Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008893.1 Hibiscus syriacus cultivar Beakdansim tig00112159_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: 2797279
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 13
Found at i:1436614 original size:13 final size:13
Alignment explanation
Indices: 1436598--1436622 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1436588 AACAAATATT
1436598 AAAAACATTACAC
1 AAAAACATTACAC
1436611 AAAAACATTACA
1 AAAAACATTACA
1436623 ATTAGTGTGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.20, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAACATTACAC
Found at i:1440052 original size:20 final size:20
Alignment explanation
Indices: 1440013--1440079 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
1440003 ACTGATCCGT
* * *
1440013 GTCAACCTGAATCGATCTGA
1 GTCAACCCGAAACGACCTGA
*
1440033 GTCAACCCGAAATGACCTGA
1 GTCAACCCGAAACGACCTGA
1440053 GTCAACCCGAAACGACCTGA
1 GTCAACCCGAAACGACCTGA
1440073 GTCAACC
1 GTCAACC
1440080 TGAACCGGCT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.16
Consensus pattern (20 bp):
GTCAACCCGAAACGACCTGA
Found at i:1442065 original size:36 final size:35
Alignment explanation
Indices: 1442011--1442129 Score: 139
Period size: 36 Copynumber: 3.3 Consensus size: 35
1442001 GATTAAGTTT
* *
1442011 GTAATTTCTTATATAGGTTCAACACCGATCATCTA
1 GTAATTCCTTATATAGGTTCAACACCGATCAACTA
* *** *
1442046 GTAATTCCTTATTACAGGTTCAGTTCTGATCAAACTA
1 GTAATTCCTTA-TATAGGTTCAACACCGATC-AACTA
* *
1442083 GTAATTCCTTATATAGGTTCAACACCGATCACCTG
1 GTAATTCCTTATATAGGTTCAACACCGATCAACTA
1442118 GTAATTCCTTAT
1 GTAATTCCTTAT
1442130 GGACCTAAGG
Statistics
Matches: 68, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
35 25 0.37
36 28 0.41
37 15 0.22
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (35 bp):
GTAATTCCTTATATAGGTTCAACACCGATCAACTA
Found at i:1445660 original size:13 final size:14
Alignment explanation
Indices: 1445590--1445683 Score: 50
Period size: 14 Copynumber: 6.4 Consensus size: 14
1445580 TTTTTTACAC
1445590 TATATATTATTATT
1 TATATATTATTATT
*
1445604 ATATATACATATATTTTT
1 -TATAT--AT-TATTATT
*
1445622 TATTTATT-TATATT
1 TATATATTAT-TATT
* * *
1445636 CATTTGATTATTTTT
1 TATAT-ATTATTATT
1445651 TA-ATATTATTATT
1 TATATATTATTATT
*
1445664 TATATA-TATATATG
1 TATATATTAT-TATT
1445678 TATATA
1 TATATA
1445684 CTTTTTTTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 17
0.70 0.10 0.19
Matches are distributed among these distances:
13 14 0.23
14 21 0.34
15 14 0.23
16 1 0.02
17 6 0.10
18 6 0.10
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (14 bp):
TATATATTATTATT
Found at i:1446000 original size:4 final size:4
Alignment explanation
Indices: 1445987--1446020 Score: 59
Period size: 4 Copynumber: 8.2 Consensus size: 4
1445977 ATATATTTAA
1445987 TATT TCATT TATT TATT TATT TATT TATT TATT T
1 TATT T-ATT TATT TATT TATT TATT TATT TATT T
1446021 TTCCTTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:1447189 original size:5 final size:5
Alignment explanation
Indices: 1447175--1447207 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
1447165 TCTTTTCATC
*
1447175 TTTAT ATTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1447208 CATCACTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:1449119 original size:17 final size:18
Alignment explanation
Indices: 1449097--1449140 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
1449087 ATCCAATCAA
1449097 AAAC-AAAGAAAAAAGAG
1 AAACAAAAGAAAAAAGAG
*
1449114 AAACAAAAGAAAAAAGAA
1 AAACAAAAGAAAAAAGAG
1449132 AGAACAAAA
1 A-AACAAAA
1449141 TCAAAAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 4 0.17
18 13 0.54
19 7 0.29
ACGTcount: A:0.80, C:0.07, G:0.14, T:0.00
Consensus pattern (18 bp):
AAACAAAAGAAAAAAGAG
Found at i:1449137 original size:19 final size:18
Alignment explanation
Indices: 1449095--1449153 Score: 75
Period size: 19 Copynumber: 3.3 Consensus size: 18
1449085 AGATCCAATC
1449095 AAAAAC-AAAGAAAAAAG
1 AAAAACAAAAGAAAAAAG
*
1449112 AGAAACAAAAGAAAAAAG
1 AAAAACAAAAGAAAAAAG
**
1449130 AAAGAACAAAATCAAAAAG
1 AAA-AACAAAAGAAAAAAG
1449149 AAAAA
1 AAAAA
1449154 GGGACAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
17 5 0.14
18 15 0.42
19 16 0.44
ACGTcount: A:0.80, C:0.07, G:0.12, T:0.02
Consensus pattern (18 bp):
AAAAACAAAAGAAAAAAG
Found at i:1449829 original size:22 final size:22
Alignment explanation
Indices: 1449755--1449831 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
1449745 GCTACCCCAT
*
1449755 CAAACCGTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
1449777 CAAACCTATGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
1449799 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
1449821 TAAACCTTTGA
1 CAAACCTTTGA
1449832 CTAAACATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:1450691 original size:36 final size:36
Alignment explanation
Indices: 1450582--1450713 Score: 149
Period size: 37 Copynumber: 3.6 Consensus size: 36
1450572 TTTCCAATAT
* * *
1450582 AAATTTTGTCTCGCTTGAGACAATC-TCATTTAAAAC
1 AAATTTTGTCTCCCTTGAGACAGTCTTC-TTTGAAAC
* * * *
1450618 AAGATTTTATCTCGCTTGAGATAGTTTTTCTTTGAAAC
1 AA-ATTTTGTCTCCCTTGAGACAG-TCTTCTTTGAAAC
* *
1450656 AAATTTCGTCTCCCTTGAGACAGTCTTCCTTGAAAC
1 AAATTTTGTCTCCCTTGAGACAGTCTTCTTTGAAAC
1450692 AAATTTTGTCTCCCTTGAGACA
1 AAATTTTGTCTCCCTTGAGACA
1450714 ATTTTTCTTC
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
36 34 0.42
37 35 0.43
38 10 0.12
39 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (36 bp):
AAATTTTGTCTCCCTTGAGACAGTCTTCTTTGAAAC
Found at i:1450718 original size:20 final size:21
Alignment explanation
Indices: 1450678--1450719 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1450668 CCTTGAGACA
*
1450678 GTCTTCCTTGAAACAAATTTT
1 GTCTCCCTTGAAACAAATTTT
* *
1450699 GTCTCCCTTGAGACAATTTTT
1 GTCTCCCTTGAAACAAATTTT
1450720 CTTCAGACAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (21 bp):
GTCTCCCTTGAAACAAATTTT
Found at i:1451783 original size:106 final size:106
Alignment explanation
Indices: 1450723--1451782 Score: 1647
Period size: 106 Copynumber: 10.0 Consensus size: 106
1450713 AATTTTTCTT
* * * *
1450723 CAGACAACACAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAATTTCCCAATT
1 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATT
1450788 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
66 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
* * * * * * ** *
1450829 AAGACAGCACAAGCTCAACTTCAC-AGCGAAGGGGCGGCTGACTGTCAACAAACAACTTCTCAAT
1 CAGACAACGCAAGTTCAACTTCACGA-CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAAT
*
1450893 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTC
65 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
*
1450935 AAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATT
1 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATT
* *
1451000 TCAGAGCCAATTTCAACTTCACAGTGAAAGATATTGGACTC
66 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
*
1451041 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATT
1 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATT
*
1451106 TCTGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
66 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
* *
1451147 CAAACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATT
1 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATT
* *
1451212 TCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTC
66 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
* *
1451253 CAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATT
1 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATT
* * *
1451318 TCGGAGCCAATTTTAACTTCACAGCGAATGATATTGGACTC
66 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
* *
1451359 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATT
1 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATT
* *
1451424 TCAGAGCCAATTTCAACTTCACAACGAATGATATTGGACTC
66 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
*
1451465 CAGACAACGCAAGTTCAACTTTACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATT
1 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATT
1451530 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
66 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
* * * * ** *
1451571 GAGACGATGCAAGTTCAACTTTAAAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATT
1 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATT
*
1451636 TCTGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
66 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
* * * * * *
1451677 GAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGATT
1 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATT
* *
1451742 CCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGGACTC
66 TCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGGACTC
1451783 GGAACAATCC
Statistics
Matches: 880, Mismatches: 71, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
105 2 0.00
106 877 1.00
107 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (106 bp):
CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATT
TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
Found at i:1453122 original size:65 final size:64
Alignment explanation
Indices: 1453048--1453214 Score: 155
Period size: 65 Copynumber: 2.6 Consensus size: 64
1453038 ATTGTCATTA
* *
1453048 TATAAATATATATACGTATATTTTTTTAAATGATTTTCAATTGATT-TTTTTTACACTATATATT
1 TATATATATATATACATATATTTTTTTAAAT-ATTTTCAATTGATTATTTTTTA-A-TAT-TATT
1453112 A-T
62 ATT
** * *
1453114 TAT-TATATAT-T-CATATATTTTTTATTTATTTATATTCATTTGATTATTTTTTAATATTATTA
1 TATATATATATATACATATA--TTTT-TTTAAATATTTTCAATTGATTATTTTTTAATATTATTA
1453176 TT
63 TT
* *
1453178 TATATATATATATATATATATATATTTTAAATATTTT
1 TATATATATATATACATATAT-TTTTTTAAATATTTT
1453215 ACTTATAAGC
Statistics
Matches: 81, Mismatches: 11, Indels: 19
0.73 0.10 0.17
Matches are distributed among these distances:
63 10 0.12
64 8 0.10
65 40 0.49
66 18 0.22
67 5 0.06
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (64 bp):
TATATATATATATACATATATTTTTTTAAATATTTTCAATTGATTATTTTTTAATATTATTATT
Found at i:1453131 original size:8 final size:7
Alignment explanation
Indices: 1453104--1453203 Score: 58
Period size: 6 Copynumber: 15.1 Consensus size: 7
1453094 TTTTTTACAC
1453104 TATATAT
1 TATATAT
1453111 TAT-TAT
1 TATATAT
1453117 TATATAT
1 TATATAT
1453124 TCATATAT
1 T-ATATAT
1453132 T-T-T-T
1 TATATAT
*
1453136 TATTTAT
1 TATATAT
1453143 T-TATAT
1 TATATAT
*
1453149 TCATTTGAT
1 T-ATAT-AT
* *
1453158 TATTTTT
1 TATATAT
1453165 TA-ATAT
1 TATATAT
1453171 TAT-TAT
1 TATATAT
1453177 T-TATA-
1 TATATAT
1453182 TATATA-
1 TATATAT
1453188 TATATAT
1 TATATAT
1453195 ATATATAT
1 -TATATAT
1453203 T
1 T
1453204 TTAAATATTT
Statistics
Matches: 75, Mismatches: 5, Indels: 26
0.71 0.05 0.25
Matches are distributed among these distances:
4 2 0.03
5 4 0.05
6 33 0.44
7 13 0.17
8 20 0.27
9 3 0.04
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (7 bp):
TATATAT
Found at i:1453138 original size:19 final size:21
Alignment explanation
Indices: 1453105--1453148 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
1453095 TTTTTACACT
1453105 ATATATTATTATTATATATTC
1 ATATATTATTATTATATATTC
* *
1453126 ATATATT-TT-TTATTTATTT
1 ATATATTATTATTATATATTC
1453145 ATAT
1 ATAT
1453149 TCATTTGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 12 0.57
20 2 0.10
21 7 0.33
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
ATATATTATTATTATATATTC
Found at i:1453139 original size:25 final size:25
Alignment explanation
Indices: 1453110--1453184 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 25
1453100 ACACTATATA
1453110 TTATTATTATATATTCATATATTTT
1 TTATTATTATATATTCATATATTTT
1453135 TTATTTATT-TATATTCATTTGATTATTTT
1 TTA-TTATTATATATTCA--T-A-TATTTT
* *
1453164 TTAATATTAT-TATTTATATAT
1 TTATTATTATATATTCATATAT
1453185 ATATATATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
24 3 0.07
25 12 0.29
26 6 0.14
27 1 0.02
28 10 0.24
29 10 0.24
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (25 bp):
TTATTATTATATATTCATATATTTT
Found at i:1453183 original size:2 final size:2
Alignment explanation
Indices: 1453178--1453202 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1453168 TATTATTATT
1453178 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1453203 TTTAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1453479 original size:2 final size:2
Alignment explanation
Indices: 1453472--1453504 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1453462 TTTACTCATT
1453472 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1453505 TTCATTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1471587 original size:3 final size:3
Alignment explanation
Indices: 1471579--1471659 Score: 92
Period size: 3 Copynumber: 27.0 Consensus size: 3
1471569 TTTGCCCATT
* * * *
1471579 TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA TTG TTA TAA TAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
1471627 TTA -TA TTA TTA TTA TTAA TAA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
1471660 CATATTACAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
2 2 0.03
3 62 0.94
4 2 0.03
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:1472966 original size:13 final size:13
Alignment explanation
Indices: 1472950--1472995 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
1472940 TTTTACAAAT
1472950 TTTATTTTATATG
1 TTTATTTTATATG
**
1472963 TTTA-AATATAT-
1 TTTATTTTATATG
1472974 TTTAATTTTATATG
1 TTT-ATTTTATATG
1472988 TTTATTTT
1 TTTATTTT
1472996 TAATATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
11 3 0.12
12 6 0.23
13 14 0.54
14 3 0.12
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (13 bp):
TTTATTTTATATG
Found at i:1472981 original size:30 final size:28
Alignment explanation
Indices: 1472947--1473015 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 28
1472937 TTTTTTTACA
1472947 AATTTTATT-TTATATGTTTAAATATATTTT
1 AATTTTATTGTT-TAT-TTTAAATATA-TTT
*
1472977 AATTTTATATGTTTATTTTTAATATATTT
1 AATTTTAT-TGTTTATTTTAAATATATTT
1473006 AATTATTATT
1 AATT-TTATT
1473016 ATTAGTATTG
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
29 8 0.23
30 21 0.60
31 4 0.11
32 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (28 bp):
AATTTTATTGTTTATTTTAAATATATTT
Found at i:1473001 original size:15 final size:13
Alignment explanation
Indices: 1472948--1473014 Score: 50
Period size: 15 Copynumber: 5.0 Consensus size: 13
1472938 TTTTTTACAA
1472948 ATTTT-ATTTTAT
1 ATTTTAATTTTAT
*
1472960 ATGTTTAA--ATAT
1 AT-TTTAATTTTAT
1472972 ATTTTAATTTTAT
1 ATTTTAATTTTAT
*
1472985 ATGTTTATTTTTAAT
1 AT-TTTAATTTT-AT
1473000 ATATTTAATTATTAT
1 AT-TTTAATT-TTAT
1473015 TATTAGTATT
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
11 5 0.12
12 7 0.16
13 8 0.19
14 9 0.21
15 12 0.28
16 2 0.05
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (13 bp):
ATTTTAATTTTAT
Found at i:1473236 original size:143 final size:142
Alignment explanation
Indices: 1473082--1473401 Score: 312
Period size: 145 Copynumber: 2.2 Consensus size: 142
1473072 ATATTTTTAG
* * * *
1473082 ATAAAAATCCTATTTATAAATTTGATTTTATATAAAT-TATTTTT-AGGAAAAATA-ATCATAT-
1 ATAAATATCCTATTTATAAA-AT-A-TATATATAAATCTATTTTTAAGGAAAAATATAT-AAATG
* * *
1473143 TTTCATATT-TATTTATTTTTTAATATTAAGAAAATG-ACTATCTTAAGGCACATAGAAGTCT-T
62 TTT--TATTATATTTATTTTTGAATATTAAGAAAA-GAACTATCTTAAAGCACATAAAAGT-TAT
1473205 TTTCTGATATTTTTAAATAA
123 TTTCTGATATTTTTAAATAA
* ** ****
1473225 ATAAATATCCTACTTTTATAAAATATATATATTAATCTATTTTTAATTATTTTTATATAAATGTT
1 ATAAATATCCTA--TTTATAAAATATATATATAAATCTATTTTTAAGGAAAAATATATAAATGTT
* *
1473290 TTATTAATATTTATTTTTGAATATTAAGAAAAGAACTGTCTTAAAGCACCTAAAAGTTATTTTCT
64 TTATT-ATATTTATTTTTGAATATTAAGAAAAGAACTATCTTAAAGCACATAAAAGTTATTTTCT
1473355 GATATTTTTAAATAA
128 GATATTTTTAAATAA
* * *
1473370 AAAAATATCTTATTTATATACATATATATATA
1 ATAAATATCCTATTTATA-AAATATATATATA
1473402 TATATAAATT
Statistics
Matches: 146, Mismatches: 20, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
142 9 0.06
143 29 0.20
144 21 0.14
145 87 0.60
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.47
Consensus pattern (142 bp):
ATAAATATCCTATTTATAAAATATATATATAAATCTATTTTTAAGGAAAAATATATAAATGTTTT
ATTATATTTATTTTTGAATATTAAGAAAAGAACTATCTTAAAGCACATAAAAGTTATTTTCTGAT
ATTTTTAAATAA
Found at i:1475583 original size:2 final size:2
Alignment explanation
Indices: 1475576--1475624 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
1475566 TATGTATTTA
1475576 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
1475618 AT A- AT AT
1 AT AT AT AT
1475625 TTTCAATTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1479820 original size:12 final size:12
Alignment explanation
Indices: 1479803--1479831 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
1479793 AATACAAATA
1479803 ACGTTAGACATG
1 ACGTTAGACATG
1479815 ACGTTAGACATG
1 ACGTTAGACATG
1479827 ACGTT
1 ACGTT
1479832 GGAGAATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (12 bp):
ACGTTAGACATG
Found at i:1481844 original size:20 final size:20
Alignment explanation
Indices: 1481819--1481856 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1481809 TTTTGGTGGA
*
1481819 GAGGGAATCGATACCCCCAT
1 GAGGGAACCGATACCCCCAT
*
1481839 GAGGGAACCGATTCCCCC
1 GAGGGAACCGATACCCCC
1481857 TTTTAAGGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.34, G:0.26, T:0.13
Consensus pattern (20 bp):
GAGGGAACCGATACCCCCAT
Found at i:1481886 original size:19 final size:19
Alignment explanation
Indices: 1481841--1481903 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
1481831 ACCCCCATGA
1481841 GGGAACCGATTCCCCCTTTTAAG
1 GGGAACCGATTCCCCC---T-AG
1481864 GGGAACCGATTCCCCCTAG
1 GGGAACCGATTCCCCCTAG
* *
1481883 GGGAATCGATACCCCCT-G
1 GGGAACCGATTCCCCCTAG
1481901 GGG
1 GGG
1481904 TTCTAGATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
18 4 0.11
19 17 0.45
20 1 0.03
23 16 0.42
ACGTcount: A:0.21, C:0.32, G:0.29, T:0.19
Consensus pattern (19 bp):
GGGAACCGATTCCCCCTAG
Found at i:1482944 original size:37 final size:37
Alignment explanation
Indices: 1482887--1482964 Score: 120
Period size: 37 Copynumber: 2.1 Consensus size: 37
1482877 ATGCCGTTTG
*
1482887 TGTTAAAAACTGAACCGAAACCGAAACCATAAGAATT
1 TGTTAAAAACCGAACCGAAACCGAAACCATAAGAATT
* **
1482924 TGTTAAAAACCGAACTGAAACCGAAACCATGGGAATT
1 TGTTAAAAACCGAACCGAAACCGAAACCATAAGAATT
1482961 TGTT
1 TGTT
1482965 TATGAATATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.44, C:0.18, G:0.17, T:0.22
Consensus pattern (37 bp):
TGTTAAAAACCGAACCGAAACCGAAACCATAAGAATT
Found at i:1483430 original size:22 final size:23
Alignment explanation
Indices: 1483405--1483448 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
1483395 AATTAAGTTT
1483405 TAATCTTA-AAACAATTTCAAAA
1 TAATCTTACAAACAATTTCAAAA
* **
1483427 TAATTTTACAAAGTATTTCAAA
1 TAATCTTACAAACAATTTCAAA
1483449 CCATTTCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.36
Consensus pattern (23 bp):
TAATCTTACAAACAATTTCAAAA
Found at i:1484885 original size:15 final size:16
Alignment explanation
Indices: 1484865--1484894 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1484855 TAGATATAAT
1484865 GGTAAA-TATATATTA
1 GGTAAATTATATATTA
1484880 GGTAAATTATATATT
1 GGTAAATTATATATT
1484895 TAATAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (16 bp):
GGTAAATTATATATTA
Found at i:1486187 original size:72 final size:72
Alignment explanation
Indices: 1486080--1486220 Score: 246
Period size: 72 Copynumber: 2.0 Consensus size: 72
1486070 CCCTTTTTCT
* * * *
1486080 TCTTCTTTAACAGCACAAGTGGGATTGTTGTGGAAGCCAACAGTGGCAGTTAACAAGCTGTCTTC
1 TCTTCTTCAACAGCACAAGTGAGACTGTTGTGGAAGCCAACAATGGCAGTTAACAAGCTGTCTTC
1486145 TTCTTCC
66 TTCTTCC
1486152 TCTTCTTCAACAGCACAAGTGAGACTGTTGTGGAAGCCAACAATGGCAGTTAACAAGCTGTCTTC
1 TCTTCTTCAACAGCACAAGTGAGACTGTTGTGGAAGCCAACAATGGCAGTTAACAAGCTGTCTTC
1486217 TTCT
66 TTCT
1486221 AATACTTCTT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (72 bp):
TCTTCTTCAACAGCACAAGTGAGACTGTTGTGGAAGCCAACAATGGCAGTTAACAAGCTGTCTTC
TTCTTCC
Found at i:1488866 original size:23 final size:24
Alignment explanation
Indices: 1488814--1488867 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
1488804 TAATTATTTT
1488814 TATATTTTACAAAATTAATATTAA
1 TATATTTTACAAAATTAATATTAA
* *
1488838 TTTATTTTA-AAAATTAA-ATTTA
1 TATATTTTACAAAATTAATATTAA
1488860 TGATATTT
1 T-ATATTT
1488868 ATCATAATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 5 0.19
23 13 0.50
24 8 0.31
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
TATATTTTACAAAATTAATATTAA
Found at i:1489050 original size:26 final size:25
Alignment explanation
Indices: 1488982--1489062 Score: 80
Period size: 26 Copynumber: 3.4 Consensus size: 25
1488972 CTATTATAAT
* *
1488982 AAATATCATAAAT-TTAATTTT-TA
1 AAATATAATAAATATTTATTTTATA
* *
1489005 AAATA-AATTAATATTAATTTTATA
1 AAATATAATAAATATTTATTTTATA
*
1489029 AAATATATATAAATATTTATTTAAT-
1 AAATATA-ATAAATATTTATTTTATA
1489054 AAATATAAT
1 AAATATAAT
1489063 TTTAAAATAG
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
22 5 0.10
23 13 0.27
24 9 0.18
25 8 0.16
26 14 0.29
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (25 bp):
AAATATAATAAATATTTATTTTATA
Found at i:1498524 original size:14 final size:14
Alignment explanation
Indices: 1498505--1498543 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
1498495 AGTCAACGGA
*
1498505 TTGACTCAGATGAG
1 TTGACTCAGACGAG
*
1498519 TTGACTCGGACGAG
1 TTGACTCAGACGAG
1498533 TTGACTCAGAC
1 TTGACTCAGAC
1498544 CCGGTTCAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (14 bp):
TTGACTCAGACGAG
Found at i:1503392 original size:42 final size:42
Alignment explanation
Indices: 1503331--1503462 Score: 146
Period size: 42 Copynumber: 3.2 Consensus size: 42
1503321 TTCCAAATTT
* *
1503331 GCAACTCGAATTTGAAATTCGCAACTCGAACATGGAAATTTTC
1 GCAACGCG-ATTTCAAATTCGCAACTCGAACATGGAAATTTTC
* **
1503374 GCAACGCGATTTCAAATTCGCAACACGAAC-T-CCAA-TTTC
1 GCAACGCGATTTCAAATTCGCAACTCGAACATGGAAATTTTC
* *
1503413 GCAACAC-AGTTTCCAAATTCGCAACTTGAACATGGAAATTTTC
1 GCAACGCGA-TTT-CAAATTCGCAACTCGAACATGGAAATTTTC
1503456 GCAACGC
1 GCAACGC
1503463 TAATTATCGA
Statistics
Matches: 73, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
38 1 0.01
39 13 0.18
40 18 0.25
41 2 0.03
42 22 0.30
43 17 0.23
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (42 bp):
GCAACGCGATTTCAAATTCGCAACTCGAACATGGAAATTTTC
Found at i:1503395 original size:19 final size:19
Alignment explanation
Indices: 1503371--1503437 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 19
1503361 CATGGAAATT
*
1503371 TTCGCAACGCGATTTCAAA
1 TTCGCAACACGATTTCAAA
* * *
1503390 TTCGCAACACGAACTCCAAT
1 TTCGCAACACG-ATTTCAAA
1503410 TTCGCAACAC-AGTTTCCAAA
1 TTCGCAACACGA-TTT-CAAA
1503430 TTCGCAAC
1 TTCGCAAC
1503438 TTGAACATGG
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
18 1 0.03
19 11 0.29
20 26 0.68
ACGTcount: A:0.33, C:0.31, G:0.12, T:0.24
Consensus pattern (19 bp):
TTCGCAACACGATTTCAAA
Found at i:1504301 original size:12 final size:12
Alignment explanation
Indices: 1504284--1504315 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
1504274 TAATATTTCG
1504284 AAAATATAATGT
1 AAAATATAATGT
1504296 AAAATATAATGT
1 AAAATATAATGT
*
1504308 CAAATATA
1 AAAATATA
1504316 GTACAAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.31
Consensus pattern (12 bp):
AAAATATAATGT
Found at i:1505108 original size:27 final size:27
Alignment explanation
Indices: 1505074--1505139 Score: 123
Period size: 27 Copynumber: 2.4 Consensus size: 27
1505064 GATAATGACT
1505074 CTGAATCATTCAGAATGTACTTCTGTG
1 CTGAATCATTCAGAATGTACTTCTGTG
*
1505101 CTGAATCATTCATAATGTACTTCTGTG
1 CTGAATCATTCAGAATGTACTTCTGTG
1505128 CTGAATCATTCA
1 CTGAATCATTCA
1505140 ACACTGTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (27 bp):
CTGAATCATTCAGAATGTACTTCTGTG
Found at i:1508125 original size:39 final size:38
Alignment explanation
Indices: 1507976--1508150 Score: 132
Period size: 36 Copynumber: 4.7 Consensus size: 38
1507966 TAATGTATGG
* * * **
1507976 TTTTTAAAACACTTTTAAAAAACTATAT-ATTATATATA
1 TTTTTAAAACATTTTTGAAAAATTATATAAACATATA-A
* * *
1508014 TTTTCAAAACATTTTT-AAAAA-TATAT-AATATGTAA
1 TTTTTAAAACATTTTTGAAAAATTATATAAACATATAA
*
1508049 TTTTTGAAAAAATATTTTG--AAA--ATATAAACATATAA
1 TTTTT-AAAACAT-TTTTGAAAAATTATATAAACATATAA
* * * *
1508085 TTTTTAGAGCATTTTTGAAAACTTATATATAATATATAA
1 TTTTTAAAACATTTTTGAAAAATTATATA-AACATATAA
*
1508124 TTTTTAAAACATTTTTTAAAAATTATA
1 TTTTTAAAACATTTTTGAAAAATTATA
1508151 ATTTTTAAAG
Statistics
Matches: 111, Mismatches: 17, Indels: 17
0.77 0.12 0.12
Matches are distributed among these distances:
34 5 0.05
35 13 0.12
36 34 0.31
37 9 0.08
38 19 0.17
39 31 0.28
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (38 bp):
TTTTTAAAACATTTTTGAAAAATTATATAAACATATAA
Found at i:1508167 original size:30 final size:28
Alignment explanation
Indices: 1508119--1508209 Score: 105
Period size: 30 Copynumber: 3.1 Consensus size: 28
1508109 ATATATAATA
1508119 TATAATTTTT-AAAACATTTTTTAAAAAT
1 TATAATTTTTAAAAACA-TTTTTAAAAAT
1508147 TATAATTTTTAAAGAACATTTTT-AAAAT
1 TATAATTTTTAAA-AACATTTTTAAAAAT
* *
1508175 TATTAGTTTTTTGAAAAACATTTTTAAAACT
1 TA-TA-ATTTTT-AAAAACATTTTTAAAAAT
1508206 TATA
1 TATA
1508210 TATAGTATAT
Statistics
Matches: 55, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
28 17 0.31
29 9 0.16
30 20 0.36
31 9 0.16
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.48
Consensus pattern (28 bp):
TATAATTTTTAAAAACATTTTTAAAAAT
Found at i:1508808 original size:27 final size:26
Alignment explanation
Indices: 1508748--1508809 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
1508738 GTAAACCAAG
* *
1508748 AACGAACCAAGGGAGACCACATCAAC
1 AACGAACCAAAGGACACCACATCAAC
** *
1508774 AATAAACCAAAGGACATCACCATCAAC
1 AACGAACCAAAGGACACCA-CATCAAC
1508801 AACGAACCA
1 AACGAACCA
1508810 CAAGTCAAGA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
26 14 0.50
27 14 0.50
ACGTcount: A:0.50, C:0.31, G:0.13, T:0.06
Consensus pattern (26 bp):
AACGAACCAAAGGACACCACATCAAC
Found at i:1509840 original size:5 final size:5
Alignment explanation
Indices: 1509803--1509856 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
1509793 CGTTACTTTG
**
1509803 ATTTT -TTTT ATTTGT -TATTT ATTTT ATGCT ATTTT ATTTT ATTTT -TTTT
1 ATTTT ATTTT ATTT-T AT-TTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
1509852 ATTTT
1 ATTTT
1509857 TTATTTAGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
4 8 0.20
5 28 0.70
6 4 0.10
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:1509845 original size:10 final size:9
Alignment explanation
Indices: 1509803--1509858 Score: 58
Period size: 10 Copynumber: 5.8 Consensus size: 9
1509793 CGTTACTTTG
1509803 ATTTTTTTT
1 ATTTTTTTT
1509812 ATTTGTTATTT
1 ATTT-TT-TTT
**
1509823 ATTTTATGCT
1 ATTTT-TTTT
1509833 ATTTTATTTT
1 ATTTT-TTTT
1509843 ATTTTTTTT
1 ATTTTTTTT
1509852 ATTTTTT
1 ATTTTTT
1509859 ATTTAGTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 15 0.38
10 17 0.43
11 8 0.20
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.79
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:1511602 original size:20 final size:20
Alignment explanation
Indices: 1511574--1511614 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
1511564 TATTTAGACA
*
1511574 TTTTGCATTTTTTTTATTTTC
1 TTTTGCA-TTTTATTATTTTC
1511595 TTTT-CATTTTATTATTTTC
1 TTTTGCATTTTATTATTTTC
1511614 T
1 T
1511615 CTGCATTCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 2 0.11
21 4 0.21
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTGCATTTTATTATTTTC
Found at i:1511621 original size:19 final size:19
Alignment explanation
Indices: 1511577--1511621 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
1511567 TTAGACATTT
* *
1511577 TGCATTTTTTTTATTTTCTT
1 TGCA-TTTTATTATTTTCTC
*
1511597 TTCATTTTATTATTTTCTC
1 TGCATTTTATTATTTTCTC
1511616 TGCATT
1 TGCATT
1511622 CACATTAACT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.13, C:0.13, G:0.04, T:0.69
Consensus pattern (19 bp):
TGCATTTTATTATTTTCTC
Found at i:1514770 original size:23 final size:23
Alignment explanation
Indices: 1514726--1514770 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1514716 TACAGATCTC
**
1514726 AGAACCAATTTCAGATGGATTCG
1 AGAACCAATTTCAGATAAATTCG
1514749 AGAACCAA-TTCAGATCAAATTC
1 AGAACCAATTTCAGAT-AAATTC
1514771 AGTTCAGCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (23 bp):
AGAACCAATTTCAGATAAATTCG
Found at i:1515192 original size:84 final size:83
Alignment explanation
Indices: 1514997--1515551 Score: 552
Period size: 84 Copynumber: 6.7 Consensus size: 83
1514987 TAAACAAACT
* *
1514997 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCGACCAAAGACCCCCGAGTTCGATTACA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCT--TGACCAAAGACCCCCGAGTTCGACTACA
* *
1515062 CTCAGCTTCGAGGGCACATC
64 CTCAGCTTCAACGGCACATC
* * * * * *** * *
1515082 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTATGACCAAAAGACCTTTGAGTTTGACTACG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCT-TGACC-AAAGACCCCCGAGTTCGACTACA
1515147 CTCAGC-TCAACGGCACATC
64 CTCAGCTTCAACGGCACATC
* *
1515166 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC-TG-CCAAAGACCCCCGAGTTCGATTACACT
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTTGACCAAAGACCCCCGAGTTCGACTACACT
* *
1515229 CAGCTTCGAGGGCACATC
66 CAGCTTCAACGGCACATC
* * * * * *** *
1515247 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAGGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCT-TGACCAAA-GACCCCCGAGTTCGACTACA
1515312 CTCAGC-TCAACGGCACATC
64 CTCAGCTTCAACGGCACATC
* *
1515331 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC-TG-CCAAAGACCCCCGAGTTCGATTACACT
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTTGACCAAAGACCCCCGAGTTCGACTACACT
* * *
1515394 CAGCTTCGAGGGCATATC
66 CAGCTTCAACGGCACATC
* * * * * * ***
1515412 ATTTGTAGCACAGCTTAAGTCTAGAAGGGTTGTCTGCTAACAAAAGACCTTTGAGTTCGACTACA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCT--TGACCAAAGACCCCCGAGTTCGACTACA
* *
1515477 TTCAGC-TCAACGGCACAAC
64 CTCAGCTTCAACGGCACATC
* * **
1515496 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC-TG-CTAAAGACCTTCGAGTTCGA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTTGACCAAAGACCCCCGAGTTCGA
1515552 TTATATTCAA
Statistics
Matches: 379, Mismatches: 80, Indels: 27
0.78 0.16 0.06
Matches are distributed among these distances:
80 62 0.16
81 86 0.23
82 4 0.01
83 2 0.01
84 126 0.33
85 99 0.26
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (83 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTTGACCAAAGACCCCCGAGTTCGACTACACT
CAGCTTCAACGGCACATC
Found at i:1515273 original size:165 final size:165
Alignment explanation
Indices: 1514997--1515612 Score: 885
Period size: 165 Copynumber: 3.7 Consensus size: 165
1514987 TAAACAAACT
*
1514997 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCGACCAAAGACCCCCGAGTTCGATTACA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCT---G-CCAAAGACCCCCGAGTTCGATTACA
1515062 CTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTATGACCAAAA
62 CTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTATGACCAAAA
*
1515127 GACCTTTGAGTTTGACTACGCTCAGCTCAACGGCACATC
127 GACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATC
1515166 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* *
1515231 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAGGACC
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTATGACCAAAAGACC
1515296 TTTGAGTTCGACTACGCTCAGCTCAACGGCACATC
131 TTTGAGTTCGACTACGCTCAGCTCAACGGCACATC
1515331 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* ** * * * * * * *
1515396 GCTTCGAGGGCATATCATTTGTAGCACAGCTTAAGTCTAGAAGGGTTGTCTGCT-AACAAAAGAC
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCT-ATGACCAAAAGAC
** *
1515460 CTTTGAGTTCGACTACATTCAGCTCAACGGCACAAC
130 CTTTGAGTTCGACTACGCTCAGCTCAACGGCACATC
* ** * *
1515496 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAAAGACCTTCGAGTTCGATTATATTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * * * * * *
1515561 ACTTAGA-GACAAATCAAGCTTACAGAATAGCTCAAGGCAAGAAGGGTTATCT
66 GCTTCGAGGGCACATC-A-TTTACAGCATAACTCAAGGCTAGAAGGGTTATCT
1515613 GTCAATAAAA
Statistics
Matches: 408, Mismatches: 36, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
164 6 0.01
165 341 0.84
166 27 0.07
169 34 0.08
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (165 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTATGACCAAAAGACC
TTTGAGTTCGACTACGCTCAGCTCAACGGCACATC
Found at i:1516388 original size:32 final size:31
Alignment explanation
Indices: 1516327--1516427 Score: 125
Period size: 32 Copynumber: 3.2 Consensus size: 31
1516317 TTATATATAA
*
1516327 TATATAATTTTTTAAAACATTTTTTAAAAAT
1 TATATAATTTTTAAAAACATTTTTTAAAAAT
1516358 TATATAATTTTTAAAAGAACA-TTTTTAAAAAT
1 TATATAATTTTT-AAA-AACATTTTTTAAAAAT
* *
1516390 TAT-TAGTTTTTTGAAAAACATTTTTTAAAACT
1 TATATA-ATTTTT-AAAAACATTTTTTAAAAAT
1516422 TATATA
1 TATATA
1516428 TAGTATATAG
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
31 18 0.30
32 37 0.61
33 6 0.10
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.49
Consensus pattern (31 bp):
TATATAATTTTTAAAAACATTTTTTAAAAAT
Found at i:1516497 original size:13 final size:13
Alignment explanation
Indices: 1516479--1516504 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1516469 ATATTATATA
1516479 GTTTTTATTTATT
1 GTTTTTATTTATT
1516492 GTTTTTATTTATT
1 GTTTTTATTTATT
1516505 ATTATTCACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (13 bp):
GTTTTTATTTATT
Found at i:1517027 original size:27 final size:26
Alignment explanation
Indices: 1516967--1517028 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
1516957 GTAAACCAAG
* *
1516967 AACGAACCAAGGGAGACCACATCAAC
1 AACGAACCAAAGGACACCACATCAAC
** *
1516993 AATAAACCAAAGGACATCACCATCAAC
1 AACGAACCAAAGGACACCA-CATCAAC
1517020 AACGAACCA
1 AACGAACCA
1517029 CAAGTCAAGA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
26 14 0.50
27 14 0.50
ACGTcount: A:0.50, C:0.31, G:0.13, T:0.06
Consensus pattern (26 bp):
AACGAACCAAAGGACACCACATCAAC
Found at i:1518062 original size:5 final size:5
Alignment explanation
Indices: 1518042--1518080 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
1518032 TTATTTGTTA
**
1518042 TTTAT TTTAT GCTAT TTTAT TTTATT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT TTT
1518081 TTATTTAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:1518072 original size:11 final size:11
Alignment explanation
Indices: 1518030--1518086 Score: 57
Period size: 11 Copynumber: 5.3 Consensus size: 11
1518020 ACTTTGATTT
1518030 TTTTATTTGTTA
1 TTTTATTT-TTA
1518042 -TTTA-TTTTA
1 TTTTATTTTTA
**
1518051 TGCTA-TTTTA
1 TTTTATTTTTA
1518061 TTTTATTTTTA
1 TTTTATTTTTA
1518072 TTTTATTTTTTA
1 TTTTA-TTTTTA
1518084 TTT
1 TTT
1518087 AGTATTTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
9 3 0.08
10 12 0.32
11 14 0.37
12 9 0.24
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.77
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:1519690 original size:21 final size:20
Alignment explanation
Indices: 1519664--1519719 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
1519654 TTGTAGTAGA
1519664 AATGTTAAAAAATATAATTAT
1 AATGTTAAAAAATAT-ATTAT
1519685 AATGTTTGAAAAAAT-TATTAT
1 AATG-TT-AAAAAATATATTAT
* *
1519706 AATGGTGAAAAATA
1 AATGTTAAAAAATA
1519720 ATAACTTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
19 6 0.20
20 1 0.03
21 13 0.43
22 3 0.10
23 7 0.23
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.36
Consensus pattern (20 bp):
AATGTTAAAAAATATATTAT
Found at i:1519779 original size:16 final size:17
Alignment explanation
Indices: 1519760--1519791 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1519750 AATATTGTTA
1519760 ATTAT-ATTTAATCATT
1 ATTATAATTTAATCATT
1519776 ATTATAATTTAATCAT
1 ATTATAATTTAATCAT
1519792 AAGTAGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTATAATTTAATCATT
Found at i:1523189 original size:27 final size:27
Alignment explanation
Indices: 1523158--1523209 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
1523148 TGTTAATGTT
*
1523158 ATATTTGAATAAATGTGATTAATATCA
1 ATATTTGAATAAATGTGATGAATATCA
*
1523185 ATATTTGAATGAATGTGATGAATAT
1 ATATTTGAATAAATGTGATGAATAT
1523210 TTGTTGATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.02, G:0.15, T:0.40
Consensus pattern (27 bp):
ATATTTGAATAAATGTGATGAATATCA
Found at i:1523230 original size:63 final size:64
Alignment explanation
Indices: 1523144--1523263 Score: 188
Period size: 63 Copynumber: 1.9 Consensus size: 64
1523134 ATTTCTTGCC
* *
1523144 TATTTGTTAATGTTATATTTGAATAAATGTGATTAATATCAATA-TTTGAATGAATGTGATGAA
1 TATTTGTTAATGTTATATTTGAATAAATGTGAATAATATCAATATTTTAAATGAATGTGATGAA
* * *
1523207 TATTTGTTGATGTTATATTTGAATGAATGTGAATAATATCGATATTTTAAATGAATG
1 TATTTGTTAATGTTATATTTGAATAAATGTGAATAATATCAATATTTTAAATGAATG
1523264 ATTCAAAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
63 40 0.78
64 11 0.22
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.45
Consensus pattern (64 bp):
TATTTGTTAATGTTATATTTGAATAAATGTGAATAATATCAATATTTTAAATGAATGTGATGAA
Found at i:1525632 original size:106 final size:105
Alignment explanation
Indices: 1525468--1525805 Score: 405
Period size: 106 Copynumber: 3.2 Consensus size: 105
1525458 ATAATTAAAG
* * * **
1525468 AAAATTTAAACTCAACTTACCAAACCACTCAAATATGATTTAATCTATGCAATCAAAATAAATAG
1 AAAATTTAAACTAAACTTACC--ACCACTCAAATACGATTTAATCTGTAAAATCAAAATAAATAG
1525533 TCTAATTAATTTATATTTAAAATAAAAATAAAAATGAAACAAT
64 TCTAATTAATTTATATTTAAAATAAAAATAAAAAT-AAACAAT
* * * *
1525576 AAAATTTACACTAAACTTACCACCACTCAAATACGATTTAATATGTAAAATTAAAATAAATGGTC
1 AAAATTTAAACTAAACTTACCACCACTCAAATACGATTTAATCTGTAAAATCAAAATAAATAGTC
* *
1525641 TAA--AAATTATTATTTAAAATAAAAACAATAAATAAACAAT
66 TAATTAATTTA-TATTTAAAATAAAAATAA-AAATAAACAAT
* * *
1525681 AAAATTTAAATTAAACTTATCAAACCA-TCTAAATAC-AGTTTAATCTGTAAAATCAAAATAATT
1 AAAATTTAAACTAAACTTA-C-CACCACTC-AAATACGA-TTTAATCTGTAAAATCAAAATAAAT
*
1525744 AATCTAATTAATTTATATTTAAAATAAAAAATAAAAATAAAGCAAT
62 AGTCTAATTAATTTATATTTAAAAT-AAAAATAAAAATAAA-CAAT
*
1525790 AAAATTTACACTAAAC
1 AAAATTTAAACTAAAC
1525806 ATACTAAATC
Statistics
Matches: 197, Mismatches: 23, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
104 5 0.03
105 41 0.21
106 48 0.24
107 37 0.19
108 36 0.18
109 30 0.15
ACGTcount: A:0.54, C:0.12, G:0.03, T:0.31
Consensus pattern (105 bp):
AAAATTTAAACTAAACTTACCACCACTCAAATACGATTTAATCTGTAAAATCAAAATAAATAGTC
TAATTAATTTATATTTAAAATAAAAATAAAAATAAACAAT
Found at i:1527730 original size:2 final size:2
Alignment explanation
Indices: 1527723--1527748 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1527713 TTTAAATCCG
1527723 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
1527749 GTATGTATAC
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1534309 original size:21 final size:21
Alignment explanation
Indices: 1534267--1534309 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1534257 TTTCTGGGCT
* *
1534267 AGGGGAATCGATACTCATTCA
1 AGGGGAATCGATACCCACTCA
*
1534288 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
1534309 A
1 A
1534310 CGTATATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.26, G:0.23, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:1534700 original size:14 final size:15
Alignment explanation
Indices: 1534665--1534704 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
1534655 ATTATGAGAC
1534665 ATGACATGAATTCAT
1 ATGACATGAATTCAT
* *
1534680 ATAACATGCATT-AT
1 ATGACATGAATTCAT
1534694 ATGACATGAAT
1 ATGACATGAAT
1534705 ATGCAGGAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (15 bp):
ATGACATGAATTCAT
Found at i:1534904 original size:25 final size:25
Alignment explanation
Indices: 1534839--1534907 Score: 102
Period size: 25 Copynumber: 2.8 Consensus size: 25
1534829 GGGTAGAGGG
*
1534839 TCTACGCGGTCCTTCAGGACAATAT
1 TCTACGCGGTCCTTCGGGACAATAT
* *
1534864 TCTACGCGATCATTCGGGACAATAT
1 TCTACGCGGTCCTTCGGGACAATAT
*
1534889 TCTACGTGGTCCTTCGGGA
1 TCTACGCGGTCCTTCGGGA
1534908 TATATATATA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (25 bp):
TCTACGCGGTCCTTCGGGACAATAT
Found at i:1541134 original size:21 final size:21
Alignment explanation
Indices: 1541092--1541134 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1541082 TTTCTGGGCT
* *
1541092 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
1541113 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
1541134 A
1 A
1541135 CGTATATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:1541524 original size:14 final size:15
Alignment explanation
Indices: 1541489--1541528 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
1541479 ATTATGAGAC
1541489 ATGACATGAATTCAT
1 ATGACATGAATTCAT
* *
1541504 ATAACATGCATT-AT
1 ATGACATGAATTCAT
1541518 ATGACATGAAT
1 ATGACATGAAT
1541529 ATGCAGGAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (15 bp):
ATGACATGAATTCAT
Found at i:1541697 original size:25 final size:25
Alignment explanation
Indices: 1541663--1541731 Score: 120
Period size: 25 Copynumber: 2.8 Consensus size: 25
1541653 GGGTAGAGGG
1541663 TCTACGCGGTCCTTCGGGACAATAT
1 TCTACGCGGTCCTTCGGGACAATAT
*
1541688 TCTACGCGGTTCTTCGGGACAATAT
1 TCTACGCGGTCCTTCGGGACAATAT
*
1541713 TCTACGCGGTCTTTCGGGA
1 TCTACGCGGTCCTTCGGGA
1541732 TATATATATA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.17, C:0.26, G:0.26, T:0.30
Consensus pattern (25 bp):
TCTACGCGGTCCTTCGGGACAATAT
Found at i:1546330 original size:21 final size:21
Alignment explanation
Indices: 1546304--1546348 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1546294 TAAATAAAAA
* * *
1546304 TCAAGGAGCTTTGCTTCATAG
1 TCAAGGAGCCTTACTTCAAAG
*
1546325 TCAAGGCGCCTTACTTCAAAG
1 TCAAGGAGCCTTACTTCAAAG
1546346 TCA
1 TCA
1546349 TAGCTCGTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (21 bp):
TCAAGGAGCCTTACTTCAAAG
Found at i:1551564 original size:32 final size:32
Alignment explanation
Indices: 1551523--1551692 Score: 201
Period size: 32 Copynumber: 5.4 Consensus size: 32
1551513 CATAAGTATA
1551523 CTGTCCATATGTCTCGAAAGACATAGGTAATT
1 CTGTCCATATGTCTCGAAAGACATAGGTAATT
* *
1551555 CTGTCCATATGT-TCTG-TAGAACATAGGT-ATA
1 CTGTCCATATGTCTC-GAAAG-ACATAGGTAATT
*
1551586 CTGTCCATATGTCTCGAAAAACATAGGTAATT
1 CTGTCCATATGTCTCGAAAGACATAGGTAATT
*
1551618 CTGTCCATATGT-TCCG-TAGAACATAGGT-ATAT
1 CTGTCCATATGTCT-CGAAAG-ACATAGGTAAT-T
*
1551650 -TGTCCATATGTCTCGAAAAACATAGGTAATT
1 CTGTCCATATGTCTCGAAAGACATAGGTAATT
1551681 CTGTCCATATGT
1 CTGTCCATATGT
1551693 TATGTAGAAC
Statistics
Matches: 117, Mismatches: 9, Indels: 24
0.78 0.06 0.16
Matches are distributed among these distances:
31 53 0.45
32 64 0.55
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (32 bp):
CTGTCCATATGTCTCGAAAGACATAGGTAATT
Found at i:1551567 original size:63 final size:63
Alignment explanation
Indices: 1551484--1551712 Score: 381
Period size: 63 Copynumber: 3.7 Consensus size: 63
1551474 CCGATGAACC
* * *
1551484 TAGGTAA-ACTGTCCATATGTTCCT-TAGAACATAAGTATACTGTCCATATGTCTCGAAAGACA
1 TAGGTAATTCTGTCCATATGTT-CTGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACA
1551546 TAGGTAATTCTGTCCATATGTTCTGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACA
1 TAGGTAATTCTGTCCATATGTTCTGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACA
* *
1551609 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATATTGTCCATATGTCTCGAAAAACA
1 TAGGTAATTCTGTCCATATGTTCTGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACA
*
1551672 TAGGTAATTCTGTCCATATGTTATGTAGAACATAGGTATAC
1 TAGGTAATTCTGTCCATATGTTCTGTAGAACATAGGTATAC
1551713 CCTCGACTCT
Statistics
Matches: 157, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
62 9 0.06
63 148 0.94
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (63 bp):
TAGGTAATTCTGTCCATATGTTCTGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACA
Found at i:1552632 original size:64 final size:64
Alignment explanation
Indices: 1552480--1552636 Score: 169
Period size: 64 Copynumber: 2.5 Consensus size: 64
1552470 CAATGAAAGT
* * * * *
1552480 ATGCATCGATGCACTA-CTGATGCATCGGTGCATAAAATGCATTCGATGTTGTATTATCACAGGG
1 ATGCATCGATGCACTACCTG-TGCATCGATGCATAAAATGCATTCGATGTTCTATTATAAAAGAG
* * * *
1552544 ATGCATCGATGCA-TGCCTTATGCATCGATGCACT-AATTGCATTCGATGTTTCTATTTTAAAAG
1 ATGCATCGATGCACTACC-TGTGCATCGATGCA-TAAAATGCATTCGATG-TTCTATTATAAAAG
1552607 AG
63 AG
1552609 -TGCATCGATGCACTACCTGTGCATCGAT
1 ATGCATCGATGCACTACCTGTGCATCGAT
1552637 ACACCTTCAA
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
63 1 0.01
64 60 0.78
65 16 0.21
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCACTACCTGTGCATCGATGCATAAAATGCATTCGATGTTCTATTATAAAAGAG
Found at i:1554060 original size:24 final size:24
Alignment explanation
Indices: 1554033--1554080 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
1554023 TCTAAATCAC
1554033 ACCATTGCATAAACAATTACCAAT
1 ACCATTGCATAAACAATTACCAAT
1554057 ACCATTGCATAAACAATTACCAAT
1 ACCATTGCATAAACAATTACCAAT
1554081 CTCATATAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.25, G:0.04, T:0.25
Consensus pattern (24 bp):
ACCATTGCATAAACAATTACCAAT
Found at i:1554310 original size:23 final size:23
Alignment explanation
Indices: 1554284--1554329 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1554274 CGAAGAACCG
1554284 CGTAAAAATGCACCGAAGTGCCA
1 CGTAAAAATGCACCGAAGTGCCA
* * *
1554307 CGTAGAATTGCACCGTAGTGCCA
1 CGTAAAAATGCACCGAAGTGCCA
1554330 TATAAGATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.26, G:0.24, T:0.17
Consensus pattern (23 bp):
CGTAAAAATGCACCGAAGTGCCA
Found at i:1561536 original size:14 final size:14
Alignment explanation
Indices: 1561517--1561544 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1561507 TGTCAACTTG
1561517 GTGCAACAGGAAGC
1 GTGCAACAGGAAGC
1561531 GTGCAACAGGAAGC
1 GTGCAACAGGAAGC
1561545 TGTTGGTCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.36, T:0.07
Consensus pattern (14 bp):
GTGCAACAGGAAGC
Found at i:1564452 original size:22 final size:23
Alignment explanation
Indices: 1564426--1564477 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
1564416 TAAAGTGTCC
1564426 AATAATAACAAAATCAGT-AAAA
1 AATAATAACAAAATCAGTAAAAA
*
1564448 AATAATAACAAAATCGGTAGAAAA
1 AATAATAACAAAATCAGTA-AAAA
1564472 AATAAT
1 AATAAT
1564478 GTTTTCGGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 17 0.63
24 10 0.37
ACGTcount: A:0.65, C:0.08, G:0.08, T:0.19
Consensus pattern (23 bp):
AATAATAACAAAATCAGTAAAAA
Found at i:1564733 original size:15 final size:15
Alignment explanation
Indices: 1564713--1564745 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1564703 ATGGTGTTTT
*
1564713 AAAAATTTTATTTAA
1 AAAAATTATATTTAA
1564728 AAAAATTATATTTAA
1 AAAAATTATATTTAA
1564743 AAA
1 AAA
1564746 CACAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAAATTATATTTAA
Found at i:1566632 original size:2 final size:2
Alignment explanation
Indices: 1566621--1566655 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
1566611 TAAAGGTGAT
*
1566621 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1566656 CAATAAAGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:1567543 original size:19 final size:17
Alignment explanation
Indices: 1567519--1567553 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
1567509 TCCTCTCATT
1567519 TCTTCTTCCTTCTTCCTTA
1 TCTTCTT-C-TCTTCCTTA
1567538 TCTTCTTCTCTTCCTT
1 TCTTCTTCTCTTCCTT
1567554 CTCCAAACGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 1 0.06
19 7 0.44
ACGTcount: A:0.03, C:0.37, G:0.00, T:0.60
Consensus pattern (17 bp):
TCTTCTTCTCTTCCTTA
Found at i:1568883 original size:149 final size:150
Alignment explanation
Indices: 1568694--1569009 Score: 573
Period size: 150 Copynumber: 2.1 Consensus size: 150
1568684 GGGTAGAGGG
* *
1568694 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTT-GAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
*
1568758 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
1568823 ATATGGCACTACGGTGCAAT
131 ATATGGCACTACGGTGCAAT
*
1568843 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
1568908 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
1568973 ATATGGCACTACGGTGCAAT
131 ATATGGCACTACGGTGCAAT
1568993 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
1569010 TGCATTTATA
Statistics
Matches: 161, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
149 52 0.32
150 109 0.68
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (150 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
ATATGGCACTACGGTGCAAT
Found at i:1569021 original size:23 final size:23
Alignment explanation
Indices: 1568977--1569021 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1568967 ATCATTATAT
*
1568977 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
1569000 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
1569022 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:1571111 original size:134 final size:134
Alignment explanation
Indices: 1570628--1571077 Score: 605
Period size: 134 Copynumber: 3.4 Consensus size: 134
1570618 AAGCGAATCA
* * * *
1570628 AACTCGATTCAATCTTCCCT-ATAGGATAGTGGAATGAATCAACATTTCCAGATCTGATTTTCCC
1 AACTCGATTCAATCTTCCCTGA-AGAACAATAGAATGAATCAACATTTCCAGATCTGATTTTCCC
* * * * *
1570692 TAAAAAAAAAGCGGAACAAATTCATCTCTTTCAAGATTTGATATTCTCTGAGTAACAATGGAACA
65 TAAAGAAGAAGCGGAACAGATTCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACA
*
1570757 AGTCT
130 AGTTT
* * * *
1570762 ATCTCGATTCAATCTTCCCTGAAGAACAATAGAATGGATCAACATTTCCAGGTATGATTTTCCCT
1 AACTCGATTCAATCTTCCCTGAAGAACAATAGAATGAATCAACATTTCCAGATCTGATTTTCCCT
* * * *
1570827 TAAGAAGAAGCGGAATAGATACATCTCTTTCAAGATTTGATATTCCTTGAGTAACAGTGGAACAA
66 AAAGAAGAAGCGGAACAGATTCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAA
1570892 GTTT
131 GTTT
* * *
1570896 AACTCGATTCAATCTTCCCTGAAGAACAGTATAATGAATCAACATTTCCATATCTGATTTTCCCT
1 AACTCGATTCAATCTTCCCTGAAGAACAATAGAATGAATCAACATTTCCAGATCTGATTTTCCCT
* * * * *
1570961 CAAGAAGAAACGGAACAGATTCATCTCTTTTAAGATTTGATATTCCCTGAGTAACAGTGGGACAT
66 AAAGAAGAAGCGGAACAGATTCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAA
1571026 GTTT
131 GTTT
* * * * *
1571030 ACCTCGATTCAATATTCCCTGGAGAACAATGGAATGAATCAAAATTTC
1 AACTCGATTCAATCTTCCCTGAAGAACAATAGAATGAATCAACATTTC
1571078 TCGATCCGAT
Statistics
Matches: 275, Mismatches: 40, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
134 274 1.00
135 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (134 bp):
AACTCGATTCAATCTTCCCTGAAGAACAATAGAATGAATCAACATTTCCAGATCTGATTTTCCCT
AAAGAAGAAGCGGAACAGATTCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAA
GTTT
Found at i:1571332 original size:221 final size:220
Alignment explanation
Indices: 1570882--1571299 Score: 500
Period size: 221 Copynumber: 1.9 Consensus size: 220
1570872 CTTGAGTAAC
* * *** *
1570882 AGTGGAACAAGTTTAACTCGATTCAATCTTCCCTGAAGAACAGTATAATGAATCAACATTTCCAT
1 AGTGGAACAAGTCTAACTCGATTCAATCTTCCCTGAAGAACAGTAGAATGAATCAACACCCCCAG
* * * * *
1570947 ATCTGATTTTCCCTCAAGAAGAAACGGAACAGATTCATCTCTTTTAAGATTTGATATTCCCTGAG
66 ATCTGATTTTCCCTCAAGAAAAAACGGAACAGATCCATATCTTTAAAGATTAGATATTCCCTGAG
* * * **
1571012 TAACAGTGGGACATGTTTACCTCGATTCAATATTCCCTGGAGAACAATGGAATGAATCAAAATTT
131 TAACAGTGGAACAAGTCTACCTCGATTCAATATTCCCTGGAGAACAATGGAATGAATC-AAACGT
* *
1571077 CTCGATCCGATCTACCCTGAAGAAAT
195 CCCGATCCGATCTACCCTCAAGAAAT
** * * * *
1571103 AGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTG-AGTGACAGTGGAATGAATTAACGCCCCCA
1 AGTGGAACAAGTCTAACTCGATTCAATCTTCCCTGAAG-AACAGTAGAATGAATCAACACCCCCA
* * *
1571167 GATCTGATTTTCCCTCAAGAAAAAACGGAACATATCCCTATGTTTCAAAGATTAGATATTCCCTG
65 GATCTGATTTTCCCTCAAGAAAAAACGGAACAGATCCATATCTTT-AAAGATTAGATATTCCCTG
* * * *
1571232 AGTAACAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCT-GAGTGACAGTGGAATGAATC-AAC
129 AGTAACAGTGGAACAAGTCTACCTCGATTCAATATTCCCTGGAG-AACAATGGAATGAATCAAAC
1571295 GTCCC
193 GTCCC
1571300 AGATTTGATT
Statistics
Matches: 164, Mismatches: 30, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
220 7 0.04
221 91 0.55
222 66 0.40
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.28
Consensus pattern (220 bp):
AGTGGAACAAGTCTAACTCGATTCAATCTTCCCTGAAGAACAGTAGAATGAATCAACACCCCCAG
ATCTGATTTTCCCTCAAGAAAAAACGGAACAGATCCATATCTTTAAAGATTAGATATTCCCTGAG
TAACAGTGGAACAAGTCTACCTCGATTCAATATTCCCTGGAGAACAATGGAATGAATCAAACGTC
CCGATCCGATCTACCCTCAAGAAAT
Found at i:1571517 original size:134 final size:133
Alignment explanation
Indices: 1571103--1571742 Score: 793
Period size: 134 Copynumber: 4.8 Consensus size: 133
1571093 CTGAAGAAAT
* *
1571103 AGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACAGTGGAATGAATTAACGCCCCCAG
1 AGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACG-TCCCAG
* ** * * * *
1571168 ATCTGATTTTCCCTCAAGAAAAAACGGAACATATCCCTATGTTTCAAAGATTAGATATTCCCTGA
65 ATCTGATTTTCCCTCAAGAAGAAGTGAAACATATCCCTCTCTTTC-AAGATTTGATATTCCCTGA
1571233 GTAAC
129 GTAAC
1571238 AGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACGTCCCAGA
1 AGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACGTCCCAGA
* * * * * * *
1571303 TTTGATTTTTCCTCAAGAAGAAGTGGAACAGATTCATCTCTTTCAAGATTTGATATTCCCTTAGT
66 TCTGATTTTCCCTCAAGAAGAAGTGAAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGT
*
1571368 AAG
131 AAC
* * * * * * * *
1571371 AGTGAAACAAGTCTACCTTGATTCAATCATCCCTGAGTGATAGTGGAATGAATTAACATCTCCGG
1 AGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACGTC-CCAG
* * *
1571436 ATCTGATGTTCCCTTAAGAAGAAGTGAAACATATCCCTCTCTTTCAAGATTTGATATTCCTTGAG
65 ATCTGATTTTCCCTCAAGAAGAAGTGAAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAG
1571501 TAAC
130 TAAC
* * * *
1571505 AGTGGAATAAGTCTGCCTCGATTCAATCTTCTCT-AATCAACAGTGGAATGAATCAACGTCCCCA
1 AGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGT-GACAGTGGAATGAATCAACGT-CCCA
* **
1571569 GATCTGATTTTCTCT-AAGGAAGAAGT-AGAACATATCAATCTCTTTCAAGATTTGATATTCCCT
64 GATCTGATTTTCCCTCAA-GAAGAAGTGA-AACATATCCCTCTCTTTCAAGATTTGATATTCCCT
*
1571632 GAGTAAT
127 GAGTAAC
* * * *
1571639 AGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTAAAG-AACAATGGAATGAATCAACGATCCTA
1 AGTGGAACAAGTCTGCCTCGATTCAATCTTCCCT-GAGTGACAGTGGAATGAATCAACG-TCCCA
* *
1571703 TATCTGATTTTCCCTCAAGAAGAAGTGAAACAAATCCCTC
64 GATCTGATTTTCCCTCAAGAAGAAGTGAAACATATCCCTC
1571743 ATCAAATTTC
Statistics
Matches: 433, Mismatches: 62, Indels: 21
0.84 0.12 0.04
Matches are distributed among these distances:
133 79 0.18
134 291 0.67
135 62 0.14
136 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (133 bp):
AGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACGTCCCAGA
TCTGATTTTCCCTCAAGAAGAAGTGAAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGT
AAC
Found at i:1571554 original size:489 final size:489
Alignment explanation
Indices: 1570630--1571560 Score: 1165
Period size: 489 Copynumber: 1.9 Consensus size: 489
1570620 GCGAATCAAA
* * ***
1570630 CTCGATTCAATCTTCCCTATAGGATAGTGGAATGAATCAACATTTCCAGATCTGATTTTCCCTAA
1 CTCGATTCAATCTTCCCTAGAGGACAGTGGAATGAATCAACACCCCCAGATCTGATTTTCCCTAA
* * * *
1570695 AAAAAAAGCGGAACAAATTCATCTCTTTCAAGATTTGATATTCTCTGAGTAACAATGGAACAAGT
66 AAAAAAAGCGGAACAAATCCATATCTTTCAAGATTAGATATTCCCTGAGTAACAATGGAACAAGT
* * * * *
1570760 CTATCTCGATTCAATCTTCCCTGAAGAACAATAGAATGGATCAACATTTCCAGGTATGATTTTCC
131 CTACCTCGATTCAATCTTCCCTGAAGAACAATAGAATGAATCAACAGTCCCAGATATGATTTTCC
* * *
1570825 CTTAAGAAGAAGCGGAATAGATACATCTCTTTCAAGATTTGATATTCCTTGAGTAACAGTGGAAC
196 CTCAAGAAGAAGCGGAACAGATACATCTCTTTCAAGATTTGATATTCCTTGAGTAACAGTGAAAC
* * * * * *
1570890 AAGTTTAACTCGATTCAATCTTCCCTGAAGAACAGTATAATGAATCAACATTTCCATATCTGATT
261 AAGTCTAACTCGATTCAATCATCCCTGAAGAACAGTAGAATGAATCAACATCTCCAGATCTGATG
* * *
1570955 TTCCCTCAAGAAGAAACGGAACAGATTCATCTCTTTTAAGATTTGATATTCCCTGAGTAACAGTG
326 TTCCCTCAAGAAGAAACGAAACAGATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTG
* * * * *
1571020 GGACATGTTTACCTCGATTCAATATTCCCTGGAGAACAATGGAATGAATCAAAATTTCTCGATCC
391 GAACAAGTCTACCTCGATTCAATATTCCCTGAACAACAATGGAATGAATCAAAATTTCTCGATCC
1571085 GATCTACCCTGAAGAAATAGTGGAACAAGTCTGC
456 GATCTACCCTGAAGAAATAGTGGAACAAGTCTGC
* *
1571119 CTCGATTCAATCTTCCCT-GAGTGACAGTGGAATGAATTAACGCCCCCAGATCTGATTTTCCCTC
1 CTCGATTCAATCTTCCCTAGAG-GACAGTGGAATGAATCAACACCCCCAGATCTGATTTTCCCT-
* * * * *
1571183 AAGAAAAAA-CGGAACATATCCCTATGTTTCAAAGATTAGATATTCCCTGAGTAACAGTGGAACA
64 AAAAAAAAAGCGGAACAAATCCATATCTTTC-AAGATTAGATATTCCCTGAGTAACAATGGAACA
* * * * *
1571247 AGTCTGCCTCGATTCAATCTTCCCTG-AGTGACAGTGGAATGAATCAAC-GTCCCAGATTTGATT
128 AGTCTACCTCGATTCAATCTTCCCTGAAG-AACAATAGAATGAATCAACAGTCCCAGATATGATT
* * * *
1571310 TTTCCTCAAGAAGAAGTGGAACAGATTCATCTCTTTCAAGATTTGATATTCCCTT-AGTAAGAGT
192 TTCCCTCAAGAAGAAGCGGAACAGATACATCTCTTTCAAGATTTGATATT-CCTTGAGTAACAGT
* * * * * * *
1571374 GAAACAAGTCTACCTTGATTCAATCATCCCTG-AGTGATAGTGGAATGAATTAACATCTCCGGAT
256 GAAACAAGTCTAACTCGATTCAATCATCCCTGAAG-AACAGTAGAATGAATCAACATCTCCAGAT
* ** * * *
1571438 CTGATGTTCCCTTAAGAAGAAGTGAAACATATCCCTCTCTTTCAAGATTTGATATTCCTTGAGTA
320 CTGATGTTCCCTCAAGAAGAAACGAAACAGATCCATCTCTTTCAAGATTTGATATTCCCTGAGTA
* * * * *
1571503 ACAGTGGAATAAGTCTGCCTCGATTCAATCTTCTCT-AATCAACAGTGGAATGAATCAA
385 ACAGTGGAACAAGTCTACCTCGATTCAATATTCCCTGAA-CAACAATGGAATGAATCAA
1571561 CGTCCCCAGA
Statistics
Matches: 370, Mismatches: 65, Indels: 14
0.82 0.14 0.03
Matches are distributed among these distances:
488 5 0.01
489 284 0.77
490 81 0.22
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (489 bp):
CTCGATTCAATCTTCCCTAGAGGACAGTGGAATGAATCAACACCCCCAGATCTGATTTTCCCTAA
AAAAAAAGCGGAACAAATCCATATCTTTCAAGATTAGATATTCCCTGAGTAACAATGGAACAAGT
CTACCTCGATTCAATCTTCCCTGAAGAACAATAGAATGAATCAACAGTCCCAGATATGATTTTCC
CTCAAGAAGAAGCGGAACAGATACATCTCTTTCAAGATTTGATATTCCTTGAGTAACAGTGAAAC
AAGTCTAACTCGATTCAATCATCCCTGAAGAACAGTAGAATGAATCAACATCTCCAGATCTGATG
TTCCCTCAAGAAGAAACGAAACAGATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTG
GAACAAGTCTACCTCGATTCAATATTCCCTGAACAACAATGGAATGAATCAAAATTTCTCGATCC
GATCTACCCTGAAGAAATAGTGGAACAAGTCTGC
Found at i:1584303 original size:24 final size:24
Alignment explanation
Indices: 1584271--1584363 Score: 168
Period size: 24 Copynumber: 3.9 Consensus size: 24
1584261 AATACATATA
1584271 TGTCCCGAAGGACCACGTAGAATT
1 TGTCCCGAAGGACCACGTAGAATT
1584295 TGTCCCGAAGGACCACGTAGAATT
1 TGTCCCGAAGGACCACGTAGAATT
*
1584319 TGTCCCGAAAGACCACGTAGAATT
1 TGTCCCGAAGGACCACGTAGAATT
*
1584343 TGTCCCGAAGGACCGCGTAGA
1 TGTCCCGAAGGACCACGTAGA
1584364 CCCTCTACTC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 66 1.00
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.19
Consensus pattern (24 bp):
TGTCCCGAAGGACCACGTAGAATT
Found at i:1584480 original size:30 final size:30
Alignment explanation
Indices: 1584439--1584508 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
1584429 TCACTTAGTG
* *
1584439 TATCTCATAGACATATTATTTTCATACCTT
1 TATCACATAGACATATGATTTTCATACCTT
1584469 TATCACATAGACATATGATTTTCATACCTT
1 TATCACATAGACATATGATTTTCATACCTT
1584499 TATCACATAG
1 TATCACATAG
1584509 CTCATATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.41
Consensus pattern (30 bp):
TATCACATAGACATATGATTTTCATACCTT
Found at i:1585976 original size:15 final size:15
Alignment explanation
Indices: 1585929--1585969 Score: 82
Period size: 15 Copynumber: 2.7 Consensus size: 15
1585919 GCCAGTTTAA
1585929 TATTTTATTTAAAAT
1 TATTTTATTTAAAAT
1585944 TATTTTATTTAAAAT
1 TATTTTATTTAAAAT
1585959 TATTTTATTTA
1 TATTTTATTTA
1585970 TATTTATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTTTATTTAAAAT
Found at i:1586477 original size:4 final size:4
Alignment explanation
Indices: 1586468--1590031 Score: 4271
Period size: 4 Copynumber: 889.5 Consensus size: 4
1586458 TATTAGTCCT
1586468 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1586516 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1586564 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1586612 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
1586660 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATG CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
1586708 CATA CATG CATA CATG CATA CATG CATA CATG CATA CATG CATA CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
1586756 CATA CATG CATA CATG CATA CATG CATA CATG CATA CATG CATA CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
1586804 CATA CATG CATA CATG CATA CATG CATA CATG CATA CATG CATA CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
1586852 CATG CATG CATG CATG CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
1586900 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATG CATG CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
1586948 CATG CATA CATA CATA CATA CATA CATG CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1586996 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1587044 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1587092 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
1587140 CATA CATA CGTA TATA CATA CGTA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1587188 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1587236 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1587284 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1587332 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1587380 CATA CATA CATA CATA TATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
1587428 CATA CATA CATG CATG CATA CATA CATA TATG TATA CATA CATA TATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
1587476 CATA CATA CATA CATG CATG CATA CATA CATG TATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1587524 CATA CAT- -ATA CATA CATA CATA CATA CATA CATA CATA CATA TATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * ** **
1587570 TATA CATA CAT- -ATA TATA CATG TATA CATA C-TA TTTTA GTTTAA CAGTA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA -CATA -CAT-A CA-TA
** * * * ** * * ** * * **
1587619 TTTTG CATGA -ATA -AAA TATA CATA TGTA -ATA TTATG TTTA -AAA AAGG
1 -CATA CAT-A CATA CATA CATA CATA CATA CATA -CATA CATA CATA CATA
* * * * ** * ** * * * *
1587666 TATG GAAA TTTA AATA TTTA CA-A -ATAA GATTA AAGTTGGA AATA GGA-A
1 CATA CATA CATA CATA CATA CATA CAT-A CA-TA CA--T--A CATA -CATA
* ** * * * * ** * * * * * * * *
1587714 CGT- TTTA -AAA GA-A AAAA TTTA AAAA AAAA AAT- CAATTT TAAA CATTA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA C-A-TA CATA CA-TA
* * ** ** ** * * *
1587761 AATA -TTA GTTTA TTTGA TGTGA CATT CATGA C-T- CATA -TTT C-TA
1 CATA CATA -CATA CAT-A CAT-A CATA CAT-A CATA CATA CATA CATA
* * * * ** * * * * * * **
1587804 AATG TATA CAGA CTATGA GTGTTA CAATTT TAGTCT CTGTTT TATTA TTTTA
1 CATA CATA CATA C-AT-A --CATA C-A-TA CA-T-A C--ATA CA-TA -CATA
* *
1587856 TATTA GTCCT- CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CA-TA --CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1587906 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1587954 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1588002 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1588050 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1588098 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1588146 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1588194 CATA CATA CATA CATA CATA CATA CATA C--A CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1588240 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1588288 C-TA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1588335 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1588383 C-TA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1588430 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1588478 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1588526 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1588574 CATA CATA CATA CATA CATA CATA CA-A CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1588621 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1588669 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1588717 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA C--A CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1588763 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
1588811 CATA CATA CATA CATA CATA CATA CATG CATG CAT- CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
1588858 CATG CATA CATA CATA TATA CATA CATA CATA CATA CATG CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
1588906 CATG TATA CATA CATA TATA CATA CATA CATA CATA CATA TATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
1588954 CATA CAT- -ATA TATA TATA CATA TATA CATA CATG CATG CATA TATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
1589000 CATA CATA CATG CATG CATA CATA CATA CATA CATA CATG CATG TATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * *
1589048 CATA CATA CATA CATG TATG CATA CATA TATG TATG CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
1589096 TATA CATA CATG CATA CATG CATA CATA CATA CATA TATG CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
1589144 CATA TATA CATA CATA CATA CATG CATA CATA CATA CATG CATG TATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * *
1589192 TATA CATA CATG TATG CATA CATG TATA CATA CATA CATA CATA TATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
1589240 CATG CATA CATG TATA CATA CATA CATA TATA CATA CATG CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
1589288 CATA CATA CATA TATG CATA CATG CATA CATA CATG CATG CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
1589336 CATA CATA CATA CATG CATA CATG TATA CATA CATA CATG CATA CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
1589384 CATA CATA CATA CATA CATG CATA CATC CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
1589432 CATG CATG CATA CATA CATA CATG CATG TATA CATA CATA CATA CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
1589480 CATG CATGA -ATA CATA CATA CATG CATG CATA CATA CATA CATG CATA
1 CATA CAT-A CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
1589528 CATA CATA TATA CATA CATA CATG CATA CATA CATG TATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
1589576 CATA CATA CATA TATA CATA CATA TATA CATA CATA TATA TATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * *
1589624 TATA CATA CATG CATG CATA TATA CATA CATA CATG CATG CATG CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * *
1589672 CATA CATA CATG CATG TATA CATA CATA CATA TATG TATG CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * *
1589720 TATG TATG CATA CATA CATA CATG CATG CATA CATG CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
1589768 CATG CATA CATA CATA TATA CATA CATA CATA CATG CATA CATA CA-A
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * * * *
1589815 TCATG CATG CATG TATA CATG CATG CATG CATG CATA CATG CATA CATA
1 -CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
1589864 CATA CATA CATA CATA TATA CATG TATA CATG CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
1589912 CATA CATA CATA TATA CATG CATA CATA CATA CATA CATG CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
1589960 CATA CATA CATA CATA CATG CATA CATG CATA CATG GATA CATG CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1590008 CATA CATG CATGAA CATA CATA CA
1 CATA CATA CAT--A CATA CATA CA
1590032 CGCACACGCA
Statistics
Matches: 3141, Mismatches: 350, Indels: 138
0.87 0.10 0.04
Matches are distributed among these distances:
2 12 0.00
3 34 0.01
4 3039 0.97
5 35 0.01
6 16 0.01
7 2 0.00
8 3 0.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (4 bp):
CATA
Found at i:1590040 original size:6 final size:6
Alignment explanation
Indices: 1590029--1590053 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1590019 GAACATACAT
1590029 ACACGC ACACGC ACACGC ACACGC A
1 ACACGC ACACGC ACACGC ACACGC A
1590054 TATATAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACACGC
Found at i:1595323 original size:5 final size:5
Alignment explanation
Indices: 1595313--1595337 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1595303 AACTAATTTT
1595313 GAGTC GAGTC GAGTC GAGTC GAGTC
1 GAGTC GAGTC GAGTC GAGTC GAGTC
1595338 ATATTTACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.40, T:0.20
Consensus pattern (5 bp):
GAGTC
Found at i:1598261 original size:12 final size:12
Alignment explanation
Indices: 1598237--1598271 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
1598227 GCCGAATACC
1598237 TAAAAATACATTT
1 TAAAAATA-ATTT
1598250 TAAAAATAATTT
1 TAAAAATAATTT
1598262 TAAAAGATAA
1 TAAAA-ATAA
1598272 AAAATGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (12 bp):
TAAAAATAATTT
Found at i:1600315 original size:3 final size:3
Alignment explanation
Indices: 1600307--1600355 Score: 80
Period size: 3 Copynumber: 16.0 Consensus size: 3
1600297 TAAAAACGAA
*
1600307 AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT GAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
1600353 AAT
1 AAT
1600356 TGGTTTCGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1600338 original size:22 final size:22
Alignment explanation
Indices: 1600310--1600354 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
1600300 AAACGAAAAT
1600310 AATAATAATAATAATAATAATA
1 AATAATAATAATAATAATAATA
*
1600332 AATAATAATGATAATAATAATA
1 AATAATAATAATAATAATAATA
1600354 A
1 A
1600355 TTGGTTTCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (22 bp):
AATAATAATAATAATAATAATA
Found at i:1601419 original size:60 final size:60
Alignment explanation
Indices: 1601315--1601431 Score: 139
Period size: 60 Copynumber: 1.9 Consensus size: 60
1601305 GATTCTTAAG
* * *
1601315 TTTTTTTTATTCAATTAGGTACTTCAGTTTGATTTTAAGATTCAATTTGATACTTGATCT
1 TTTTTTTTATGCAATTAGGTACTTCAGTTGGATTTTAAGATTCAAATTGATACTTGATCT
* * * *
1601375 TTTTTTTTATGCAATTAGGTTCTTGGAGTTGG-TATTT-AGGTTCAAATTGATATTTGA
1 TTTTTTTTATGCAATTAGGTACTT-CAGTTGGAT-TTTAAGATTCAAATTGATACTTGA
1601432 ACTAGACTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
60 40 0.83
61 8 0.17
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (60 bp):
TTTTTTTTATGCAATTAGGTACTTCAGTTGGATTTTAAGATTCAAATTGATACTTGATCT
Found at i:1609060 original size:44 final size:45
Alignment explanation
Indices: 1608960--1609063 Score: 108
Period size: 45 Copynumber: 2.3 Consensus size: 45
1608950 TTTTTGGTGT
* *
1608960 AGTAAAATAATAATTATTAAATTTTATATTTTTAATTATTTATTA
1 AGTAAAATAATAATTAATAAATTTTATATTTTTAATTATCTATTA
* *
1609005 A-AAAAACTAATAGATTAAT-AA-TTTATATTTTTTTATTATCTA-TA
1 AGTAAAA-TAATA-ATTAATAAATTTTATA-TTTTTAATTATCTATTA
*
1609049 AGTAAATTAATAATT
1 AGTAAAATAATAATT
1609064 TTTAAAATGG
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
43 3 0.06
44 18 0.37
45 23 0.47
46 5 0.10
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (45 bp):
AGTAAAATAATAATTAATAAATTTTATATTTTTAATTATCTATTA
Found at i:1610287 original size:24 final size:24
Alignment explanation
Indices: 1610255--1610306 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
1610245 CGTGGATGGT
1610255 GGTCGTTAGGTCCCAAATTTAATA
1 GGTCGTTAGGTCCCAAATTTAATA
1610279 GGTCGTTAGGTCCCAAATTTAATA
1 GGTCGTTAGGTCCCAAATTTAATA
1610303 GGTC
1 GGTC
1610307 ATTTCGCCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (24 bp):
GGTCGTTAGGTCCCAAATTTAATA
Found at i:1614768 original size:201 final size:204
Alignment explanation
Indices: 1614423--1614829 Score: 793
Period size: 201 Copynumber: 2.0 Consensus size: 204
1614413 CACCCTTAAT
1614423 AGCCCCTCAATAGTCCCATGTTGAGAGACTTCGTTGTTATAAGACTACTGACTTCTTGGGTTTTG
1 AGCCCCTCAATAGTCCCATGTTGAGAGACTTCGTTGTTATAAGACTACTGACTTCTTGGGTTTTG
1614488 GAGATTATGACCCTATGGCCACCGACCAGTGGCTTAAAGTGCATCCTCGGCTTACTGGAAAATGA
66 GAGATTATGACCCTATGGCCACCGACCAGTGGCTTAAAGTGCATCCTCGGCTTACTGGAAAATGA
1614553 TACGATATACTGATAGAAGA-CGTGAAGTTGGCTCCAGAGCCTGAGTGACCAAATTGGGAG-TGT
131 TACGATATACTGATAGAAGACCGTGAAGTTGGCTCCAGAGCCTGAGTGACCAAATTGGGAGTTGT
1614616 TT-TGTGAA
196 TTCTGTGAA
1614624 AGCCCCTCAATAGTCCCATGTTGAGAGACTTCGTTGTTATAAGACTACTGACTTCTTGGGTTTTG
1 AGCCCCTCAATAGTCCCATGTTGAGAGACTTCGTTGTTATAAGACTACTGACTTCTTGGGTTTTG
1614689 GAGATTATGACCCTATGGCCACCGACCAGTGGCTTAAAGTGCATCCTCGGCTTACTGGAAAATGA
66 GAGATTATGACCCTATGGCCACCGACCAGTGGCTTAAAGTGCATCCTCGGCTTACTGGAAAATGA
1614754 TACGATATACTGATAGAAGACCGTGAAGTTGGCTCCAGAGCCTGAGTGACCAAATTGGGAGTTGT
131 TACGATATACTGATAGAAGACCGTGAAGTTGGCTCCAGAGCCTGAGTGACCAAATTGGGAGTTGT
1614819 TTCTGTGAA
196 TTCTGTGAA
1614828 AG
1 AG
1614830 TTCAGGCATA
Statistics
Matches: 203, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
201 150 0.74
202 40 0.20
203 5 0.02
204 8 0.04
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (204 bp):
AGCCCCTCAATAGTCCCATGTTGAGAGACTTCGTTGTTATAAGACTACTGACTTCTTGGGTTTTG
GAGATTATGACCCTATGGCCACCGACCAGTGGCTTAAAGTGCATCCTCGGCTTACTGGAAAATGA
TACGATATACTGATAGAAGACCGTGAAGTTGGCTCCAGAGCCTGAGTGACCAAATTGGGAGTTGT
TTCTGTGAA
Found at i:1616387 original size:22 final size:21
Alignment explanation
Indices: 1616362--1616479 Score: 94
Period size: 23 Copynumber: 5.3 Consensus size: 21
1616352 CACCACTGCT
1616362 CACATAATTTGCACCGAAGTG-C
1 CACATAATTTGC-CCGAA-TGAC
* *
1616384 CACATATTTTTCCCGAATGAC
1 CACATAATTTGCCCGAATGAC
* *
1616405 CACATAAGATTGTCCCGAAGGAC
1 CACATAA-TTTG-CCCGAATGAC
*
1616428 CACATAGTTTTGTCCCGAATGAC
1 CACATA-ATTTG-CCCGAATGAC
* *
1616451 CACATAGTTTTGTCCCGAAGGAC
1 CACATA-ATTTG-CCCGAATGAC
1616474 CACATA
1 CACATA
1616480 GAACCCTCGA
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
20 2 0.02
21 12 0.15
22 12 0.15
23 56 0.68
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (21 bp):
CACATAATTTGCCCGAATGAC
Found at i:1616423 original size:23 final size:23
Alignment explanation
Indices: 1616375--1616480 Score: 139
Period size: 23 Copynumber: 4.7 Consensus size: 23
1616365 ATAATTTGCA
1616375 CCGAAGTG-CCACATA-TTTT-TC
1 CCGAAG-GACCACATAGTTTTGTC
* *
1616396 CCGAATGACCACATAAG-ATTGTC
1 CCGAAGGACCACAT-AGTTTTGTC
1616419 CCGAAGGACCACATAGTTTTGTC
1 CCGAAGGACCACATAGTTTTGTC
*
1616442 CCGAATGACCACATAGTTTTGTC
1 CCGAAGGACCACATAGTTTTGTC
1616465 CCGAAGGACCACATAG
1 CCGAAGGACCACATAG
1616481 AACCCTCGAC
Statistics
Matches: 74, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
20 1 0.01
21 11 0.15
22 5 0.07
23 57 0.77
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (23 bp):
CCGAAGGACCACATAGTTTTGTC
Found at i:1616452 original size:46 final size:45
Alignment explanation
Indices: 1616375--1616480 Score: 155
Period size: 46 Copynumber: 2.4 Consensus size: 45
1616365 ATAATTTGCA
1616375 CCGAAGTG-CCACATA-TTTTTCCCGAATGACCACATAAG-ATTGTC
1 CCGAAG-GACCACATAGTTTTTCCCGAATGACCACAT-AGTATTGTC
*
1616419 CCGAAGGACCACATAGTTTTGTCCCGAATGACCACATAGTTTTGTC
1 CCGAAGGACCACATAGTTTT-TCCCGAATGACCACATAGTATTGTC
1616465 CCGAAGGACCACATAG
1 CCGAAGGACCACATAG
1616481 AACCCTCGAC
Statistics
Matches: 57, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
43 1 0.02
44 13 0.23
45 6 0.11
46 37 0.65
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (45 bp):
CCGAAGGACCACATAGTTTTTCCCGAATGACCACATAGTATTGTC
Found at i:1619212 original size:2 final size:2
Alignment explanation
Indices: 1619205--1619235 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1619195 CTATACCATC
1619205 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1619236 CTTAGTGACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1619566 original size:32 final size:31
Alignment explanation
Indices: 1619530--1619603 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
1619520 ATCATTAACT
* * *
1619530 TTTATCGAACTGTTACAAAAATGGTGATTATA
1 TTTATCGAACTGTTAC-AAAATAGTAATTACA
* *
1619562 TTTATCAAATTGTTACAAAATAGTAATTACA
1 TTTATCGAACTGTTACAAAATAGTAATTACA
*
1619593 TTTATGGAACT
1 TTTATCGAACT
1619604 TTTATACTTA
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
31 20 0.59
32 14 0.41
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.39
Consensus pattern (31 bp):
TTTATCGAACTGTTACAAAATAGTAATTACA
Found at i:1637816 original size:2 final size:2
Alignment explanation
Indices: 1637809--1637847 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1637799 TAAGACATGC
1637809 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1637848 GCTAAAGCAC
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1641916 original size:20 final size:21
Alignment explanation
Indices: 1641884--1641930 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
1641874 TACATAAAAC
*
1641884 ATTATTATTTTTATTGATTTT
1 ATTATTATTTTTATCGATTTT
*
1641905 GTTATT-TTTTTATCGATTTT
1 ATTATTATTTTTATCGATTTT
1641925 ATTATT
1 ATTATT
1641931 GTTGAGTACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.70
Consensus pattern (21 bp):
ATTATTATTTTTATCGATTTT
Found at i:1641982 original size:21 final size:21
Alignment explanation
Indices: 1641957--1641999 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1641947 AAAATGTTAT
* *
1641957 AAAATATTAATGTTTTAAGTA
1 AAAATAATAATATTTTAAGTA
*
1641978 AAAATAATAATATTTTATGTA
1 AAAATAATAATATTTTAAGTA
1641999 A
1 A
1642000 TTTTTTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (21 bp):
AAAATAATAATATTTTAAGTA
Found at i:1648663 original size:21 final size:22
Alignment explanation
Indices: 1648630--1648670 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
1648620 ATATTGTAAT
1648630 ATTTATATTATTA-AAAATTTA
1 ATTTATATTATTATAAAATTTA
1648651 ATTT-TATTAATTATAAAATT
1 ATTTATATT-ATTATAAAATT
1648671 AAAATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 8 0.44
22 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTTATATTATTATAAAATTTA
Found at i:1648702 original size:30 final size:28
Alignment explanation
Indices: 1648643--1648705 Score: 81
Period size: 30 Copynumber: 2.2 Consensus size: 28
1648633 TATATTATTA
*
1648643 AAAATTTAATTTTATTAATTATAAAATT
1 AAAATTTAATTTTATTAATGATAAAATT
**
1648671 AAAATTTAATTTTTATTTAATGATAGCATT
1 AAAATTTAA-TTTTA-TTAATGATAAAATT
1648701 AAAAT
1 AAAAT
1648706 ATAGTGACAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 9 0.30
29 5 0.17
30 16 0.53
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (28 bp):
AAAATTTAATTTTATTAATGATAAAATT
Found at i:1649378 original size:13 final size:13
Alignment explanation
Indices: 1649341--1649380 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
1649331 TCGATATTGA
1649341 AAAATAAATA-TT
1 AAAATAAATATTT
*
1649353 AAAATAATTTATTT
1 AAAATAA-ATATTT
1649367 AAAATAAATATTT
1 AAAATAAATATTT
1649380 A
1 A
1649381 TTTTATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:1650829 original size:3 final size:3
Alignment explanation
Indices: 1650821--1650952 Score: 198
Period size: 3 Copynumber: 44.3 Consensus size: 3
1650811 TTAATATATT
1650821 TAA TAA TAA TAA TAA TAA TGAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
* *
1650867 T-A TATA TAA TAA TAA TAA TAA TAA TAA -AA TAA TGA TGA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1650911 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1650953 GATATGGGTA
Statistics
Matches: 120, Mismatches: 4, Indels: 10
0.90 0.03 0.07
Matches are distributed among these distances:
2 6 0.05
3 108 0.90
4 6 0.05
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1651703 original size:224 final size:225
Alignment explanation
Indices: 1651274--1651814 Score: 958
Period size: 224 Copynumber: 2.4 Consensus size: 225
1651264 AGAATTATGC
* * * *
1651274 AAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
1651339 TATGAACTTCTCCGGAAAAGATAATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACAAATTC
66 TATGAACTTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTC
1651404 TTCTAATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAA
131 TTCTAATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAA
1651469 AAGATGATCCCTCAAATGATGGATTCAGGT
196 AAGATGATCCCTCAAATGATGGATTCAGGT
1651499 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * *
1651564 TATGAACTTCTCTGGAAAAGATGATCCCTCAAATGATGGATTCAGGT-AAAGGTTGAACAAATTC
66 TATGAACTTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTC
*
1651628 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAA
131 TTCTAATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAA
*
1651693 AAGCTGATCCCTCAAATGATGGATTCAGGT
196 AAGATGATCCCTCAAATGATGGATTCAGGT
1651723 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
1651788 TATGAACTTTCTCTGGAAAAGCTAATC
66 TATGAAC-TTCTCTGGAAAAGATAATC
1651815 TTTCAAATAG
Statistics
Matches: 302, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
224 182 0.60
225 120 0.40
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (225 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTC
TTCTAATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAA
AAGATGATCCCTCAAATGATGGATTCAGGT
Found at i:1651822 original size:113 final size:113
Alignment explanation
Indices: 1651274--1651808 Score: 950
Period size: 113 Copynumber: 4.8 Consensus size: 113
1651264 AGAATTATGC
* * * *
1651274 AAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * *
1651339 TATGAAC-TTCTCCGGAAAAGATAATCCATCAATTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCCTCAAATGATGGATTCAGGT
*
1651386 AAAAGGTTGAACAAATTCTTCTAATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1651451 TATGAACTTTCTCTGGAAAAGATGATCCCTCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCCTCAAATGATGGATTCAGGT
1651499 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1651564 TATGAAC-TTCTCTGGAAAAGATGATCCCTCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCCTCAAATGATGGATTCAGGT
1651611 -AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
1651675 TATGAACTTTCTCTGGAAAAGCTGATCCCTCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCCTCAAATGATGGATTCAGGT
1651723 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1651788 TATGAACTTTCTCTGGAAAAG
66 TATGAACTTTCTCTGGAAAAG
1651809 CTAATCTTTC
Statistics
Matches: 409, Mismatches: 11, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
111 71 0.17
112 147 0.36
113 191 0.47
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGATGATCCCTCAAATGATGGATTCAGGT
Found at i:1652881 original size:81 final size:81
Alignment explanation
Indices: 1652673--1653154 Score: 788
Period size: 81 Copynumber: 5.9 Consensus size: 81
1652663 GTTCCTACCA
* * *
1652673 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCCAATTCATCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCC-AGTT
*
1652738 CAATGATTGGTTCTGTCC
65 -AATGTTTGGTTCTGTCC
*
1652756 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGATATTGGCAAATTCATCTTCCAGTTA
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAGTTA
1652821 ATGTTTGGTTCTGTCC
66 ATGTTTGGTTCTGTCC
*
1652837 AACCAGATCAGATAACTCCAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAGTTA
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAGTTA
1652902 ATGTTTGGTTCTGTCC
66 ATGTTTGGTTCTGTCC
1652918 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAGTTA
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAGTTA
1652983 ATGTTTGGTTCTGTCC
66 ATGTTTGGTTCTGTCC
* *
1652999 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATTCATCTTCCCAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTT-CCAGT
*
1653063 TCAATGATTGGTTCTG-CC
64 T-AATGTTTGGTTCTGTCC
* * *
1653081 AAACAAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTATTT
1 -AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAGTT
1653146 AATGTTTGG
65 AATGTTTGG
1653155 ACTGGGATAT
Statistics
Matches: 378, Mismatches: 16, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
80 2 0.01
81 237 0.63
82 14 0.04
83 123 0.33
84 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (81 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAGTTA
ATGTTTGGTTCTGTCC
Found at i:1659247 original size:185 final size:184
Alignment explanation
Indices: 1658936--1659304 Score: 713
Period size: 185 Copynumber: 2.0 Consensus size: 184
1658926 AATAGAAATT
1658936 CTCGCTTGTTGTTTGTGTAGTTGTTCAACCACACTATACTCACTGTTTCAGGAATTTCAAAAAAT
1 CTCGCTTGTTGTTTGTGTAGTTGTTCAACCACACTATACTCACTGTTTCAGGAATTTCAAAAAAT
1659001 TCTTGAGCTTGTTTTTCTGTCACAGGCTCATTAAATACTGGAAGGGATTCATCCTCAAATACCTT
66 TCTTGAGCTTGTTTTTCTGTCACAGGCTCATTAAATACTGGAAGGGATTCATCCTCAAATACCTT
1659066 CTGAGGTATTGCCCTGGCTTTTCCTTTTGCTTTCACTTGTTCTGAAGCATTGGA
131 CTGAGGTATTGCCCTGGCTTTTCCTTTTGCTTTCACTTGTTCTGAAGCATTGGA
1659120 CTCGCTTGTTGTTTGTGTAGTTGTTCAACCACACTATACTCACTATGTTTCAGGAATTTC-AAAA
1 CTCGCTTGTTGTTTGTGTAGTTGTTCAACCACACTATACTCAC--TGTTTCAGGAATTTCAAAAA
1659184 ATTCTTGAGCTTGTTTTTCTGTCACAGGCTCATTAAATACTGGAAGGGATTCATCCTCAAATACC
64 ATTCTTGAGCTTGTTTTTCTGTCACAGGCTCATTAAATACTGGAAGGGATTCATCCTCAAATACC
1659249 TTCTGAGGTATTGCCCTGGCTTTTCCTTTTGCTTTCACTTGTTCTGAAGCATTGGA
129 TTCTGAGGTATTGCCCTGGCTTTTCCTTTTGCTTTCACTTGTTCTGAAGCATTGGA
1659305 TGTTTCGGGA
Statistics
Matches: 183, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
184 43 0.23
185 125 0.68
186 15 0.08
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (184 bp):
CTCGCTTGTTGTTTGTGTAGTTGTTCAACCACACTATACTCACTGTTTCAGGAATTTCAAAAAAT
TCTTGAGCTTGTTTTTCTGTCACAGGCTCATTAAATACTGGAAGGGATTCATCCTCAAATACCTT
CTGAGGTATTGCCCTGGCTTTTCCTTTTGCTTTCACTTGTTCTGAAGCATTGGA
Found at i:1665608 original size:13 final size:13
Alignment explanation
Indices: 1665571--1665610 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
1665561 TCGATATTGA
1665571 AAAATAAATA-TT
1 AAAATAAATATTT
*
1665583 AAAATAATTTATTT
1 AAAATAA-ATATTT
1665597 AAAATAAATATTT
1 AAAATAAATATTT
1665610 A
1 A
1665611 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:1665624 original size:17 final size:17
Alignment explanation
Indices: 1665584--1665632 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
1665574 ATAAATATTA
*
1665584 AAATAATTTATTTAAAAT
1 AAAT-ATTTATTTATAAT
*
1665602 AAATATTTATTTATTAT
1 AAATATTTATTTATAAT
* *
1665619 ATATATATATTTAT
1 AAATATTTATTTAT
1665633 GACTATAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 23 0.85
18 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AAATATTTATTTATAAT
Found at i:1667077 original size:3 final size:3
Alignment explanation
Indices: 1667069--1667133 Score: 112
Period size: 3 Copynumber: 21.3 Consensus size: 3
1667059 TTAATATATT
1667069 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
*
1667118 TAA TAA TAA TGA TAA T
1 TAA TAA TAA TAA TAA T
1667134 GATATGGGTA
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 56 0.95
4 3 0.05
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1675662 original size:21 final size:20
Alignment explanation
Indices: 1675638--1675686 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
1675628 ATTTTGTTTA
1675638 ATTTCATTTAAAATAAAAAAT
1 ATTTCATTTAAAAT-AAAAAT
* *
1675659 ATTTCAAATTATAATAAAAAT
1 ATTTC-ATTTAAAATAAAAAT
1675680 -TTTCATT
1 ATTTCATT
1675687 CACAATCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 2 0.08
20 4 0.17
21 11 0.46
22 7 0.29
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (20 bp):
ATTTCATTTAAAATAAAAAT
Found at i:1679048 original size:93 final size:93
Alignment explanation
Indices: 1678940--1679126 Score: 356
Period size: 93 Copynumber: 2.0 Consensus size: 93
1678930 TGTTAGATTA
*
1678940 TTAAAGAATTAATATATCTTGATATAATAATAGTTCTTATTTTTAATTTATACATTTTATTAATT
1 TTAAAGAATTAATATATCTTGATATAATAATAATTCTTATTTTTAATTTATACATTTTATTAATT
1679005 TAATTATTATTTAAAACAATTTAATACT
66 TAATTATTATTTAAAACAATTTAATACT
1679033 TTAAAGAATTAATATATCTTGATATAATAATAATTCTTATTTTTAATTTATACATTTTATTAATT
1 TTAAAGAATTAATATATCTTGATATAATAATAATTCTTATTTTTAATTTATACATTTTATTAATT
*
1679098 TAATTATTATTTAAAACTATTTAATACT
66 TAATTATTATTTAAAACAATTTAATACT
1679126 T
1 T
1679127 ATACGAATCA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (93 bp):
TTAAAGAATTAATATATCTTGATATAATAATAATTCTTATTTTTAATTTATACATTTTATTAATT
TAATTATTATTTAAAACAATTTAATACT
Found at i:1679166 original size:93 final size:93
Alignment explanation
Indices: 1678940--1679166 Score: 309
Period size: 93 Copynumber: 2.4 Consensus size: 93
1678930 TGTTAGATTA
* * * *
1678940 TTAAAGAATTAATATATCTTGATATAATAATAGTTCTTATTTTTAATTTATACATTTTATTAATT
1 TTAAAGAATAAATATATCATGATATAATAATAATTATTATTTTTAATTTATACATTTTATTAATT
1679005 TAATTATTATTTAAAACAATTTAATACT
66 TAATTATTATTTAAAACAATTTAATACT
* * *
1679033 TTAAAGAATTAATATATCTTGATATAATAATAATTCTTATTTTTAATTTATACATTTTATTAATT
1 TTAAAGAATAAATATATCATGATATAATAATAATTATTATTTTTAATTTATACATTTTATTAATT
*
1679098 TAATTATTATTTAAAACTATTTAATAC-
66 TAATTATTATTTAAAACAATTTAATACT
*
1679125 TTATACGAATCAAATAATATCA--ATATTAA-AATAATTATTATT
1 TTA-AAGAAT-AAAT-ATATCATGATA-TAATAATAATTATTATT
1679167 ATCCTTAAAG
Statistics
Matches: 124, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
92 3 0.02
93 110 0.89
94 6 0.05
95 5 0.04
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.49
Consensus pattern (93 bp):
TTAAAGAATAAATATATCATGATATAATAATAATTATTATTTTTAATTTATACATTTTATTAATT
TAATTATTATTTAAAACAATTTAATACT
Found at i:1680256 original size:20 final size:20
Alignment explanation
Indices: 1680231--1680323 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
1680221 TTTTCCCAAT
1680231 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
1680251 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
1680271 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* ** *
1680292 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
1680313 TCGCAATGCGA
1 TCGCAATGCGA
1680324 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:1680273 original size:41 final size:41
Alignment explanation
Indices: 1680228--1680323 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
1680218 CGATTTTCCC
1680228 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1680269 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
1680310 AAATCGCAATGCGA
1 AATTCGCAATGCGA
1680324 TACTGACTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:1680277 original size:21 final size:20
Alignment explanation
Indices: 1680231--1680323 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
1680221 TTTTCCCAAT
*
1680231 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGGAAA
* **
1680251 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGGAAA
*
1680271 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGGAAA
* **
1680292 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGG-AAA
1680313 TCGCAATGCGA
1 TCGCAATGCGA
1680324 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 29 0.50
21 29 0.50
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGGAAA
Done.