Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008802.1 Hibiscus syriacus cultivar Beakdansim tig00111952_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: 1147353
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:797918 original size:21 final size:20
Alignment explanation
Indices: 797894--797939 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
797884 ATGTTTAATG
797894 AAAAAGATACCAATTGTTAA
1 AAAAAGATACCAATTGTTAA
* *
797914 CAAAAGGATATCAATTGTTAA
1 -AAAAAGATACCAATTGTTAA
797935 AAAAA
1 AAAAA
797940 TATCAATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.57, C:0.09, G:0.11, T:0.24
Consensus pattern (20 bp):
AAAAAGATACCAATTGTTAA
Found at i:797942 original size:18 final size:18
Alignment explanation
Indices: 797894--797947 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 18
797884 ATGTTTAATG
* *
797894 AAAAAGATACCAATTGTT
1 AAAAAAATATCAATTGTT
797912 AACAAAAGGATATCAATTGTT
1 AA-AAAA--ATATCAATTGTT
797933 AAAAAAATATCAATT
1 AAAAAAATATCAATT
797948 ATTACCATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
18 11 0.35
19 3 0.10
20 4 0.13
21 13 0.42
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.28
Consensus pattern (18 bp):
AAAAAAATATCAATTGTT
Found at i:800796 original size:21 final size:22
Alignment explanation
Indices: 800751--800831 Score: 101
Period size: 22 Copynumber: 3.7 Consensus size: 22
800741 TCTCTATCAA
* *
800751 TTAAGCAACCCTCTACTACATG
1 TTAAGCAACCCTCTATTACAGG
**
800773 TTAAATAACCCTCT-TTACAGG
1 TTAAGCAACCCTCTATTACAGG
* *
800794 TTAAGCAAGCCTCTATTACAGA
1 TTAAGCAACCCTCTATTACAGG
800816 TTAAGCAACCCTCTAT
1 TTAAGCAACCCTCTAT
800832 AGGAAGTTAG
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
21 16 0.33
22 33 0.67
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.30
Consensus pattern (22 bp):
TTAAGCAACCCTCTATTACAGG
Found at i:803022 original size:25 final size:25
Alignment explanation
Indices: 802981--803034 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
802971 AATTTGTTGT
802981 TTATATGGAAGGCGATCTAATGTGC
1 TTATATGGAAGGCGATCTAATGTGC
* * *
803006 TTATATGGCAGGGGATCTAATGTGG
1 TTATATGGAAGGCGATCTAATGTGC
803031 TTAT
1 TTAT
803035 GTCTAGTGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.26, C:0.09, G:0.30, T:0.35
Consensus pattern (25 bp):
TTATATGGAAGGCGATCTAATGTGC
Found at i:803512 original size:14 final size:14
Alignment explanation
Indices: 803495--803524 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
803485 TAATAAATAT
803495 TTATAAATATATTA
1 TTATAAATATATTA
803509 TTATAAATATATTA
1 TTATAAATATATTA
803523 TT
1 TT
803525 TTAATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTATAAATATATTA
Found at i:804535 original size:14 final size:14
Alignment explanation
Indices: 804513--804551 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
804503 AATTATAAAT
804513 TAAAATATTAAAAA
1 TAAAATATTAAAAA
* *
804527 TAAATTATTTAAAA
1 TAAAATATTAAAAA
804541 TAAAATATTAA
1 TAAAATATTAA
804552 TTATATTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TAAAATATTAAAAA
Found at i:804559 original size:26 final size:26
Alignment explanation
Indices: 804488--804562 Score: 66
Period size: 28 Copynumber: 2.8 Consensus size: 26
804478 TATAATAATT
*
804488 TAAAAT-TTAATGTATA--ATTATAAAT
1 TAAAATATTAAT-TATATTATT-TAAAA
* *
804513 TAAAATATTAAAAATAAATTATTTAAAA
1 TAAAATATT--AATTATATTATTTAAAA
804541 TAAAATATTAATTATATTATTT
1 TAAAATATTAATTATATTATTT
804563 TTATAATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
25 6 0.15
26 13 0.32
27 3 0.08
28 15 0.38
29 3 0.08
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (26 bp):
TAAAATATTAATTATATTATTTAAAA
Found at i:804690 original size:141 final size:143
Alignment explanation
Indices: 804519--804790 Score: 403
Period size: 141 Copynumber: 1.9 Consensus size: 143
804509 AAATTAAAAT
*
804519 ATTAAAAATAAATTATTTAAAATAAAATATTAATTATATTATTTT-T-A-T-A-ATTTTTAAAGA
1 ATTAAAAATAAAATATTTAAAATAAAATATTAATTATATTATTTTATAATTAATATTTTTAAAGA
*
804579 TAAATTATAAATTCTTTTTTATTATTAAAAAATTATGAAAAA-ATATATAATAATTATTTTATTT
66 TAAATTATAAATTC-TTTTTA-TATT-AAAAATTATGAAAAATATATATAATAATTATTTAATTT
804643 CAAATTTTAACGTATA
128 CAAATTTTAACGTATA
*
804659 ATTATAAATTAAAATATTTAAAATAAAATATTAATTATATTATTTTATAATTTTTAAATATTTTT
1 ATTA-AAAATAAAATATTTAAAATAAAATATTAATTATATTATTTTATAA---TT-AATATTTTT
804724 AAAGATAAATTATAAATTCTTTTTATATTAAAAATTATGAAAAATATATATAATAATTATTTAAT
61 AAAGATAAATTATAAATTCTTTTTATATTAAAAATTATGAAAAATATATATAATAATTATTTAAT
804789 TT
126 TT
804791 TAAGTTTGTA
Statistics
Matches: 118, Mismatches: 3, Indels: 14
0.87 0.02 0.10
Matches are distributed among these distances:
140 4 0.03
141 39 0.33
142 1 0.01
143 1 0.01
147 16 0.14
148 25 0.21
149 7 0.06
150 25 0.21
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (143 bp):
ATTAAAAATAAAATATTTAAAATAAAATATTAATTATATTATTTTATAATTAATATTTTTAAAGA
TAAATTATAAATTCTTTTTATATTAAAAATTATGAAAAATATATATAATAATTATTTAATTTCAA
ATTTTAACGTATA
Found at i:804747 original size:150 final size:150
Alignment explanation
Indices: 804483--804790 Score: 437
Period size: 155 Copynumber: 2.0 Consensus size: 150
804473 TAATTTATAA
* *
804483 TAATTTAAAATTTAATGTATAATTATAAATTAAAATATTAAAAATAAATTATTTAAAATAAAATA
1 TAATTTAAAATTTAACGTATAATTATAAATTAAAATATTAAAAATAAAATATTT-AAAT-AAATA
* *
804548 TTAATTATATTATTTTTATAATTTTTAAAGATAAATTATAAATTCTTTTTTATTATTAAAAAATT
64 TTAATTATATAATTTTTAAAATTTTTAAAGATAAATTATAAATTC-TTTTTA-TATT-AAAAATT
804613 ATGAAAAA-ATATATAATAATTATT
126 ATGAAAAATATATATAATAATTATT
* * * *
804637 TTATTTCAAATTTTAACGTATAATTATAAATTAAAATATTTAAAATAAAATA-TT-AAT-TATAT
1 TAATTT-AAAATTTAACGTATAATTATAAATTAAAATATTAAAAATAAAATATTTAAATAAATAT
*
804699 T-ATTTTATAATTTTTAAATATTTTTAAAGATAAATTATAAATTCTTTTTATATTAAAAATTATG
65 TAATTATATAATTTTTAAA-ATTTTTAAAGATAAATTATAAATTCTTTTTATATTAAAAATTATG
804763 AAAAATATATATAATAATTATT
129 AAAAATATATATAATAATTATT
804785 TAATTT
1 TAATTT
804791 TAAGTTTGTA
Statistics
Matches: 141, Mismatches: 10, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
147 15 0.11
148 25 0.18
149 20 0.14
150 30 0.21
152 3 0.02
154 7 0.05
155 41 0.29
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.47
Consensus pattern (150 bp):
TAATTTAAAATTTAACGTATAATTATAAATTAAAATATTAAAAATAAAATATTTAAATAAATATT
AATTATATAATTTTTAAAATTTTTAAAGATAAATTATAAATTCTTTTTATATTAAAAATTATGAA
AAATATATATAATAATTATT
Found at i:807504 original size:14 final size:16
Alignment explanation
Indices: 807480--807511 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
807470 TTTCAATTGG
807480 TTTAGATTTAAA-TAT
1 TTTAGATTTAAATTAT
807495 TTTA-ATTTAAATTAT
1 TTTAGATTTAAATTAT
807510 TT
1 TT
807512 AAGGTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TTTAGATTTAAATTAT
Found at i:807735 original size:16 final size:16
Alignment explanation
Indices: 807705--807766 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 16
807695 AAATTGTGTC
* *
807705 AATTTAGATTTTTTTT
1 AATTTAAATTATTTTT
807721 AATTTAAATTA-TTTT
1 AATTTAAATTATTTTT
* * * *
807736 AGATTTGAGTTGTTTTG
1 A-ATTTAAATTATTTTT
807753 AATTTAAATTATTT
1 AATTTAAATTATTT
807767 ACGTTTCAAT
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
15 5 0.14
16 26 0.74
17 4 0.11
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.60
Consensus pattern (16 bp):
AATTTAAATTATTTTT
Found at i:809655 original size:68 final size:68
Alignment explanation
Indices: 809571--809731 Score: 200
Period size: 68 Copynumber: 2.4 Consensus size: 68
809561 TATTATAAAA
*
809571 TAATTTATTTTCAAATAATTTATTATAAAATAATTTATT-TTTAAAATAATTTATTATAAAATAT
1 TAATTTATTTT-AAATAATTTATTATAAAATAATTTATTATATAAAATAATTTATTATAAAATAT
809635 AGAT
65 AGAT
* * * * * * *
809639 TGATTTATTTTAAAATAATTTATT-TTAATTAATTTATTAGTATAGATTGATTTATTTTAAAATA
1 TAATTTATTTT-AAATAATTTATTATAAAATAATTTATTA-TATAAAATAATTTATTATAAAATA
*
809703 TGGAT
64 TAGAT
809708 TAATTTATTTTAAATAATTTATTA
1 TAATTTATTTTAAATAATTTATTA
809732 GTATGAATTG
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
67 12 0.15
68 34 0.43
69 33 0.42
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (68 bp):
TAATTTATTTTAAATAATTTATTATAAAATAATTTATTATATAAAATAATTTATTATAAAATATA
GAT
Found at i:809661 original size:15 final size:14
Alignment explanation
Indices: 809641--809676 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
809631 ATATAGATTG
809641 ATTTATTTTAAAATA
1 ATTTATTTT-AAATA
*
809656 ATTTATTTTAATTA
1 ATTTATTTTAAATA
809670 ATTTATT
1 ATTTATT
809677 AGTATAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:809673 original size:14 final size:15
Alignment explanation
Indices: 809528--809676 Score: 147
Period size: 15 Copynumber: 9.5 Consensus size: 15
809518 TAATAAGGTT
809528 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* * *
809543 ATTTGTTCTAAGATA
1 ATTTATTTTAAAATA
*
809558 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
809573 ATTTATTTTCAAATA
1 ATTTATTTTAAAATA
*
809588 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
809603 ATTTATTTTTAAAATA
1 ATTTA-TTTTAAAATA
*
809619 ATTTATTATAAAATATAGA
1 ATTTATT-TTAAA-AT--A
809638 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
*
809656 ATTTATTTT-AATTA
1 ATTTATTTTAAAATA
809670 ATTTATT
1 ATTTATT
809677 AGTATAGATT
Statistics
Matches: 112, Mismatches: 14, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
14 11 0.10
15 66 0.59
16 18 0.16
17 2 0.02
18 1 0.01
19 1 0.01
20 2 0.02
21 4 0.04
22 7 0.06
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:809694 original size:32 final size:30
Alignment explanation
Indices: 809656--809806 Score: 118
Period size: 32 Copynumber: 5.4 Consensus size: 30
809646 TTTTAAAATA
809656 ATTTATTTTAATTAATTTATTAGTATAGATTG
1 ATTTATTTTAA-TAATTTATTAGTAT-GATTG
*
809688 ATTTATTTTAA-AA--TA-T-G---GATTA
1 ATTTATTTTAATAATTTATTAGTATGATTG
809710 ATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTT-AATAATTTATTAGTATG-ATTG
809742 ATTTATTTTAA-AA--TA-T-G---GATTG
1 ATTTATTTTAATAATTTATTAGTATGATTG
*
809764 ATTTATTTTAAATAATTTATTAGTATAGTTTG
1 ATTTATTTT-AATAATTTATTAGTAT-GATTG
809796 ATTTATTTTAA
1 ATTTATTTTAA
809807 AATATAGATT
Statistics
Matches: 96, Mismatches: 3, Indels: 41
0.69 0.02 0.29
Matches are distributed among these distances:
22 26 0.27
23 5 0.05
24 4 0.04
26 6 0.06
27 4 0.04
28 6 0.06
30 4 0.04
31 5 0.05
32 36 0.38
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.54
Consensus pattern (30 bp):
ATTTATTTTAATAATTTATTAGTATGATTG
Found at i:809708 original size:22 final size:22
Alignment explanation
Indices: 809619--809721 Score: 89
Period size: 22 Copynumber: 4.5 Consensus size: 22
809609 TTTTAAAATA
*
809619 ATTTATTATAAAATATAGATTG
1 ATTTATTTTAAAATATAGATTG
** *
809641 ATTTATTTTAAAATAATTTATTTT
1 ATTTATTTTAAAAT-ATAGA-TTG
* * * *
809665 AATTAATTTATTAGTATAGATTG
1 ATTTATTTTA-AAATATAGATTG
* *
809688 ATTTATTTTAAAATATGGATTA
1 ATTTATTTTAAAATATAGATTG
809710 ATTTATTTTAAA
1 ATTTATTTTAAA
809722 TAATTTATTA
Statistics
Matches: 61, Mismatches: 17, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
22 33 0.54
23 13 0.21
24 13 0.21
25 2 0.03
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (22 bp):
ATTTATTTTAAAATATAGATTG
Found at i:809717 original size:54 final size:53
Alignment explanation
Indices: 809656--810264 Score: 709
Period size: 54 Copynumber: 11.1 Consensus size: 53
809646 TTTTAAAATA
* *
809656 ATTTATTTTAATTAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTA
1 ATTTATTTTAAATAATTTATTAGTAT-GATTGATTTATTTTAAAATATGGATTG
809710 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATG-ATTGATTTATTTTAAAATATGGATTG
* *
809764 ATTTATTTTAAATAATTTATTAGTATAGTTTGATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTGATTTATTTTAAAATATGGATTG
* * * * * * *
809818 ATTTATTATT--GTAGTTGCA-TCG-ATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATT-TTAAATAATT-TATTAGTA-TGATTGA-TTT--AT--TTTA-AAATATGGATTG
*
809876 ATTTATTTTAAATAATTTATTAGTATGTATTAATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATG-ATTGATTTATTTTAAAATATGGATTG
*
809930 ATTTA--TT--AT--TGTAGTTA-TATGGATTGATTTATTTTAAATAATTTATTAGTATCGATTG
1 ATTTATTTTAAATAATTTA-TTAGTAT-GATTGATTTATTTT-AA-AA--TA-T-G----GATTG
809988 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTGATTTATTTTAAAATATGGATTG
*
810042 ATTTATTTAAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATG-ATTGATTTATTTTAAAATATGGATTG
*
810096 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTGATTTATTTTAAAATATGGATTG
*
810150 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATG-ATTGATTTATTTTAAAATATGGATTG
* *
810204 ATTTATTTTAAATAATTTATTATTATAGATTGATTTATTTTAAAATATTGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTGATTTATTTTAAAATATGGATTG
810258 ATTTATT
1 ATTTATT
810265 ATTGTAGTTG
Statistics
Matches: 484, Mismatches: 32, Indels: 78
0.81 0.05 0.13
Matches are distributed among these distances:
48 18 0.04
49 6 0.01
50 4 0.01
52 9 0.02
53 14 0.03
54 336 0.69
55 11 0.02
57 8 0.02
58 28 0.06
59 12 0.02
60 9 0.02
62 4 0.01
63 5 0.01
64 20 0.04
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (53 bp):
ATTTATTTTAAATAATTTATTAGTATGATTGATTTATTTTAAAATATGGATTG
Found at i:809749 original size:22 final size:22
Alignment explanation
Indices: 809733--809775 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
809723 AATTTATTAG
809733 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
809755 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
809776 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:809880 original size:32 final size:32
Alignment explanation
Indices: 809839--809919 Score: 144
Period size: 32 Copynumber: 2.5 Consensus size: 32
809829 TAGTTGCATC
809839 GATTGATTTATTTTAAATAATTTATTAGTATG
1 GATTGATTTATTTTAAATAATTTATTAGTATG
809871 GATTGATTTATTTTAAATAATTTATTAGTATG
1 GATTGATTTATTTTAAATAATTTATTAGTATG
* *
809903 TATTAATTTATTTTAAA
1 GATTGATTTATTTTAAA
809920 ATATGGATTG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (32 bp):
GATTGATTTATTTTAAATAATTTATTAGTATG
Found at i:809899 original size:112 final size:112
Alignment explanation
Indices: 809656--810435 Score: 733
Period size: 108 Copynumber: 7.1 Consensus size: 112
809646 TTTTAAAATA
* *
809656 ATTTATTTTAATTAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTAATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTA--TT--
* *
809721 ATAATTTA-TTAGTATGAATTGATTTA-TTT---TAA---A--A-TATGGATTG
62 AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
* *
809764 ATTTATTTTAAATAATTTATTAGTATAGTTTGATTTATTTTAAAATATAGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
* *
809829 TAGTTGCATCGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
66 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
*
809876 ATTTATTTTAAATAATTTATTAGTAT-GTATTAATTTATTTTAAAATATGGATTGATTTATTATT
1 ATTTATTTTAAATAATTTATTAGTATAG-ATTGATTTATTTTAAAATATGGATTGATTTATTATT
* *
809940 GTAGTTATATGGATTGATTTATTTTAAATAATTTATTAGTATCGATTG
65 GTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
809988 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTTAAA
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTA-TT---
* *
810053 ATAATTTA-TTAGTATGAATTGATTTA-TTT---TAA---A--A-TATGGATTG
62 AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
* *
810096 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTA--TT--
* *
810161 ATAATTTA-TTAGTATGAATTGATTTATTTT-AA-AA--TA-T-G-A---ATTG
62 AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
* *
810204 ATTTATTTTAAATAATTTATTATTATAGATTGATTTATTTTAAAATATTGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
* *
810269 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGCATTA
66 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
* * * * ** * * *
810316 ATTTATTTTAAA-ATATTGATT-GATTTA-TTTTAAATAATTTATTATTATGGATTGATTTA-T-
1 ATTTATTTTAAATA-ATTTATTAG-TATAGATTGATTTATTTTA-AAATATGGATTGATTTATTA
*** * *
810376 TT-TA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTT
63 TTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
810424 ATTTATTTTAAA
1 ATTTATTTTAAA
810436 ATATGAATTG
Statistics
Matches: 586, Mismatches: 45, Indels: 82
0.82 0.06 0.12
Matches are distributed among these distances:
102 36 0.06
103 9 0.02
104 6 0.01
106 9 0.02
107 1 0.00
108 259 0.44
109 11 0.02
110 4 0.01
111 16 0.03
112 206 0.35
113 3 0.01
114 3 0.01
116 2 0.00
117 5 0.01
118 16 0.03
ACGTcount: A:0.36, C:0.01, G:0.11, T:0.53
Consensus pattern (112 bp):
ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:809992 original size:32 final size:31
Alignment explanation
Indices: 809951--810521 Score: 331
Period size: 32 Copynumber: 19.5 Consensus size: 31
809941 TAGTTATATG
809951 GATTGATTTATTTTAAATAATTTATTAGTAT
1 GATTGATTTATTTTAAATAATTTATTAGTAT
809982 CGATTGATTTATTTTAAATAATTTATTAGTAT
1 -GATTGATTTATTTTAAATAATTTATTAGTAT
810014 AGATTGATTTATTTT-AA-AA--TA-T-G---
1 -GATTGATTTATTTTAAATAATTTATTAGTAT
*
810037 GATTGATTTATTTAAAATAATTTATTAGTAT
1 GATTGATTTATTTTAAATAATTTATTAGTAT
810068 GAATTGATTTATTTT-AA-AA--TA-T-G---
1 G-ATTGATTTATTTTAAATAATTTATTAGTAT
*
810091 GATTGATTTATTTTAAATAATTTATTTGTAT
1 GATTGATTTATTTTAAATAATTTATTAGTAT
810122 GGATTGATTTATTTT-AA-AA--TA-T-G---
1 -GATTGATTTATTTTAAATAATTTATTAGTAT
810145 GATTGATTTATTTTAAATAATTTATTAGTAT
1 GATTGATTTATTTTAAATAATTTATTAGTAT
810176 GAATTGATTTATTTT-AA-AA--TA-T-G-A-
1 G-ATTGATTTATTTTAAATAATTTATTAGTAT
*
810200 -ATTGATTTATTTTAAATAATTTATTATTAT
1 GATTGATTTATTTTAAATAATTTATTAGTAT
* *
810230 AGATTGATTTATTTTAAA-ATATTGATTGATTTAT
1 -GATTGATTTATTTTAAATA-ATTTATT-A-GTAT
* * * * ** * *
810264 TATTGTAGTTGTATGGATTGATTTATT--T-T
1 GATTG-ATTTATTTTAAATAATTTATTAGTAT
* * * * * *
810293 AAATAATTTATTAGTATGCATTAATTTATTTTAAAATATT
1 GATTGATTTATT--T-T-AAATAATTTA--TT--AGTA-T
*
810333 GATTGATTTATTTTAAATAATTTATTATTAT
1 GATTGATTTATTTTAAATAATTTATTAGTAT
810364 GGATTGATTTATTTT-AA-AA--TA-T-G---
1 -GATTGATTTATTTTAAATAATTTATTAGTAT
810387 GATTGATTTATTTTAAATAATTTATTAGTAT
1 GATTGATTTATTTTAAATAATTTATTAGTAT
*
810418 GAATTTATTTATTTT-AA-AA--TA-T-G-A-
1 G-ATTGATTTATTTTAAATAATTTATTAGTAT
810442 -ATTGATTTATTTTAAATAATTTATTAGTAT
1 GATTGATTTATTTTAAATAATTTATTAGTAT
*
810472 AGATTGATTTATTTTAAATAATTTATGAGTAT
1 -GATTGATTTATTTTAAATAATTTATTAGTAT
810504 AGATTGATTTATTTTAAA
1 -GATTGATTTATTTTAAA
810522 ATATGGATTG
Statistics
Matches: 428, Mismatches: 33, Indels: 156
0.69 0.05 0.25
Matches are distributed among these distances:
22 79 0.18
23 13 0.03
24 12 0.03
25 2 0.00
26 17 0.04
27 12 0.03
28 21 0.05
29 5 0.01
30 14 0.03
31 17 0.04
32 190 0.44
33 5 0.01
34 20 0.05
36 8 0.02
37 1 0.00
38 2 0.00
40 10 0.02
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (31 bp):
GATTGATTTATTTTAAATAATTTATTAGTAT
Found at i:810025 original size:18 final size:18
Alignment explanation
Indices: 809970--810026 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
809960 ATTTTAAATA
*
809970 ATTTATTAGTATCGATTG
1 ATTTATTAGTATAGATTG
* *
809988 ATTTATT--T-TA-AATA
1 ATTTATTAGTATAGATTG
810002 ATTTATTAGTATAGATTG
1 ATTTATTAGTATAGATTG
810020 ATTTATT
1 ATTTATT
810027 TTAAAATATG
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
14 9 0.30
15 1 0.03
16 2 0.07
17 2 0.07
18 16 0.53
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.54
Consensus pattern (18 bp):
ATTTATTAGTATAGATTG
Found at i:810052 original size:21 final size:22
Alignment explanation
Indices: 810015--810055 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
810005 TATTAGTATA
810015 GATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAAATATG
810037 GATTGATTTA-TTTAAAATA
1 GATTGATTTATTTTAAAATA
810056 ATTTATTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (22 bp):
GATTGATTTATTTTAAAATATG
Found at i:810090 original size:22 final size:22
Alignment explanation
Indices: 810065--810107 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
810055 AATTTATTAG
810065 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
810087 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
810108 TAATTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:810144 original size:22 final size:22
Alignment explanation
Indices: 810119--810161 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
810109 AATTTATTTG
810119 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
810141 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
810162 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:810198 original size:22 final size:22
Alignment explanation
Indices: 810173--810215 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
810163 AATTTATTAG
810173 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
810195 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
810216 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:810307 original size:134 final size:133
Alignment explanation
Indices: 810141--810769 Score: 874
Period size: 134 Copynumber: 4.6 Consensus size: 133
810131 TATTTTAAAA
810141 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATG-ATTGAT
*
810206 TTATTTTAAATAATTTATTATTATAGATTGATTTATTTTAAAATATTGATTGATTTATTATTGTA
65 TTATTTTAAATAATTTATTATTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
810271 GTTG
130 GTTG
* *
810275 TATGGATTGATTTATTTTAAATAATTTATTAGTATGCATTAATTTATTTTAAAATATTGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATA-TGATTGAT
*
810340 TTATTTTAAATAATTTATTATTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
65 TTATTTTAAATAATTTATTATTATAGATTGATTTATTTTAAAATATGGATTGATTTA--TT--AT
*
810405 AATTTA-TTAG
126 --TGTAGTT-G
* * * * * * * **
810415 TATGAATTTATTTATTTTAAAATATGAATTGATTTA-TTTTAAATAATTTA--TTAGTATA-GAT
1 TATGGATTGATTTATTTT--AA-AT-AATTTA-TTAGTATGAATTGATTTATTTTAAAATATGAT
* *
810476 TGATTTATTTTAAATAATTTATGAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTAT
61 TGATTTATTTTAAATAATTTATTATTATAGATTGATTTATTTTAAAATATGGATTGATTTATTAT
810541 TGTAGTTG
126 TGTAGTTG
* *
810549 TATGGATTGATTTATTTTAAATAATTTATTAGTTTGGATTGATTTATTTTAAAATATGAATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATG-ATTGAT
* * *
810614 TTATTTTAAATAATTTATTAGTATTGATTGATTTATTTTAAAATATAGATTGATTTATTATTGTA
65 TTATTTTAAATAATTTATTATTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
810679 GTTG
130 GTTG
810683 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGAA-TGATTTATTTTAAAATATGGATTGA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTAT-GAATTGATTTATTTTAAAATAT-GATTGA
810747 TTTATTTTAAATAATTTATTATT
64 TTTATTTTAAATAATTTATTATT
810770 GTAGTTGTAT
Statistics
Matches: 441, Mismatches: 33, Indels: 42
0.85 0.06 0.08
Matches are distributed among these distances:
129 3 0.01
130 15 0.03
131 2 0.00
132 8 0.02
133 1 0.00
134 286 0.65
135 7 0.02
136 4 0.01
138 4 0.01
139 2 0.00
140 81 0.18
142 8 0.02
143 2 0.00
144 15 0.03
145 3 0.01
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.53
Consensus pattern (133 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGATTGATT
TATTTTAAATAATTTATTATTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAG
TTG
Found at i:810344 original size:54 final size:54
Alignment explanation
Indices: 810279--810672 Score: 465
Period size: 54 Copynumber: 7.2 Consensus size: 54
810269 TAGTTGTATG
* *
810279 GATTGATTTATTTTAAATAATTTATTAGTATGCATTAATTTATTTTAAAATATT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATT
* *
810333 GATTGATTTATTTTAAATAATTTATTATTATGGATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATT
* *
810387 GATTGATTTATTTTAAATAATTTATTAGTATGAATTTATTTATTTTAAAATA-T
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATT
*
810440 GAATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTT-AAATAATT
1 G-ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT-ATT
* * ** * * * * * *** *
810495 TA-TGAGTATAGATTGATTTATTT-TAAAATATGGATTGATTTATTATTGTAGTTGTATG
1 GATTGA-TTTATTTTAAATAATTTAT-TAGTATGGATTGATTTA-T-TT-TA-AAATATT
*
810553 GATTGATTTATTTTAAATAATTTATTAGTTTGGATTGATTTATTTTAAAATA-T
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATT
* *
810606 GAATTGATTTATTTTAAATAATTTATTAGTATTGATTGATTTATTTTAAAATATA
1 G-ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATT
810661 GATTGATTTATT
1 GATTGATTTATT
810673 ATTGTAGTTG
Statistics
Matches: 284, Mismatches: 42, Indels: 28
0.80 0.12 0.08
Matches are distributed among these distances:
53 10 0.04
54 230 0.81
55 5 0.02
56 4 0.01
57 2 0.01
58 28 0.10
59 5 0.02
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (54 bp):
GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATT
Found at i:810377 original size:22 final size:22
Alignment explanation
Indices: 810361--810403 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
810351 AATTTATTAT
810361 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
810383 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
810404 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:810431 original size:22 final size:22
Alignment explanation
Indices: 810415--810457 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
810405 AATTTATTAG
*
810415 TATGAATTTATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
810437 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
810458 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:810465 original size:14 final size:14
Alignment explanation
Indices: 810446--810497 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
810436 ATATGAATTG
810446 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
810460 ATTTATTAGTATAGATTG
1 ATTTATT--T-TA-AATA
810478 ATTTATTTTAAATA
1 ATTTATTTTAAATA
810492 ATTTAT
1 ATTTAT
810498 GAGTATAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
14 15 0.50
15 2 0.07
16 2 0.07
17 2 0.07
18 9 0.30
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:810587 original size:32 final size:32
Alignment explanation
Indices: 810551--810655 Score: 115
Period size: 32 Copynumber: 3.6 Consensus size: 32
810541 TGTAGTTGTA
810551 TGGATTGATTTATTTTAAATAATTTATTAGTT
1 TGGATTGATTTATTTTAAATAATTTATTAGTT
810583 TGGATTGATTTATTTT--A-AA---A-TA---
1 TGGATTGATTTATTTTAAATAATTTATTAGTT
*
810605 TGAATTGATTTATTTTAAATAATTTATTAGTAT
1 TGGATTGATTTATTTTAAATAATTTATTAGT-T
810638 T-GATTGATTTATTTTAAA
1 TGGATTGATTTATTTTAAA
810656 ATATAGATTG
Statistics
Matches: 60, Mismatches: 2, Indels: 22
0.71 0.02 0.26
Matches are distributed among these distances:
22 15 0.25
24 1 0.02
25 4 0.07
26 1 0.02
28 1 0.02
29 4 0.07
30 1 0.02
32 32 0.53
33 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (32 bp):
TGGATTGATTTATTTTAAATAATTTATTAGTT
Found at i:810651 original size:22 final size:22
Alignment explanation
Indices: 810626--810698 Score: 53
Period size: 22 Copynumber: 3.3 Consensus size: 22
810616 ATTTTAAATA
810626 ATTTATTAGTATTGATTGATTT
1 ATTTATTAGTATTGATTGATTT
* * *
810648 ATTT-TAAAATATAGATTGATTT
1 ATTTAT-TAGTATTGATTGATTT
* *
810670 A-TTATT-GTAGTTGTATGGATTG
1 ATTTATTAGTA-TTG-ATTGATTT
810692 ATTTATT
1 ATTTATT
810699 TTAAATAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 9
0.69 0.15 0.16
Matches are distributed among these distances:
20 2 0.05
21 5 0.13
22 26 0.68
23 5 0.13
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (22 bp):
ATTTATTAGTATTGATTGATTT
Found at i:810740 original size:22 final size:22
Alignment explanation
Indices: 810715--810757 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
810705 AATTTATTAG
810715 TATGGAATGATTTATTTTAAAA
1 TATGGAATGATTTATTTTAAAA
*
810737 TATGGATTGATTTATTTTAAA
1 TATGGAATGATTTATTTTAAA
810758 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (22 bp):
TATGGAATGATTTATTTTAAAA
Found at i:810817 original size:31 final size:31
Alignment explanation
Indices: 810782--810840 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
810772 AGTTGTATGG
* * *
810782 ATTATTTAAATTTTAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
810813 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
810841 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:811471 original size:19 final size:20
Alignment explanation
Indices: 811444--811498 Score: 94
Period size: 19 Copynumber: 2.8 Consensus size: 20
811434 ATCAGATAAA
811444 AATATGACAAAACCGGGTTC
1 AATATGACAAAACCGGGTTC
*
811464 AA-ATGACAAAACCAGGTTC
1 AATATGACAAAACCGGGTTC
811483 AATATGACAAAACCGG
1 AATATGACAAAACCGG
811499 TAAAGCGCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.16
Consensus pattern (20 bp):
AATATGACAAAACCGGGTTC
Found at i:811848 original size:193 final size:190
Alignment explanation
Indices: 811466--812143 Score: 880
Period size: 193 Copynumber: 3.5 Consensus size: 190
811456 CCGGGTTCAA
* ** *
811466 ATGACAAAACCAGG-TTCAATATGACAAAACCGGTAAAGCGCTATTGGATATGTTGAAGGTATTG
1 ATGACAAAACC-GGTTTCAATATGACAAAACCGGTAAA-TGCTACCGGATATGTTGAAGGTATCG
* * * * * *
811530 ATACTATAATAAGTATAAGTATTATTTTATCTATACTTTAGGAATTTAAAAGAATTGCAATAATA
64 ATACTTTAATAAGTATATGTATCATATTATCGATACTTTAGGAATTTAAAAGAATTGCAATAATG
**
811595 CATTCTATAAAGTATCGATATTTTATAAACATGTATCGATACATAACAATTAACAGGTAAAAAT
129 C-GCCTATAAAGTATCGATA-TTTATAAACATGTATCGATACATAACAATTAACAGGTAAAAAT
* * * * * ** *
811659 ATGATAAAACTGATTTCATTGTGACAAAACCGGTAAATATATAACGGATATGTTGAAGGTATCGA
1 ATGACAAAACCGGTTTCAATATGACAAAACCGGTAAAT-GCTACCGGATATGTTGAAGGTATCGA
811724 TACTTTAATAAGTATATGTATCATATTATCGATACTTTAGGAATTTAAAAGAATTGCAATAATGC
65 TACTTTAATAAGTATATGTATCATATTATCGATACTTTAGGAATTTAAAAGAATTGCAATAATGC
* *
811789 GCCTATAAAATATCGATACTTTATAAACATGTATCGATACATAACAATGTAAGAGGTAAAAAT
130 GCCTATAAAGTATCGATA-TTTATAAACATGTATCGATACATAACAAT-TAACAGGTAAAAAT
* ** * *
811852 ATGACAAAACCGGTTTCAATATGACAAAACCGATAAAGTGCTACCAAATATGTCGAATGTATCGA
1 ATGACAAAACCGGTTTCAATATGACAAAACCGGTAAA-TGCTACCGGATATGTTGAAGGTATCGA
* *
811917 TACGTTAATAAGTATATGTATCATATTATCGATACTTTATGAATTTAAAAGAATTGCAATAATGG
65 TACTTTAATAAGTATATGTATCATATTATCGATACTTTAGGAATTTAAAAGAATTGCAATAAT-G
* *
811982 CGCCTATAAAGTATCGAT-TTT-T--ATATGTATCGATATATAACAATATAACAGGTAAAAAT
129 CGCCTATAAAGTATCGATATTTATAAACATGTATCGATACATAACAAT-TAACAGGTAAAAAT
* * * * * *
812041 ATGACAAAACCGGTTTTAGTATGACAAAACTGGTAAAGCGCTACCGGATATATTGAAGGTATCAA
1 ATGACAAAACCGGTTTCAATATGACAAAACCGGTAAA-TGCTACCGGATATGTTGAAGGTATCGA
*
812106 TATTTTAATAAGTATATGTATCATATTATCGATACTTT
65 TACTTTAATAAGTATATGTATCATATTATCGATACTTT
812144 TAAAAGAAAA
Statistics
Matches: 425, Mismatches: 55, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
189 123 0.29
191 1 0.00
192 48 0.11
193 234 0.55
194 19 0.04
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (190 bp):
ATGACAAAACCGGTTTCAATATGACAAAACCGGTAAATGCTACCGGATATGTTGAAGGTATCGAT
ACTTTAATAAGTATATGTATCATATTATCGATACTTTAGGAATTTAAAAGAATTGCAATAATGCG
CCTATAAAGTATCGATATTTATAAACATGTATCGATACATAACAATTAACAGGTAAAAAT
Found at i:812769 original size:19 final size:19
Alignment explanation
Indices: 812708--812770 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
812698 TTAGAAAGTG
812708 ATATTATAGGTAGAAAATA
1 ATATTATAGGTAGAAAATA
** * *
812727 AGTATTGATACCT-GTATATA
1 A-TATT-ATAGGTAGAAAATA
*
812747 ATATTATAGGTAGAAAATG
1 ATATTATAGGTAGAAAATA
812766 ATATT
1 ATATT
812771 GTAAGTTGTA
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
18 4 0.12
19 14 0.44
20 10 0.31
21 4 0.12
ACGTcount: A:0.44, C:0.03, G:0.16, T:0.37
Consensus pattern (19 bp):
ATATTATAGGTAGAAAATA
Found at i:816395 original size:28 final size:28
Alignment explanation
Indices: 816348--816431 Score: 79
Period size: 28 Copynumber: 3.0 Consensus size: 28
816338 CAAAATAAAC
*
816348 ATCC-AAACAA-ACAATTCAAACATTCAA
1 ATCCAAAACAACA-AATCCAAACATTCAA
816375 ATTCCAAAAC-ACAAATCCAAAACA--CAA
1 A-TCCAAAACAACAAATCC-AAACATTCAA
*
816402 ATCCAAAACAAACAAATCCAAATATTCAA
1 ATCCAAAAC-AACAAATCCAAACATTCAA
816431 A
1 A
816432 ATGTTTTGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
26 8 0.17
27 9 0.19
28 16 0.34
29 14 0.30
ACGTcount: A:0.58, C:0.26, G:0.00, T:0.15
Consensus pattern (28 bp):
ATCCAAAACAACAAATCCAAACATTCAA
Found at i:816418 original size:15 final size:13
Alignment explanation
Indices: 816372--816423 Score: 77
Period size: 13 Copynumber: 3.8 Consensus size: 13
816362 TTCAAACATT
816372 CAAATTCCAAAACA
1 CAAA-TCCAAAACA
816386 CAAATCCAAAACA
1 CAAATCCAAAACA
816399 CAAATCCAAAACAAA
1 CAAATCCAAAAC--A
816414 CAAATCCAAA
1 CAAATCCAAA
816424 TATTCAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
13 21 0.58
14 4 0.11
15 11 0.31
ACGTcount: A:0.62, C:0.29, G:0.00, T:0.10
Consensus pattern (13 bp):
CAAATCCAAAACA
Found at i:817882 original size:13 final size:13
Alignment explanation
Indices: 817864--817902 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
817854 AATGGGAAAT
*
817864 TTTGAAAACTATG
1 TTTGAAAACAATG
817877 TTTGAAAACAATG
1 TTTGAAAACAATG
817890 TTTGAAAATCAAT
1 TTTGAAAA-CAAT
817903 ATGTAGTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 20 0.83
14 4 0.17
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.36
Consensus pattern (13 bp):
TTTGAAAACAATG
Found at i:817957 original size:20 final size:20
Alignment explanation
Indices: 817912--817959 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
817902 TATGTAGTTT
*
817912 CCAAAACAACATAATTAAAT
1 CCAAAACAACATAATTAAAA
* *
817932 CAAAAACAACA-ATTTTAAAA
1 CCAAAACAACATA-ATTAAAA
817952 CCAAAACA
1 CCAAAACA
817960 TTTTTTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.62, C:0.21, G:0.00, T:0.17
Consensus pattern (20 bp):
CCAAAACAACATAATTAAAA
Found at i:818429 original size:20 final size:22
Alignment explanation
Indices: 818380--818441 Score: 85
Period size: 20 Copynumber: 2.9 Consensus size: 22
818370 GTACCCTTAT
818380 AGGGGTATCGATACAC-AGTCAA
1 AGGGGTATCGATAC-CTAGTCAA
818402 AGGGGGTATCGATACCTAG-C-A
1 A-GGGGTATCGATACCTAGTCAA
818423 AGGGGTATCGATACCTAGT
1 AGGGGTATCGATACCTAGT
818442 GCACAAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
20 17 0.46
21 2 0.05
22 3 0.08
23 15 0.41
ACGTcount: A:0.31, C:0.18, G:0.31, T:0.21
Consensus pattern (22 bp):
AGGGGTATCGATACCTAGTCAA
Found at i:822039 original size:672 final size:672
Alignment explanation
Indices: 820754--822098 Score: 2618
Period size: 672 Copynumber: 2.0 Consensus size: 672
820744 TTTAAAATAG
*
820754 GCCTAATCATTACTTGATTAATAACATAACAAGTGGTATGGCTTCTGTCCAAAAATATTTTGGCA
1 GCCTAATCATTACTCGATTAATAACATAACAAGTGGTATGGCTTCTGTCCAAAAATATTTTGGCA
820819 AATTGTTTTCGCAAAGCATGGTTCTAACCATTTCTTCTAAAGTTTGATTTTTTCTCTCAACAAGT
66 AATTGTTTTCGCAAAGCATGGTTCTAACCATTTCTTCTAAAGTTTGATTTTTTCTCTCAACAAGT
820884 TCATTTTGTTGAGGGGTTCTAGGTGCTGAAAAATTATGGATAATACCATTAGAATTACAAAACTC
131 TCATTTTGTTGAGGGGTTCTAGGTGCTGAAAAATTATGGATAATACCATTAGAATTACAAAACTC
820949 ACTAAATCCAAGATTTTCAAATTCAGTACCATGATCACTCCTAACACTAGTCATGGAGTAACCCT
196 ACTAAATCCAAGATTTTCAAATTCAGTACCATGATCACTCCTAACACTAGTCATGGAGTAACCCT
821014 TTTTATTTTGGATTACTTTTGAAAACGTGATGAATTTTTCTAATGCTTCATCTTTAGTACTTAAG
261 TTTTATTTTGGATTACTTTTGAAAACGTGATGAATTTTTCTAATGCTTCATCTTTAGTACTTAAG
821079 AATAGAACCCAAGTATATCTAGAATAGTCATCTACCAATACAAAGTAATATTGTTTTCCACCCAT
326 AATAGAACCCAAGTATATCTAGAATAGTCATCTACCAATACAAAGTAATATTGTTTTCCACCCAT
*
821144 GCTAACAGTCCTAATTGGCCCAAAAAGATCAATATGGATCAATTGCAATACTCTACTAGTTGATA
391 ACTAACAGTCCTAATTGGCCCAAAAAGATCAATATGGATCAATTGCAATACTCTACTAGTTGATA
*
821209 CATCGTTAATGGACTTAAAGGAAGCTCTTTGATGTTTTCCTTTAGCACATGCATCATAGATTTTA
456 CATCGTTAATGGACTTAAAGGAAGCTCTTTGATGTTTTCCTTTAGCACATGCATCACAGATTTTA
821274 TCTTTATCAAATTTTAGCTTTGGCAACCCTCTTACTAAATCTCTTTGAATTAGTCTTTGTAAAAC
521 TCTTTATCAAATTTTAGCTTTGGCAACCCTCTTACTAAATCTCTTTGAATTAGTCTTTGTAAAAC
*
821339 ACTCATGCTTGTATGTCCTAGCCTCCTATGCCATAACCAACTATCATGTTCATCCTTGGCAACTA
586 ACTCATGCTTGTATATCCTAGCCTCCTATGCCATAACCAACTATCATGTTCATCCTTGGCAACTA
821404 GGCATAAATTAGTCATATTTAT
651 GGCATAAATTAGTCATATTTAT
821426 GCCTAATCATTACTCGATTAATAACATAACAAGTGGTATGGCTTCTGTCCAAAAATATTTTGGCA
1 GCCTAATCATTACTCGATTAATAACATAACAAGTGGTATGGCTTCTGTCCAAAAATATTTTGGCA
821491 AATTGTTTTCGCAAAGCATGGTTCTAACCATTTCTTCTAAAGTTTGATTTTTTCTCTCAACAAGT
66 AATTGTTTTCGCAAAGCATGGTTCTAACCATTTCTTCTAAAGTTTGATTTTTTCTCTCAACAAGT
821556 TCATTTTGTTGAGGGGTTCTAGGTGCTGAAAAATTATGGATAATACCATTAGAATTACAAAACTC
131 TCATTTTGTTGAGGGGTTCTAGGTGCTGAAAAATTATGGATAATACCATTAGAATTACAAAACTC
821621 ACTAAATCCAAGATTTTCAAATTCAGTACCATGATCACTCCTAACACTAGTCATGGAGTAACCCT
196 ACTAAATCCAAGATTTTCAAATTCAGTACCATGATCACTCCTAACACTAGTCATGGAGTAACCCT
821686 TTTTATTTTGGATTACTTTTGAAAACGTGATGAATTTTTCTAATGCTTCATCTTTAGTACTTAAG
261 TTTTATTTTGGATTACTTTTGAAAACGTGATGAATTTTTCTAATGCTTCATCTTTAGTACTTAAG
*
821751 AATAGAACCCAAGTATATCTAGAATATTCATCTACCAATACAAAGTAATATTGTTTTCCACCCAT
326 AATAGAACCCAAGTATATCTAGAATAGTCATCTACCAATACAAAGTAATATTGTTTTCCACCCAT
821816 ACTAACAGTCCTAATTGGCCCAAAAAGATCAATATGGATCAATTGCAATACTCTACTAGTTGATA
391 ACTAACAGTCCTAATTGGCCCAAAAAGATCAATATGGATCAATTGCAATACTCTACTAGTTGATA
821881 CATCGTTAATGGACTTAAAGGAAGCTCTTTGATGTTTTCCTTTAGCACATGCATCACAGATTTTA
456 CATCGTTAATGGACTTAAAGGAAGCTCTTTGATGTTTTCCTTTAGCACATGCATCACAGATTTTA
821946 TCTTTATCAAATTTTAGCTTTGGCAACCCTCTTACTAAATCTCTTTGAATTAGTCTTTGTAAAAC
521 TCTTTATCAAATTTTAGCTTTGGCAACCCTCTTACTAAATCTCTTTGAATTAGTCTTTGTAAAAC
* * *
822011 ACTCATGCTTGTATATCCTAGTCTCCTATGCCATAACCAACTATCATGTTCATTCTTGGTAACTA
586 ACTCATGCTTGTATATCCTAGCCTCCTATGCCATAACCAACTATCATGTTCATCCTTGGCAACTA
822076 GGCATAAATTAGTCATATTTAT
651 GGCATAAATTAGTCATATTTAT
822098 G
1 G
822099 GAATCTAAAT
Statistics
Matches: 665, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
672 665 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (672 bp):
GCCTAATCATTACTCGATTAATAACATAACAAGTGGTATGGCTTCTGTCCAAAAATATTTTGGCA
AATTGTTTTCGCAAAGCATGGTTCTAACCATTTCTTCTAAAGTTTGATTTTTTCTCTCAACAAGT
TCATTTTGTTGAGGGGTTCTAGGTGCTGAAAAATTATGGATAATACCATTAGAATTACAAAACTC
ACTAAATCCAAGATTTTCAAATTCAGTACCATGATCACTCCTAACACTAGTCATGGAGTAACCCT
TTTTATTTTGGATTACTTTTGAAAACGTGATGAATTTTTCTAATGCTTCATCTTTAGTACTTAAG
AATAGAACCCAAGTATATCTAGAATAGTCATCTACCAATACAAAGTAATATTGTTTTCCACCCAT
ACTAACAGTCCTAATTGGCCCAAAAAGATCAATATGGATCAATTGCAATACTCTACTAGTTGATA
CATCGTTAATGGACTTAAAGGAAGCTCTTTGATGTTTTCCTTTAGCACATGCATCACAGATTTTA
TCTTTATCAAATTTTAGCTTTGGCAACCCTCTTACTAAATCTCTTTGAATTAGTCTTTGTAAAAC
ACTCATGCTTGTATATCCTAGCCTCCTATGCCATAACCAACTATCATGTTCATCCTTGGCAACTA
GGCATAAATTAGTCATATTTAT
Found at i:824960 original size:75 final size:76
Alignment explanation
Indices: 824870--825017 Score: 244
Period size: 75 Copynumber: 1.9 Consensus size: 76
824860 GTATCGGTAG
* *
824870 CCATAGGGCATTCTGTTTTTCTCGGAGCCAAAAATTTGCATAGGGCTATCGGT-ACCCTATGAGG
1 CCATAGGGCAATCTGTTTTTCTCGGAGCCAAAAATTGGCATAGGGCTATCGGTAACCCTATGAGG
824934 GGTATCGACAC
66 GGTATCGACAC
* *
824945 CCATTGGGCAATCTGTTTTTCTCGGAGCCAAAAATTGGCATAGGGGTATCGGTACACCCTATGAG
1 CCATAGGGCAATCTGTTTTTCTCGGAGCCAAAAATTGGCATAGGGCTATCGGTA-ACCCTATGAG
825010 GGGTATCG
65 GGGTATCG
825018 GTACCTCCTT
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
75 49 0.73
77 18 0.27
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (76 bp):
CCATAGGGCAATCTGTTTTTCTCGGAGCCAAAAATTGGCATAGGGCTATCGGTAACCCTATGAGG
GGTATCGACAC
Found at i:826108 original size:19 final size:20
Alignment explanation
Indices: 826073--826113 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
826063 ACGTAGGAAG
826073 TATCGATACCTATGACACATA
1 TATCGATACCTATGACA-ATA
826094 TATCGATA-C-ATGACAATA
1 TATCGATACCTATGACAATA
826112 TA
1 TA
826114 ACAAGTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 6 0.30
20 1 0.05
21 8 0.40
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (20 bp):
TATCGATACCTATGACAATA
Found at i:828470 original size:2 final size:2
Alignment explanation
Indices: 828465--828498 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
828455 AAATATATCG
828465 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
828499 TCCATAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:829244 original size:108 final size:107
Alignment explanation
Indices: 829105--829474 Score: 282
Period size: 108 Copynumber: 3.3 Consensus size: 107
829095 TAATCGGTTA
* * **
829105 TGTTATCGTCGGATTTCTAAGGCTCTGTCAGCTTAAACTTTGGCAACATTATAGGCATTACCTAA
1 TGTTATCGTCGGATTTCCAAAGCTCCATCAGCTTAAACTTTGGCAACATTATAGGC-TTACCTAA
829170 TATGTTGATAATACTAATAACAAATTAAGTAATTAACATATTT
65 TATGTTGATAATACTAATAACAAATTAAGTAATTAACATATTT
* ** ** **
829213 TGTTATCGTCGGATTTCCAAAGCCCCATCAGCTTAAAAAGACGCTACCTATTATGTTATATAAGA
1 TGTTATCGTCGGATTTCCAAAGCTCCATCAGCTT---AA-ACTTTGGC-A--A-CAT-TAT-AG-
* * *** * *
829278 GC-TACCTAATATGTT-ATTATGCTTAATAA-TGTTTACAGTAA-GAA-ATCAGTTA
55 GCTTACCTAATATGTTGATAATAC-TAATAACAAATTA-AGTAATTAACAT-A-TTT
* ** * * * * *
829330 TGTTATCGTCGGATTTCTAGGGCTCTATTAGCTTAAACTTTGGTAACATTTTAGGCGTTATCTAA
1 TGTTATCGTCGGATTTCCAAAGCTCCATCAGCTTAAACTTTGGCAACATTATAGGC-TTACCTAA
*
829395 TATGTTGATAATACTAATAACAAATTAAGTAATTAACCTATTT
65 TATGTTGATAATACTAATAACAAATTAAGTAATTAACATATTT
* * *
829438 TGTTATCGTTGGATTTTCAAAGCACCATCAGCTTAAA
1 TGTTATCGTCGGATTTCCAAAGCTCCATCAGCTTAAA
829475 AAGGCACTAC
Statistics
Matches: 192, Mismatches: 49, Indels: 42
0.68 0.17 0.15
Matches are distributed among these distances:
106 2 0.01
107 2 0.01
108 85 0.44
109 12 0.06
110 2 0.01
111 2 0.01
112 5 0.03
113 4 0.02
114 2 0.01
115 3 0.02
116 12 0.06
117 57 0.30
118 2 0.01
119 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (107 bp):
TGTTATCGTCGGATTTCCAAAGCTCCATCAGCTTAAACTTTGGCAACATTATAGGCTTACCTAAT
ATGTTGATAATACTAATAACAAATTAAGTAATTAACATATTT
Found at i:829263 original size:225 final size:221
Alignment explanation
Indices: 828879--829553 Score: 886
Period size: 225 Copynumber: 3.1 Consensus size: 221
828869 ATTAACCATA
** * * * * *
828879 TATGTTATCGTCAAATTCCTAAGGCTCCATCAGCTTAAATTTTGTTAGCATTTAGGCGTTACCTA
1 TATGTTATCGTCGGATTTCTAAGGCTCTATCAGCTTAAACTTTGGTAACATTTAGGCGTTACCTA
* * *
828944 ATATGTTGATCATACTAATAACAAATTAAGTAATTAACCTATTTT-TTATCATCGGATTTAAAAG
66 ATATGTTGATAATACTAATAACAAATTAAGTAATTAACCTATTTTGTTATCGTCGGATTTCAAA-
* * * *
829008 GCCCTATCAGCTTTAATAATGTGATACCTATTACGTTATATAAACGCTACCTAATATGTTATTAT
130 GCCCCATCAGC-TTAA-AAAGCGCTACCTATTACGTTATATAAA-GCTACCTAATATGTTATTAT
829073 GCTTAATAATGTTTACAGTAATTAATCGGT
192 GCTTAATAATGTTTACAGTAATTAATCGGT
* * *
829103 TATGTTATCGTCGGATTTCTAAGGCTCTGTCAGCTTAAACTTTGGCAACATTATAGGCATTACCT
1 TATGTTATCGTCGGATTTCTAAGGCTCTATCAGCTTAAACTTTGGTAACATT-TAGGCGTTACCT
*
829168 AATATGTTGATAATACTAATAACAAATTAAGTAATTAACATATTTTGTTATCGTCGGATTTCCAA
65 AATATGTTGATAATACTAATAACAAATTAAGTAATTAACCTATTTTGTTATCGTCGGATTT-CAA
*
829233 AGCCCCATCAGCTTAAAAAGACGCTACCTATTATGTTATATAAGAGCTACCTAATATGTTATTAT
129 AGCCCCATCAGCTTAAAAAG-CGCTACCTATTACGTTATATAA-AGCTACCTAATATGTTATTAT
** *
829298 GCTTAATAATGTTTACAGTAAGAAATCAGT
192 GCTTAATAATGTTTACAGTAATTAATCGGT
* * *
829328 TATGTTATCGTCGGATTTCTAGGGCTCTATTAGCTTAAACTTTGGTAACATTTTAGGCGTTATCT
1 TATGTTATCGTCGGATTTCTAAGGCTCTATCAGCTTAAACTTTGGTAACA-TTTAGGCGTTACCT
*
829393 AATATGTTGATAATACTAATAACAAATTAAGTAATTAACCTATTTTGTTATCGTTGGATTTTCAA
65 AATATGTTGATAATACTAATAACAAATTAAGTAATTAACCTATTTTGTTATCGTCGGA-TTTCAA
* *
829458 AGCACCATCAGCTTAAAAAGGCACTACCTATTACG---T-T--A--T--CTAATATGTTATTATG
129 AGCCCCATCAGCTTAAAAA-GCGCTACCTATTACGTTATATAAAGCTACCTAATATGTTATTATG
* * * *
829513 CTTGACAATGTTTTCAGTAATTAATCGAT
193 CTTAATAATGTTTACAGTAATTAATCGGT
829542 TATGTTATCGTC
1 TATGTTATCGTC
829554 ATATTTCCAT
Statistics
Matches: 403, Mismatches: 40, Indels: 26
0.86 0.09 0.06
Matches are distributed among these distances:
214 50 0.12
216 1 0.00
218 1 0.00
221 1 0.00
222 1 0.00
224 46 0.11
225 270 0.67
226 30 0.07
227 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (221 bp):
TATGTTATCGTCGGATTTCTAAGGCTCTATCAGCTTAAACTTTGGTAACATTTAGGCGTTACCTA
ATATGTTGATAATACTAATAACAAATTAAGTAATTAACCTATTTTGTTATCGTCGGATTTCAAAG
CCCCATCAGCTTAAAAAGCGCTACCTATTACGTTATATAAAGCTACCTAATATGTTATTATGCTT
AATAATGTTTACAGTAATTAATCGGT
Found at i:829281 original size:23 final size:24
Alignment explanation
Indices: 829250--829294 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
829240 TCAGCTTAAA
*
829250 AAGACGCTACCTATTATGTTATAT
1 AAGACGCTACCTAATATGTTATAT
829274 AAGA-GCTACCTAATATGTTAT
1 AAGACGCTACCTAATATGTTAT
829295 TATGCTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (24 bp):
AAGACGCTACCTAATATGTTATAT
Found at i:830458 original size:3 final size:3
Alignment explanation
Indices: 830442--830483 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
830432 TCTATAAAAA
*
830442 TAT TAT TAA T-T TAT TAT ATAT TAT ATAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT -TAT TAT -TAT TAT TAT TAT TAT TA
830484 ATTTACAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 1 0.03
3 27 0.79
4 6 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:831301 original size:14 final size:15
Alignment explanation
Indices: 831274--831303 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
831264 GGATTCTGGG
831274 TTTCTTTGCTCTCTC
1 TTTCTTTGCTCTCTC
831289 TTTCTTT-CTCTCTC
1 TTTCTTTGCTCTCTC
831303 T
1 T
831304 CCCTCTCCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.00, C:0.33, G:0.03, T:0.63
Consensus pattern (15 bp):
TTTCTTTGCTCTCTC
Found at i:831873 original size:29 final size:27
Alignment explanation
Indices: 831832--831889 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 27
831822 TGGGTTCTGG
*
831832 TTTATTTTGTAATTACT-GTTTAGCCCT
1 TTTATTTTGTAA-TACTAATTTAGCCCT
831859 TTTAGTTTATGTAATACTAATTTAGCCCT
1 TTTA-TTT-TGTAATACTAATTTAGCCCT
831888 TT
1 TT
831890 AACTTTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 4 0.15
28 7 0.26
29 16 0.59
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.53
Consensus pattern (27 bp):
TTTATTTTGTAATACTAATTTAGCCCT
Found at i:831962 original size:30 final size:29
Alignment explanation
Indices: 831878--832036 Score: 88
Period size: 30 Copynumber: 5.4 Consensus size: 29
831868 TGTAATACTA
* * * *
831878 ATTTAGCCCTTTAACTTTTTATTATTGCT
1 ATTTAGTCCTTTAAATTTCTATTTTTGCT
*** * * *
831907 ATTTTAGTCCTCCGATTTTCAATTTTTGTT
1 A-TTTAGTCCTTTAAATTTCTATTTTTGCT
831937 ATTTCAGTCCTTTAAATTTCTATTTTT-CT
1 ATTT-AGTCCTTTAAATTTCTATTTTTGCT
* * * *
831966 ATTTTAGTCCCTTAAGTTTTTGTTTTTGCT
1 A-TTTAGTCCTTTAAATTTCTATTTTTGCT
* * **
831996 ATTTGAATCTTTTTCATTTCTATTTTTG-T
1 ATTT-AGTCCTTTAAATTTCTATTTTTGCT
*
832025 GTTTTAGTCCTT
1 -ATTTAGTCCTT
832037 CAAGTTTTTG
Statistics
Matches: 94, Mismatches: 30, Indels: 12
0.69 0.22 0.09
Matches are distributed among these distances:
29 33 0.35
30 61 0.65
ACGTcount: A:0.17, C:0.15, G:0.09, T:0.59
Consensus pattern (29 bp):
ATTTAGTCCTTTAAATTTCTATTTTTGCT
Found at i:831992 original size:59 final size:59
Alignment explanation
Indices: 831885--832048 Score: 152
Period size: 59 Copynumber: 2.8 Consensus size: 59
831875 CTAATTTAGC
* * * * * ** * *
831885 CCTTTAACTTTTTATTATTGCTATTTTAGTCCTCCGA-TTTTCAATTTTTGTTATTTCAGT
1 CCTTTAAATTTCTATT-TTTCTATTTTAGTCCTTCAAGTTTT-TGTTTTTGCTATTTCAAT
*
831945 CCTTTAAATTTCTATTTTTCTATTTTAGTCCCTT-AAGTTTTTGTTTTTGCTATTTGAAT
1 CCTTTAAATTTCTATTTTTCTATTTTAGT-CCTTCAAGTTTTTGTTTTTGCTATTTCAAT
* ** * *
832004 CTTTTTCATTTCTATTTTTGTGTTTTAGTCCTTCAAGTTTTTGTT
1 CCTTTAAATTTCTATTTTTCTATTTTAGTCCTTCAAGTTTTTGTT
832049 AATTATATTT
Statistics
Matches: 86, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
58 4 0.05
59 61 0.71
60 21 0.24
ACGTcount: A:0.16, C:0.15, G:0.09, T:0.60
Consensus pattern (59 bp):
CCTTTAAATTTCTATTTTTCTATTTTAGTCCTTCAAGTTTTTGTTTTTGCTATTTCAAT
Found at i:832831 original size:16 final size:17
Alignment explanation
Indices: 832794--832831 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
832784 GCATACCAGC
832794 TTTTTGTCTTAAAAATG
1 TTTTTGTCTTAAAAATG
* *
832811 ATTTT-TCTTAAAATTG
1 TTTTTGTCTTAAAAATG
832827 TTTTT
1 TTTTT
832832 AAAAGATGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.61
Consensus pattern (17 bp):
TTTTTGTCTTAAAAATG
Found at i:834042 original size:14 final size:14
Alignment explanation
Indices: 834023--834049 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
834013 ACATTAGCAT
834023 TTAAATAATTCATA
1 TTAAATAATTCATA
834037 TTAAATAATTCAT
1 TTAAATAATTCAT
834050 TTTCATCTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAAATAATTCATA
Found at i:834546 original size:20 final size:20
Alignment explanation
Indices: 834523--834574 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
834513 TACCCTTACC
834523 ATGGTATCGATACTGCATCA
1 ATGGTATCGATACTGCATCA
*
834543 ATGGTGTCGATACTGCATCA
1 ATGGTATCGATACTGCATCA
834563 ATGGTATCGATA
1 ATGGTATCGATA
834575 TTGATTGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (20 bp):
ATGGTATCGATACTGCATCA
Found at i:834569 original size:95 final size:93
Alignment explanation
Indices: 834374--834570 Score: 229
Period size: 95 Copynumber: 2.1 Consensus size: 93
834364 TATCTCTACC
* *
834374 TGGTATCGATACCAAAATTAGGTTCGATGTTTCATTGTATCGATACCCTTACCATGGTATCGATA
1 TGGTATCAATACCAAAATTAGATTCGATGTTTCATTGTATCGATACCCTTACCATGGTATCG--A
** * * *
834439 ATACTTTATTAAGGTATCGATACCTCCTTA
64 ATACTGCATCAAGGTATCGATACCTCATAA
*
834469 CGGTATCAATACCAAAATTAGATTCGATGTTTGC-TTGGTATCGATACCCTTACCATGGTATCG-
1 TGGTATCAATACCAAAATTAGATTCGATGTTT-CATT-GTATCGATACCCTTACCATGGTATCGA
*
834532 ATACTGCATCAATGGTGTCGATA-CTGCATCAA
64 ATACTGCATCAA-GGTATCGATACCT-CAT-AA
834564 TGGTATC
1 TGGTATC
834571 GATATTGATT
Statistics
Matches: 87, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
93 11 0.13
94 11 0.13
95 38 0.44
96 27 0.31
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (93 bp):
TGGTATCAATACCAAAATTAGATTCGATGTTTCATTGTATCGATACCCTTACCATGGTATCGAAT
ACTGCATCAAGGTATCGATACCTCATAA
Found at i:835272 original size:25 final size:24
Alignment explanation
Indices: 835234--835298 Score: 67
Period size: 27 Copynumber: 2.5 Consensus size: 24
835224 AGATCAAATC
* *
835234 AAAGCAAAGAGAAAAACAAAGAGAAA
1 AAAGTAAAGAAAAAAAC-AA-AGAAA
835260 AGAAGTAAAGAAACAAAACAAAGAAA
1 A-AAGTAAAGAAA-AAAACAAAGAAA
*
835286 AAAGTGAAGAAAA
1 AAAGTAAAGAAAA
835299 GAAGACAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 1 0.03
25 10 0.29
26 7 0.21
27 11 0.32
28 5 0.15
ACGTcount: A:0.72, C:0.06, G:0.18, T:0.03
Consensus pattern (24 bp):
AAAGTAAAGAAAAAAACAAAGAAA
Found at i:836393 original size:32 final size:32
Alignment explanation
Indices: 836367--836440 Score: 139
Period size: 32 Copynumber: 2.3 Consensus size: 32
836357 ATCTTTGGAG
836367 ATTCAACATCGAATGTTGAGGTATCTTTAGGT
1 ATTCAACATCGAATGTTGAGGTATCTTTAGGT
*
836399 ATTCAACATTGAATGTTGAGGTATCTTTAGGT
1 ATTCAACATCGAATGTTGAGGTATCTTTAGGT
836431 ATTCAACATC
1 ATTCAACATC
836441 CTGAAGTGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.38
Consensus pattern (32 bp):
ATTCAACATCGAATGTTGAGGTATCTTTAGGT
Found at i:836808 original size:21 final size:20
Alignment explanation
Indices: 836779--836820 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
836769 ATCTGTGAGA
*
836779 TTGTTTCTCTTGAAACAAGTT
1 TTGTCTCTCTTGAAAC-AGTT
*
836800 TTGTCTCTCTTGAGACAGTT
1 TTGTCTCTCTTGAAACAGTT
836820 T
1 T
836821 CTTTTGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.48
Consensus pattern (20 bp):
TTGTCTCTCTTGAAACAGTT
Found at i:836878 original size:65 final size:65
Alignment explanation
Indices: 836780--836926 Score: 217
Period size: 65 Copynumber: 2.3 Consensus size: 65
836770 TCTGTGAGAT
* *
836780 TGTTTCTCTTGAAACAAGTTTTGTCTCTCTTGAGACAGTTTCTT-TTGAAAAAAATCTTTGAGTC
1 TGTTTCTCTTGAAACAAGTTTTGTCTCTCTTGAGACAGTTTCTTGTGGAAAAAAACCTTTGAGTC
*
836844 TGTTTCT-TTGGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTTGTGGAAAAAAACCTTTGCG
1 TGTTTCTCTT-GAAAC-AAGTTTTGTCTCTCTTGAGACAGTTTCTTGTGGAAAAAAACCTTTGAG
*
836908 TT
64 TC
*
836910 TGTTTCCCTTGAAACAA
1 TGTTTCTCTTGAAACAA
836927 AACAAACAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
63 2 0.03
64 12 0.16
65 31 0.42
66 27 0.36
67 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.41
Consensus pattern (65 bp):
TGTTTCTCTTGAAACAAGTTTTGTCTCTCTTGAGACAGTTTCTTGTGGAAAAAAACCTTTGAGTC
Found at i:836961 original size:38 final size:35
Alignment explanation
Indices: 836910--836999 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 35
836900 CCTTTGCGTT
*
836910 TGTTTCCCTTGAAACAAAACAAACAAAATCATTGAGTC
1 TGTTTCTCTTGAAACAAAACAAAC---ATCATTGAGTC
*
836948 TGTTTCTCTTGAAAC--AA-AAACATCTTTGAGTC
1 TGTTTCTCTTGAAACAAAACAAACATCATTGAGTC
*
836980 TGTTTCTCTTGAAATAAAAC
1 TGTTTCTCTTGAAACAAAAC
837000 CATCTTTGAG
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
32 24 0.52
34 2 0.04
35 4 0.09
36 2 0.04
38 14 0.30
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (35 bp):
TGTTTCTCTTGAAACAAAACAAACATCATTGAGTC
Found at i:837022 original size:31 final size:32
Alignment explanation
Indices: 836926--837025 Score: 130
Period size: 32 Copynumber: 3.1 Consensus size: 32
836916 CCTTGAAACA
* *
836926 AAACAAACAAAATCATTGAGTCTGTTTCTCTTG
1 AAACAAA-AACATCTTTGAGTCTGTTTCTCTTG
836959 AAACAAAAACATCTTTGAGTCTGTTTCTCTTG
1 AAACAAAAACATCTTTGAGTCTGTTTCTCTTG
* * * *
836991 AAATAAAACCATCTTTGAGTC-ATTTCCCTTG
1 AAACAAAAACATCTTTGAGTCTGTTTCTCTTG
837022 AAAC
1 AAAC
837026 GAATTTTATC
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
31 11 0.18
32 42 0.70
33 7 0.12
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.34
Consensus pattern (32 bp):
AAACAAAAACATCTTTGAGTCTGTTTCTCTTG
Found at i:837337 original size:43 final size:43
Alignment explanation
Indices: 837159--837476 Score: 161
Period size: 40 Copynumber: 7.3 Consensus size: 43
837149 CCATACCTCA
* * *
837159 TCATCACGTAGGAGCCGTGTCAACCTTAGATAACCTGTCGTTC
1 TCATCACGTAGGAGCTGTGTCAACCTTAGATAACATGTCGTCC
* * * ** *
837202 TCATCACGTAGGAATCCTGTAATCATCCTTAAAGATGGCATGCCGTCC
1 TCATCACGTAGG-A-GCTGT-GTCAACCTT--AGATAACATGTCGTCC
* * * * * *
837250 TCATCACATAAGAACTGTGTCATCC----ATCAAC-TAGACCTCC
1 TCATCACGTAGGAGCTGTGTCAACCTTAGAT-AACAT-GTCGTCC
*
837290 TCATCACGTAGGAGCTGTGTCAACCTTAGATAACATGTCATCC
1 TCATCACGTAGGAGCTGTGTCAACCTTAGATAACATGTCGTCC
* * * * ** *
837333 TCATCACGTAGGAATCGTGTTATCATCCCTAAAGATGGCATGTTGTCC
1 TCATCACGTAGG-AGC-TG-TGTCA-ACCT-TAGATAACATGTCGTCC
* * * * * * *
837381 TCATCACGTAGGAACTGTGTCATCCATCG--ACCA-GACCTCC
1 TCATCACGTAGGAGCTGTGTCAACCTTAGATAACATGTCGTCC
*
837421 TCATCACGT-GGAAG-TCGTGTCAACCTTAGATAACCTGTCGTCC
1 TCATCACGTAGG-AGCT-GTGTCAACCTTAGATAACATGTCGTCC
837464 TCATCACGTAGGA
1 TCATCACGTAGGA
837477 ACCGTGTTAT
Statistics
Matches: 202, Mismatches: 50, Indels: 46
0.68 0.17 0.15
Matches are distributed among these distances:
39 6 0.03
40 51 0.25
41 2 0.01
42 2 0.01
43 48 0.24
44 10 0.05
45 15 0.07
46 17 0.08
47 6 0.03
48 45 0.22
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (43 bp):
TCATCACGTAGGAGCTGTGTCAACCTTAGATAACATGTCGTCC
Found at i:837483 original size:43 final size:43
Alignment explanation
Indices: 837159--837483 Score: 173
Period size: 43 Copynumber: 7.5 Consensus size: 43
837149 CCATACCTCA
* *
837159 TCATCACGTAGGAGCCGTGTCAACCTTAGATAACCTGTCGTTC
1 TCATCACGTAGGAACCGTGTCAACCTTAGATAACCTGTCGTCC
* * ** * *
837202 TCATCACGTAGGAATCCTGTAATCATCCTTAAAGATGGCATGCCGTCC
1 TCATCACGTAGGAA-CC-GT-GTCAACCTT--AGATAACCTGTCGTCC
* * * * * *
837250 TCATCACATAAGAACTGTGTCATCC----ATCAA-CTAGACCTCC
1 TCATCACGTAGGAACCGTGTCAACCTTAGAT-AACCT-GTCGTCC
* * * *
837290 TCATCACGTAGGAGCTGTGTCAACCTTAGATAACATGTCATCC
1 TCATCACGTAGGAACCGTGTCAACCTTAGATAACCTGTCGTCC
* * * ** * *
837333 TCATCACGTAGGAATCGTGTTATCATCCCTAAAGATGGCATGTTGTCC
1 TCATCACGTAGGAACCGTG---TCA-ACCT-TAGATAACCTGTCGTCC
* * * * * * *
837381 TCATCACGTAGGAACTGTGTCATCCATCG---ACCAGACCTCC
1 TCATCACGTAGGAACCGTGTCAACCTTAGATAACCTGTCGTCC
*
837421 TCATCACGT-GGAAGTCGTGTCAACCTTAGATAACCTGTCGTCC
1 TCATCACGTAGGAA-CCGTGTCAACCTTAGATAACCTGTCGTCC
837464 TCATCACGTAGGAACCGTGT
1 TCATCACGTAGGAACCGTGT
837484 TATCATCCCT
Statistics
Matches: 206, Mismatches: 54, Indels: 44
0.68 0.18 0.14
Matches are distributed among these distances:
39 7 0.03
40 50 0.24
43 59 0.29
44 11 0.05
45 11 0.05
46 12 0.06
47 4 0.02
48 52 0.25
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (43 bp):
TCATCACGTAGGAACCGTGTCAACCTTAGATAACCTGTCGTCC
Found at i:837614 original size:131 final size:131
Alignment explanation
Indices: 837095--837581 Score: 642
Period size: 131 Copynumber: 3.7 Consensus size: 131
837085 TGAAACCATT
* * * *
837095 ATCCCTAAAGATGGTATGTCATCCTCATCGA-GTAGGAACTGTGTCATCC-TCTGACCATACCTC
1 ATCCCTAAAGATGGCATGCCATCCTCATC-ACGTAGAAACTGTGTCATCCATC-GACCAGACCTC
* *
837158 ATCATCACGTAGGAGCCGTGTCAACCTTAGATAACCTGTCGTTCTCATCACGTAGGAATCC-TGT
64 CTCATCACGTAGGAGCCGTGTCAACCTTAGATAACCTGTCGTCCTCATCACGTAGGAA-CCGTGT
*
837222 AATC
128 TATC
* * * * *
837226 ATCCTTAAAGATGGCATGCCGTCCTCATCACATA-AGAACTGTGTCATCCATCAACTAGACCTCC
1 ATCCCTAAAGATGGCATGCCATCCTCATCACGTAGA-AACTGTGTCATCCATCGACCAGACCTCC
* * * *
837290 TCATCACGTAGGAGCTGTGTCAACCTTAGATAACATGTCATCCTCATCACGTAGGAATCGTGTTA
65 TCATCACGTAGGAGCCGTGTCAACCTTAGATAACCTGTCGTCCTCATCACGTAGGAACCGTGTTA
837355 TC
130 TC
*** *
837357 ATCCCTAAAGATGGCATGTTGTCCTCATCACGTAGGAACTGTGTCATCCATCGACCAGACCTCCT
1 ATCCCTAAAGATGGCATGCCATCCTCATCACGTAGAAACTGTGTCATCCATCGACCAGACCTCCT
*
837422 CATCACGT-GGAAGTCGTGTCAACCTTAGATAACCTGTCGTCCTCATCACGTAGGAACCGTGTTA
66 CATCACGTAGG-AGCCGTGTCAACCTTAGATAACCTGTCGTCCTCATCACGTAGGAACCGTGTTA
837486 TC
130 TC
* * * * *
837488 ATCCCTAAAGATGGCCTACCATCCTCATCACGTAGAAACCGTGTCATCCATCGACCAAATCTCCT
1 ATCCCTAAAGATGGCATGCCATCCTCATCACGTAGAAACTGTGTCATCCATCGACCAGACCTCCT
* *
837553 AATCACGTAGGAGCCGTGTCACCCTTAGA
66 CATCACGTAGGAGCCGTGTCAACCTTAGA
837582 CGACTAGACC
Statistics
Matches: 309, Mismatches: 40, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
130 4 0.01
131 301 0.97
132 4 0.01
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (131 bp):
ATCCCTAAAGATGGCATGCCATCCTCATCACGTAGAAACTGTGTCATCCATCGACCAGACCTCCT
CATCACGTAGGAGCCGTGTCAACCTTAGATAACCTGTCGTCCTCATCACGTAGGAACCGTGTTAT
C
Found at i:837780 original size:3 final size:3
Alignment explanation
Indices: 837774--837852 Score: 115
Period size: 3 Copynumber: 26.3 Consensus size: 3
837764 ACAAAAAAAA
*
837774 TAT TAT TAA T-T TAT TAT ATAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
837819 TAT TAC TAT TAC TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
837853 TTTAATTTAC
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
2 1 0.01
3 64 0.94
4 3 0.04
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:839254 original size:30 final size:30
Alignment explanation
Indices: 839220--839284 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
839210 CAATTTTTGG
*
839220 TTTTTTCTATTTCAGTCCTTTAAATTTATA
1 TTTTTTCTATTTCAGTCCCTTAAATTTATA
* * *
839250 TTTTTTCTATTTTAGTCCCTTAAGTTTCTA
1 TTTTTTCTATTTCAGTCCCTTAAATTTATA
839280 TTTTT
1 TTTTT
839285 GATATTTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.18, C:0.14, G:0.05, T:0.63
Consensus pattern (30 bp):
TTTTTTCTATTTCAGTCCCTTAAATTTATA
Found at i:839291 original size:30 final size:30
Alignment explanation
Indices: 839227--839293 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
839217 TGGTTTTTTC
* * **
839227 TATTTCAGTCCTTTAAATTTATATTTTTTC
1 TATTTTAGTCCCTTAAATTTATATTTTTGA
* *
839257 TATTTTAGTCCCTTAAGTTTCTATTTTTGA
1 TATTTTAGTCCCTTAAATTTATATTTTTGA
839287 TATTTTA
1 TATTTTA
839294 ATCTTTTTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.22, C:0.12, G:0.06, T:0.60
Consensus pattern (30 bp):
TATTTTAGTCCCTTAAATTTATATTTTTGA
Found at i:839331 original size:30 final size:30
Alignment explanation
Indices: 839297--839374 Score: 72
Period size: 30 Copynumber: 2.6 Consensus size: 30
839287 TATTTTAATC
839297 TTTTTAATTTCTATTTTTTGGT-CCTTCAAG
1 TTTTTAATTTCTATTTTTTGGTCCCTT-AAG
* *
839327 TTTTT-ATTAAT-TATATTTTGGTCCCTTAAT
1 TTTTTAATT--TCTATTTTTTGGTCCCTTAAG
*
839357 TTTTTATTATTCTATTTT
1 TTTTTAAT-TTCTATTTT
839375 AATCCCTTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
29 3 0.08
30 23 0.61
31 11 0.29
32 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.06, T:0.64
Consensus pattern (30 bp):
TTTTTAATTTCTATTTTTTGGTCCCTTAAG
Found at i:839372 original size:29 final size:30
Alignment explanation
Indices: 839312--839374 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
839302 AATTTCTATT
839312 TTTTGGTCCTTCAAGTTTTTATTAATTATA
1 TTTTGGTCCTTCAAGTTTTTATTAATTATA
* *
839342 TTTTGGTCCCTT-AATTTTTTATT-ATTCTA
1 TTTTGGT-CCTTCAAGTTTTTATTAATTATA
839371 TTTT
1 TTTT
839375 AATCCCTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 9 0.30
30 17 0.57
31 4 0.13
ACGTcount: A:0.19, C:0.11, G:0.08, T:0.62
Consensus pattern (30 bp):
TTTTGGTCCTTCAAGTTTTTATTAATTATA
Found at i:840479 original size:2 final size:2
Alignment explanation
Indices: 840472--840504 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
840462 ATATTAAATG
*
840472 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
840505 ACATCGTCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:851219 original size:136 final size:135
Alignment explanation
Indices: 850973--851462 Score: 667
Period size: 136 Copynumber: 3.6 Consensus size: 135
850963 AAACTGGTGT
* * * * * * *
850973 ATGACATTGTTCCTTCGTGATGAGGATATTTGGTCATGTTTAGAGATAAATAGTGATAACACGGT
1 ATGACATTGTTCCTTCGTGATGAGGACATCTGGCCATCTTTA-AGAT-ATTTGAGATAACACGGT
* * * * *
851038 TCCTTCTTGATGAGGACGTCTAGTTATCTAAGGATGACACGACTCCTTCGTGATGAGGAGTTTTG
64 TCCTTCGTGATGAGGAGGTCTGGTTATCTAAGGATGAC-GGACTCCTTCGTGATGAGGAGTTCTG
851103 ATTGGTAG
128 ATTGGTAG
* **
851111 ATGACATTGTTCCTTCGTGATGAGGACATCTGGCCATATTTAAGATATTTGAGATAACATAGTTC
1 ATGACATTGTTCCTTCGTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAACACGGTTC
* * *
851176 TTTCGTGATGAGGAGGTGTGGTTATCTAAGGATGACGTGACTCCTTCATGATGAGGAGTTCTGAT
66 CTTCGTGATGAGGAGGTCTGGTTATCTAAGGATGACG-GACTCCTTCGTGATGAGGAGTTCTGAT
*
851241 TGGTTG
130 TGGTAG
* * * *
851247 TTGACATTGTTCCTTCATGATAAGAACATCTGGCCATCTTTAAGATATTTGAGATAACACGGTTC
1 ATGACATTGTTCCTTCGTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAACACGGTTC
* *
851312 CTTCGTGATGAGG-GCGTCTGGTTATCTAAGGATGAAGCAGCTCCTTCGTGATGAGGAGTTCTGA
66 CTTCGTGATGAGGAG-GTCTGGTTATCTAAGGATGACGGA-CTCCTTCGTGATGAGGAGTTCTGA
851376 TTGGTAG
129 TTGGTAG
* *
851383 ATGACATTGTTCTTTCGTGATGAGGATATCTGGCCATCTTTAAGATATTTGAGATAACACGGTTC
1 ATGACATTGTTCCTTCGTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAACACGGTTC
851448 CTTTCGTGATGAGGA
66 C-TTCGTGATGAGGA
851463 CATCTGGCCA
Statistics
Matches: 310, Mismatches: 37, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
135 2 0.01
136 254 0.82
137 16 0.05
138 38 0.12
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.35
Consensus pattern (135 bp):
ATGACATTGTTCCTTCGTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAACACGGTTC
CTTCGTGATGAGGAGGTCTGGTTATCTAAGGATGACGGACTCCTTCGTGATGAGGAGTTCTGATT
GGTAG
Found at i:851530 original size:53 final size:53
Alignment explanation
Indices: 851391--851681 Score: 440
Period size: 53 Copynumber: 5.5 Consensus size: 53
851381 AGATGACATT
* *
851391 GTTCTTTCGTGATGAGGATATCTGGCCATCTTTAAGATATTTGAGATAACACG
1 GTTCCTTCGTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAACACG
851444 GTTCCTTTCGTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAACACG
1 GTTCC-TTCGTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAACACG
* * *
851498 GGTCCTTCGTGATGAGCACATCTGGTCATCTTTAAGATATTTGAGATAACACG
1 GTTCCTTCGTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAACACG
* *
851551 ATTCCTTCGTGATGAGGACATCTGGCCATCTTTAGGATATTTGAGATAACAC-
1 GTTCCTTCGTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAACACG
* * * * *
851603 GATCCATTTGTGATGAGGACATCTAGCCATCGTTAGGATATTTGAGATAACACG
1 GTTCC-TTCGTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAACACG
*
851657 GTTTCTTCGTGATGAGGACATCTGG
1 GTTCCTTCGTGATGAGGACATCTGG
851682 TTATCTAAAG
Statistics
Matches: 216, Mismatches: 19, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
52 3 0.01
53 159 0.74
54 54 0.25
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (53 bp):
GTTCCTTCGTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAACACG
Found at i:851866 original size:136 final size:136
Alignment explanation
Indices: 851612--852234 Score: 860
Period size: 136 Copynumber: 4.6 Consensus size: 136
851602 CGATCCATTT
* * * *
851612 GTGATGAGGACATCTAGCCATCGTTAGGATATTTGAGATAACACGGTTTCTTCGTGATGAGGACA
1 GTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAACACGGTTTCTTCGTGATGAGGACG
* * ** * * *
851677 TCTGGTTATCTAAAGATGACGCGACTTATTCGTGATGAGGAGTTATTATTGGTAGATGACATTGT
66 TCTGGTTATCTAAGGATGACGCAACTCCTTCGTGATGAGGATTTCTGATTGGTAGATGACATTGT
851742 TCCTTC
131 TCCTTC
* ** * *
851748 GTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAACACGGTTTTTTTTTTATAAGGACG
1 GTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAACACGGTTTCTTCGTGATGAGGACG
* * * * * * *
851813 TCTGGTTATCTAAGGATGATGTAACTCTTTCGTGACGAGGATTTCTGACTGGTAGATGGCATTAT
66 TCTGGTTATCTAAGGATGACGCAACTCCTTCGTGATGAGGATTTCTGATTGGTAGATGACATTGT
851878 TCCTTC
131 TCCTTC
* *
851884 GTTATGAGGACATCTGGCCATCTTTAAGATATTT--GATAACACGGTTCCTTCGTGATGAGGACG
1 GTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAACACGGTTTCTTCGTGATGAGGACG
* *
851947 CCTGGTTATCTAAGGATGACGCGACTCCTTCGTGATGAGGAGTTT-TGATTGGTAGATGACATTG
66 TCTGGTTATCTAAGGATGACGCAACTCCTTCGTGATGAGGA-TTTCTGATTGGTAGATGACATTG
852011 TTCCTTC
130 TTCCTTC
**
852018 GTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAAC-CCTTTTCCTTCGTGATGAGGAC
1 GTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAACACGGTTT-CTTCGTGATGAGGAC
* ** * *
852082 GTCTGGTTATTTAAGGATGATACAGCTCCTTCGTGATTAGGATTTCTGATTGGTAGATGACATTG
65 GTCTGGTTATCTAAGGATGACGCAACTCCTTCGTGATGAGGATTTCTGATTGGTAGATGACATTG
852147 TTCCTTC
130 TTCCTTC
* *
852154 GTGATGAGGACATCTGGCCATCTTTAAGATATTTAAGATAACACGGTTCCTTCGTGATGAGGACG
1 GTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAACACGGTTTCTTCGTGATGAGGACG
*
852219 TC-GATTATCTAAGGAT
66 TCTGGTTATCTAAGGAT
852235 TTTTGTTTCC
Statistics
Matches: 426, Mismatches: 55, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
134 114 0.27
135 21 0.05
136 288 0.68
137 3 0.01
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (136 bp):
GTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAACACGGTTTCTTCGTGATGAGGACG
TCTGGTTATCTAAGGATGACGCAACTCCTTCGTGATGAGGATTTCTGATTGGTAGATGACATTGT
TCCTTC
Found at i:852129 original size:270 final size:271
Alignment explanation
Indices: 851612--852234 Score: 932
Period size: 270 Copynumber: 2.3 Consensus size: 271
851602 CGATCCATTT
* * * * *
851612 GTGATGAGGACATCTAGCCATCGTTAGGATATTTGAGATAACACGGTTTCTTCGTGATGAGGACA
1 GTGATGAGGACATCTGGCCATCTTTAAGATATTT-AGATAACACGGTTCCTTCGTGATGAGGACG
* *
851677 TCTGGTTATCTAAAGATGACGCGACTTATTCGTGATGAGGAGTTATTATTGGTAGATGACATTGT
65 TCTGGTTATCTAAGGATGACGCGACTCATTCGTGATGAGGAGTTATTATTGGTAGATGACATTGT
* ** *
851742 TCCTTCGTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAACACGGTTTTTTTTTTATA
130 TCCTTCGTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAACACGCTTTTTTCGTGATA
** * *
851807 AGGACGTCTGGTTATCTAAGGATGATGTAACTCTTTCGTGACGAGGATTTCTGACTGGTAGATGG
195 AGGACGTCTGGTTATCTAAGGATGATACAACTCCTTCGTGACGAGGATTTCTGACTGGTAGATGA
851872 CATTATTCCTTC
260 CATTATTCCTTC
* *
851884 GTTATGAGGACATCTGGCCATCTTTAAGATATTT-GATAACACGGTTCCTTCGTGATGAGGACGC
1 GTGATGAGGACATCTGGCCATCTTTAAGATATTTAGATAACACGGTTCCTTCGTGATGAGGACGT
*
851948 CTGGTTATCTAAGGATGACGCGACTCCTTCGTGATGAGGAGTT-TTGATTGGTAGATGACATTGT
66 CTGGTTATCTAAGGATGACGCGACTCATTCGTGATGAGGAGTTATT-ATTGGTAGATGACATTGT
852012 TCCTTCGTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAAC-C-CTTTTCCTTCGTGA
130 TCCTTCGTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAACACGCTTTT--TTCGTGA
* * * ** *
852075 TGAGGACGTCTGGTTATTTAAGGATGATACAGCTCCTTCGTGATTAGGATTTCTGATTGGTAGAT
193 TAAGGACGTCTGGTTATCTAAGGATGATACAACTCCTTCGTGACGAGGATTTCTGACTGGTAGAT
*
852140 GACATTGTTCCTTC
258 GACATTATTCCTTC
852154 GTGATGAGGACATCTGGCCATCTTTAAGATATTTAAGATAACACGGTTCCTTCGTGATGAGGACG
1 GTGATGAGGACATCTGGCCATCTTTAAGATATTT-AGATAACACGGTTCCTTCGTGATGAGGACG
*
852219 TC-GATTATCTAAGGAT
65 TCTGGTTATCTAAGGAT
852235 TTTTGTTTCC
Statistics
Matches: 318, Mismatches: 28, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
268 4 0.01
269 3 0.01
270 238 0.75
271 13 0.04
272 60 0.19
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (271 bp):
GTGATGAGGACATCTGGCCATCTTTAAGATATTTAGATAACACGGTTCCTTCGTGATGAGGACGT
CTGGTTATCTAAGGATGACGCGACTCATTCGTGATGAGGAGTTATTATTGGTAGATGACATTGTT
CCTTCGTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAACACGCTTTTTTCGTGATAA
GGACGTCTGGTTATCTAAGGATGATACAACTCCTTCGTGACGAGGATTTCTGACTGGTAGATGAC
ATTATTCCTTC
Found at i:853062 original size:54 final size:54
Alignment explanation
Indices: 852977--853083 Score: 160
Period size: 54 Copynumber: 2.0 Consensus size: 54
852967 ATCACTGGTC
*
852977 CGTAAAACAATTGACAACACATTCATCATTTCTTGTAGCTTCTGCCCAGATTTT
1 CGTAAAACAATTGACAACACATTCATCATTTCCTGTAGCTTCTGCCCAGATTTT
* * * * *
853031 CGTAAAACATTTGATAACACATTTATTATTTCCTGTGGCTTCTGCCCAGATTT
1 CGTAAAACAATTGACAACACATTCATCATTTCCTGTAGCTTCTGCCCAGATTT
853084 CTTGTGAGTG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.37
Consensus pattern (54 bp):
CGTAAAACAATTGACAACACATTCATCATTTCCTGTAGCTTCTGCCCAGATTTT
Found at i:857930 original size:11 final size:11
Alignment explanation
Indices: 857895--857928 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
857885 AATGCTATGT
857895 TATTTTAATAAA
1 TATTTTAA-AAA
857907 TATTTTAAAAA
1 TATTTTAAAAA
857918 TATTATTAAAA
1 TATT-TTAAAA
857929 TAACACAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:859547 original size:12 final size:12
Alignment explanation
Indices: 859510--859547 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
859500 ATTATTTATT
859510 AATAATAAT-TA
1 AATAATAATATA
859521 TAATAATAATATA
1 -AATAATAATATA
859534 AATAATAATATA
1 AATAATAATATA
859546 AA
1 AA
859548 AATGATGGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 23 0.92
13 2 0.08
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AATAATAATATA
Found at i:860518 original size:21 final size:21
Alignment explanation
Indices: 860465--860522 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
860455 TAAATCGTTA
*
860465 ATAT-TTAAAATTT--TATTT
1 ATATATTAAAATTTAATAATT
*
860483 ATAAATTAATTAATTTAATAATT
1 ATATATTAA--AATTTAATAATT
860506 ATATATTAAAATTTAAT
1 ATATATTAAAATTTAAT
860523 TGATAACATA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 3 0.09
19 4 0.12
21 13 0.41
23 12 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATATATTAAAATTTAATAATT
Found at i:864925 original size:22 final size:22
Alignment explanation
Indices: 864868--864926 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
864858 ACGCGATTCT
864868 GACTATCGCATTGCGATTTTCC
1 GACTATCGCATTGCGATTTTCC
* * *
864890 AAAT-TCGCGTTGCGATTTTCC
1 GACTATCGCATTGCGATTTTCC
*
864911 GACTATCGCAATGCGA
1 GACTATCGCATTGCGA
864927 ATATGTAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.32
Consensus pattern (22 bp):
GACTATCGCATTGCGATTTTCC
Found at i:864940 original size:20 final size:20
Alignment explanation
Indices: 864915--865006 Score: 166
Period size: 20 Copynumber: 4.6 Consensus size: 20
864905 TTTTCCGACT
864915 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
*
864935 ATCGCAATGCAAATATGTAA
1 ATCGCAATGCGAATATGTAA
864955 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
864975 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
*
864995 ATCACAATGCGA
1 ATCGCAATGCGA
865007 TTCTGACTAT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 69 1.00
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:865022 original size:20 final size:20
Alignment explanation
Indices: 864999--865061 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
864989 ATGTAAATCA
864999 CAATGCGATTCTGACTATCG
1 CAATGCGATTCTGACTATCG
865019 CAATGCGATTCTGACTATCG
1 CAATGCGATTCTGACTATCG
* * *
865039 CAACGCGATTTTGACTGTCG
1 CAATGCGATTCTGACTATCG
865059 CAA
1 CAA
865062 CACTGAATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (20 bp):
CAATGCGATTCTGACTATCG
Found at i:865039 original size:60 final size:60
Alignment explanation
Indices: 864911--865046 Score: 159
Period size: 60 Copynumber: 2.3 Consensus size: 60
864901 GCGATTTTCC
*
864911 GACTATCGCAATGCGAATATGTAAATCGCAATGCAAATATGTAAATCGCAATGCGAATAT
1 GACTATCGCAATGCGAATATGTAAATCACAATGCAAATATGTAAATCGCAATGCGAATAT
* * * * * * *
864971 GTA-AATCGCAATGCGAATATGTAAATCACAATGCGATTCTG-ACTATCGCAATGCGATTCT
1 G-ACTATCGCAATGCGAATATGTAAATCACAATGCAAATATGTA-AATCGCAATGCGAATAT
*
865031 GACTATCGCAACGCGA
1 GACTATCGCAATGCGA
865047 TTTTGACTGT
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
59 2 0.03
60 60 0.95
61 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (60 bp):
GACTATCGCAATGCGAATATGTAAATCACAATGCAAATATGTAAATCGCAATGCGAATAT
Found at i:867915 original size:18 final size:18
Alignment explanation
Indices: 867892--867926 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
867882 AGAAAAAGGC
867892 AATCAAAATCGCAATCAA
1 AATCAAAATCGCAATCAA
*
867910 AATCAAAATCTCAATCA
1 AATCAAAATCGCAATCA
867927 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.23, G:0.03, T:0.20
Consensus pattern (18 bp):
AATCAAAATCGCAATCAA
Found at i:868238 original size:140 final size:140
Alignment explanation
Indices: 867986--868251 Score: 487
Period size: 140 Copynumber: 1.9 Consensus size: 140
867976 AAACGTTGTA
*
867986 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGTTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
* * * *
868051 TGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCTACGTGAATTTGACTAT
66 TGATATGTTCAGTTATTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
868116 TATATGTATT
131 TATATGTATT
868126 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
868191 TGATATGTTCAGTTATTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGA
66 TGATATGTTCAGTTATTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGA
868252 TTATCGCAAC
Statistics
Matches: 121, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 121 1.00
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (140 bp):
TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
TGATATGTTCAGTTATTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
TATATGTATT
Found at i:868251 original size:20 final size:20
Alignment explanation
Indices: 868226--868484 Score: 223
Period size: 20 Copynumber: 13.8 Consensus size: 20
868216 TTACACATTC
*
868226 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
868246 ATTTGATTATCGCAACTC-A
1 ATTTGACTATCGCAACGCGA
*
868265 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
868280 ATTTGACTATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
* *
868300 ATATGACTATCGCAACG-TA
1 ATTTGACTATCGCAACGCGA
*
868319 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
868334 ATTTGTCTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
868354 ATTTGGCTATCGCAACG-GCT
1 ATTTGACTATCGCAACGCG-A
868374 ATTTGACTATCGCAA--CG-
1 ATTTGACTATCGCAACGCGA
** *
868391 A--T-AAAATCACAACGCGA
1 ATTTGACTATCGCAACGCGA
868408 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
868428 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * *
868448 ATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
868468 ATTTGACTATCGCAACG
1 ATTTGACTATCGCAACG
868485 AGAAAATCGT
Statistics
Matches: 193, Mismatches: 26, Indels: 40
0.75 0.10 0.15
Matches are distributed among these distances:
14 25 0.13
15 7 0.04
16 2 0.01
17 2 0.01
19 8 0.04
20 149 0.77
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:868311 original size:54 final size:54
Alignment explanation
Indices: 868226--868533 Score: 238
Period size: 54 Copynumber: 5.6 Consensus size: 54
868216 TTACACATTC
* *
868226 ATTTGAATATCGCAACGCGAATTTGATTATCGCAAC-TCAAAAATCGCAACGCGA
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGT-AAAAATCGCAACGCGA
* *
868280 ATTTGACTATCGCAACACGAATATGACTATCGCAACGTAAAAATCGCAACGCGA
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGTAAAAATCGCAACGCGA
* * **
868334 ATTTGTCTATCGCAACGCGAATTTGGCTATCGCAACGGCTATTTGACTATCGCAA--CG-
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAAC-G-TA----AAAATCGCAACGCGA
** * * *
868391 A--T-AAAATCACAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACG-TAA----A-AATCGCAACGCGA
* * * * * *
868448 ATTTGATTATCGCAACGGGTATTTGACTATCGCAACG-AGAAAATCGTAAAGCGT
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGTA-AAAATCGCAACGCGA
* *
868502 ATTAGACTATCGCAACGCGAA-TTGACTTTCGC
1 ATTTGACTATCGCAACGCGAATTTGACTATCGC
868534 GTTGTGATTT
Statistics
Matches: 204, Mismatches: 31, Indels: 39
0.74 0.11 0.14
Matches are distributed among these distances:
49 1 0.00
53 13 0.06
54 140 0.69
55 4 0.02
56 4 0.02
57 2 0.01
58 3 0.01
59 2 0.01
60 35 0.17
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (54 bp):
ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGTAAAAATCGCAACGCGA
Found at i:868346 original size:74 final size:73
Alignment explanation
Indices: 868268--868464 Score: 288
Period size: 74 Copynumber: 2.7 Consensus size: 73
868258 CAACTCAAAA
* *
868268 ATCGCAACGCGAATTTGACTATCGCAACACGAATATGACTATCGCAACG-TAAAAATCGCAACGC
1 ATCGCAACGCGAATTTGACTATCGCAAC-CGAATTTGACTATCGCAACGAT-AAAATCACAACGC
*
868332 GAATTTGTCT
64 GAATTTGACT
* * *
868342 ATCGCAACGCGAATTTGGCTATCGCAACGGCTATTTGACTATCGCAACGATAAAATCACAACGCG
1 ATCGCAACGCGAATTTGACTATCGCAACCG-AATTTGACTATCGCAACGATAAAATCACAACGCG
868407 AATTTGACT
65 AATTTGACT
*
868416 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACG
1 ATCGCAACGCGAATTTGACTATCGCAAC-CGAATTTGACTATCGCAACG
868465 GGTATTTGAC
Statistics
Matches: 110, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
73 1 0.01
74 107 0.97
75 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (73 bp):
ATCGCAACGCGAATTTGACTATCGCAACCGAATTTGACTATCGCAACGATAAAATCACAACGCGA
ATTTGACT
Found at i:868421 original size:94 final size:94
Alignment explanation
Indices: 868322--868533 Score: 318
Period size: 94 Copynumber: 2.3 Consensus size: 94
868312 CAACGTAAAA
* *
868322 ATCGCAACGCGAATTTGTCTATCGCAACGCGAATTTGGCTATCGCAACGGCTATTTGACTATCGC
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGGCTATTTGACTATCGC
* * *
868387 AACGATAAAATCACAACGCGAATTTGACT
66 AACGAGAAAATCACAAAGCGAATTAGACT
* *
868416 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGC
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGGCTATTTGACTATCGC
** *
868481 AACGAGAAAATCGTAAAGCGTATTAGACT
66 AACGAGAAAATCACAAAGCGAATTAGACT
*
868510 ATCGCAACGCGAA-TTGACTTTCGC
1 ATCGCAACGCGAATTTGACTATCGC
868534 GTTGTGATTT
Statistics
Matches: 107, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
93 10 0.09
94 97 0.91
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (94 bp):
ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGGCTATTTGACTATCGC
AACGAGAAAATCACAAAGCGAATTAGACT
Found at i:868552 original size:20 final size:20
Alignment explanation
Indices: 868527--868565 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
868517 CGCGAATTGA
* *
868527 CTTTCGCGTTGTGATTTTGT
1 CTTTCGCATTGCGATTTTGT
868547 CTTTCGCATTGCGATTTTG
1 CTTTCGCATTGCGATTTTG
868566 AGTTTAGTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.08, C:0.18, G:0.23, T:0.51
Consensus pattern (20 bp):
CTTTCGCATTGCGATTTTGT
Found at i:870286 original size:18 final size:18
Alignment explanation
Indices: 870263--870329 Score: 89
Period size: 20 Copynumber: 3.5 Consensus size: 18
870253 AAAACTTAAA
*
870263 ATCGCAACACGAATGACT
1 ATCGCAACGCGAATGACT
870281 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG--AATGACT
870301 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAA--TGACT
870321 ATCGCAACG
1 ATCGCAACG
870330 AGAGAATCGC
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
18 12 0.27
20 32 0.73
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.18
Consensus pattern (18 bp):
ATCGCAACGCGAATGACT
Found at i:870299 original size:20 final size:20
Alignment explanation
Indices: 870274--870329 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
870264 TCGCAACACG
870274 AATGACTATCGCAACGCGAA
1 AATGACTATCGCAACGCGAA
870294 AATGACTATCGCAACGCGAA
1 AATGACTATCGCAACGCGAA
**
870314 TTTGACTATCGCAACG
1 AATGACTATCGCAACG
870330 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AATGACTATCGCAACGCGAA
Found at i:870379 original size:20 final size:20
Alignment explanation
Indices: 870354--870460 Score: 187
Period size: 20 Copynumber: 5.3 Consensus size: 20
870344 CGATTCTTTT
*
870354 GTTGCGATAGTCATTTTCGC
1 GTTGCGATAGTCATTTTCTC
870374 GTTGCGATAGTCATTTTCTC
1 GTTGCGATAGTCATTTTCTC
*
870394 GTTGCGATAATCATTTTCTC
1 GTTGCGATAGTCATTTTCTC
870414 GTTGCGATAGTCATTTTCTC
1 GTTGCGATAGTCATTTTCTC
*
870434 GTTGCGATAGTCATTTTCGC
1 GTTGCGATAGTCATTTTCTC
870454 GTTGCGA
1 GTTGCGA
870461 AAGTAAACTA
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 83 1.00
ACGTcount: A:0.16, C:0.20, G:0.22, T:0.42
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCTC
Found at i:871449 original size:17 final size:18
Alignment explanation
Indices: 871402--871449 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
871392 ATATAATAAC
871402 AAACATTAGTAATTGTTAA
1 AAACATTA-TAATTGTTAA
*
871421 ATAATAATTATAATT-TTAA
1 A-AA-CATTATAATTGTTAA
871440 AAACATTATA
1 AAACATTATA
871450 TAAAATTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 6 0.24
18 2 0.08
19 6 0.24
20 7 0.28
21 4 0.16
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (18 bp):
AAACATTATAATTGTTAA
Found at i:872444 original size:19 final size:19
Alignment explanation
Indices: 872354--872479 Score: 85
Period size: 20 Copynumber: 6.5 Consensus size: 19
872344 TTTGAAACTT
* *
872354 AAAATCACAACACGAAAATG
1 AAAATCGCAACGCG-AAATG
* *
872374 AAAATCGTAACACGAAAATG
1 AAAATCGCAACGCG-AAATG
** * *
872394 ACTATCGCAACGCGAATTTT
1 AAAATCGCAACGCGAA-ATG
** *
872414 ACTATCGTAACGCGAAATG
1 AAAATCGCAACGCGAAATG
872433 AAAATCGCAACGCGAAACT-
1 AAAATCGCAACGCGAAA-TG
*
872452 AAAATCGCAATGCGAAACT-
1 AAAATCGCAACGCGAAA-TG
872471 AAAATCGCA
1 AAAATCGCA
872480 TTGCGATTCT
Statistics
Matches: 89, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
19 44 0.49
20 45 0.51
ACGTcount: A:0.47, C:0.21, G:0.15, T:0.17
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:872484 original size:19 final size:19
Alignment explanation
Indices: 872433--872485 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
872423 ACGCGAAATG
*
872433 AAAATCGCAACGCGAAACT
1 AAAATCGCAATGCGAAACT
872452 AAAATCGCAATGCGAAACT
1 AAAATCGCAATGCGAAACT
*
872471 AAAATCGCATTGCGA
1 AAAATCGCAATGCGA
872486 TTCTGTCGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.45, C:0.23, G:0.17, T:0.15
Consensus pattern (19 bp):
AAAATCGCAATGCGAAACT
Found at i:873101 original size:20 final size:20
Alignment explanation
Indices: 873072--873123 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
873062 CGCTTTGAAA
*
873072 ATCGCATTGCGATAGTCAGC
1 ATCGCATTGCGACAGTCAGC
* *
873092 ATCGCGTTGCGACAGTCA-T
1 ATCGCATTGCGACAGTCAGC
873111 ACTCGCATTGCGA
1 A-TCGCATTGCGA
873124 TTTACATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (20 bp):
ATCGCATTGCGACAGTCAGC
Found at i:874291 original size:213 final size:217
Alignment explanation
Indices: 873894--874325 Score: 738
Period size: 215 Copynumber: 2.0 Consensus size: 217
873884 ATTATTGTGC
873894 AAAAATATCAATTAACTTAGAAGAAATATACCAGAAAAATCTCAAAAAGTAAAAAGAATAGATCA
1 AAAAATATCAATTAACTTAGAAGAAATATACCAGAAAAATCTCAAAAAGTAAAAAGAATAGATCA
873959 TTGAAAATTCAAATCCATATAACATACCTTGCAACATATATCTCTATCTCCATAAAATTTACATT
66 TTGAAAATTCAAATCCATATAACATACCTTGCAACATATATCTCTATCTCCATAAAATTTACATT
874024 GGCTAGATCAACTTCCAATTTCATGGACTTCGAGAGTATTTGTGAAAATCTACAGCCC-GG-A-A
131 GGCTAGATCAACTTCCAATTTCATGGACTTCGAGAGTATTTGTGAAAATCTACAGCCCAGGAATA
874086 TAAGACACTCTTAAAAAGATAGAG
196 TAAGAC-CTC-TAAAAAGATAGAG
874110 AAAAATATCAATTTAAACTTAGAAG-AA-ATACCAGAAAAATCTCAAAAAGTAAAAA-AGATAGA
1 AAAAATATCAA-TT-AACTTAGAAGAAATATACCAGAAAAATCTCAAAAAGTAAAAAGA-ATAGA
*
874172 TCA-TGAAAATTCAAATCCATATAACATACCTTGCAACATATATCT-TCTCTCCATAAAATTTAC
63 TCATTGAAAATTCAAATCCATATAACATACCTTGCAACATATATCTCTATCTCCATAAAATTTAC
874235 ATTGGCT-GATCAACTTCCAATTTCATGGACTTCGAGAGTATTTGTGAAAATCTACAGCCCATGG
128 ATTGGCTAGATCAACTTCCAATTTCATGGACTTCGAGAGTATTTGTGAAAATCTACAGCCCA-GG
874299 AATATAAGACCTCTAAAAAGATAGAG
192 AATATAAGACCTCTAAAAAGATAGAG
874325 A
1 A
874326 GAGAGAGAAG
Statistics
Matches: 208, Mismatches: 1, Indels: 15
0.93 0.00 0.07
Matches are distributed among these distances:
213 53 0.25
214 24 0.12
215 59 0.28
216 51 0.25
217 11 0.05
218 10 0.05
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (217 bp):
AAAAATATCAATTAACTTAGAAGAAATATACCAGAAAAATCTCAAAAAGTAAAAAGAATAGATCA
TTGAAAATTCAAATCCATATAACATACCTTGCAACATATATCTCTATCTCCATAAAATTTACATT
GGCTAGATCAACTTCCAATTTCATGGACTTCGAGAGTATTTGTGAAAATCTACAGCCCAGGAATA
TAAGACCTCTAAAAAGATAGAG
Found at i:884684 original size:17 final size:17
Alignment explanation
Indices: 884662--884696 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
884652 GTTGAAACCT
884662 TAGTTTATGGTTGTCTA
1 TAGTTTATGGTTGTCTA
884679 TAGTTTATGGTTGTCTA
1 TAGTTTATGGTTGTCTA
884696 T
1 T
884697 TAAGCAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.06, G:0.23, T:0.54
Consensus pattern (17 bp):
TAGTTTATGGTTGTCTA
Found at i:888700 original size:20 final size:19
Alignment explanation
Indices: 888675--888712 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
888665 AATCTGGGTT
*
888675 ATAGTATCGGTACTGATAGA
1 ATAGTATCGATACT-ATAGA
888695 ATAGTATCGATACTATAG
1 ATAGTATCGATACTATAG
888713 GCTTAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (19 bp):
ATAGTATCGATACTATAGA
Found at i:889272 original size:20 final size:20
Alignment explanation
Indices: 889236--889278 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
889226 GAAACTCCAG
*
889236 AATTTATAAAATAATTATTA
1 AATTTATAAAATAATTATAA
889256 AATTTATAAAA-ATATTATAA
1 AATTTATAAAATA-ATTATAA
889276 AAT
1 AAT
889279 AGTGATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AATTTATAAAATAATTATAA
Found at i:891733 original size:101 final size:101
Alignment explanation
Indices: 891558--891761 Score: 399
Period size: 101 Copynumber: 2.0 Consensus size: 101
891548 CTGTTGGTGC
*
891558 TCATGTTATGATTGCACTTGGAGTGCATTATATGTTTTAGTTAAGATGGACATCGTGATGTGCTC
1 TCATGTTATGATTGCACTTGGAATGCATTATATGTTTTAGTTAAGATGGACATCGTGATGTGCTC
891623 TGTGCACACCTTATGTTATACTCACGTACCTTGTGT
66 TGTGCACACCTTATGTTATACTCACGTACCTTGTGT
891659 TCATGTTATGATTGCACTTGGAATGCATTATATGTTTTAGTTAAGATGGACATCGTGATGTGCTC
1 TCATGTTATGATTGCACTTGGAATGCATTATATGTTTTAGTTAAGATGGACATCGTGATGTGCTC
891724 TGTGCACACCTTATGTTATACTCACGTACCTTGTGT
66 TGTGCACACCTTATGTTATACTCACGTACCTTGTGT
891760 TC
1 TC
891762 TCATAAATAT
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 102 1.00
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (101 bp):
TCATGTTATGATTGCACTTGGAATGCATTATATGTTTTAGTTAAGATGGACATCGTGATGTGCTC
TGTGCACACCTTATGTTATACTCACGTACCTTGTGT
Found at i:891796 original size:12 final size:12
Alignment explanation
Indices: 891781--891814 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
891771 TGTATTGGAC
891781 TATGAAAGTAAA
1 TATGAAAGTAAA
*
891793 TATGAAAAGTGAA
1 TATG-AAAGTAAA
891806 TATGAAAGT
1 TATGAAAGT
891815 TAAGCAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.53, C:0.00, G:0.21, T:0.26
Consensus pattern (12 bp):
TATGAAAGTAAA
Found at i:892315 original size:15 final size:16
Alignment explanation
Indices: 892285--892317 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
892275 TTTGTAATAG
892285 TAATTTAGGACTATTT
1 TAATTTAGGACTATTT
*
892301 TAATTTTGG-CTATTT
1 TAATTTAGGACTATTT
892316 TA
1 TA
892318 GTTATAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.27, C:0.06, G:0.12, T:0.55
Consensus pattern (16 bp):
TAATTTAGGACTATTT
Found at i:892728 original size:26 final size:26
Alignment explanation
Indices: 892706--893059 Score: 321
Period size: 26 Copynumber: 15.0 Consensus size: 26
892696 TTATTCATTA
892706 ATTTCATTTATGGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
*
892732 ----C-TTAAT-GCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
892752 ATTTCATTTATGGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
*
892778 ATTTTATTTATGGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
*
892804 ATTTCACTTATGGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
*
892830 ----C-TTCAT-GCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
**
892850 ATTTCATTTATAACATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
*
892876 ----C-TTAAT-GCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
* *
892896 ATTTCATTTATGACATACTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
*
892922 ----C-TTAAT-GCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
892942 ATTTCATTTATGGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
*
892968 ----C-TTAAT-GCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
*
892988 ATTTCATTTATGGCATAC-TT--T-C
1 ATTTCATTTATGGCATCCTTTCATGC
* * *
893010 A-TTCCTTAAT-GCATCCTTTCATGT
1 ATTTCATTTATGGCATCCTTTCATGC
893034 ATTTCATTTATGGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
893060 CTTAATGCAT
Statistics
Matches: 264, Mismatches: 28, Indels: 72
0.73 0.08 0.20
Matches are distributed among these distances:
20 72 0.27
21 28 0.11
22 7 0.03
23 2 0.01
24 6 0.02
25 29 0.11
26 120 0.45
ACGTcount: A:0.21, C:0.25, G:0.10, T:0.45
Consensus pattern (26 bp):
ATTTCATTTATGGCATCCTTTCATGC
Found at i:892756 original size:46 final size:46
Alignment explanation
Indices: 892706--893182 Score: 756
Period size: 46 Copynumber: 10.2 Consensus size: 46
892696 TTATTCATTA
892706 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
*
892752 ATTTCATTTATGGCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC--CTTA---AT-GCATCCTTTCATGC
* *
892804 ATTTCACTTATGGCATCCTTTCATGCCTTCATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
**
892850 ATTTCATTTATAACATCCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* *
892896 ATTTCATTTATGACATACTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
892942 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* * *
892988 ATTTCATTTATGGCATACTTTCATTCCTTAATGCATCCTTTCATGT
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
*
893034 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATTCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* *
893080 ATTTTATTTATGGCATCCTTTCATGCCTTAATACATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* * *
893126 ATTTCATTTACGGAATCCTTTCATGCCTTAATGCATCCTTTTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
893172 ATTTCATTTAT
1 ATTTCATTTAT
893183 TAATTTGTTT
Statistics
Matches: 397, Mismatches: 28, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
46 349 0.88
47 2 0.01
48 3 0.01
50 2 0.01
51 2 0.01
52 39 0.10
ACGTcount: A:0.21, C:0.24, G:0.10, T:0.45
Consensus pattern (46 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
Found at i:894061 original size:21 final size:21
Alignment explanation
Indices: 894035--894089 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
894025 CAACATAAGG
894035 GGTATCGGTACCTTTGGGCTA
1 GGTATCGGTACCTTTGGGCTA
894056 GGTATCGGTACCTTTGGGCTA
1 GGTATCGGTACCTTTGGGCTA
*
894077 GGTATCAGTACCT
1 GGTATCGGTACCT
894090 CTATGCGTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.16, C:0.20, G:0.31, T:0.33
Consensus pattern (21 bp):
GGTATCGGTACCTTTGGGCTA
Found at i:901132 original size:18 final size:18
Alignment explanation
Indices: 901109--901151 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
901099 AACTCCAACA
*
901109 TTCTTCTTTTTCTCCGT-C
1 TTCTTCTTTGTCT-CGTCC
901127 TTCTTCTTTGTCTCGTCC
1 TTCTTCTTTGTCTCGTCC
901145 TTCTTCT
1 TTCTTCT
901152 CGAGGTTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.00, C:0.33, G:0.07, T:0.60
Consensus pattern (18 bp):
TTCTTCTTTGTCTCGTCC
Found at i:902720 original size:96 final size:95
Alignment explanation
Indices: 902556--902741 Score: 354
Period size: 96 Copynumber: 1.9 Consensus size: 95
902546 ATTAGACTAA
902556 GGGTATCGGTACCCATTGGGCAATCTATTTTTCTCGGAGCCAAAATCAACATAAGGGGTATCGGT
1 GGGTATCGGTACCCATTGGGCAATCTATTTTTCTCGGAGCCAAAATCAACATAAGGGGTATCGGT
902621 ACCTTTGGGGCTAGGTATCGATACCTATAAG
66 ACCTTT-GGGCTAGGTATCGATACCTATAAG
*
902652 GGGTATCGGTACCCATTGGGCAATCTGTTTTTCTCGGAGCCAAAATCAACATAAGGGGTATCGGT
1 GGGTATCGGTACCCATTGGGCAATCTATTTTTCTCGGAGCCAAAATCAACATAAGGGGTATCGGT
902717 ACCTTTGGGCTAGGTATCGATACCT
66 ACCTTTGGGCTAGGTATCGATACCT
902742 CTATGCATAA
Statistics
Matches: 89, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
95 19 0.21
96 70 0.79
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (95 bp):
GGGTATCGGTACCCATTGGGCAATCTATTTTTCTCGGAGCCAAAATCAACATAAGGGGTATCGGT
ACCTTTGGGCTAGGTATCGATACCTATAAG
Found at i:903472 original size:42 final size:41
Alignment explanation
Indices: 903425--903517 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 41
903415 CCCTACCATG
* * **
903425 GTATCGATACT-TCTATATTATGGTACCGATACCTTTCTCTCA
1 GTATCGATACTAT-TACACTATGGTACCGATA-CTCCCTCTCA
* *
903467 GTATCGATACTATTACACTATGGTACTGATACTCCCTTTCA
1 GTATCGATACTATTACACTATGGTACCGATACTCCCTCTCA
903508 GTATCGATAC
1 GTATCGATAC
903518 CATTTTGGCA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
41 17 0.39
42 26 0.59
43 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.38
Consensus pattern (41 bp):
GTATCGATACTATTACACTATGGTACCGATACTCCCTCTCA
Found at i:903585 original size:17 final size:19
Alignment explanation
Indices: 903563--903610 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 19
903553 TCCCCTTGTT
903563 AGTATCGATACC-C-CATC
1 AGTATCGATACCACTCATC
903580 AGTATCGATACCACTTACATC
1 AGTATCGATACCAC-T-CATC
903601 AGTATCGATA
1 AGTATCGATA
903611 ATGTTCATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 12 0.44
18 1 0.04
21 14 0.52
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.27
Consensus pattern (19 bp):
AGTATCGATACCACTCATC
Found at i:905476 original size:25 final size:25
Alignment explanation
Indices: 905404--905478 Score: 66
Period size: 25 Copynumber: 3.0 Consensus size: 25
905394 GATACATATT
905404 TCTCGTCTAGTGTTTAATGTATGTA
1 TCTCGTCTAGTGTTTAATGTATGTA
* * * *
905429 -CACTTGTA-TGTATACACCT-TATGTA
1 TCTCGTCTAGTGTTTA-A--TGTATGTA
905454 TCTCGTCTAGTGTTTAATGTATGTA
1 TCTCGTCTAGTGTTTAATGTATGTA
905479 GACTTGTTTG
Statistics
Matches: 36, Mismatches: 8, Indels: 12
0.64 0.14 0.21
Matches are distributed among these distances:
23 5 0.14
24 7 0.19
25 12 0.33
26 7 0.19
27 5 0.14
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.45
Consensus pattern (25 bp):
TCTCGTCTAGTGTTTAATGTATGTA
Found at i:906473 original size:30 final size:30
Alignment explanation
Indices: 906439--906496 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
906429 CAAATTTATG
906439 AAAATATGCAGTTCATTAAAAATCAATACC
1 AAAATATGCAGTTCATTAAAAATCAATACC
906469 AAAATATGCAGTTCATTAAAAATCAATA
1 AAAATATGCAGTTCATTAAAAATCAATA
906497 AAAAAAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.28
Consensus pattern (30 bp):
AAAATATGCAGTTCATTAAAAATCAATACC
Found at i:916763 original size:24 final size:24
Alignment explanation
Indices: 916728--916781 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
916718 GCTTGTGGGT
916728 GAAGAACCAGAGGTAAGAAAGAAG
1 GAAGAACCAGAGGTAAGAAAGAAG
*
916752 GAAGAACTAGAGGTAAGAAAGAAG
1 GAAGAACCAGAGGTAAGAAAGAAG
916776 GAAGAA
1 GAAGAA
916782 GAAGCTGCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.56, C:0.06, G:0.33, T:0.06
Consensus pattern (24 bp):
GAAGAACCAGAGGTAAGAAAGAAG
Found at i:917446 original size:185 final size:185
Alignment explanation
Indices: 917128--917504 Score: 621
Period size: 185 Copynumber: 2.0 Consensus size: 185
917118 ATAAAATTTT
* **
917128 AAATATTAAATATATTTTATATAACATATGAGTTCAACCCAAATAATTTAAAACACAATTAATAA
1 AAATATTAAATATATTATATATAACATATGAACTCAACCCAAATAATTTAAAACACAATTAATAA
* *
917193 TTTAAGATCTAATAACTTTTAAACATAAATCAATATTAATTAATTAAAAAATTTATATAAAATTT
66 TTTAAGAACCAATAACTTTTAAACATAAATCAATATTAATTAATTAAAAAATTTATATAAAATTT
*
917258 TTATTTTATAATTATATATTATTTAAATTAATTGTAAACTATTTTTTTAATTAAA
131 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTATTTTTTTAATTAAA
* **
917313 AAATATTAAATATATTATATATAACATATGAACTCAGCCCAAACT-ATTTAAAATTCAATTAATA
1 AAATATTAAATATATTATATATAACATATGAACTCAACCCAAA-TAATTTAAAACACAATTAATA
* * *
917377 ATTTAAGAACCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAATTTTATATAAATTT
65 ATTTAAGAACCAATAACTTTTAAACATAAATCAATATTAATTAATTAAAAAATTTATATAAAATT
*
917442 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTATTTTTTTAATTATA
130 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTATTTTTTTAATTAAA
917498 AAATATT
1 AAATATT
917505 TAATTTTTAT
Statistics
Matches: 178, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
185 177 0.99
186 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (185 bp):
AAATATTAAATATATTATATATAACATATGAACTCAACCCAAATAATTTAAAACACAATTAATAA
TTTAAGAACCAATAACTTTTAAACATAAATCAATATTAATTAATTAAAAAATTTATATAAAATTT
TTATTTTATAATTATATATTATTTAAATTAATTATAAACTATTTTTTTAATTAAA
Found at i:917485 original size:20 final size:20
Alignment explanation
Indices: 917451--917507 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
917441 TTTTATTTTA
* *
917451 TAATTATATATTATTTAAAT
1 TAATTATAAAATATTTAAAT
* **
917471 TAATTATAAACTATTT-TTT
1 TAATTATAAAATATTTAAAT
917490 TAATTATAAAATATTTAA
1 TAATTATAAAATATTTAA
917508 TTTTTATAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATTATAAAATATTTAAAT
Found at i:918854 original size:37 final size:32
Alignment explanation
Indices: 918804--918890 Score: 106
Period size: 30 Copynumber: 2.6 Consensus size: 32
918794 GGTAAGCATG
*
918804 GTTGAATACTTAAAATCATTTTATACGATTTTTCAAC
1 GTTGAATACTTAAAATCA---TATA--ATTTTTCAAA
918841 GTTGAATACTTAAAATC--ATAATTTTTCAAA
1 GTTGAATACTTAAAATCATATAATTTTTCAAA
918871 GTTGAATACTTAAAATCATA
1 GTTGAATACTTAAAATCATA
918891 ATTTAAGTAT
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
30 26 0.55
32 4 0.09
37 17 0.36
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.40
Consensus pattern (32 bp):
GTTGAATACTTAAAATCATATAATTTTTCAAA
Done.