Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002881.1 Hibiscus syriacus cultivar Beakdansim tig00005939_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: 1746118
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 9
Found at i:838810 original size:30 final size:30
Alignment explanation
Indices: 838776--838844 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
838766 AAAATTATAT
838776 ATTATATATTTTTTAAAAAATGTTTTCAAA
1 ATTATATATTTTTTAAAAAATGTTTTCAAA
* * *
838806 ATTATATA-GTTTTCAAAAATGTTTTTAAA
1 ATTATATATTTTTTAAAAAATGTTTTCAAA
*
838835 ACTATATATT
1 ATTATATATT
838845 ATAAGTTTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 25 0.76
30 8 0.24
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (30 bp):
ATTATATATTTTTTAAAAAATGTTTTCAAA
Found at i:838891 original size:36 final size:38
Alignment explanation
Indices: 838808--838997 Score: 223
Period size: 36 Copynumber: 5.2 Consensus size: 38
838798 TTTTCAAAAT
*
838808 TATATAGTTTTCAAAAATGTTTTTAAAACTATAT-AT-
1 TATATAGTTTTCAAAAATGTTTTAAAAACTATATAATA
* * *
838844 TATA-AGTTTTC-ACAATGATTTCAAAACTATATAATA
1 TATATAGTTTTCAAAAATGTTTTAAAAACTATATAATA
*
838880 TATATA-TTTTCAAAAATGTTTTAAAAACTATATATTA
1 TATATAGTTTTCAAAAATGTTTTAAAAACTATATAATA
* *
838917 TAT-TTGTTTT-TAAAATGTTTTAAAAACTATATAATA
1 TATATAGTTTTCAAAAATGTTTTAAAAACTATATAATA
* * * *
838953 TATAAACGTTTTCAAAAATGTTTTCAAAATTATATATTA
1 TATATA-GTTTTCAAAAATGTTTTAAAAACTATATAATA
838992 TATATA
1 TATATA
838998 TAAAAAAAAA
Statistics
Matches: 129, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
34 18 0.14
35 9 0.07
36 41 0.32
37 29 0.22
38 5 0.04
39 27 0.21
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (38 bp):
TATATAGTTTTCAAAAATGTTTTAAAAACTATATAATA
Found at i:838956 original size:73 final size:73
Alignment explanation
Indices: 838808--838995 Score: 263
Period size: 71 Copynumber: 2.6 Consensus size: 73
838798 TTTTCAAAAT
* * *
838808 TATATAGTTTTCAAAAATGTTTTTAAAACTATATATTATA-AGTTTTCACAATGATTTCAAAACT
1 TATATAGTTTTCAAAAATGTTTTAAAAACTATATATTATATAGTTTTCAAAATGATTTAAAAACT
838872 ATATAATA
66 ATATAATA
* * *
838880 TATATA-TTTTCAAAAATGTTTTAAAAACTATATATTATATTTGTTTTTAAAATGTTTTAAAAAC
1 TATATAGTTTTCAAAAATGTTTTAAAAACTATATATTATA-TAGTTTTCAAAATGATTTAAAAAC
838944 TATATAATA
65 TATATAATA
* * *
838953 TATAAACGTTTTCAAAAATGTTTTCAAAATTATATATTATATA
1 TATATA-GTTTTCAAAAATGTTTTAAAAACTATATATTATATA
838996 TATAAAAAAA
Statistics
Matches: 102, Mismatches: 10, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
71 32 0.31
72 6 0.06
73 32 0.31
74 1 0.01
75 31 0.30
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (73 bp):
TATATAGTTTTCAAAAATGTTTTAAAAACTATATATTATATAGTTTTCAAAATGATTTAAAAACT
ATATAATA
Found at i:842389 original size:16 final size:17
Alignment explanation
Indices: 842368--842419 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 17
842358 TTTTTAATTT
842368 AATTACT-TAACTTTCA
1 AATTACTCTAACTTTCA
842384 AATTACTCCTAA-TTT--
1 AATTACT-CTAACTTTCA
*
842399 AATCACTCTAACTTTCA
1 AATTACTCTAACTTTCA
842416 AATT
1 AATT
842420 TATTTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 4 0.14
15 9 0.31
16 7 0.24
17 6 0.21
18 3 0.10
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTACTCTAACTTTCA
Found at i:842822 original size:31 final size:31
Alignment explanation
Indices: 842781--842846 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
842771 AAATTGAAAG
* *
842781 TTTAGTTACTAAAACATATCAAAACTGATAA
1 TTTAGGTACTAAAACATACCAAAACTGATAA
* *
842812 TTTAGGTACTAAAGCATACCAAAACTGATAG
1 TTTAGGTACTAAAACATACCAAAACTGATAA
842843 TTTA
1 TTTA
842847 TATATTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.32
Consensus pattern (31 bp):
TTTAGGTACTAAAACATACCAAAACTGATAA
Found at i:846900 original size:19 final size:20
Alignment explanation
Indices: 846872--846910 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
846862 AAGTACATTA
*
846872 TTAATGTTATATATTTTTAT
1 TTAATGTTATATATATTTAT
*
846892 TTAAT-TTATTTATATTTAT
1 TTAATGTTATATATATTTAT
846911 ATATGAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (20 bp):
TTAATGTTATATATATTTAT
Found at i:848561 original size:32 final size:32
Alignment explanation
Indices: 848523--848593 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
848513 TACTTCGATA
* *
848523 ATTAAATCTCATCAAATTATTATAAAATAATT
1 ATTAAATCTCATCAAAATATTATAAAATAATC
* * *
848555 ATTAAATTTTATTAAAATATTATAAAATAATC
1 ATTAAATCTCATCAAAATATTATAAAATAATC
848587 ATTAAAT
1 ATTAAAT
848594 GTATTAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (32 bp):
ATTAAATCTCATCAAAATATTATAAAATAATC
Found at i:848580 original size:10 final size:10
Alignment explanation
Indices: 848540--848583 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 10
848530 CTCATCAAAT
848540 TATTATAAAA
1 TATTATAAAA
*
848550 TAATTATTAAA
1 T-ATTATAAAA
*
848561 TTTTATTAAAA
1 TATTA-TAAAA
848572 TATTATAAAA
1 TATTATAAAA
848582 TA
1 TA
848584 ATCATTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 11 0.39
11 17 0.61
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
TATTATAAAA
Found at i:854899 original size:20 final size:20
Alignment explanation
Indices: 854874--854918 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
854864 TATCCGGAAA
854874 AAAAATCTGGTATGGGGTTT
1 AAAAATCTGGTATGGGGTTT
*
854894 AAAAATCTGGTCTGGGGTTT
1 AAAAATCTGGTATGGGGTTT
854914 AAAAA
1 AAAAA
854919 ATTGGATGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.31
Consensus pattern (20 bp):
AAAAATCTGGTATGGGGTTT
Found at i:854966 original size:16 final size:17
Alignment explanation
Indices: 854945--854979 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
854935 TTTTACCGGA
*
854945 TTAAAAATC-GATTTTT
1 TTAAAAAACTGATTTTT
854961 TTAAAAAACTGATTTTT
1 TTAAAAAACTGATTTTT
854978 TT
1 TT
854980 CAAACTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (17 bp):
TTAAAAAACTGATTTTT
Found at i:855814 original size:23 final size:24
Alignment explanation
Indices: 855765--855814 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
855755 AATAACAATA
* *
855765 TAAATTTTTAATAAATTTTAACTT
1 TAAATTATTAATAAATTTTAACCT
*
855789 TAAATTATTAAT-ATTTTTAACCT
1 TAAATTATTAATAAATTTTAACCT
855812 TAA
1 TAA
855815 TTAATTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (24 bp):
TAAATTATTAATAAATTTTAACCT
Found at i:857007 original size:16 final size:17
Alignment explanation
Indices: 856986--857037 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 17
856976 TTTTTAATTT
856986 AATTACT-TAACTTTCA
1 AATTACTCTAACTTTCA
857002 AATTACTCATAA-TTT--
1 AATTACTC-TAACTTTCA
*
857017 AATCACTCTAACTTTCA
1 AATTACTCTAACTTTCA
857034 AATT
1 AATT
857038 TATTTGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 3 0.10
15 10 0.34
16 7 0.24
17 6 0.21
18 3 0.10
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTACTCTAACTTTCA
Found at i:868900 original size:146 final size:147
Alignment explanation
Indices: 868709--869007 Score: 521
Period size: 146 Copynumber: 2.0 Consensus size: 147
868699 GAAGTGCCCT
* *
868709 GTAGAATTGCACCGTAGTGCATATAATGATGTCCATAAGGACCACATAGAATTCTTTAAGAATCA
1 GTAGAATTGCACCGTAGTGCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATCA
*
868774 TATAC-ATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAT-ATCCAAAGGATATACAT
66 TATACAATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACATGATCCAAAGAATATACAT
868837 ATGTCCTAAAGAACCAC
131 ATGTCCTAAAGAACCAC
868854 GTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATC
1 GTAGAATTGCACCGTAGTG-CATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATC
*
868919 ATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATAC
65 ATATACA-ATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACATGATCCAAAGAATATAC
*
868984 ATATGTCCTAAAGAACCGC
129 ATATGTCCTAAAGAACCAC
869003 GTAGA
1 GTAGA
869008 CCCTCTACCC
Statistics
Matches: 145, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
145 19 0.13
146 49 0.34
148 41 0.28
149 36 0.25
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.28
Consensus pattern (147 bp):
GTAGAATTGCACCGTAGTGCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAATCA
TATACAATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACATGATCCAAAGAATATACAT
ATGTCCTAAAGAACCAC
Found at i:869595 original size:66 final size:66
Alignment explanation
Indices: 869502--869659 Score: 228
Period size: 66 Copynumber: 2.4 Consensus size: 66
869492 ATCGGTTCCC
* * * *
869502 CCCCCTGGGGGTATCGGTTCCCCTCTAGCATTCTGGAATTTCATATCCGTTGAGGGGGTATCGGT
1 CCCCCTTGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATCCATTGAGGGGGTATCGGT
869567 T
66 T
*
869568 CCCCCTTGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATTCATTGAGGGGGTATCGGT
1 CCCCCTTGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATCCATTGAGGGGGTATCGGT
869633 T
66 T
*
869634 -CCCCTTGAATGGGTACCGATTCCCCT
1 CCCCCTTG---GGGTATCGATTCCCCT
869660 AACCCAGAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
65 7 0.08
66 61 0.73
68 15 0.18
ACGTcount: A:0.16, C:0.27, G:0.25, T:0.32
Consensus pattern (66 bp):
CCCCCTTGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATCCATTGAGGGGGTATCGGT
T
Found at i:870149 original size:19 final size:20
Alignment explanation
Indices: 870115--870153 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
870105 CCACGTTTGG
*
870115 AGAAGGAAGAGAAGAAGATA
1 AGAAAGAAGAGAAGAAGATA
870135 AGAAAGAAG-GAAGAAGATA
1 AGAAAGAAGAGAAGAAGATA
870154 TGAGAGGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.33, T:0.05
Consensus pattern (20 bp):
AGAAAGAAGAGAAGAAGATA
Found at i:875714 original size:23 final size:23
Alignment explanation
Indices: 875688--875732 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
875678 CACCACAGCT
*
875688 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
875711 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
875733 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:875981 original size:149 final size:149
Alignment explanation
Indices: 875711--876014 Score: 572
Period size: 149 Copynumber: 2.0 Consensus size: 149
875701 CGAAGTGCCC
* *
875711 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
*
875776 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGGATATA
66 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
875841 CATATGTCCTAAAGAACCG
131 CATATGTCCTAAAGAACCG
*
875860 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
875925 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
875990 CATATGTCCTAAAGAACCG
131 CATATGTCCTAAAGAACCG
876009 CGTAGA
1 CGTAGA
876015 CCCTCTACCC
Statistics
Matches: 151, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 151 1.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCTAAAGAACCG
Found at i:876604 original size:67 final size:67
Alignment explanation
Indices: 876495--876668 Score: 226
Period size: 67 Copynumber: 2.6 Consensus size: 67
876485 TTTTTCTCAT
* * * * * *
876495 GGGGGAATCGGTTCCCCCCCTGGGGGTATCGGTTCCCCTCTAGCATTCTGGAATTTCATATCCGT
1 GGGGGTATCGGTT-CTCCCCTTGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATCCAT
876560 TGA
65 TGA
*
876563 GGGGGTATCGGTTCTCCCCTTGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATTCATT
1 GGGGGTATCGGTTCTCCCCTTGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATCCATT
876628 GA
66 GA
*
876630 GGGGGTATCGG-T-TCCCCTTGAATGGGTACCGATTCCCCT
1 GGGGGTATCGGTTCTCCCCTTG---GGGTATCGATTCCCCT
876669 AACCCAGAAA
Statistics
Matches: 95, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
65 8 0.08
66 1 0.01
67 59 0.62
68 27 0.28
ACGTcount: A:0.16, C:0.26, G:0.27, T:0.31
Consensus pattern (67 bp):
GGGGGTATCGGTTCTCCCCTTGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATCCATT
GA
Found at i:877607 original size:19 final size:19
Alignment explanation
Indices: 877583--877634 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
877573 TTCTGGGTGC
877583 AAAGTTTCGAAACTTTTGT
1 AAAGTTTCGAAACTTTTGT
877602 AAAGTTTCGAAACTTTTGT
1 AAAGTTTCGAAACTTTTGT
*
877621 AAAGTTTCAAAACT
1 AAAGTTTCGAAACT
877635 CTTACAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (19 bp):
AAAGTTTCGAAACTTTTGT
Found at i:878856 original size:18 final size:18
Alignment explanation
Indices: 878835--878878 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
878825 TTTGTCCCAT
*
878835 AGGACCACTATGTCTCGA
1 AGGACCACTATGTCCCGA
878853 AGGACCACTATGTCCCGA
1 AGGACCACTATGTCCCGA
878871 AGGACCAC
1 AGGACCAC
878879 ATAGAACACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.30, C:0.32, G:0.23, T:0.16
Consensus pattern (18 bp):
AGGACCACTATGTCCCGA
Found at i:879645 original size:20 final size:20
Alignment explanation
Indices: 879620--879657 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
879610 TTCCCATTGA
*
879620 AGTGCATCGGTGCATTCTAC
1 AGTGCATCGATGCATTCTAC
879640 AGTGCATCGATGCATTCT
1 AGTGCATCGATGCATTCT
879658 TTAACATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.32
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:880850 original size:34 final size:35
Alignment explanation
Indices: 880812--880879 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
880802 TTTGTCACTG
880812 TTTTGATTTTG-TTAGATATTTTGGATTACATATA
1 TTTTGATTTTGTTTAGATATTTTGGATTACATATA
880846 TTTTGATTTTGTTTAGATATTTTGGATTACATAT
1 TTTTGATTTTGTTTAGATATTTTGGATTACATAT
880880 CTATACTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 11 0.33
35 22 0.67
ACGTcount: A:0.25, C:0.03, G:0.15, T:0.57
Consensus pattern (35 bp):
TTTTGATTTTGTTTAGATATTTTGGATTACATATA
Found at i:880893 original size:12 final size:12
Alignment explanation
Indices: 880876--880903 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
880866 TTTGGATTAC
880876 ATATCTATACTT
1 ATATCTATACTT
880888 ATATCTATACTT
1 ATATCTATACTT
880900 ATAT
1 ATAT
880904 ATTTTGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (12 bp):
ATATCTATACTT
Found at i:880984 original size:58 final size:58
Alignment explanation
Indices: 880841--880955 Score: 185
Period size: 58 Copynumber: 1.9 Consensus size: 58
880831 TTTGGATTAC
* *
880841 ATATATTTTGATTTTGTTTAGATATTTTGGATTACATATCTATACTTATATCTATACTT
1 ATATATTTTGATTTTG-ATAGATATTTTGGATTACATATCTATACTTATATCAATACTT
*
880900 ATATATTTTGATTTTGTTAGATATTTTGGATTACATATCTATACTTATATCGAATA
1 ATATATTTTGATTTTGATAGATATTTTGGATTACATATCTATACTTATATC-AATA
880956 TTTTTGGGTA
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
58 35 0.65
59 19 0.35
ACGTcount: A:0.30, C:0.08, G:0.10, T:0.52
Consensus pattern (58 bp):
ATATATTTTGATTTTGATAGATATTTTGGATTACATATCTATACTTATATCAATACTT
Found at i:881541 original size:19 final size:20
Alignment explanation
Indices: 881503--881541 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
881493 TGACCAAAAG
* *
881503 TTTCGAAACTTCTTCAAGAC
1 TTTCAAAACTTCTCCAAGAC
881523 TTTCAAAACTT-TCCAAGAC
1 TTTCAAAACTTCTCCAAGAC
881542 AGAAGCCTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.33
Consensus pattern (20 bp):
TTTCAAAACTTCTCCAAGAC
Found at i:881616 original size:20 final size:20
Alignment explanation
Indices: 881573--881626 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
881563 ATTTTCTTAT
*
881573 AGTTTTGAAACTATCTCAAG
1 AGTTTTGAAACTTTCTCAAG
*
881593 AGTTTTGAAACTTTCATTAA-
1 AGTTTTGAAACTTTC-TCAAG
*
881613 AGTTTTGATACTTT
1 AGTTTTGAAACTTT
881627 AGGTCTAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 27 0.90
21 3 0.10
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.44
Consensus pattern (20 bp):
AGTTTTGAAACTTTCTCAAG
Found at i:882395 original size:20 final size:20
Alignment explanation
Indices: 882367--882407 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
882357 TAGTTAGGTG
* *
882367 AAAGTAAATAATTAAAATAT
1 AAAGAAAATAACTAAAATAT
*
882387 AAAGAAAATAACTAAATTAT
1 AAAGAAAATAACTAAAATAT
882407 A
1 A
882408 TAAAAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (20 bp):
AAAGAAAATAACTAAAATAT
Found at i:886651 original size:21 final size:21
Alignment explanation
Indices: 886625--886685 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
886615 TATGTGTTAT
*
886625 ATGTGGCCCTTCGGGACATCA
1 ATGTGGTCCTTCGGGACATCA
886646 ATGTGGTCCTTCGGGACATCA
1 ATGTGGTCCTTCGGGACATCA
* *
886667 ATATGGTTCTTCGGGACAT
1 ATGTGGTCCTTCGGGACAT
886686 TTCTACACGG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.30
Consensus pattern (21 bp):
ATGTGGTCCTTCGGGACATCA
Found at i:891449 original size:21 final size:21
Alignment explanation
Indices: 891423--891462 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
891413 TATGTGTTAT
891423 ATGTGGTAT-TTCGGGACATCA
1 ATGTGGT-TCTTCGGGACATCA
891444 ATGTGGTTCTTCGGGACAT
1 ATGTGGTTCTTCGGGACAT
891463 TTCTACGCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.20, C:0.15, G:0.30, T:0.35
Consensus pattern (21 bp):
ATGTGGTTCTTCGGGACATCA
Found at i:899425 original size:19 final size:19
Alignment explanation
Indices: 899401--899437 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
899391 ATGACCAACA
*
899401 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
899420 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
899438 CATTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:899599 original size:20 final size:21
Alignment explanation
Indices: 899575--899693 Score: 63
Period size: 20 Copynumber: 5.8 Consensus size: 21
899565 ATCGCAATGT
899575 GATTCTGACTATCGCAACGCA
1 GATTCTGACTATCGCAACGCA
* *
899596 -ATTCAGAGACTATCACAACGC-
1 GATTC--TGACTATCGCAACGCA
* *
899617 GATAATATG--TGATCGGAACGC-
1 GAT--TCTGACT-ATCGCAACGCA
* *
899638 GATTCTGAATATCGCAATG-A
1 GATTCTGACTATCGCAACGCA
*
899658 GATTCTGACTATCGCAACAC-
1 GATTCTGACTATCGCAACGCA
* *
899678 GATTCTTACTAACGCA
1 GATTCTGACTATCGCA
899694 TCACTGAATT
Statistics
Matches: 74, Mismatches: 14, Indels: 21
0.68 0.13 0.19
Matches are distributed among these distances:
19 3 0.04
20 42 0.57
21 12 0.16
22 16 0.22
24 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (21 bp):
GATTCTGACTATCGCAACGCA
Found at i:900566 original size:24 final size:24
Alignment explanation
Indices: 900515--900568 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
900505 GTATTCGAAA
*
900515 TTTGATCTCGGTCAATACCCGGAC
1 TTTGATCTCGGTCAATACCCAGAC
* * *
900539 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTCGGTCAATACCCAGAC
900563 TTTGAT
1 TTTGAT
900569 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (24 bp):
TTTGATCTCGGTCAATACCCAGAC
Found at i:902854 original size:18 final size:18
Alignment explanation
Indices: 902831--902865 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
902821 AGCAAAAGGC
*
902831 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
902849 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
902866 CAACCGACTT
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:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:903068 original size:20 final size:20
Alignment explanation
Indices: 903043--903277 Score: 166
Period size: 20 Copynumber: 12.7 Consensus size: 20
903033 CACATTCATT
903043 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
*
903063 TGACTATCGCAACACGAATA
1 TGACTATCGCAACGCGAATA
* * *
903083 TGACTATCACAACGTGAATT
1 TGACTATCGCAACGCGAATA
* * *
903103 TGAATATCGCAATG-GGATA
1 TGACTATCGCAACGCGAATA
* *
903122 --A-T-T-GCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
*
903137 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
*
903157 TGACTATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* *
903174 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
*
903191 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
*
903211 TGACTATCGCAA--CG-AGA
1 TGACTATCGCAACGCGAATA
903228 T-A--ATCGCAACGCGAA-A
1 TGACTATCGCAACGCGAATA
* * *
903244 TGACTATCGTAACGAGAATT
1 TGACTATCGCAACGCGAATA
*
903264 TAACTATCGCAACG
1 TGACTATCGCAACG
903278 TGAAAATCGC
Statistics
Matches: 167, Mismatches: 29, Indels: 38
0.71 0.12 0.16
Matches are distributed among these distances:
14 21 0.13
15 5 0.03
16 7 0.04
17 9 0.05
18 4 0.02
19 16 0.10
20 105 0.63
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (20 bp):
TGACTATCGCAACGCGAATA
Found at i:903165 original size:54 final size:54
Alignment explanation
Indices: 903068--903289 Score: 302
Period size: 54 Copynumber: 4.1 Consensus size: 54
903058 GAATATGACT
** * * * * *
903068 ATCGCAACACGAATATGACTATCACAACGTGAATTTGAATATCGCAATGGGATA
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATA
*
903122 ATTGCAATGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATA
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATA
*
903176 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGAGATA
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATA
* * * * * *
903230 ATCGCAACGCG-AAATGACTATCGTAACGAGAATTTAACTATCGCAACGTGAAA
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATA
903283 ATCGCAA
1 ATCGCAA
903290 AGTGTATTAG
Statistics
Matches: 152, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
53 44 0.29
54 108 0.71
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.22
Consensus pattern (54 bp):
ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATA
Found at i:903208 original size:74 final size:72
Alignment explanation
Indices: 903043--903224 Score: 188
Period size: 74 Copynumber: 2.5 Consensus size: 72
903033 CACATTCATT
* * * *
903043 TGACTATCGCAACGCGAATATGACTATCGCAACACGAATATGACTATCACAACGTGAATTTGAAT
1 TGACTATCGCAACGCGAATATGACTATCGCAACGCGAATATGACTATCACAACGGGAAATCGAAT
* *
903108 ATCGCAA
66 AGCGAAA
* * * * *
903115 TGGGA-TAATTGCAATGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATC
1 T--GACT-ATCGCAACGCGAATATGACTATCGCAACGCGAATATGACTATCACAACGGGA-AATC
903179 GCAAT-GCGAAAA
62 G-AATAGCG-AAA
*
903191 TGACTATCGCAACGCGAATTTGACTATCGCAACG
1 TGACTATCGCAACGCGAATATGACTATCGCAACG
903225 AGATAATCGC
Statistics
Matches: 88, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
72 1 0.01
73 1 0.01
74 74 0.84
75 6 0.07
76 6 0.07
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (72 bp):
TGACTATCGCAACGCGAATATGACTATCGCAACGCGAATATGACTATCACAACGGGAAATCGAAT
AGCGAAA
Found at i:903258 original size:33 final size:34
Alignment explanation
Indices: 903196--903260 Score: 105
Period size: 33 Copynumber: 1.9 Consensus size: 34
903186 GAAAATGACT
*
903196 ATCGCAACGCGAATTTGACTATCGCAACGAGATA
1 ATCGCAACGCGAATATGACTATCGCAACGAGATA
*
903230 ATCGCAACGCGAA-ATGACTATCGTAACGAGA
1 ATCGCAACGCGAATATGACTATCGCAACGAGA
903261 ATTTAACTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 16 0.55
34 13 0.45
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (34 bp):
ATCGCAACGCGAATATGACTATCGCAACGAGATA
Found at i:903452 original size:36 final size:34
Alignment explanation
Indices: 903412--903491 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 34
903402 TCAACTTTTA
*
903412 ATCAATTAAACAAGCACAAATAATAATTATTTACAC
1 ATCAATTAAACAA--ACAAATAAGAATTATTTACAC
903448 ATCAATT----AAACAAATAAGAATTATTTACAC
1 ATCAATTAAACAAACAAATAAGAATTATTTACAC
903478 ATCAATTAAACAAA
1 ATCAATTAAACAAA
903492 TAAACTCTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
30 27 0.69
32 2 0.05
34 3 0.08
36 7 0.18
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.28
Consensus pattern (34 bp):
ATCAATTAAACAAACAAATAAGAATTATTTACAC
Found at i:903462 original size:30 final size:30
Alignment explanation
Indices: 903427--903494 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
903417 TTAAACAAGC
*
903427 ACAAATAATAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
903457 ACAAATAAGAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
903487 ACAAATAA
1 ACAAATAA
903495 ACTCTTATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.56, C:0.13, G:0.01, T:0.29
Consensus pattern (30 bp):
ACAAATAAGAATTATTTACACATCAATTAA
Found at i:904968 original size:42 final size:41
Alignment explanation
Indices: 904871--904972 Score: 114
Period size: 42 Copynumber: 2.5 Consensus size: 41
904861 TTGGGAGGGA
* * * *
904871 CCTCTTCAACGATGACAGGGCCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAACGATGACAGGGCCTCTTGAACGATAGGAGAGG
* ** * *
904912 ACTCTTGAGGGATGATAGGGGCCTCTTGAACGATATGAGAGG
1 CCTCTTGAACGATGACA-GGGCCTCTTGAACGATAGGAGAGG
904954 CCTCTTGAACGATGACAGG
1 CCTCTTGAACGATGACAGG
904973 TGAGTCAGGC
Statistics
Matches: 47, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
41 14 0.30
42 33 0.70
ACGTcount: A:0.24, C:0.21, G:0.34, T:0.22
Consensus pattern (41 bp):
CCTCTTGAACGATGACAGGGCCTCTTGAACGATAGGAGAGG
Found at i:905477 original size:20 final size:20
Alignment explanation
Indices: 905449--905494 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
905439 AATAGTTTCT
*
905449 GAAACTTAAAATCGCAACAC
1 GAAAATTAAAATCGCAACAC
905469 GAAAATTAAAATCGCAACAC
1 GAAAATTAAAATCGCAACAC
905489 GAAAAT
1 GAAAAT
905495 GATTATCGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.54, C:0.20, G:0.11, T:0.15
Consensus pattern (20 bp):
GAAAATTAAAATCGCAACAC
Found at i:905502 original size:20 final size:20
Alignment explanation
Indices: 905479--905567 Score: 133
Period size: 20 Copynumber: 4.5 Consensus size: 20
905469 GAAAATTAAA
* ** *
905479 ATCGCAACACGAAAATGATT
1 ATCGCAACGCGAATTTGACT
905499 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
*
905519 ATTGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
905539 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
905559 ATCGCAACG
1 ATCGCAACG
905568 AGATAATCGC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGAATTTGACT
Found at i:905596 original size:33 final size:34
Alignment explanation
Indices: 905539--905619 Score: 128
Period size: 33 Copynumber: 2.4 Consensus size: 34
905529 GAATTTGACT
* *
905539 ATCGCAACGCGAATTTGACTATCGCAACGAGATA
1 ATCGCAACGCGAATATGACTATCGCAACGAGAAA
*
905573 ATCGCAACGCGAA-ATGACTATCGCAATGAGAAA
1 ATCGCAACGCGAATATGACTATCGCAACGAGAAA
905606 ATCGCAACGCGAAT
1 ATCGCAACGCGAAT
905620 CTAAATTCGC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
33 30 0.70
34 13 0.30
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (34 bp):
ATCGCAACGCGAATATGACTATCGCAACGAGAAA
Found at i:905654 original size:20 final size:20
Alignment explanation
Indices: 905625--905770 Score: 133
Period size: 20 Copynumber: 7.6 Consensus size: 20
905615 CGAATCTAAA
905625 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCATT
*
905645 TTCGCATTGCGAT--T-A--
1 TTCGCGTTGCGATAGTCATT
* **
905660 -TCCCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCATT
*
905679 TTCGCGTTGCGATAGTTATT
1 TTCGCGTTGCGATAGTCATT
* *
905699 TCCGCGTTGCGATAGTCGTT
1 TTCGCGTTGCGATAGTCATT
* * **
905719 TTCGCATTGCGATAGTTAAA
1 TTCGCGTTGCGATAGTCATT
*
905739 TTCGCGTTGCGATAATCATT
1 TTCGCGTTGCGATAGTCATT
*
905759 TTCGTGTTGCGA
1 TTCGCGTTGCGA
905771 CTATTCTTCT
Statistics
Matches: 98, Mismatches: 22, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
14 10 0.10
16 1 0.01
17 2 0.02
18 1 0.01
20 84 0.86
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCATT
Found at i:905770 original size:40 final size:39
Alignment explanation
Indices: 905623--905762 Score: 164
Period size: 40 Copynumber: 3.7 Consensus size: 39
905613 CGCGAATCTA
905623 AATTCGCGTTGCGATAGTCATTTTCGCATTGCG--A-TT
1 AATTCGCGTTGCGATAGTCATTTTCGCATTGCGATAGTT
* ** *
905659 -A-TCCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTT
1 AATTCGCGTTGCGATAGTCATTTTCGCATTGCGATAGTT
* *
905696 ATTTCCGCGTTGCGATAGTCGTTTTCGCATTGCGATAGTT
1 AATT-CGCGTTGCGATAGTCATTTTCGCATTGCGATAGTT
*
905736 AAATTCGCGTTGCGATAATCATTTTCG
1 -AATTCGCGTTGCGATAGTCATTTTCG
905763 TGTTGCGACT
Statistics
Matches: 84, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
34 26 0.31
35 1 0.01
36 1 0.01
37 2 0.02
39 1 0.01
40 50 0.60
41 3 0.04
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (39 bp):
AATTCGCGTTGCGATAGTCATTTTCGCATTGCGATAGTT
Found at i:907794 original size:20 final size:20
Alignment explanation
Indices: 907771--907811 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
907761 TTTGAAACTT
* *
907771 AAAATCGCAACATGAAAATG
1 AAAACCGCAACACGAAAATG
907791 AAAACCGCAACACGAAAATG
1 AAAACCGCAACACGAAAATG
907811 A
1 A
907812 TTATTGCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.56, C:0.20, G:0.15, T:0.10
Consensus pattern (20 bp):
AAAACCGCAACACGAAAATG
Found at i:908237 original size:22 final size:22
Alignment explanation
Indices: 908210--908282 Score: 137
Period size: 22 Copynumber: 3.3 Consensus size: 22
908200 GATGGAGATA
*
908210 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
908232 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
908254 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
908276 GACGGAT
1 GACGGAT
908283 GTCACCGTAG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.19, C:0.15, G:0.45, T:0.21
Consensus pattern (22 bp):
GACGGATTTCGTCGGAGATGGG
Found at i:908471 original size:20 final size:20
Alignment explanation
Indices: 908446--908530 Score: 100
Period size: 20 Copynumber: 4.2 Consensus size: 20
908436 TTTATATTAT
* *
908446 CGATAGTTAGAATCTCGTTG
1 CGATAGTCAGAATCGCGTTG
908466 CGATAGTCAGAATCGCGTTG
1 CGATAGTCAGAATCGCGTTG
**
908486 CGATCACGT-ATTATCGCGTTG
1 CGAT-A-GTCAGAATCGCGTTG
*
908507 CGATAGTCCGAATCGCGTTG
1 CGATAGTCAGAATCGCGTTG
908527 CGAT
1 CGAT
908531 CACGTGTTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
19 2 0.04
20 36 0.65
21 15 0.27
22 2 0.04
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (20 bp):
CGATAGTCAGAATCGCGTTG
Found at i:908503 original size:21 final size:21
Alignment explanation
Indices: 908477--908551 Score: 91
Period size: 21 Copynumber: 3.6 Consensus size: 21
908467 GATAGTCAGA
908477 ATCGCGTTGCGATCACGTATT
1 ATCGCGTTGCGATCACGTATT
***
908498 ATCGCGTTGCGAT-A-GTCCGA
1 ATCGCGTTGCGATCACGT-ATT
*
908518 ATCGCGTTGCGATCACGTGTT
1 ATCGCGTTGCGATCACGTATT
908539 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
908552 TTACATATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 2 0.04
20 14 0.31
21 27 0.60
22 2 0.04
ACGTcount: A:0.17, C:0.24, G:0.28, T:0.31
Consensus pattern (21 bp):
ATCGCGTTGCGATCACGTATT
Found at i:908520 original size:41 final size:41
Alignment explanation
Indices: 908461--908551 Score: 164
Period size: 41 Copynumber: 2.2 Consensus size: 41
908451 GTTAGAATCT
908461 CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCG
1 CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCG
* *
908502 CGTTGCGATAGTCCGAATCGCGTTGCGATCACGTGTTATCG
1 CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCG
908543 CGTTGCGAT
1 CGTTGCGAT
908552 TTACATATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.30
Consensus pattern (41 bp):
CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCG
Found at i:908574 original size:20 final size:20
Alignment explanation
Indices: 908540--908612 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
908530 TCACGTGTTA
*
908540 TCGCGTTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
* *
908560 TTGCATTGTGATTTACATAT
1 TCGCATTGCGATTTACATAT
908580 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
908600 TCGCATTGCGATT
1 TCGCATTGCGATT
908613 ATCTAAAATC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:908710 original size:20 final size:19
Alignment explanation
Indices: 908686--908732 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
908676 TGGAAACTGA
*
908686 ATTGCGATAATGGAGATCGC
1 ATTGCGAT-ATAGAGATCGC
* *
908706 GTTGCGATTTAGAGATCGC
1 ATTGCGATATAGAGATCGC
908725 ATTGCGAT
1 ATTGCGAT
908733 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (19 bp):
ATTGCGATATAGAGATCGC
Found at i:908722 original size:19 final size:19
Alignment explanation
Indices: 908698--908734 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
908688 TGCGATAATG
*
908698 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
908717 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
908735 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:913708 original size:13 final size:13
Alignment explanation
Indices: 913690--913714 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
913680 AATGAATTTT
913690 AAGATTTTCTAAA
1 AAGATTTTCTAAA
913703 AAGATTTTCTAA
1 AAGATTTTCTAA
913715 GTATATTCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
AAGATTTTCTAAA
Found at i:923651 original size:14 final size:14
Alignment explanation
Indices: 923632--923670 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
923622 CATGACTGGT
923632 TTCAGCTTGAAATG
1 TTCAGCTTGAAATG
923646 TTCAGCTTGAAATG
1 TTCAGCTTGAAATG
*
923660 TGCAGCTTGAA
1 TTCAGCTTGAA
923671 TTTCGGGTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.33
Consensus pattern (14 bp):
TTCAGCTTGAAATG
Found at i:925945 original size:20 final size:20
Alignment explanation
Indices: 925920--925970 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
925910 CAATTAGGGA
925920 ACCGATTCCCCTTAAGGGGT
1 ACCGATTCCCCTTAAGGGGT
925940 ACCGATTCCCCTTAAGGGGT
1 ACCGATTCCCCTTAAGGGGT
925960 ACCGATTCCCC
1 ACCGATTCCCC
925971 CCCCCCACGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.35, G:0.22, T:0.24
Consensus pattern (20 bp):
ACCGATTCCCCTTAAGGGGT
Found at i:928299 original size:20 final size:20
Alignment explanation
Indices: 928263--928351 Score: 124
Period size: 20 Copynumber: 4.5 Consensus size: 20
928253 CACAGGTTCC
**
928263 AAATCGCAACGATAATATGT
1 AAATCGCAACGCGAATATGT
* *
928283 AAATCACAATGCGAATATGT
1 AAATCGCAACGCGAATATGT
*
928303 AAATCGCAACGCGAATTTGT
1 AAATCGCAACGCGAATATGT
*
928323 AAATCGCAACGCGAATTTGT
1 AAATCGCAACGCGAATATGT
928343 AAATCGCAA
1 AAATCGCAA
928352 TACAGAAGTC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.24
Consensus pattern (20 bp):
AAATCGCAACGCGAATATGT
Found at i:928413 original size:20 final size:20
Alignment explanation
Indices: 928384--928449 Score: 105
Period size: 20 Copynumber: 3.3 Consensus size: 20
928374 CGATTTTCCA
928384 AATTCGCGACGCTAATTCTG
1 AATTCGCGACGCTAATTCTG
* *
928404 AATTCACGACGCTAATTTTG
1 AATTCGCGACGCTAATTCTG
*
928424 AATTCGCGACGCTAATTCCG
1 AATTCGCGACGCTAATTCTG
928444 AATTCG
1 AATTCG
928450 TGATTCGCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (20 bp):
AATTCGCGACGCTAATTCTG
Found at i:928447 original size:27 final size:27
Alignment explanation
Indices: 928425--928489 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
928415 CTAATTTTGA
*
928425 ATTCGCGACGCTAATTCCGAATTCGTG
1 ATTCGCAACGCTAATTCCGAATTCGTG
* *
928452 ATTCGCAACGCTAATTCCTAATTCGAG
1 ATTCGCAACGCTAATTCCGAATTCGTG
928479 ATTCGCAACGC
1 ATTCGCAACGC
928490 GATTTTTCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (27 bp):
ATTCGCAACGCTAATTCCGAATTCGTG
Found at i:928505 original size:21 final size:20
Alignment explanation
Indices: 928479--928525 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
928469 CTAATTCGAG
*
928479 ATTCGCAACGCGATTTTTCAA
1 ATTCGCAACGC-AATTTTCAA
* *
928500 ATTCGCAATGCAATTTTCTA
1 ATTCGCAACGCAATTTTCAA
928520 ATTCGC
1 ATTCGC
928526 GATGCTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (20 bp):
ATTCGCAACGCAATTTTCAA
Found at i:928628 original size:20 final size:20
Alignment explanation
Indices: 928499--928628 Score: 145
Period size: 20 Copynumber: 6.5 Consensus size: 20
928489 CGATTTTTCA
* *
928499 AATTCGCAATGC-AATTTTCT
1 AATTCGCGATGCTAA-TTCCT
928519 AATTCGCGATGCTAATTCCT
1 AATTCGCGATGCTAATTCCT
928539 AATTCGCGATGCTAATTCCT
1 AATTCGCGATGCTAATTCCT
* *
928559 AATTCGCGACGCTAATTCCA
1 AATTCGCGATGCTAATTCCT
* * * *
928579 AATTCGTGACGTTAACTCCT
1 AATTCGCGATGCTAATTCCT
* *
928599 AATTCGCGATGTTAATTCGT
1 AATTCGCGATGCTAATTCCT
*
928619 AATTCACGAT
1 AATTCGCGAT
928629 TCGCAGCGCG
Statistics
Matches: 96, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
20 94 0.98
21 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (20 bp):
AATTCGCGATGCTAATTCCT
Found at i:928724 original size:20 final size:20
Alignment explanation
Indices: 928701--928742 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
928691 ACGAACTAGG
*
928701 AATTAGCGTCGCGAATTCGA
1 AATTAGCGTCGCGAATTAGA
928721 AATTAGCGTCGCGAATTAGA
1 AATTAGCGTCGCGAATTAGA
928741 AA
1 AA
928743 ATCGCGTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (20 bp):
AATTAGCGTCGCGAATTAGA
Found at i:928749 original size:20 final size:20
Alignment explanation
Indices: 928704--928749 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
928694 AACTAGGAAT
* *
928704 TAGCGTCGCGAATTCGAAAT
1 TAGCGTCGCGAATTAGAAAA
928724 TAGCGTCGCGAATTAGAAAA
1 TAGCGTCGCGAATTAGAAAA
*
928744 TCGCGT
1 TAGCGT
928750 TGTGAATCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (20 bp):
TAGCGTCGCGAATTAGAAAA
Found at i:928756 original size:67 final size:68
Alignment explanation
Indices: 928646--928784 Score: 235
Period size: 67 Copynumber: 2.1 Consensus size: 68
928636 GCGATTTTGT
* *
928646 AATTCGGAATTAGCGTCGCGAATTCGGAAAATCACGTTGTGAATCACGAACTAGGAATTAGCGTC
1 AATTCGAAATTAGCGTCGCGAATTCAGAAAATCACGTTGTGAATCACGAACTAGGAATTAGCGTC
928711 GCG
66 GCG
* *
928714 AATTCGAAATTAGCGTCGCGAATT-AGAAAATCGCGTTGTGAATCACGAATTAGGAATTAGCGTC
1 AATTCGAAATTAGCGTCGCGAATTCAGAAAATCACGTTGTGAATCACGAACTAGGAATTAGCGTC
928778 GCG
66 GCG
928781 AATT
1 AATT
928785 ATGAATTGAG
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
67 44 0.66
68 23 0.34
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (68 bp):
AATTCGAAATTAGCGTCGCGAATTCAGAAAATCACGTTGTGAATCACGAACTAGGAATTAGCGTC
GCG
Found at i:928950 original size:20 final size:20
Alignment explanation
Indices: 928914--929002 Score: 124
Period size: 20 Copynumber: 4.5 Consensus size: 20
928904 CACAGGTTCC
**
928914 AAATCGCAACGATAATATGT
1 AAATCGCAACGCGAATATGT
* *
928934 AAATCACAATGCGAATATGT
1 AAATCGCAACGCGAATATGT
*
928954 AAATCGCAACGCGAATTTGT
1 AAATCGCAACGCGAATATGT
*
928974 AAATCGCAACGCGAATTTGT
1 AAATCGCAACGCGAATATGT
928994 AAATCGCAA
1 AAATCGCAA
929003 TACAGAAGTC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.24
Consensus pattern (20 bp):
AAATCGCAACGCGAATATGT
Found at i:929064 original size:20 final size:20
Alignment explanation
Indices: 929035--929100 Score: 105
Period size: 20 Copynumber: 3.3 Consensus size: 20
929025 CGATTTTCCA
929035 AATTCGCGACGCTAATTCTG
1 AATTCGCGACGCTAATTCTG
* *
929055 AATTCACGACGCTAATTTTG
1 AATTCGCGACGCTAATTCTG
*
929075 AATTCGCGACGCTAATTCCG
1 AATTCGCGACGCTAATTCTG
929095 AATTCG
1 AATTCG
929101 TGATTCGCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (20 bp):
AATTCGCGACGCTAATTCTG
Found at i:929098 original size:27 final size:27
Alignment explanation
Indices: 929076--929140 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
929066 CTAATTTTGA
*
929076 ATTCGCGACGCTAATTCCGAATTCGTG
1 ATTCGCAACGCTAATTCCGAATTCGTG
* *
929103 ATTCGCAACGCTAATTCCTAATTCGAG
1 ATTCGCAACGCTAATTCCGAATTCGTG
929130 ATTCGCAACGC
1 ATTCGCAACGC
929141 GATTTTTCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (27 bp):
ATTCGCAACGCTAATTCCGAATTCGTG
Found at i:929156 original size:21 final size:20
Alignment explanation
Indices: 929130--929176 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
929120 CTAATTCGAG
*
929130 ATTCGCAACGCGATTTTTCAA
1 ATTCGCAACGC-AATTTTCAA
* *
929151 ATTCGCAATGCAATTTTCTA
1 ATTCGCAACGCAATTTTCAA
929171 ATTCGC
1 ATTCGC
929177 GATGCTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (20 bp):
ATTCGCAACGCAATTTTCAA
Found at i:929279 original size:20 final size:20
Alignment explanation
Indices: 929150--929279 Score: 145
Period size: 20 Copynumber: 6.5 Consensus size: 20
929140 CGATTTTTCA
* *
929150 AATTCGCAATGC-AATTTTCT
1 AATTCGCGATGCTAA-TTCCT
929170 AATTCGCGATGCTAATTCCT
1 AATTCGCGATGCTAATTCCT
929190 AATTCGCGATGCTAATTCCT
1 AATTCGCGATGCTAATTCCT
* *
929210 AATTCGCGACGCTAATTCCA
1 AATTCGCGATGCTAATTCCT
* * * *
929230 AATTCGTGACGTTAACTCCT
1 AATTCGCGATGCTAATTCCT
* *
929250 AATTCGCGATGTTAATTCGT
1 AATTCGCGATGCTAATTCCT
*
929270 AATTCACGAT
1 AATTCGCGAT
929280 TCGCAGCGCG
Statistics
Matches: 96, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
20 94 0.98
21 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (20 bp):
AATTCGCGATGCTAATTCCT
Found at i:929377 original size:20 final size:20
Alignment explanation
Indices: 929352--929407 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
929342 ACGAACTAGG
*
929352 AATTAGCGTCGTGAATTCGA
1 AATTAGCGTCGTGAATTAGA
*
929372 AATTAGCGTCGCGAATTAGA
1 AATTAGCGTCGTGAATTAGA
* * *
929392 AAATCGCGTTGTGAAT
1 AATTAGCGTCGTGAAT
929408 CACGAATTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (20 bp):
AATTAGCGTCGTGAATTAGA
Found at i:929380 original size:651 final size:651
Alignment explanation
Indices: 928138--929594 Score: 2833
Period size: 651 Copynumber: 2.2 Consensus size: 651
928128 CTATTTACTT
* * *
928138 ATTGAGAAAATAACTTTAGTGACCGAAAATGCCTTATAATATACGATTTTAACCAACTTTTTTTG
1 ATTGAGAAAATAACCTCAGTGACTGAAAATGCCTTATAATATACGATTTTAACCAACTTTTTTTG
928203 GATTTGCGAAAATGACCAACAAATTCGCAACGCGAACTCCAATTTCGCAACACAGGTTCCAAATC
66 GATTTGCGAAAATGACCAACAAATTCGCAACGCGAACTCCAATTTCGCAACACAGGTTCCAAATC
928268 GCAACGATAATATGTAAATCACAATGCGAATATGTAAATCGCAACGCGAATTTGTAAATCGCAAC
131 GCAACGATAATATGTAAATCACAATGCGAATATGTAAATCGCAACGCGAATTTGTAAATCGCAAC
928333 GCGAATTTGTAAATCGCAATACAGAAGTCAAATTCGCAACGCGATTTTCCAAATTCGCGACGCTA
196 GCGAATTTGTAAATCGCAATACAGAAGTCAAATTCGCAACGCGATTTTCCAAATTCGCGACGCTA
928398 ATTCTGAATTCACGACGCTAATTTTGAATTCGCGACGCTAATTCCGAATTCGTGATTCGCAACGC
261 ATTCTGAATTCACGACGCTAATTTTGAATTCGCGACGCTAATTCCGAATTCGTGATTCGCAACGC
928463 TAATTCCTAATTCGAGATTCGCAACGCGATTTTTCAAATTCGCAATGCAATTTTCTAATTCGCGA
326 TAATTCCTAATTCGAGATTCGCAACGCGATTTTTCAAATTCGCAATGCAATTTTCTAATTCGCGA
928528 TGCTAATTCCTAATTCGCGATGCTAATTCCTAATTCGCGACGCTAATTCCAAATTCGTGACGTTA
391 TGCTAATTCCTAATTCGCGATGCTAATTCCTAATTCGCGACGCTAATTCCAAATTCGTGACGTTA
928593 ACTCCTAATTCGCGATGTTAATTCGTAATTCACGATTCGCAGCGCGATTTTGTAATTCGGAATTA
456 ACTCCTAATTCGCGATGTTAATTCGTAATTCACGATTCGCAGCGCGATTTTGTAATTCGGAATTA
928658 GCGTCGCGAATTCGGAAAATCACGTTGTGAATCACGAACTAGGAATTAGCGTCGCGAATTCGAAA
521 GCGTCGCGAATTCGGAAAATCACGTTGTGAATCACGAACTAGGAATTAGCGTCGCGAATTCGAAA
928723 TTAGCGTCGCGAATTAGAAAATCGCGTTGTGAATCACGAATTAGGAATTAGCGTCGCGAATTATG
586 TTAGCGTCGCGAATTAGAAAATCGCGTTGTGAATCACGAATTAGGAATTAGCGTCGCGAATTATG
928788 A
651 A
928789 ATTGAGAAAATAACCTCAGTGACTGAAAATGCCTTATAATATACGATTTTAACCAACTTTTTTTG
1 ATTGAGAAAATAACCTCAGTGACTGAAAATGCCTTATAATATACGATTTTAACCAACTTTTTTTG
928854 GATTTGCGAAAATGACCAACAAATTCGCAACGCGAACTCCAATTTCGCAACACAGGTTCCAAATC
66 GATTTGCGAAAATGACCAACAAATTCGCAACGCGAACTCCAATTTCGCAACACAGGTTCCAAATC
928919 GCAACGATAATATGTAAATCACAATGCGAATATGTAAATCGCAACGCGAATTTGTAAATCGCAAC
131 GCAACGATAATATGTAAATCACAATGCGAATATGTAAATCGCAACGCGAATTTGTAAATCGCAAC
928984 GCGAATTTGTAAATCGCAATACAGAAGTCAAATTCGCAACGCGATTTTCCAAATTCGCGACGCTA
196 GCGAATTTGTAAATCGCAATACAGAAGTCAAATTCGCAACGCGATTTTCCAAATTCGCGACGCTA
929049 ATTCTGAATTCACGACGCTAATTTTGAATTCGCGACGCTAATTCCGAATTCGTGATTCGCAACGC
261 ATTCTGAATTCACGACGCTAATTTTGAATTCGCGACGCTAATTCCGAATTCGTGATTCGCAACGC
929114 TAATTCCTAATTCGAGATTCGCAACGCGATTTTTCAAATTCGCAATGCAATTTTCTAATTCGCGA
326 TAATTCCTAATTCGAGATTCGCAACGCGATTTTTCAAATTCGCAATGCAATTTTCTAATTCGCGA
929179 TGCTAATTCCTAATTCGCGATGCTAATTCCTAATTCGCGACGCTAATTCCAAATTCGTGACGTTA
391 TGCTAATTCCTAATTCGCGATGCTAATTCCTAATTCGCGACGCTAATTCCAAATTCGTGACGTTA
929244 ACTCCTAATTCGCGATGTTAATTCGTAATTCACGATTCGCAGCGCGATTTTGTAATTCGGAATTA
456 ACTCCTAATTCGCGATGTTAATTCGTAATTCACGATTCGCAGCGCGATTTTGTAATTCGGAATTA
*
929309 GCGTCGCGAATTCGGAAAATCACGTTGTGAATCACGAACTAGGAATTAGCGTCGTGAATTCGAAA
521 GCGTCGCGAATTCGGAAAATCACGTTGTGAATCACGAACTAGGAATTAGCGTCGCGAATTCGAAA
929374 TTAGCGTCGCGAATTAGAAAATCGCGTTGTGAATCACGAATTAGGAATTAGCGTCGCGAATTATG
586 TTAGCGTCGCGAATTAGAAAATCGCGTTGTGAATCACGAATTAGGAATTAGCGTCGCGAATTATG
929439 A
651 A
929440 ATTGAGAAAATAACCTCAGTGACTGAAAATGCCTTATAATATACGATTTTAACCAACTTTTTTTG
1 ATTGAGAAAATAACCTCAGTGACTGAAAATGCCTTATAATATACGATTTTAACCAACTTTTTTTG
* *
929505 GATTTGCGAAAATGACCAACAAATTCGCAACGCGAACTCCAATTTCGCAACCCAGTTTCCAAATT
66 GATTTGCGAAAATGACCAACAAATTCGCAACGCGAACTCCAATTTCGCAACACAGGTTCCAAA-T
**
929570 CGCAACGCGAATATGTAAATCACAA
130 CGCAACGATAATATGTAAATCACAA
929595 CACAGAAGTC
Statistics
Matches: 797, Mismatches: 8, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
651 773 0.97
652 24 0.03
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (651 bp):
ATTGAGAAAATAACCTCAGTGACTGAAAATGCCTTATAATATACGATTTTAACCAACTTTTTTTG
GATTTGCGAAAATGACCAACAAATTCGCAACGCGAACTCCAATTTCGCAACACAGGTTCCAAATC
GCAACGATAATATGTAAATCACAATGCGAATATGTAAATCGCAACGCGAATTTGTAAATCGCAAC
GCGAATTTGTAAATCGCAATACAGAAGTCAAATTCGCAACGCGATTTTCCAAATTCGCGACGCTA
ATTCTGAATTCACGACGCTAATTTTGAATTCGCGACGCTAATTCCGAATTCGTGATTCGCAACGC
TAATTCCTAATTCGAGATTCGCAACGCGATTTTTCAAATTCGCAATGCAATTTTCTAATTCGCGA
TGCTAATTCCTAATTCGCGATGCTAATTCCTAATTCGCGACGCTAATTCCAAATTCGTGACGTTA
ACTCCTAATTCGCGATGTTAATTCGTAATTCACGATTCGCAGCGCGATTTTGTAATTCGGAATTA
GCGTCGCGAATTCGGAAAATCACGTTGTGAATCACGAACTAGGAATTAGCGTCGCGAATTCGAAA
TTAGCGTCGCGAATTAGAAAATCGCGTTGTGAATCACGAATTAGGAATTAGCGTCGCGAATTATG
A
Found at i:929407 original size:67 final size:68
Alignment explanation
Indices: 929297--929435 Score: 226
Period size: 67 Copynumber: 2.1 Consensus size: 68
929287 GCGATTTTGT
* *
929297 AATTCGGAATTAGCGTCGCGAATTCGGAAAATCACGTTGTGAATCACGAACTAGGAATTAGCGTC
1 AATTCGAAATTAGCGTCGCGAATTCAGAAAATCACGTTGTGAATCACGAACTAGGAATTAGCGTC
*
929362 GTG
66 GCG
* *
929365 AATTCGAAATTAGCGTCGCGAATT-AGAAAATCGCGTTGTGAATCACGAATTAGGAATTAGCGTC
1 AATTCGAAATTAGCGTCGCGAATTCAGAAAATCACGTTGTGAATCACGAACTAGGAATTAGCGTC
929429 GCG
66 GCG
929432 AATT
1 AATT
929436 ATGAATTGAG
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
67 43 0.65
68 23 0.35
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (68 bp):
AATTCGAAATTAGCGTCGCGAATTCAGAAAATCACGTTGTGAATCACGAACTAGGAATTAGCGTC
GCG
Found at i:929617 original size:20 final size:20
Alignment explanation
Indices: 929592--929634 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
929582 ATGTAAATCA
929592 CAACACAGAAGTCAAATTCG
1 CAACACAGAAGTCAAATTCG
*
929612 CAACACAGAAGTTAAATTCG
1 CAACACAGAAGTCAAATTCG
929632 CAA
1 CAA
929635 AGCACGTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.47, C:0.23, G:0.14, T:0.16
Consensus pattern (20 bp):
CAACACAGAAGTCAAATTCG
Found at i:929850 original size:26 final size:22
Alignment explanation
Indices: 929789--929839 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
929779 CTACGGTGAC
* *
929789 ATCCATCCCTATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
*
929811 ATCCGTCCCCATCTCCGGCGAA
1 ATCCGTCCCCATCTCCGACGAA
929833 ATCCGTC
1 ATCCGTC
929840 TATCTCCATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.22, C:0.43, G:0.14, T:0.22
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:930138 original size:20 final size:20
Alignment explanation
Indices: 930096--930138 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
930086 CTGTGAAATG
* * *
930096 TTCGCGTTGCGATTTTCATT
1 TTCGCGTTGCGAATTTAAGT
930116 TTCGCGTTGCGAATTTAAGT
1 TTCGCGTTGCGAATTTAAGT
930136 TTC
1 TTC
930139 AGAAACTACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.19, G:0.21, T:0.47
Consensus pattern (20 bp):
TTCGCGTTGCGAATTTAAGT
Found at i:932090 original size:4 final size:4
Alignment explanation
Indices: 932081--932126 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
932071 TTTTTCGGTA
* * * *
932081 TTAT TTAT TTAT TTAT TTAT TTAC TGAT TTAT GTAT TAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
932127 TCAACGGCCC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.67
Consensus pattern (4 bp):
TTAT
Found at i:932373 original size:21 final size:21
Alignment explanation
Indices: 932270--932388 Score: 109
Period size: 21 Copynumber: 5.7 Consensus size: 21
932260 GATTCATCTG
*
932270 TCATCGTTCAAGAGGTGCCTC
1 TCATCGTTCAAGAGGTCCCTC
* *
932291 -CTATCATTCACGAGG-CCTCTC
1 TC-ATCGTTCAAGAGGTCC-CTC
* *
932312 TCATCATTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGGTCCCTC
* *
932333 TCA-CTGTTCAAGAGGACCCTG
1 TCATC-GTTCAAGAGGTCCCTC
932354 TCATCGTTCAAGAGGTCCCTC
1 TCATCGTTCAAGAGGTCCCTC
* *
932375 CCACCGTTCAAGAG
1 TCATCGTTCAAGAG
932389 CCCGATTCAC
Statistics
Matches: 81, Mismatches: 11, Indels: 12
0.78 0.11 0.12
Matches are distributed among these distances:
20 3 0.04
21 74 0.91
22 4 0.05
ACGTcount: A:0.22, C:0.34, G:0.19, T:0.25
Consensus pattern (21 bp):
TCATCGTTCAAGAGGTCCCTC
Found at i:933855 original size:63 final size:64
Alignment explanation
Indices: 933706--933862 Score: 244
Period size: 64 Copynumber: 2.5 Consensus size: 64
933696 TTAATTGAAT
* * *
933706 TTTACATTGATTTGTAATAGTTGATTTGTTTAGTTAATGAGGAAATAAGAATTATTTTTTGCTTG
1 TTTA-ATTGATTTGTAAAAGTTGATTTGTTTAATTAATGAGGAAATAAGAATTATTTTTTACTTG
* * *
933771 TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAAGAATTA-TTTTTACTTG
1 TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTAATGAGGAAATAAGAATTATTTTTTACTTG
933834 TTTAATTGATTTGTAAAAGTTGATTTGTT
1 TTTAATTGATTTGTAAAAGTTGATTTGTT
933863 GTTTTAAATT
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
63 38 0.44
64 44 0.51
65 4 0.05
ACGTcount: A:0.30, C:0.02, G:0.17, T:0.51
Consensus pattern (64 bp):
TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTAATGAGGAAATAAGAATTATTTTTTACTTG
Found at i:933945 original size:20 final size:20
Alignment explanation
Indices: 933920--933973 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
933910 AAGGTACACT
933920 TTCGCAACGCGAAAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
** *
933940 TTCGCATTGCGATAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
*
933960 TTTGCAACGCGAAA
1 TTCGCAACGCGAAA
933974 TGTTGAAGGC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (20 bp):
TTCGCAACGCGAAAGTCAAA
Found at i:934019 original size:89 final size:89
Alignment explanation
Indices: 933884--934062 Score: 358
Period size: 89 Copynumber: 2.0 Consensus size: 89
933874 AATTTGCATT
933884 ATGTTGAAGGCAAAAAAGACCTGTTGAAGGTACACTTTCGCAACGCGAAAGTCAAATTCGCATTG
1 ATGTTGAAGGCAAAAAAGACCTGTTGAAGGTACACTTTCGCAACGCGAAAGTCAAATTCGCATTG
933949 CGATAGTCAAATTTGCAACGCGAA
66 CGATAGTCAAATTTGCAACGCGAA
933973 ATGTTGAAGGCAAAAAAGACCTGTTGAAGGTACACTTTCGCAACGCGAAAGTCAAATTCGCATTG
1 ATGTTGAAGGCAAAAAAGACCTGTTGAAGGTACACTTTCGCAACGCGAAAGTCAAATTCGCATTG
934038 CGATAGTCAAATTTGCAACGCGAA
66 CGATAGTCAAATTTGCAACGCGAA
934062 A
1 A
934063 GCCAAATTCG
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 90 1.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (89 bp):
ATGTTGAAGGCAAAAAAGACCTGTTGAAGGTACACTTTCGCAACGCGAAAGTCAAATTCGCATTG
CGATAGTCAAATTTGCAACGCGAA
Found at i:934069 original size:40 final size:40
Alignment explanation
Indices: 934012--934121 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
934002 GTACACTTTC
934012 GCAACGCGAAAGTCAAATTCGCATTGCGATAGTCAAATTT
1 GCAACGCGAAAGTCAAATTCGCATTGCGATAGTCAAATTT
* * ** *
934052 GCAACGCGAAAGCCAAATTCGAAACGCGAAAGTCAAATTT
1 GCAACGCGAAAGTCAAATTCGCATTGCGATAGTCAAATTT
* * *
934092 GCAAGGCGAAAGTCAAATTTGCGTTGCGAT
1 GCAACGCGAAAGTCAAATTCGCATTGCGAT
934122 TTTCGGTTTG
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (40 bp):
GCAACGCGAAAGTCAAATTCGCATTGCGATAGTCAAATTT
Found at i:934120 original size:20 final size:20
Alignment explanation
Indices: 934012--934113 Score: 132
Period size: 20 Copynumber: 5.1 Consensus size: 20
934002 GTACACTTTC
*
934012 GCAACGCGAAAGTCAAATTC
1 GCAACGCGAAAGTCAAATTT
** *
934032 GCATTGCGATAGTCAAATTT
1 GCAACGCGAAAGTCAAATTT
* *
934052 GCAACGCGAAAGCCAAATTC
1 GCAACGCGAAAGTCAAATTT
*
934072 GAAACGCGAAAGTCAAATTT
1 GCAACGCGAAAGTCAAATTT
*
934092 GCAAGGCGAAAGTCAAATTT
1 GCAACGCGAAAGTCAAATTT
934112 GC
1 GC
934114 GTTGCGATTT
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.20
Consensus pattern (20 bp):
GCAACGCGAAAGTCAAATTT
Found at i:936638 original size:24 final size:24
Alignment explanation
Indices: 936587--936638 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
936577 ATACGAGTAT
** *
936587 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
936611 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
936635 TGAC
1 TGAC
936639 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:936771 original size:12 final size:12
Alignment explanation
Indices: 936750--936783 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
936740 GGTTGTAGGT
*
936750 TTTGAGATTGTG
1 TTTGATATTGTG
936762 TTTGATATTGTG
1 TTTGATATTGTG
*
936774 TTTGGTATTG
1 TTTGATATTG
936784 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:937413 original size:14 final size:15
Alignment explanation
Indices: 937377--937414 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
937367 GAAATCATTG
937377 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
937392 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
937407 AAAAATTA
1 AAAAATTA
937415 GAGATGGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:937631 original size:19 final size:19
Alignment explanation
Indices: 937590--937703 Score: 113
Period size: 21 Copynumber: 5.7 Consensus size: 19
937580 TTAAATTTGT
** *
937590 GTTGCGAATTCAAAAATCAA
1 GTTGCGAATTTGAAATTC-A
*
937610 GTTGAGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
937629 GTTGCGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
937648 GTGTTGCGAATTTGAAATTCA
1 --GTTGCGAATTTGAAATTCA
*
937669 GTGTTGCGAATTTGGAAA-TCGC
1 --GTTGCGAATTT-GAAATTC-A
937691 GTTGCGAATTTGA
1 GTTGCGAATTTGA
937704 CTTTTGTGTT
Statistics
Matches: 84, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
19 21 0.25
20 25 0.30
21 34 0.40
22 4 0.05
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.34
Consensus pattern (19 bp):
GTTGCGAATTTGAAATTCA
Found at i:937696 original size:20 final size:20
Alignment explanation
Indices: 937570--937742 Score: 147
Period size: 20 Copynumber: 8.7 Consensus size: 20
937560 AACTAAAACC
* *
937570 TGTTGCGAAATT-AAATTTG
1 TGTTGCGAATTTGAAATTCG
** * *
937589 TGTTGCGAATTCAAAAATCA
1 TGTTGCGAATTTGAAATTCG
* *
937609 AGTTGAGAATTTGAAATTC-
1 TGTTGCGAATTTGAAATTCG
*
937628 AGTTGCGAATTTGAAATTCAG
1 TGTTGCGAATTTGAAATTC-G
937649 TGTTGCGAATTTGAAATTCAG
1 TGTTGCGAATTTGAAATTC-G
937670 TGTTGCGAATTTGGAAA-TCG
1 TGTTGCGAATTT-GAAATTCG
* ** *
937690 CGTTGCGAATTTGACTTTTG
1 TGTTGCGAATTTGAAATTCG
*
937710 TGTTGC-AATTTACAAATTCG
1 TGTTGCGAATTT-GAAATTCG
*
937730 CGTTGCGAATTTG
1 TGTTGCGAATTTG
937743 GAAACTGGGT
Statistics
Matches: 124, Mismatches: 23, Indels: 13
0.77 0.14 0.08
Matches are distributed among these distances:
19 35 0.28
20 46 0.37
21 39 0.31
22 4 0.03
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.38
Consensus pattern (20 bp):
TGTTGCGAATTTGAAATTCG
Found at i:937913 original size:21 final size:21
Alignment explanation
Indices: 937887--937948 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
937877 TCGCGAATTA
937887 GAAAATCGCGTTGCAAATTTG
1 GAAAATCGCGTTGCAAATTTG
*
937908 GAAAATCACGTTGCGAAA-TTG
1 GAAAATCGCGTTGC-AAATTTG
** *
937929 G-AGTTCGCGTTGCGAATTTG
1 GAAAATCGCGTTGCAAATTTG
937949 AAATTCCGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
19 2 0.06
20 12 0.35
21 17 0.50
22 3 0.09
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (21 bp):
GAAAATCGCGTTGCAAATTTG
Found at i:937963 original size:21 final size:21
Alignment explanation
Indices: 937937--938009 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 21
937927 TGGAGTTCGC
937937 GTTGCGAATTTGAAATTCCGT
1 GTTGCGAATTTGAAATTCCGT
* **
937958 GTTGCGAATTTG-ACTTCTAT
1 GTTGCGAATTTGAAATTCCGT
*
937978 GTTGCG-ATTTAGAAATT-CGC
1 GTTGCGAATTT-GAAATTCCGT
*
937998 GTTGCGATTTTG
1 GTTGCGAATTTG
938010 GAACCTGTGT
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
19 4 0.10
20 19 0.46
21 18 0.44
ACGTcount: A:0.21, C:0.14, G:0.25, T:0.41
Consensus pattern (21 bp):
GTTGCGAATTTGAAATTCCGT
Found at i:937982 original size:20 final size:21
Alignment explanation
Indices: 937937--937995 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
937927 TGGAGTTCGC
*
937937 GTTGCGAATTTGAAATTCCGT
1 GTTGCGAATTTGAAATTCCAT
* *
937958 GTTGCGAATTTG-ACTTCTAT
1 GTTGCGAATTTGAAATTCCAT
937978 GTTGCG-ATTTAGAAATTC
1 GTTGCGAATTT-GAAATTC
937996 GCGTTGCGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 4 0.12
20 12 0.38
21 16 0.50
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.41
Consensus pattern (21 bp):
GTTGCGAATTTGAAATTCCAT
Found at i:939358 original size:106 final size:106
Alignment explanation
Indices: 939224--939437 Score: 374
Period size: 106 Copynumber: 2.0 Consensus size: 106
939214 CACATACATG
* *
939224 TAATCATGTAGTTCATATCATTTCTCATATGATTTCATATTCATATAATCACGTAATTCACTTAC
1 TAATCACGTAGTTCATATCAATTCTCATATGATTTCATATTCATATAATCACGTAATTCACTTAC
939289 ACATAGCACATTTTCATGAAATTCACAGACATCCCTTAGCT
66 ACATAGCACATTTTCATGAAATTCACAGACATCCCTTAGCT
*
939330 TAATCACGTAGTTCATGTCAATTCTCATATGATTTCATATTCATATAATCACGTAATTCACTTAC
1 TAATCACGTAGTTCATATCAATTCTCATATGATTTCATATTCATATAATCACGTAATTCACTTAC
* * *
939395 ACATAGCACATTTTCATGTAATTCATAGATATCCCTTAGCT
66 ACATAGCACATTTTCATGAAATTCACAGACATCCCTTAGCT
939436 TA
1 TA
939438 TATCTCTTGA
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 102 1.00
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (106 bp):
TAATCACGTAGTTCATATCAATTCTCATATGATTTCATATTCATATAATCACGTAATTCACTTAC
ACATAGCACATTTTCATGAAATTCACAGACATCCCTTAGCT
Found at i:940683 original size:22 final size:22
Alignment explanation
Indices: 940658--940738 Score: 119
Period size: 22 Copynumber: 3.7 Consensus size: 22
940648 TCGGTTGAGG
*
940658 GGGTATCGATTCCCCTTTGAAT
1 GGGTACCGATTCCCCTTTGAAT
*
940680 GGGTACCGATTCCCCCTTGAAT
1 GGGTACCGATTCCCCTTTGAAT
* *
940702 GGGTACTGATT-CCCATTGAAT
1 GGGTACCGATTCCCCTTTGAAT
940723 GGGTACCGATTCCCCT
1 GGGTACCGATTCCCCT
940739 AGCCCATAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
21 19 0.37
22 33 0.63
ACGTcount: A:0.19, C:0.27, G:0.23, T:0.31
Consensus pattern (22 bp):
GGGTACCGATTCCCCTTTGAAT
Found at i:941849 original size:37 final size:37
Alignment explanation
Indices: 941805--941881 Score: 129
Period size: 36 Copynumber: 2.1 Consensus size: 37
941795 TTTAACCTTT
*
941805 TTCTTTTTTACTTTGAGCTTAAGGGAATGTACTTTTA
1 TTCTTTTTTACTTTGAGCTTAAGGGAATGTAATTTTA
*
941842 TTC-TTTTTGCTTTGAGCTTAAGGGAATGTAATTTTA
1 TTCTTTTTTACTTTGAGCTTAAGGGAATGTAATTTTA
941878 TTCT
1 TTCT
941882 ATGTACTTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 34 0.92
37 3 0.08
ACGTcount: A:0.21, C:0.10, G:0.17, T:0.52
Consensus pattern (37 bp):
TTCTTTTTTACTTTGAGCTTAAGGGAATGTAATTTTA
Found at i:941855 original size:36 final size:36
Alignment explanation
Indices: 941809--941890 Score: 128
Period size: 36 Copynumber: 2.3 Consensus size: 36
941799 ACCTTTTTCT
*
941809 TTTTTACTTTGAGCTTAAGGGAATGTACTTTTATTC
1 TTTTTACTTTGAGCTTAAGGGAATGTAATTTTATTC
*
941845 TTTTTGCTTTGAGCTTAAGGGAATGTAATTTTATTC
1 TTTTTACTTTGAGCTTAAGGGAATGTAATTTTATTC
* *
941881 TATGTACTTT
1 TTTTTACTTT
941891 CGTATGGATA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.22, C:0.10, G:0.17, T:0.51
Consensus pattern (36 bp):
TTTTTACTTTGAGCTTAAGGGAATGTAATTTTATTC
Found at i:942641 original size:14 final size:14
Alignment explanation
Indices: 942622--942680 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 14
942612 AAATACAATA
942622 TAATATTATTATTT
1 TAATATTATTATTT
* *
942636 TAATATTATAAGTT
1 TAATATTATTATTT
**
942650 T--TATTAGTT-TAA
1 TAATATTA-TTATTT
942662 TAATATTATTATTT
1 TAATATTATTATTT
942676 TAATA
1 TAATA
942681 AGTAATTAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
12 6 0.18
13 3 0.09
14 24 0.73
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (14 bp):
TAATATTATTATTT
Found at i:942720 original size:42 final size:41
Alignment explanation
Indices: 942665--942745 Score: 117
Period size: 42 Copynumber: 2.0 Consensus size: 41
942655 AGTTTAATAA
* *
942665 TATTATTATTTTAATAAGTAATTAATATACTTAATAATATCT
1 TATTATTATTTTAATAAATAATTAATATAATT-ATAATATCT
* *
942707 TATTTTTATTTTAATAAATATTTAATATAATTATAATAT
1 TATTATTATTTTAATAAATAATTAATATAATTATAATAT
942746 TTTTGTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
41 7 0.20
42 28 0.80
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.53
Consensus pattern (41 bp):
TATTATTATTTTAATAAATAATTAATATAATTATAATATCT
Found at i:942778 original size:33 final size:35
Alignment explanation
Indices: 942697--942789 Score: 104
Period size: 33 Copynumber: 2.7 Consensus size: 35
942687 TAATATACTT
* *
942697 AATAATATC-TTATTTTTATTTTAATAAATATTTAA
1 AATAATATCAATATTTTTATTTAAATAAATA-TTAA
* *
942732 TATAATTAT-AATATTTTTGTTTAAATAAA-A-TAA
1 AATAA-TATCAATATTTTTATTTAAATAAATATTAA
942765 AATAATATCAATATTTTTATTTAAA
1 AATAATATCAATATTTTTATTTAAA
942790 ATTGTAGATA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
32 3 0.06
33 22 0.45
35 5 0.10
36 19 0.39
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (35 bp):
AATAATATCAATATTTTTATTTAAATAAATATTAA
Found at i:944277 original size:63 final size:63
Alignment explanation
Indices: 944178--944308 Score: 253
Period size: 63 Copynumber: 2.1 Consensus size: 63
944168 TAATCACACT
*
944178 TATAATTGTATAGATAGTTTATTTAGTCACTTATATCAATTCAATTAATAATTGCATTATTAA
1 TATAATTGAATAGATAGTTTATTTAGTCACTTATATCAATTCAATTAATAATTGCATTATTAA
944241 TATAATTGAATAGATAGTTTATTTAGTCACTTATATCAATTCAATTAATAATTGCATTATTAA
1 TATAATTGAATAGATAGTTTATTTAGTCACTTATATCAATTCAATTAATAATTGCATTATTAA
944304 TATAA
1 TATAA
944309 ATATAAATTA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.45
Consensus pattern (63 bp):
TATAATTGAATAGATAGTTTATTTAGTCACTTATATCAATTCAATTAATAATTGCATTATTAA
Found at i:947108 original size:38 final size:38
Alignment explanation
Indices: 947058--947207 Score: 155
Period size: 38 Copynumber: 4.0 Consensus size: 38
947048 TTTCGGATTT
* *
947058 GGGTCGGATTTTTTTAAGTTTGATATTCGGGTCGGGTC
1 GGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGGGTC
* * *
947096 GAGTCGGGTTTTTTTAAGTGTGATATTCAGGTCGAGTTC
1 GGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCG-GGTC
* ** * *
947135 GGGTCGGATTTTTTTTAA---AAAAATTCGGGTTCAGGTC
1 GGGTCGG-GTTTTTTTAAGTGTGATATTCGGG-TCGGGTC
947172 GGGTCGGG-TTTTTTAAGTGTGATATTCGGGTCGGGT
1 GGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGGGT
947208 TTAGGGTGAA
Statistics
Matches: 88, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
35 8 0.09
37 22 0.25
38 40 0.45
39 9 0.10
40 9 0.10
ACGTcount: A:0.17, C:0.10, G:0.33, T:0.40
Consensus pattern (38 bp):
GGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGGGTC
Found at i:955391 original size:2 final size:2
Alignment explanation
Indices: 955384--955433 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
955374 CCATAGAGAA
955384 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
955426 AT AT AT AT
1 AT AT AT AT
955434 TTTTCTGTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:957072 original size:28 final size:28
Alignment explanation
Indices: 956987--957086 Score: 112
Period size: 28 Copynumber: 3.4 Consensus size: 28
956977 CTTTTTCATT
956987 TAAATAACTAAATCATTTTTTGATCAAAA
1 TAAATAACTAAATCATTTTTTG-TCAAAA
* *
957016 TAAGT-ACATAAAATTATCTTTTTGGTCAAAA
1 TAAATAAC-T-AAATCAT-TTTTT-GTCAAAA
*
957047 TAAATAACTAAATCATTTTATGTCAAAA
1 TAAATAACTAAATCATTTTTTGTCAAAA
*
957075 TAGATAACTAAA
1 TAAATAACTAAA
957087 CTATTCAAAC
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
28 20 0.33
29 9 0.15
30 12 0.20
31 16 0.27
32 3 0.05
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.36
Consensus pattern (28 bp):
TAAATAACTAAATCATTTTTTGTCAAAA
Found at i:960538 original size:62 final size:61
Alignment explanation
Indices: 960441--960557 Score: 180
Period size: 62 Copynumber: 1.9 Consensus size: 61
960431 AGGTGGCACA
* * * *
960441 AAGGCGCATCCCTGGGGACGCGCTTTACCTGGGTTTATGCTGAGTCAGATGTCACGCGGGGT
1 AAGGCGCATCCCTGGGGACACGCTTTACATGGGTTT-TGCTAAATCAGATGTCACGCGGGGT
*
960503 AAGGCGCATTCCTGGGGACACGCTTTACATGGGTTTTGCTAAATCAGATGTCACG
1 AAGGCGCATCCCTGGGGACACGCTTTACATGGGTTTTGCTAAATCAGATGTCACG
960558 TTGGTTTTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
61 17 0.34
62 33 0.66
ACGTcount: A:0.20, C:0.23, G:0.32, T:0.26
Consensus pattern (61 bp):
AAGGCGCATCCCTGGGGACACGCTTTACATGGGTTTTGCTAAATCAGATGTCACGCGGGGT
Found at i:961193 original size:22 final size:22
Alignment explanation
Indices: 961162--961205 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
961152 AATAAATTTT
961162 TTATAATAAATAA-TATTAATTA
1 TTATAATAAATAATTA-TAATTA
*
961184 TTATATTAAATAATTATAATTA
1 TTATAATAAATAATTATAATTA
961206 ATCATTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTATAATAAATAATTATAATTA
Found at i:962575 original size:15 final size:15
Alignment explanation
Indices: 962555--962584 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
962545 GACTCAATGT
962555 CTTCTCCTTGAACGA
1 CTTCTCCTTGAACGA
962570 CTTCTCCTTGAACGA
1 CTTCTCCTTGAACGA
962585 GGGCAAACAC
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:0.20, C:0.33, G:0.13, T:0.33
Consensus pattern (15 bp):
CTTCTCCTTGAACGA
Found at i:964915 original size:275 final size:275
Alignment explanation
Indices: 964398--965307 Score: 1423
Period size: 275 Copynumber: 3.3 Consensus size: 275
964388 TACTATTCAC
* * *
964398 GTGAGGGCGAGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
1 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
* * * *
964463 ATTATGTCACTAATGTCCCTC-GGGAACTATTCATGTCAGTACCTATTATTTTTTAGGGGACTTG
66 ATTATGTCACTCATGTCCCCCGGGGAACTATTCATGTCAGTACCTATTATGTTTAAGGGGACTTG
* ** * *
964527 GCAAAGTGGTGAAAGCGCGTTCCCGGGGGCGCTTCTTCCATTATTTTGTCAGAGAATATGTTATC
131 GCAAAGTGGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCTATTAATTTGTCAGAGAATATGTTATC
*
964592 ATTGCCCTATTATGTCACTCATATCCCCCGGGGAACTATTCATGTCAGTACCTATTATGTTTAAG
196 ATTGCCCTATTATGTCACTCATATCCCCC-GGGAACTATTCATGTCAGTACCTATTATGTTTGAG
964657 GGGACTTGGCAAAGTG
260 GGGACTTGGCAAAGTG
* * ** *
964673 GTGAAGACACGTTCCCGGGGGATCGTCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
1 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
*
964738 ATTATGTCACTCATGTCCCCCGGGGAACTATTCATGACAGTACCTATTATGTTTAAGGGGACTTG
66 ATTATGTCACTCATGTCCCCCGGGGAACTATTCATGTCAGTACCTATTATGTTTAAGGGGACTTG
964803 GCAAAGTGGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCTATTAATTTGTCAGAGAATATGTTATC
131 GCAAAGTGGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCTATTAATTTGTCAGAGAATATGTTATC
* * *
964868 ATTG-CCTAATATGTCACTCATGTCCCCCGGGAAACTATTCATGTCAGTACCTATTATATTTGAG
196 ATTGCCCTATTATGTCACTCATATCCCCCGGG-AACTATTCATGTCAGTACCTATTATGTTTGAG
*
964932 GGGACTTGGCATAGTG
260 GGGACTTGGCAAAGTG
* * *
964948 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGATAATATATTATCATTGTCCT
1 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
*
965013 ATTATGTCACTCATGTCCCCCGGGGAACTATTCATGTCAGTACCTATTATGTTTGAGGGGACTTG
66 ATTATGTCACTCATGTCCCCCGGGGAACTATTCATGTCAGTACCTATTATGTTTAAGGGGACTTG
* * *
965078 GCAAAGTGGTGAAGGTGCGTTCCCGAGGGCGCGCCTTCTATT-ATTTTTCAGAGAATATGTTATC
131 GCAAAGTGGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCTATTAATTTGTCAGAGAATATGTTATC
* * * * *
965142 ATTGCCCTATTATGTCCCTTATTTCCCCCAGGGAACAATTCATGTTAGTACCTATTATGTTTGAG
196 ATTGCCCTATTATGTCACTCATATCCCCC-GGGAACTATTCATGTCAGTACCTATTATGTTTGAG
965207 GGGACTTGG-AATAGTG
260 GGGACTTGGCAA-AGTG
* *
965223 GTGAAGGCGCGTTCCCTGGGGCGCGCCTTCCATTATTTTTTCAGAGAATATGTTATCATTGCCCT
1 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
965288 ATTATGTCACTCATGTCCCC
66 ATTATGTCACTCATGTCCCC
965308 TGGAGACGCA
Statistics
Matches: 581, Mismatches: 49, Indels: 10
0.91 0.08 0.02
Matches are distributed among these distances:
274 29 0.05
275 445 0.77
276 107 0.18
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (275 bp):
GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
ATTATGTCACTCATGTCCCCCGGGGAACTATTCATGTCAGTACCTATTATGTTTAAGGGGACTTG
GCAAAGTGGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCTATTAATTTGTCAGAGAATATGTTATC
ATTGCCCTATTATGTCACTCATATCCCCCGGGAACTATTCATGTCAGTACCTATTATGTTTGAGG
GGACTTGGCAAAGTG
Found at i:964954 original size:137 final size:138
Alignment explanation
Indices: 964398--965307 Score: 1432
Period size: 138 Copynumber: 6.6 Consensus size: 138
964388 TACTATTCAC
* * *
964398 GTGAGGGCGAGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
1 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
* * * *
964463 ATTATGTCACTAATGTCCCTC-GGGAACTATTCATGTCAGTACCTATTATTTTTTAGGGGACTTG
66 ATTATGTCACTCATGTCCCCCGGGGAACTATTCATGTCAGTACCTATTATGTTTGAGGGGACTTG
964527 GCAAAGTG
131 GCAAAGTG
* **
964535 GTGAAAGCGCGTTCCCGGGGGCGCTTCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
1 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
* *
964600 ATTATGTCACTCATATCCCCCGGGGAACTATTCATGTCAGTACCTATTATGTTTAAGGGGACTTG
66 ATTATGTCACTCATGTCCCCCGGGGAACTATTCATGTCAGTACCTATTATGTTTGAGGGGACTTG
964665 GCAAAGTG
131 GCAAAGTG
* * ** *
964673 GTGAAGACACGTTCCCGGGGGATCGTCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
1 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
* *
964738 ATTATGTCACTCATGTCCCCCGGGGAACTATTCATGACAGTACCTATTATGTTTAAGGGGACTTG
66 ATTATGTCACTCATGTCCCCCGGGGAACTATTCATGTCAGTACCTATTATGTTTGAGGGGACTTG
964803 GCAAAGTG
131 GCAAAGTG
* *
964811 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCTATTAATTTGTCAGAGAATATGTTATCATTG-CCT
1 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
* * *
964875 AATATGTCACTCATGTCCCCCGGGAAACTATTCATGTCAGTACCTATTATATTTGAGGGGACTTG
66 ATTATGTCACTCATGTCCCCCGGGGAACTATTCATGTCAGTACCTATTATGTTTGAGGGGACTTG
*
964940 GCATAGTG
131 GCAAAGTG
* * *
964948 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGATAATATATTATCATTGTCCT
1 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
965013 ATTATGTCACTCATGTCCCCCGGGGAACTATTCATGTCAGTACCTATTATGTTTGAGGGGACTTG
66 ATTATGTCACTCATGTCCCCCGGGGAACTATTCATGTCAGTACCTATTATGTTTGAGGGGACTTG
965078 GCAAAGTG
131 GCAAAGTG
* * *
965086 GTGAAGGTGCGTTCCCGAGGGCGCGCCTTCTATTATTTT-TCAGAGAATATGTTATCATTGCCCT
1 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
* * * * * *
965150 ATTATGTCCCTTATTTCCCCCAGGGAACAATTCATGTTAGTACCTATTATGTTTGAGGGGACTTG
66 ATTATGTCACTCATGTCCCCCGGGGAACTATTCATGTCAGTACCTATTATGTTTGAGGGGACTTG
965215 G-AATAGTG
131 GCAA-AGTG
* *
965223 GTGAAGGCGCGTTCCCTGGGGCGCGCCTTCCATTATTTTTTCAGAGAATATGTTATCATTGCCCT
1 GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
965288 ATTATGTCACTCATGTCCCC
66 ATTATGTCACTCATGTCCCC
965308 TGGAGACGCA
Statistics
Matches: 710, Mismatches: 59, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
136 2 0.00
137 325 0.46
138 383 0.54
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (138 bp):
GTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
ATTATGTCACTCATGTCCCCCGGGGAACTATTCATGTCAGTACCTATTATGTTTGAGGGGACTTG
GCAAAGTG
Found at i:965784 original size:34 final size:34
Alignment explanation
Indices: 965739--965811 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 34
965729 TTAAGTTGAA
*
965739 TTTAATGTTAAATTTTGAATACTATAATTTGTAT
1 TTTAATGTTAAATTTCGAATACTATAATTTGTAT
*
965773 TTTAATTTTAAATTTCGAATACTATAATTTGTAT
1 TTTAATGTTAAATTTCGAATACTATAATTTGTAT
965807 TTTAA
1 TTTAA
965812 AAACATTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.53
Consensus pattern (34 bp):
TTTAATGTTAAATTTCGAATACTATAATTTGTAT
Found at i:966396 original size:21 final size:21
Alignment explanation
Indices: 966329--966399 Score: 108
Period size: 21 Copynumber: 3.4 Consensus size: 21
966319 AGTGTCATAA
*
966329 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
966350 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
966371 AACCCTACGGGCTAGGAATGT
1 AACCCTGCGGGCTAGGAATGT
966392 AACCCTGC
1 AACCCTGC
966400 AGAGATGGCA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
20 3 0.07
21 39 0.87
22 3 0.07
ACGTcount: A:0.24, C:0.27, G:0.31, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:968732 original size:10 final size:11
Alignment explanation
Indices: 968711--968812 Score: 51
Period size: 10 Copynumber: 9.5 Consensus size: 11
968701 AATAATTAAA
968711 ATAATATATTT
1 ATAATATATTT
968722 ATAAT-TATTT
1 ATAATATATTT
*
968732 ATTATAT-TTT
1 ATAATATATTT
* *
968742 A-AACA-ATTAA
1 ATAATATATT-T
968752 ATTAATATATTTT
1 A-TAATATA-TTT
968765 ATAATATATTT
1 ATAATATATTT
968776 -T-ATAT-TTT
1 ATAATATATTT
*
968784 -TAATA-ATTAA
1 ATAATATATT-T
968794 ATAATATATGTT
1 ATAATATAT-TT
968806 AATAATA
1 -ATAATA
968813 CCAAAATAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 26
0.67 0.08 0.25
Matches are distributed among these distances:
8 4 0.06
9 13 0.19
10 15 0.22
11 14 0.20
12 12 0.17
13 9 0.13
14 2 0.03
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (11 bp):
ATAATATATTT
Found at i:968742 original size:42 final size:42
Alignment explanation
Indices: 968696--968811 Score: 148
Period size: 42 Copynumber: 2.7 Consensus size: 42
968686 ATATTACTTT
968696 TTTTAAATAATTAAAATAATATATTTATAATTAT-TTATTATA
1 TTTTAAATAATTAAAATAATATATTTATAATTATATT-TTATA
* *
968738 TTTTAAACAATTAAATTAATATATTTTATAA-TATATTTTATA
1 TTTTAAATAATTAAAATAATATA-TTTATAATTATATTTTATA
*
968780 TTTTTAATAATT-AAATAATATATGTTAATAAT
1 TTTTAAATAATTAAAATAATATAT-TT-ATAAT
968812 ACCAAAATAA
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
40 1 0.02
41 11 0.17
42 43 0.67
43 9 0.14
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.52
Consensus pattern (42 bp):
TTTTAAATAATTAAAATAATATATTTATAATTATATTTTATA
Found at i:968762 original size:23 final size:23
Alignment explanation
Indices: 968696--968811 Score: 90
Period size: 22 Copynumber: 5.5 Consensus size: 23
968686 ATATTACTTT
*
968696 TTTTAAATAATTAAAATAATATA
1 TTTTAAATAATTAAATTAATATA
* *
968719 -TTT--ATAATT-ATTTATTATA
1 TTTTAAATAATTAAATTAATATA
*
968738 TTTTAAACAATTAAATTAATATA
1 TTTTAAATAATTAAATTAATATA
* *
968761 TTTT--ATAA-TATATT-TTATA
1 TTTTAAATAATTAAATTAATATA
*
968780 TTTTTAATAATTAAA-TAATATA
1 TTTTAAATAATTAAATTAATATA
*
968802 TGTT-AATAAT
1 TTTTAAATAAT
968812 ACCAAAATAA
Statistics
Matches: 73, Mismatches: 12, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
19 15 0.21
20 14 0.19
21 14 0.19
22 18 0.25
23 12 0.16
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.52
Consensus pattern (23 bp):
TTTTAAATAATTAAATTAATATA
Found at i:968771 original size:12 final size:12
Alignment explanation
Indices: 968711--968779 Score: 53
Period size: 12 Copynumber: 6.2 Consensus size: 12
968701 AATAATTAAA
968711 ATAATATA-TTT
1 ATAATATATTTT
968722 ATAAT-TA-TTT
1 ATAATATATTTT
968732 AT--TATATTTT
1 ATAATATATTTT
* **
968742 A-AACA-ATTAA
1 ATAATATATTTT
968752 ATTAATATATTTT
1 A-TAATATATTTT
968765 ATAATATATTTT
1 ATAATATATTTT
968777 ATA
1 ATA
968780 TTTTTAATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
8 1 0.02
9 2 0.04
10 15 0.33
11 6 0.13
12 17 0.38
13 4 0.09
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (12 bp):
ATAATATATTTT
Found at i:968807 original size:21 final size:20
Alignment explanation
Indices: 968701--968811 Score: 80
Period size: 21 Copynumber: 5.3 Consensus size: 20
968691 ACTTTTTTTA
968701 AATAATTAAAATAATATATTT
1 AATAATT-AAATAATATATTT
** *
968722 -ATAATTATTTATTATATTTT
1 AATAATTAAATAATATA-TTT
*
968742 AAACAATTAAATTAATATATTT
1 -AATAATTAAA-TAATATATTT
* ** * *
968764 TATAATATATTTTATATTTTT
1 AATAAT-TAAATAATATATTT
968785 AATAATTAAATAATATATGTT
1 AATAATTAAATAATATAT-TT
968806 AATAAT
1 AATAAT
968812 ACCAAAATAA
Statistics
Matches: 66, Mismatches: 18, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
19 7 0.11
20 17 0.26
21 25 0.38
22 11 0.17
23 6 0.09
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (20 bp):
AATAATTAAATAATATATTT
Found at i:968840 original size:179 final size:167
Alignment explanation
Indices: 968474--968843 Score: 344
Period size: 179 Copynumber: 2.0 Consensus size: 167
968464 TTAAATTTTA
**
968474 AGATTAAATTATTGATTCCAATCCGATCAGAATATATTACTTTTTTTAAATAATTAAAATAATAT
1 AGATTAAATTACCGATTCCAAT-C-ATCAGAATATATTA------TTAAATAATTAAAATAATAT
968539 TTTATAATTATTATATTTTAAACAATTAAATTAATTAAATATTTTATTTTTATAATTAAATAAGA
58 TTTATAATTATTATATTTTAAACAATTAAATTAATTAAATATTTTATTTTTATAATTAAATAAGA
968604 TATGTTAATAATACCAAAATAAATTCTTAAATATTAAATATATATTTT
123 TATGTTAATAATACCAAAATAAATTCTTAAATATT-AA-ATATA-TTT
**
968652 AAGATTAAATTATTGATTCCAATCCGATCAGAATATATTACTTTTTTTAAATAATTAAAATAATA
1 -AGATTAAATTACCGATTCCAAT-C-ATCAGAATATATTA------TTAAATAATTAAAATAATA
968717 TATTTATAATTATTTATTATATTTTAAACAATTAAATTAATATATTTTATAATATATTTTATATT
57 T-TTTAT-A--A-TTATTATATTTTAAACAATTAAA-T--TA-A---T-TAA-ATA-TTT-TATT
*
968782 TTTAATAATTAAATAATATATGTTAATAATACCAAAATAAAATTCTTAAAATATTAAATATA
106 TTT-ATAATTAAATAAGATATGTTAATAATACCAAAAT-AAATTCTT-AAATATTAAATATA
968844 ATATATATAT
Statistics
Matches: 171, Mismatches: 1, Indels: 21
0.89 0.01 0.11
Matches are distributed among these distances:
179 65 0.38
180 5 0.03
181 1 0.01
183 1 0.01
184 23 0.13
185 1 0.01
187 2 0.01
188 1 0.01
191 1 0.01
192 3 0.02
193 3 0.02
194 3 0.02
195 7 0.04
196 38 0.22
197 10 0.06
198 7 0.04
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.45
Consensus pattern (167 bp):
AGATTAAATTACCGATTCCAATCATCAGAATATATTATTAAATAATTAAAATAATATTTTATAAT
TATTATATTTTAAACAATTAAATTAATTAAATATTTTATTTTTATAATTAAATAAGATATGTTAA
TAATACCAAAATAAATTCTTAAATATTAAATATATTT
Found at i:968851 original size:2 final size:2
Alignment explanation
Indices: 968839--968871 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
968829 AAAATATTAA
968839 AT AT A- 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
968872 CAATTGGGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:972290 original size:70 final size:70
Alignment explanation
Indices: 972207--972712 Score: 249
Period size: 70 Copynumber: 7.0 Consensus size: 70
972197 TACTTAACTT
* * *
972207 TAATGATTTAACTTTAATGATTTAATAATAATTACTTAATTTTAATGATTTAAATTTAATGATTT
1 TAATTATTAAACTTTAATGATTTAATAATAATTACTTAATTTTAATGATTTAAATTTAATTATTT
972272 AATAA
66 AATAA
* * * * ** * * *
972277 TAATTACTAAACTTTAATGATTTAACT-TTAATGATTTAATAATAATTACTTAACTTTAATAATT
1 TAATTATTAAACTTTAATGATTTAA-TAATAATTACTTAATTTTAATGATTTAA-ATT--TAA-T
972341 TAAATTTAATAA
61 T--ATTTAATAA
* * * *
972353 TTTAATAATATTTATTTAATTTTAATGATTTAATAATAATTATTTAAGTTTAATTATTTAAATTT
1 --TAAT--TA-TTA---AACTTTAATGATTTAATAATAATTACTTAATTTTAATGATTTAAATTT
*
972418 AATAATTTAATAA
58 AATTATTTAATAA
* * * * * ** * * *
972431 TAATTATTTAAGTTTAATGATTTAA-ATTTAATAATTTAATAATAATTATTTAAGTTTTATTATT
1 TAATTATTAAACTTTAATGATTTAATA-ATAATTACTTAATTTTAATGATTTAAATTTAATTATT
*
972495 TAA-ATT
65 TAATA-A
* * * * * * * * * * *
972501 TAATGATTTAA-TAATAATTACTTAACT-TTAATGATTTAAATTTAATAATTT-AATAATAATTA
1 TAATTATTAAACT-TTAATGATTTAA-TAATAATTACTTAATTTTAATGATTTAAAT-TTAATTA
*
972563 TTTAAGT-T
63 TTTAA-TAA
* * * **
972571 TAATGATTTAAA-TTTAATGATATAATAATAATTACTTAACTTTAATGATTT-AATAAGAATTAT
1 TAATTA-TTAAACTTTAATGATTTAATAATAATTACTTAATTTTAATGATTTAAAT-TTAATTAT
*
972634 TTAACT-T
64 TTAA-TAA
* * * * * * *
972641 TAATGATTTAACTTTAATGATTTAATAATAATTACTTGACTTTAATGATTTATATTTAATGATAT
1 TAATTATTAAACTTTAATGATTTAATAATAATTACTTAATTTTAATGATTTAAATTTAATTATTT
972706 AATAA
66 AATAA
972711 TA
1 TA
972713 GTATATATGC
Statistics
Matches: 341, Mismatches: 66, Indels: 58
0.73 0.14 0.12
Matches are distributed among these distances:
69 11 0.03
70 240 0.70
71 10 0.03
73 5 0.01
74 3 0.01
76 13 0.04
78 13 0.04
80 3 0.01
81 5 0.01
83 3 0.01
84 35 0.10
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (70 bp):
TAATTATTAAACTTTAATGATTTAATAATAATTACTTAATTTTAATGATTTAAATTTAATTATTT
AATAA
Found at i:972342 original size:126 final size:126
Alignment explanation
Indices: 972123--972712 Score: 734
Period size: 126 Copynumber: 4.9 Consensus size: 126
972113 TATTTAATAA
* * *
972123 TAATTATTTAAGTTTAATGATTTAATAATAATTACTTAACTTTAATGATTTAACTTTAATGGTTT
1 TAATGATTTAAATTTAATGATTTAATAATAATTACTTAACTTTAATGATTTAACTTTAATGATTT
*
972188 AATAATAATTACTTAACTTTAATGATTTAACTTTAATGATTTAATAATAATTACTTAATTT
66 AATAATAATTACTTAACTTTAATGATTTAAATTTAATGATTTAATAATAATTACTTAATTT
*
972249 TAATGATTTAAATTTAATGATTTAATAATAATTACTAAACTTTAATGATTTAACTTTAATGATTT
1 TAATGATTTAAATTTAATGATTTAATAATAATTACTTAACTTTAATGATTTAACTTTAATGATTT
* *
972314 AATAATAATTACTTAACTTTAATAATTTAAATTTAATAATTTAATAAT-A-T--TT-A-TT
66 AATAATAATTACTTAACTTTAATGATTTAAATTTAATGATTTAATAATAATTACTTAATTT
* * * * *
972369 T-A--A--T---TTTAATGATTTAATAATAATTATTTAAGTTTAATTATTTAAATTTAATAATTT
1 TAATGATTTAAATTTAATGATTTAATAATAATTACTTAACTTTAATGATTTAACTTTAATGATTT
* * * *
972426 AATAATAATTATTTAAGTTTAATGATTTAAATTTAATAATTTAATAATAATTATTTAAGTTT
66 AATAATAATTACTTAACTTTAATGATTTAAATTTAATGATTTAATAATAATTACTTAA-TTT
* * *
972488 T-ATTATTTAAATTTAATGATTTAATAATAATTACTTAACTTTAATGATTTAAATTTAATAATTT
1 TAATGATTTAAATTTAATGATTTAATAATAATTACTTAACTTTAATGATTTAACTTTAATGATTT
* * * *
972552 AATAATAATTATTTAAGTTTAATGATTTAAATTTAATGATATAATAATAATTACTTAACTT
66 AATAATAATTACTTAACTTTAATGATTTAAATTTAATGATTTAATAATAATTACTTAATTT
972613 TAATGATTT-AA--TAA-G----AAT--T-A-T--TTAACTTTAATGATTTAACTTTAATGATTT
1 TAATGATTTAAATTTAATGATTTAATAATAATTACTTAACTTTAATGATTTAACTTTAATGATTT
* * *
972664 AATAATAATTACTTGACTTTAATGATTTATATTTAATGATATAATAATA
66 AATAATAATTACTTAACTTTAATGATTTAAATTTAATGATTTAATAATA
972713 GTATATATGC
Statistics
Matches: 419, Mismatches: 30, Indels: 44
0.85 0.06 0.09
Matches are distributed among these distances:
112 165 0.39
113 1 0.00
114 2 0.00
115 2 0.00
116 3 0.01
117 2 0.00
118 3 0.01
119 5 0.01
120 3 0.01
121 2 0.00
122 3 0.01
123 4 0.01
124 1 0.00
125 6 0.01
126 217 0.52
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (126 bp):
TAATGATTTAAATTTAATGATTTAATAATAATTACTTAACTTTAATGATTTAACTTTAATGATTT
AATAATAATTACTTAACTTTAATGATTTAAATTTAATGATTTAATAATAATTACTTAATTT
Found at i:972398 original size:42 final size:42
Alignment explanation
Indices: 972137--972609 Score: 419
Period size: 42 Copynumber: 11.3 Consensus size: 42
972127 TATTTAAGTT
* * * *
972137 TAATGATTTAATAATAATTACTTAACTTTAATGATTTAACT-T
1 TAATTATTTAATAATAATTATTTAAATTTAATGATTTAA-TAA
** * * *
972179 TAATGGTTTAATAATAATTACTTAACTTTAATGATTTAACT-T
1 TAATTATTTAATAATAATTATTTAAATTTAATGATTTAA-TAA
* * * *
972221 TAATGATTTAATAATAATTACTTAATTTTAATGATTTAA-ATT
1 TAATTATTTAATAATAATTATTTAAATTTAATGATTTAATA-A
* * *
972263 TAATGATTTAATAATAATTA-CTAAACTTTAATGATTTAACT-T
1 TAATTATTTAATAATAATTATTTAAA-TTTAATGATTTAA-TAA
* * * * *
972305 TAATGATTTAATAATAATTACTTAACTTTAATAATTTAA-ATT
1 TAATTATTTAATAATAATTATTTAAATTTAATGATTTAATA-A
* * *
972347 TAATAATTTAATAATATTTATTTAATTTTAATGATTTAATAA
1 TAATTATTTAATAATAATTATTTAAATTTAATGATTTAATAA
* *
972389 TAATTATTTAAGT-TTAATTATTTAAATTTAATAATTTAATAA
1 TAATTATTTAA-TAATAATTATTTAAATTTAATGATTTAATAA
* * *
972431 TAATTATTTAAGT-TTAATGATTTAAATTTAATAATTTAATAA
1 TAATTATTTAA-TAATAATTATTTAAATTTAATGATTTAATAA
* *
972473 TAATTATTTAAGT-TTTATTATTTAAATTTAATGATTTAATAA
1 TAATTATTTAA-TAATAATTATTTAAATTTAATGATTTAATAA
* * * *
972515 TAATTACTTAACT-TTAATGATTTAAATTTAATAATTTAATAA
1 TAATTATTTAA-TAATAATTATTTAAATTTAATGATTTAATAA
* * *
972557 TAATTATTTAAGT-TTAATGATTTAAATTTAATGATATAATAA
1 TAATTATTTAA-TAATAATTATTTAAATTTAATGATTTAATAA
*
972599 TAATTACTTAA
1 TAATTATTTAA
972610 CTTTAATGAT
Statistics
Matches: 388, Mismatches: 33, Indels: 20
0.88 0.07 0.05
Matches are distributed among these distances:
41 3 0.01
42 380 0.98
43 5 0.01
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.49
Consensus pattern (42 bp):
TAATTATTTAATAATAATTATTTAAATTTAATGATTTAATAA
Found at i:972711 original size:42 final size:42
Alignment explanation
Indices: 972606--972712 Score: 162
Period size: 42 Copynumber: 2.5 Consensus size: 42
972596 TAATAATTAC
* *
972606 TTAACTTTAATGATTTAATAAGAATTATTTAACTTTAATGAT
1 TTAACTTTAATGATTTAATAATAATTACTTAACTTTAATGAT
*
972648 TTAACTTTAATGATTTAATAATAATTACTTGACTTTAATGAT
1 TTAACTTTAATGATTTAATAATAATTACTTAACTTTAATGAT
*
972690 TTATA-TTTAATGATATAATAATA
1 TTA-ACTTTAATGATTTAATAATA
972713 GTATATATGC
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
42 59 0.98
43 1 0.02
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.48
Consensus pattern (42 bp):
TTAACTTTAATGATTTAATAATAATTACTTAACTTTAATGAT
Found at i:978408 original size:33 final size:33
Alignment explanation
Indices: 978366--978431 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
978356 CAGTCGATAA
978366 AAGACTGAAGGATGAAGTGGATTCCGACGAAGT
1 AAGACTGAAGGATGAAGTGGATTCCGACGAAGT
* *
978399 AAGATTGAAGGATGAAGTTGATTCCGACGAAGT
1 AAGACTGAAGGATGAAGTGGATTCCGACGAAGT
978432 GGAATGAGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.36, C:0.11, G:0.32, T:0.21
Consensus pattern (33 bp):
AAGACTGAAGGATGAAGTGGATTCCGACGAAGT
Done.