGTGGAG
1 CTTTCATTATCAAAATTCATAAGTC-CTTTGAATAAAATATTTTAAATTATCAAAAGTTATGGAG
* * * *
7418412 TTTTTTTTTTTAGATAAGCTTTTTAAAGTTATTGTG-CTTCTACTTAGATGAGC-CTTTTTAAAT
65 CTTTTTCTTATAG--AAGCTTTTTAAAGTTATTGAGCCTT-TACTTAGATGAGCTC-TTTTAAA-
* * *
7418475 TTTTTTTAAAA-TTGTTGAACCTCTGCTTAAAAAAGCTTTTCCAAGATGAAGATTTTTAAAGTT-
125 TTTTTTTAAAAGTTGTTAAACCTCTACTTAAAAAAGCTTTTCCAAGATGAAAATTTTTAAAGTTA
*
7418538 TCT-AGCCTTTACTTAAAGGAACT-TTTTAAA-TTTTCAAAAAAGT
190 T-TGAGCCTCTACTTAAAGGAACTCTTTTAAATTTTTCAAAAAAGT
7418581 CATCGCGTCC
Statistics
Matches: 195, Mismatches: 31, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
253 9 0.05
254 68 0.35
255 25 0.13
256 82 0.42
257 11 0.06
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.45
Consensus pattern (254 bp):
CTTTCATTATCAAAATTCATAAGTCCTTTGAATAAAATATTTTAAATTATCAAAAGTTATGGAGC
TTTTTCTTATAGAAGCTTTTTAAAGTTATTGAGCCTTTACTTAGATGAGCTCTTTTAAATTTTTT
TAAAAGTTGTTAAACCTCTACTTAAAAAAGCTTTTCCAAGATGAAAATTTTTAAAGTTATTGAGC
CTCTACTTAAAGGAACTCTTTTAAATTTTTCAAAAAAGTTAAACCTCTACTTAGATGAA
Found at i:7419715 original size:19 final size:19
Alignment explanation
Indices: 7419691--7419734 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
7419681 AGTGAAAGAT
7419691 AATAAATTAAACAATGA-AA
1 AATAAA-TAAACAATGATAA
**
7419710 AATAAATAAATGATGATAA
1 AATAAATAAACAATGATAA
7419729 AATAAA
1 AATAAA
7419735 AAATAAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (19 bp):
AATAAATAAACAATGATAA
Found at i:7419725 original size:18 final size:18
Alignment explanation
Indices: 7419704--7419738 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
7419694 AAATTAAACA
7419704 ATGA-AAAATAAATAAATG
1 ATGATAAAATAAA-AAATG
7419722 ATGATAAAATAAAAAAT
1 ATGATAAAATAAAAAAT
7419739 AAAATCACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.23
Consensus pattern (18 bp):
ATGATAAAATAAAAAATG
Found at i:7419871 original size:126 final size:124
Alignment explanation
Indices: 7419734--7420061 Score: 363
Period size: 127 Copynumber: 2.7 Consensus size: 124
7419724 GATAAAATAA
*
7419734 AAAATAAAATCACTAGTGGTGA-TTTAGTAAAAATATATACACAAAGAAATCTTCTAAAATATTC
1 AAAATAAAATCACAAGTGGTGATTTTAGTAAAAATATATACACAAAGAAATCTTCTAAAATATTC
* **
7419798 TAAAAGTGTTAGAAATATTTCAGAATTTTTTTTAAACAT-AAAAAAGGTTATTAACAAAAAAT
66 TAAAAATGTTAGAAATATTTC--AA-TTTTTTT-AACATAAAAAAACATTATTAACAAAAAAT
* * * * *
7419860 AAAATAAAATCACAAGTGGTGATTTTATTAAAAATATTTACACAATGAGATGTTCTAAAATATTC
1 AAAATAAAATCACAAGTGGTGATTTTAGTAAAAATATATACACAAAGAAATCTTCTAAAATATTC
* *
7419925 TAAAAATGTTTGAAATATTTCAATTTTTTTAACATAAAAAAACATTATT----AATAA-
66 TAAAAATGTTAGAAATATTTCAATTTTTTTAACATAAAAAAACATTATTAACAAAAAAT
* * ** * *
7419979 AAAATAAAGTCACTAGTGGTGATTTTA-TAGAAAAT-T-TACGTAAA-ATAATTTTCTAAAGTAT
1 AAAATAAAATCACAAGTGGTGATTTTAGTA-AAAATATATACACAAAGA-AATCTTCTAAAATAT
*
7420040 TCTAAAAATATTAGAAATATTT
64 TCTAAAAATGTTAGAAATATTT
7420062 AAAAATTTTC
Statistics
Matches: 177, Mismatches: 21, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
116 1 0.01
117 37 0.21
118 3 0.02
119 30 0.17
120 4 0.02
123 5 0.03
124 18 0.10
125 2 0.01
126 21 0.12
127 56 0.32
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.35
Consensus pattern (124 bp):
AAAATAAAATCACAAGTGGTGATTTTAGTAAAAATATATACACAAAGAAATCTTCTAAAATATTC
TAAAAATGTTAGAAATATTTCAATTTTTTTAACATAAAAAAACATTATTAACAAAAAAT
Found at i:7420082 original size:117 final size:116
Alignment explanation
Indices: 7419728--7420082 Score: 340
Period size: 117 Copynumber: 2.9 Consensus size: 116
7419718 AATGATGATA
*
7419728 AAATAAAAAATAAAATCACTAGTGGTGA-TTTAGTAAAAATATATACACAAAGAAATCTTCTAAA
1 AAATAAAAAATAAAATCACTAGTGGTGATTTTAGTAAAAAT-T-TACA-AAA-TAATCTTCTAAA
* * **
7419792 ATATTCTAAAAGTGTTAGAAATATTTCAGAATTTTTTTTAAACATAAAAAAGGTTATT
62 ATATTCTAAAAATGTTAGAAATATTT-A-AA-TTTTTTTAAATATAAAAAACATTATT
* * * * *
7419850 AACAAAAAATAAAATAAAATCACAAGTGGTGATTTTATTAAAAATATTTACACAATGAGATGTTC
1 ---AAATAA-AAAATAAAATCACTAGTGGTGATTTTAGT-AAAA-ATTTACAAAAT-A-ATCTTC
* *
7419915 TAAAATATTCTAAAAATGTTTGAAATATTTCAATTTTTTTAACATA-AAAAAACATTATT
58 TAAAATATTCTAAAAATGTTAGAAATATTTAAATTTTTTTAA-ATATAAAAAACATTATT
* * *
7419974 -AATAAAAAATAAAGTCACTAGTGGTGATTTTA-TAGAAAATTTACGTAAAATAATTTTCTAAAG
1 AAATAAAAAATAAAATCACTAGTGGTGATTTTAGTA-AAAATTTAC--AAAATAATCTTCTAAAA
* ** *
7420037 TATTCTAAAAATATTAGAAATATTTAAAAATTTTCAAATATAAAAA
63 TATTCTAAAAATGTTAGAAATATTTAAATTTTTTTAAATATAAAAA
7420083 TAAATATATA
Statistics
Matches: 195, Mismatches: 24, Indels: 30
0.78 0.10 0.12
Matches are distributed among these distances:
116 3 0.02
117 52 0.27
118 5 0.03
119 29 0.15
120 4 0.02
124 20 0.10
125 9 0.05
126 24 0.12
127 42 0.22
128 5 0.03
129 2 0.01
ACGTcount: A:0.50, C:0.07, G:0.08, T:0.35
Consensus pattern (116 bp):
AAATAAAAAATAAAATCACTAGTGGTGATTTTAGTAAAAATTTACAAAATAATCTTCTAAAATAT
TCTAAAAATGTTAGAAATATTTAAATTTTTTTAAATATAAAAAACATTATT
Found at i:7420682 original size:15 final size:15
Alignment explanation
Indices: 7420664--7420693 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7420654 AATTTTTAAT
7420664 ATTCAAATAATAAAA
1 ATTCAAATAATAAAA
7420679 ATTCAAATAATAAAA
1 ATTCAAATAATAAAA
7420694 TTATAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (15 bp):
ATTCAAATAATAAAA
Found at i:7420709 original size:23 final size:23
Alignment explanation
Indices: 7420668--7420714 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
7420658 TTTAATATTC
**
7420668 AAATAATAAAAATTCAAATAATA
1 AAATAATAAAAATAAAAATAATA
* *
7420691 AAATTATAAAAATAAAAATGATA
1 AAATAATAAAAATAAAAATAATA
7420714 A
1 A
7420715 GGTAATAAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (23 bp):
AAATAATAAAAATAAAAATAATA
Found at i:7436009 original size:28 final size:26
Alignment explanation
Indices: 7435970--7436024 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 26
7435960 TCAATTTGAG
* *
7435970 TCTTTTTTTTCTTTCCTTTTCATCTTT
1 TCTTTTTATTCTTTCATTTTC-TCTTT
7435997 TCTTTTTCATTCTTTCATTTTCTCTTT
1 TCTTTTT-ATTCTTTCATTTTCTCTTT
7436024 T
1 T
7436025 TTTCTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (26 bp):
TCTTTTTATTCTTTCATTTTCTCTTT
Found at i:7436027 original size:1 final size:1
Alignment explanation
Indices: 7436021--7436098 Score: 66
Period size: 1 Copynumber: 78.0 Consensus size: 1
7436011 TCATTTTCTC
* * * ** * * * *
7436021 TTTTTTTCTTTTTTATTTTTTATTTTTTTTTTTTTAATTGTTTTTTTTTTGTTTTTTCTTTATTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
7436086 TTTTTATTTTTTT
1 TTTTTTTTTTTTT
7436099 CATCCATTAG
Statistics
Matches: 59, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.08, C:0.03, G:0.03, T:0.87
Consensus pattern (1 bp):
T
Found at i:7436027 original size:10 final size:9
Alignment explanation
Indices: 7435994--7436098 Score: 54
Period size: 9 Copynumber: 11.3 Consensus size: 9
7435984 CCTTTTCATC
7435994 TTTTCTTTT
1 TTTTCTTTT
* *
7436003 TCATTCTTTCA
1 T-TTTCTTT-T
7436014 TTTTCTCTTT
1 TTTTCT-TTT
7436024 TTTTCTTTT
1 TTTTCTTTT
7436033 TTATT-TTTT
1 TT-TTCTTTT
*
7436042 ATTTTTTTTT
1 -TTTTCTTTT
* *
7436052 TTTTAATTGT
1 TTTT-CTTTT
7436062 TTTT-TTTT
1 TTTTCTTTT
*
7436070 TGTT-TTTT
1 TTTTCTTTT
* *
7436078 CTTTATTTT
1 TTTTCTTTT
*
7436087 TTTTATTTT
1 TTTTCTTTT
7436096 TTT
1 TTT
7436099 CATCCATTAG
Statistics
Matches: 77, Mismatches: 11, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
8 12 0.16
9 31 0.40
10 31 0.40
11 3 0.04
ACGTcount: A:0.08, C:0.08, G:0.02, T:0.83
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:7436030 original size:30 final size:28
Alignment explanation
Indices: 7435994--7436055 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 28
7435984 CCTTTTCATC
7435994 TTTTCTTTTTCATTCTTTCATTTTCTCTTT
1 TTTTCTTTTTCATT-TTTCATTTT-TCTTT
* * *
7436024 TTTTCTTTTTTATTTTTTATTTTTTTTT
1 TTTTCTTTTTCATTTTTCATTTTTCTTT
7436052 TTTT
1 TTTT
7436056 AATTGTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 8 0.28
29 8 0.28
30 13 0.45
ACGTcount: A:0.06, C:0.11, G:0.00, T:0.82
Consensus pattern (28 bp):
TTTTCTTTTTCATTTTTCATTTTTCTTT
Found at i:7436038 original size:22 final size:20
Alignment explanation
Indices: 7435972--7436097 Score: 90
Period size: 22 Copynumber: 6.0 Consensus size: 20
7435962 AATTTGAGTC
* * *
7435972 TTTTTTTTCTTTCCTTTTCA
1 TTTTTTTTTTTTCTTTTTTA
* * *
7435992 TCTTTTCTTTTTCATTCTTTCA
1 TTTTTTTTTTTTC-TT-TTTTA
7436014 TTTTCTCTTTTTTTCTTTTTTA
1 TTTT-T-TTTTTTTCTTTTTTA
*
7436036 TTTTTTATTTTTTTTTTTTTAA
1 TTTTTT-TTTTTTCTTTTTT-A
* *
7436058 TTGTTTTTTTTTTGTTTTTTC
1 TT-TTTTTTTTTTCTTTTTTA
* *
7436079 TTTATTTTTTTTATTTTTT
1 TTTTTTTTTTTTCTTTTTT
7436098 TCATCCATTA
Statistics
Matches: 87, Mismatches: 12, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
20 26 0.30
21 16 0.18
22 31 0.36
23 7 0.08
24 7 0.08
ACGTcount: A:0.07, C:0.10, G:0.02, T:0.81
Consensus pattern (20 bp):
TTTTTTTTTTTTCTTTTTTA
Found at i:7436041 original size:14 final size:14
Alignment explanation
Indices: 7435970--7436097 Score: 75
Period size: 14 Copynumber: 9.1 Consensus size: 14
7435960 TCAATTTGAG
*
7435970 TCTTTTTT-TTCTT
1 TCTTTTTTATTTTT
* * *
7435983 TCCTTTTCATCTTT
1 TCTTTTTTATTTTT
* *
7435997 TCTTTTTCATTCTT
1 TCTTTTTTATTTTT
7436011 TCATTTTCTCT-TTTTT
1 TC-TTTT-T-TATTTTT
7436027 TCTTTTTTATTTTT
1 TCTTTTTTATTTTT
* *
7436041 TATTTTTTTTTTTT
1 TCTTTTTTATTTTT
*
7436055 TAATTGTTTT-TTTTT
1 T-CTT-TTTTATTTTT
* * *
7436070 TGTTTTTTCTTTAT
1 TCTTTTTTATTTTT
7436084 T-TTTTTTATTTTT
1 TCTTTTTTATTTTT
7436097 T
1 T
7436098 TCATCCATTA
Statistics
Matches: 92, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
13 22 0.24
14 42 0.46
15 17 0.18
16 11 0.12
ACGTcount: A:0.07, C:0.11, G:0.02, T:0.80
Consensus pattern (14 bp):
TCTTTTTTATTTTT
Found at i:7436048 original size:21 final size:20
Alignment explanation
Indices: 7436021--7436097 Score: 82
Period size: 20 Copynumber: 3.7 Consensus size: 20
7436011 TCATTTTCTC
*
7436021 TTTTTTTCTTTTTTATTTTT
1 TTTTTTTATTTTTTATTTTT
*
7436041 TATTTTTTTTTTTTTAATTGTTT
1 T-TTTTTTATTTTTT-ATT-TTT
* * *
7436064 TTTTTTTGTTTTTTCTTTAT
1 TTTTTTTATTTTTTATTTTT
7436084 TTTTTTTATTTTTT
1 TTTTTTTATTTTTT
7436098 TCATCCATTA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
20 16 0.33
21 14 0.29
22 15 0.31
23 4 0.08
ACGTcount: A:0.08, C:0.03, G:0.03, T:0.87
Consensus pattern (20 bp):
TTTTTTTATTTTTTATTTTT
Found at i:7436099 original size:21 final size:19
Alignment explanation
Indices: 7436022--7436098 Score: 75
Period size: 21 Copynumber: 3.8 Consensus size: 19
7436012 CATTTTCTCT
7436022 TTTTTTCTTTTTTATTTTTTA
1 TTTTTT-TTTTTT-TTTTTTA
7436043 TTTTTTTTTTTTTAATTGTTT-
1 TTTTTTTTTTTTT--TT-TTTA
* *
7436064 TTTTTTTGTTTTTTCTTTA
1 TTTTTTTTTTTTTTTTTTA
7436083 TTTTTTTTATTTTTTT
1 TTTTTTTT-TTTTTTT
7436099 CATCCATTAG
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
18 3 0.06
19 9 0.19
20 12 0.26
21 20 0.43
22 3 0.06
ACGTcount: A:0.08, C:0.03, G:0.03, T:0.87
Consensus pattern (19 bp):
TTTTTTTTTTTTTTTTTTA
Found at i:7440251 original size:53 final size:54
Alignment explanation
Indices: 7440193--7440329 Score: 172
Period size: 54 Copynumber: 2.6 Consensus size: 54
7440183 TTGTTGGATT
* * *
7440193 TCTAAATTTTTCACAATTTGGG-TTAATTTAAAAAGA-TTTTCTTTTTC-GAAATC
1 TCTAAATTTTTCACCATTTGGGCCT-ATTTAAAAAAATTTTTCTTTTTCTG-AATC
* *
7440246 TCTAAAGTTTTCACCATTTGGGCCTATTTAAAAAAATTTTTCTTTTTCTGAATT
1 TCTAAATTTTTCACCATTTGGGCCTATTTAAAAAAATTTTTCTTTTTCTGAATC
**
7440300 TCTAAATTTTTCACCATTTAAGCCTATTTA
1 TCTAAATTTTTCACCATTTGGGCCTATTTA
7440330 GAAATTCTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
53 30 0.41
54 42 0.58
55 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.08, T:0.47
Consensus pattern (54 bp):
TCTAAATTTTTCACCATTTGGGCCTATTTAAAAAAATTTTTCTTTTTCTGAATC
Found at i:7440681 original size:24 final size:25
Alignment explanation
Indices: 7440638--7440692 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
7440628 TCTCACATAA
*
7440638 AAATTTCATAAAAATTTATCATTTG
1 AAATTTCATAAAAATCTATCATTTG
*
7440663 AAATTTC-TATAAATCTATCATTTG
1 AAATTTCATAAAAATCTATCATTTG
7440687 ATAATT
1 A-AATT
7440693 AATACTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 16 0.59
25 11 0.41
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (25 bp):
AAATTTCATAAAAATCTATCATTTG
Found at i:7441635 original size:9 final size:9
Alignment explanation
Indices: 7441621--7441650 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7441611 ACCACCTTAG
7441621 AATTTTTTT
1 AATTTTTTT
7441630 AATTTTTTT
1 AATTTTTTT
7441639 -ATTTTTTT
1 AATTTTTTT
7441647 AATT
1 AATT
7441651 ATAAAAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
AATTTTTTT
Found at i:7444145 original size:2 final size:2
Alignment explanation
Indices: 7444108--7444137 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7444098 ATATCAACAA
7444108 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
7444138 CAATATATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7444533 original size:17 final size:17
Alignment explanation
Indices: 7444511--7444545 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7444501 ATAAACTAAC
*
7444511 TTTAATAATTTTTATTT
1 TTTAATAATTATTATTT
*
7444528 TTTAATTATTATTATTT
1 TTTAATAATTATTATTT
7444545 T
1 T
7444546 ATTATATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTAATAATTATTATTT
Found at i:7444774 original size:29 final size:28
Alignment explanation
Indices: 7444728--7444787 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
7444718 AAGCTTAAAT
* * *
7444728 AATAAAAATAATTTTAAAAGATTTATTTA
1 AATAAAAATAATTAT-AAAGACTTAATTA
7444757 AATAAATAATAA-TATAAAGACTTAATTA
1 AATAAA-AATAATTATAAAGACTTAATTA
7444785 AAT
1 AAT
7444788 TATTTAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 14 0.52
29 8 0.30
30 5 0.19
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (28 bp):
AATAAAAATAATTATAAAGACTTAATTA
Found at i:7447343 original size:31 final size:30
Alignment explanation
Indices: 7447307--7447369 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
7447297 ATAAAAATTC
**
7447307 TTTAAATTTATAAATTAATAAATC-AAATCAA
1 TTTAAATCAATAAATT--TAAATCTAAATCAA
*
7447338 TTTAAATCAATAAATTTTAATCTAAATCAA
1 TTTAAATCAATAAATTTAAATCTAAATCAA
7447368 TT
1 TT
7447370 CAATTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.18
30 9 0.32
31 14 0.50
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (30 bp):
TTTAAATCAATAAATTTAAATCTAAATCAA
Found at i:7447345 original size:15 final size:15
Alignment explanation
Indices: 7447325--7447369 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
7447315 TATAAATTAA
7447325 TAAATCAAATCAATT
1 TAAATCAAATCAATT
*
7447340 TAAATC-AATAAATT
1 TAAATCAAATCAATT
*
7447354 TTAATCTAAATCAATT
1 TAAATC-AAATCAATT
7447370 CAATTTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 12 0.48
15 6 0.24
16 7 0.28
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAATCAAATCAATT
Found at i:7447501 original size:3 final size:3
Alignment explanation
Indices: 7447493--7447536 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
7447483 GATGTTGAAG
*
7447493 ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
7447537 ATATAATGGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:7451526 original size:17 final size:17
Alignment explanation
Indices: 7451504--7451536 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7451494 TGACATTATT
7451504 TAATATAATCTTATTCA
1 TAATATAATCTTATTCA
*
7451521 TAATATCATCTTATTC
1 TAATATAATCTTATTC
7451537 TATCTTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TAATATAATCTTATTCA
Found at i:7461642 original size:85 final size:87
Alignment explanation
Indices: 7461543--7461714 Score: 249
Period size: 85 Copynumber: 2.0 Consensus size: 87
7461533 GATATATGAT
* * * *
7461543 TTTTAAAATATAAAACTAAAAATTAAAAATTGAGAAAGT-AGAAAAATACTTA-CAAAAATAGTT
1 TTTTAAAATATAAAACTAAAAATTAAAAATTGAGAAAATAAAAAAAATACTTAGAAAAAATAGCT
7461606 GAAAACAGAAAATATAAACTGG
66 GAAAACAGAAAATATAAACTGG
* *
7461628 TTTTAGAATATAAAACTAAAAATTAAAAGTTGAGAAAATAAAAAAAAATACTTAGAAAAAATAGC
1 TTTTAAAATATAAAACTAAAAATTAAAAATTGAGAAAAT-AAAAAAAATACTTAGAAAAAATAGC
* *
7461693 TGAAAACTGAAAATATCAACTG
65 TGAAAACAGAAAATATAAACTG
7461715 ATATATATAT
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
85 36 0.47
87 12 0.16
88 28 0.37
ACGTcount: A:0.59, C:0.06, G:0.10, T:0.24
Consensus pattern (87 bp):
TTTTAAAATATAAAACTAAAAATTAAAAATTGAGAAAATAAAAAAAATACTTAGAAAAAATAGCT
GAAAACAGAAAATATAAACTGG
Found at i:7463470 original size:23 final size:22
Alignment explanation
Indices: 7463444--7463529 Score: 84
Period size: 23 Copynumber: 3.6 Consensus size: 22
7463434 ATTTAATTAA
7463444 ATTAAATAAATTCATTTATGAAT
1 ATTAAATAAATT-ATTTATGAAT
*
7463467 ATTAAATGAACA-TATTTACGAACAT
1 ATTAAAT-AA-ATTATTTATG-A-AT
7463492 ATATAAATAAATATATTTATGAAT
1 AT-TAAATAAAT-TATTTATGAAT
*
7463516 AATAAATAAATTAT
1 ATTAAATAAATTAT
7463530 AATCAAACAA
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
22 3 0.06
23 22 0.42
24 8 0.15
25 8 0.15
26 12 0.23
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (22 bp):
ATTAAATAAATTATTTATGAAT
Found at i:7463561 original size:15 final size:15
Alignment explanation
Indices: 7463516--7463565 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
7463506 ATTTATGAAT
* *
7463516 AATAAATAAATTAT-
1 AATAAACAAACTATA
*
7463530 AATCAAAC-AACTTTA
1 AAT-AAACAAACTATA
7463545 AATAAACAAACTATA
1 AATAAACAAACTATA
7463560 AATAAA
1 AATAAA
7463566 TATATATGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (15 bp):
AATAAACAAACTATA
Found at i:7472027 original size:34 final size:34
Alignment explanation
Indices: 7471989--7472060 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
7471979 GTTTAAAATG
*
7471989 TAAATAACTTAAAATAATTAAATA-GATTTTATTT
1 TAAAT-ACTTAAAATAAATAAATATGATTTTATTT
* * * *
7472023 TAAATATTTTAATTAAATAAATATGTTTTTATTT
1 TAAATACTTAAAATAAATAAATATGATTTTATTT
7472057 TAAA
1 TAAA
7472061 AAATTAGGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
33 14 0.44
34 18 0.56
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (34 bp):
TAAATACTTAAAATAAATAAATATGATTTTATTT
Found at i:7473005 original size:20 final size:20
Alignment explanation
Indices: 7472966--7473005 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7472956 TACAAAAAGG
**
7472966 AAATTTTTTTAAAATTTTAT
1 AAATTTTTTTAAAAAATTAT
7472986 AAATTTTTTTAAAAAATTAT
1 AAATTTTTTTAAAAAATTAT
7473006 TTTTATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AAATTTTTTTAAAAAATTAT
Found at i:7473366 original size:19 final size:20
Alignment explanation
Indices: 7473330--7473379 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
7473320 ATTTGAATTT
7473330 ATTTAAATATCA--ATTTAA
1 ATTTAAATATCATTATTTAA
7473348 ATTT-AATATCATTATTTAA
1 ATTTAAATATCATTATTTAA
*
7473367 ATTTGAAT-TCATT
1 ATTTAAATATCATT
7473380 TAAATAAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.24
18 4 0.14
19 15 0.52
20 3 0.10
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (20 bp):
ATTTAAATATCATTATTTAA
Found at i:7473437 original size:16 final size:16
Alignment explanation
Indices: 7473397--7473444 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
7473387 GTACTATCCG
7473397 TTTAAATATTTGAATCTA
1 TTTAAATATTT--ATCTA
* *
7473415 TTAAAATATTTATTTA
1 TTTAAATATTTATCTA
*
7473431 TTTAAATTTTTATC
1 TTTAAATATTTATC
7473445 AAAATATAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
16 15 0.60
18 10 0.40
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (16 bp):
TTTAAATATTTATCTA
Found at i:7474155 original size:23 final size:22
Alignment explanation
Indices: 7474108--7474158 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
7474098 ATCTTGTTTG
*
7474108 TTTTATTTATTTATCATTTAGTT
1 TTTTATTTATTTAT-ATTTAATT
*
7474131 TTTTATTTATTTGAT-TTTAAAT
1 TTTTATTTATTT-ATATTTAATT
7474153 TTTTAT
1 TTTTAT
7474159 CATAAATCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 11 0.44
23 12 0.48
24 2 0.08
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.71
Consensus pattern (22 bp):
TTTTATTTATTTATATTTAATT
Found at i:7475641 original size:14 final size:13
Alignment explanation
Indices: 7475622--7475655 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
7475612 GTTTCTTTCC
7475622 TTTTTTTGGTTGGT
1 TTTTTTTGGTT-GT
*
7475636 TTTTTTTTGTTGT
1 TTTTTTTGGTTGT
7475649 TTTTTTT
1 TTTTTTT
7475656 TTTGTTTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (13 bp):
TTTTTTTGGTTGT
Found at i:7475661 original size:15 final size:14
Alignment explanation
Indices: 7475622--7475656 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
7475612 GTTTCTTTCC
*
7475622 TTTTTTTGGTTGGT
1 TTTTTTTTGTTGGT
7475636 TTTTTTTTGTT-GT
1 TTTTTTTTGTTGGT
7475649 TTTTTTTT
1 TTTTTTTT
7475657 TTGTTTCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (14 bp):
TTTTTTTTGTTGGT
Found at i:7476664 original size:18 final size:17
Alignment explanation
Indices: 7476638--7476686 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 17
7476628 CAAAGCTTTA
*
7476638 TTATTATTATTTCTTACT
1 TTATTATTATTTATTA-T
*
7476656 TTTTTATTATTTATTAT
1 TTATTATTATTTATTAT
7476673 TTATTATT-TTTATT
1 TTATTATTATTTATT
7476687 TTACATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 6 0.21
17 8 0.29
18 14 0.50
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (17 bp):
TTATTATTATTTATTAT
Found at i:7476670 original size:7 final size:7
Alignment explanation
Indices: 7476634--7476687 Score: 55
Period size: 7 Copynumber: 8.4 Consensus size: 7
7476624 GCTTCAAAGC
7476634 TTTATTA
1 TTTATTA
7476641 -TTATTA
1 TTTATTA
*
7476647 TTTCTTA
1 TTTATTA
*
7476654 -CT-TT-
1 TTTATTA
7476658 TTTATTA
1 TTTATTA
7476665 TTTATTA
1 TTTATTA
7476672 TTTATTA
1 TTTATTA
7476679 TTT-TTA
1 TTTATTA
7476685 TTT
1 TTT
7476688 TACATTTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
5 3 0.08
6 15 0.38
7 22 0.55
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTATTA
Found at i:7476674 original size:25 final size:23
Alignment explanation
Indices: 7476634--7476683 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
7476624 GCTTCAAAGC
*
7476634 TTTATTATTATTATTTCTTACTTT
1 TTTATTATTATTATTTATTA-TTT
7476658 TTTATTATTTATTATTTATTATTT
1 TTTATTA-TTATTATTTATTATTT
7476682 TT
1 TT
7476684 ATTTTACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTATTATTATTATTTATTATTT
Found at i:7481209 original size:63 final size:60
Alignment explanation
Indices: 7481139--7481337 Score: 195
Period size: 63 Copynumber: 3.2 Consensus size: 60
7481129 AAATGGGAGG
*
7481139 GGATTATTCAATGAGTTTTTTTGCTAAAAACGCCTTAAATAATGCACTCATAAAAATTATTAA
1 GGATTATTCAAT-AGTTTTTTTGCTAAAAATGCCTTAAATAAT-CACTCATAAAAATT-TTAA
* * **
7481202 GGATTATTCAATACGTTTTTTATG-AAAAAATGCCTTAAATAATCACATTATAAAAATTGGAGA
1 GGATTATTCAATA-GTTTTTT-TGCTAAAAATGCCTTAAATAATCAC-TCATAAAAATTTTA-A
* * ** * *
7481265 GGATTATTGAAT-GTATTTTTTGCTAGAAATATCTTAAATAATTCCCTCATAAAAATTTTCGA
1 GGATTATTCAATAGT-TTTTTTGCTAAAAATGCCTTAAATAA-TCACTCATAAAAATTTT-AA
7481327 GGATTATTCAA
1 GGATTATTCAA
7481338 GGCGTTTTTG
Statistics
Matches: 112, Mismatches: 16, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
61 4 0.04
62 45 0.40
63 61 0.54
64 2 0.02
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (60 bp):
GGATTATTCAATAGTTTTTTTGCTAAAAATGCCTTAAATAATCACTCATAAAAATTTTAA
Found at i:7483606 original size:15 final size:16
Alignment explanation
Indices: 7483579--7483620 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
7483569 CTTTAAACAC
*
7483579 AATAAAATAAATAATA
1 AATAAATTAAATAATA
7483595 AAT-AATTAAATAATA
1 AATAAATTAAATAATA
*
7483610 ATTAAATTAAA
1 AATAAATTAAA
7483621 ATATTTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AATAAATTAAATAATA
Found at i:7483628 original size:25 final size:25
Alignment explanation
Indices: 7483594--7483647 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
7483584 AATAAATAAT
*
7483594 AAATAATTAAATAATAATTAAATTA
1 AAATAATTAAAGAATAATTAAATTA
* **
7483619 AAATATTTAAAGAATCTTTAAATTA
1 AAATAATTAAAGAATAATTAAATTA
7483644 AAAT
1 AAAT
7483648 TAAATAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (25 bp):
AAATAATTAAAGAATAATTAAATTA
Found at i:7483784 original size:30 final size:29
Alignment explanation
Indices: 7483750--7483820 Score: 106
Period size: 30 Copynumber: 2.4 Consensus size: 29
7483740 ATTCAATTTG
*
7483750 ATAAAAATAAAAATTTAAAGATTTAATTAA
1 ATAAAAATAAAAATTTAAAAATTTAATT-A
*
7483780 ATAAAAATAAAATTTTAAAAATTTAATTA
1 ATAAAAATAAAAATTTAAAAATTTAATTA
*
7483809 ATTAAAATAAAA
1 ATAAAAATAAAA
7483821 TTATAAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
29 12 0.32
30 26 0.68
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (29 bp):
ATAAAAATAAAAATTTAAAAATTTAATTA
Found at i:7483815 original size:29 final size:29
Alignment explanation
Indices: 7483753--7483841 Score: 108
Period size: 29 Copynumber: 3.0 Consensus size: 29
7483743 CAATTTGATA
* * *
7483753 AAAATAAAAATTTAAAGATTTAATTAAATA
1 AAAATAAAATTTTAAAAATTTAATT-AATT
7483783 AAAATAAAATTTTAAAAATTTAATTAATT
1 AAAATAAAATTTTAAAAATTTAATTAATT
* *
7483812 AAAATAAAATTATAAATATTTGAA-TAATT
1 AAAATAAAATTTTAAAAATTT-AATTAATT
7483841 A
1 A
7483842 TTTAATTTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
29 28 0.53
30 25 0.47
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (29 bp):
AAAATAAAATTTTAAAAATTTAATTAATT
Found at i:7500310 original size:23 final size:23
Alignment explanation
Indices: 7500275--7500321 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
7500265 GAGAACTTCG
7500275 TTTGTTTGATTTTAAAAAGAGAA
1 TTTGTTTGATTTTAAAAAGAGAA
*
7500298 TTTGTTTTG-TTTTAGAAAGAGAA
1 TTTG-TTTGATTTTAAAAAGAGAA
7500321 T
1 T
7500322 GAATTGATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (23 bp):
TTTGTTTGATTTTAAAAAGAGAA
Found at i:7504097 original size:27 final size:27
Alignment explanation
Indices: 7504058--7504113 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
7504048 ACAAGGATAC
7504058 AGGACTTAATGTACGTAACCCACTTTA
1 AGGACTTAATGTACGTAACCCACTTTA
* *
7504085 AGGACTTAGTGTACGTAACCCGCTTTA
1 AGGACTTAATGTACGTAACCCACTTTA
7504112 AG
1 AG
7504114 ATGTCTAGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (27 bp):
AGGACTTAATGTACGTAACCCACTTTA
Found at i:7511413 original size:19 final size:18
Alignment explanation
Indices: 7511389--7511440 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 18
7511379 TCATGTTAAC
7511389 ATTTAAAAATTTCAAAAAT
1 ATTTAAAAA-TTCAAAAAT
7511408 ATTTAAAAATTCAAAAA-
1 ATTTAAAAATTCAAAAAT
*
7511425 A--TAAAAATTAAAAAAT
1 ATTTAAAAATTCAAAAAT
7511441 TGAAATATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 13 0.42
17 1 0.03
18 8 0.26
19 9 0.29
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (18 bp):
ATTTAAAAATTCAAAAAT
Found at i:7511468 original size:11 final size:10
Alignment explanation
Indices: 7511452--7511485 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
7511442 GAAATATTTT
7511452 AAAAAATTACA
1 AAAAAATTA-A
7511463 AAAAAATTTAA
1 AAAAAA-TTAA
7511474 AAAAAATTAA
1 AAAAAATTAA
7511484 AA
1 AA
7511486 TTTTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.27
11 13 0.59
12 3 0.14
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAAAATTAA
Found at i:7511521 original size:25 final size:24
Alignment explanation
Indices: 7511475--7511537 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
7511465 AAAATTTAAA
* * *
7511475 AAAAATTAAAATTTTTTTAAAACTAT
1 AAAAATTAAAA-ATTATGAAAACT-T
7511501 AAAAATTAAAAATTATGAAAACTT
1 AAAAATTAAAAATTATGAAAACTT
*
7511525 AAAAAATAAAAAT
1 AAAAATTAAAAAT
7511538 AAAAAAATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 13 0.39
25 9 0.27
26 11 0.33
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (24 bp):
AAAAATTAAAAATTATGAAAACTT
Found at i:7511530 original size:26 final size:25
Alignment explanation
Indices: 7511473--7511537 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
7511463 AAAAAATTTA
* * *
7511473 AAAAAAATTAAAATTTTTTTAAAACT
1 AAAAAAATTAAAA-ATTATGAAAACT
*
7511499 ATAAAAATTAAAAATTATGAAAACT
1 AAAAAAATTAAAAATTATGAAAACT
*
7511524 TAAAAAA-TAAAAAT
1 AAAAAAATTAAAAAT
7511538 AAAAAAATGT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
24 7 0.21
25 14 0.42
26 12 0.36
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (25 bp):
AAAAAAATTAAAAATTATGAAAACT
Found at i:7511661 original size:35 final size:36
Alignment explanation
Indices: 7511622--7511811 Score: 125
Period size: 34 Copynumber: 5.4 Consensus size: 36
7511612 ACCAAAACAT
7511622 AAAAATTTGAAAATATAAAATA-TAAAATTTTTTGAA
1 AAAAATTTGAAAATATAAAATACTAAAATTTTTT-AA
*
7511658 AAAAAATT-AAAA-A-AAAATATCTAAAATTTTTT-A
1 AAAAATTTGAAAATATAAAATA-CTAAAATTTTTTAA
* *
7511691 AAAAATTTGAAAATATATAGAAATTCTAAAATTTTCTAA
1 AAAAATTTG-AAA-ATATA-AAATACTAAAATTTTTTAA
* * * * * *
7511730 AAAAA-ATAAAAATCTAAAAT-CTAAAATATTCTCA
1 AAAAATTTGAAAATATAAAATACTAAAATTTTTTAA
** *
7511764 AAAAA-TAAAAAAT-TAAAAAAATCT-AAATTTTTT--
1 AAAAATTTGAAAATAT-AAAATA-CTAAAATTTTTTAA
7511797 AAAAATTTGAAAATA
1 AAAAATTTGAAAATA
7511812 GATAAAAATT
Statistics
Matches: 124, Mismatches: 16, Indels: 29
0.73 0.09 0.17
Matches are distributed among these distances:
33 20 0.16
34 34 0.27
35 29 0.23
36 14 0.11
37 4 0.03
38 13 0.10
39 10 0.08
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.33
Consensus pattern (36 bp):
AAAAATTTGAAAATATAAAATACTAAAATTTTTTAA
Found at i:7511748 original size:107 final size:105
Alignment explanation
Indices: 7511631--7511827 Score: 263
Period size: 107 Copynumber: 1.8 Consensus size: 105
7511621 TAAAAATTTG
* * * *
7511631 AAAATATAAAATATAAAATTTTTTGAAAAAA-AATTAAAA-AAAAATATCTAAAATTTTTTAAAA
1 AAAATATAAAATATAAAATATTCTCAAAAAATAA--AAAATAAAAAAATCT-AAATTTTTT-AAA
* *
7511694 AATTTGAAAATATATAGAAATTCTAAAATTTTCTAAAAAAAATA
62 AATTTGAAAATAGATAAAAATTCTAAAATTTTCTAAAAAAAATA
* *
7511738 AAAATCTAAAATCTAAAATATTCTCAAAAAATAAAAAATTAAAAAAATCTAAATTTTTTAAAAAT
1 AAAATATAAAATATAAAATATTCTCAAAAAATAAAAAA-TAAAAAAATCTAAATTTTTTAAAAAT
7511803 TTGAAAATAGATAAAAATTCTAAAA
65 TTGAAAATAGATAAAAATTCTAAAA
7511828 AATTAAAAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
106 33 0.42
107 35 0.44
108 11 0.14
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (105 bp):
AAAATATAAAATATAAAATATTCTCAAAAAATAAAAAATAAAAAAATCTAAATTTTTTAAAAATT
TGAAAATAGATAAAAATTCTAAAATTTTCTAAAAAAAATA
Found at i:7511834 original size:17 final size:17
Alignment explanation
Indices: 7511745--7511861 Score: 67
Period size: 18 Copynumber: 6.6 Consensus size: 17
7511735 ATAAAAATCT
*
7511745 AAAATCTAAAATATTCTCA
1 AAAATCTAAAAAATT-T-A
* *
7511764 AAAA-ATAAAAAATTAAA
1 AAAATCTAAAAAATT-TA
***
7511781 AAAATCTAAATTTTTTA
1 AAAATCTAAAAAATTTA
* * **
7511798 AAAATTTGAAAATAGATA
1 AAAATCT-AAAAAATTTA
*
7511816 AAAATTCTAAAAAATTAA
1 AAAA-TCTAAAAAATTTA
7511834 AAAAT-TAAAAAATTTCA
1 AAAATCTAAAAAATTT-A
7511851 AAAATCTAAAA
1 AAAATCTAAAA
7511862 TTATATAAAA
Statistics
Matches: 73, Mismatches: 20, Indels: 11
0.70 0.19 0.11
Matches are distributed among these distances:
16 9 0.12
17 19 0.26
18 39 0.53
19 6 0.08
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (17 bp):
AAAATCTAAAAAATTTA
Found at i:7511842 original size:16 final size:18
Alignment explanation
Indices: 7511745--7511861 Score: 73
Period size: 17 Copynumber: 6.6 Consensus size: 18
7511735 ATAAAAATCT
*
7511745 AAAATCTAAAATATTCTCAA
1 AAAATCTAAAAAATT-T-AA
*
7511765 AAAA--TAAAAAATTAAA
1 AAAATCTAAAAAATTTAA
** *
7511781 AAAATCT-AAATTTTTTA
1 AAAATCTAAAAAATTTAA
* * **
7511798 AAAATTTGAAAATAGATAA
1 AAAATCT-AAAAAATTTAA
*
7511817 AAATTCTAAAAAA-TTAA
1 AAAATCTAAAAAATTTAA
*
7511834 AAAAT-TAAAAAATTTCA
1 AAAATCTAAAAAATTTAA
7511851 AAAATCTAAAA
1 AAAATCTAAAA
7511862 TTATATAAAA
Statistics
Matches: 74, Mismatches: 17, Indels: 14
0.70 0.16 0.13
Matches are distributed among these distances:
16 13 0.18
17 27 0.36
18 19 0.26
19 11 0.15
20 4 0.05
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAATCTAAAAAATTTAA
Found at i:7511855 original size:106 final size:109
Alignment explanation
Indices: 7511669--7511862 Score: 265
Period size: 106 Copynumber: 1.8 Consensus size: 109
7511659 AAAAATTAAA
* * **
7511669 AAAAAATATCTAAAATTTTTTAAAAAATTTGAAAATATATAGAAATTCTAAAATTTTCTAAAAAA
1 AAAAAATATCTAAAATTTTTTAAAAAATTTGAAAATAGATAAAAATTCTAAAATAATCTAAAAAA
*
7511734 AATAAAAATCTAAAATCTAAAATATTCTCAAAAAATAAAAAATT
66 AATAAAAATCAAAAATCTAAAATATTCTCAAAAAATAAAAAATT
7511778 AAAAAA-ATCT-AAATTTTTT-AAAAATTTGAAAATAGATAAAAATTCTAAAA-AAT-TAAAAAA
1 AAAAAATATCTAAAATTTTTTAAAAAATTTGAAAATAGATAAAAATTCTAAAATAATCTAAAAAA
*
7511838 TTAA-AAAATTTCAAAAATCTAAAAT
66 --AATAAAA-ATCAAAAATCTAAAAT
7511863 TATATAAAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
104 7 0.09
105 5 0.07
106 45 0.59
107 9 0.12
108 4 0.05
109 6 0.08
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (109 bp):
AAAAAATATCTAAAATTTTTTAAAAAATTTGAAAATAGATAAAAATTCTAAAATAATCTAAAAAA
AATAAAAATCAAAAATCTAAAATATTCTCAAAAAATAAAAAATT
Found at i:7511871 original size:18 final size:17
Alignment explanation
Indices: 7511780--7511878 Score: 58
Period size: 18 Copynumber: 5.6 Consensus size: 17
7511770 AAAAAATTAA
* * *
7511780 AAAAATCTAAATTTTTT
1 AAAAATCTAAAATATAT
* *
7511797 AAAAATTTGAAAATAGAT
1 AAAAATCT-AAAATATAT
*
7511815 AAAAATTCTAAAAAAT-T
1 AAAAA-TCTAAAATATAT
* *
7511832 AAAAAAT-TAAAAAATTT
1 -AAAAATCTAAAATATAT
7511849 CAAAAATCTAAAATTATAT
1 -AAAAATCTAAAA-TATAT
*
7511868 AAAAATTTAAA
1 AAAAATCTAAA
7511879 TTTGTAAGAT
Statistics
Matches: 64, Mismatches: 12, Indels: 11
0.74 0.14 0.13
Matches are distributed among these distances:
16 8 0.12
17 16 0.25
18 35 0.55
19 5 0.08
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (17 bp):
AAAAATCTAAAATATAT
Found at i:7511871 original size:36 final size:33
Alignment explanation
Indices: 7511729--7511878 Score: 90
Period size: 36 Copynumber: 4.3 Consensus size: 33
7511719 AAATTTTCTA
* *
7511729 AAAAAAAT-AAAAATCT-AAAATCTAAAATATTCT
1 AAAAAATTAAAAAATTTAAAAATCTAAAATA-T-T
* * *
7511762 CAAAAAA-TAAAAAATTAAAAAAATCTAAATTTTTT
1 -AAAAAATTAAAAAATT-TAAAAATCTAAA-ATATT
* * ** *
7511797 AAAAATTTGAAAATAGATAAAAATTCTAAAAAATT
1 AAAAAATT-AAAAAATTTAAAAA-TCTAAAATATT
7511832 AAAAAATTAAAAAATTTCAAAAATCTAAAATTATAT
1 AAAAAATTAAAAAATTT-AAAAATCTAAAA-TAT-T
*
7511868 AAAAATTTAAA
1 AAAAAATTAAA
7511879 TTTGTAAGAT
Statistics
Matches: 88, Mismatches: 18, Indels: 18
0.71 0.15 0.15
Matches are distributed among these distances:
33 1 0.01
34 30 0.34
35 23 0.26
36 33 0.38
37 1 0.01
ACGTcount: A:0.64, C:0.05, G:0.01, T:0.29
Consensus pattern (33 bp):
AAAAAATTAAAAAATTTAAAAATCTAAAATATT
Found at i:7511878 original size:8 final size:8
Alignment explanation
Indices: 7511794--7511878 Score: 53
Period size: 8 Copynumber: 9.8 Consensus size: 8
7511784 ATCTAAATTT
7511794 TTTAAAAA
1 TTTAAAAA
7511802 TTTGAAAATA
1 TTT-AAAA-A
**
7511812 GATAAAAA
1 TTTAAAAA
7511820 TTCTAAAAAA
1 TT-T-AAAAA
*
7511830 TTAAAAAA
1 TTTAAAAA
*
7511838 TTAAAAAA
1 TTTAAAAA
7511846 TTTCAAAAA
1 TTT-AAAAA
*
7511855 TCTAAAATTA
1 TTTAAAA--A
*
7511865 TATAAAAA
1 TTTAAAAA
7511873 TTTAAA
1 TTTAAA
7511879 TTTGTAAGAT
Statistics
Matches: 61, Mismatches: 9, Indels: 14
0.73 0.11 0.17
Matches are distributed among these distances:
8 29 0.48
9 16 0.26
10 16 0.26
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (8 bp):
TTTAAAAA
Found at i:7511880 original size:17 final size:17
Alignment explanation
Indices: 7511796--7511878 Score: 69
Period size: 18 Copynumber: 4.7 Consensus size: 17
7511786 CTAAATTTTT
*
7511796 TAAAAATTTGAAAATAGA
1 TAAAAATTT-AAAATATA
*
7511814 TAAAAATTCTAAAAAAT-
1 TAAAAATT-TAAAATATA
* * *
7511831 TAAAAAATTAAAAAATT
1 TAAAAATTTAAAATATA
*
7511848 TCAAAAATCTAAAATTATA
1 T-AAAAATTTAAAA-TATA
7511867 TAAAAATTTAAA
1 TAAAAATTTAAA
7511879 TTTGTAAGAT
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
16 8 0.15
17 8 0.15
18 33 0.62
19 4 0.08
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (17 bp):
TAAAAATTTAAAATATA
Found at i:7511955 original size:19 final size:19
Alignment explanation
Indices: 7511933--7511979 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
7511923 GTATTTTACA
* **
7511933 ATTTTTTAAAGATTTTTAG
1 ATTTTTTAAAAAAGTTTAG
7511952 ATTTTTTCAAAAAAGTTTAG
1 ATTTTTT-AAAAAAGTTTAG
7511972 ATTTTTTA
1 ATTTTTTA
7511980 TTTTCAATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (19 bp):
ATTTTTTAAAAAAGTTTAG
Found at i:7513846 original size:52 final size:53
Alignment explanation
Indices: 7513788--7513956 Score: 143
Period size: 52 Copynumber: 3.2 Consensus size: 53
7513778 TACAAAGATC
*
7513788 ACATTTCTAAAAGTATAAACGTAGTCATTAATTAAAAA-ATTCACAAAAAATT
1 ACATTTCTAAAAGTATAAACGTAATCATTAATTAAAAACATTCACAAAAAATT
* * * * * * * *
7513840 ACATTTCCTAAATG-A-AAA-ATAAT-GTTTATAAAAAAAGTATTTTAC-AAAGATT
1 ACATTT-CTAAAAGTATAAACGTAATCATTAAT-TAAAAA-CA-TTCACAAAAAATT
* *
7513892 ACGTTTCTAAAAATATAAACGTAATCATTAATTAAAAACATTCACAAAAAATT
1 ACATTTCTAAAAGTATAAACGTAATCATTAATTAAAAACATTCACAAAAAATT
*
7513945 ACGTTTTCTAAA
1 AC-ATTTCTAAA
7513957 TTAGATATGC
Statistics
Matches: 87, Mismatches: 19, Indels: 20
0.69 0.15 0.16
Matches are distributed among these distances:
49 4 0.05
50 8 0.09
51 8 0.09
52 24 0.28
53 22 0.25
54 17 0.20
55 4 0.05
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (53 bp):
ACATTTCTAAAAGTATAAACGTAATCATTAATTAAAAACATTCACAAAAAATT
Found at i:7513873 original size:104 final size:105
Alignment explanation
Indices: 7513757--7513957 Score: 332
Period size: 104 Copynumber: 1.9 Consensus size: 105
7513747 TCTTTAGTTG
* *
7513757 ATGTTTATAAAAAAAATATTTTACAAAGATCACATTTCTAAAAGTATAAACGTAGTCATTAATTA
1 ATGTTTATAAAAAAAATATTTTACAAAGATCACATTTCTAAAAATATAAACGTAATCATTAATTA
7513822 AAAA-ATTCACAAAAAATTACATTTCCTAAATGAAAAATA
66 AAAACATTCACAAAAAATTACATTTCCTAAATGAAAAATA
* * *
7513861 ATGTTTATAAAAAAAGTATTTTACAAAGATTACGTTTCTAAAAATATAAACGTAATCATTAATTA
1 ATGTTTATAAAAAAAATATTTTACAAAGATCACATTTCTAAAAATATAAACGTAATCATTAATTA
* *
7513926 AAAACATTCACAAAAAATTACGTTTTCTAAAT
66 AAAACATTCACAAAAAATTACATTTCCTAAAT
7513958 TAGATATGCT
Statistics
Matches: 89, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
104 64 0.72
105 25 0.28
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.33
Consensus pattern (105 bp):
ATGTTTATAAAAAAAATATTTTACAAAGATCACATTTCTAAAAATATAAACGTAATCATTAATTA
AAAACATTCACAAAAAATTACATTTCCTAAATGAAAAATA
Found at i:7513947 original size:53 final size:52
Alignment explanation
Indices: 7513791--7513956 Score: 137
Period size: 53 Copynumber: 3.2 Consensus size: 52
7513781 AAAGATCACA
* * *
7513791 TTTCTAAAAGTATAAACGTAGTCATTAATTAAAAAATTCACAAAAAATTACA
1 TTTCTAAAAATATAAACGTAATCATTAATTAAAAAATTCACAAAAAATTACG
* * * * * *
7513843 TTTCCT--AAATGA-AAA-ATAAT-GTTTATAAAAAAAGTATTTTAC-AAAGATTACG
1 TTT-CTAAAAAT-ATAAACGTAATCATTAAT-TAAAAA--A-TTCACAAAAAATTACG
7513895 TTTCTAAAAATATAAACGTAATCATTAATTAAAAACATTCACAAAAAATTACG
1 TTTCTAAAAATATAAACGTAATCATTAATTAAAAA-ATTCACAAAAAATTACG
7513948 TTTTCTAAA
1 -TTTCTAAA
7513957 TTAGATATGC
Statistics
Matches: 85, Mismatches: 16, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
49 4 0.05
50 8 0.09
51 8 0.09
52 21 0.25
53 23 0.27
54 17 0.20
55 4 0.05
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (52 bp):
TTTCTAAAAATATAAACGTAATCATTAATTAAAAAATTCACAAAAAATTACG
Found at i:7514181 original size:21 final size:21
Alignment explanation
Indices: 7514143--7514182 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7514133 TTGCTTTCTT
*
7514143 TTTATTTTATTTGGTTTTTAC
1 TTTATTTTATTTGATTTTTAC
7514164 TTTATTTT-TTTAGATTTTT
1 TTTATTTTATTT-GATTTTT
7514183 GCATTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.15, C:0.03, G:0.07, T:0.75
Consensus pattern (21 bp):
TTTATTTTATTTGATTTTTAC
Found at i:7514344 original size:14 final size:14
Alignment explanation
Indices: 7514327--7514364 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
7514317 TCTTCAAAAT
*
7514327 TTTATTTTTTTATA
1 TTTATTTTTTGATA
7514341 TTTATTTATTTGATA
1 TTTATTT-TTTGATA
7514356 -TTATTTTTT
1 TTTATTTTTT
7514365 ATTAGATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 3 0.14
14 13 0.59
15 6 0.27
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTATTTTTTGATA
Found at i:7514367 original size:17 final size:18
Alignment explanation
Indices: 7514339--7514372 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7514329 TATTTTTTTA
*
7514339 TATTTATTTATTTGATAT
1 TATTTATTTATTAGATAT
7514357 TATTT-TTTATTAGATA
1 TATTTATTTATTAGATA
7514373 ACTTTTGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
TATTTATTTATTAGATAT
Found at i:7516697 original size:22 final size:22
Alignment explanation
Indices: 7516672--7516722 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
7516662 TGAAAATAGC
7516672 TTTTTCT-AGCATTGAATACATT
1 TTTTTCTGA-CATTGAATACATT
* * *
7516694 TTTTTATGACATTTAATGCATT
1 TTTTTCTGACATTGAATACATT
7516716 TTTTTCT
1 TTTTTCT
7516723 TCTTTTGCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.24, C:0.12, G:0.08, T:0.57
Consensus pattern (22 bp):
TTTTTCTGACATTGAATACATT
Found at i:7519888 original size:16 final size:16
Alignment explanation
Indices: 7519867--7519897 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7519857 TCCTTTGGAA
7519867 CATTCCAAATTTCAAC
1 CATTCCAAATTTCAAC
*
7519883 CATTCCAATTTTCAA
1 CATTCCAAATTTCAA
7519898 AGGACAAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (16 bp):
CATTCCAAATTTCAAC
Found at i:7522884 original size:8 final size:8
Alignment explanation
Indices: 7522867--7522905 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
7522857 TATAATTTGG
*
7522867 AAAAAATT
1 AAAATATT
*
7522875 AAAATGTT
1 AAAATATT
7522883 AAAATATT
1 AAAATATT
*
7522891 AAACTATT
1 AAAATATT
7522899 AAAATAT
1 AAAATAT
7522906 GAATTTTTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (8 bp):
AAAATATT
Found at i:7523082 original size:15 final size:16
Alignment explanation
Indices: 7523054--7523084 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
7523044 ATTATTTTAT
7523054 TATGATTGAATAATTA
1 TATGATTGAATAATTA
7523070 TATGATT-AATAATTA
1 TATGATTGAATAATTA
7523085 AAACAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (16 bp):
TATGATTGAATAATTA
Found at i:7524395 original size:34 final size:33
Alignment explanation
Indices: 7524314--7524400 Score: 111
Period size: 34 Copynumber: 2.6 Consensus size: 33
7524304 AGTAAAAATT
* *
7524314 TACTTTTGAAAATATATTTAAAAATAATTGCAA
1 TACTTTTTAAAATAAATTTAAAAATAATTGCAA
* * *
7524347 TGCTTTTTTAAAATACATTTAAAAATAATTGTAA
1 TAC-TTTTTAAAATAAATTTAAAAATAATTGCAA
7524381 TACTTTTTAGAAATAAATTT
1 TACTTTTTA-AAATAAATTT
7524401 CTAATATAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
33 8 0.17
34 38 0.83
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.44
Consensus pattern (33 bp):
TACTTTTTAAAATAAATTTAAAAATAATTGCAA
Found at i:7541232 original size:2 final size:2
Alignment explanation
Indices: 7541225--7541250 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7541215 TCAGTCATTT
7541225 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
7541251 AATTAGTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:7541952 original size:27 final size:27
Alignment explanation
Indices: 7541922--7541975 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
7541912 TCTACAAAAA
7541922 CTCTTCTTTTTTCAATCACATGTCTTG
1 CTCTTCTTTTTTCAATCACATGTCTTG
7541949 CTCTTCTTTTTTCAATCACATGTCTTG
1 CTCTTCTTTTTTCAATCACATGTCTTG
7541976 AATAATCACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.15, C:0.26, G:0.07, T:0.52
Consensus pattern (27 bp):
CTCTTCTTTTTTCAATCACATGTCTTG
Found at i:7544009 original size:2 final size:2
Alignment explanation
Indices: 7543998--7544040 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
7543988 CCACATAAGC
7543998 TA TA -A 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
7544039 TA
1 TA
7544041 ACAAGGAAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7544651 original size:25 final size:22
Alignment explanation
Indices: 7544597--7544651 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 22
7544587 ATCATCTTAA
*
7544597 TTTTATTTTAAAAATTTCTTTG
1 TTTTATATTAAAAATTTCTTTG
*
7544619 TTAATATATTAAATAATTTCTTGTG
1 TT-TTATATTAAA-AATTTCTT-TG
7544644 TGTTTATA
1 T-TTTATA
7544652 AAATAAGGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 2 0.08
23 8 0.31
24 8 0.31
25 7 0.27
26 1 0.04
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.58
Consensus pattern (22 bp):
TTTTATATTAAAAATTTCTTTG
Found at i:7544858 original size:30 final size:30
Alignment explanation
Indices: 7544824--7544882 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
7544814 CTGAGCCCAT
*
7544824 TTATTCATTATT-TTATTTTAAAATAAATTA
1 TTATTCATTATTAATA-TTTAAAATAAATTA
**
7544854 TTATTTTTTATTAATATTTAAAATAAATT
1 TTATTCATTATTAATATTTAAAATAAATT
7544883 TAAAATAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (30 bp):
TTATTCATTATTAATATTTAAAATAAATTA
Found at i:7544885 original size:11 final size:11
Alignment explanation
Indices: 7544869--7544900 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
7544859 TTTTATTAAT
7544869 ATTTAAAATAA
1 ATTTAAAATAA
7544880 ATTTAAAATAA
1 ATTTAAAATAA
7544891 ATTTAAAATA
1 ATTTAAAATA
7544901 TATATTAATT
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
ATTTAAAATAA
Found at i:7545003 original size:46 final size:46
Alignment explanation
Indices: 7544945--7545038 Score: 143
Period size: 46 Copynumber: 2.0 Consensus size: 46
7544935 TTAGCGTGAA
*
7544945 TAATCTAACTCAACCTTTTAAGTCAATTTGAATCAAATTTTGAACT
1 TAATCTAACTCAACCTTTTAAGTCAATTTGAATCAAACTTTGAACT
* * * *
7544991 TAATCTACCTCAACCTTTTAAGTCGATTTGAATCGAACTTTGAGCT
1 TAATCTAACTCAACCTTTTAAGTCAATTTGAATCAAACTTTGAACT
7545037 TA
1 TA
7545039 GTCGGAGAGC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (46 bp):
TAATCTAACTCAACCTTTTAAGTCAATTTGAATCAAACTTTGAACT
Found at i:7545389 original size:26 final size:26
Alignment explanation
Indices: 7545351--7545401 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
7545341 TTGTTTAAGT
**
7545351 TAAATAATCATATTCATGAATATATC
1 TAAATAATCATATTCACAAATATATC
7545377 TAAATGAAT-ATATTCACAAATATAT
1 TAAAT-AATCATATTCACAAATATAT
7545402 ATAATAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (26 bp):
TAAATAATCATATTCACAAATATATC
Found at i:7545530 original size:10 final size:10
Alignment explanation
Indices: 7545510--7545540 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
7545500 ATCATAAATT
7545510 AATAAATTTTA
1 AATAAA-TTTA
7545521 AATAAATTTA
1 AATAAATTTA
7545531 AATAAATTTA
1 AATAAATTTA
7545541 TTCGTGAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 14 0.70
11 6 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
AATAAATTTA
Found at i:7546984 original size:13 final size:13
Alignment explanation
Indices: 7546966--7546999 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
7546956 TAAAAATATT
7546966 ATTTAATATCTTA
1 ATTTAATATCTTA
*
7546979 ATTTAATATGTTA
1 ATTTAATATCTTA
7546992 ATTTAATA
1 ATTTAATA
7547000 AAAACATTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (13 bp):
ATTTAATATCTTA
Found at i:7556055 original size:21 final size:21
Alignment explanation
Indices: 7556008--7556055 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
7555998 TAGTACAGGA
7556008 TTATTATGAGTATTATTATAG
1 TTATTATGAGTATTATTATAG
* * *
7556029 TAATTATGTTGTA-TATTATTG
1 TTATTATG-AGTATTATTATAG
7556050 TTATTA
1 TTATTA
7556056 CACTATAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (21 bp):
TTATTATGAGTATTATTATAG
Found at i:7556978 original size:14 final size:14
Alignment explanation
Indices: 7556954--7556996 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
7556944 TTAATTCCTA
7556954 ATTTCATTTTATTTT
1 ATTT-ATTTTATTTT
7556969 ATTTATTTTATTATT
1 ATTTATTTTATT-TT
*
7556984 -TTAATTTTATTTT
1 ATTTATTTTATTTT
7556997 CAGTTTTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 2 0.08
14 18 0.69
15 6 0.23
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (14 bp):
ATTTATTTTATTTT
Found at i:7563405 original size:235 final size:235
Alignment explanation
Indices: 7562934--7563646 Score: 1167
Period size: 235 Copynumber: 3.0 Consensus size: 235
7562924 GTGTAGAGGG
* * *
7562934 CATAACTAGAAATAGAAGATTTTATACTGTGAAAACCTTGGAGAAGACAAGAAAAGGAAAAAAGA
1 CATAACTAGAAATAGAAAATTTTATACTATGAAAACCTTGGAGAAGACAAGAAAAGGAAAAGAGA
* * * * *
7562999 AGTAGACTGAATTAGAAAAAATTTTAAGGAAAGATGCCCCAAGATCTATGTCAAAAAAAAAACTT
66 AGTAGACTGAATCAAAAAAAATTTTAAAGAAAGATGCCTCAAGATCTATG-C-CAAAAAAAACTT
* *
7563064 GTGAGTTTTTAAAACTGATAAAGCATAGTGAATACTTTATGGTAGAGCAATTGAATAAGATGCCA
129 GTGAGTTTTTAAAACTGATAAAGCATAGTGAATACTTTGTGGTGGAGCAATTGAATAAGATGCCA
*
7563129 GCCAGAATATCTCTACTATCACTTTTTCTAAACTCAGAACCA
194 GCCAGAATATCTCTACTATCACTTCTTCTAAACTCAGAACCA
7563171 CATAACTAGAAATAGAAAATTTTATACTATGAAAACCTTGGAGAAGACAAGAAAAGGAAAAGAGA
1 CATAACTAGAAATAGAAAATTTTATACTATGAAAACCTTGGAGAAGACAAGAAAAGGAAAAGAGA
* * *
7563236 AGTAGACTGAATCAAAAAAAATTTTAAAGAAAGATGCCTCAAGATTTATGCCAAAAAAAATTTAT
66 AGTAGACTGAATCAAAAAAAATTTTAAAGAAAGATGCCTCAAGATCTATGCCAAAAAAAACTTGT
*
7563301 GAGTTTTTAAAACTGATAAAGCATAGTGAATACTTTGTGGTGGAGCAATTGAATAAAATGCCAGC
131 GAGTTTTTAAAACTGATAAAGCATAGTGAATACTTTGTGGTGGAGCAATTGAATAAGATGCCAGC
*
7563366 CAGAATATCTTTACTATCACTTCTTCTAAACTCAGAACCA
196 CAGAATATCTCTACTATCACTTCTTCTAAACTCAGAACCA
* **
7563406 CATAACTAGAAATA-AAAGATTTTATACTATGAAAACCTTGAAGAAGACAAGAAAAAAAAAAGAG
1 CATAACTAGAAATAGAAA-ATTTTATACTATGAAAACCTTGGAGAAGACAAGAAAAGGAAAAGAG
*
7563470 AAATAGACTGAATCAAAAAAAATTTTAAAGAAAGATGCCTCAAGATCTATGCCAAAAAAAAAAAC
65 AAGTAGACTGAATCAAAAAAAATTTTAAAGAAAGATGCCTCAAGATCTATGCC---AAAAAAAAC
7563535 TTGTGAGTTTTTAAAACTGATAAAGCATAGTGAATACTTTGTGGTGGAGCAATTGAATAAGATGC
127 TTGTGAGTTTTTAAAACTGATAAAGCATAGTGAATACTTTGTGGTGGAGCAATTGAATAAGATGC
* *
7563600 CAGTCAGAATATCTCTACTATCACTTCTCCTAAACTCAGAACCA
192 CAGCCAGAATATCTCTACTATCACTTCTTCTAAACTCAGAACCA
7563644 CAT
1 CAT
7563647 TGCAATGCCT
Statistics
Matches: 445, Mismatches: 27, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
234 3 0.01
235 219 0.49
236 1 0.00
237 107 0.24
238 115 0.26
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (235 bp):
CATAACTAGAAATAGAAAATTTTATACTATGAAAACCTTGGAGAAGACAAGAAAAGGAAAAGAGA
AGTAGACTGAATCAAAAAAAATTTTAAAGAAAGATGCCTCAAGATCTATGCCAAAAAAAACTTGT
GAGTTTTTAAAACTGATAAAGCATAGTGAATACTTTGTGGTGGAGCAATTGAATAAGATGCCAGC
CAGAATATCTCTACTATCACTTCTTCTAAACTCAGAACCA
Found at i:7568344 original size:49 final size:46
Alignment explanation
Indices: 7568265--7568363 Score: 112
Period size: 49 Copynumber: 2.1 Consensus size: 46
7568255 TTGCTTGAAT
7568265 AAAAAAAAATTCAAGTTGAAAATCCAAAAGGGCAG-CTTGAATAAAGA
1 AAAAAAAAATTCAAGTTGAAAATCCAAAAGGG-AGACTTGAATAAA-A
** *
7568312 AAAAAAAGAAGTTCAAGTTGAAAA-CTTTAAAGGGTGACTTGAATAAAA
1 AAAAAAA-AA-TTCAAGTTGAAAATC-CAAAAGGGAGACTTGAATAAAA
7568360 AAAA
1 AAAA
7568364 TGAAGTTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
47 7 0.16
48 9 0.20
49 29 0.64
ACGTcount: A:0.56, C:0.08, G:0.17, T:0.19
Consensus pattern (46 bp):
AAAAAAAAATTCAAGTTGAAAATCCAAAAGGGAGACTTGAATAAAA
Found at i:7569641 original size:114 final size:114
Alignment explanation
Indices: 7569406--7569621 Score: 276
Period size: 114 Copynumber: 1.9 Consensus size: 114
7569396 GAGATCATTA
*
7569406 CAGTCATTCGATCTCGATACAATCCAGATCACTTTCAGACTTGTAGCATTACCTCAGTCATTCAT
1 CAGTCATTCGATCTCGATACAATCCAAATCACTTTCAGACTTGTAGCATTACCTCAGTCATTCAT
* *
7569471 CTTTAACATCAACTCAATCATGATTACTTTAAGACTCGCAGTATTGTCC
66 CTGTAACATCAACTCAATCATGATCACTTTAAGACTCGCAGTATTGTCC
*** * * *
7569520 CAGTCATTCGATCTCGATATGGTCCAAATTACTTTCAGACTCATG-A-CATTATCTCGGTCATTC
1 CAGTCATTCGATCTCGATACAATCCAAATCACTTTCAGACT--TGTAGCATTACCTCAGTCATTC
* * *
7569583 ATCTGTAACCTCAACTCAGTCCT-AGTCACTTTAAGACTC
64 ATCTGTAACATCAACTCAATCATGA-TCACTTTAAGACTC
7569622 ATGATATTGT
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
113 1 0.01
114 83 0.95
115 1 0.01
116 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.33
Consensus pattern (114 bp):
CAGTCATTCGATCTCGATACAATCCAAATCACTTTCAGACTTGTAGCATTACCTCAGTCATTCAT
CTGTAACATCAACTCAATCATGATCACTTTAAGACTCGCAGTATTGTCC
Found at i:7570284 original size:25 final size:22
Alignment explanation
Indices: 7570243--7570315 Score: 71
Period size: 25 Copynumber: 3.2 Consensus size: 22
7570233 CTTTTTTATC
*
7570243 ATTATTAGTA-TA-ATATAGTA
1 ATTATTAATATTATATATAGTA
7570263 CATTATATAATATTATAGTATAGTA
1 -ATTAT-TAATATTATA-TATAGTA
7570288 TTATTATTAATATTAT-TATAGTA
1 --ATTATTAATATTATATATAGTA
7570311 ATTAT
1 ATTAT
7570316 GTTGTACATT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
21 10 0.22
22 4 0.09
23 9 0.20
24 1 0.02
25 16 0.36
26 5 0.11
ACGTcount: A:0.42, C:0.01, G:0.07, T:0.49
Consensus pattern (22 bp):
ATTATTAATATTATATATAGTA
Found at i:7570373 original size:3 final size:3
Alignment explanation
Indices: 7570365--7570415 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
7570355 ATATACCAAC
7570365 ATT ATT ATT 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
7570413 ATT
1 ATT
7570416 TCGTTTCATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:7571314 original size:14 final size:15
Alignment explanation
Indices: 7571266--7571319 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 15
7571256 AAGGTTTCTC
7571266 TTTT-TTTT-TTTCA
1 TTTTATTTTATTTCA
7571279 TTTTTATTCCTTGATTTCA
1 -TTTTATT--TT-ATTTCA
7571298 TTTTATTTTATTT-A
1 TTTTATTTTATTTCA
7571312 TTTTATTT
1 TTTTATTT
7571320 ACCTTATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 13 0.37
15 6 0.17
16 2 0.06
17 2 0.06
18 7 0.20
19 5 0.14
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (15 bp):
TTTTATTTTATTTCA
Found at i:7571552 original size:16 final size:16
Alignment explanation
Indices: 7571526--7571563 Score: 69
Period size: 15 Copynumber: 2.4 Consensus size: 16
7571516 ATCAATTTTC
7571526 AAAAAATAAAAAT-AA
1 AAAAAATAAAAATGAA
7571541 AAAAAATAAAAATGAA
1 AAAAAATAAAAATGAA
7571557 AAAAAAT
1 AAAAAAT
7571564 CTTTTTCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (16 bp):
AAAAAATAAAAATGAA
Found at i:7572509 original size:2 final size:2
Alignment explanation
Indices: 7572497--7572531 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
7572487 AATTTAGATC
* *
7572497 TA TA TA AA TA TA TA TG TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7572532 TCTATCATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7572516 original size:16 final size:16
Alignment explanation
Indices: 7572482--7572527 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
7572472 TATTTCTCAA
* *
7572482 ATATAAATTTAGATCT
1 ATATAAATATATATCT
*
7572498 ATATAAATATATATGT
1 ATATAAATATATATCT
*
7572514 ATATATATATATAT
1 ATATAAATATATAT
7572528 ATATTCTATC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (16 bp):
ATATAAATATATATCT
Found at i:7575477 original size:21 final size:23
Alignment explanation
Indices: 7575439--7575481 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
7575429 TTTTAAACTC
7575439 TTTTTTTTAATTTAAAAATTAATT
1 TTTTTTTTAA-TTAAAAATTAATT
7575463 TTTTTTTTAA-T-AAAATTAA
1 TTTTTTTTAATTAAAAATTAA
7575482 AAAAATCCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 1 0.05
24 10 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTTTTTAATTAAAAATTAATT
Found at i:7575713 original size:23 final size:24
Alignment explanation
Indices: 7575659--7575711 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
7575649 TGTAAAATTT
* *
7575659 AAAAACTTTATTGATAATATATAA
1 AAAAAATTTACTGATAATATATAA
*
7575683 AAAAAATTTACTGATAATGTATAA
1 AAAAAATTTACTGATAATATATAA
7575707 AAAAA
1 AAAAA
7575712 TTAATTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (24 bp):
AAAAAATTTACTGATAATATATAA
Found at i:7577101 original size:14 final size:15
Alignment explanation
Indices: 7577082--7577114 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
7577072 ATTTTTATTA
*
7577082 ATTTTTTAAAAT-TT
1 ATTTTTAAAAATGTT
7577096 ATTTTTAAAAATGTT
1 ATTTTTAAAAATGTT
7577111 ATTT
1 ATTT
7577115 GTTGCAGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (15 bp):
ATTTTTAAAAATGTT
Found at i:7578702 original size:88 final size:88
Alignment explanation
Indices: 7578551--7578727 Score: 293
Period size: 88 Copynumber: 2.0 Consensus size: 88
7578541 ATACACCCAC
* *
7578551 GTCGTTTGTGGCTTTCTACTTACATAATTGTGAAATTTTTTTCTCACTTGTAGCGTTGCCATTCT
1 GTCGTTTGTGGCTTTCTACTTACATAATTATGAAATTTTTTTCTCACTTGTAGCCTTGCCATTCT
*
7578616 CTTCCATTATCAAAAGAGGTAAT
66 CTTCCATTATCAAAAGAAGTAAT
* *
7578639 GTCGTTTGTGGCTTTCTACTTACGTAATTATGTAAA-TTTTTTCTCACTTGTAGCCTTGTCATTC
1 GTCGTTTGTGGCTTTCTACTTACATAATTATG-AAATTTTTTTCTCACTTGTAGCCTTGCCATTC
7578703 TCTTCCATTATCAAAAGAAGTAAT
65 TCTTCCATTATCAAAAGAAGTAAT
7578727 G
1 G
7578728 ATGTTAAAAA
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
88 80 0.96
89 3 0.04
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.44
Consensus pattern (88 bp):
GTCGTTTGTGGCTTTCTACTTACATAATTATGAAATTTTTTTCTCACTTGTAGCCTTGCCATTCT
CTTCCATTATCAAAAGAAGTAAT
Found at i:7587987 original size:2 final size:2
Alignment explanation
Indices: 7587980--7588011 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7587970 TACTGTTAAC
7587980 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
7588012 GAATATGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7588479 original size:2 final size:2
Alignment explanation
Indices: 7588472--7588519 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
7588462 TCAGTCATTT
7588472 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
7588514 TC TC TC
1 TC TC TC
7588520 AATTAGTATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:7589221 original size:27 final size:27
Alignment explanation
Indices: 7589191--7589244 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
7589181 TCTACAAAAA
*
7589191 CTCTTCTTTTTTCAATCACATTTCTTG
1 CTCTTCTTTTTTCAATCACATGTCTTG
7589218 CTCTTCTTTTTTCAATCACATGTCTTG
1 CTCTTCTTTTTTCAATCACATGTCTTG
7589245 AATAATCACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.15, C:0.26, G:0.06, T:0.54
Consensus pattern (27 bp):
CTCTTCTTTTTTCAATCACATGTCTTG
Found at i:7590723 original size:21 final size:21
Alignment explanation
Indices: 7590699--7590741 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
7590689 AGACATTCAT
**
7590699 AAAACCCAAAATCAAGAAAAA
1 AAAACCCAAAAAAAAGAAAAA
**
7590720 AAAATTCAAAAAAAAGAAAAA
1 AAAACCCAAAAAAAAGAAAAA
7590741 A
1 A
7590742 GGAAGACAGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.77, C:0.12, G:0.05, T:0.07
Consensus pattern (21 bp):
AAAACCCAAAAAAAAGAAAAA
Found at i:7591632 original size:121 final size:119
Alignment explanation
Indices: 7591409--7591651 Score: 434
Period size: 121 Copynumber: 2.0 Consensus size: 119
7591399 AAACCCCAAA
7591409 TTATACAATATTTTATTATAATTTGTAATGACAAATTTTAAAATAAAAAAAAATAATGTAAAAAA
1 TTATACAATATTTTATTATAATTTGTAATGACAAATTTTAAAAT-AAAAAAAATAATGTAAAAAA
7591474 AAAAGTATTCGATTATGACTATTTATACACAAGTCATGCCAATTGTTACATTAAT
65 AAAAGTATTCGATTATGACTATTTATACACAAGTCATGCCAATTGTTACATTAAT
7591529 TTATACAATATTTTTTATTATAATTTGTAATGACAAATTTTAAAAT-AAAAAAATAATGTAAAAA
1 TTATACAATA--TTTTATTATAATTTGTAATGACAAATTTTAAAATAAAAAAAATAATGT-AAAA
*
7591593 AAAAAAGTATTCGATTATGACTATTTATACACGAGTCATGCCAATTGTTACATTAAT
63 AAAAAAGTATTCGATTATGACTATTTATACACAAGTCATGCCAATTGTTACATTAAT
7591650 TT
1 TT
7591652 TGTTCTAAAT
Statistics
Matches: 119, Mismatches: 1, Indels: 5
0.95 0.01 0.04
Matches are distributed among these distances:
120 23 0.19
121 62 0.52
122 34 0.29
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (119 bp):
TTATACAATATTTTATTATAATTTGTAATGACAAATTTTAAAATAAAAAAAATAATGTAAAAAAA
AAAGTATTCGATTATGACTATTTATACACAAGTCATGCCAATTGTTACATTAAT
Found at i:7592402 original size:46 final size:46
Alignment explanation
Indices: 7592322--7592410 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
7592312 GTCGATAACC
*
7592322 TACCTCAACCTTTTAAATCAATTTGAATCAAACTTTAAGCTTAATT
1 TACCTCAACCTTTTAAATCAATTTAAATCAAACTTTAAGCTTAATT
* * * * *
7592368 TACCTCATCCTTTTAAGTCGATTTAAATCGAACTTTGAGCTTA
1 TACCTCAACCTTTTAAATCAATTTAAATCAAACTTTAAGCTTA
7592411 GTCGGAGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (46 bp):
TACCTCAACCTTTTAAATCAATTTAAATCAAACTTTAAGCTTAATT
Found at i:7592644 original size:21 final size:22
Alignment explanation
Indices: 7592603--7592650 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
7592593 TATATATAAT
**
7592603 TTATTTATTTTATTT-TTAAAA
1 TTATTTATTTTATTTAAAAAAA
7592624 TTATTTATTTT-TTATAAAAAAA
1 TTATTTATTTTATT-TAAAAAAA
7592646 TTATT
1 TTATT
7592651 CATTACATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 2 0.09
21 12 0.52
22 9 0.39
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTATTTATTTTATTTAAAAAAA
Found at i:7592760 original size:30 final size:30
Alignment explanation
Indices: 7592726--7592788 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
7592716 TAAATCATCA
* *
7592726 TATTCATGAATATATAT-ATATAAATAAATT
1 TATTCACGAACATATATAATA-AAATAAATT
*
7592756 TATTCACGAACATATATAATAAAATATATT
1 TATTCACGAACATATATAATAAAATAAATT
7592786 TAT
1 TAT
7592789 AAATAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 26 0.90
31 3 0.10
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.41
Consensus pattern (30 bp):
TATTCACGAACATATATAATAAAATAAATT
Found at i:7592815 original size:23 final size:23
Alignment explanation
Indices: 7592771--7592815 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
7592761 ACGAACATAT
* * * *
7592771 ATAATAAAATATATTTATAAATA
1 ATAAAAAAATATAATAAAAAATA
7592794 ATAAAAAAATATAATAAAAAAT
1 ATAAAAAAATATAATAAAAAAT
7592816 TAAACAAATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (23 bp):
ATAAAAAAATATAATAAAAAATA
Found at i:7592836 original size:20 final size:21
Alignment explanation
Indices: 7592787--7592837 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
7592777 AAATATATTT
7592787 ATAAATAA-TAAAAAAATATA
1 ATAAATAATTAAAAAAATATA
* *
7592807 ATAAAAAATTAAACAAATA-A
1 ATAAATAATTAAAAAAATATA
*
7592827 ATATATAATTA
1 ATAAATAATTA
7592838 TAAATTTAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
ATAAATAATTAAAAAAATATA
Found at i:7594338 original size:13 final size:13
Alignment explanation
Indices: 7594320--7594353 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
7594310 TAAAAACATT
7594320 ATTTAATATCTTA
1 ATTTAATATCTTA
*
7594333 ATTTAATATGTTA
1 ATTTAATATCTTA
7594346 ATTTAATA
1 ATTTAATA
7594354 AAAACATTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (13 bp):
ATTTAATATCTTA
Found at i:7603317 original size:12 final size:11
Alignment explanation
Indices: 7603297--7603331 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 11
7603287 AATATTATAG
7603297 TATAGTATTAT
1 TATAGTATTAT
7603308 TATGAGTATTAT
1 TAT-AGTATTAT
7603320 TATAGTAATTAT
1 TATAGT-ATTAT
7603332 GTTGTACATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (11 bp):
TATAGTATTAT
Found at i:7603384 original size:3 final size:3
Alignment explanation
Indices: 7603378--7603443 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
7603368 ATAATATACC
7603378 ATT ATT ATT 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
7603426 ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT
7603444 TCGTTTCATT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:7604311 original size:14 final size:14
Alignment explanation
Indices: 7604287--7604329 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
7604277 TTATTTCTTG
7604287 ATTTCATTTTATTTT
1 ATTT-ATTTTATTTT
7604302 ATTTATTTTATTATT
1 ATTTATTTTATT-TT
*
7604317 -TTAATTTTATTTT
1 ATTTATTTTATTTT
7604330 TAGTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 2 0.08
14 18 0.69
15 6 0.23
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (14 bp):
ATTTATTTTATTTT
Found at i:7604539 original size:14 final size:15
Alignment explanation
Indices: 7604504--7604538 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
7604494 ATCAATTTTC
*
7604504 AAAAAATAACAATAA
1 AAAAAATAAAAATAA
7604519 AAAAAATAAAAATGAA
1 AAAAAATAAAAAT-AA
7604535 AAAA
1 AAAA
7604539 TCTTTTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.83, C:0.03, G:0.03, T:0.11
Consensus pattern (15 bp):
AAAAAATAAAAATAA
Found at i:7605256 original size:24 final size:24
Alignment explanation
Indices: 7605229--7605278 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
7605219 TTTATTTTTA
* * *
7605229 CTTCTTTTTATTGCTTATACTTGC
1 CTTCATTTCATTGATTATACTTGC
7605253 CTTCATTTCATTGATTATACTTGC
1 CTTCATTTCATTGATTATACTTGC
7605277 CT
1 CT
7605279 AATTATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.16, C:0.22, G:0.08, T:0.54
Consensus pattern (24 bp):
CTTCATTTCATTGATTATACTTGC
Found at i:7614955 original size:49 final size:48
Alignment explanation
Indices: 7614885--7615010 Score: 134
Period size: 48 Copynumber: 2.6 Consensus size: 48
7614875 TTGCTTGAAT
*
7614885 AAAAAAA-AAGTTCAAGTTGAAAA-TCCAGAAGGGCAG-CTTGAATAAAGA
1 AAAAAAAGAAGTTAAAGTTGAAAACTCCA-AAGGG-AGACTTGAATAAA-A
* * *
7614933 AAAAAAAGAAGTTAAAATTGAAAACTCGAAAGGGTGACTTGAATAAAA
1 AAAAAAAGAAGTTAAAGTTGAAAACTCCAAAGGGAGACTTGAATAAAA
** *
7614981 AAAAAGTGAAGTTTAAGTTGAAAAC-CCAAA
1 AAAAAAAGAAGTTAAAGTTGAAAACTCCAAA
7615011 AAGGTGGCTT
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
47 4 0.06
48 30 0.45
49 29 0.44
50 3 0.05
ACGTcount: A:0.54, C:0.09, G:0.19, T:0.18
Consensus pattern (48 bp):
AAAAAAAGAAGTTAAAGTTGAAAACTCCAAAGGGAGACTTGAATAAAA
Found at i:7615003 original size:48 final size:49
Alignment explanation
Indices: 7614921--7615024 Score: 129
Period size: 48 Copynumber: 2.1 Consensus size: 49
7614911 AGAAGGGCAG
* * *
7614921 CTTGAATAAAGAAAAAAAAGAAGTTAAAATTGAAAACTCGAAAGGGTGA
1 CTTGAATAAAGAAAAAAAAGAAGTTAAAATTGAAAACCCAAAAAGGTGA
** * * *
7614970 CTTGAATAAA-AAAAAAGTGAAGTTTAAGTTGAAAACCCAAAAAGGTGG
1 CTTGAATAAAGAAAAAAAAGAAGTTAAAATTGAAAACCCAAAAAGGTGA
7615018 CTTGAAT
1 CTTGAAT
7615025 TGAATGAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
48 37 0.79
49 10 0.21
ACGTcount: A:0.51, C:0.08, G:0.20, T:0.21
Consensus pattern (49 bp):
CTTGAATAAAGAAAAAAAAGAAGTTAAAATTGAAAACCCAAAAAGGTGA
Found at i:7615720 original size:27 final size:27
Alignment explanation
Indices: 7615689--7615744 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
7615679 ATCTTTAAGA
* *
7615689 CTCATGGCATCGTCTCAGTCATCCAAT
1 CTCATGGCATCATCTCAATCATCCAAT
*
7615716 CTCATGGCATCATCTTAATCATCCAAT
1 CTCATGGCATCATCTCAATCATCCAAT
7615743 CT
1 CT
7615745 TGACACGATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.25, C:0.32, G:0.11, T:0.32
Consensus pattern (27 bp):
CTCATGGCATCATCTCAATCATCCAAT
Found at i:7616187 original size:114 final size:113
Alignment explanation
Indices: 7615753--7616193 Score: 404
Period size: 114 Copynumber: 3.9 Consensus size: 113
7615743 CTTGACACGA
* * * * ** * *
7615753 TCCAAATCACTTTCAGACTTGCGACATCATCCCAGTTATTCATCTTTGACCTTAACTCGATCCTA
1 TCCAAATCACTTTCAGACTTACGACATCGTCTCAGTCATTCATCTTCAACCTCAACTCAATCCTA
* * * * *
7615818 GTTACTTTAAGACTCATGGCATCGTCCCAATCATCCGATCTCGTCATGG
66 ATTACTTTAAGACTCACGACATCATCCCAATCATTCGATCTCGT-ATGG
* * * * * * * * * * * *
7615867 TCTAGATCACTTTCAGACTCACGATATTGTCTTAATCATTCATCTTCGACCTTAACTCGATCTTG
1 TCCAAATCACTTTCAGACTTACGACATCGTCTCAGTCATTCATCTTCAACCTCAACTCAATCCTA
* * * * *
7615932 ATCATTTTAAGGCT-ACCGAGATCATCCCAATCATTCGATCTCGGTATGA
66 ATTACTTTAAGACTCA-CGACATCATCCCAATCATTCGATCTC-GTATGG
* * * **
7615981 TCCAAATCAC-TTCAGACTTAC-AGCATCGCCTCAGTCATTCATCTTTAACATCGGCTCAATCCT
1 TCCAAATCACTTTCAGACTTACGA-CATCGTCTCAGTCATTCATCTTCAACCTCAACTCAATCCT
* * * *
7616044 GATTACTTTAAGACTCACAACATCGTCCCAATCATTCGATCTCAATATGG
65 AATTACTTTAAGACTCACGACATCATCCCAATCATTCGATCTC-GTATGG
* *
7616094 TCCAAATCACTTTCAGACTTACGACATTGTCTC-GATCATTCATCTTCAACCTCAACTTAATCCT
1 TCCAAATCACTTTCAGACTTACGACATCGTCTCAG-TCATTCATCTTCAACCTCAACTCAATCCT
* * *
7616158 AATTACTTTAAGACTCGCGACATTATCCCAGTCATT
65 AATTACTTTAAGACTCACGACATCATCCCAATCATT
7616194 TATCTTTGAC
Statistics
Matches: 258, Mismatches: 62, Indels: 14
0.77 0.19 0.04
Matches are distributed among these distances:
112 1 0.00
113 88 0.34
114 166 0.64
115 3 0.01
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (113 bp):
TCCAAATCACTTTCAGACTTACGACATCGTCTCAGTCATTCATCTTCAACCTCAACTCAATCCTA
ATTACTTTAAGACTCACGACATCATCCCAATCATTCGATCTCGTATGG
Found at i:7616837 original size:25 final size:22
Alignment explanation
Indices: 7616796--7616868 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 22
7616786 CTTTTTTATC
*
7616796 ATTATTAGTA-TA-ATATAGTA
1 ATTATTAATATTATATATAGTA
7616816 CATTATATAATATTATAGTATAGTA
1 -ATTAT-TAATATTATA-TATAGTA
*
7616841 TTATTATTAGTATTAT-TATAGTA
1 --ATTATTAATATTATATATAGTA
7616864 ATTAT
1 ATTAT
7616869 GTTGTACATT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
21 10 0.23
22 4 0.09
23 9 0.20
24 1 0.02
25 15 0.34
26 5 0.11
ACGTcount: A:0.41, C:0.01, G:0.08, T:0.49
Consensus pattern (22 bp):
ATTATTAATATTATATATAGTA
Found at i:7616853 original size:12 final size:11
Alignment explanation
Indices: 7616834--7616868 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 11
7616824 AATATTATAG
7616834 TATAGTATTAT
1 TATAGTATTAT
7616845 TATTAGTATTAT
1 TA-TAGTATTAT
7616857 TATAGTAATTAT
1 TATAGT-ATTAT
7616869 GTTGTACATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (11 bp):
TATAGTATTAT
Found at i:7616920 original size:3 final size:3
Alignment explanation
Indices: 7616914--7616961 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
7616904 CATAATAGAC
7616914 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
7616962 TATTATTATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:7616966 original size:3 final size:3
Alignment explanation
Indices: 7616960--7617016 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
7616950 CATCATCATC
7616960 ATT ATT ATT 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
7617008 ATT ATT ATT
1 ATT ATT ATT
7617017 TCATTTCATT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Done.