Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008746.1 Hibiscus syriacus cultivar Beakdansim tig00111835_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: 2013901
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 10
Found at i:889668 original size:20 final size:20
Alignment explanation
Indices: 889643--889694 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
889633 CCAAAAAAAT
*
889643 TGGTATCCATACCAGAGGAC
1 TGGTATCCATACCAGAAGAC
*
889663 TGGTATCCTTACCAGAAGAC
1 TGGTATCCATACCAGAAGAC
**
889683 TGAAATCCATAC
1 TGGTATCCATAC
889695 TGGATGAGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (20 bp):
TGGTATCCATACCAGAAGAC
Found at i:890234 original size:20 final size:20
Alignment explanation
Indices: 890209--890247 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
890199 TCGATACTCC
890209 AAGGG-TGGATATCAATACTG
1 AAGGGTTGG-TATCAATACTG
*
890229 AAGGGTTGGTATCGATACT
1 AAGGGTTGGTATCAATACT
890248 AAATGGATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (20 bp):
AAGGGTTGGTATCAATACTG
Found at i:891593 original size:74 final size:73
Alignment explanation
Indices: 891466--891665 Score: 328
Period size: 74 Copynumber: 2.7 Consensus size: 73
891456 CCAAAAATTC
* *
891466 CAGATTGCTCAGAGGGAACCGATTCCCCCCAAGGAGGTACCGATTCCCCCTGAATGGTTTGGCTC
1 CAGAATGCTCGGAGGGAACCGATTCCCCCCAAGG-GGTACCGATTCCCCCTGAATGGTTTGGCTC
891531 CGAGAAAAA
65 CGAGAAAAA
*
891540 CAGAATGCTCGGAGGGAACCGATTCCCCCCAAGGGGTACCAATTCCCCTCTGAATGGTTTGGCTC
1 CAGAATGCTCGGAGGGAACCGATTCCCCCCAAGGGGTACCGATTCCCC-CTGAATGGTTTGGCTC
891605 CGAGAAAAA
65 CGAGAAAAA
*
891614 CATAATGCTCGGAGGGAACCGATTCCCCCCCAATGGGGTACCGATTCCCCCT
1 CAGAATGCTCGGAGGGAACCGATT-CCCCCCAA-GGGGTACCGATTCCCCCT
891666 ATTTAACGGT
Statistics
Matches: 118, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
73 13 0.11
74 80 0.68
75 10 0.08
76 15 0.13
ACGTcount: A:0.26, C:0.30, G:0.25, T:0.19
Consensus pattern (73 bp):
CAGAATGCTCGGAGGGAACCGATTCCCCCCAAGGGGTACCGATTCCCCCTGAATGGTTTGGCTCC
GAGAAAAA
Found at i:892208 original size:16 final size:16
Alignment explanation
Indices: 892187--892222 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
892177 AGTGAATTTA
892187 TGGAAAATCCTTAGTG
1 TGGAAAATCCTTAGTG
892203 TGGAAAATCCTTAGTG
1 TGGAAAATCCTTAGTG
892219 TGGA
1 TGGA
892223 TAGCTAAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.31
Consensus pattern (16 bp):
TGGAAAATCCTTAGTG
Found at i:899083 original size:18 final size:18
Alignment explanation
Indices: 899062--899102 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
899052 AGAAGATCAC
*
899062 GAGGAACAAGTACGAG-CA
1 GAGGAACAAGAAC-AGCCA
899080 GAGGAACAAGAACAGCCA
1 GAGGAACAAGAACAGCCA
899098 GAGGA
1 GAGGA
899103 TCAAATGCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.46, C:0.17, G:0.34, T:0.02
Consensus pattern (18 bp):
GAGGAACAAGAACAGCCA
Found at i:902131 original size:23 final size:23
Alignment explanation
Indices: 902077--902136 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
902067 AGATAATTTA
*
902077 AAATAATACTATTTCAAATAAAT
1 AAATAATATTATTTCAAATAAAT
* *
902100 AATTTATATTATTTCAAATAAAT
1 AAATAATATTATTTCAAATAAAT
*
902123 AAATAATATGATTT
1 AAATAATATTATTT
902137 TAAAAATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (23 bp):
AAATAATATTATTTCAAATAAAT
Found at i:902232 original size:23 final size:23
Alignment explanation
Indices: 902172--902232 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 23
902162 ATATTTTCAT
*
902172 AATAT-TATAAATATAATTTTTAG
1 AATATATATAAATA-AATTTATAG
*
902195 AATA-ATCTAATATAAATTTGATA-
1 AATATATATAA-ATAAATTT-ATAG
902218 AATATATATAAATAA
1 AATATATATAAATAA
902233 TTATTTAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
23 21 0.68
24 10 0.32
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (23 bp):
AATATATATAAATAAATTTATAG
Found at i:902527 original size:24 final size:24
Alignment explanation
Indices: 902485--902548 Score: 92
Period size: 24 Copynumber: 2.6 Consensus size: 24
902475 CGTTCGTGAA
902485 CGTTCGATTATATGTTTGTTTATATT
1 CGTTC-ATT-TATGTTTGTTTATATT
902511 CGTTCATTTATGTTTGTTTATATT
1 CGTTCATTTATGTTTGTTTATATT
* *
902535 TGTTTATTTATGTT
1 CGTTCATTTATGTT
902549 CATTCATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 28 0.78
25 3 0.08
26 5 0.14
ACGTcount: A:0.17, C:0.06, G:0.14, T:0.62
Consensus pattern (24 bp):
CGTTCATTTATGTTTGTTTATATT
Found at i:902555 original size:38 final size:38
Alignment explanation
Indices: 902497--902587 Score: 110
Period size: 38 Copynumber: 2.4 Consensus size: 38
902487 TTCGATTATA
* * * **
902497 TGTTTGTTTATATTCGTTCATTTATGTTTGTTTATATT
1 TGTTTATTTATGTTCATTCATTTATGTTCATTTATATT
*
902535 TGTTTATTTATGTTCATTCATTTATGTTCATTTATGTT
1 TGTTTATTTATGTTCATTCATTTATGTTCATTTATATT
* *
902573 CGTTCATTTATGTTC
1 TGTTTATTTATGTTC
902588 GAACAGAGGG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.16, C:0.09, G:0.12, T:0.63
Consensus pattern (38 bp):
TGTTTATTTATGTTCATTCATTTATGTTCATTTATATT
Found at i:902562 original size:24 final size:24
Alignment explanation
Indices: 902512--902587 Score: 91
Period size: 24 Copynumber: 3.2 Consensus size: 24
902502 GTTTATATTC
** *
902512 GTTCATTTATGTTTGTTTATATT-T
1 GTTCATTTATGTTCATTCAT-TTAT
*
902536 GTTTATTTATGTTCATTCATTTAT
1 GTTCATTTATGTTCATTCATTTAT
*
902560 GTTCATTTATGTTCGTTCATTTAT
1 GTTCATTTATGTTCATTCATTTAT
902584 GTTC
1 GTTC
902588 GAACAGAGGG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 2 0.04
24 43 0.96
ACGTcount: A:0.17, C:0.09, G:0.12, T:0.62
Consensus pattern (24 bp):
GTTCATTTATGTTCATTCATTTAT
Found at i:902588 original size:14 final size:14
Alignment explanation
Indices: 902503--902588 Score: 71
Period size: 14 Copynumber: 6.7 Consensus size: 14
902493 TATATGTTTG
*
902503 TTTATATTCGTTCA
1 TTTATGTTCGTTCA
*
902517 TTTATGTTTGTT--
1 TTTATGTTCGTTCA
* *
902529 TATAT-TT-GTTTA
1 TTTATGTTCGTTCA
*
902541 TTTATGTTCATTCA
1 TTTATGTTCGTTCA
902555 TTTA---T-GTTCA
1 TTTATGTTCGTTCA
902565 TTTATGTTCGTTCA
1 TTTATGTTCGTTCA
902579 TTTATGTTCG
1 TTTATGTTCG
902589 AACAGAGGGC
Statistics
Matches: 57, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
10 11 0.19
11 3 0.05
12 8 0.14
13 3 0.05
14 32 0.56
ACGTcount: A:0.17, C:0.09, G:0.12, T:0.62
Consensus pattern (14 bp):
TTTATGTTCGTTCA
Found at i:902873 original size:10 final size:10
Alignment explanation
Indices: 902854--902940 Score: 75
Period size: 10 Copynumber: 8.1 Consensus size: 10
902844 GTGTTTGTGT
902854 TGTTCGTTTA
1 TGTTCGTTTA
*
902864 TGTTCTTTTA
1 TGTTCGTTTA
*
902874 TTGTGTTTGTTTA
1 ---TGTTCGTTTA
*
902887 TGTTCATTTATTA
1 TGTTC--GT-TTA
902900 TGTTCGTTTA
1 TGTTCGTTTA
*
902910 TGTTTGTTTA
1 TGTTCGTTTA
*
902920 CGTTCGTTTA
1 TGTTCGTTTA
902930 TGTTCGTTTA
1 TGTTCGTTTA
902940 T
1 T
902941 CATTTAAATG
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
10 43 0.70
11 1 0.02
12 1 0.02
13 16 0.26
ACGTcount: A:0.11, C:0.08, G:0.17, T:0.63
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:902885 original size:23 final size:23
Alignment explanation
Indices: 902854--902940 Score: 99
Period size: 23 Copynumber: 3.9 Consensus size: 23
902844 GTGTTTGTGT
* *
902854 TGTTCGTTTATGTTCTTTTATTG
1 TGTTCGTTTATGTTCATTTATTA
*
902877 TGTTTGTTTATGTTCATTTATTA
1 TGTTCGTTTATGTTCATTTATTA
*
902900 TGTTCGTTTATGTT--TGT-TTA
1 TGTTCGTTTATGTTCATTTATTA
* *
902920 CGTTCGTTTATGTTCGTTTAT
1 TGTTCGTTTATGTTCATTTAT
902941 CATTTAAATG
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
20 16 0.30
21 2 0.04
22 2 0.04
23 34 0.63
ACGTcount: A:0.11, C:0.08, G:0.17, T:0.63
Consensus pattern (23 bp):
TGTTCGTTTATGTTCATTTATTA
Found at i:902897 original size:33 final size:33
Alignment explanation
Indices: 902837--902940 Score: 108
Period size: 33 Copynumber: 3.2 Consensus size: 33
902827 GAATAAGTTT
* *
902837 GTTTTTTGTGTTTGTGT-TGTTCGTTTATGTTC
1 GTTTATTGTGTTTGTTTATGTTCGTTTATGTTC
* *
902869 TTTTATTGTGTTTGTTTATGTTCATTTATTATGTTC
1 GTTTATTGTGTTTGTTTATGTTC--GT-TTATGTTC
*
902905 GTTTA---TGTTTGTTTACGTTCGTTTATGTTC
1 GTTTATTGTGTTTGTTTATGTTCGTTTATGTTC
902935 GTTTAT
1 GTTTAT
902941 CATTTAAATG
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
30 13 0.22
31 1 0.02
32 14 0.23
33 19 0.32
35 1 0.02
36 12 0.20
ACGTcount: A:0.10, C:0.07, G:0.19, T:0.64
Consensus pattern (33 bp):
GTTTATTGTGTTTGTTTATGTTCGTTTATGTTC
Found at i:904684 original size:31 final size:31
Alignment explanation
Indices: 904649--904707 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
904639 AGTTGTATGG
*
904649 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATTTCAGTATTGCAAAACTAAA
904680 ATTATTTAAATTTCAGTATTGCAAAACT
1 ATTATTTAAATTTCAGTATTGCAAAACT
904708 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATTTCAGTATTGCAAAACTAAA
Found at i:905100 original size:13 final size:13
Alignment explanation
Indices: 905082--905107 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
905072 TATAATTAAA
905082 ATTAATGTTAATT
1 ATTAATGTTAATT
905095 ATTAATGTTAATT
1 ATTAATGTTAATT
905108 TGAAAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
ATTAATGTTAATT
Found at i:910874 original size:6 final size:6
Alignment explanation
Indices: 910863--910887 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
910853 GCAAATTGTG
910863 GAGGCA GAGGCA GAGGCA GAGGCA G
1 GAGGCA GAGGCA GAGGCA GAGGCA G
910888 GTTAGAGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.52, T:0.00
Consensus pattern (6 bp):
GAGGCA
Found at i:912031 original size:21 final size:21
Alignment explanation
Indices: 912005--912047 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
911995 GTTTATTTTT
912005 TAATATATATATATATATATA
1 TAATATATATATATATATATA
912026 TAATATATATATATATATATA
1 TAATATATATATATATATATA
912047 T
1 T
912048 GGATGGATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TAATATATATATATATATATA
Found at i:912063 original size:2 final size:2
Alignment explanation
Indices: 912007--912047 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
911997 TTATTTTTTA
912007 AT AT AT AT AT AT AT AT AT AT A- 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
912048 GGATGGATGA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:912063 original size:20 final size:20
Alignment explanation
Indices: 912036--912076 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
912026 TAATATATAT
912036 ATATATATATATGGATGGATGA
1 ATATAT-TA-ATGGATGGATGA
*
912058 ATATATTAATGGGTGGATG
1 ATATATTAATGGATGGATG
912077 GATGCTGCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (20 bp):
ATATATTAATGGATGGATGA
Found at i:913996 original size:21 final size:20
Alignment explanation
Indices: 913967--914008 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
913957 CCAGGTGATG
913967 AACAAATTAACAAACAGCAAA
1 AACAAATTAA-AAACAGCAAA
* *
913988 AACACATTAAAAACATCAAA
1 AACAAATTAAAAACAGCAAA
914008 A
1 A
914009 TGTGTGTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.67, C:0.19, G:0.02, T:0.12
Consensus pattern (20 bp):
AACAAATTAAAAACAGCAAA
Found at i:918731 original size:14 final size:14
Alignment explanation
Indices: 918712--918764 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
918702 CAACTACAAT
918712 AATAAATTATTTAA
1 AATAAATTATTTAA
* *
918726 AATAAATCAATCCATACA
1 AATAAAT-TAT--TTA-A
918744 AATAAATTATTTAA
1 AATAAATTATTTAA
918758 AATAAAT
1 AATAAAT
918765 CAATCCATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 15 0.48
15 4 0.13
17 4 0.13
18 8 0.26
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:918748 original size:18 final size:18
Alignment explanation
Indices: 918725--918775 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
918715 AAATTATTTA
918725 AAATAAATCAATCCATAC
1 AAATAAATCAATCCATAC
* *
918743 AAATAAAT-TAT--TTA-
1 AAATAAATCAATCCATAC
918757 AAATAAATCAATCCATAC
1 AAATAAATCAATCCATAC
918775 A
1 A
918776 TAAATTGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 8
0.68 0.11 0.22
Matches are distributed among these distances:
14 8 0.32
15 4 0.16
17 4 0.16
18 9 0.36
ACGTcount: A:0.57, C:0.16, G:0.00, T:0.27
Consensus pattern (18 bp):
AAATAAATCAATCCATAC
Found at i:918753 original size:32 final size:31
Alignment explanation
Indices: 918712--918962 Score: 201
Period size: 32 Copynumber: 9.1 Consensus size: 31
918702 CAACTACAAT
918712 AATAAATTATTTAAAATAAATCAATCCATAC
1 AATAAATTATTTAAAATAAATCAATCCATAC
918743 AAATAAATTATTTAAAATAAATCAATCCATAC
1 -AATAAATTATTTAAAATAAATCAATCCATAC
*
918775 -ATAAATTGTTTAAAATAAATCAAT-C---C
1 AATAAATTATTTAAAATAAATCAATCCATAC
918801 -AT--A-T-TTTAAAATAAATCAATCCATAC
1 AATAAATTATTTAAAATAAATCAATCCATAC
918827 TAATAAATTATTTAAAATAAATCAAT-C---C
1 -AATAAATTATTTAAAATAAATCAATCCATAC
918855 -AT--A-T-TTTAAAATAAATCAATCCATAC
1 AATAAATTATTTAAAATAAATCAATCCATAC
*
918881 AACTACA--A--T--AATAAATCAATCCAT--
1 AA-TAAATTATTTAAAATAAATCAATCCATAC
*
918905 -AT------TTTAAAATAAATCAATCCATGC
1 AATAAATTATTTAAAATAAATCAATCCATAC
918929 TAATAAATTATTTAAAATAAATCAATCCATAC
1 -AATAAATTATTTAAAATAAATCAATCCATAC
918961 AA
1 AA
918963 CTACAATAAT
Statistics
Matches: 184, Mismatches: 2, Indels: 67
0.73 0.01 0.26
Matches are distributed among these distances:
20 1 0.01
22 48 0.26
23 5 0.03
24 2 0.01
26 24 0.13
27 1 0.01
28 5 0.03
29 1 0.01
30 25 0.14
31 4 0.02
32 68 0.37
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.33
Consensus pattern (31 bp):
AATAAATTATTTAAAATAAATCAATCCATAC
Found at i:918808 original size:22 final size:22
Alignment explanation
Indices: 918783--918825 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
918773 ACATAAATTG
918783 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
918805 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
918826 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:918832 original size:102 final size:100
Alignment explanation
Indices: 918726--918936 Score: 239
Period size: 102 Copynumber: 2.1 Consensus size: 100
918716 AATTATTTAA
* * * **
918726 AATAAATCAATCCATACAAATAAAT-TA-TTTAAAATAAATCAATCCATACATAAATTGTTTAA-
1 AATAAATCAATCAAAACAAATAAATCTATTTTAAAATAAATCAATCCATAC---AA--CTACAAT
918788 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACT
61 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACT
* * * * *
918828 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAACTACAATAAT
1 AATAAATCAATCAAAACAAATAAAT-C-TATTTTAAAATAAATCAATCCATACAACTACAATAAT
*
918893 AAATCAATCCATATTTTAAAATAAATCAATCCATGCT
64 AAATCAATCCATATTTTAAAATAAATCAATCCATACT
918930 AATAAAT
1 AATAAAT
918937 TATTTAAAAT
Statistics
Matches: 93, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
101 3 0.03
102 64 0.69
103 2 0.02
105 2 0.02
106 22 0.24
ACGTcount: A:0.52, C:0.15, G:0.01, T:0.32
Consensus pattern (100 bp):
AATAAATCAATCAAAACAAATAAATCTATTTTAAAATAAATCAATCCATACAACTACAATAATAA
ATCAATCCATATTTTAAAATAAATCAATCCATACT
Found at i:918834 original size:22 final size:22
Alignment explanation
Indices: 918785--918833 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
918775 ATAAATTGTT
**
918785 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
918807 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
918830 TAAA
1 TAAA
918834 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:918851 original size:54 final size:53
Alignment explanation
Indices: 918753--918959 Score: 311
Period size: 54 Copynumber: 4.0 Consensus size: 53
918743 AAATAAATTA
*
918753 TTTAAAATAAATCAATCCATAC-ATAAATTGTTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACAATAAATTATTTAAAATAAATCAATCCATAT
918805 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAC-AATAAATTATTTAAAATAAATCAATCCATAT
*
918859 TTTAAAATAAATCAATCCATACAACTACA--A--T--AATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACAA-TAAATTATTTAAAATAAATCAATCCATAT
*
918907 TTTAAAATAAATCAATCCATGCTAATAAATTATTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATAC-AATAAATTATTTAAAATAAATCAATCCATA
918960 CAACTACAAT
Statistics
Matches: 141, Mismatches: 4, Indels: 18
0.87 0.02 0.11
Matches are distributed among these distances:
48 41 0.29
49 2 0.01
50 2 0.01
52 24 0.17
53 2 0.01
54 70 0.50
ACGTcount: A:0.51, C:0.14, G:0.01, T:0.33
Consensus pattern (53 bp):
TTTAAAATAAATCAATCCATACAATAAATTATTTAAAATAAATCAATCCATAT
Found at i:918863 original size:22 final size:22
Alignment explanation
Indices: 918837--918926 Score: 117
Period size: 22 Copynumber: 3.9 Consensus size: 22
918827 TAATAAATTA
918837 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
918859 TTTAAAATAAATCAATCCATACAAC
1 TTTAAAATAAATCAATCCAT---AT
**
918884 TACAATAATAAATCAATCCATAT
1 TTTAA-AATAAATCAATCCATAT
918907 TTTAAAATAAATCAATCCAT
1 TTTAAAATAAATCAATCCAT
918927 GCTAATAAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
22 35 0.60
23 4 0.07
25 4 0.07
26 15 0.26
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:918943 original size:80 final size:80
Alignment explanation
Indices: 918859--919006 Score: 296
Period size: 80 Copynumber: 1.9 Consensus size: 80
918849 CAATCCATAT
918859 TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
1 TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
918924 CATGCTAATAAATTA
66 CATGCTAATAAATTA
918939 TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
1 TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
919004 CAT
66 CAT
919007 ACTTGTTGAA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 68 1.00
ACGTcount: A:0.51, C:0.17, G:0.01, T:0.31
Consensus pattern (80 bp):
TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
CATGCTAATAAATTA
Found at i:918996 original size:102 final size:99
Alignment explanation
Indices: 918783--919007 Score: 317
Period size: 102 Copynumber: 2.2 Consensus size: 99
918773 ACATAAATTG
918783 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
* **
918848 TCAATCCATATTTTAAAATAAATCAATCCATACAAC
66 TCAATCCATACTACAAAATAAATCAATCCAT--AAC
** *
918884 TACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATGCTAATAAATTATTTAAAATAA
1 TTTAA-AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAA
*
918949 ATCAATCCATACAACTACAATAATAAATCAATCCAT-AT
65 ATCAATCCAT---ACTACAA-AATAAATCAATCCATAAC
918987 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
919008 CTTGTTGAAA
Statistics
Matches: 110, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
101 3 0.03
102 84 0.76
103 4 0.04
105 4 0.04
106 15 0.14
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (99 bp):
TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
TCAATCCATACTACAAAATAAATCAATCCATAAC
Found at i:919419 original size:21 final size:21
Alignment explanation
Indices: 919386--919425 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
919376 TTTTTGCAGA
*
919386 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
919408 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
919426 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:920050 original size:32 final size:32
Alignment explanation
Indices: 920008--920459 Score: 220
Period size: 32 Copynumber: 15.4 Consensus size: 32
919998 CAATCCATAT
*
920008 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
920040 TTTAATATAAATCAATCCATACTAATAAATTG
1 TTTAAAATAAATCAATCCATACTAATAAATTA
920072 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
920094 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
**
920126 TTTAAAATAAATCAATCCATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* * * *
920155 --T-AAATCAATCCATGCAACTACAATAATAAATCAA
1 TTTAAAATAAATCAAT-CCA-TAC--TAATAAAT-TA
* * ** ** * * *
920189 TCCATACTAATAAAT-TGTTTAAAATAAATCAATCCATA
1 T--TTA-AAATAAATCAATCCATACT-AATAAAT---TA
920227 TTTTAAAATAAATCAATCCATACTAATAAATTA
1 -TTTAAAATAAATCAATCCATACTAATAAATTA
920260 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
920282 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
920314 TTTAAAATAAATCAATCCATGC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
920344 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
920362 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
920394 TTTAAAATAAATC-A---ATAC--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
920416 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
920448 TTTAAAATAAAT
1 TTTAAAATAAAT
920460 TATTTAAAAA
Statistics
Matches: 321, Mismatches: 34, Indels: 130
0.66 0.07 0.27
Matches are distributed among these distances:
20 1 0.00
22 59 0.18
23 7 0.02
24 4 0.01
25 1 0.00
26 37 0.12
27 3 0.01
28 15 0.05
29 1 0.00
30 4 0.01
31 18 0.06
32 130 0.40
33 2 0.01
34 1 0.00
35 1 0.00
36 19 0.06
37 7 0.02
38 3 0.01
39 2 0.01
40 6 0.02
ACGTcount: A:0.52, C:0.13, G:0.01, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:920056 original size:54 final size:54
Alignment explanation
Indices: 919991--920360 Score: 311
Period size: 54 Copynumber: 6.7 Consensus size: 54
919981 CAGCTACAAT
* *
919991 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAA
1 AATAAATCAATCCATATTATAAAATAAATCAATCCATACTAATAAATTATTTAA
* * * *** * ** **
920045 TATAAATCAATCCATACTAATAAATTGTTTAAAATAAAT-C-AATCCA-TATTTTAA
1 AATAAATCAATCCATA-TTATAAAATAAAT-CAATCCATACTAATAAATTA-TTTAA
* * ** * ** **
920099 AATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AATCCA-TATTTTAA
1 AATAAATCAATCCATA-TTATAAAATAAAT-CAATCCATACTAATAAATTA-TTTAA
* * *
920153 AATAAATCAATCCATGCAACTACAATAATAAATCAATCCATACTAATAAATTGTTTAA
1 AATAAATCAATCCAT---ATTATAA-AATAAATCAATCCATACTAATAAATTATTTAA
*
920211 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTATAAAATAAATCAATCCATACTAATAAATTATTTAA
*
920265 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTATAAAATAAATCAATCCATACTAATAAATTATTTAA
* *
920319 AATAAATCAATCCATGCAACTACAATAATAAATCAATCCATA
1 AATAAATCAATCCAT---ATTATAA-AATAAATCAATCCATA
920361 TTTTAAAATA
Statistics
Matches: 269, Mismatches: 33, Indels: 24
0.83 0.10 0.07
Matches are distributed among these distances:
53 2 0.01
54 191 0.71
55 12 0.04
56 13 0.05
57 10 0.04
58 40 0.15
59 1 0.00
ACGTcount: A:0.51, C:0.15, G:0.01, T:0.33
Consensus pattern (54 bp):
AATAAATCAATCCATATTATAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:920067 original size:18 final size:18
Alignment explanation
Indices: 919990--920069 Score: 51
Period size: 22 Copynumber: 4.4 Consensus size: 18
919980 ACAGCTACAA
*
919990 TAATAAATCAATCCATATTT
1 TAATAAATCAATCCATA--C
920010 TAAAATAAATCAATCCATAC
1 T--AATAAATCAATCCATAC
* * * *
920030 AAATAAAT-TAT--TTAA
1 TAATAAATCAATCCATAC
920045 T-ATAAATCAATCCATAC
1 TAATAAATCAATCCATAC
920062 TAATAAAT
1 TAATAAAT
920070 TGTTTAAAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 14
0.66 0.13 0.21
Matches are distributed among these distances:
14 6 0.13
15 4 0.09
17 5 0.11
18 13 0.29
20 1 0.02
22 16 0.36
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.34
Consensus pattern (18 bp):
TAATAAATCAATCCATAC
Found at i:920100 original size:22 final size:22
Alignment explanation
Indices: 920072--920114 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
920062 TAATAAATTG
920072 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
920094 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
920115 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:920123 original size:22 final size:22
Alignment explanation
Indices: 920074--920122 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
920064 ATAAATTGTT
**
920074 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
920096 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
920119 TAAA
1 TAAA
920123 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:920152 original size:22 final size:22
Alignment explanation
Indices: 920126--920167 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
920116 TAATAAATTA
920126 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
920148 TTTAAAATAAATCAATCCAT
1 TTTAAAATAAATCAATCCAT
920168 GCAACTACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:920197 original size:134 final size:136
Alignment explanation
Indices: 919991--920459 Score: 690
Period size: 134 Copynumber: 3.4 Consensus size: 136
919981 CAGCTACAAT
919991 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAATATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC-AATAAA-TA-TTAA-ATAAATCAAT
920056 CCATACTAATAAATTGTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATA
62 CCATACTAATAAATTGTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATA
920121 AATTATTTAA
127 AATTATTTAA
* *
920131 AATAAATCAATCCATATTTTAAAATAAATCAATCCATGCAACTACA-A-T-AATAAATCAATCCA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAA-TAAATATTAAATAAATCAATCCA
920193 TACTAATAAATTGTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAAT
65 TACTAATAAATTGTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAAT
920258 TATTTAA
130 TATTTAA
920265 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC-AATAAA-TA-TT-AAATAAATCAAT
*
920330 CCATGC-AACTACAA-----T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA
62 CCATACTAA-TA-AATTGTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA
920387 TAAATTATTTAA
125 TAAATTATTTAA
*
920399 AATAAATCAATACATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC-AATAAA-TA-TT-AAATAAAT
920460 TATTTAAAAA
Statistics
Matches: 313, Mismatches: 6, Indels: 26
0.91 0.02 0.08
Matches are distributed among these distances:
134 240 0.77
135 3 0.01
136 3 0.01
138 2 0.01
139 4 0.01
140 59 0.19
141 2 0.01
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.34
Consensus pattern (136 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAATAAATATTAAATAAATCAATCCAT
ACTAATAAATTGTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATT
ATTTAA
Found at i:920210 original size:80 final size:80
Alignment explanation
Indices: 920099--920360 Score: 289
Period size: 80 Copynumber: 3.2 Consensus size: 80
920089 CATATTTTAA
920099 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT
1 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT
920164 CCATGCAACTACAAT
66 CCATGCAACTACAAT
*
920179 AATAAATCAATCCATACTAATAAATTGTTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT
1 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT
* *
920244 CCATACTAA-TAAATTATTT
66 CCATGC-AACTACA--A--T
** * ** * ** **
920263 AAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAA
1 --AATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAA
920325 TCAATCCATGCAACTACAAT
61 TCAATCCATGCAACTACAAT
920345 AATAAATCAATCCATA
1 AATAAATCAATCCATA
920361 TTTTAAAATA
Statistics
Matches: 155, Mismatches: 16, Indels: 22
0.80 0.08 0.11
Matches are distributed among these distances:
80 88 0.57
81 2 0.01
82 2 0.01
84 7 0.05
85 11 0.07
86 45 0.29
ACGTcount: A:0.52, C:0.15, G:0.01, T:0.32
Consensus pattern (80 bp):
AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT
CCATGCAACTACAAT
Found at i:920234 original size:22 final size:22
Alignment explanation
Indices: 920206--920248 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
920196 TAATAAATTG
920206 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
920228 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
920249 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:920257 original size:22 final size:22
Alignment explanation
Indices: 920208--920256 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
920198 ATAAATTGTT
**
920208 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
920230 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
920253 TAAA
1 TAAA
920257 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:920277 original size:188 final size:186
Alignment explanation
Indices: 920040--920459 Score: 682
Period size: 188 Copynumber: 2.2 Consensus size: 186
920030 AAATAAATTA
* *
920040 TTTAATATAAATCAATCCATACTAATAAATTGTTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
* **
920105 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT-ATTTTAA-AATAAATCAATCCAT
66 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAACTACAATAATAAATCAATCCAT
* *
920168 GCAACTACAATAATAAATCAATCCATACTAATAAATTGTTTAAAATAAATCAATCCATAT
131 ---ACTACAA-AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATAT
920228 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
920293 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATGCAACTACAATAATAAATCAATCC
66 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT--AACTACAATAATAAATCAATCC
* **
920358 ATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATAT
129 ATACTACAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATAT
920416 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
920460 TATTTAAAAA
Statistics
Matches: 218, Mismatches: 10, Indels: 8
0.92 0.04 0.03
Matches are distributed among these distances:
188 195 0.89
189 4 0.02
191 4 0.02
192 15 0.07
ACGTcount: A:0.51, C:0.14, G:0.01, T:0.34
Consensus pattern (186 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAACTACAATAATAAATCAATCCAT
ACTACAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATAT
Found at i:920286 original size:22 final size:22
Alignment explanation
Indices: 920260--920302 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
920250 TAATAAATTA
920260 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
920282 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
920303 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:920311 original size:22 final size:22
Alignment explanation
Indices: 920262--920310 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
920252 ATAAATTATT
**
920262 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
920284 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
920307 TAAA
1 TAAA
920311 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:920391 original size:22 final size:22
Alignment explanation
Indices: 920318--920391 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 22
920308 AAATTATTTA
920318 AAATAAATCAATCCATGCAACTACA-
1 AAATAAATCAATCCAT---ACTA-AT
**
920343 ATAATAAATCAATCCATA-TTTT
1 A-AATAAATCAATCCATACTAAT
920365 AAAATAAATCAATCCATACTAAT
1 -AAATAAATCAATCCATACTAAT
920388 AAAT
1 AAAT
920392 TATTTAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
22 21 0.51
23 4 0.10
25 1 0.02
26 15 0.37
ACGTcount: A:0.53, C:0.18, G:0.01, T:0.28
Consensus pattern (22 bp):
AAATAAATCAATCCATACTAAT
Found at i:920410 original size:22 final size:22
Alignment explanation
Indices: 920385--920431 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
920375 AATCCATACT
920385 AATAAAT-TATTTAAAATAAATC
1 AATAAATAT-TTTAAAATAAATC
*
920407 AATACATATTTTAAAATAAATC
1 AATAAATATTTTAAAATAAATC
920429 AAT
1 AAT
920432 CCATACTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.36
Consensus pattern (22 bp):
AATAAATATTTTAAAATAAATC
Found at i:920427 original size:54 final size:53
Alignment explanation
Indices: 920040--920459 Score: 317
Period size: 54 Copynumber: 7.8 Consensus size: 53
920030 AAATAAATTA
* * *
920040 TTTAATATAAATCAATCCATACTAATAAATTGTTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTT-AAATAAATCAATACATAT
*
920094 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTT-AAATAAATCAATACATAT
* * * *
920148 TTTAAAATAAATCAATCCATGC-AACTACAA-TA-ATAAATCAATCCATACTAATAAATT
1 TTTAAAATAAATCAATCCATACTAA-TA-AATTATTTAAATAAATCAATAC--AT--A-T
** * ** * ** *
920205 GTTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAAT-T
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAATAAAT-C-AATACATAT
** * ** * ** *
920259 ATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAAT-T
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAATAAAT-C-AATACATAT
* * *
920313 ATTTAAAATAAATCAATCCATGC-AACTACA--A--T-AATAAATCAATCCATAT
1 -TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAATAAATCAATACATAT
920362 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTT-AAATAAATCAATACATAT
920416 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTT-AAATAAAT
920460 TATTTAAAAA
Statistics
Matches: 317, Mismatches: 26, Indels: 46
0.81 0.07 0.12
Matches are distributed among these distances:
48 29 0.09
49 4 0.01
50 6 0.02
51 1 0.00
52 12 0.04
53 4 0.01
54 214 0.68
55 5 0.02
56 3 0.01
57 5 0.02
58 30 0.09
59 1 0.00
60 3 0.01
ACGTcount: A:0.51, C:0.14, G:0.01, T:0.34
Consensus pattern (53 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAATAAATCAATACATAT
Found at i:920436 original size:22 final size:22
Alignment explanation
Indices: 920394--920436 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
920384 TAATAAATTA
920394 TTTAAAATAAATCAATACATAT
1 TTTAAAATAAATCAATACATAT
*
920416 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATACATA
920437 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATACATAT
Found at i:920458 original size:14 final size:15
Alignment explanation
Indices: 920439--920474 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
920429 AATCCATACT
920439 AATAAATTATTT-AA
1 AATAAATTATTTAAA
920453 AATAAATTATTTAAA
1 AATAAATTATTTAAA
920468 AATAAAT
1 AATAAAT
920475 CAATCCATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AATAAATTATTTAAA
Found at i:920485 original size:22 final size:22
Alignment explanation
Indices: 920392--920486 Score: 68
Period size: 22 Copynumber: 4.2 Consensus size: 22
920382 ACTAATAAAT
920392 TATTT-AAAATAAATCAATACA
1 TATTTAAAAATAAATCAATACA
* *
920413 TATTTTAAAATAAATCAATCCA
1 TATTTAAAAATAAATCAATACA
* ** * *
920435 TA-CTAATAAATTATTTAAAATAAA
1 TATTTAA-AAA-TAAAT-CAATACA
*
920459 TTATTTAAAAATAAATCAATCCA
1 -TATTTAAAAATAAATCAATACA
920482 TATTT
1 TATTT
920487 TATAATAATT
Statistics
Matches: 54, Mismatches: 14, Indels: 11
0.68 0.18 0.14
Matches are distributed among these distances:
21 7 0.13
22 25 0.46
23 7 0.13
24 7 0.13
25 5 0.09
26 3 0.06
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (22 bp):
TATTTAAAAATAAATCAATACA
Found at i:920502 original size:15 final size:15
Alignment explanation
Indices: 920482--920526 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
920472 AATCAATCCA
* *
920482 TATTTTATAATAATT
1 TATTTTAAAATAAAT
920497 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
920512 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
920527 AACATTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TATTTTAAAATAAAT
Found at i:920523 original size:52 final size:47
Alignment explanation
Indices: 920413--920549 Score: 158
Period size: 52 Copynumber: 2.9 Consensus size: 47
920403 AATCAATACA
*
920413 TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
1 TATTTTAAAATAAATCAATCCATAATAATAAATTATTTAAAATAAAT
* *
920460 TATTTAAAAATAAATCAATCCATATTTTATAATAATTTATTTTAAAATAAAT
1 TATTTTAAAATAAATCAATCCATA----ATAATAAATTA-TTTAAAATAAAT
*
920512 TATTTTAAAATAAAT-AA--CAT--TATTAAATTATTTAAAAT
1 TATTTTAAAATAAATCAATCCATAATAATAAATTATTTAAAAT
920550 TATTTTAATA
Statistics
Matches: 79, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
42 8 0.10
43 8 0.10
47 23 0.29
49 3 0.04
51 11 0.14
52 26 0.33
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (47 bp):
TATTTTAAAATAAATCAATCCATAATAATAAATTATTTAAAATAAAT
Found at i:922135 original size:41 final size:41
Alignment explanation
Indices: 922066--922150 Score: 107
Period size: 41 Copynumber: 2.1 Consensus size: 41
922056 GAGTTAACCA
* *
922066 AAATTTTCACTCAAGAGTGAATAAAATATATAAAGATGATC
1 AAATTTTCACTCAAGAGTGAAGAAAATATATAAAGATGAAC
** * * *
922107 AAATTTTCTTTCAAGATTGAAGAGAATATATAAAGTTGAAC
1 AAATTTTCACTCAAGAGTGAAGAAAATATATAAAGATGAAC
922148 AAA
1 AAA
922151 ATATAATAAG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.48, C:0.08, G:0.13, T:0.31
Consensus pattern (41 bp):
AAATTTTCACTCAAGAGTGAAGAAAATATATAAAGATGAAC
Found at i:926624 original size:21 final size:21
Alignment explanation
Indices: 926583--926624 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
926573 AATATTTTGT
* * *
926583 ATTGTCATGTAAGCTTTGTGA
1 ATTGTCAGGTAAGCATCGTGA
926604 ATTGTCAGGTAAGCATCGTGA
1 ATTGTCAGGTAAGCATCGTGA
926625 TGGCCAATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.36
Consensus pattern (21 bp):
ATTGTCAGGTAAGCATCGTGA
Found at i:927054 original size:25 final size:26
Alignment explanation
Indices: 927007--927057 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
926997 ATTTTAATTA
* *
927007 TTTTTATTTATGAAATCAAGTTTTCT
1 TTTTTATTAATCAAATCAAGTTTTCT
*
927033 TTTTTATTAATCAAA-CATGTTTTCT
1 TTTTTATTAATCAAATCAAGTTTTCT
927058 AATTTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.27, C:0.10, G:0.06, T:0.57
Consensus pattern (26 bp):
TTTTTATTAATCAAATCAAGTTTTCT
Found at i:930119 original size:18 final size:18
Alignment explanation
Indices: 930093--930130 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
930083 GTAATATTCG
930093 AATAATTAAATCAAATAT
1 AATAATTAAATCAAATAT
*
930111 AATATTTAAATCAAATAT
1 AATAATTAAATCAAATAT
930129 AA
1 AA
930131 AATCTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (18 bp):
AATAATTAAATCAAATAT
Found at i:932074 original size:17 final size:18
Alignment explanation
Indices: 932035--932074 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
932025 GAAAACAATG
932035 TAATTAAATCAAAAACAA
1 TAATTAAATCAAAAACAA
*
932053 CAATTAAATC-AAAACAA
1 TAATTAAATCAAAAACAA
932070 TAATT
1 TAATT
932075 TTTTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.25
Consensus pattern (18 bp):
TAATTAAATCAAAAACAA
Found at i:932602 original size:21 final size:21
Alignment explanation
Indices: 932538--932631 Score: 79
Period size: 21 Copynumber: 4.5 Consensus size: 21
932528 CGATACCTGG
*
932538 GTATCAATACCCATTGAAGCA
1 GTATCGATACCCATTGAAGCA
* * *
932559 CTATCGGTA-CTATT-AAGAACA
1 GTATCGATACCCATTGAAG--CA
932580 GTATCGATACCCATTGAAGCA
1 GTATCGATACCCATTGAAGCA
* *
932601 GTATCGATA-CTA-TGCAAGTA
1 GTATCGATACCCATTG-AAGCA
932621 GTATCGATACC
1 GTATCGATACC
932632 TAGCAAGAGT
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
19 5 0.09
20 19 0.33
21 27 0.47
22 4 0.07
23 3 0.05
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (21 bp):
GTATCGATACCCATTGAAGCA
Found at i:932625 original size:20 final size:21
Alignment explanation
Indices: 932600--932653 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
932590 CCATTGAAGC
932600 AGTATCGATACTATGC-A-AGT
1 AGTATCGATACTA-GCAAGAGT
932620 AGTATCGATACCTAGCAAGAGT
1 AGTATCGATA-CTAGCAAGAGT
*
932642 AGTATCGGTACT
1 AGTATCGATACT
932654 GGGTGACCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 12 0.40
21 6 0.20
22 12 0.40
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (21 bp):
AGTATCGATACTAGCAAGAGT
Found at i:938674 original size:20 final size:20
Alignment explanation
Indices: 938633--938674 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
938623 GTAAAAATTG
* *
938633 ATATTTGAAAACTTGGAGTA
1 ATATTTGAAAACTTCGAATA
938653 ATATTTGAAATA-TTCGAATA
1 ATATTTGAAA-ACTTCGAATA
938673 AT
1 AT
938675 TAAATCGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (20 bp):
ATATTTGAAAACTTCGAATA
Found at i:938695 original size:18 final size:18
Alignment explanation
Indices: 938669--938706 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
938659 GAAATATTCG
938669 AATAATTAAATCGAATAT
1 AATAATTAAATCGAATAT
* *
938687 AATATTTAAATTGAATAT
1 AATAATTAAATCGAATAT
938705 AA
1 AA
938707 AATCTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (18 bp):
AATAATTAAATCGAATAT
Found at i:947087 original size:90 final size:90
Alignment explanation
Indices: 946911--947271 Score: 562
Period size: 90 Copynumber: 4.0 Consensus size: 90
946901 TAATCCCAAA
*
946911 TATTTAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATTAATAAAATCCCA-AATATG
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAA-TAATAAAAT-CCATAATATG
*
946975 ATTAGGGTAACTTGGATTTAAAAGGAT
64 ATTAGGGTAACTTGGATATAAAAGGAT
* *
947002 TATCAAATTCCAATTAATTAAATATAGATTTTATTAATTTGAAATAATAAAATCCATAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCATAATATGAT
947067 TAGGGTAACTTGGATATAAAAGGAT
66 TAGGGTAACTTGGATATAAAAGGAT
* * *
947092 TATTAAATTCCAATTAATTAAGTATAGATTTAATTCATTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCATAATATGAT
*
947157 TAAGGTAACTTGGATATAAAAGGAT
66 TAGGGTAACTTGGATATAAAAGGAT
* * * *
947182 TATTAAATTCCAATTAATTAAATATATATTTAATTAATTTGAAATAGTAAAATCCCTAATGTGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCATAATATGAT
***
947247 TAGGGTAACTCATATATAAAAGGAT
66 TAGGGTAACTTGGATATAAAAGGAT
947272 GTGTTAGGTC
Statistics
Matches: 250, Mismatches: 19, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
89 3 0.01
90 206 0.82
91 41 0.16
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (90 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCATAATATGAT
TAGGGTAACTTGGATATAAAAGGAT
Found at i:953082 original size:28 final size:28
Alignment explanation
Indices: 953024--953079 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
953014 TATAACGAAA
*
953024 TAAATTTAACATAACTTTTTATTTAGAT
1 TAAATTTAACATAACTTTTTATTTAAAT
* **
953052 TAAATTTAATATATTTTTTTA-TTAAAT
1 TAAATTTAACATAACTTTTTATTTAAAT
953079 T
1 T
953080 TAATATGTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (28 bp):
TAAATTTAACATAACTTTTTATTTAAAT
Found at i:956511 original size:2 final size:2
Alignment explanation
Indices: 956504--956529 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
956494 TCCCAATTCA
956504 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
956530 TGTTCAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:956579 original size:17 final size:17
Alignment explanation
Indices: 956559--956597 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
956549 TAATTTTCAT
*
956559 TTTTACTATTTTTTATA
1 TTTTACTATTTTGTATA
* *
956576 TTTTATTATTTTGTGTA
1 TTTTACTATTTTGTATA
956593 TTTTA
1 TTTTA
956598 AATTTTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.72
Consensus pattern (17 bp):
TTTTACTATTTTGTATA
Found at i:957034 original size:137 final size:139
Alignment explanation
Indices: 956886--957148 Score: 372
Period size: 138 Copynumber: 1.9 Consensus size: 139
956876 GTTACAAAAC
* * * *
956886 TTGTCACTATATAACATTGTTG-CAC-AAAAAATAGGGAGAAATATTTCTTATAGTATAAGTTTT
1 TTGTCACTATATAACATT-TTGACACTAAAAAATAGGGAGAAATAGTTATGATAATATAA-TTTT
*
956949 T-ATAATGATTAAAATATATAACTACAAAAGCAATTAATTAC-AAAAAACTTAAATTTTATTAAT
64 TCATAATGATTAAAATATATAACTACAAAAACAATTAATTACAAAAAAACTTAAATTTTATTAAT
957012 TACAATATATT
129 TACAATATATT
* * *
957023 TTGTCATTATATAACATTTTGACACTAAAAAATAGGGAGAAGTGGTTATGATAATATAATTTTTC
1 TTGTCACTATATAACATTTTGACACTAAAAAATAGGGAGAAATAGTTATGATAATATAATTTTTC
* * * *
957088 ATAATGATTAAAATATATAAGTACAAAAATAATTTATTACAAAAAAACTTGAATTTTATTA
66 ATAATGATTAAAATATATAACTACAAAAACAATTAATTACAAAAAAACTTAAATTTTATTA
957149 TTTGATGTGA
Statistics
Matches: 110, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
136 3 0.03
137 25 0.23
138 63 0.57
139 19 0.17
ACGTcount: A:0.46, C:0.08, G:0.09, T:0.37
Consensus pattern (139 bp):
TTGTCACTATATAACATTTTGACACTAAAAAATAGGGAGAAATAGTTATGATAATATAATTTTTC
ATAATGATTAAAATATATAACTACAAAAACAATTAATTACAAAAAAACTTAAATTTTATTAATTA
CAATATATT
Found at i:957625 original size:179 final size:179
Alignment explanation
Indices: 957299--957705 Score: 450
Period size: 180 Copynumber: 2.3 Consensus size: 179
957289 CTGCTAATAT
* * * *
957299 AATTTGTCACAAAAACGTGAATATCATTATTT-TTGTGACAATGTTTTTTGTAATAATTATTAAC
1 AATTTGTCACAAAAACTTGAATCTCATTATTTGTTGTGACAAT-TTTTTTGTAACAATAATTAAC
* * ** *
957363 ACTTATATTTACAAAATTTGTCACTATAAGACTTTTTTTGCGCAAAACAATATGGAGGAAAATCT
65 ACTTATAGTAACAAAACATGTCACTATAAGACTTTTTTTGCACAAAACAATATGGAGGAAAATCT
* * *
957428 TTGTGACAATAAATTTTGTCACTATAATTAAAATATATAACGACAAACATT
130 TTGTGACAATAAATTTTGTCACAAAAATTAAAATATATAACGACAAACA-A
* * *
957479 ATTTTTTTACTAAAAACTTGAATCTCATTATTTGTTGTGACAATTTTTTT-TAACAATAATTATA
1 AATTTGTCAC-AAAAACTTGAATCTCATTATTTGTTGTGACAATTTTTTTGTAACAATAATTA-A
* * * * * *
957543 -GCTTATAGTAACAAAACATGTCACTATATGATTTTATTTTTGTACCAAA-AAT-TGGA-GATAA
64 CACTTATAGTAACAAAACATGTCACTATAAGA-CTT-TTTTTGCACAAAACAATATGGAGGAAAA
* * **
957604 TCATTTGT-ACTATACATTTTGTCACAAAAATTAAAATATATAATTACAAACAA
127 TC-TTTGTGACAATAAATTTTGTCACAAAAATTAAAATATATAACGACAAACAA
* *
957657 AATTTGTCACAACAAATTTAAATCTCATTATTTGTTGTGACAATTTTTT
1 AATTTGTCACAA-AAACTTGAATCTCATTATTTGTTGTGACAATTTTTT
957706 CTGTCATAGT
Statistics
Matches: 190, Mismatches: 30, Indels: 16
0.81 0.13 0.07
Matches are distributed among these distances:
177 2 0.01
178 41 0.22
179 44 0.23
180 51 0.27
181 32 0.17
182 20 0.11
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.41
Consensus pattern (179 bp):
AATTTGTCACAAAAACTTGAATCTCATTATTTGTTGTGACAATTTTTTTGTAACAATAATTAACA
CTTATAGTAACAAAACATGTCACTATAAGACTTTTTTTGCACAAAACAATATGGAGGAAAATCTT
TGTGACAATAAATTTTGTCACAAAAATTAAAATATATAACGACAAACAA
Found at i:959873 original size:38 final size:38
Alignment explanation
Indices: 959831--960025 Score: 255
Period size: 38 Copynumber: 5.0 Consensus size: 38
959821 TCGTAGTACT
* *
959831 TACACATAAGGTCGTACCCACCAAATGCACCGAAGTGC
1 TACACATAAGGTCGTGCCCACCATATGCACCGAAGTGC
* * * *
959869 TACACATAAGGTCGTGCCCACCATTTGAATCGATGTGC
1 TACACATAAGGTCGTGCCCACCATATGCACCGAAGTGC
*
959907 ATTACACATAAGGTCGTGCTCACCATATGCACCGAAGTGC
1 --TACACATAAGGTCGTGCCCACCATATGCACCGAAGTGC
* * *
959947 AACACATAAGGTCGTGCCCACCATTTTCACCGAAGTGC
1 TACACATAAGGTCGTGCCCACCATATGCACCGAAGTGC
*
959985 ATTACACATAAGGTCGTGCCCACCATATGCACCAAAGTGC
1 --TACACATAAGGTCGTGCCCACCATATGCACCGAAGTGC
960025 T
1 T
960026 TAATCGATAT
Statistics
Matches: 134, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
38 67 0.50
40 67 0.50
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (38 bp):
TACACATAAGGTCGTGCCCACCATATGCACCGAAGTGC
Found at i:959921 original size:40 final size:40
Alignment explanation
Indices: 959830--960024 Score: 272
Period size: 40 Copynumber: 5.0 Consensus size: 40
959820 ATCGTAGTAC
* *
959830 TTACACATAAGGTCGTACCCACCAAATGCACCGAAGTGC-
1 TTACACATAAGGTCGTGCCCACCATATGCACCGAAGTGCA
* * * *
959869 -TACACATAAGGTCGTGCCCACCATTTGAATCGATGTGCA
1 TTACACATAAGGTCGTGCCCACCATATGCACCGAAGTGCA
*
959908 TTACACATAAGGTCGTGCTCACCATATGCACCGAAGTGCA
1 TTACACATAAGGTCGTGCCCACCATATGCACCGAAGTGCA
* *
959948 --ACACATAAGGTCGTGCCCACCATTTTCACCGAAGTGCA
1 TTACACATAAGGTCGTGCCCACCATATGCACCGAAGTGCA
*
959986 TTACACATAAGGTCGTGCCCACCATATGCACCAAAGTGC
1 TTACACATAAGGTCGTGCCCACCATATGCACCGAAGTGC
960025 TTAATCGATA
Statistics
Matches: 135, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
38 67 0.50
40 68 0.50
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (40 bp):
TTACACATAAGGTCGTGCCCACCATATGCACCGAAGTGCA
Found at i:959959 original size:78 final size:78
Alignment explanation
Indices: 959830--960024 Score: 309
Period size: 78 Copynumber: 2.5 Consensus size: 78
959820 ATCGTAGTAC
* * *
959830 TTACACATAAGGTCGTACCCACCAAATGCACCGAAGTGCTACACATAAGGTCGTGCCCACCATTT
1 TTACACATAAGGTCGTGCCCACCATATGCACCGAAGTGCAACACATAAGGTCGTGCCCACCATTT
* *
959895 GAATCGATGTGCA
66 GAACCGAAGTGCA
*
959908 TTACACATAAGGTCGTGCTCACCATATGCACCGAAGTGCAACACATAAGGTCGTGCCCACCATTT
1 TTACACATAAGGTCGTGCCCACCATATGCACCGAAGTGCAACACATAAGGTCGTGCCCACCATTT
**
959973 TCACCGAAGTGCA
66 GAACCGAAGTGCA
*
959986 TTACACATAAGGTCGTGCCCACCATATGCACCAAAGTGC
1 TTACACATAAGGTCGTGCCCACCATATGCACCGAAGTGC
960025 TTAATCGATA
Statistics
Matches: 107, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 107 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (78 bp):
TTACACATAAGGTCGTGCCCACCATATGCACCGAAGTGCAACACATAAGGTCGTGCCCACCATTT
GAACCGAAGTGCA
Found at i:964037 original size:24 final size:24
Alignment explanation
Indices: 964005--964052 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
963995 CAATTTTTCT
964005 CCCGAATAGTTGGAATAGCTATAC
1 CCCGAATAGTTGGAATAGCTATAC
964029 CCCGAATAGTTGGAATAGCTATAC
1 CCCGAATAGTTGGAATAGCTATAC
964053 AAAGACATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (24 bp):
CCCGAATAGTTGGAATAGCTATAC
Found at i:965257 original size:16 final size:17
Alignment explanation
Indices: 965236--965269 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
965226 AAACCCTTGA
*
965236 ATACACAA-ATTTTTTC
1 ATACACAATATTTATTC
965252 ATACACAATATTTATTC
1 ATACACAATATTTATTC
965269 A
1 A
965270 CCTCTATAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (17 bp):
ATACACAATATTTATTC
Found at i:966235 original size:78 final size:78
Alignment explanation
Indices: 966077--966323 Score: 329
Period size: 78 Copynumber: 3.2 Consensus size: 78
966067 CGAGTCAAAT
* * * *
966077 ATATGCACCGTAGTGCTTACACATAAGGTCGTG-CCACCATATGCACCGAAATGC--TACACATA
1 ATATGCACCGAAGTG-ATACACATAAGGTCGTGCCCACCATTTGCACCGAAGTGCATTACACATA
966139 AGGTCGTGCCCACC
65 AGGTCGTGCCCACC
* * * * * *
966153 ATATGCACCAAAGTGATACACATAAGGTCGTGCCCACCATTTTCACTGATGTGCATTAGATATAA
1 ATATGCACCGAAGTGATACACATAAGGTCGTGCCCACCATTTGCACCGAAGTGCATTACACATAA
* *
966218 GGTCGAGCTCACC
66 GGTCGTGCCCACC
** *
966231 ATATGCACCGAAGTTTTACACATAAGGTCGTGCCCACTATTTGCACCGAAGTGCATTACACATAA
1 ATATGCACCGAAGTGATACACATAAGGTCGTGCCCACCATTTGCACCGAAGTGCATTACACATAA
966296 GGTCGTGCCCACC
66 GGTCGTGCCCACC
966309 ATATGCACCGAAGTG
1 ATATGCACCGAAGTG
966324 CTTAATCGAT
Statistics
Matches: 144, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
75 16 0.11
76 29 0.20
78 99 0.69
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (78 bp):
ATATGCACCGAAGTGATACACATAAGGTCGTGCCCACCATTTGCACCGAAGTGCATTACACATAA
GGTCGTGCCCACC
Found at i:966298 original size:40 final size:40
Alignment explanation
Indices: 966077--966324 Score: 314
Period size: 38 Copynumber: 6.4 Consensus size: 40
966067 CGAGTCAAAT
*
966077 ATATGCACCGTAGTGC-TTACACATAAGGTCGTG-CCACC
1 ATATGCACCGAAGTGCATTACACATAAGGTCGTGCCCACC
*
966115 ATATGCACCGAAATGC--TACACATAAGGTCGTGCCCACC
1 ATATGCACCGAAGTGCATTACACATAAGGTCGTGCCCACC
*
966153 ATATGCACCAAAGTG-A-TACACATAAGGTCGTGCCCACC
1 ATATGCACCGAAGTGCATTACACATAAGGTCGTGCCCACC
* * * * * * * *
966191 ATTTTCACTGATGTGCATTAGATATAAGGTCGAGCTCACC
1 ATATGCACCGAAGTGCATTACACATAAGGTCGTGCCCACC
* *
966231 ATATGCACCGAAGT--TTTACACATAAGGTCGTGCCCACT
1 ATATGCACCGAAGTGCATTACACATAAGGTCGTGCCCACC
*
966269 ATTTGCACCGAAGTGCATTACACATAAGGTCGTGCCCACC
1 ATATGCACCGAAGTGCATTACACATAAGGTCGTGCCCACC
966309 ATATGCACCGAAGTGC
1 ATATGCACCGAAGTGC
966325 TTAATCGATA
Statistics
Matches: 177, Mismatches: 27, Indels: 10
0.83 0.13 0.05
Matches are distributed among these distances:
37 16 0.09
38 95 0.54
39 1 0.01
40 65 0.37
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (40 bp):
ATATGCACCGAAGTGCATTACACATAAGGTCGTGCCCACC
Found at i:980741 original size:29 final size:29
Alignment explanation
Indices: 980708--980787 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
980698 CAAATTACAT
980708 AACTTTTCAAAATTACACTTTAGTCC-CTC
1 AACTTTTCAAAATTACACTTTAG-CCACTC
* ** *
980737 AACTTTTCCAAATTATTCTTTAGCCACTT
1 AACTTTTCAAAATTACACTTTAGCCACTC
* *
980766 AATTTTTAAAAATTTACACTTT
1 AACTTTTCAAAA-TTACACTTT
980788 GATCACTAAC
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
28 2 0.05
29 31 0.77
30 7 0.17
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.44
Consensus pattern (29 bp):
AACTTTTCAAAATTACACTTTAGCCACTC
Found at i:985142 original size:15 final size:16
Alignment explanation
Indices: 985115--985149 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
985105 GCTTTCAAAA
985115 TTGAAAAATGAAAATT
1 TTGAAAAATGAAAATT
*
985131 TTGAAAAA-GAAATTT
1 TTGAAAAATGAAAATT
985146 TTGA
1 TTGA
985150 TTTGAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.34
Consensus pattern (16 bp):
TTGAAAAATGAAAATT
Found at i:987712 original size:7 final size:7
Alignment explanation
Indices: 987700--987729 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
987690 ATATAAATCC
987700 ATTTGCA
1 ATTTGCA
987707 ATTTGCA
1 ATTTGCA
987714 ATTTGCA
1 ATTTGCA
987721 ATTTGCA
1 ATTTGCA
987728 AT
1 AT
987730 ATGCGTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (7 bp):
ATTTGCA
Found at i:988513 original size:30 final size:30
Alignment explanation
Indices: 988477--988541 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
988467 ATTTTATTAT
* * * * *
988477 CGGAGTCCTTGTTATTAGAGTTGTTGTTAA
1 CGGAGTCATTGTCATTAAAGATGTTGCTAA
*
988507 CGGAGTCATTGTCATTAAAGATGTTGCTAT
1 CGGAGTCATTGTCATTAAAGATGTTGCTAA
988537 CGGAG
1 CGGAG
988542 ATGCTGATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.23, C:0.12, G:0.28, T:0.37
Consensus pattern (30 bp):
CGGAGTCATTGTCATTAAAGATGTTGCTAA
Found at i:988988 original size:22 final size:24
Alignment explanation
Indices: 988939--988988 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
988929 CCTCATGTTA
*
988939 AAATGTTTATTTTATATTACTATG
1 AAATGTTTATTTTATATCACTATG
*
988963 AAATGTTTATTTTA-ATCGC-ATG
1 AAATGTTTATTTTATATCACTATG
988985 AAAT
1 AAAT
988989 TTCTAAGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 7 0.29
23 3 0.12
24 14 0.58
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.48
Consensus pattern (24 bp):
AAATGTTTATTTTATATCACTATG
Found at i:990358 original size:23 final size:23
Alignment explanation
Indices: 990331--990379 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
990321 CTGGGCTTGA
*
990331 ATTATAATTGGGCCTTGT-TGTGT
1 ATTATAAATGGGCCTT-TCTGTGT
990354 ATTATAAATGGGCCTTTCTGTGT
1 ATTATAAATGGGCCTTTCTGTGT
990377 ATT
1 ATT
990380 TTGGCCCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 1 0.04
23 23 0.96
ACGTcount: A:0.20, C:0.10, G:0.22, T:0.47
Consensus pattern (23 bp):
ATTATAAATGGGCCTTTCTGTGT
Found at i:990408 original size:16 final size:17
Alignment explanation
Indices: 990387--990420 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
990377 ATTTTGGCCC
*
990387 AAAAAATTAATAA-AAT
1 AAAAAATAAATAACAAT
990403 AAAAAATAAATAACAAT
1 AAAAAATAAATAACAAT
990420 A
1 A
990421 CTAATATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAAAATAAATAACAAT
Found at i:990715 original size:39 final size:41
Alignment explanation
Indices: 990651--990728 Score: 126
Period size: 39 Copynumber: 2.0 Consensus size: 41
990641 GCATGCTTAA
990651 TTTTTTTTTAATCATGTTGTCAAGTTCCTTTTGATTCTAAT
1 TTTTTTTTTAATCATGTTGTCAAGTTCCTTTTGATTCTAAT
990692 TTTTTTTTTAAATCATG-T-T-AAGTTCCTTTTGATTCTA
1 TTTTTTTTT-AATCATGTTGTCAAGTTCCTTTTGATTCTA
990729 GAAATGATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
39 18 0.50
40 1 0.03
41 10 0.28
42 7 0.19
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (41 bp):
TTTTTTTTTAATCATGTTGTCAAGTTCCTTTTGATTCTAAT
Found at i:992034 original size:15 final size:16
Alignment explanation
Indices: 992008--992046 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
991998 TTGATGTTGC
992008 TTTATGTTTGGTACTA
1 TTTATGTTTGGTACTA
992024 TTTAT-TTTGGTAC--
1 TTTATGTTTGGTACTA
992037 TTTATGTTTG
1 TTTATGTTTG
992047 AACTACTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 5 0.23
14 4 0.18
15 8 0.36
16 5 0.23
ACGTcount: A:0.15, C:0.05, G:0.18, T:0.62
Consensus pattern (16 bp):
TTTATGTTTGGTACTA
Found at i:992250 original size:16 final size:16
Alignment explanation
Indices: 992229--992259 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
992219 AATTTGCTAA
992229 CCAAAAATTATTTTAG
1 CCAAAAATTATTTTAG
992245 CCAAAAATTATTTTA
1 CCAAAAATTATTTTA
992260 CTAAGGGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (16 bp):
CCAAAAATTATTTTAG
Found at i:995015 original size:32 final size:32
Alignment explanation
Indices: 994955--995027 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 32
994945 AAGTTTAGTG
**
994955 TTGCATTCAGATAATGCACAATGGAGTCAATA
1 TTGCATTCAGATAATGCACAATAAAGTCAATA
* * * *
994987 TTTCATTTAGATAATGCACAGTAAAGTCAGTA
1 TTGCATTCAGATAATGCACAATAAAGTCAATA
995019 TTGCATTCA
1 TTGCATTCA
995028 AATAGTGTAC
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (32 bp):
TTGCATTCAGATAATGCACAATAAAGTCAATA
Found at i:997430 original size:161 final size:163
Alignment explanation
Indices: 997199--997556 Score: 456
Period size: 161 Copynumber: 2.2 Consensus size: 163
997189 TAGCTCCGAA
*
997199 CCTTCTTCAACCGATAATCTTCCTCTT-CCCTTCTGTTTGATCCTTACAAACACCAAACACTTTC
1 CCTTCTTCAACCGATAATCTTCCTCTTCCCCTTCTATTTGATCCTTACAAACACCAAACACTTTC
* * * * * * *
997263 CCCCAAT-CTTTTTTCAATATC-AAA-ACCCCAAATCGAAGCACTATTTATCTTCTTCT-TTGAC
66 CCCCAATACTTTTTTCAATATCTAAACACCCCAAACCAAAACACTATTCATCTTATTCTCATAAC
* * *
997324 CTTAAATCCCAAATCCCATTGTTCATCCCCTTTCC
131 CCTAAATCCCAAATCCCA-TGTTCAT-CACATTCC
* * * * * *
997359 CCTTCTTCAACAGAGACTCTTCCTCTTCCCCTTTTATTTGATCCTTACAAACACCAAGCACTTTT
1 CCTTCTTCAACCGATAATCTTCCTCTTCCCCTTCTATTTGATCCTTACAAACACCAAACACTTTC
* * *
997424 CCCCAATATTTTTTTCAATATCTAAACTCCCCAAACCAAAACATTATTCATCTTATTCTCATAAC
66 CCCCAATACTTTTTTCAATATCTAAACACCCCAAACCAAAACACTATTCATCTTATTCTCATAAC
997489 CCTAAATCCCAAATCCCATGTTCATCACATTCC
131 CCTAAATCCCAAATCCCATGTTCATCACATTCC
* * *
997522 CCTTTTTCAACCGATATTCTTCTTCTTCCCCTTCT
1 CCTTCTTCAACCGATAATCTTCCTCTTCCCCTTCT
997557 TTAATTTACC
Statistics
Matches: 167, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
160 24 0.14
161 40 0.24
162 13 0.08
163 38 0.23
164 32 0.19
165 20 0.12
ACGTcount: A:0.26, C:0.34, G:0.04, T:0.36
Consensus pattern (163 bp):
CCTTCTTCAACCGATAATCTTCCTCTTCCCCTTCTATTTGATCCTTACAAACACCAAACACTTTC
CCCCAATACTTTTTTCAATATCTAAACACCCCAAACCAAAACACTATTCATCTTATTCTCATAAC
CCTAAATCCCAAATCCCATGTTCATCACATTCC
Found at i:998314 original size:7 final size:7
Alignment explanation
Indices: 998302--998392 Score: 58
Period size: 7 Copynumber: 12.3 Consensus size: 7
998292 TTTTTTCTAA
998302 TTGTTTT
1 TTGTTTT
998309 TTGTTTTT
1 TTG-TTTT
998317 ATATGTTTT
1 -T-TGTTTT
*
998326 TTATTTT
1 TTGTTTT
*
998333 TTATTTT
1 TTGTTTT
*
998340 TTATTTT
1 TTGTTTT
*
998347 CTGTTTT
1 TTGTTTT
*
998354 TTATTTT
1 TTGTTTT
998361 ATATGTTTT
1 -T-TGTTTT
*
998370 TTATTTT
1 TTGTTTT
*
998377 CTGTTTT
1 TTGTTTT
998384 CTT-TTTT
1 -TTGTTTT
998391 TT
1 TT
998393 ATTTGTTTTC
Statistics
Matches: 68, Mismatches: 10, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
6 2 0.03
7 46 0.68
8 8 0.12
9 10 0.15
10 2 0.03
ACGTcount: A:0.10, C:0.03, G:0.07, T:0.80
Consensus pattern (7 bp):
TTGTTTT
Found at i:998325 original size:17 final size:16
Alignment explanation
Indices: 998303--998376 Score: 84
Period size: 16 Copynumber: 4.8 Consensus size: 16
998293 TTTTTCTAAT
*
998303 TGTTTTTTGTTTTTATA
1 TGTTTTTTATTTTT-TA
998320 TGTTTTTTATTTTTTA
1 TGTTTTTTATTTTTTA
*
998336 --TTTTTTA--TTTTC
1 TGTTTTTTATTTTTTA
*
998348 TGTTTTTTATTTTATA
1 TGTTTTTTATTTTTTA
998364 TGTTTTTTATTTT
1 TGTTTTTTATTTT
998377 CTGTTTTCTT
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
12 4 0.08
14 14 0.29
16 18 0.37
17 13 0.27
ACGTcount: A:0.12, C:0.01, G:0.07, T:0.80
Consensus pattern (16 bp):
TGTTTTTTATTTTTTA
Found at i:998341 original size:14 final size:14
Alignment explanation
Indices: 998320--998392 Score: 85
Period size: 14 Copynumber: 5.1 Consensus size: 14
998310 TGTTTTTATA
998320 TGTTTTTTATTTTT
1 TGTTTTTTATTTTT
* *
998334 TATTTTTTATTTTC
1 TGTTTTTTATTTTT
998348 TGTTTTTTATTTTAT
1 TGTTTTTTATTTT-T
*
998363 ATGTTTTTTATTTTC
1 -TGTTTTTTATTTTT
998378 TGTTTTCTT-TTTTT
1 TGTTTT-TTATTTTT
998392 T
1 T
998393 ATTTGTTTTC
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
14 35 0.70
15 2 0.04
16 13 0.26
ACGTcount: A:0.10, C:0.04, G:0.05, T:0.81
Consensus pattern (14 bp):
TGTTTTTTATTTTT
Found at i:998353 original size:21 final size:21
Alignment explanation
Indices: 998329--998396 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 21
998319 ATGTTTTTTA
998329 TTTTTTATTTTTTATTTTCTG
1 TTTTTTATTTTTTATTTTCTG
*
998350 TTTTTTA--TTTTA---TATG
1 TTTTTTATTTTTTATTTTCTG
* * *
998366 TTTTTTATTTTCTGTTTTCTT
1 TTTTTTATTTTTTATTTTCTG
998387 TTTTTTATTT
1 TTTTTTATTT
998397 GTTTTCTGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
16 10 0.27
18 3 0.08
19 5 0.14
21 19 0.51
ACGTcount: A:0.10, C:0.04, G:0.04, T:0.81
Consensus pattern (21 bp):
TTTTTTATTTTTTATTTTCTG
Found at i:998371 original size:16 final size:15
Alignment explanation
Indices: 998303--998394 Score: 82
Period size: 14 Copynumber: 6.1 Consensus size: 15
998293 TTTTTCTAAT
*
998303 TGTTTTTTGTTTTTATA
1 TGTTTTTT-ATTTT-TA
998320 TGTTTTTTATTTTT-
1 TGTTTTTTATTTTTA
* *
998334 TATTTTTTA-TTTTC
1 TGTTTTTTATTTTTA
998348 TGTTTTTTATTTTATA
1 TGTTTTTTATTTT-TA
*
998364 TGTTTTTTA-TTTTC
1 TGTTTTTTATTTTTA
*
998378 TGTTTTCTTTTTTTTA
1 TGTTTT-TTATTTTTA
998394 T
1 T
998395 TTGTTTTCTG
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
13 4 0.06
14 23 0.37
15 9 0.14
16 19 0.30
17 8 0.13
ACGTcount: A:0.11, C:0.03, G:0.07, T:0.79
Consensus pattern (15 bp):
TGTTTTTTATTTTTA
Found at i:998441 original size:27 final size:28
Alignment explanation
Indices: 998391--998443 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
998381 TTTCTTTTTT
* *
998391 TTATTTGTTTTCTGTATGATTGTATATA
1 TTATATGTTTTCTATATGATTGTATATA
998419 TTATATGTTTT-TATATGATTGTATA
1 TTATATGTTTTCTATATGATTGTATA
998444 CACTATGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.25, C:0.02, G:0.13, T:0.60
Consensus pattern (28 bp):
TTATATGTTTTCTATATGATTGTATATA
Found at i:998549 original size:25 final size:25
Alignment explanation
Indices: 998488--998560 Score: 103
Period size: 25 Copynumber: 3.0 Consensus size: 25
998478 TATTTTTTAT
*
998488 TTGTTTTCTATTATTTATTTATTTC
1 TTGTTTTCTGTTATTTATTTATTTC
*
998513 CTGTTTTCTGTTATTTATTTATTTC
1 TTGTTTTCTGTTATTTATTTATTTC
* *
998538 TTGTTTTTTGTT-TATATTTATTT
1 TTGTTTTCTGTTATTTATTTATTT
998561 TTCTAATAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
24 10 0.23
25 33 0.77
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.73
Consensus pattern (25 bp):
TTGTTTTCTGTTATTTATTTATTTC
Found at i:1005648 original size:61 final size:58
Alignment explanation
Indices: 1005582--1005693 Score: 179
Period size: 61 Copynumber: 1.9 Consensus size: 58
1005572 TATTGTAGGG
* *
1005582 TGCTACTTCTTTTACATTTACTGTTTTTTTTTTCATTAATTTTCATGAATTTCAGCCAGCA
1 TGCTACTACTTTTACATTTACTG--TTTTTTTT-ATTAATTTTCATAAATTTCAGCCAGCA
1005643 TGCTACTACTTTTACATTTACTGTTTTTTTTATTAATTTTCATAAATTTCA
1 TGCTACTACTTTTACATTTACTGTTTTTTTTATTAATTTTCATAAATTTCA
1005694 ACAAGCATAT
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
58 19 0.39
59 8 0.16
61 22 0.45
ACGTcount: A:0.23, C:0.16, G:0.06, T:0.54
Consensus pattern (58 bp):
TGCTACTACTTTTACATTTACTGTTTTTTTTATTAATTTTCATAAATTTCAGCCAGCA
Found at i:1005701 original size:58 final size:60
Alignment explanation
Indices: 1005582--1005701 Score: 181
Period size: 58 Copynumber: 2.0 Consensus size: 60
1005572 TATTGTAGGG
* * * *
1005582 TGCTACTTCTTTTACATTTACTGTTTTTTTTTTCATTAATTTTCATGAATTTCAGCCAGCA
1 TGCTACTACTTTTACATTTACTG-TTTTTTTTTCATTAATTTTCATAAATTTCAACAAGCA
1005643 TGCTACTACTTTTACATTTACTG-TTTTTTTT-ATTAATTTTCATAAATTTCAACAAGCA
1 TGCTACTACTTTTACATTTACTGTTTTTTTTTCATTAATTTTCATAAATTTCAACAAGCA
1005701 T
1 T
1005702 ATAAATGAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
58 25 0.45
59 8 0.15
61 22 0.40
ACGTcount: A:0.25, C:0.17, G:0.07, T:0.52
Consensus pattern (60 bp):
TGCTACTACTTTTACATTTACTGTTTTTTTTTCATTAATTTTCATAAATTTCAACAAGCA
Found at i:1006716 original size:16 final size:16
Alignment explanation
Indices: 1006695--1006727 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1006685 TATAACTTAT
1006695 AAGTCAAGTAAATATC
1 AAGTCAAGTAAATATC
*
1006711 AAGTCAGGTAAATATC
1 AAGTCAAGTAAATATC
1006727 A
1 A
1006728 GTTAAGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (16 bp):
AAGTCAAGTAAATATC
Found at i:1007348 original size:21 final size:22
Alignment explanation
Indices: 1007308--1007348 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1007298 TGATCTATAA
*
1007308 TATCAAATTCATCATTAAATTT
1 TATCAAATTCATCATAAAATTT
1007330 TATCAAATT-ATCATAAAAT
1 TATCAAATTCATCATAAAAT
1007349 AGTTAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.41
Consensus pattern (22 bp):
TATCAAATTCATCATAAAATTT
Found at i:1007391 original size:32 final size:32
Alignment explanation
Indices: 1007318--1007399 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 32
1007308 TATCAAATTC
* *
1007318 ATCATTAAATTTTATCAAATTATCATAAAATA
1 ATCATTAAATTTTATCAAACTATCATAAAACA
* * * * *
1007350 GTTAATAAATTTTATTAAACTATTATAAAACA
1 ATCATTAAATTTTATCAAACTATCATAAAACA
1007382 ATCATTAAA-TTTATCAAA
1 ATCATTAAATTTTATCAAA
1007400 ATTTATTATT
Statistics
Matches: 39, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
31 8 0.21
32 31 0.79
ACGTcount: A:0.50, C:0.09, G:0.01, T:0.40
Consensus pattern (32 bp):
ATCATTAAATTTTATCAAACTATCATAAAACA
Found at i:1010008 original size:15 final size:15
Alignment explanation
Indices: 1009990--1010053 Score: 83
Period size: 15 Copynumber: 4.3 Consensus size: 15
1009980 TCAGAAAATA
* *
1009990 AATTACTGGAATTTA
1 AATTACTGAAATTTG
1010005 AATTACTGAAATTTG
1 AATTACTGAAATTTG
**
1010020 AATTACTGAAAAATG
1 AATTACTGAAATTTG
*
1010035 AATTACTGGAATTTG
1 AATTACTGAAATTTG
1010050 AATT
1 AATT
1010054 CTGTAAAATG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 42 1.00
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.38
Consensus pattern (15 bp):
AATTACTGAAATTTG
Found at i:1010026 original size:30 final size:30
Alignment explanation
Indices: 1010003--1010069 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
1009993 TACTGGAATT
1010003 TAAATTACTGAAATTTGAATTACTGAAAAA
1 TAAATTACTGAAATTTGAATTACTGAAAAA
* * *
1010033 TGAATTACTGGAATTTGAATT-CTGTAAAA
1 TAAATTACTGAAATTTGAATTACTGAAAAA
*
1010062 TGAATTAC
1 TAAATTAC
1010070 ATTTCTGGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 15 0.44
30 19 0.56
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.36
Consensus pattern (30 bp):
TAAATTACTGAAATTTGAATTACTGAAAAA
Found at i:1010046 original size:45 final size:44
Alignment explanation
Indices: 1009984--1010069 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 44
1009974 GATTTTTCAG
*
1009984 AAAATAAATTACTGGAATTTAAATTACTG-AAATTTGAATTACTGA
1 AAAATAAATTACTGGAATTTAAATT-CTGTAAA-ATGAATTACTGA
* *
1010029 AAAATGAATTACTGGAATTTGAATTCTGTAAAATGAATTAC
1 AAAATAAATTACTGGAATTTAAATTCTGTAAAATGAATTAC
1010070 ATTTCTGGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
44 11 0.30
45 26 0.70
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (44 bp):
AAAATAAATTACTGGAATTTAAATTCTGTAAAATGAATTACTGA
Found at i:1010075 original size:20 final size:20
Alignment explanation
Indices: 1010052--1010121 Score: 113
Period size: 20 Copynumber: 3.5 Consensus size: 20
1010042 GGAATTTGAA
*
1010052 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
1010072 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
**
1010092 TTCTAAAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
1010112 TTCTGGAAAA
1 TTCTGGAAAA
1010122 CGTTTTATGA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:1010333 original size:28 final size:27
Alignment explanation
Indices: 1010279--1010342 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
1010269 TTACTAAAAA
*
1010279 ATTATTGAAATATATAAATAATATTATT
1 ATTATT-AAATATATAAAAAATATTATT
1010307 CATTATTAAATATATAAAAAA-ATTTATT
1 -ATTATTAAATATATAAAAAATA-TTATT
1010335 ATATATTA
1 AT-TATTA
1010343 TTAAAATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
27 3 0.09
28 23 0.72
29 6 0.19
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (27 bp):
ATTATTAAATATATAAAAAATATTATT
Found at i:1010368 original size:31 final size:32
Alignment explanation
Indices: 1010294--1010375 Score: 82
Period size: 31 Copynumber: 2.6 Consensus size: 32
1010284 TGAAATATAT
*
1010294 AAATAATATTAT-TCATTATTAAATATATAAAA
1 AAAT-ATATTATATTATTATTAAATATATAAAA
*
1010326 AAATTTATTATA-TATTATTAAA-ATA-AAAA
1 AAATATATTATATTATTATTAAATATATAAAA
*
1010355 TATAATATCTTATATTATTAT
1 -A-AATATATTATATTATTAT
1010376 AATATAATTG
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
29 4 0.10
30 4 0.10
31 24 0.57
32 10 0.24
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (32 bp):
AAATATATTATATTATTATTAAATATATAAAA
Found at i:1010420 original size:22 final size:23
Alignment explanation
Indices: 1010395--1010438 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
1010385 GATTATTTTA
1010395 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
1010417 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
1010439 AATATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:1010443 original size:22 final size:22
Alignment explanation
Indices: 1010399--1010455 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
1010389 ATTTTATATA
* *
1010399 ATATTAAAAATA-TAATATTAT
1 ATATTATAAATATTAATATAAT
1010420 ATTATTATAAATATTAATA-AAT
1 A-TATTATAAATATTAATATAAT
*
1010442 ATATTTTAAATATT
1 ATATTATAAATATT
1010456 TTAATAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 13 0.42
22 13 0.42
23 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATTATAAATATTAATATAAT
Found at i:1010454 original size:52 final size:51
Alignment explanation
Indices: 1010335--1010455 Score: 133
Period size: 54 Copynumber: 2.3 Consensus size: 51
1010325 AAAATTTATT
**
1010335 ATATATTATTAAA-A-TAAAAATATAATATCTTATATTATTATAATATAATTG
1 ATATATT-TTAAATATTAAAAATATAATA-CTTATATTATTATAATATAATAA
1010386 AT-TATTTTATATAATATTAAAAATATAATA-TTATATTATTATAAATATTAATAA
1 ATATA-TTT-TA-AATATTAAAAATATAATACTTATATTATTAT-AATA-TAATAA
1010440 ATATATTTTAAATATT
1 ATATATTTTAAATATT
1010456 TTAATAATTA
Statistics
Matches: 60, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 20 0.33
53 7 0.12
54 22 0.37
55 2 0.03
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (51 bp):
ATATATTTTAAATATTAAAAATATAATACTTATATTATTATAATATAATAA
Found at i:1010703 original size:42 final size:42
Alignment explanation
Indices: 1010644--1010763 Score: 213
Period size: 42 Copynumber: 2.9 Consensus size: 42
1010634 ATGAATTACA
* *
1010644 TTCCGGAAAACGAATTACGTGAAAAAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
1010686 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAATATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1010728 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
1010764 TTCGGGGAAA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:1011548 original size:2 final size:2
Alignment explanation
Indices: 1011541--1011565 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1011531 ACCTGATTTG
1011541 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1011566 AAAATAGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1012728 original size:3 final size:3
Alignment explanation
Indices: 1012720--1012752 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
1012710 TCATGTTTAG
1012720 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1012753 TGCACCGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1014819 original size:2 final size:2
Alignment explanation
Indices: 1014812--1014868 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
1014802 TTAAAAATAA
1014812 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
1014854 AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT
1014869 TAATAAATTT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1014945 original size:12 final size:12
Alignment explanation
Indices: 1014928--1014958 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1014918 ATATATATAT
1014928 ATACCCGACCCA
1 ATACCCGACCCA
*
1014940 ATACCCGGCCCA
1 ATACCCGACCCA
1014952 ATACCCG
1 ATACCCG
1014959 TTTAAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.48, G:0.13, T:0.10
Consensus pattern (12 bp):
ATACCCGACCCA
Found at i:1018597 original size:23 final size:23
Alignment explanation
Indices: 1018571--1018618 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1018561 ATAAAGTACA
*
1018571 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
1018594 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
1018617 AT
1 AT
1018619 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1019072 original size:23 final size:23
Alignment explanation
Indices: 1019037--1019109 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
1019027 ATACTTTACA
*
1019037 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
1019060 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
1019083 ATATAAGCGCTACCTAATACATC
1 ATATAAGCGCTACCTATTACATT
1019106 ATAT
1 ATAT
1019110 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.33
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:1019489 original size:431 final size:431
Alignment explanation
Indices: 1018685--1020599 Score: 3529
Period size: 429 Copynumber: 4.5 Consensus size: 431
1018675 TATTACATTA
*
1018685 TATTATATTGAAAGTGTCCATACTTTTTATAAAAACGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1018750 TTATGTTTCAATTTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTT
66 TTATGTTTCAA-TTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTT
* *
1018815 CATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATT
130 CATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATT
1018880 TAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATA
195 TAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATA
* * *
1018945 TCTTAAAACTCACTTAAAAGATAACCTTAAATTAATGTTTTCCACATTGAAAAAAGTATGGACAA
260 TCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACAC
* * *
1019010 TTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCT
325 TTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCT
*
1019075 ATTACATTATATAAGCGCTACCTAATACATCATATTTTTACC
390 ATTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
1019117 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
1019182 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCAACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
1019247 ATTTGCACAAAAAATTATTTGATTGTATTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
131 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
1019312 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
196 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
1019377 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
261 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
1019442 TTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
326 TTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
1019507 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
* * *
1019548 TATTATATTGAAAGTGTACATATTTTTTAT-AAAATGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
1019612 TTATATTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
1019676 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
131 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
*
1019741 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACTCCTATAATTACTAAATTAATAT
196 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
1019806 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
261 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
1019871 TTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
326 TTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
*
1019936 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACT
391 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
1019977 TATTATATTGAAAGTGT--ATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1020040 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
1020105 ATTTGCACAAAAAAATATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
131 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
1020170 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
196 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
*
1020235 CTTAAAACTCACTCAAAGGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
261 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
*
1020300 TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
326 TTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
1020365 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
* * *
1020406 TATTATATTGAAAGTGTCGATACTTTTTATAAAAATGATTGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
1020471 TTATGTTTCAA--TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
* *
1020534 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA-TTTAAATTT
131 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
1020598 AA
196 AA
1020600 CAACATTAAC
Statistics
Matches: 1445, Mismatches: 34, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
427 10 0.01
428 53 0.04
429 837 0.58
430 43 0.03
431 427 0.30
432 75 0.05
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (431 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
TTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
Found at i:1019504 original size:23 final size:23
Alignment explanation
Indices: 1019478--1019540 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1019468 ATATAACCAC
1019478 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1019501 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1019524 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1019541 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1019933 original size:23 final size:23
Alignment explanation
Indices: 1019907--1019969 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1019897 ATATAACCAC
1019907 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1019930 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1019953 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1019970 TTTTACTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1020362 original size:23 final size:23
Alignment explanation
Indices: 1020336--1020398 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1020326 ATATAACCAC
1020336 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1020359 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1020382 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1020399 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1020869 original size:39 final size:39
Alignment explanation
Indices: 1020815--1020901 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
1020805 TCAAGTTGTA
*
1020815 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
1020854 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1020893 GATTTTGAT
1 GATTTTGAT
1020902 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Done.