Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007918.1 Hibiscus syriacus cultivar Beakdansim tig00110321_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: 2302251
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 9
Found at i:650039 original size:30 final size:28
Alignment explanation
Indices: 650000--650075 Score: 102
Period size: 27 Copynumber: 2.7 Consensus size: 28
649990 ATTCCTGGAG
*
650000 CTCCTAGCCCCACGCCCACCACGCCTGCAA
1 CTCCAAGCCCC-CG-CCACCACGCCTGCAA
650030 CTCCAAG-CCCCGCCACCACGCCTGCAA
1 CTCCAAGCCCCCGCCACCACGCCTGCAA
*
650057 TTCCAAG-CCCCGCCACCAC
1 CTCCAAGCCCCCGCCACCAC
650076 CCCAGGAACT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
27 33 0.75
28 2 0.05
29 3 0.07
30 6 0.14
ACGTcount: A:0.21, C:0.57, G:0.13, T:0.09
Consensus pattern (28 bp):
CTCCAAGCCCCCGCCACCACGCCTGCAA
Found at i:650050 original size:27 final size:27
Alignment explanation
Indices: 650015--650075 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
650005 AGCCCCACGC
650015 CCACCACGCCTGCAACTCCAAGCCCCG
1 CCACCACGCCTGCAACTCCAAGCCCCG
*
650042 CCACCACGCCTGCAATTCCAAGCCCCG
1 CCACCACGCCTGCAACTCCAAGCCCCG
650069 CCACCAC
1 CCACCAC
650076 CCCAGGAACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.23, C:0.56, G:0.13, T:0.08
Consensus pattern (27 bp):
CCACCACGCCTGCAACTCCAAGCCCCG
Found at i:653904 original size:36 final size:36
Alignment explanation
Indices: 653856--653951 Score: 165
Period size: 36 Copynumber: 2.7 Consensus size: 36
653846 CAGCAACCCC
*
653856 GCCATCCTCTTCCTCGCCTTCACCATCACCATCCAT
1 GCCATCCCCTTCCTCGCCTTCACCATCACCATCCAT
653892 GCCATCCCCTTCCTCGCCTTCACCATCACCATCCAT
1 GCCATCCCCTTCCTCGCCTTCACCATCACCATCCAT
* *
653928 GCCATCCCCTTCCTCACCATCACC
1 GCCATCCCCTTCCTCGCCTTCACC
653952 GTTATCAGCT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.17, C:0.53, G:0.05, T:0.25
Consensus pattern (36 bp):
GCCATCCCCTTCCTCGCCTTCACCATCACCATCCAT
Found at i:659758 original size:35 final size:35
Alignment explanation
Indices: 659719--659806 Score: 95
Period size: 35 Copynumber: 2.5 Consensus size: 35
659709 CATCAATGAT
* **
659719 ATTCTAAACCCCAAATTCTAAAATGTTTCAATTAC
1 ATTCTAAACCCCAAATTCCAAAATACTTCAATTAC
* * *
659754 ATTCTAAATCTCAAATTCCAAAATACTTCAATTAT
1 ATTCTAAACCCCAAATTCCAAAATACTTCAATTAC
* **
659789 ATACCCAACCCCAAATTC
1 ATTCTAAACCCCAAATTC
659807 ATAATCCATT
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.41, C:0.26, G:0.01, T:0.32
Consensus pattern (35 bp):
ATTCTAAACCCCAAATTCCAAAATACTTCAATTAC
Found at i:660562 original size:148 final size:148
Alignment explanation
Indices: 660284--660571 Score: 488
Period size: 148 Copynumber: 1.9 Consensus size: 148
660274 AAACTATTTA
* * * **
660284 AATTATAATCAAATAATATTATAGTATTATAAATATTTATAATTAAATTTAAATGGAAACTCGAA
1 AATTAGAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAACAGAAACTCGAA
* *
660349 AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAACTGAAAAAATTTTGAGTCAACT
66 AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAACTGAAAAAATTTCGAGTAAACT
660414 ATTTTATAAATTGAACTG
131 ATTTTATAAATTGAACTG
*
660432 AATTAGAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAACAGAAACTTGAA
1 AATTAGAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAACAGAAACTCGAA
660497 AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAA-TCGAAAAAATTTCGAGTAAAC
66 AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAACT-GAAAAAATTTCGAGTAAAC
660561 TATTTTATAAA
130 TATTTTATAAA
660572 CCGAATTGAG
Statistics
Matches: 131, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
147 1 0.01
148 130 0.99
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.38
Consensus pattern (148 bp):
AATTAGAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAACAGAAACTCGAA
AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAACTGAAAAAATTTCGAGTAAACT
ATTTTATAAATTGAACTG
Found at i:660794 original size:35 final size:35
Alignment explanation
Indices: 660765--660831 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
660755 TAATTTAAGT
*
660765 ATTTTGGAATTTGAGGTTTAGAATATAATTGAACC
1 ATTTTGGAATTTGAGGTTTAAAATATAATTGAACC
* * *
660800 ATTTTGGATTTTGGGGTTTAAAATGTAATTGA
1 ATTTTGGAATTTGAGGTTTAAAATATAATTGA
660832 TGACTGTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.31, C:0.03, G:0.22, T:0.43
Consensus pattern (35 bp):
ATTTTGGAATTTGAGGTTTAAAATATAATTGAACC
Found at i:665115 original size:21 final size:21
Alignment explanation
Indices: 665091--665131 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
665081 ATATTATTAT
665091 AAAAAAT-ATTAATTATAATTC
1 AAAAAATAATTAA-TATAATTC
*
665112 AAAATATAATTAATATAATT
1 AAAAAATAATTAATATAATT
665132 TTTAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAAAATAATTAATATAATTC
Found at i:665118 original size:19 final size:16
Alignment explanation
Indices: 665078--665108 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
665068 ATAAAAAGAG
665078 AAAATATT-ATTATAA
1 AAAATATTAATTATAA
665093 AAAATATTAATTATAA
1 AAAATATTAATTATAA
665109 TTCAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAAATATTAATTATAA
Found at i:682048 original size:15 final size:15
Alignment explanation
Indices: 682028--682057 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
682018 CCCCAGAACC
682028 TTCTATGCAATAGCG
1 TTCTATGCAATAGCG
682043 TTCTATGCAATAGCG
1 TTCTATGCAATAGCG
682058 AAAAGGAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (15 bp):
TTCTATGCAATAGCG
Found at i:694990 original size:24 final size:22
Alignment explanation
Indices: 694951--694994 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
694941 ATAATATTCC
*
694951 TAAATTTTATTGAATAAAATTA
1 TAAATTTTATTAAATAAAATTA
694973 TAAATTTTATATTAAATAAAAT
1 TAAA-TTT-TATTAAATAAAAT
694995 ATTAGTTGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 3 0.16
24 12 0.63
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
TAAATTTTATTAAATAAAATTA
Found at i:710588 original size:29 final size:29
Alignment explanation
Indices: 710567--710624 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
710557 AACACTGATC
710567 AGATTATATTTTTAAATTTAACACTAGTA
1 AGATTATATTTTTAAATTTAACACTAGTA
*
710596 AGATTATATTTTTAGATTTAACACTAGTA
1 AGATTATATTTTTAAATTTAACACTAGTA
710625 GCAGTAAAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.45
Consensus pattern (29 bp):
AGATTATATTTTTAAATTTAACACTAGTA
Found at i:711029 original size:17 final size:17
Alignment explanation
Indices: 710989--711034 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
710979 TTTTAATATT
*
710989 ATATATTTAATTTATTTA
1 ATAT-TTTACTTTATTTA
711007 AGTATTTTACTTTATTTA
1 A-TATTTTACTTTATTTA
711025 ATATTTTACT
1 ATATTTTACT
711035 AATATAATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 9 0.35
18 14 0.54
19 3 0.12
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (17 bp):
ATATTTTACTTTATTTA
Found at i:713103 original size:15 final size:15
Alignment explanation
Indices: 713083--713114 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
713073 ACCTGCTCAG
713083 GACGACGACGACGAT
1 GACGACGACGACGAT
713098 GACGACGACGACGAT
1 GACGACGACGACGAT
713113 GA
1 GA
713115 TGACAGCGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.25, G:0.34, T:0.06
Consensus pattern (15 bp):
GACGACGACGACGAT
Found at i:716711 original size:11 final size:11
Alignment explanation
Indices: 716697--716721 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
716687 TATAATAAAA
716697 AAATTATAACG
1 AAATTATAACG
716708 AAATTATAACG
1 AAATTATAACG
716719 AAA
1 AAA
716722 AATCGCACGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (11 bp):
AAATTATAACG
Found at i:717236 original size:29 final size:29
Alignment explanation
Indices: 717147--717253 Score: 164
Period size: 29 Copynumber: 3.7 Consensus size: 29
717137 TACTGTTACG
*
717147 GGTGTTAGATCGGGAAATATAATCTGACC
1 GGTGTTAGATCGAGAAATATAATCTGACC
* *
717176 GGTGTTAGATCG-GAAATATAATCAGACT
1 GGTGTTAGATCGAGAAATATAATCTGACC
717204 GGTGTTAGATCGAGAAATATAATCTGACC
1 GGTGTTAGATCGAGAAATATAATCTGACC
717233 GGTGTTAGATC-AGGAAATATA
1 GGTGTTAGATCGA-GAAATATA
717254 TCGGTCACCG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
28 27 0.38
29 45 0.62
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (29 bp):
GGTGTTAGATCGAGAAATATAATCTGACC
Found at i:733647 original size:30 final size:30
Alignment explanation
Indices: 733576--733635 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
733566 ACAATTTAAG
733576 GCAAAATGTTTTTGGACTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
*
733606 GCAAAATGTTTTTGGATTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
733636 ATTCAAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (30 bp):
GCAAAATGTTTTTGGACTTGAATTGAATTT
Found at i:733743 original size:21 final size:21
Alignment explanation
Indices: 733717--733774 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
733707 AGGGTGTCAA
733717 AGTGCATCCATGCATCCCTAC
1 AGTGCATCCATGCATCCCTAC
*
733738 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTAC
* *
733759 TGTGCATCAATGCATC
1 AGTGCATCCATGCATC
733775 TGCACTAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.22, C:0.34, G:0.17, T:0.26
Consensus pattern (21 bp):
AGTGCATCCATGCATCCCTAC
Found at i:733868 original size:8 final size:7
Alignment explanation
Indices: 733856--733912 Score: 50
Period size: 8 Copynumber: 8.3 Consensus size: 7
733846 GCATCCTTGC
733856 CATGCAT
1 CATGCAT
733863 CGATGCAT
1 C-ATGCAT
733871 CATGC--
1 CATGCAT
733876 CATGCAT
1 CATGCAT
733883 CCATGCAT
1 -CATGCAT
*
733891 CCTG--T
1 CATGCAT
733896 CATGCAT
1 CATGCAT
733903 CCATGCAT
1 -CATGCAT
733911 CA
1 CA
733913 AGGCTGCAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
5 9 0.22
7 11 0.27
8 21 0.51
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (7 bp):
CATGCAT
Found at i:733878 original size:20 final size:20
Alignment explanation
Indices: 733837--733912 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 20
733827 ATGCAATTAG
* *
733837 TGCATCGATGCATCCTTGCCA
1 TGCATCCATGCAT-CATGCCA
*
733858 TGCATCGATGCATCATGCCA
1 TGCATCCATGCATCATGCCA
* *
733878 TGCATCCATGCATCCTGTCA
1 TGCATCCATGCATCATGCCA
733898 TGCATCCATGCATCA
1 TGCATCCATGCATCA
733913 AGGCTGCAAC
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 37 0.74
21 13 0.26
ACGTcount: A:0.22, C:0.33, G:0.17, T:0.28
Consensus pattern (20 bp):
TGCATCCATGCATCATGCCA
Found at i:733882 original size:12 final size:13
Alignment explanation
Indices: 733844--733908 Score: 53
Period size: 13 Copynumber: 4.9 Consensus size: 13
733834 TAGTGCATCG
*
733844 ATGCATCCTTGCC
1 ATGCATCCATGCC
*
733857 ATGCATCGATGCATC
1 ATGCATCCATGC--C
*
733872 ATGCCATGCAT-CC
1 ATG-CATCCATGCC
*
733885 ATGCATCC-TGTC
1 ATGCATCCATGCC
733897 ATGCATCCATGC
1 ATGCATCCATGC
733909 ATCAAGGCTG
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
11 1 0.03
12 13 0.32
13 16 0.40
15 5 0.12
16 5 0.12
ACGTcount: A:0.22, C:0.34, G:0.17, T:0.28
Consensus pattern (13 bp):
ATGCATCCATGCC
Found at i:734305 original size:34 final size:33
Alignment explanation
Indices: 734266--734336 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 33
734256 TTTTGTAAAG
* *
734266 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAACCCGTG-AAAAACTA
*
734300 GGGAAAGGTTCTAGTTTAACCCGTGAAAAACTA
1 GGGAAAGGTTCTAGCTTAACCCGTGAAAAACTA
734333 GGGA
1 GGGA
734337 GTTGTAAGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 11 0.32
34 23 0.68
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (33 bp):
GGGAAAGGTTCTAGCTTAACCCGTGAAAAACTA
Found at i:736742 original size:20 final size:20
Alignment explanation
Indices: 736717--736771 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
736707 ATGCAATTAG
*
736717 TGCATCGATGCATCATGCCA
1 TGCATCCATGCATCATGCCA
* *
736737 TGCATCCATGCATCTTGTCA
1 TGCATCCATGCATCATGCCA
*
736757 TGCATCCATGTATCA
1 TGCATCCATGCATCA
736772 AGGCTGCAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (20 bp):
TGCATCCATGCATCATGCCA
Found at i:737161 original size:33 final size:33
Alignment explanation
Indices: 737123--737192 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
737113 TTTTGTAAAG
* *
737123 GGGAAAGGTT-TAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAACCCGTG-AAAAACTA
*
737156 GGGAAAGGTTCTAGTTTAACCCGTGAAAAACTA
1 GGGAAAGGTTCTAGCTTAACCCGTGAAAAACTA
737189 GGGA
1 GGGA
737193 GTTGTAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 21 0.64
34 12 0.36
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (33 bp):
GGGAAAGGTTCTAGCTTAACCCGTGAAAAACTA
Found at i:738074 original size:19 final size:20
Alignment explanation
Indices: 738050--738098 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
738040 AACGATTTTC
738050 TTTTGAAAACAAAAATAG-A
1 TTTTGAAAACAAAAATAGAA
* *
738069 TTTTGAAAGCCAAAATAGAAA
1 TTTTGAAAACAAAAATAG-AA
738090 TTTTGAAAA
1 TTTTGAAAA
738099 AGGATTTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 16 0.64
21 9 0.36
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATAGAA
Found at i:739439 original size:30 final size:30
Alignment explanation
Indices: 739368--739427 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
739358 ACAATTTAAG
739368 GCAAAATGTTTTTGGACTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
*
739398 GCAAAATGTTTTTGGATTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
739428 ATTCAAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (30 bp):
GCAAAATGTTTTTGGACTTGAATTGAATTT
Found at i:739641 original size:20 final size:21
Alignment explanation
Indices: 739600--739646 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
739590 ATGCAATTAG
*
739600 TGCATCGATGCATCCTTGCCA
1 TGCATCGATGCATCCATGCCA
739621 TGCATCGATGCAT-CATGCCA
1 TGCATCGATGCATCCATGCCA
739641 TGCATC
1 TGCATC
739647 CTGTCATGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.28
Consensus pattern (21 bp):
TGCATCGATGCATCCATGCCA
Found at i:740060 original size:34 final size:33
Alignment explanation
Indices: 740021--740091 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 33
740011 TTTTGTAAAG
* *
740021 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAACCCGTG-AAAAACTA
*
740055 GGGAAAGGTTCTAGTTTAACCCGTGAAAAACTA
1 GGGAAAGGTTCTAGCTTAACCCGTGAAAAACTA
740088 GGGA
1 GGGA
740092 GTTGTAAGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 11 0.32
34 23 0.68
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (33 bp):
GGGAAAGGTTCTAGCTTAACCCGTGAAAAACTA
Found at i:740975 original size:19 final size:20
Alignment explanation
Indices: 740951--740998 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
740941 AACGATTTTC
*
740951 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
740970 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
740990 TTTTGAAAA
1 TTTTGAAAA
740999 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:742338 original size:30 final size:30
Alignment explanation
Indices: 742267--742326 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
742257 ACAATTTAAG
742267 GCAAAATGTTTTTGGACTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
*
742297 GCAAAATGTTTTTGGATTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
742327 ATTCAAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (30 bp):
GCAAAATGTTTTTGGACTTGAATTGAATTT
Found at i:742499 original size:8 final size:8
Alignment explanation
Indices: 742486--742557 Score: 59
Period size: 8 Copynumber: 9.8 Consensus size: 8
742476 ATGCAATTAG
*
742486 TGCATCGA
1 TGCATCCA
*
742494 TGCATCCT
1 TGCATCCA
742502 TGC--C-A
1 TGCATCCA
*
742507 TGCATCGA
1 TGCATCCA
742515 TGCATGCCA
1 TGCAT-CCA
742524 TGCATCCA
1 TGCATCCA
742532 TGCATCC-
1 TGCATCCA
742539 TG---CCA
1 TGCATCCA
742544 TGCATCCA
1 TGCATCCA
742552 TGCATC
1 TGCATC
742558 AAGGCTGCAA
Statistics
Matches: 52, Mismatches: 4, Indels: 16
0.72 0.06 0.22
Matches are distributed among these distances:
4 2 0.04
5 5 0.10
6 1 0.02
7 3 0.06
8 34 0.65
9 7 0.13
ACGTcount: A:0.21, C:0.35, G:0.18, T:0.26
Consensus pattern (8 bp):
TGCATCCA
Found at i:742950 original size:34 final size:33
Alignment explanation
Indices: 742911--742981 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 33
742901 TTTTGTAAAG
* *
742911 GGGAAAGGTTCTAGCTTAGCCCATGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAACCCATG-AAAAACTA
* *
742945 GGGAAAGGTTCTAGTTTAACCCGTGAAAAACTA
1 GGGAAAGGTTCTAGCTTAACCCATGAAAAACTA
742978 GGGA
1 GGGA
742982 GTTGTAAGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
33 11 0.33
34 22 0.67
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (33 bp):
GGGAAAGGTTCTAGCTTAACCCATGAAAAACTA
Found at i:745375 original size:34 final size:33
Alignment explanation
Indices: 745336--745406 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 33
745326 TTTTGTAAAG
* *
745336 GGGAAAGGTTCTAGCTTAGCCCATGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAACCCATG-AAAAACTA
* *
745370 GGGAAAGGTTCTAGTTTAACCCGTGAAAAACTA
1 GGGAAAGGTTCTAGCTTAACCCATGAAAAACTA
745403 GGGA
1 GGGA
745407 GTTGTAAGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
33 11 0.33
34 22 0.67
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (33 bp):
GGGAAAGGTTCTAGCTTAACCCATGAAAAACTA
Found at i:755409 original size:20 final size:20
Alignment explanation
Indices: 755376--755420 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
755366 GGGGTACATA
* * *
755376 ATGCGGTCTGATGCGATCCG
1 ATGCGGTATAATGCGAGCCG
*
755396 ATGCGGTATAATGCGGGCCG
1 ATGCGGTATAATGCGAGCCG
755416 ATGCG
1 ATGCG
755421 TTTAATAAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.18, C:0.22, G:0.38, T:0.22
Consensus pattern (20 bp):
ATGCGGTATAATGCGAGCCG
Found at i:755848 original size:89 final size:89
Alignment explanation
Indices: 755747--755918 Score: 344
Period size: 89 Copynumber: 1.9 Consensus size: 89
755737 ATGTGTACTA
755747 AAACAAGTTGTTTTTTGTTGCTTAAATGAATGAACTGTTTTTACGTCCTATAGATAAGTTCTTTT
1 AAACAAGTTGTTTTTTGTTGCTTAAATGAATGAACTGTTTTTACGTCCTATAGATAAGTTCTTTT
755812 TGTTGCAATAGCTTTTAGAAACAT
66 TGTTGCAATAGCTTTTAGAAACAT
755836 AAACAAGTTGTTTTTTGTTGCTTAAATGAATGAACTGTTTTTACGTCCTATAGATAAGTTCTTTT
1 AAACAAGTTGTTTTTTGTTGCTTAAATGAATGAACTGTTTTTACGTCCTATAGATAAGTTCTTTT
755901 TGTTGCAATAGCTTTTAG
66 TGTTGCAATAGCTTTTAG
755919 TTGCAATAGC
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 83 1.00
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.45
Consensus pattern (89 bp):
AAACAAGTTGTTTTTTGTTGCTTAAATGAATGAACTGTTTTTACGTCCTATAGATAAGTTCTTTT
TGTTGCAATAGCTTTTAGAAACAT
Found at i:755921 original size:16 final size:16
Alignment explanation
Indices: 755896--755950 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
755886 TAGATAAGTT
*
755896 CTTTTTGTTGCAATAG
1 CTTTTAGTTGCAATAG
755912 CTTTTAGTTGCAATAG
1 CTTTTAGTTGCAATAG
*
755928 CTTTTAGTTGCAAAAG
1 CTTTTAGTTGCAATAG
755944 CTTTTAG
1 CTTTTAG
755951 CTTTTAGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.45
Consensus pattern (16 bp):
CTTTTAGTTGCAATAG
Found at i:776130 original size:16 final size:15
Alignment explanation
Indices: 776111--776151 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
776101 TCGTATGAAA
776111 ATAAAATTAAAAAGTT
1 ATAAAATTAAAAA-TT
776127 ATAAAATTAAAAATT
1 ATAAAATTAAAAATT
*
776142 A-AAATTTAAA
1 ATAAAATTAAA
776152 TAACATGACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 8 0.33
15 3 0.12
16 13 0.54
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (15 bp):
ATAAAATTAAAAATT
Found at i:776139 original size:7 final size:7
Alignment explanation
Indices: 776113--776151 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
776103 GTATGAAAAT
776113 AAAATTA
1 AAAATTA
776120 AAAAGTTA
1 AAAA-TTA
776128 TAAAATTA
1 -AAAATTA
776136 AAAATTA
1 AAAATTA
*
776143 AAATTTA
1 AAAATTA
776150 AA
1 AA
776152 TAACATGACA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
7 19 0.66
8 6 0.21
9 4 0.14
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (7 bp):
AAAATTA
Found at i:776548 original size:21 final size:21
Alignment explanation
Indices: 776512--776583 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 21
776502 TAATATATAT
*
776512 ATTTTTAATTTTTTAGTAATTTA
1 ATTTTTAA--TTTTAGTATTTTA
*
776535 ATTTTTAATTTTAGTATTTTT
1 ATTTTTAATTTTAGTATTTTA
* *
776556 ATATTTATATTTTAATATTTTA
1 ATTTTTA-ATTTTAGTATTTTA
776578 TATTTT
1 -ATTTT
776584 AGATATTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 17 0.41
22 12 0.29
23 12 0.29
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (21 bp):
ATTTTTAATTTTAGTATTTTA
Found at i:776553 original size:15 final size:14
Alignment explanation
Indices: 776531--776583 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 14
776521 TTTTTAGTAA
776531 TTTA-ATTTTTAAT
1 TTTATATTTTTAAT
776544 TTTAGTATTTTT-AT
1 TTTA-TATTTTTAAT
*
776558 ATTTATATTTTAATAT
1 -TTTATATTTTTA-AT
776574 TTTATATTTT
1 TTTATATTTT
776584 AGATATTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
13 4 0.12
14 8 0.24
15 20 0.59
16 2 0.06
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (14 bp):
TTTATATTTTTAAT
Found at i:776562 original size:6 final size:7
Alignment explanation
Indices: 776537--776584 Score: 55
Period size: 8 Copynumber: 6.7 Consensus size: 7
776527 GTAATTTAAT
776537 TTTTA-A
1 TTTTATA
776543 TTTTAGTA
1 TTTTA-TA
776551 TTTT-TA
1 TTTTATA
776557 TATTTATA
1 T-TTTATA
776565 TTTTAATA
1 TTTT-ATA
776573 TTTTATA
1 TTTTATA
776580 TTTTA
1 TTTTA
776585 GATATTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
6 8 0.22
7 14 0.38
8 15 0.41
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (7 bp):
TTTTATA
Found at i:776584 original size:15 final size:15
Alignment explanation
Indices: 776542--776592 Score: 68
Period size: 15 Copynumber: 3.3 Consensus size: 15
776532 TTAATTTTTA
*
776542 ATTTTAGTATTTTTAT
1 ATTTTA-TATTTTAAT
776558 A-TTTATATTTTAAT
1 ATTTTATATTTTAAT
776572 ATTTTATATTTTAGAT
1 ATTTTATATTTTA-AT
776588 ATTTT
1 ATTTT
776593 TTTCATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 9 0.28
15 15 0.47
16 8 0.25
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (15 bp):
ATTTTATATTTTAAT
Found at i:776584 original size:22 final size:20
Alignment explanation
Indices: 776537--776584 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 20
776527 GTAATTTAAT
*
776537 TTTTAATTTTAGTATTTTTA
1 TTTTAATTTTAATATTTTTA
776557 TATTTATATTTTAATATTTTATA
1 T-TTTA-ATTTTAATATTTT-TA
776580 TTTTA
1 TTTTA
776585 GATATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 1 0.04
21 4 0.17
22 16 0.67
23 3 0.12
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTAATTTTAATATTTTTA
Found at i:777099 original size:35 final size:35
Alignment explanation
Indices: 777053--777128 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
777043 AAAATAGTCC
* *
777053 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
* *
777088 TCAATTTCATTCTAAACCCTAAATTCTAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
777123 TCAATT
1 TCAATT
777129 AAATTCAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.39, C:0.22, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:777671 original size:130 final size:130
Alignment explanation
Indices: 777525--777772 Score: 397
Period size: 130 Copynumber: 1.9 Consensus size: 130
777515 TATTTATATA
* * ** *
777525 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATATGACATGTG
1 ATCAATTTGGTCCTAAATTAAACAAAATTTAATAAATTAATCATTTAACCAGGATATGACATATG
* *
777590 TTAGCACATGATCATGACATGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACATATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
* *
777655 ATCAATTTGGTCCTAAATTAAACAAAATTTAATAAATTAATCATTTAACCATGATCTGACATATG
1 ATCAATTTGGTCCTAAATTAAACAAAATTTAATAAATTAATCATTTAACCAGGATATGACATATG
* *
777720 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACATATGTCATTGGTGACACATGTCACCACCTAATTA
777773 GAAGAAAATA
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
130 107 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAACAAAATTTAATAAATTAATCATTTAACCAGGATATGACATATG
TTAACACATGATCATGACATATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:777745 original size:23 final size:21
Alignment explanation
Indices: 777699--777745 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 21
777689 AATTAATCAT
777699 TTAACCATGATCTGACATATG
1 TTAACCATGATCTGACATATG
*
777720 TTAACACATGATCATGATATATG
1 TTAAC-CATGATC-TGACATATG
777743 TTA
1 TTA
777746 TTGGTGACAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.22
22 7 0.30
23 11 0.48
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (21 bp):
TTAACCATGATCTGACATATG
Found at i:778130 original size:28 final size:27
Alignment explanation
Indices: 778099--778161 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
778089 AGTTGATATA
*
778099 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
778127 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
778155 ATATTTT
1 ATATTTT
778162 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:778262 original size:16 final size:18
Alignment explanation
Indices: 778241--778274 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
778231 ATTTCTCATT
778241 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
778257 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
778275 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:779355 original size:16 final size:17
Alignment explanation
Indices: 779318--779355 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
779308 GGATAAAAAA
**
779318 TTAAACAAATTATTTGT
1 TTAAACAAATTATTCAT
779335 TTAAACAAATTA-TCAT
1 TTAAACAAATTATTCAT
779351 TTAAA
1 TTAAA
779356 TTAATTGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (17 bp):
TTAAACAAATTATTCAT
Found at i:779618 original size:29 final size:29
Alignment explanation
Indices: 779586--779650 Score: 105
Period size: 29 Copynumber: 2.2 Consensus size: 29
779576 TAAAAAATAG
779586 ATTAATTCAGTTTGGTTAATAAATTTT-AA
1 ATTAATTCAGTTTGGTTAAT-AATTTTCAA
779615 ATTAATTCAGTTTGGTTAATAATTTTCAA
1 ATTAATTCAGTTTGGTTAATAATTTTCAA
*
779644 ATAAATT
1 ATTAATT
779651 TTGGTTCGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 6 0.18
29 28 0.82
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (29 bp):
ATTAATTCAGTTTGGTTAATAATTTTCAA
Found at i:779680 original size:141 final size:141
Alignment explanation
Indices: 779518--779810 Score: 410
Period size: 141 Copynumber: 2.1 Consensus size: 141
779508 TAATTTTCAA
* * ***
779518 ATTAACCGAACCAAACTAACTGAATTTTT-TCTTCGATTAATTCGGTTAATAATTTTTTTAAAAA
1 ATTAACCGAACAAAACTAACTGAATTTTTGT-TTCAATTAATTCGGTTAATAATTTTCAAAAAAA
* *
779582 ATAGATTAATTCAGTTTGGTTAATAAATTTT-AAATTAATTCAGTTTGGTTAATAATTTTCAAAT
65 ATAGATTAATTCAGTTCGGTTAAT-AATTTTCAAATTAATTCAGTTCGGTTAATAATTTTCAAAT
779646 AAATTTTGGTTCG
129 AAATTTTGGTTCG
* *
779659 ATTAACCGAACAAAATTAACTGAATTTTTGTTTCAATTAATTTGGTTAATAATTTTCAAAAAAAA
1 ATTAACCGAACAAAACTAACTGAATTTTTGTTTCAATTAATTCGGTTAATAATTTTCAAAAAAAA
* * ** ** *
779724 TCGGTTAATTTGGTTCGGTTAATAATTTTCAAATTAATTTGGTTCGGTTAATGATTTTCAAATAA
66 TAGATTAATTCAGTTCGGTTAATAATTTTCAAATTAATTCAGTTCGGTTAATAATTTTCAAATAA
779789 ATTTTGGTTCG
131 ATTTTGGTTCG
779800 ATTAACCGAAC
1 ATTAACCGAAC
779811 CAATTTTTTT
Statistics
Matches: 134, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
140 6 0.04
141 127 0.95
142 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.43
Consensus pattern (141 bp):
ATTAACCGAACAAAACTAACTGAATTTTTGTTTCAATTAATTCGGTTAATAATTTTCAAAAAAAA
TAGATTAATTCAGTTCGGTTAATAATTTTCAAATTAATTCAGTTCGGTTAATAATTTTCAAATAA
ATTTTGGTTCG
Found at i:779770 original size:29 final size:29
Alignment explanation
Indices: 779728--779804 Score: 118
Period size: 29 Copynumber: 2.6 Consensus size: 29
779718 AAAAAATCGG
779728 TTAATTTGGTTCGGTTAATAATTTTCAAA
1 TTAATTTGGTTCGGTTAATAATTTTCAAA
*
779757 TTAATTTGGTTCGGTTAATGATTTTCAAA
1 TTAATTTGGTTCGGTTAATAATTTTCAAA
* *
779786 TAAATTTTGGTTCGATTAA
1 TTAA-TTTGGTTCGGTTAA
779805 CCGAACCAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 31 0.70
30 13 0.30
ACGTcount: A:0.30, C:0.06, G:0.16, T:0.48
Consensus pattern (29 bp):
TTAATTTGGTTCGGTTAATAATTTTCAAA
Found at i:779925 original size:29 final size:29
Alignment explanation
Indices: 779880--779937 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
779870 ATAATTTATT
779880 TAATTTTTTAATATTTTAT-TTAAACAAA
1 TAATTTTTTAATATTTTATCTTAAACAAA
* *
779908 TAATTTATTTAATTTTTTATCTTTAACAAA
1 TAATTT-TTTAATATTTTATCTTAAACAAA
779938 CCTTTAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 6 0.23
29 12 0.46
30 8 0.31
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (29 bp):
TAATTTTTTAATATTTTATCTTAAACAAA
Found at i:780349 original size:30 final size:30
Alignment explanation
Indices: 780314--780401 Score: 142
Period size: 30 Copynumber: 3.0 Consensus size: 30
780304 GTCGGTTGTT
* *
780314 TGATTGAATCAATTAAATAGTTTGATGGTC
1 TGATTGATTCAATTAAATAGTTTGGTGGTC
*
780344 TGATTGATTTAATTAAATAGTTTGGTGGTC
1 TGATTGATTCAATTAAATAGTTTGGTGGTC
780374 TGATTGATTCAATTAAA-AGTTTGGTGGT
1 TGATTGATTCAATTAAATAGTTTGGTGGT
780402 TACATTAATT
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
29 11 0.20
30 43 0.80
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.43
Consensus pattern (30 bp):
TGATTGATTCAATTAAATAGTTTGGTGGTC
Found at i:787851 original size:2 final size:2
Alignment explanation
Indices: 787801--787836 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
787791 TTAAAGGTGG
787801 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
787837 AATTTTTTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:789339 original size:150 final size:149
Alignment explanation
Indices: 789031--789307 Score: 491
Period size: 150 Copynumber: 1.8 Consensus size: 149
789021 AAAATTATTG
789031 TGATATTTGTGATTATTGACCTTAGTTTAAGGTGAAGTGCAATTAGTTATTACTATATATTCAAG
1 TGATATTTGTGATTATTGACCTTAGTTTAAGGTGAAGTGCAATTAGTTATTACTATATATTCAAG
789096 AAGGTCAACCGGTTGACATTTGATCATATGTGTAATTCAGGTTTACATTATTGGAGGAGATATGT
66 AAGGTCAACCGGTTGACATTTGATCATATGTGTAATTCAGGTTTACATTATTGGAGGAGA-ATGT
* * * *
789161 GAAAAGAAAGAAAATTATTG
130 GAAAACAAAGAAAATCACTC
789181 TGATATTTGTGATTATTGACCTTAGTTTAAGGTGAAGTGCAATTAGTTATTACTATATATTCAAG
1 TGATATTTGTGATTATTGACCTTAGTTTAAGGTGAAGTGCAATTAGTTATTACTATATATTCAAG
789246 AAGGTCAACCTGGTTGACATTTGATCATATGTGGTAATTCAGGTTTACATTATTGGAGGAGA
66 AAGGTCAACC-GGTTGACATTTGATCATATGT-GTAATTCAGGTTTACATTATTGGAGGAGA
789308 TGGAACTCAG
Statistics
Matches: 125, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
150 75 0.60
151 21 0.17
152 29 0.23
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.38
Consensus pattern (149 bp):
TGATATTTGTGATTATTGACCTTAGTTTAAGGTGAAGTGCAATTAGTTATTACTATATATTCAAG
AAGGTCAACCGGTTGACATTTGATCATATGTGTAATTCAGGTTTACATTATTGGAGGAGAATGTG
AAAACAAAGAAAATCACTC
Found at i:789534 original size:23 final size:23
Alignment explanation
Indices: 789504--789569 Score: 114
Period size: 23 Copynumber: 2.9 Consensus size: 23
789494 TGTACTTATG
* *
789504 TGCTGAATCATTCAACACTGTAT
1 TGCTGAATCAGTCAGCACTGTAT
789527 TGCTGAATCAGTCAGCACTGTAT
1 TGCTGAATCAGTCAGCACTGTAT
789550 TGCTGAATCAGTCAGCACTG
1 TGCTGAATCAGTCAGCACTG
789570 AATCATTCAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (23 bp):
TGCTGAATCAGTCAGCACTGTAT
Found at i:793069 original size:38 final size:38
Alignment explanation
Indices: 793018--793096 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
793008 TTTCATTATC
793018 TAAATTTAAATTCAATTTTACGGATTCCAATTCGTACA
1 TAAATTTAAATTCAATTTTACGGATTCCAATTCGTACA
793056 TAAATTTAAATTCAATTTTACGGATTCCAATTCGTACA
1 TAAATTTAAATTCAATTTTACGGATTCCAATTCGTACA
793094 TAA
1 TAA
793097 CTTATGGCCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (38 bp):
TAAATTTAAATTCAATTTTACGGATTCCAATTCGTACA
Found at i:796610 original size:24 final size:22
Alignment explanation
Indices: 796573--796628 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 22
796563 ATTTGTTTAA
*
796573 TATAAAAAATTATTTTATTA-T
1 TATATAAAATTATTTTATTAGT
796594 TATTATATAAATATATTTTATTAGT
1 TA-TATA-AAAT-TATTTTATTAGT
796619 TATATAAAAT
1 TATATAAAAT
796629 CATAACAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 2 0.07
22 3 0.10
23 8 0.27
24 14 0.47
25 3 0.10
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TATATAAAATTATTTTATTAGT
Found at i:803541 original size:31 final size:31
Alignment explanation
Indices: 803506--803615 Score: 96
Period size: 31 Copynumber: 3.4 Consensus size: 31
803496 TCAGTCGCTG
* *
803506 CTGGTAATTCCTTGTATATGTTCAACACCGA
1 CTGGTAATTCCTTGTATAGGTTCAACACAGA
* * * *
803537 CTGGTAATTCCTATCTCTGGCAGGTTCAATCGCTG-
1 CTGGTAATTCCT-TGTAT---AGGTTCAA-CACAGA
*
803572 TTGGTAATTCCTTGTATAGGTTCAACACAGA
1 CTGGTAATTCCTTGTATAGGTTCAACACAGA
*
803603 CTGTTAATTCCTT
1 CTGGTAATTCCTT
803616 ATGGACCTAA
Statistics
Matches: 61, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
30 3 0.05
31 31 0.51
32 3 0.05
34 3 0.05
35 18 0.30
36 3 0.05
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (31 bp):
CTGGTAATTCCTTGTATAGGTTCAACACAGA
Found at i:803596 original size:66 final size:66
Alignment explanation
Indices: 803490--803614 Score: 205
Period size: 66 Copynumber: 1.9 Consensus size: 66
803480 GAAGACTCAT
* * *
803490 GCAGGTTCAGTCGCTGCTGGTAATTCCTTGTATATGTTCAACACCGACTGGTAATTCCTATCTCT
1 GCAGGTTCAATCGCTGCTGGTAATTCCTTGTATAGGTTCAACACAGACTGGTAATTCCTATCTCT
803555 G
66 G
* *
803556 GCAGGTTCAATCGCTGTTGGTAATTCCTTGTATAGGTTCAACACAGACTGTTAATTCCT
1 GCAGGTTCAATCGCTGCTGGTAATTCCTTGTATAGGTTCAACACAGACTGGTAATTCCT
803615 TATGGACCTA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 54 1.00
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (66 bp):
GCAGGTTCAATCGCTGCTGGTAATTCCTTGTATAGGTTCAACACAGACTGGTAATTCCTATCTCT
G
Found at i:810340 original size:7 final size:7
Alignment explanation
Indices: 810304--810337 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
810294 AGAACACTAT
810304 CATGCAG
1 CATGCAG
810311 CATGCAG
1 CATGCAG
810318 CATGCAG
1 CATGCAG
*
810325 CATGCAA
1 CATGCAG
810332 CATGCA
1 CATGCA
810338 ACAGTAGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.32, C:0.29, G:0.24, T:0.15
Consensus pattern (7 bp):
CATGCAG
Found at i:810876 original size:7 final size:7
Alignment explanation
Indices: 810840--810873 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
810830 AGAACACTAT
810840 CATGCAG
1 CATGCAG
810847 CATGCAG
1 CATGCAG
810854 CATGCAG
1 CATGCAG
*
810861 CATGCAA
1 CATGCAG
810868 CATGCA
1 CATGCA
810874 ACAGTAGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.32, C:0.29, G:0.24, T:0.15
Consensus pattern (7 bp):
CATGCAG
Found at i:824265 original size:2 final size:2
Alignment explanation
Indices: 824258--824285 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
824248 AATTATTCTG
824258 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
824286 TCCCGTCCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:827551 original size:13 final size:12
Alignment explanation
Indices: 827519--827552 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
827509 GAATTGGTAG
827519 ATTTTTAAAGAA
1 ATTTTTAAAGAA
*
827531 AATTTTAAAGAA
1 ATTTTTAAAGAA
827543 ATTTATTAAA
1 ATTT-TTAAA
827553 ATTTTAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (12 bp):
ATTTTTAAAGAA
Found at i:827575 original size:21 final size:21
Alignment explanation
Indices: 827529--827582 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
827519 ATTTTTAAAG
*
827529 AAAATTTTAAAGAAATTTATT
1 AAAATTTTAAAGAAATTTAAT
*
827550 AAAATTTTAAAGTAATTATAAT
1 AAAATTTTAAAGAAATT-TAAT
827572 -AAATTATTAAA
1 AAAATT-TTAAA
827583 ACATAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 21 0.72
22 8 0.28
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.41
Consensus pattern (21 bp):
AAAATTTTAAAGAAATTTAAT
Found at i:829353 original size:31 final size:34
Alignment explanation
Indices: 829289--829354 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
829279 TCATTATAAC
* *
829289 CCGTTTGATGTCCATGATCAAGATATCATCAAAG
1 CCGTTTGATGTCCATCATCAAGAGATCATCAAAG
829323 CCGTTTGATGTCCATCA-CAAG-GA-CATCAAAG
1 CCGTTTGATGTCCATCATCAAGAGATCATCAAAG
829354 C
1 C
829355 GCTCGACATC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 9 0.30
32 1 0.03
33 4 0.13
34 16 0.53
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (34 bp):
CCGTTTGATGTCCATCATCAAGAGATCATCAAAG
Found at i:832503 original size:13 final size:13
Alignment explanation
Indices: 832485--832524 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
832475 TGATAATTTG
832485 AATATATTTTAAT
1 AATATATTTTAAT
**
832498 AATATATAATAAT
1 AATATATTTTAAT
*
832511 AATATTTTTTAAT
1 AATATATTTTAAT
832524 A
1 A
832525 GTTTAAGGTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATATATTTTAAT
Found at i:834026 original size:72 final size:70
Alignment explanation
Indices: 833899--834126 Score: 311
Period size: 72 Copynumber: 3.3 Consensus size: 70
833889 TGTTGATTAT
*
833899 TTAATTTTCAATGTGCTCATATGCAAAACAACTACCCAAAGCTTAATTAAATTAGTTCATACGTT
1 TTAATTTTCAATGTGTTCATATGCAAAACAACTACCCAAAGCTTAATTAAATTAGTTCATACGTT
833964 GACTGC
66 GA-TGC
* *
833970 TTAATTTTCAATGTGTTCATAAGCAAAAACAACTACCCAAAACTTAATTAAATTAGTTCATACGT
1 TTAATTTTCAATGTGTTCATATGC-AAAACAACTACCCAAAGCTTAATTAAATTAGTTCATACGT
834035 TG--GC
65 TGATGC
* * * *
834039 TAAATTTTCAATGTGTTCATATGC-AAA-AACGACCCACAGCTTAATTAAATTAGTTCATATGTT
1 TTAATTTTCAATGTGTTCATATGCAAAACAACTACCCAAAGCTTAATTAAATTAGTTCATACGTT
**
834102 GATTA
66 GATGC
*
834107 TTGAATTTTCAACGTGTTCA
1 TT-AATTTTCAATGTGTTCA
834127 GAATTGACAA
Statistics
Matches: 140, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
66 33 0.24
67 3 0.02
68 1 0.01
69 40 0.29
71 22 0.16
72 41 0.29
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (70 bp):
TTAATTTTCAATGTGTTCATATGCAAAACAACTACCCAAAGCTTAATTAAATTAGTTCATACGTT
GATGC
Found at i:839148 original size:34 final size:33
Alignment explanation
Indices: 839109--839215 Score: 94
Period size: 34 Copynumber: 3.2 Consensus size: 33
839099 GTTTGAATAG
839109 TAAAAGTAGTTTATATCTTTTGAATATTTCAAAT
1 TAAAAG-AGTTTATATCTTTTGAATATTTCAAAT
* * * *
839143 TAAAAGA-TATGATTATCTGTTT-AA-GTTTGAATAG
1 TAAAAGAGT-TTA-TATCT-TTTGAATATTTCAA-AT
*
839177 TAAAACAAGTTTATATCTTTTGAATATTTCAAAT
1 TAAAA-GAGTTTATATCTTTTGAATATTTCAAAT
839211 TAAAA
1 TAAAA
839216 TATATAATTA
Statistics
Matches: 56, Mismatches: 9, Indels: 16
0.69 0.11 0.20
Matches are distributed among these distances:
32 1 0.02
33 11 0.20
34 32 0.57
35 11 0.20
36 1 0.02
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (33 bp):
TAAAAGAGTTTATATCTTTTGAATATTTCAAAT
Found at i:839169 original size:68 final size:68
Alignment explanation
Indices: 839058--839243 Score: 266
Period size: 68 Copynumber: 2.7 Consensus size: 68
839048 ATAATTATTC
* * * * **
839058 TTTGAATATGTCAAATTAAAAGGTATTTG-TTACCTATTTAAGTTTGAATAGTAAAAGTAGTTTA
1 TTTGAATATTTCAAATTAAAA-G-ATATGATTATCTGTTTAAGTTTGAATAGTAAAACAAGTTTA
839122 TATCT
64 TATCT
839127 TTTGAATATTTCAAATTAAAAGATATGATTATCTGTTTAAGTTTGAATAGTAAAACAAGTTTATA
1 TTTGAATATTTCAAATTAAAAGATATGATTATCTGTTTAAGTTTGAATAGTAAAACAAGTTTATA
839192 TCT
66 TCT
* * *
839195 TTTGAATATTTCAAATTAAAATATATAATTATCTGTTTAAATTTGAATA
1 TTTGAATATTTCAAATTAAAAGATATGATTATCTGTTTAAGTTTGAATA
839244 TCGAAGATAT
Statistics
Matches: 107, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
67 4 0.04
68 83 0.78
69 20 0.19
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.44
Consensus pattern (68 bp):
TTTGAATATTTCAAATTAAAAGATATGATTATCTGTTTAAGTTTGAATAGTAAAACAAGTTTATA
TCT
Found at i:839228 original size:34 final size:33
Alignment explanation
Indices: 839122--839228 Score: 85
Period size: 34 Copynumber: 3.2 Consensus size: 33
839112 AAGTAGTTTA
*
839122 TATCTTTTGAATATTTCAAATTAAAAGATATGAT
1 TATCTTTTGAATATTTCAAATTAAAACATAT-AT
* * * *
839156 TATCTGTTT-AA-GTTTGAATAGTAAAACA-AGTTT
1 TATCT-TTTGAATATTTCAA-ATTAAAACATA-TAT
*
839189 ATATCTTTTGAATATTTCAAATTAAAATATATAAT
1 -TATCTTTTGAATATTTCAAATTAAAACATAT-AT
839224 TATCT
1 TATCT
839229 GTTTAAATTT
Statistics
Matches: 55, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
33 10 0.18
34 35 0.64
35 10 0.18
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (33 bp):
TATCTTTTGAATATTTCAAATTAAAACATATAT
Found at i:841794 original size:19 final size:18
Alignment explanation
Indices: 841772--841817 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
841762 TATTCAAGTC
*
841772 AATTTAAATTCATATTTAA
1 AATTTAAATTAAT-TTTAA
841791 AATTTAAATTAATTTTAA
1 AATTTAAATTAATTTTAA
841809 AATTATAAA
1 AATT-TAAA
841818 CTTTTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
AATTTAAATTAATTTTAA
Found at i:842688 original size:19 final size:18
Alignment explanation
Indices: 842648--842689 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
842638 TTTAAGTTTA
*
842648 TAAA-TTTAAAATTAATT
1 TAAATTTTAAAATGAATT
*
842665 AAAATTTTAAATATGAATT
1 TAAATTTTAAA-ATGAATT
842684 TAAATT
1 TAAATT
842690 GACTCAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 3 0.15
18 6 0.30
19 11 0.55
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
TAAATTTTAAAATGAATT
Found at i:845018 original size:23 final size:22
Alignment explanation
Indices: 844992--845055 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 22
844982 CAGCTCATAT
844992 AATTGCACCTAAGTGCCACGTAG
1 AATTGCACCT-AGTGCCACGTAG
* *
845015 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACC-TAGTGCCACGTAG
845038 AATTGCACCGTAGTGCCA
1 AATTGCACC-TAGTGCCA
845056 TATAATAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (22 bp):
AATTGCACCTAGTGCCACGTAG
Found at i:845197 original size:103 final size:103
Alignment explanation
Indices: 845071--845288 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
845061 TAATGTCCAT
*
845071 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
845136 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
*
845174 AAGGACCACGTATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
* * *
845239 GACCTCGCACATGTTTCAAATAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
845277 AAGGACCACATA
1 AAGGACCACATA
845289 GACCCTTTAC
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:845795 original size:19 final size:20
Alignment explanation
Indices: 845758--845795 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
845748 CTTTTTTTTA
*
845758 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
845778 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
845796 TCTAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:847110 original size:66 final size:67
Alignment explanation
Indices: 847020--847152 Score: 205
Period size: 66 Copynumber: 2.0 Consensus size: 67
847010 AATTTTTAAA
* * * *
847020 TAGTAAAATGATTTTATATCTTTTGAATATTTCAAATTAAAAGATATAAT-TATGTTTAAGTTTG
1 TAGTAAAACGAGTTTATATCTTTTGAATATTTAAAATTAAAAGATATAATATATGTTTAAATTTG
847084 AT
66 AT
*
847086 TAGTAAAACGAGTTTATATCTTTTGAATATTTAAAATTAAAAGATATCATCATATGTTTAAATTT
1 TAGTAAAACGAGTTTATATCTTTTGAATATTTAAAATTAAAAGATATAAT-ATATGTTTAAATTT
847151 GA
65 GA
847153 ATAATGAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
66 46 0.77
68 14 0.23
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.44
Consensus pattern (67 bp):
TAGTAAAACGAGTTTATATCTTTTGAATATTTAAAATTAAAAGATATAATATATGTTTAAATTTG
AT
Found at i:856661 original size:30 final size:30
Alignment explanation
Indices: 856615--856675 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
856605 ACAATGGAGT
856615 TATTTATATAAAAAAGTACA-CTTAATTGAA
1 TATTTATATAAAAAAGTACATC-TAATTGAA
** *
856645 TATTTATATATCAAAGTGCATCTAATTGAA
1 TATTTATATAAAAAAGTACATCTAATTGAA
856675 T
1 T
856676 CTATATATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (30 bp):
TATTTATATAAAAAAGTACATCTAATTGAA
Found at i:857101 original size:24 final size:25
Alignment explanation
Indices: 857056--857112 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
857046 TTAGATCATA
* *
857056 AAATAATTTTTGATATATATTATTC
1 AAATAATTTTTCATATACATTATTC
* *
857081 AAATATTTTTTCAT-TACATTATTT
1 AAATAATTTTTCATATACATTATTC
857105 AAATAATT
1 AAATAATT
857113 CTATCAATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 15 0.56
25 12 0.44
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (25 bp):
AAATAATTTTTCATATACATTATTC
Found at i:862603 original size:29 final size:29
Alignment explanation
Indices: 862547--862603 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
862537 ATTGATATTA
* *
862547 TTTAAGATATAAGACTTAAAATTCTATAT
1 TTTAAAATATAAGACTTAAAATTATATAT
*
862576 TTTAAAATTTAAGA-TTAAAATTAATATA
1 TTTAAAATATAAGACTTAAAATT-ATATA
862604 CAAGATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (29 bp):
TTTAAAATATAAGACTTAAAATTATATAT
Found at i:866521 original size:110 final size:110
Alignment explanation
Indices: 866383--866593 Score: 422
Period size: 110 Copynumber: 1.9 Consensus size: 110
866373 GCTCATGTTC
866383 CTAAGTTCTCTCTTGTAGCTTGGATGATTCTGCTTGACAGGCTGCCTACTAAAGACAGATTAGTC
1 CTAAGTTCTCTCTTGTAGCTTGGATGATTCTGCTTGACAGGCTGCCTACTAAAGACAGATTAGTC
866448 AGGTTTGGAATTGCGATTGACAACAATGTGTGTGTGGGGGGTTGG
66 AGGTTTGGAATTGCGATTGACAACAATGTGTGTGTGGGGGGTTGG
866493 CTAAGTTCTCTCTTGTAGCTTGGATGATTCTGCTTGACAGGCTGCCTACTAAAGACAGATTAGTC
1 CTAAGTTCTCTCTTGTAGCTTGGATGATTCTGCTTGACAGGCTGCCTACTAAAGACAGATTAGTC
866558 AGGTTTGGAATTGCGATTGACAACAATGTGTGTGTG
66 AGGTTTGGAATTGCGATTGACAACAATGTGTGTGTG
866594 TTGTGTGGGG
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 101 1.00
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (110 bp):
CTAAGTTCTCTCTTGTAGCTTGGATGATTCTGCTTGACAGGCTGCCTACTAAAGACAGATTAGTC
AGGTTTGGAATTGCGATTGACAACAATGTGTGTGTGGGGGGTTGG
Found at i:867380 original size:20 final size:20
Alignment explanation
Indices: 867333--867767 Score: 351
Period size: 20 Copynumber: 21.2 Consensus size: 20
867323 AATGACCAAC
* *
867333 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
*
867352 AAAACCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
* * **
867372 AAAAGCGCAACGTTGA-AAAG
1 AAAATCGCAACG-CGATTTAG
* **
867392 AAGATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TTAG
* * *
867413 AAGAATCGCAATGCGATTCAT
1 AA-AATCGCAACGCGATTTAG
**
867434 AAAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TTAG
*
867455 AAGAATCGCAACGCGATTCAG
1 AA-AATCGCAACGCGATTTAG
*
867476 -AAATCGCAACGCGA-TTCG
1 AAAATCGCAACGCGATTTAG
867494 AAAATCGCAACGCGATTTTAG
1 AAAATCGCAACGCGA-TTTAG
**
867515 AAAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TTAG
*
867536 AAGAATCGCAACGCGATTAAG
1 AA-AATCGCAACGCGATTTAG
*
867557 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-TAG
* *
867577 AGAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTTAG
*
867597 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-TAG
* **
867617 AGAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TTAG
*
867638 AAGAATCGCAACGCGATTAAG
1 AA-AATCGCAACGCGATTTAG
**
867659 AAAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TTAG
*
867680 AAGAATCGCAACGCGATTAAG
1 AA-AATCGCAACGCGATTTAG
*
867701 AAAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTTAG
* * **
867721 TAATTCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TTAG
*
867742 AAGAATCGCAACGCGATTCAG
1 AA-AATCGCAACGCGATTTAG
867763 AAAAT
1 AAAAT
867768 GAGTAAATTC
Statistics
Matches: 333, Mismatches: 61, Indels: 43
0.76 0.14 0.10
Matches are distributed among these distances:
18 2 0.01
19 47 0.14
20 148 0.44
21 55 0.17
22 81 0.24
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:867442 original size:42 final size:41
Alignment explanation
Indices: 867335--867767 Score: 451
Period size: 42 Copynumber: 10.6 Consensus size: 41
867325 TGACCAACAA
* **
867335 AATCGCAACGCGATATC--AAAACCGCAACGCGATTTAGAA-
1 AATCGCAACGCGAT-TCAGAAAATCGCAACGCGATTTCCAAG
* * ** *
867374 AAGCGCAACGTTGA-AAAGAAGATCGCAACGCGATCTTCCAAG
1 AATCGCAACG-CGATTCAGAAAATCGCAACGCGAT-TTCCAAG
* *
867416 AATCGCAATGCGATTCATAAAATCGCAACGCGATCTTCCAAG
1 AATCGCAACGCGATTCAGAAAATCGCAACGCGAT-TTCCAAG
*
867458 AATCGCAACGCGATTCAG-AAATCGCAACGCGA-TTCGAA-
1 AATCGCAACGCGATTCAGAAAATCGCAACGCGATTTCCAAG
*
867496 AATCGCAACGCGATTTTAGAAAATCGCAACGCGATCTTCCAAG
1 AATCGCAACGCGA-TTCAGAAAATCGCAACGCGAT-TTCCAAG
*
867539 AATCGCAACGCGATTAAGAAAATCGCAACGCGA-TTCCAAG
1 AATCGCAACGCGATTCAGAAAATCGCAACGCGATTTCCAAG
867579 AATCGCAACGCGATTCAGAAAATCGCAACGCGA-TTCCAAG
1 AATCGCAACGCGATTCAGAAAATCGCAACGCGATTTCCAAG
* ***
867619 AATCGCAACGCGATCTTCCA-AGAATCGCAACGCGATTAAGAA-
1 AATCGCAACGCGA--TT-CAGAAAATCGCAACGCGATTTCCAAG
* ***
867661 AATCGCAACGCGATCTTCCA-AGAATCGCAACGCGATTAAGAA-
1 AATCGCAACGCGA--TT-CAGAAAATCGCAACGCGATTTCCAAG
* *
867703 AATCGCAACGCGATTCAGTAATTCGCAACGCGATCTTCCAAG
1 AATCGCAACGCGATTCAGAAAATCGCAACGCGAT-TTCCAAG
867745 AATCGCAACGCGATTCAGAAAAT
1 AATCGCAACGCGATTCAGAAAAT
867768 GAGTAAATTC
Statistics
Matches: 342, Mismatches: 34, Indels: 33
0.84 0.08 0.08
Matches are distributed among these distances:
38 13 0.04
39 20 0.06
40 104 0.30
41 23 0.07
42 164 0.48
43 18 0.05
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.17
Consensus pattern (41 bp):
AATCGCAACGCGATTCAGAAAATCGCAACGCGATTTCCAAG
Found at i:867583 original size:62 final size:60
Alignment explanation
Indices: 867335--867760 Score: 331
Period size: 62 Copynumber: 6.9 Consensus size: 60
867325 TGACCAACAA
* * * * * ****
867335 AATCGCAACGCGATATCAA-AACCGCAACGCGATTTAGAAAAGCGCAACGTTGAAAAGAAG
1 AATCGCAACGCGATTTCAAGAATCGCAACGCGATTAAGAAAATCGCAACG-CGATTCCAAG
* * *
867395 -ATCGCAACGCGATCTTCCAAGAATCGCAATGCGATTCATAAAATCGCAACGCGATCTTCCAAG
1 AATCGCAACGCGAT-TT-CAAGAATCGCAACGCGATTAAGAAAATCGCAACGCGA--TTCCAAG
* ** *
867458 AATCGCAACGCGA-TTC-AGAAATCGCAACGCGATT-CGAAAATCGCAACGCGATTTTAGAA
1 AATCGCAACGCGATTTCAAG-AATCGCAACGCGATTAAGAAAATCGCAACGCGATTCCA-AG
867517 AATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTAAGAAAATCGCAACGCGATTCCAAG
1 AATCGCAACGCGAT-TT-CAAGAATCGCAACGCGATTAAGAAAATCGCAACGCGATTCCAAG
*
867579 AATCGCAACGCGA-TTCAGAAAATCGCAACGCGATTCCAAG--AATCGCAACGCGATCTTCCAAG
1 AATCGCAACGCGATTTCA-AGAATCGCAACGCGATT--AAGAAAATCGCAACGCGA--TTCCAAG
***
867641 AATCGCAACGCGA-TT-AAGAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATT--AAG
1 AATCGCAACGCGATTTCAAG--AATCGCAACGCGAT-TAAGAA-AATCGCAACGCGATTCCAAG
***
867701 AAAATCGCAACGCGA-TTC-AGTAATTCGCAACGCGATCTTCCAAGAATCGCAACGCGATTC
1 --AATCGCAACGCGATTTCAAG-AA-TCGCAACGCGAT-TAAGAA-AATCGCAACGCGATTC
867761 AGAAAATGAG
Statistics
Matches: 310, Mismatches: 27, Indels: 55
0.79 0.07 0.14
Matches are distributed among these distances:
58 3 0.01
59 29 0.09
60 53 0.17
61 25 0.08
62 150 0.48
63 25 0.08
64 25 0.08
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.17
Consensus pattern (60 bp):
AATCGCAACGCGATTTCAAGAATCGCAACGCGATTAAGAAAATCGCAACGCGATTCCAAG
Found at i:867767 original size:62 final size:61
Alignment explanation
Indices: 867436--867759 Score: 369
Period size: 62 Copynumber: 5.2 Consensus size: 61
867426 CGATTCATAA
* *
867436 AATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCAGAAATCGCAACGCGA-TTCGAA-
1 AATCGCAACGCGAT-TTCCAAAAATCGCAACGCGATTCAGAAATCGCAACGCGATTTCCAAG
* ***
867496 AATCGCAACGCGATTT-TAGAAAATCGCAACGCGATCTTCCA-AGAATCGCAACGCGATTAAGAA
1 AATCGCAACGCGATTTCCA-AAAATCGCAACGCGA--TT-CAGA-AATCGCAACGCGATTTCCAA
867559 -
61 G
*
867559 AATCGCAACGCGA-TTCCAAGAATCGCAACGCGATTCAGAAAATCGCAACGCGA-TTCCAAG
1 AATCGCAACGCGATTTCCAAAAATCGCAACGCGATTCAG-AAATCGCAACGCGATTTCCAAG
* *
867619 AATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTAAGAAAATCGCAACGCGATCTTCCAAG
1 AATCGCAACGCGAT-TTCCAAAAATCGCAACGCGATTCAG-AAATCGCAACGCGAT-TTCCAAG
* *
867683 AATCGCAACGCGA-TT-AAGAAAATCGCAACGCGATTCAGTAATTCGCAACGCGATCTTCCAAG
1 AATCGCAACGCGATTTCCA-AAAATCGCAACGCGATTCAG-AAATCGCAACGCGAT-TTCCAAG
867745 AATCGCAACGCGATT
1 AATCGCAACGCGATT
867760 CAGAAAATGA
Statistics
Matches: 233, Mismatches: 15, Indels: 29
0.84 0.05 0.10
Matches are distributed among these distances:
58 1 0.00
59 21 0.09
60 42 0.18
61 5 0.02
62 125 0.54
63 19 0.08
64 20 0.09
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.18
Consensus pattern (61 bp):
AATCGCAACGCGATTTCCAAAAATCGCAACGCGATTCAGAAATCGCAACGCGATTTCCAAG
Found at i:867863 original size:109 final size:109
Alignment explanation
Indices: 867730--867947 Score: 436
Period size: 109 Copynumber: 2.0 Consensus size: 109
867720 GTAATTCGCA
867730 ACGCGATCTTCCAAGAATCGCAACGCGATTCAGAAAATGAGTAAATTCTTTCAAAAGTTGTTGCA
1 ACGCGATCTTCCAAGAATCGCAACGCGATTCAGAAAATGAGTAAATTCTTTCAAAAGTTGTTGCA
867795 TTTGTTTCTTCTTAAGAATTTTCTCTAAAAAGATAGTATCCGCG
66 TTTGTTTCTTCTTAAGAATTTTCTCTAAAAAGATAGTATCCGCG
867839 ACGCGATCTTCCAAGAATCGCAACGCGATTCAGAAAATGAGTAAATTCTTTCAAAAGTTGTTGCA
1 ACGCGATCTTCCAAGAATCGCAACGCGATTCAGAAAATGAGTAAATTCTTTCAAAAGTTGTTGCA
867904 TTTGTTTCTTCTTAAGAATTTTCTCTAAAAAGATAGTATCCGCG
66 TTTGTTTCTTCTTAAGAATTTTCTCTAAAAAGATAGTATCCGCG
867948 CGGACGTGTC
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 109 1.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (109 bp):
ACGCGATCTTCCAAGAATCGCAACGCGATTCAGAAAATGAGTAAATTCTTTCAAAAGTTGTTGCA
TTTGTTTCTTCTTAAGAATTTTCTCTAAAAAGATAGTATCCGCG
Found at i:867986 original size:6 final size:6
Alignment explanation
Indices: 867977--868056 Score: 153
Period size: 6 Copynumber: 13.5 Consensus size: 6
867967 TATTACTATT
867977 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
868025 ACCACG ACCACG ACCACG ACCACG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
868057 CGAGACGAGA
Statistics
Matches: 74, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 5 0.07
6 69 0.93
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:868569 original size:6 final size:6
Alignment explanation
Indices: 868548--868608 Score: 108
Period size: 6 Copynumber: 10.5 Consensus size: 6
868538 TCTCGTCTCG
868548 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
868594 GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGT
868609 AATACGTGTC
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 10 0.18
6 45 0.82
ACGTcount: A:0.00, C:0.16, G:0.52, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:868847 original size:42 final size:42
Alignment explanation
Indices: 868704--868835 Score: 232
Period size: 42 Copynumber: 3.2 Consensus size: 42
868694 GAATTTACTC
868704 ATTTTCTTAATCGCGTTGCGATTCTTGG-A-ATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCG
868744 ATTTTCTTAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCG
*
868786 ATTTTCTTAATCGCGTTGCGATTCTTGGAAGATCGTGTTGCG
1 ATTTTCTTAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCG
*
868828 ATCTTCTT
1 ATTTTCTT
868836 TTCAACGTTG
Statistics
Matches: 88, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
40 28 0.32
41 1 0.01
42 59 0.67
ACGTcount: A:0.16, C:0.19, G:0.24, T:0.41
Consensus pattern (42 bp):
ATTTTCTTAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCG
Found at i:868864 original size:20 final size:20
Alignment explanation
Indices: 868704--868891 Score: 139
Period size: 20 Copynumber: 9.2 Consensus size: 20
868694 GAATTTACTC
*
868704 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTAAATCGCGTTGCG
**
868724 ATTCTT-GGAATCGCGTTGCG
1 ATT-TTCTAAATCGCGTTGCG
*
868744 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTAAATCGCGTTGCG
**
868764 ATTCTTGGAAGATCGCGTTGCG
1 ATT-TTCTAA-ATCGCGTTGCG
*
868786 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTAAATCGCGTTGCG
** *
868806 ATTCTTGGAAGATCGTGTTGCG
1 ATT-TTCTAA-ATCGCGTTGCG
* ** *
868828 ATCTTCT-TTTCAACGTTGCG
1 ATTTTCTAAATC-GCGTTGCG
*
868848 CTTTTCTAAATCGCGTTGCG
1 ATTTTCTAAATCGCGTTGCG
* * *
868868 GTTTT-GATATCGCGTTGCG
1 ATTTTCTAAATCGCGTTGCG
868887 ATTTT
1 ATTTT
868892 GTTGGTCATT
Statistics
Matches: 130, Mismatches: 30, Indels: 17
0.73 0.17 0.10
Matches are distributed among these distances:
19 20 0.15
20 69 0.53
21 15 0.12
22 26 0.20
ACGTcount: A:0.15, C:0.19, G:0.24, T:0.41
Consensus pattern (20 bp):
ATTTTCTAAATCGCGTTGCG
Found at i:870466 original size:29 final size:26
Alignment explanation
Indices: 870433--870494 Score: 63
Period size: 29 Copynumber: 2.2 Consensus size: 26
870423 TTTAAGAATA
870433 ATTTTAAATACTATTGT-TTAAAATATTAT
1 ATTTTAAATA--ATTGTCTT-AAAT-TTAT
870462 ATTTTTTAAATAATTGTCTTAAATTTAT
1 A--TTTTAAATAATTGTCTTAAATTTAT
870490 ATTTT
1 ATTTT
870495 CCTATTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
26 4 0.13
28 5 0.17
29 10 0.33
30 2 0.07
31 9 0.30
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.56
Consensus pattern (26 bp):
ATTTTAAATAATTGTCTTAAATTTAT
Found at i:870469 original size:31 final size:28
Alignment explanation
Indices: 870434--870494 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 28
870424 TTAAGAATAA
870434 TTTTAAATACTATTGT-TTAAAATATTATATT
1 TTTTAAATA--ATTGTCTT-AAAT-TTATATT
870465 TTTTAAATAATTGTCTTAAATTTATATT
1 TTTTAAATAATTGTCTTAAATTTATATT
870493 TT
1 TT
870495 CCTATTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
28 9 0.31
29 9 0.31
30 2 0.07
31 9 0.31
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.57
Consensus pattern (28 bp):
TTTTAAATAATTGTCTTAAATTTATATT
Found at i:884454 original size:182 final size:183
Alignment explanation
Indices: 884147--884512 Score: 725
Period size: 182 Copynumber: 2.0 Consensus size: 183
884137 CTAACTTAAA
884147 ACTATATCAAATTTCTCAAGCACATGCACGTTGATTCAACATCTCCAGTTAGACGACAAGGTTAG
1 ACTATATCAAATTTCTCAAGCACATGCACGTTGATTCAACATCTCCAGTTAGACGACAAGGTTAG
884212 CAAGTATATGCGCCTTATGCAATTAAATTCTTGCCAGAATATTGATACAATCATGCCATGTCATG
66 CAAGTATATGCGCCTTATGCAATTAAATTCTTGCCAGAATATTGATACAATCATGCCATGTCATG
884277 TCATTTTATGTTAAAACAGACAAAATTGAAGTCTAACCA-GCTATTGTCGAAC
131 TCATTTTATGTTAAAACAGACAAAATTGAAGTCTAACCAGGCTATTGTCGAAC
884329 ACTATATCAAATTTCTCAAGCACATGCACGTTGATTCAACATCTCCAGTTAGACGACAAGGTTAG
1 ACTATATCAAATTTCTCAAGCACATGCACGTTGATTCAACATCTCCAGTTAGACGACAAGGTTAG
884394 CAAGTATATGCGCCTTATGCAATTAAATTCTTGCCAGAATATTGATACAATCATGCCATGTCATG
66 CAAGTATATGCGCCTTATGCAATTAAATTCTTGCCAGAATATTGATACAATCATGCCATGTCATG
884459 TCATTTTATGTTAAAACAGACAAAATTGAAGTCTAACCAGGCTATTGTCGAAC
131 TCATTTTATGTTAAAACAGACAAAATTGAAGTCTAACCAGGCTATTGTCGAAC
884512 A
1 A
884513 TGCATAACAT
Statistics
Matches: 183, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
182 169 0.92
183 14 0.08
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (183 bp):
ACTATATCAAATTTCTCAAGCACATGCACGTTGATTCAACATCTCCAGTTAGACGACAAGGTTAG
CAAGTATATGCGCCTTATGCAATTAAATTCTTGCCAGAATATTGATACAATCATGCCATGTCATG
TCATTTTATGTTAAAACAGACAAAATTGAAGTCTAACCAGGCTATTGTCGAAC
Found at i:888769 original size:23 final size:21
Alignment explanation
Indices: 888738--888780 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
888728 TTATTTAAAT
*
888738 TTTTTAAAATTAAATTAATTTAA
1 TTTTAAAAATT-AA-TAATTTAA
888761 TTTTAAAAATTAATAATTTA
1 TTTTAAAAATTAATAATTTA
888781 TACTATAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 2 0.11
23 10 0.53
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTTAAAAATTAATAATTTAA
Found at i:891795 original size:2 final size:2
Alignment explanation
Indices: 891790--891827 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
891780 GAAAAAAAAA
891790 AT AT AT A- AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
891828 CAAGTATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:891812 original size:17 final size:17
Alignment explanation
Indices: 891790--891827 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
891780 GAAAAAAAAA
891790 ATATATAATATATATAT
1 ATATATAATATATATAT
*
891807 ATATATATTATATATAT
1 ATATATAATATATATAT
891824 ATAT
1 ATAT
891828 CAAGTATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATATAATATATATAT
Found at i:892066 original size:37 final size:37
Alignment explanation
Indices: 892025--892121 Score: 122
Period size: 37 Copynumber: 2.6 Consensus size: 37
892015 GGATCCTATC
* * *
892025 TTTAGGAATTTAAATCTTAGTAGAACTCTATCATATT
1 TTTAGGAGTTTGAATCCTAGTAGAACTCTATCATATT
* * * * *
892062 TTTAGGAGTTTGAATCCTAGCAAAATTTTATCCTATT
1 TTTAGGAGTTTGAATCCTAGTAGAACTCTATCATATT
892099 TTTAGGAGTTTGAATCCTAGTAG
1 TTTAGGAGTTTGAATCCTAGTAG
892122 GACAAAAATA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.42
Consensus pattern (37 bp):
TTTAGGAGTTTGAATCCTAGTAGAACTCTATCATATT
Found at i:892888 original size:99 final size:101
Alignment explanation
Indices: 892663--892906 Score: 325
Period size: 99 Copynumber: 2.4 Consensus size: 101
892653 AGCATTGTTC
* *
892663 CGAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGAAATTATTTGTTGACAA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAA-CGGAAATTATTTGTTGACAA
* * *
892728 CCAGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
64 CCAGGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
892766 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAA-TGAAA-T-TTTGTTGACAAGC
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAACGGAAATTATTTGTTGACAACC
*
892828 AGCGGTCCATTCGTCGTGGAGTTG-ACTTGCGTTGTCT
66 A--GGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
892865 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
892907 GATACATAGG
Statistics
Matches: 126, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
98 13 0.10
99 52 0.41
100 22 0.17
102 3 0.02
103 36 0.29
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (101 bp):
CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAACGGAAATTATTTGTTGACAACC
AGGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTCT
Found at i:894053 original size:2 final size:2
Alignment explanation
Indices: 894042--894071 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
894032 AAATATAAAA
*
894042 AT AT AA 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
894072 CAAAGTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:895227 original size:102 final size:103
Alignment explanation
Indices: 894888--895499 Score: 740
Period size: 102 Copynumber: 6.0 Consensus size: 103
894878 GCATTGTTCT
* * ** *
894888 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACGGGAAATGTT-TGTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGG-AATGTTGT-TGACAAG
* * * *
894951 CAGCCGTCCCTTCGTTGTGAAGTTGAAC-TGTG-TGTTCTC
64 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG-TCTG
* * * *
894990 GAGT-CAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGA-A-T-GAAATTTTGTTGACAAGCA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAATGTTGTTGACAAGCA
*
895051 GCGGTCCCTTCGTCGTGGAGTTGAACTTGCG-T-TCTG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
895087 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAA-GTTGTTGACAAGCA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAATGTTGTTGACAAGCA
* *
895151 GCTGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
895189 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTGTTGTTGACAAGC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAA-TGTTGTTGACAAGC
895254 AGCGGTCCCTTCGTCGTGAAG-TGAACTTGCGTTGTCTG
65 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
895292 AAGTCCAAT-CCCTTCGTTGTGAAGTTGAAATTGG--CTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAA--TGTTGTTGACAAG
895354 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT-TG
64 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
895393 GAGT--AATATCC-TCATTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAA--TG-TTGTTGACAA
* * * * * *
895455 CCAGCCGTCCTTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
63 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
895496 GAGT
1 GAGT
895500 GTCACGATAT
Statistics
Matches: 455, Mismatches: 37, Indels: 35
0.86 0.07 0.07
Matches are distributed among these distances:
97 7 0.02
98 70 0.15
99 29 0.06
100 55 0.12
101 93 0.20
102 139 0.31
103 30 0.07
104 32 0.07
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (103 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAATGTTGTTGACAAGCA
GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:895743 original size:36 final size:36
Alignment explanation
Indices: 895696--895771 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
895686 TGTTTGGAGA
* * * *
895696 GAAACTGTCTCAAGGGAGACAAAATTCGTTTCAATG
1 GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
*
895732 GAAACTATCTCAAGCGAGATAAAATTCATTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
895768 GAAA
1 GAAA
895772 TGTTTTCAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.24
Consensus pattern (36 bp):
GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
Found at i:895764 original size:86 final size:83
Alignment explanation
Indices: 895607--895765 Score: 178
Period size: 86 Copynumber: 1.8 Consensus size: 83
895597 TGTCGTTTCA
* *
895607 AGAGAAACTGTCTCAAGGGAGACAAAATTGTTTGAAGGAAAACAATTCAAAGATTTCGTTAAATT
1 AGAGAAACTGTCTCAAGGGAGACAAAATTGTTTCAAGGAAAACAATTCAAAGA--T-GTAAAATT
**
895672 GTTTTCAAAGTTTATGTTTGG
63 CATTTCAAAGTTTATGTTTGG
* *
895693 AGAGAAACTGTCTCAAGGGAGACAAAATTCGTTTCAATGG-AAACTATCTCAAGCGA-GATAAAA
1 AGAGAAACTGTCTCAAGGGAGACAAAATT-GTTTCAA-GGAAAACAAT-TCAA-AGATG-TAAAA
895756 TTCATTTCAA
61 TTCATTTCAA
895766 GGGAAATGTT
Statistics
Matches: 62, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
85 1 0.02
86 41 0.66
87 12 0.19
88 6 0.10
89 2 0.03
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (83 bp):
AGAGAAACTGTCTCAAGGGAGACAAAATTGTTTCAAGGAAAACAATTCAAAGATGTAAAATTCAT
TTCAAAGTTTATGTTTGG
Found at i:895847 original size:102 final size:104
Alignment explanation
Indices: 895671--895981 Score: 458
Period size: 102 Copynumber: 3.0 Consensus size: 104
895661 TTCGTTAAAT
* ** * *
895671 TGTTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTCAAGGGAGACAAAA--TTC-GTTTCAATGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
*
895733 AAACTATCTCAAGCGAGATAAAATTCATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGATAAAATTCATTTCAAGGGAAA
895772 TGTTTTCAATGTTTA-GTTTCAAGAGAAACTGTCTC-AGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* *
895835 AAACTATCTCAAGAGAGAGAAAAAATCATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGA-TAAAATTCATTTCAAGGGAAA
895875 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* *
895940 AAACTA--TCAGGAGAGGA-AAAATTAATTTCAAGGGAAA
66 AAACTATCTCAAGAGA-GATAAAATTCATTTCAAGGGAAA
895977 TGTTT
1 TGTTT
895982 CAAGAGAAAC
Statistics
Matches: 192, Mismatches: 11, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
99 12 0.06
100 18 0.09
101 17 0.09
102 48 0.25
103 41 0.21
104 22 0.11
105 34 0.18
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.31
Consensus pattern (104 bp):
TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
AAACTATCTCAAGAGAGATAAAATTCATTTCAAGGGAAA
Found at i:895984 original size:14 final size:15
Alignment explanation
Indices: 895965--896003 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
895955 GAAAAATTAA
895965 TTTCAAGGGAAA-TG
1 TTTCAAGGGAAACTG
*
895979 TTTCAAGAGAAACTG
1 TTTCAAGGGAAACTG
*
895994 TCTCAAGGGA
1 TTTCAAGGGA
896004 GACGAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.26
Consensus pattern (15 bp):
TTTCAAGGGAAACTG
Found at i:896160 original size:36 final size:36
Alignment explanation
Indices: 896115--896229 Score: 117
Period size: 36 Copynumber: 3.2 Consensus size: 36
896105 GGTCTCAAGC
*
896115 GAGACAAATCTTGTTTTAAGAAAAACAATCTTGAGT
1 GAGATAAATCTTGTTTTAAGAAAAACAATCTTGAGT
* * * * **
896151 GAAATAAATCTTCTTTCAAGAAAAACAGTCTCAAGT
1 GAGATAAATCTTGTTTTAAGAAAAACAATCTTGAGT
* *
896187 GAGACAAAGT-ATGTTTTAAGAAAAACAAAT-TTGAGT
1 GAGATAAA-TCTTGTTTTAAGAAAAAC-AATCTTGAGT
896223 GAGATAA
1 GAGATAA
896230 TCATCTGCAT
Statistics
Matches: 61, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
36 58 0.95
37 3 0.05
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.28
Consensus pattern (36 bp):
GAGATAAATCTTGTTTTAAGAAAAACAATCTTGAGT
Found at i:896182 original size:72 final size:75
Alignment explanation
Indices: 896068--896229 Score: 208
Period size: 72 Copynumber: 2.2 Consensus size: 75
896058 AAAAAAATAG
* * * *
896068 CTTGAGTGAAATGAAATGCCTTCTTTCGAGTGAAAACGGTCTCAAGCGAGACAAA-TCTTGTTTT
1 CTTGAGTGAAAT-AAAT-CCTTCTTTCAAGTAAAAACAGTCTCAAGCGAGACAAAGT-ATGTTTT
896132 AAGAAAAAC-AAT
63 AAGAAAAACAAAT
*
896144 CTTGAGTGAAATAAAT-CTTCTTTCAAG-AAAAACAGTCTCAAGTGAGACAAAGTATGTTTTAAG
1 CTTGAGTGAAATAAATCCTTCTTTCAAGTAAAAACAGTCTCAAGCGAGACAAAGTATGTTTTAAG
896207 AAAAACAAAT
66 AAAAACAAAT
*
896217 -TTGAGTGAGATAA
1 CTTGAGTGAAATAA
896230 TCATCTGCAT
Statistics
Matches: 78, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
72 48 0.62
73 14 0.18
75 4 0.05
76 12 0.15
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.28
Consensus pattern (75 bp):
CTTGAGTGAAATAAATCCTTCTTTCAAGTAAAAACAGTCTCAAGCGAGACAAAGTATGTTTTAAG
AAAAACAAAT
Found at i:897747 original size:183 final size:182
Alignment explanation
Indices: 897439--897970 Score: 930
Period size: 183 Copynumber: 2.9 Consensus size: 182
897429 ATCAGGTTTA
* *
897439 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAGCAGTGGAGCAAACATCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
* **
897504 GCCAAGTGTCCGAGCAATGTCAT-GATTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGT
66 GCCAAGTGTCCGAGCAGTGTCATAG-TTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
897568 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAAAGGGACAAAT
130 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAAAGGGACAAAT
*
897621 CACTGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAAT
1 -ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAAT
*
897686 TTCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
65 TGCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
*
897751 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAAT
130 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAAAGGGACAAAT
897804 -CTGAA-GGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
*
897867 GCCAAGTGTCCGAGAAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
897932 TCCTC--TAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
897971 CGGATTTAAT
Statistics
Matches: 337, Mismatches: 11, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
178 34 0.10
180 125 0.37
181 5 0.01
183 172 0.51
184 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (182 bp):
ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAAAGGGACAAAT
Found at i:901471 original size:19 final size:20
Alignment explanation
Indices: 901443--901480 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
901433 TGCAGATGAT
*
901443 GGAAATAAAAT-AAAAGAGA
1 GGAAAAAAAATGAAAAGAGA
901462 GGAAAAAAAATGAAAAGAG
1 GGAAAAAAAATGAAAAGAG
901481 TTAGTAAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (20 bp):
GGAAAAAAAATGAAAAGAGA
Found at i:902612 original size:21 final size:22
Alignment explanation
Indices: 902580--902621 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
902570 GGGAAAATAA
902580 ATAAATAAAATAAGT-AAGTAAG
1 ATAAATAAAAT-AGTAAAGTAAG
902602 ATAAA-AAAATAGTAAAGTAA
1 ATAAATAAAATAGTAAAGTAA
902622 TAATTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.16
21 11 0.58
22 5 0.26
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (22 bp):
ATAAATAAAATAGTAAAGTAAG
Found at i:902961 original size:37 final size:37
Alignment explanation
Indices: 902871--902971 Score: 123
Period size: 36 Copynumber: 2.8 Consensus size: 37
902861 GTGCTTGTGG
* * * * * *
902871 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
* *
902908 ATCCTA-TTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
902944 ATCCTATTTTTAGGAGTTTGAATCCTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAG
902972 TAGGACGAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
36 28 0.51
37 27 0.49
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
Found at i:903084 original size:21 final size:19
Alignment explanation
Indices: 903060--903100 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 19
903050 TTCCTTTAGA
903060 GGGTATCAGTACCTCCTCATT
1 GGGTATCAGTACC-CCT-ATT
903081 GGGTATCAGTACCCCTATT
1 GGGTATCAGTACCCCTATT
903100 G
1 G
903101 AAATTTGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.20
20 3 0.15
21 13 0.65
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.32
Consensus pattern (19 bp):
GGGTATCAGTACCCCTATT
Found at i:908363 original size:19 final size:17
Alignment explanation
Indices: 908339--908383 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
908329 TATATGGGTT
908339 TATGTGATATGAAAGTGTA
1 TATGTGATATGAAA-TG-A
* *
908358 TATGTGAAATGACATGA
1 TATGTGATATGAAATGA
908375 TATGTGATA
1 TATGTGATA
908384 AAAAACCCGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 9 0.39
18 2 0.09
19 12 0.52
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (17 bp):
TATGTGATATGAAATGA
Found at i:909464 original size:21 final size:22
Alignment explanation
Indices: 909437--909492 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
909427 TTTTAACATT
909437 CGGTATTGTTCATTA-TGTTCA
1 CGGTATTGTTCATTACTGTTCA
*
909458 TGGTATTGTTCATTACTGTTCA
1 CGGTATTGTTCATTACTGTTCA
*
909480 CGGTACTGTTCAT
1 CGGTATTGTTCAT
909493 ACCATATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
21 14 0.45
22 17 0.55
ACGTcount: A:0.18, C:0.16, G:0.20, T:0.46
Consensus pattern (22 bp):
CGGTATTGTTCATTACTGTTCA
Found at i:909469 original size:12 final size:12
Alignment explanation
Indices: 909452--909492 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
909442 TTGTTCATTA
*
909452 TGTTCATGGTAT
1 TGTTCATGGTAC
909464 TGTTCAT--TAC
1 TGTTCATGGTAC
*
909474 TGTTCACGGTAC
1 TGTTCATGGTAC
909486 TGTTCAT
1 TGTTCAT
909493 ACCATATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
10 8 0.33
12 16 0.67
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (12 bp):
TGTTCATGGTAC
Found at i:911572 original size:26 final size:25
Alignment explanation
Indices: 911539--911589 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
911529 GCCGATGTTT
* *
911539 CTTCTTATTTATTGTTGTTTTTTAG
1 CTTCTTATTCATTGCTGTTTTTTAG
*
911564 CTTCATTATTCCTTGCTGTTTTTTAG
1 CTTC-TTATTCATTGCTGTTTTTTAG
911590 GACAGTTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.12, C:0.14, G:0.12, T:0.63
Consensus pattern (25 bp):
CTTCTTATTCATTGCTGTTTTTTAG
Found at i:912236 original size:182 final size:185
Alignment explanation
Indices: 911877--912244 Score: 690
Period size: 182 Copynumber: 2.0 Consensus size: 185
911867 ATTGTGAAAT
911877 CATCAACGCATAAAACATGGAAAAGATTACATTTTTAACACAACATGCATGAAAGATAAAGCCAA
1 CATCAACGCA-AAAACATGGAAAAGATTACATTTTTAACACAACATGCATGAAAGATAAAGCCAA
911942 GGATGAGTTGCCGGTCTCCGTTGCCCCTTTTCAGAGGACAACTGAAGTACCGTGTCTTGTTCCAT
65 GGATGAGTTGCCGGTCTCCGTTGCCCCTTTTCAGAGGACAACTGAAGTACCGTGTCTTGTTCCAT
912007 CGCACATACTGCCCACACCAGGAGGTACGTCGGAGAACCTATGTTCCGGCAGATGG
130 CGCACATACTGCCCACACCAGGAGGTACGTCGGAGAACCTATGTTCCGGCAGATGG
912063 CATCAACGC-AAAACATGGAAAAGATTACATTTTTAACACAACATGCATGAAAGATAAAGCCAAG
1 CATCAACGCAAAAACATGGAAAAGATTACATTTTTAACACAACATGCATGAAAGATAAAGCCAAG
912127 GATGAGTTGCCGGTCT-CGTTGCCCCTTTTCAGAGGA-AACTGAAGTACCGTGTCTTGTTCCATC
66 GATGAGTTGCCGGTCTCCGTTGCCCCTTTTCAGAGGACAACTGAAGTACCGTGTCTTGTTCCATC
912190 GCACATACTGCCCAC-CACAGGAGGTACGTCGGAGAACCTATGTTCCGGCAGATGG
131 GCACATACTGCCCACAC-CAGGAGGTACGTCGGAGAACCTATGTTCCGGCAGATGG
912245 AAATTGCCAT
Statistics
Matches: 181, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
181 1 0.01
182 80 0.44
183 20 0.11
184 71 0.39
186 9 0.05
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (185 bp):
CATCAACGCAAAAACATGGAAAAGATTACATTTTTAACACAACATGCATGAAAGATAAAGCCAAG
GATGAGTTGCCGGTCTCCGTTGCCCCTTTTCAGAGGACAACTGAAGTACCGTGTCTTGTTCCATC
GCACATACTGCCCACACCAGGAGGTACGTCGGAGAACCTATGTTCCGGCAGATGG
Found at i:915905 original size:15 final size:16
Alignment explanation
Indices: 915885--915925 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
915875 GTTTACTTCA
*
915885 GAATGATT-AAGCGTT
1 GAATGATTCAAACGTT
*
915900 GAATGATTCAAATGTT
1 GAATGATTCAAACGTT
915916 GAATGATTCA
1 GAATGATTCA
915926 GAGACTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (16 bp):
GAATGATTCAAACGTT
Found at i:916030 original size:23 final size:25
Alignment explanation
Indices: 915990--916038 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
915980 AATCATTTAG
* *
915990 AATGTTCTGTGCTGAATCATTCAAC
1 AATGTTCTGTGCTCAATCAGTCAAC
916015 AATGTT-T-TGCTCAATCAGTCAAC
1 AATGTTCTGTGCTCAATCAGTCAAC
916038 A
1 A
916039 CTGAATCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 15 0.68
24 1 0.05
25 6 0.27
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (25 bp):
AATGTTCTGTGCTCAATCAGTCAAC
Found at i:919888 original size:21 final size:21
Alignment explanation
Indices: 919859--919898 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
919849 TTTACCGACT
* *
919859 TCAATAACATTGTAGAAGCGG
1 TCAACAACAGTGTAGAAGCGG
*
919880 TCAACAACAGTGTTGAAGC
1 TCAACAACAGTGTAGAAGC
919899 AAGTCACGCG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (21 bp):
TCAACAACAGTGTAGAAGCGG
Found at i:925597 original size:19 final size:19
Alignment explanation
Indices: 925573--925611 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
925563 TCGAATGCAT
925573 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
925592 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
925611 T
1 T
925612 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Done.