Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 3 of 150
Found at i:693913 original size:153 final size:151
Alignment explanation
Indices: 693632--693931 Score: 442
Period size: 153 Copynumber: 2.0 Consensus size: 151
693622 AGCATGCAAA
* * *
693632 AATATCATGCTTTTGTCTCAATGTATGAAAAAGACATAAACCTTGTATGATGATTTCAGTGCTAA
1 AATATCATGCCTTTGTCTCAATGTATAAAAAAGACATAAACCTTATATGATGATTTCAGTGCTAA
*
693697 TGCATTTGCTTTGATTAAGTTCATTTAGCACGTGCAATATCACGCCTTTGTCTCGATGCATGAAA
66 TGCATTTGCTTTGATTAAGTTCATTTAGCACGTGCAATATCACACCTTTGTCTCGATGCATGAAA
693762 AAGACATAAACCTTATAGTGC
131 AAGACATAAACCTTATAGTGC
* * *
693783 AATATCATGCCTTTGTTTCGATGTATAAAAAAGATATAATACCTTATATGATGATTTCAGTGCTA
1 AATATCATGCCTTTGTCTCAATGTATAAAAAAGACATAA-ACCTTATATGATGATTTCAGTGCTA
* * * *
693848 ATGCA-TTGGTTGTGATTTAAGTTCATTTAGCGCGTGCGATATCACACCTTTGT-TCCGATGTAT
65 ATGCATTTGCTT-TGA-TTAAGTTCATTTAGCACGTGCAATATCACACCTTTGTCT-CGATGCAT
*
693911 GAAATAGACATAAACCTTATA
127 GAAAAAGACATAAACCTTATA
693932 TGATGATTTC
Statistics
Matches: 133, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
151 39 0.29
152 33 0.25
153 61 0.46
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.36
Consensus pattern (151 bp):
AATATCATGCCTTTGTCTCAATGTATAAAAAAGACATAAACCTTATATGATGATTTCAGTGCTAA
TGCATTTGCTTTGATTAAGTTCATTTAGCACGTGCAATATCACACCTTTGTCTCGATGCATGAAA
AAGACATAAACCTTATAGTGC
Found at i:693965 original size:101 final size:103
Alignment explanation
Indices: 693792--693977 Score: 295
Period size: 101 Copynumber: 1.8 Consensus size: 103
693782 CAATATCATG
* * *
693792 CCTTTGTTTCGATGTATAAAAAAGATATAATACCTTATATGATGATTTCAGTGCTAATGCATTGG
1 CCTTTGTTCCGATGTATAAAAAAGACATAATACCTTATATGATGATTTCAATGCTAATGCATTGG
693857 TTGTGATTT-AAGTTCATTTAGCGCGTGCGATATCACA
66 TTGTGATTTAAAGTTCATTTAGCGCGTGCGATATCACA
* * *
693894 CCTTTGTTCCGATGTATGAAATAGACATAA-ACCTTATATGATGATTTCAATGCTAATGCATTTG
1 CCTTTGTTCCGATGTATAAAAAAGACATAATACCTTATATGATGATTTCAATGCTAATGCATTGG
*
693958 TTTTGATTTAAAGTTCATTT
66 TTGTGATTTAAAGTTCATTT
693978 TGTTGACATA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
101 40 0.53
102 36 0.47
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (103 bp):
CCTTTGTTCCGATGTATAAAAAAGACATAATACCTTATATGATGATTTCAATGCTAATGCATTGG
TTGTGATTTAAAGTTCATTTAGCGCGTGCGATATCACA
Found at i:699249 original size:30 final size:30
Alignment explanation
Indices: 699201--699257 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
699191 AACTGAAAAA
*
699201 TTAAATGTTGACATATTAAATGTTAAAATG
1 TTAAATATTGACATATTAAATGTTAAAATG
*
699231 TTAAATATTGAACA-ATTAAGTGTTAAA
1 TTAAATATTG-ACATATTAAATGTTAAA
699258 TTTAAACTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.39
Consensus pattern (30 bp):
TTAAATATTGACATATTAAATGTTAAAATG
Found at i:706081 original size:4 final size:4
Alignment explanation
Indices: 706072--706106 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
706062 AGCCAAGGTT
706072 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
706107 GGTTGCCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:709033 original size:8 final size:9
Alignment explanation
Indices: 709012--709036 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
709002 ATTGACTTGA
709012 AAAAATATT
1 AAAAATATT
709021 AAAAATATT
1 AAAAATATT
709030 AAAAATA
1 AAAAATA
709037 AGTAGTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAAATATT
Found at i:709981 original size:10 final size:9
Alignment explanation
Indices: 709914--709983 Score: 50
Period size: 9 Copynumber: 7.2 Consensus size: 9
709904 TTTAGAATTT
*
709914 TTTTTATAA
1 TTTTTAAAA
*
709923 TTTTTATAA
1 TTTTTAAAA
*
709932 TTTTAAAAA
1 TTTTTAAAA
*
709941 TAAATTTTAGAA
1 T---TTTTAAAA
709953 TTTTTATAAA
1 TTTTTA-AAA
*
709963 TATTTAAAA
1 TTTTTAAAA
709972 TTTTTGAAAA
1 TTTTT-AAAA
709982 TT
1 TT
709984 ATTTTAATTT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
9 29 0.59
10 13 0.27
12 7 0.14
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:709982 original size:19 final size:19
Alignment explanation
Indices: 709940--709976 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
709930 AATTTTAAAA
*
709940 ATAAAT-TTTAGAATTTTT
1 ATAAATATTTAAAATTTTT
709958 ATAAATATTTAAAATTTTT
1 ATAAATATTTAAAATTTTT
709977 GAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
ATAAATATTTAAAATTTTT
Found at i:715782 original size:13 final size:13
Alignment explanation
Indices: 715764--715789 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
715754 TGCACTTTTA
715764 AACATAAAACATT
1 AACATAAAACATT
715777 AACATAAAACATT
1 AACATAAAACATT
715790 TTTTGTATTG
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:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (13 bp):
AACATAAAACATT
Found at i:717875 original size:27 final size:27
Alignment explanation
Indices: 717831--717941 Score: 132
Period size: 27 Copynumber: 4.1 Consensus size: 27
717821 TATTTCGGAA
*
717831 ACCAACAGAGGTACGTCGATACAAGGG
1 ACCAACAAAGGTACGTCGATACAAGGG
* * * *
717858 ATCAACAAAGGTATGTCGATCCAAGAG
1 ACCAACAAAGGTACGTCGATACAAGGG
* * *
717885 ACCAACAGAGGTACGTCGATCCGAGGG
1 ACCAACAAAGGTACGTCGATACAAGGG
* *
717912 ACCAACAAAGGTATGTTGATACAAGGG
1 ACCAACAAAGGTACGTCGATACAAGGG
717939 ACC
1 ACC
717942 GTGATTTTCA
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.37, C:0.22, G:0.27, T:0.14
Consensus pattern (27 bp):
ACCAACAAAGGTACGTCGATACAAGGG
Found at i:717893 original size:54 final size:54
Alignment explanation
Indices: 717831--717941 Score: 168
Period size: 54 Copynumber: 2.1 Consensus size: 54
717821 TATTTCGGAA
* *
717831 ACCAACAGAGGTACGTCGATACAAGGGATCAACAAAGGTATGTCGATCCAAGAG
1 ACCAACAGAGGTACGTCGATACAAGGGACCAACAAAGGTATGTCGATACAAGAG
* * * *
717885 ACCAACAGAGGTACGTCGATCCGAGGGACCAACAAAGGTATGTTGATACAAGGG
1 ACCAACAGAGGTACGTCGATACAAGGGACCAACAAAGGTATGTCGATACAAGAG
717939 ACC
1 ACC
717942 GTGATTTTCA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.37, C:0.22, G:0.27, T:0.14
Consensus pattern (54 bp):
ACCAACAGAGGTACGTCGATACAAGGGACCAACAAAGGTATGTCGATACAAGAG
Found at i:720415 original size:19 final size:19
Alignment explanation
Indices: 720357--720415 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 19
720347 ACATTGACAG
720357 GAGTTAGCAGTATAGTAAT
1 GAGTTAGCAGTATAGTAAT
* *
720376 GAAGAGATAG-AGAAT-GT-AT
1 ---GAGTTAGCAGTATAGTAAT
720395 GAGTTAGCAGTATAGTAAT
1 GAGTTAGCAGTATAGTAAT
720414 GA
1 GA
720416 AGAGATAGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 9
0.70 0.09 0.21
Matches are distributed among these distances:
16 6 0.20
17 4 0.13
18 2 0.07
19 6 0.20
20 2 0.07
21 4 0.13
22 6 0.20
ACGTcount: A:0.41, C:0.03, G:0.29, T:0.27
Consensus pattern (19 bp):
GAGTTAGCAGTATAGTAAT
Found at i:727638 original size:4 final size:4
Alignment explanation
Indices: 727621--727654 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
727611 AGGTAACTTT
* *
727621 CATA CCTA CCTA CATA CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CATA CATA CA
727655 GAAGCCGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:732770 original size:22 final size:23
Alignment explanation
Indices: 732731--732780 Score: 84
Period size: 22 Copynumber: 2.2 Consensus size: 23
732721 AAAACGATAT
*
732731 ATATATAAATTTATTAAATTAAA
1 ATATATAAATATATTAAATTAAA
732754 ATATATAAA-ATATTAAATTAAA
1 ATATATAAATATATTAAATTAAA
732776 ATATA
1 ATATA
732781 AATATAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 17 0.65
23 9 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
ATATATAAATATATTAAATTAAA
Found at i:733344 original size:26 final size:26
Alignment explanation
Indices: 733307--733367 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 26
733297 TATATTTATA
733307 TTATAT-TATTTTAATATTTAAT-AATT
1 TTATATATATTTT--TATTTAATAAATT
733333 TTATATAT-TTTTTATTTAATGAAATT
1 TTATATATATTTTTATTTAAT-AAATT
*
733359 TTTTATATA
1 TTATATATA
733368 ATCATCTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
24 8 0.27
26 21 0.70
27 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (26 bp):
TTATATATATTTTTATTTAATAAATT
Found at i:740484 original size:3 final size:3
Alignment explanation
Indices: 740476--740513 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
740466 CATGTAAATA
*
740476 TGT TGT TGT TGT TGT TGT TCT TGT TGT TGT TGT TGT TG
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TG
740514 CCATAGTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.03, G:0.32, T:0.66
Consensus pattern (3 bp):
TGT
Found at i:741634 original size:24 final size:25
Alignment explanation
Indices: 741597--741643 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
741587 TACTTCAATT
741597 CTAAAATCTGAAAA-AATAAAAGCG
1 CTAAAATCTGAAAATAATAAAAGCG
*
741621 CTAAAATTCT-AAAATGATAAAAG
1 CTAAAA-TCTGAAAATAATAAAAG
741644 TATAGGGATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.57, C:0.11, G:0.11, T:0.21
Consensus pattern (25 bp):
CTAAAATCTGAAAATAATAAAAGCG
Found at i:743280 original size:20 final size:22
Alignment explanation
Indices: 743255--743298 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
743245 TGTCCCTTTT
743255 TTATTTT-TTC-TTAATTATTA
1 TTATTTTCTTCATTAATTATTA
743275 TTATTTTCTTCAATTAATTATTA
1 TTATTTTCTTC-ATTAATTATTA
743298 T
1 T
743299 AATCATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.33
21 3 0.14
23 11 0.52
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (22 bp):
TTATTTTCTTCATTAATTATTA
Found at i:743294 original size:17 final size:17
Alignment explanation
Indices: 743256--743296 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
743246 GTCCCTTTTT
743256 TATT-TTTTCTTAATTA
1 TATTATTTTCTTAATTA
743272 TTATTATTTTCTTCAATTA
1 -TATTATTTTCTT-AATTA
743291 -ATTATT
1 TATTATT
743297 ATAATCATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 10 0.45
18 7 0.32
19 5 0.23
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTATTTTCTTAATTA
Found at i:750331 original size:4 final size:4
Alignment explanation
Indices: 750322--750350 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
750312 ATATGTATAA
750322 TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT T
750351 TGTCAAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:752558 original size:16 final size:16
Alignment explanation
Indices: 752534--752567 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
752524 CCCAAAAACG
* *
752534 ATCTGAACCCGAATTA
1 ATCTAAACCCAAATTA
752550 ATCTAAACCCAAATTA
1 ATCTAAACCCAAATTA
752566 AT
1 AT
752568 TCGATCTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.24, G:0.06, T:0.26
Consensus pattern (16 bp):
ATCTAAACCCAAATTA
Found at i:754839 original size:23 final size:23
Alignment explanation
Indices: 754812--754866 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
754802 TGTTGGTAGG
*
754812 TTTATATTTATATTA-TTTATTAT
1 TTTATATTTATATAATTTTA-TAT
754835 TTTATATTTA-ATAATTTTATAT
1 TTTATATTTATATAATTTTATAT
754857 TTT-TATTTAT
1 TTTATATTTAT
754867 TAAAATATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 6 0.21
22 9 0.31
23 14 0.48
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTATATTTATATAATTTTATAT
Found at i:754877 original size:23 final size:23
Alignment explanation
Indices: 754812--754879 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
754802 TGTTGGTAGG
*
754812 TTTATATTT-ATATTATT-TATTAT
1 TTTATATTTAATAATATTATA-T-T
*
754835 TTTATATTTAATAATTTTATATT
1 TTTATATTTAATAATATTATATT
*
754858 TTTATTTATTAA-AATATTATAT
1 TTTATAT-TTAATAATATTATAT
754880 GTAGATAACA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
23 25 0.66
24 11 0.29
25 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTATATTTAATAATATTATATT
Found at i:759964 original size:4 final size:4
Alignment explanation
Indices: 759955--760012 Score: 98
Period size: 4 Copynumber: 14.5 Consensus size: 4
759945 AATCTTTAGG
*
759955 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT GCAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
760003 ACAT TCAT AC
1 ACAT ACAT AC
760013 GATAAAAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 50 1.00
ACGTcount: A:0.47, C:0.26, G:0.02, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:762815 original size:28 final size:28
Alignment explanation
Indices: 762775--762834 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
762765 AAAAAGCCCT
* *
762775 TTTTTTCAATATTTACCGAAATGGGCCG
1 TTTTTTCAATATTTACCGAAATGAGCCA
*
762803 TTTTTT-AATTATTTACCGGAATGAGCCA
1 TTTTTTCAA-TATTTACCGAAATGAGCCA
762831 TTTT
1 TTTT
762835 CTGCGAAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (28 bp):
TTTTTTCAATATTTACCGAAATGAGCCA
Found at i:763822 original size:28 final size:28
Alignment explanation
Indices: 763764--763824 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
763754 GATTTTGCGG
*
763764 AAAATGGCCCATTCCGGTAAATAATTAA
1 AAAATGGCCCATTCCGATAAATAATTAA
*
763792 AAAATCGGCCCATTTCGATAAAT-ATTGAA
1 AAAAT-GGCCCATTCCGATAAATAATT-AA
763821 AAAA
1 AAAA
763825 AAGGGCTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 8 0.28
29 21 0.72
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (28 bp):
AAAATGGCCCATTCCGATAAATAATTAA
Found at i:765621 original size:32 final size:32
Alignment explanation
Indices: 765561--765621 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
765551 GAATTTGAAC
*
765561 CATTTCAAGTTCAAATTATTATACATTCAAGT
1 CATTTCAAGTTCAAATTATTATAAATTCAAGT
* * *
765593 CATTTCAAGTTTAAATTGTTTTAAATTCA
1 CATTTCAAGTTCAAATTATTATAAATTCA
765622 GATCAATCGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (32 bp):
CATTTCAAGTTCAAATTATTATAAATTCAAGT
Found at i:769979 original size:19 final size:19
Alignment explanation
Indices: 769955--769994 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
769945 TAAAATTTAT
*
769955 ATTAATATTAT-ATTTAAAA
1 ATTAATAGTATCA-TTAAAA
769974 ATTAATAGTATCATTAAAA
1 ATTAATAGTATCATTAAAA
769993 AT
1 AT
769995 AAAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (19 bp):
ATTAATAGTATCATTAAAA
Found at i:779762 original size:3 final size:3
Alignment explanation
Indices: 779754--779779 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
779744 AATGTCAAAA
779754 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
779780 AATTTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:780146 original size:133 final size:133
Alignment explanation
Indices: 779907--780179 Score: 300
Period size: 133 Copynumber: 2.1 Consensus size: 133
779897 TTTTATAGGT
* ** *
779907 TCATTAAGGGAGTAAATGATGGTCACGAGCTTTAAAGTTGCTCCATACCCAAGATAAGAATTAAA
1 TCATTAAGGCAGTAAATGATGACCACGAGCTTTAAAGCTGCTCCATACCCAAGATAAGAATTAAA
* * * ** * * * ** *
779972 CTCTCGACCACTGGTTAAGGTAGGGGGAATTTTTGCTATCTCACTTAACTTCCGTGATTAAAGAA
66 CCCTCAAACACTGGTTAAGGTAGGAAGAATATTTGCCATCTCACCTAACCCCCATGATTAAAGAA
780037 AAA
131 AAA
* * * *
780040 TCATTAAGGCAGTAAATGCTGACCATGAGCTTTAAAGCTGCTCCAT-TCCTAGAGTGAA-AATTA
1 TCATTAAGGCAGTAAATGATGACCACGAGCTTTAAAGCTGCTCCATACCCAAGA-T-AAGAATTA
* * *
780103 AACCCTCAAACATTGGTTAAGGTAGGAATAATCATTT-CCATCTCACCTAACCCCCATGATTAGA
64 AACCCTCAAACACTGGTTAAGGTAGGAAGAAT-ATTTGCCATCTCACCTAACCCCCATGATTAAA
780167 GAAAAA
128 GAAAAA
780173 TCATTAA
1 TCATTAA
780180 TGGAGCAGAT
Statistics
Matches: 115, Mismatches: 22, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
132 5 0.04
133 105 0.91
134 5 0.04
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (133 bp):
TCATTAAGGCAGTAAATGATGACCACGAGCTTTAAAGCTGCTCCATACCCAAGATAAGAATTAAA
CCCTCAAACACTGGTTAAGGTAGGAAGAATATTTGCCATCTCACCTAACCCCCATGATTAAAGAA
AAA
Found at i:782878 original size:125 final size:125
Alignment explanation
Indices: 782717--782942 Score: 382
Period size: 125 Copynumber: 1.8 Consensus size: 125
782707 TCCCGGGAAA
* *
782717 AGAAATTGTGAAATCGTGGCCTCGTGGACGCAATTTCGCTACAG-TGGTCATGTAAGAAATAATT
1 AGAAATTGTGAAATCATGCCCTCGTGGACGCAATTTCGCTACAGTTGGTCATGTAAGAAATAATT
782781 TTTTTTGACGTTTTCTGAGCAAATAGTATAAAATCGCTGATACAAGGATGCTATATTGGGC
66 TTTTTTGACG-TTTCTGAGCAAATAGTATAAAATCGCTGATACAAGGATGCTATATTGGGC
* *
782842 AGAAATTGTGAAATCATGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATT
1 AGAAATTGTGAAATCATGCCCTCGTGGACGCAATTTCGCTACAGTTGGTCATGTAAGAAATAATT
* *
782907 TTTTTTGACGTTTCTGAGCAAATAGTGTCAAATCGC
66 TTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGC
782943 GCCCTCGTGG
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
125 65 0.69
126 29 0.31
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.32
Consensus pattern (125 bp):
AGAAATTGTGAAATCATGCCCTCGTGGACGCAATTTCGCTACAGTTGGTCATGTAAGAAATAATT
TTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTGATACAAGGATGCTATATTGGGC
Found at i:784155 original size:22 final size:22
Alignment explanation
Indices: 784130--784203 Score: 130
Period size: 22 Copynumber: 3.4 Consensus size: 22
784120 TATGGATTTG
*
784130 GAGATTTTTTGAAGGAAATTGA
1 GAGAATTTTTGAAGGAAATTGA
*
784152 GAGAATTTTTGAAGGGAATTGA
1 GAGAATTTTTGAAGGAAATTGA
784174 GAGAATTTTTGAAGGAAATTGA
1 GAGAATTTTTGAAGGAAATTGA
784196 GAGAATTT
1 GAGAATTT
784204 GTTTGTGAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.34
Consensus pattern (22 bp):
GAGAATTTTTGAAGGAAATTGA
Found at i:785090 original size:22 final size:22
Alignment explanation
Indices: 785056--785118 Score: 63
Period size: 23 Copynumber: 2.8 Consensus size: 22
785046 GTAGAAAACG
* * *
785056 GAATTTAATTATATTTTTTTAT
1 GAATTAAAATATAATTTTTTAT
*
785078 GAATTAAAATATAAGTTTATTAT
1 GAATTAAAATATAA-TTTTTTAT
* *
785101 GTATTAATATATAATTTT
1 GAATTAAAATATAATTTT
785119 ATCTTTCTTG
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
22 14 0.42
23 19 0.58
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (22 bp):
GAATTAAAATATAATTTTTTAT
Found at i:785106 original size:23 final size:23
Alignment explanation
Indices: 785074--785120 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
785064 TTATATTTTT
785074 TTATGAATTAAAATATAAGTTTA
1 TTATGAATTAAAATATAAGTTTA
* * *
785097 TTATGTATTAATATATAATTTTA
1 TTATGAATTAAAATATAAGTTTA
785120 T
1 T
785121 CTTTCTTGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (23 bp):
TTATGAATTAAAATATAAGTTTA
Found at i:790185 original size:2 final size:2
Alignment explanation
Indices: 790178--790218 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
790168 TTTGATTTTC
790178 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
790219 AATACACTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:790429 original size:3 final size:3
Alignment explanation
Indices: 790421--790474 Score: 90
Period size: 3 Copynumber: 17.7 Consensus size: 3
790411 TTTGAAACCT
*
790421 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
790469 TATA TT
1 T-TA TT
790475 TTAAATTCCT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:793213 original size:2 final size:2
Alignment explanation
Indices: 793202--793257 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
793192 AGTATTCAAA
793202 AT AT -T 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
793243 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
793258 CTTAAANNNN
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 52 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:800038 original size:30 final size:30
Alignment explanation
Indices: 799998--800058 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
799988 ACAAACGAAC
* *
799998 GCCCTTATCTCTG-CTCTCTGCTGCTTCTTT
1 GCCCTCATCTCTGCCT-TCTGCTGATTCTTT
800028 GCCCTCATCTCTGCCTTCTGCTGATTCTTT
1 GCCCTCATCTCTGCCTTCTGCTGATTCTTT
800058 G
1 G
800059 TTCTGCCCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 26 0.93
31 2 0.07
ACGTcount: A:0.05, C:0.36, G:0.15, T:0.44
Consensus pattern (30 bp):
GCCCTCATCTCTGCCTTCTGCTGATTCTTT
Found at i:802464 original size:43 final size:43
Alignment explanation
Indices: 802403--802489 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
802393 AGCTGAACAT
802403 TTAAATGAAATGCAATACACGCTAAACTGTTCAATTGAAACTA
1 TTAAATGAAATGCAATACACGCTAAACTGTTCAATTGAAACTA
802446 TTAAATGAAATGCAATACACGCTAAACTGTTCAATTGAAACTA
1 TTAAATGAAATGCAATACACGCTAAACTGTTCAATTGAAACTA
802489 T
1 T
802490 GTTTGCTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (43 bp):
TTAAATGAAATGCAATACACGCTAAACTGTTCAATTGAAACTA
Found at i:803256 original size:13 final size:13
Alignment explanation
Indices: 803238--803314 Score: 127
Period size: 13 Copynumber: 5.9 Consensus size: 13
803228 ACACTTAAAT
*
803238 TTCTCAAAATCAC
1 TTCTCAAAAGCAC
803251 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
803264 TTCTCAAAATCAC
1 TTCTCAAAAGCAC
*
803277 TTCTGAAAAGCAC
1 TTCTCAAAAGCAC
803290 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
803303 TTCTCAAAAGCA
1 TTCTCAAAAGCA
803315 ATGAAGAACT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 59 1.00
ACGTcount: A:0.39, C:0.29, G:0.06, T:0.26
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:804231 original size:13 final size:13
Alignment explanation
Indices: 804213--804237 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
804203 TATGAATATA
804213 ACCGTCGTCCACC
1 ACCGTCGTCCACC
804226 ACCGTCGTCCAC
1 ACCGTCGTCCAC
804238 GTATACTCGG
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:0.16, C:0.52, G:0.16, T:0.16
Consensus pattern (13 bp):
ACCGTCGTCCACC
Found at i:819451 original size:20 final size:21
Alignment explanation
Indices: 819412--819451 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
819402 CAAGGTGCGA
*
819412 TACAGATACATTTGATTCTTT
1 TACAGATACATTTGAATCTTT
*
819433 TACAGATATA-TTGAATCTT
1 TACAGATACATTTGAATCTT
819452 ATCTATCGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (21 bp):
TACAGATACATTTGAATCTTT
Found at i:822221 original size:21 final size:21
Alignment explanation
Indices: 822197--822241 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
822187 GTCAATGTAT
822197 ATTCATTGAGCATGTTGCTCC
1 ATTCATTGAGCATGTTGCTCC
822218 ATTCATTGAGCATGTTGCTCC
1 ATTCATTGAGCATGTTGCTCC
822239 ATT
1 ATT
822242 GTTGTCATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (21 bp):
ATTCATTGAGCATGTTGCTCC
Found at i:822837 original size:113 final size:113
Alignment explanation
Indices: 822638--822850 Score: 311
Period size: 113 Copynumber: 1.9 Consensus size: 113
822628 GGCCCCCCCA
* * * * *
822638 AAAATGGAAAATTTCCTTATAGTCCCTTTAAAATTTTGTAATATTCTAAACAAGGACAATAGTAA
1 AAAATGGAAAATTTCCTTACAGTCCCTTTAAAA-TTTATAAGATTCTAAACAAGAACAACAGTAA
*
822703 AATTACATTGAACCACACATTTACACATAGTAAGACTTAGACCCTAAAC
65 AATTACAATGAACCACACATTTACACATAGTAAGACTTAGACCCTAAAC
* * * *
822752 AAAATGGGAACTTTCCTTACAGTCCCTCTTGAAA-TTATAAGATTTTAAACAAGAACAACAGTAA
1 AAAATGGAAAATTTCCTTACAGTCCCT-TTAAAATTTATAAGATTCTAAACAAGAACAACAGTAA
822816 AATTACAATGAACCACACATTTACACATAGTAAGA
65 AATTACAATGAACCACACATTTACACATAGTAAGA
822851 TTTCCTTGTA
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
113 59 0.67
114 24 0.27
115 5 0.06
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (113 bp):
AAAATGGAAAATTTCCTTACAGTCCCTTTAAAATTTATAAGATTCTAAACAAGAACAACAGTAAA
ATTACAATGAACCACACATTTACACATAGTAAGACTTAGACCCTAAAC
Found at i:826907 original size:2 final size:2
Alignment explanation
Indices: 826894--826923 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
826884 TCGGAAGGGC
*
826894 AT AT AC 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
826924 TAAAAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:829064 original size:2 final size:2
Alignment explanation
Indices: 829059--829083 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
829049 CCTCACTTAC
829059 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
829084 ATAAAAGTAT
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:840893 original size:22 final size:22
Alignment explanation
Indices: 840868--840912 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
840858 TCAAAAGGAA
840868 CCTTAAATAAACCCACTTTGTG
1 CCTTAAATAAACCCACTTTGTG
840890 CCTTAAATAAACCCACTTTGTG
1 CCTTAAATAAACCCACTTTGTG
840912 C
1 C
840913 AAAGCAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.31
Consensus pattern (22 bp):
CCTTAAATAAACCCACTTTGTG
Found at i:845526 original size:72 final size:74
Alignment explanation
Indices: 845370--845527 Score: 230
Period size: 72 Copynumber: 2.1 Consensus size: 74
845360 CTTCGATGCT
* * *
845370 TCGTCTTTCTTGAGATATTTGTGTTCGATTTTCAATTCATTCTTGGGATTCTTTAACCTCGGCTT
1 TCGTCCTTCTTGAGATACTTGTGTTCGATTTTCAATTCA-TC-TGAGATTCTTTAACCTCGGCTT
* *
845435 TCTTCGAGGCT
64 TCTTCAAGGCC
*
845446 TCGTCCTTCTTGAGATACTTGTGTTCGATTTTCAGTTC-TC-GAGATTCTTTAACCTCGGCTTTC
1 TCGTCCTTCTTGAGATACTTGTGTTCGATTTTCAATTCATCTGAGATTCTTTAACCTCGGCTTTC
845509 TTCAAGGCC
66 TTCAAGGCC
845518 TCGTCCTTCT
1 TCGTCCTTCT
845528 CGAGTTTGTC
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
72 39 0.51
74 2 0.03
76 35 0.46
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (74 bp):
TCGTCCTTCTTGAGATACTTGTGTTCGATTTTCAATTCATCTGAGATTCTTTAACCTCGGCTTTC
TTCAAGGCC
Found at i:845549 original size:72 final size:72
Alignment explanation
Indices: 845416--845550 Score: 180
Period size: 72 Copynumber: 1.9 Consensus size: 72
845406 TCATTCTTGG
* * * ** * *
845416 GATTCTTTAACCTCGGCTTTCTTCGAGGCTTCGTCCTTCTTGAGATACTTGTGTTCGATTTTCAG
1 GATTCTTTAACCTCGGCTTTCTTCAAGGCCTCGTCCTTCTCGAGATACTCCTCTTCCATTTTCAG
845481 TTCTCGA
66 TTCTCGA
* **
845488 GATTCTTTAACCTCGGCTTTCTTCAAGGCCTCGTCCTTCTCGAGTTTGTCCTCTTCCATTTTC
1 GATTCTTTAACCTCGGCTTTCTTCAAGGCCTCGTCCTTCTCGAGATACTCCTCTTCCATTTTC
845551 CTCTGTTTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
72 53 1.00
ACGTcount: A:0.13, C:0.27, G:0.17, T:0.43
Consensus pattern (72 bp):
GATTCTTTAACCTCGGCTTTCTTCAAGGCCTCGTCCTTCTCGAGATACTCCTCTTCCATTTTCAG
TTCTCGA
Found at i:849877 original size:53 final size:53
Alignment explanation
Indices: 849797--849948 Score: 223
Period size: 53 Copynumber: 2.9 Consensus size: 53
849787 AAGGATCGGA
* * * *
849797 TTTTGGAGGACGTATTCCGCGTCTCGAATGTGAGAGTCGAGCCAATGACCGAC
1 TTTTGGAGGACGAATTTCGTGTCTCGAATGTGAGCGTCGAGCCAATGACCGAC
* * * *
849850 TTTTGGAGGATGAATTTCGTGTCTCGAATGTGAGCGTTGAGCCAACGACCGGC
1 TTTTGGAGGACGAATTTCGTGTCTCGAATGTGAGCGTCGAGCCAATGACCGAC
*
849903 TTTTGGAGGACGAATTTCGTGTCTCGAATGTGAGCGTCAAGCCAAT
1 TTTTGGAGGACGAATTTCGTGTCTCGAATGTGAGCGTCGAGCCAAT
849949 CGGTTAAAAA
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 87 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (53 bp):
TTTTGGAGGACGAATTTCGTGTCTCGAATGTGAGCGTCGAGCCAATGACCGAC
Found at i:854518 original size:4 final size:4
Alignment explanation
Indices: 854509--854567 Score: 118
Period size: 4 Copynumber: 14.8 Consensus size: 4
854499 AACCAAAGAA
854509 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
854557 ATAC ATAC ATA
1 ATAC ATAC ATA
854568 GCGTCACAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 55 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:854747 original size:16 final size:16
Alignment explanation
Indices: 854726--854757 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
854716 TAGACGAAAT
854726 AAATACATAAAGCAAC
1 AAATACATAAAGCAAC
854742 AAATACATAAAGCAAC
1 AAATACATAAAGCAAC
854758 GGAGTCATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.19, G:0.06, T:0.12
Consensus pattern (16 bp):
AAATACATAAAGCAAC
Found at i:855888 original size:29 final size:29
Alignment explanation
Indices: 855838--855894 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
855828 TTTATTTTAA
** *
855838 TTTAATTTTATATACTTAAAATATATTTT
1 TTTAATTTTATATAAATAAAATAAATTTT
855867 TTTAATTTTATATTAAAT-AAATAAATTT
1 TTTAATTTTATA-TAAATAAAATAAATTT
855895 ACCTATTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 21 0.88
30 3 0.12
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (29 bp):
TTTAATTTTATATAAATAAAATAAATTTT
Found at i:859325 original size:39 final size:38
Alignment explanation
Indices: 859293--859909 Score: 612
Period size: 39 Copynumber: 16.1 Consensus size: 38
859283 CTTCTCACTT
* * * **
859293 TCTTCTAGTTCACGTGCCTCCTTCTCTTTCTTCTCTTTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
* *
859332 TCTTCTCGTTCAC--G-TGCC-TC--CTTC-TCT-TTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTCTTC
*
859362 TCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTCATTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
*
859401 TCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTCGTTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
* * *
859440 TCTTCTTGTTCACGAGCTTCTTTCAACTTCTTCTCTTTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
* **
859479 TCTTCTCGTTCACGTA-CCTCCTTCTCTTTCTTCTCTATC
1 TCTTCTCGTTCACG-AGCTTCCTTCAATTTCTTCTCT-TC
** * *
859518 TCTTCTCGTTCACGAATTTCCTTCAATCTCCTCTCATTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
859557 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTCTTTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
*
859596 TCTTCTAGTTCACGAGCTTCCTTCAATTTCTTCTCTTTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
* * * * *
859635 TCTTCTCGTCCATGTGCCTCCTTC---TCCTTCTCTTTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
* * * *
859671 TCTTCTCGCTCACGAGCCTCCCTCAATCTCTTCTCATTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
859710 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTCTATC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTCT-TC
* * * *
859749 TCTTCTCGTTCACGAGCCTCCCTCAATCTCCTCTCATTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
* *
859788 TCTTCTCGTTCATGAGCTTCCTTCAATTTTTTCTCCTTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCT-CTTC
* * ** **
859827 TCTTCTAGTTCACGTGCCACCTTCTCTTTCTTC-CTTCTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-T-TC
*
859866 TCTTCTCGTTCATGAGCTTCCTTCAATTTCTTCTCTTTC
1 TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TTC
859905 TCTTC
1 TCTTC
859910 CTGCTGAACA
Statistics
Matches: 482, Mismatches: 74, Indels: 44
0.80 0.12 0.07
Matches are distributed among these distances:
30 16 0.03
32 4 0.01
33 6 0.01
34 2 0.00
35 2 0.00
36 34 0.07
37 5 0.01
38 4 0.01
39 402 0.83
40 7 0.01
ACGTcount: A:0.10, C:0.36, G:0.08, T:0.46
Consensus pattern (38 bp):
TCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTCTTC
Found at i:859358 original size:30 final size:30
Alignment explanation
Indices: 859322--859385 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
859312 CCTTCTCTTT
*
859322 CTTCTCTTTCTCTTCTCGTTCACGTGCCTC
1 CTTCTCTTTCTCTTCTCGTTCACGAGCCTC
*
859352 CTTCTCTTTCTCTTCTCGTTCACGAGCTTC
1 CTTCTCTTTCTCTTCTCGTTCACGAGCCTC
859382 CTTC
1 CTTC
859386 AATCTCTTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.05, C:0.39, G:0.09, T:0.47
Consensus pattern (30 bp):
CTTCTCTTTCTCTTCTCGTTCACGAGCCTC
Found at i:859485 original size:117 final size:117
Alignment explanation
Indices: 859352--859909 Score: 696
Period size: 117 Copynumber: 4.8 Consensus size: 117
859342 CACGTGCCTC
*
859352 CTTCTCTTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTC-ATTCTCTTCTCGTTCACGA
1 CTTCTCTTTCTCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTCTA-TCTCTTCTCGTTCACGA
* * * *
859416 GCTTCCTTCAATCTCTTCTCGTTCTCTTCTTGTTCACGAGCTTCTTTCAACTT
65 GCTTCCTTCAATCTCTTCTCATTCTCTTCTCGTTCACGAGCTTCCTTCAATTT
* **
859469 CTTCTCTTTCTCTTCTCGTTCACGTA-CCTCCTTCTCTTTCTTCTCTATCTCTTCTCGTTCACGA
1 CTTCTCTTTCTCTTCTCGTTCACG-AGCTTCCTTCAATTTCTTCTCTATCTCTTCTCGTTCACGA
** *
859533 ATTTCCTTCAATCTCCTCTCATTCTCTTCTCGTTCACGAGCTTCCTTCAATTT
65 GCTTCCTTCAATCTCTTCTCATTCTCTTCTCGTTCACGAGCTTCCTTCAATTT
* * * * *
859586 CTTCTCTTTCTCTTCTAGTTCACGAGCTTCCTTCAATTTCTTCTCTTTCTCTTCTCGTCCATGTG
1 CTTCTCTTTCTCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTCTATCTCTTCTCGTTCACGAG
* * * * * *
859651 CCTCCTTC--TC-CTTCTCTTTCTCTTCTCGCTCACGAGCCTCCCTCAATCT
66 CTTCCTTCAATCTCTTCTCATTCTCTTCTCGTTCACGAGCTTCCTTCAATTT
*
859700 CTTCTCATTCTCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTCTATCTCTTCTCGTTCACGAG
1 CTTCTCTTTCTCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTCTATCTCTTCTCGTTCACGAG
* * * *
859765 CCTCCCTCAATCTCCTCTCATTCTCTTCTCGTTCATGAGCTTCCTTCAATTT
66 CTTCCTTCAATCTCTTCTCATTCTCTTCTCGTTCACGAGCTTCCTTCAATTT
* * * * ** ** * *
859817 TTTCTCCTTCTCTTCTAGTTCACGTGCCACCTTCTCTTTCTTC-CTTCTCTCTTCTCGTTCATGA
1 CTTCTCTTTCTCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTC-TATCTCTTCTCGTTCACGA
* *
859881 GCTTCCTTCAATTTCTTCTCTTTCTCTTC
65 GCTTCCTTCAATCTCTTCTCATTCTCTTC
859910 CTGCTGAACA
Statistics
Matches: 377, Mismatches: 57, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
114 99 0.26
115 2 0.01
116 4 0.01
117 270 0.72
118 2 0.01
ACGTcount: A:0.10, C:0.36, G:0.07, T:0.46
Consensus pattern (117 bp):
CTTCTCTTTCTCTTCTCGTTCACGAGCTTCCTTCAATTTCTTCTCTATCTCTTCTCGTTCACGAG
CTTCCTTCAATCTCTTCTCATTCTCTTCTCGTTCACGAGCTTCCTTCAATTT
Found at i:859795 original size:78 final size:78
Alignment explanation
Indices: 859352--859909 Score: 696
Period size: 78 Copynumber: 7.2 Consensus size: 78
859342 CACGTGCCTC
859352 CTTCTCTTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTCATTCTCTTCTCGTTCACGAG
1 CTTCTCTTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTCATTCTCTTCTCGTTCACGAG
*
859417 CTTCCTTCAATCT
66 CTTCCTTCAATTT
* * * *
859430 CTTCTCGTTCTCTTCTTGTTCACGAGCTTCTTTCAA-CTTCTTCTCTTTCTCTTCTCGTTCACGT
1 CTTCTCTTTCTCTTCTCGTTCACGAGCTTCCTTCAATC-TCTTCTCATTCTCTTCTCGTTCACG-
* **
859494 A-CCTCCTTCTCTTT
64 AGCTTCCTTCAATTT
* ** *
859508 CTTCTCTATCTCTTCTCGTTCACGAATTTCCTTCAATCTCCTCTCATTCTCTTCTCGTTCACGAG
1 CTTCTCTTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTCATTCTCTTCTCGTTCACGAG
859573 CTTCCTTCAATTT
66 CTTCCTTCAATTT
* * * * * *
859586 CTTCTCTTTCTCTTCTAGTTCACGAGCTTCCTTCAATTTCTTCTCTTTCTCTTCTCGTCCATGTG
1 CTTCTCTTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTCATTCTCTTCTCGTTCACGAG
* *
859651 CCTCCTTC---TC
66 CTTCCTTCAATTT
* * *
859661 CTTCTCTTTCTCTTCTCGCTCACGAGCCTCCCTCAATCTCTTCTCATTCTCTTCTCGTTCACGAG
1 CTTCTCTTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTCATTCTCTTCTCGTTCACGAG
859726 CTTCCTTCAATTT
66 CTTCCTTCAATTT
* * * * *
859739 CTTCTCTATCTCTTCTCGTTCACGAGCCTCCCTCAATCTCCTCTCATTCTCTTCTCGTTCATGAG
1 CTTCTCTTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTCATTCTCTTCTCGTTCACGAG
859804 CTTCCTTCAATTT
66 CTTCCTTCAATTT
* * * * ** ** * * *
859817 TTTCTCCTTCTCTTCTAGTTCACGTGCCACCTTCTCTTTCTTC-CTTCTCTCTTCTCGTTCATGA
1 CTTCTCTTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTCAT-TCTCTTCTCGTTCACGA
859881 GCTTCCTTCAATTT
65 GCTTCCTTCAATTT
859895 CTTCTCTTTCTCTTC
1 CTTCTCTTTCTCTTC
859910 CTGCTGAACA
Statistics
Matches: 412, Mismatches: 60, Indels: 16
0.84 0.12 0.03
Matches are distributed among these distances:
75 64 0.16
77 4 0.01
78 342 0.83
79 2 0.00
ACGTcount: A:0.10, C:0.36, G:0.07, T:0.46
Consensus pattern (78 bp):
CTTCTCTTTCTCTTCTCGTTCACGAGCTTCCTTCAATCTCTTCTCATTCTCTTCTCGTTCACGAG
CTTCCTTCAATTT
Found at i:871568 original size:32 final size:32
Alignment explanation
Indices: 871526--871596 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
871516 TTCAAATTAT
871526 TTTAAATTATTTC-AGATTTG-TGTATTTTTAGA
1 TTTAAATTATTTCGAG-TTTGAT-TATTTTTAGA
* *
871558 TTTAATTTATTTCGAGTTTGAATTATTTTTATA
1 TTTAAATTATTTCGAGTTTG-ATTATTTTTAGA
871591 TTTAAA
1 TTTAAA
871597 ATTCGACATA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
32 16 0.48
33 16 0.48
34 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.58
Consensus pattern (32 bp):
TTTAAATTATTTCGAGTTTGATTATTTTTAGA
Found at i:875448 original size:393 final size:392
Alignment explanation
Indices: 874437--875449 Score: 1427
Period size: 393 Copynumber: 2.6 Consensus size: 392
874427 GAGACGAAGC
*
874437 AATCAGAAAGTTCAACAAGATACAAAACTGGGAACTTTTACATCAATATCATTTTCAATAGGAAC
1 AATCAGAAAGTTCAACAAGATACAAAACTGGGAACTTTTACATCAATCTCATTTTCAATAGGAAC
* * *
874502 AACAAAAATGGATGGATCAAGG---TTCGGTCATGAA-TTCTGAAGTCTTGTATCACTTTGAGAG
66 AACAAAAATGGATGGATCAAGGTTCTTCGGTCATGAATTTCTGAAGTCTCGTATTACTTCGAGAG
* * *
874563 CTAGATAGTTACTAACCTATGAGATTCATATTTTCATTTATCATAAAAGCAACATGATCCAAAAT
131 CTAGATAATTACTAACCTATGAGATTCATATTTTTATTTATCATAAAAGCAACATGATCCAACAT
* * * *
874628 GTAGTGAATTATAGCTTGTATTAAATGAACATACCAGTTTTGGTCATTAATCATACAAAATATAT
196 GTAGTGAATTATAGCTTATGTTAAATGAACATACCAGTTTTGGTCATTAATCATACAAAAGATAG
* * ** * *
874693 TTTCATTATAAGTTTCTAGCGAATTCCAGCACTGTCACACAAAAAATTCTTAATTCTGAAGTTGC
261 TTTCATCATAAGTTTCTAGCGAACTCCAGCACCATCACACAAAAAATTCTTAATTCTGAACTTAC
* * *
874758 ACAGAAAATTCAATTTAACCTCCTAACACACACATATGACGGAACAAAGGGAAGAGTCGAAGCAA
326 ACAGAAAATCCAATTTAACCTCCTAACACACACATATGACGGAACAAAGGGAAGAGACAAAGCAA
874823 CT
391 CT
* * *
874825 AATCAGAAAGTTTAACACGATACAGAAA-TGGGAAATTTTTTACATCAATCTCATTTTCAATAGG
1 AATCAGAAAGTTCAACAAGATACA-AAACTGGG-AA-CTTTTACATCAATCTCATTTTCAATAGG
* *
874889 AACAACAAAAATGAATGGATCAAGGTTCGTTCGGTCATGAATTTCTGAAGTCTCTTATTACTTCG
63 AACAACAAAAATGGATGGATCAAGGTTC-TTCGGTCATGAATTTCTGAAGTCTCGTATTACTTCG
* * * *
874954 AGAGCTAGATAATTACTAGA--TATGAGATGCATATTTTTATTCATCATGAGAGCAACATGATCC
127 AGAGCTAGATAATTACTA-ACCTATGAGATTCATATTTTTATTTATCATAAAAGCAACATGATCC
* * *
875017 AACACGTAGTGAATTATAGCTTATGTTAAATGAACATACC-GCTTTTGGTCATTGATCATACACA
191 AACATGTAGTGAATTATAGCTTATGTTAAATGAACATACCAG-TTTTGGTCATTAATCATACAAA
* * *
875081 AGATAGTTTCATCATAAGTTTCTAGCGAACTCCAGCCCCATCGCTC-AAAAATTCTTAATTCTGA
255 AGATAGTTTCATCATAAGTTTCTAGCGAACTCCAGCACCATCACACAAAAAATTCTTAATTCTGA
* * * *
875145 ACTTACACAGAAACTCCAATTTAACTTGCTAACACACATATATGA-GAGAACAAAGGGAAGAGAC
320 ACTTACACAGAAAATCCAATTTAACCTCCTAACACACACATATGACG-GAACAAAGGGAAGAGAC
*
875209 AAAGCAATT
384 AAAGCAACT
* ** *
875218 ATTCAGAAAGTTCAACAAGATACAAAACT-GGAAGCTTTTACATTGATCTCATTTTCAGTAGGAA
1 AATCAGAAAGTTCAACAAGATACAAAACTGGGAA-CTTTTACATCAATCTCATTTTCAATAGGAA
*
875282 CAACAAAAATGGATGGATCAAGGTTCATTCGGTCATGAATTTCTGAAGTCTCGTATTACTTCAAG
65 CAACAAAAATGGATGGATCAAGGTTC-TTCGGTCATGAATTTCTGAAGTCTCGTATTACTTCGAG
** *
875347 AGCTAGATAATTACTAACCTATGAGATTCATATTTTTATTTGCCATAAAAGCAAACATAATCCAA
129 AGCTAGATAATTACTAACCTATGAGATTCATATTTTTATTTATCATAAAAGC-AACATGATCCAA
875412 CATGTAGTGAATTATAGCTTATGTTAAATGAACATACC
193 CATGTAGTGAATTATAGCTTATGTTAAATGAACATACC
875450 TTTAATCATA
Statistics
Matches: 550, Mismatches: 60, Indels: 25
0.87 0.09 0.04
Matches are distributed among these distances:
388 26 0.05
389 5 0.01
390 51 0.09
391 105 0.19
392 33 0.06
393 150 0.27
394 143 0.26
395 36 0.07
396 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (392 bp):
AATCAGAAAGTTCAACAAGATACAAAACTGGGAACTTTTACATCAATCTCATTTTCAATAGGAAC
AACAAAAATGGATGGATCAAGGTTCTTCGGTCATGAATTTCTGAAGTCTCGTATTACTTCGAGAG
CTAGATAATTACTAACCTATGAGATTCATATTTTTATTTATCATAAAAGCAACATGATCCAACAT
GTAGTGAATTATAGCTTATGTTAAATGAACATACCAGTTTTGGTCATTAATCATACAAAAGATAG
TTTCATCATAAGTTTCTAGCGAACTCCAGCACCATCACACAAAAAATTCTTAATTCTGAACTTAC
ACAGAAAATCCAATTTAACCTCCTAACACACACATATGACGGAACAAAGGGAAGAGACAAAGCAA
CT
Found at i:886406 original size:15 final size:15
Alignment explanation
Indices: 886386--886417 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
886376 ATGATGTAGT
886386 ATCTTAAATGTAAAG
1 ATCTTAAATGTAAAG
886401 ATCTTAAATGTAAAG
1 ATCTTAAATGTAAAG
886416 AT
1 AT
886418 ATTGCTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.34
Consensus pattern (15 bp):
ATCTTAAATGTAAAG
Found at i:890487 original size:249 final size:250
Alignment explanation
Indices: 890054--890510 Score: 693
Period size: 249 Copynumber: 1.8 Consensus size: 250
890044 ATAGATCGAA
* * * * *
890054 ATTCTTTGTTCTTGAAAGGAAATGTATATTCCCGAAATGCAGCTTAGGTACAACAATCTCAACTT
1 ATTCTTTGTTCATAAAAGGAAATCTATATTCCCAAAATGCAGCTTAGGT--AACAATCTCAACTC
* * * *
890119 TAAACTGCCCTATGTGAACAAAACCTAGTTATGGTCCAACAATAGTTTGGTCTTAATCTAAGACA
64 TAAACAGCCCTATGTGAACAAAACCTAGTTACGGTCCAACAATAGGTTGGTCTTAAACTAAGACA
**
890184 AAACACATAATTTCTCAGCTAAAGACTGCCCTATGTATTTTCCAACCGTGCCATGTCTGGAAATT
129 AAACACA-AATTTCTCAGCTAAAGACTGCCCTATGTATTTTCCAACCGTGCCATGTCCAGAAATT
890249 GTATCCGTCCGGCAAAAAACCAAAATTAAGCCAAAGGAAATCCCAAGAATATAGAAAT
193 GTATCCGTCCGGCAAAAAACCAAAATTAAGCCAAAGGAAATCCCAAGAATATAGAAAT
* *
890307 ATTCTTTGTTCATAAAAGGAATTCTATATTTCCAAAATGCAGCTTAGGT-ACAATCTCAACTCTA
1 ATTCTTTGTTCATAAAAGGAAATCTATATTCCCAAAATGCAGCTTAGGTAACAATCTCAACTCTA
* * *
890371 GACAGCCCTATGTGAAACAAAACCTAGTTACGGTCCAACAATAGGTTGGTCTTAAACTAAGATAG
66 AACAGCCCTATGTG-AACAAAACCTAGTTACGGTCCAACAATAGGTTGGTCTTAAACTAAGACAA
* * *
890436 AACAC-AATTTCTCAGCTAAAGATTGCCCTATGTATTTTCCGACCGTGCCATGTCCAGATATTGT
130 AACACAAATTTCTCAGCTAAAGACTGCCCTATGTATTTTCCAACCGTGCCATGTCCAGAAATTGT
890500 ATCCGTCCGGC
195 ATCCGTCCGGC
890511 TTGAATGGCA
Statistics
Matches: 184, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
249 65 0.35
250 26 0.14
251 50 0.27
253 43 0.23
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.29
Consensus pattern (250 bp):
ATTCTTTGTTCATAAAAGGAAATCTATATTCCCAAAATGCAGCTTAGGTAACAATCTCAACTCTA
AACAGCCCTATGTGAACAAAACCTAGTTACGGTCCAACAATAGGTTGGTCTTAAACTAAGACAAA
ACACAAATTTCTCAGCTAAAGACTGCCCTATGTATTTTCCAACCGTGCCATGTCCAGAAATTGTA
TCCGTCCGGCAAAAAACCAAAATTAAGCCAAAGGAAATCCCAAGAATATAGAAAT
Found at i:890770 original size:203 final size:202
Alignment explanation
Indices: 890325--890814 Score: 541
Period size: 203 Copynumber: 2.4 Consensus size: 202
890315 TTCATAAAAG
* * *
890325 GAATTCTATATTTCCAAAATGCAGCTTAGGT---ACAATCTCAACTCTAGACA-G-CCCTATGTG
1 GAATTCTATATTCCCAAAATGCAGCTTAAGTACAACAATCTCAACTATAGA-ATGTCCC-ATGTG
* * * * *
890385 AAACAAAACCTAGTTACGGTCCAACAATAGGTTGGTCTTAAACTAAGATAGAACACAATTTCTCA
64 -AATAAAACCTAGTTATGAT-C--C-A-A--TTGGCCTTAAACTAAGACAGAACACAATTTCTCA
* *
890450 GCTAAAGATTGCCCTATGTATTTTCCGACCGTGCCATGTCCAGATATTGTATCCGTCCGGCTTGA
121 GCTAAAGACTGCCCTATCTATTTTCCGACCGTGCCATGTCCAGATATTGTATCCGTCCGGCTTGA
** *
890515 ATGGCAATCTCTTCCCA
186 ACAGCAATCTCTTCCAA
* * * * *
890532 GAATTCTATATTCCCAACATGCAGCTTAAGTACAACAATCTCAATTCTAGACTTTCCCATGTGAA
1 GAATTCTATATTCCCAAAATGCAGCTTAAGTACAACAATCTCAACTATAGAATGTCCCATGTGAA
* *
890597 TAAAA-CTGAGTTATGATCCAATTGGCCTTAATCTAAGACAGAACACACAATTTCTTTA-CTAAA
66 TAAAACCT-AGTTATGATCCAATTGGCCTTAAACTAAGACAG-A-ACACAATTTC-TCAGCTAAA
* *
890660 GACTGCTCTATCTATTTTCCG-CCTGTGCCATGTCCAGATATTGTAT-CGTCCGGCTTGAACAGT
127 GACTGCCCTATCTATTTTCCGACC-GTGCCATGTCCAGATATTGTATCCGTCCGGCTTGAACAGC
890723 AATCTC-TCCAAA
191 AATCTCTTCC-AA
* * *
890735 GAATTCTCTATTCCCAAAATGCAGCTTAGGTACAACAATCTCAACTATAGAATGTCCTATGTGAA
1 GAATTCTATATTCCCAAAATGCAGCTTAAGTACAACAATCTCAACTATAGAATGTCCCATGTGAA
890800 TAAAACCTAGTTATG
66 TAAAACCTAGTTATG
890815 GACCAACTGG
Statistics
Matches: 243, Mismatches: 28, Indels: 28
0.81 0.09 0.09
Matches are distributed among these distances:
202 20 0.08
203 93 0.38
204 58 0.24
205 3 0.01
206 1 0.00
207 28 0.12
208 3 0.01
209 13 0.05
210 21 0.09
211 3 0.01
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (202 bp):
GAATTCTATATTCCCAAAATGCAGCTTAAGTACAACAATCTCAACTATAGAATGTCCCATGTGAA
TAAAACCTAGTTATGATCCAATTGGCCTTAAACTAAGACAGAACACAATTTCTCAGCTAAAGACT
GCCCTATCTATTTTCCGACCGTGCCATGTCCAGATATTGTATCCGTCCGGCTTGAACAGCAATCT
CTTCCAA
Found at i:896615 original size:2 final size:2
Alignment explanation
Indices: 896602--896643 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
896592 AAGTACCTTG
* *
896602 AT AT AA AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
896643 A
1 A
896644 AAAATAAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:897526 original size:25 final size:26
Alignment explanation
Indices: 897474--897527 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
897464 CAAATTTTAG
* *
897474 AAGGACTAAAGCCTGAATTAAACCAA
1 AAGGACTAAAACCAGAATTAAACCAA
897500 AAGGACTAAAACCAGAA-TAAACCAA
1 AAGGACTAAAACCAGAATTAAACCAA
897525 AAG
1 AAG
897528 TTTCAGAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.56, C:0.19, G:0.15, T:0.11
Consensus pattern (26 bp):
AAGGACTAAAACCAGAATTAAACCAA
Found at i:907189 original size:29 final size:30
Alignment explanation
Indices: 907124--907190 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
907114 AATTTTATAT
907124 TTAAAAAAATAAAAGGACTAAATTCATAAA
1 TTAAAAAAATAAAAGGACTAAATTCATAAA
*
907154 --AATAAAAGTATAAA-GACTAAATTCA-AAA
1 TTAA-AAAAATA-AAAGGACTAAATTCATAAA
907182 TTAAAAAAA
1 TTAAAAAAA
907191 AAGTAAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
28 5 0.16
29 21 0.68
30 5 0.16
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.22
Consensus pattern (30 bp):
TTAAAAAAATAAAAGGACTAAATTCATAAA
Found at i:909198 original size:267 final size:272
Alignment explanation
Indices: 908741--909236 Score: 711
Period size: 267 Copynumber: 1.8 Consensus size: 272
908731 TTTCTTTTTT
* **
908741 AAAAAAACTCTTTAAACTCCTAAAATTTTTGGAAATTTTAGTTAGGCCCTCTGAAACTTAATCTC
1 AAAAAAACTCTTTAAACTCCTAAAATTTTTGAAAATTTTAGTTAGGCCCTCCAAAACTTAATCTC
* *
908806 ATTATCTGCCATTGAATATATATTATTGAAGGACTTTTGATTCTTTTGAGAAAAGTTGGACACAA
66 ATGATCTGCCATTG---A-ATATTATTGAAGGACTTTCGATTCTTTTGAGAAAAGTTGGACACAA
* *
908871 AAACCTGTTGAGTATTTACCTCTCAAAATGTCCGATATTTCTTTTCGGCAGAGATTTAATCACAA
127 AAACCTGTTGAGTATTTACCTCTCAAAATGTCCGATATTTATTTTCGACAGAGATTTAATCACAA
*** *
908936 TGTTGGGCCTGTTG-AGAGATTCATCGACTTCAAATAAACAATGCTCTTAAAAAGTTAATTAGAC
192 TGTTAAACCTATTGAAG-GATTCATCGACTTCAAATAAACAATGCTCTTAAAAAGTTAATTAGAC
909000 CCCCAAAATTATTTAGA
256 CCCCAAAATTATTTAGA
* * **
909017 AAAAAAATTCTTTAAACT-CTTAAATTTTATGAAAATTTTAGTTAGGCTTTCCAAAACTTAATCT
1 AAAAAAACTCTTTAAACTCCTAAAATTTT-TGAAAATTTTAGTTAGGCCCTCCAAAACTTAATCT
*
909081 CGTGATCTGCCATTG-A-A-TA-T-AAGGACTTTCGATTCTTTTGAGAAAAGTTGGACACGAAAA
65 CATGATCTGCCATTGAATATTATTGAAGGACTTTCGATTCTTTTGAGAAAAGTTGGACAC-AAAA
* *
909141 GCC-GTTGAGTATTTACCTCTCAAAATGTCCGATATTTATTTTCGATAGAGATTTAATCACAATG
129 ACCTGTTGAGTATTTACCTCTCAAAATGTCCGATATTTATTTTCGACAGAGATTTAATCACAATG
909205 TTAAACCTATTGAAGGATTCATCGACTTCAAA
194 TTAAACCTATTGAAGGATTCATCGACTTCAAA
909237 AAAATAATAC
Statistics
Matches: 199, Mismatches: 18, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
267 117 0.59
268 9 0.05
269 2 0.01
270 1 0.01
271 1 0.01
275 9 0.05
276 60 0.30
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (272 bp):
AAAAAAACTCTTTAAACTCCTAAAATTTTTGAAAATTTTAGTTAGGCCCTCCAAAACTTAATCTC
ATGATCTGCCATTGAATATTATTGAAGGACTTTCGATTCTTTTGAGAAAAGTTGGACACAAAAAC
CTGTTGAGTATTTACCTCTCAAAATGTCCGATATTTATTTTCGACAGAGATTTAATCACAATGTT
AAACCTATTGAAGGATTCATCGACTTCAAATAAACAATGCTCTTAAAAAGTTAATTAGACCCCCA
AAATTATTTAGA
Found at i:912903 original size:16 final size:17
Alignment explanation
Indices: 912870--912907 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
912860 GAAACATTTA
*
912870 TTTTAATGTTTTAGTAT
1 TTTTAATGTATTAGTAT
*
912887 TTTTTATGTATTA-TAT
1 TTTTAATGTATTAGTAT
912903 TTTTA
1 TTTTA
912908 TAAAAATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (17 bp):
TTTTAATGTATTAGTAT
Found at i:916810 original size:13 final size:13
Alignment explanation
Indices: 916792--916833 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
916782 TATATTTTAT
916792 GTTTAAATATTTC
1 GTTTAAATATTTC
916805 GTTTAAGA-ATTAT-
1 GTTTAA-ATATT-TC
916818 GTTTAAATATTTC
1 GTTTAAATATTTC
916831 GTT
1 GTT
916834 GATTTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
12 2 0.08
13 21 0.84
14 2 0.08
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.52
Consensus pattern (13 bp):
GTTTAAATATTTC
Found at i:924038 original size:27 final size:27
Alignment explanation
Indices: 924008--924059 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
923998 GGCCAATCAC
924008 ATTGGCGGCACCAAAGGAGCCAAAGAG
1 ATTGGCGGCACCAAAGGAGCCAAAGAG
* *
924035 ATTGGCGGCACCAATGGTGCCAAAG
1 ATTGGCGGCACCAAAGGAGCCAAAG
924060 GACTAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.23, G:0.33, T:0.12
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGAGCCAAAGAG
Found at i:924603 original size:19 final size:19
Alignment explanation
Indices: 924579--924642 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
924569 TCTAATTAAG
924579 TAATAATTCTATTTTAATT
1 TAATAATTCTATTTTAATT
* * *
924598 TAATAAAT-TATTCTCATT
1 TAATAATTCTATTTTAATT
*
924616 TAATAACTCTATTTTAATT
1 TAATAATTCTATTTTAATT
*
924635 TAAAAATT
1 TAATAATT
924643 TAAATTAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
18 15 0.42
19 21 0.58
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATAATTCTATTTTAATT
Found at i:924609 original size:18 final size:18
Alignment explanation
Indices: 924588--924642 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
924578 GTAATAATTC
924588 TATTTTAATTTAATAAAT
1 TATTTTAATTTAATAAAT
* * *
924606 TATTCTCATTTAATAACT
1 TATTTTAATTTAATAAAT
924624 CTATTTTAATTTAA-AAAT
1 -TATTTTAATTTAATAAAT
924642 T
1 T
924643 TAAATTAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
17 1 0.03
18 18 0.60
19 11 0.37
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (18 bp):
TATTTTAATTTAATAAAT
Found at i:925194 original size:27 final size:27
Alignment explanation
Indices: 925153--925204 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
925143 CATTTTAGTC
925153 CTTTGGCACCATTGGTGCCGCCAATCT
1 CTTTGGCACCATTGGTGCCGCCAATCT
*
925180 CTTTGGCACCTTTGGTGCCGCCAAT
1 CTTTGGCACCATTGGTGCCGCCAAT
925205 GTGATTGGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.13, C:0.33, G:0.23, T:0.31
Consensus pattern (27 bp):
CTTTGGCACCATTGGTGCCGCCAATCT
Found at i:925212 original size:27 final size:27
Alignment explanation
Indices: 925155--925213 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
925145 TTTTAGTCCT
*
925155 TTGGCACCATTGGTGCCGCCAATCTCT
1 TTGGCACCATTGGTGCCGCCAATCTCA
* * *
925182 TTGGCACCTTTGGTGCCGCCAATGTGA
1 TTGGCACCATTGGTGCCGCCAATCTCA
925209 TTGGC
1 TTGGC
925214 CTGATCAGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.14, C:0.29, G:0.27, T:0.31
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATCTCA
Found at i:925293 original size:26 final size:27
Alignment explanation
Indices: 925264--925326 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
925254 TTTTTTTGGT
*
925264 ATATTTTGGTAAAT-AAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
**
925290 ATATTTTGACAAATAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
925317 ATATTTTGGT
1 ATATTTTGGT
925327 TATTTTTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 12 0.39
27 19 0.61
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.41
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGTTATA
Found at i:938174 original size:6 final size:6
Alignment explanation
Indices: 938165--938199 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
938155 ATGTATATGT
*
938165 ATATAG ATATAG AAATAG ATATAG ATATAG ATATA
1 ATATAG ATATAG ATATAG ATATAG ATATAG ATATA
938200 TACCTTTGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.54, C:0.00, G:0.14, T:0.31
Consensus pattern (6 bp):
ATATAG
Found at i:940933 original size:20 final size:20
Alignment explanation
Indices: 940903--940940 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
940893 TATTTCGATT
940903 ATTTATTTATTTTAGTTTTTC
1 ATTTATTTATTTTA-TTTTTC
940924 ATTT-TTTATTTTATTTT
1 ATTTATTTATTTTATTTT
940941 ATAATTACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (20 bp):
ATTTATTTATTTTATTTTTC
Found at i:957106 original size:41 final size:41
Alignment explanation
Indices: 957049--957132 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
957039 AAACCTTGTA
957049 CACGAACTTAAAATATCTCGAAATTTAAAATGACATAAACC
1 CACGAACTTAAAATATCTCGAAATTTAAAATGACATAAACC
957090 CACGAACTTAAAATATCTCGAAATTTAAAATGACATAAACC
1 CACGAACTTAAAATATCTCGAAATTTAAAATGACATAAACC
957131 CA
1 CA
957133 TAATGATCCG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.49, C:0.20, G:0.07, T:0.24
Consensus pattern (41 bp):
CACGAACTTAAAATATCTCGAAATTTAAAATGACATAAACC
Found at i:960573 original size:2 final size:2
Alignment explanation
Indices: 960566--960600 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
960556 GCTTTCACCG
*
960566 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
960601 AGTGTTTGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:965057 original size:124 final size:124
Alignment explanation
Indices: 964914--965174 Score: 330
Period size: 124 Copynumber: 2.1 Consensus size: 124
964904 AACACTTTGT
* * * * *
964914 TAATGAATTAATTTGATAATGGAT-AAAAGTTAAAGTTTTATGAAATTTTTTATCCTAAAGTTTT
1 TAATTAATTAATTTGATAATAGATGAAAA-TCAAAATTTTATGAAATTTTGTATCCTAAAGTTTT
* * * * **
964978 TAATTTTTCATTAATCTT-AACAATTTAATAAGTAAGAAA-TTCAAATTTATAAAAAAAACC
65 AAAATTTTCATTAATCTTAAAAAAATTAATAAACAAGAAACTT-AAATTTAT-AAAAAAACC
* *
965038 TAATTAATTAATTTGATAATAGATGACAATCAAAATTTTATGAAATTTTGTATCTTAAAGTTTTA
1 TAATTAATTAATTTGATAATAGATGAAAATCAAAATTTTATGAAATTTTGTATCCTAAAGTTTTA
* * *
965103 AAATTTTCATTAATCTTAAAAAAATTAATAAACAAGAAACTTAAATTTATCAAAACACT
66 AAATTTTCATTAATCTTAAAAAAATTAATAAACAAGAAACTTAAATTTATAAAAAAACC
965162 TAATTAATTAATT
1 TAATTAATTAATT
965175 AATTAATTTG
Statistics
Matches: 118, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
124 88 0.75
125 28 0.24
126 2 0.02
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.41
Consensus pattern (124 bp):
TAATTAATTAATTTGATAATAGATGAAAATCAAAATTTTATGAAATTTTGTATCCTAAAGTTTTA
AAATTTTCATTAATCTTAAAAAAATTAATAAACAAGAAACTTAAATTTATAAAAAAACC
Found at i:965930 original size:26 final size:26
Alignment explanation
Indices: 965901--965951 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
965891 AAAATTAACA
965901 TTTA-TATATGATTTTATTCATTATTT
1 TTTATTATATGA-TTTATTCATTATTT
*
965927 TTTATTCTATGATTTATTCATTATT
1 TTTATTATATGATTTATTCATTATT
965952 GGGAATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (26 bp):
TTTATTATATGATTTATTCATTATTT
Found at i:972885 original size:34 final size:34
Alignment explanation
Indices: 972830--972895 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
972820 CAAACACCAG
*
972830 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTAC-GAAAAGT
*
972865 AAAACATTTTCCCG-AAATCATTTTACGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACGAAAA
972896 ATATTTTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.41
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (34 bp):
AAAACATTTTCCAGTAAATCATTTTACGAAAAGT
Found at i:980291 original size:8 final size:7
Alignment explanation
Indices: 980267--980297 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
980257 TTGACATAGA
980267 TTTTCCT
1 TTTTCCT
980274 TTTTCCT
1 TTTTCCT
980281 TTTTCCT
1 TTTTCCT
*
980288 TTTTTCT
1 TTTTCCT
980295 TTT
1 TTT
980298 AAATAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTCCT
Found at i:980316 original size:2 final size:2
Alignment explanation
Indices: 980304--980334 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
980294 TTTTAAATAA
980304 AT AT A- 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
980335 TTAGAAGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:996705 original size:18 final size:18
Alignment explanation
Indices: 996682--996717 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
996672 GTCGTGTTCG
*
996682 TTAATAATTTAATTAATT
1 TTAATAATTTAATCAATT
*
996700 TTAATATTTTAATCAATT
1 TTAATAATTTAATCAATT
996718 ACATAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAATAATTTAATCAATT
Found at i:1002397 original size:26 final size:27
Alignment explanation
Indices: 1002354--1002461 Score: 87
Period size: 26 Copynumber: 3.9 Consensus size: 27
1002344 CTTCCATGTT
**
1002354 TAATTTGGTACCCAAG-TTTTCCTTTC
1 TAATTTGGTACCTGAGTTTTTCCTTTC
* *
1002380 TAATTTGGTACTTGAGTTTGACTTCAATGTTC
1 TAATTTGGTACCTGAGTTT---TTC-CT-TTC
**
1002412 -AATTTGGTACCTGAGTTTTTTTTTTC
1 TAATTTGGTACCTGAGTTTTTCCTTTC
*
1002438 TAATTTGGTACTTGAG-TTTTCCTT
1 TAATTTGGTACCTGAGTTTTTCCTT
1002462 CCATGTTCAA
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
26 22 0.34
27 17 0.26
28 2 0.03
30 3 0.05
31 18 0.28
32 3 0.05
ACGTcount: A:0.19, C:0.15, G:0.16, T:0.51
Consensus pattern (27 bp):
TAATTTGGTACCTGAGTTTTTCCTTTC
Found at i:1002416 original size:57 final size:54
Alignment explanation
Indices: 1002340--1002525 Score: 205
Period size: 58 Copynumber: 3.4 Consensus size: 54
1002330 TTTGGTGAAT
* *
1002340 TTTACTTCCATGTTTAATTTGGTACCCAAGTTTTCCTTTCTAATTTGGTACTTGAG
1 TTTACTTCAATGTTCAATTTGGTACCCAAGTTTT--TTTCTAATTTGGTACTTGAG
**
1002396 TTTGACTTCAATGTTCAATTTGGTACCTGAGTTTTTTTTTTCTAATTTGGTACTTGAG
1 TTT-ACTTCAATGTTCAATTTGGTACCCAAG---TTTTTTTCTAATTTGGTACTTGAG
* * ** *
1002454 TTTTCCTTCCATGTTCAATTTGGTACCCAAGTTTTTTTCCCATTTGGTACATGAG
1 -TTTACTTCAATGTTCAATTTGGTACCCAAGTTTTTTTCTAATTTGGTACTTGAG
*
1002509 --TACTTTAATGTTCAATT
1 TTTACTTCAATGTTCAATT
1002526 CGTTACTTTA
Statistics
Matches: 111, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
52 14 0.13
55 21 0.19
56 3 0.03
57 23 0.21
58 43 0.39
59 3 0.03
60 4 0.04
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.49
Consensus pattern (54 bp):
TTTACTTCAATGTTCAATTTGGTACCCAAGTTTTTTTCTAATTTGGTACTTGAG
Found at i:1002453 original size:27 final size:28
Alignment explanation
Indices: 1002376--1002457 Score: 87
Period size: 27 Copynumber: 2.9 Consensus size: 28
1002366 CAAGTTTTCC
1002376 TTTCTAATTTGGTACTTGAGTTTGACTTCAAT
1 TTTCTAATTTGGTACTTGAGTTT---TT-AAT
* * *
1002408 GTTC-AATTTGGTACCTGAGTTTTT-TT
1 TTTCTAATTTGGTACTTGAGTTTTTAAT
1002434 TTTCTAATTTGGTACTTGAGTTTT
1 TTTCTAATTTGGTACTTGAGTTTT
1002458 CCTTCCATGT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
26 4 0.09
27 18 0.41
28 2 0.05
31 17 0.39
32 3 0.07
ACGTcount: A:0.18, C:0.11, G:0.17, T:0.54
Consensus pattern (28 bp):
TTTCTAATTTGGTACTTGAGTTTTTAAT
Found at i:1002468 original size:58 final size:58
Alignment explanation
Indices: 1002339--1002491 Score: 227
Period size: 58 Copynumber: 2.7 Consensus size: 58
1002329 ATTTGGTGAA
* **
1002339 TTTTACTTCCATGTTTAATTTGGTACCCAAG-TTTTCCTTTCTAATTTGGTACTTGAG
1 TTTTACTTCCATGTTCAATTTGGTACCCAAGTTTTTTTTTTCTAATTTGGTACTTGAG
* * **
1002396 TTTGACTTCAATGTTCAATTTGGTACCTGAGTTTTTTTTTTCTAATTTGGTACTTGAG
1 TTTTACTTCCATGTTCAATTTGGTACCCAAGTTTTTTTTTTCTAATTTGGTACTTGAG
*
1002454 TTTTCCTTCCATGTTCAATTTGGTACCCAAGTTTTTTT
1 TTTTACTTCCATGTTCAATTTGGTACCCAAGTTTTTTT
1002492 CCCATTTGGT
Statistics
Matches: 83, Mismatches: 12, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
57 26 0.31
58 57 0.69
ACGTcount: A:0.18, C:0.16, G:0.14, T:0.51
Consensus pattern (58 bp):
TTTTACTTCCATGTTCAATTTGGTACCCAAGTTTTTTTTTTCTAATTTGGTACTTGAG
Found at i:1002488 original size:31 final size:30
Alignment explanation
Indices: 1002339--1002480 Score: 104
Period size: 31 Copynumber: 4.9 Consensus size: 30
1002329 ATTTGGTGAA
* **
1002339 TTTTACTTCCATGTTTAATTTGGTACCCAAG
1 TTTTACTT-CATGTTCAATTTGGTACCTGAG
*
1002370 TTTT-C--C-T-TTCTAATTTGGTACTTGAG
1 TTTTACTTCATGTTC-AATTTGGTACCTGAG
*
1002396 TTTGACTTCAATGTTCAATTTGGTACCTGAG
1 TTTTACTTC-ATGTTCAATTTGGTACCTGAG
* *
1002427 TTTT--TT--TTTTCTAATTTGGTACTTGAG
1 TTTTACTTCATGTTC-AATTTGGTACCTGAG
*
1002454 TTTTCCTTCCATGTTCAATTTGGTACC
1 TTTTACTT-CATGTTCAATTTGGTACC
1002481 CAAGTTTTTT
Statistics
Matches: 87, Mismatches: 11, Indels: 26
0.70 0.09 0.21
Matches are distributed among these distances:
25 2 0.02
26 20 0.23
27 20 0.23
29 5 0.06
30 1 0.01
31 32 0.37
32 7 0.08
ACGTcount: A:0.18, C:0.17, G:0.15, T:0.50
Consensus pattern (30 bp):
TTTTACTTCATGTTCAATTTGGTACCTGAG
Found at i:1002655 original size:24 final size:24
Alignment explanation
Indices: 1002628--1002682 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
1002618 CAAAGTAAAC
**
1002628 ATTGAAACCAAACTCAAATACCAA
1 ATTGAAAAAAAACTCAAATACCAA
*
1002652 ATTGGAAAAAAAACTCAAGTACCAA
1 ATT-GAAAAAAAACTCAAATACCAA
1002677 ATTGAA
1 ATTGAA
1002683 TATTAAAGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 6 0.22
25 21 0.78
ACGTcount: A:0.55, C:0.18, G:0.09, T:0.18
Consensus pattern (24 bp):
ATTGAAAAAAAACTCAAATACCAA
Found at i:1003795 original size:24 final size:24
Alignment explanation
Indices: 1003740--1003796 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
1003730 ATTTAATTTA
*
1003740 ATTTT-TTAAAAATTATAAAAATAT
1 ATTTTATT-AAAATAATAAAAATAT
** *
1003764 ATACTATTAAAATAATAAAATTAT
1 ATTTTATTAAAATAATAAAAATAT
1003788 ATTTTATTA
1 ATTTTATTA
1003797 TAATTTAATT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
ATTTTATTAAAATAATAAAAATAT
Found at i:1016137 original size:31 final size:31
Alignment explanation
Indices: 1016102--1016161 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
1016092 AACAACTCAA
1016102 TGACTTAAATAAAAACTTTCAAATAGTTCAG
1 TGACTTAAATAAAAACTTTCAAATAGTTCAG
* * **
1016133 TGACTTAAATGAAAGCTTTTGAATAGTTC
1 TGACTTAAATAAAAACTTTCAAATAGTTC
1016162 GAAGAACATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCAAATAGTTCAG
Found at i:1025609 original size:15 final size:16
Alignment explanation
Indices: 1025579--1025612 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1025569 AATATGTAAT
1025579 TTTATCATTTTAATAA
1 TTTATCATTTTAATAA
*
1025595 TTTAT-ATTTTTATAA
1 TTTATCATTTTAATAA
1025610 TTT
1 TTT
1025613 TTATAGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTATCATTTTAATAA
Found at i:1026476 original size:29 final size:29
Alignment explanation
Indices: 1026421--1026481 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
1026411 TTTGATTACT
* * * *
1026421 CAATTATGAAAATTTATAGAATAATCATC
1 CAATTATGAAAAGTTACAAAATAATCACC
*
1026450 CAATTATGAAAAGTTACAAAATGATCACC
1 CAATTATGAAAAGTTACAAAATAATCACC
1026479 CAA
1 CAA
1026482 CTATTCAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.49, C:0.15, G:0.08, T:0.28
Consensus pattern (29 bp):
CAATTATGAAAAGTTACAAAATAATCACC
Found at i:1027379 original size:12 final size:13
Alignment explanation
Indices: 1027362--1027394 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
1027352 GCTTGTATTA
*
1027362 ATTTTTTATGT-T
1 ATTTTTTATATAT
1027374 ATTTTTTATATAT
1 ATTTTTTATATAT
1027387 ATTTTTTA
1 ATTTTTTA
1027395 AAAATATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (13 bp):
ATTTTTTATATAT
Found at i:1028057 original size:2 final size:2
Alignment explanation
Indices: 1028050--1028086 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1028040 GTCCATAATA
1028050 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1028087 AAATGAAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1031772 original size:15 final size:15
Alignment explanation
Indices: 1031752--1031796 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
1031742 AAACCAAGAA
*
1031752 GCTGTTGTTGCTGCT
1 GCTGTTGTTGTTGCT
1031767 GCTGTTGTTGTTGCT
1 GCTGTTGTTGTTGCT
*
1031782 GCTGCTGTTGTTGCT
1 GCTGTTGTTGTTGCT
1031797 CTTGTTCTTG
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:0.00, C:0.18, G:0.33, T:0.49
Consensus pattern (15 bp):
GCTGTTGTTGTTGCT
Found at i:1031777 original size:18 final size:18
Alignment explanation
Indices: 1031754--1031794 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
1031744 ACCAAGAAGC
1031754 TGTTGTTGCTGCTGCTGT
1 TGTTGTTGCTGCTGCTGT
1031772 TGTTGTTGCTGCTGCTGT
1 TGTTGTTGCTGCTGCTGT
1031790 TGTTG
1 TGTTG
1031795 CTCTTGTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.00, C:0.15, G:0.34, T:0.51
Consensus pattern (18 bp):
TGTTGTTGCTGCTGCTGT
Found at i:1035418 original size:21 final size:22
Alignment explanation
Indices: 1035378--1035418 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1035368 CGACGTGGTA
* *
1035378 TATTTAACTATATTAGATAAAT
1 TATTTAACTATATAAAATAAAT
1035400 TATTTAA-TATATAAAATAA
1 TATTTAACTATATAAAATAA
1035419 GAAAGTACCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
TATTTAACTATATAAAATAAAT
Found at i:1050862 original size:31 final size:31
Alignment explanation
Indices: 1050827--1050885 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
1050817 TACAGAATGG
* *
1050827 TTATTGAATTATTTAATAGTTTTTATTTAAT
1 TTATTAAATTATTTAATAATTTTTATTTAAT
1050858 TTATTAAATTATTTAATAATTTTTATTT
1 TTATTAAATTATTTAATAATTTTTATTT
1050886 GACTAAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (31 bp):
TTATTAAATTATTTAATAATTTTTATTTAAT
Found at i:1051930 original size:7 final size:7
Alignment explanation
Indices: 1051918--1051951 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
1051908 ATTAATATTT
1051918 TTTATAA
1 TTTATAA
1051925 TTTATAA
1 TTTATAA
1051932 TTTATAA
1 TTTATAA
*
1051939 TTTTATAT
1 -TTTATAA
1051947 TTTAT
1 TTTAT
1051952 GAAAATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (7 bp):
TTTATAA
Found at i:1051937 original size:14 final size:15
Alignment explanation
Indices: 1051918--1051970 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
1051908 ATTAATATTT
1051918 TTTATAA-TTTATAA
1 TTTATAATTTTATAA
*
1051932 TTTATAATTTTATAT
1 TTTATAATTTTATAA
1051947 TTTATGAAAATTTTATATA
1 TTTAT---AATTTTATA-A
1051966 TTTAT
1 TTTAT
1051971 TTCTATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 7 0.22
15 11 0.34
18 9 0.28
19 5 0.16
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (15 bp):
TTTATAATTTTATAA
Found at i:1053448 original size:5 final size:5
Alignment explanation
Indices: 1053438--1053464 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
1053428 GGGATATTTA
1053438 AAAAG AAAAG AAAAG AAAAG AAAAG AA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AA
1053465 TCTGTGTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:1055433 original size:29 final size:29
Alignment explanation
Indices: 1055383--1055445 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
1055373 TAACTTAGAT
*
1055383 ATTTATAATTTTAAAGGATTAAATTAAAA
1 ATTTATAATTTTAAAGGATTAAAGTAAAA
* ** * *
1055412 ATTTATCATTTTAGGGGGTTAAAGTACAA
1 ATTTATAATTTTAAAGGATTAAAGTAAAA
1055441 ATTTA
1 ATTTA
1055446 ACCATTTACT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.43, C:0.03, G:0.13, T:0.41
Consensus pattern (29 bp):
ATTTATAATTTTAAAGGATTAAAGTAAAA
Found at i:1057479 original size:24 final size:22
Alignment explanation
Indices: 1057451--1057495 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1057441 ATCCAATCCA
1057451 TTTTCAAGTTTATAATATATTATT
1 TTTTC-AGTTTAT-ATATATTATT
**
1057475 TTTTCTTTTTATATATATTAT
1 TTTTCAGTTTATATATATTAT
1057496 GTAATTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.47
23 5 0.26
24 5 0.26
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTTCAGTTTATATATATTATT
Found at i:1060760 original size:13 final size:13
Alignment explanation
Indices: 1060744--1060768 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1060734 ATGTCACACC
1060744 AAAAATTTTAACT
1 AAAAATTTTAACT
1060757 AAAAATTTTAAC
1 AAAAATTTTAAC
1060769 GGGATTAATA
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:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAAATTTTAACT
Found at i:1062237 original size:21 final size:21
Alignment explanation
Indices: 1062211--1062275 Score: 94
Period size: 24 Copynumber: 3.0 Consensus size: 21
1062201 TTGTTGCTTC
1062211 ACCACTATAAATTGGTCCTGA
1 ACCACTATAAATTGGTCCTGA
*
1062232 ACCACTATAAAATTGTCTTCCTGA
1 ACCACTAT-AAATTG--GTCCTGA
1062256 ACCACTATAAATTGGTCCTG
1 ACCACTATAAATTGGTCCTG
1062276 GTGGCATTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
21 13 0.33
22 6 0.15
23 6 0.15
24 14 0.36
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (21 bp):
ACCACTATAAATTGGTCCTGA
Found at i:1062334 original size:45 final size:45
Alignment explanation
Indices: 1062274--1062359 Score: 163
Period size: 45 Copynumber: 1.9 Consensus size: 45
1062264 AAATTGGTCC
1062274 TGGTGGCATTGGGGATGATGAACTCCATCCATTGCCACCACTTGG
1 TGGTGGCATTGGGGATGATGAACTCCATCCATTGCCACCACTTGG
*
1062319 TGGTGGCATTGGGGATGATGAACTCCATCCATTGCCGCCAC
1 TGGTGGCATTGGGGATGATGAACTCCATCCATTGCCACCAC
1062360 CATAGCCATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.20, C:0.26, G:0.29, T:0.26
Consensus pattern (45 bp):
TGGTGGCATTGGGGATGATGAACTCCATCCATTGCCACCACTTGG
Found at i:1062939 original size:31 final size:31
Alignment explanation
Indices: 1062869--1062939 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
1062859 TTTAACAAGC
* *
1062869 AACATTGAGGGCTAGATTGACATAATATGTA
1 AACATTGAGAGCTAGATTAACATAATATGTA
*
1062900 ATCATTGAGAGCTAGATTAACATAATATGTA
1 AACATTGAGAGCTAGATTAACATAATATGTA
*
1062931 AACTTTGAG
1 AACATTGAG
1062940 GACTAAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (31 bp):
AACATTGAGAGCTAGATTAACATAATATGTA
Found at i:1065162 original size:16 final size:16
Alignment explanation
Indices: 1065141--1065180 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
1065131 CGTTTGGTTC
*
1065141 GCTGTAATTGAATAGA
1 GCTGTAATGGAATAGA
1065157 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
1065173 ACTGTAAT
1 GCTGTAAT
1065181 AGTAATTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:1065213 original size:45 final size:44
Alignment explanation
Indices: 1065162--1065254 Score: 152
Period size: 44 Copynumber: 2.1 Consensus size: 44
1065152 ATAGAGCTGT
1065162 AATGGAATAGAACTGTAATAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGT-ATTC-ATGTGTTTGGTTGAATGG
*
1065207 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATGG
1065251 AATG
1 AATG
1065255 ATGTTGTAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.50
45 22 0.48
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATGG
Found at i:1065452 original size:57 final size:57
Alignment explanation
Indices: 1065362--1065508 Score: 147
Period size: 57 Copynumber: 2.5 Consensus size: 57
1065352 AATAAGATTA
* * * *
1065362 TTAATATAAATAATAAATAATTTAATCATA-TTTTAACATAATTATTATTAAATAT-AAT
1 TTAATA-AAATAATATATAATTTAATAAAATTTTTAACATAAATATTATT--ATATGAAT
* *
1065420 TTAATAAAATAATATATAATTTAATAAAATTTTTAATATAAATATTCTTATATGAAT
1 TTAATAAAATAATATATAATTTAATAAAATTTTTAACATAAATATTATTATATGAAT
*
1065477 TTACTAAAATCATAATATATAATTCT-ATAAAA
1 TTAAT-AAA--ATAATATATAATT-TAATAAAA
1065509 ATAATATATA
Statistics
Matches: 76, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
56 4 0.05
57 27 0.36
58 25 0.33
60 19 0.25
61 1 0.01
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.44
Consensus pattern (57 bp):
TTAATAAAATAATATATAATTTAATAAAATTTTTAACATAAATATTATTATATGAAT
Found at i:1065500 original size:23 final size:21
Alignment explanation
Indices: 1065468--1065525 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 21
1065458 TAAATATTCT
1065468 TATATGAATTTACTAAAATCATAA
1 TATAT-AATTTACTAAAA--ATAA
1065492 TATATAATTCTA-TAAAAATAA
1 TATATAATT-TACTAAAAATAA
*
1065513 TATATAATCTACT
1 TATATAATTTACT
1065526 TTATTATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 2 0.06
21 13 0.42
23 9 0.29
24 7 0.23
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.40
Consensus pattern (21 bp):
TATATAATTTACTAAAAATAA
Found at i:1067702 original size:27 final size:26
Alignment explanation
Indices: 1067644--1067702 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
1067634 GACAAAAAAA
1067644 ACAAAACTATTTAAAAAAATAAACTG
1 ACAAAACTATTTAAAAAAATAAACTG
* * **
1067670 AAAAAACTGTTTAAAAAAAATAATTTG
1 ACAAAACTATTT-AAAAAAATAAACTG
1067697 ACAAAA
1 ACAAAA
1067703 AAAGTGATGA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.63, C:0.08, G:0.05, T:0.24
Consensus pattern (26 bp):
ACAAAACTATTTAAAAAAATAAACTG
Found at i:1067775 original size:27 final size:26
Alignment explanation
Indices: 1067745--1067812 Score: 91
Period size: 27 Copynumber: 2.6 Consensus size: 26
1067735 TGCCTGGGGA
1067745 AGAGGCGGCACCGGTCACGCCTTCCCC
1 AGAGGCGGCACCGGTCACGCCTT-CCC
* **
1067772 AGAGGCGGCATCGGTCATTCCTTCCC
1 AGAGGCGGCACCGGTCACGCCTTCCC
*
1067798 AAAGGCGGCACCGGT
1 AGAGGCGGCACCGGT
1067813 TGCTGCTGCA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 16 0.44
27 20 0.56
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.15
Consensus pattern (26 bp):
AGAGGCGGCACCGGTCACGCCTTCCC
Found at i:1067938 original size:19 final size:19
Alignment explanation
Indices: 1067907--1067944 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
1067897 TAGCTAGTCG
1067907 AAAGAGAGAAAGAAGAAGA
1 AAAGAGAGAAAGAAGAAGA
1067926 AAAGA-AGAGAAGAAGAAGA
1 AAAGAGAGA-AAGAAGAAGA
1067945 GGGAGGGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (19 bp):
AAAGAGAGAAAGAAGAAGA
Found at i:1068540 original size:33 final size:35
Alignment explanation
Indices: 1068445--1068541 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
1068435 TTAATATTTT
*
1068445 AATATATGAAATATAAATTTTAAATATTT--TTAAGC
1 AATATAT-AAAT-TATATTTTAAATATTTAATTAAGC
* *
1068480 AATAAATATTAATTAT-TTATAAA-ATTTAATT-AG-
1 AAT--ATATAAATTATATTTTAAATATTTAATTAAGC
1068513 AATATATAAATTATATTTTAAATATTTAA
1 AATATATAAATTATATTTTAAATATTTAA
1068542 AGATAACCAT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 10 0.20
32 6 0.12
33 13 0.25
34 8 0.16
35 7 0.14
36 3 0.06
37 4 0.08
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (35 bp):
AATATATAAATTATATTTTAAATATTTAATTAAGC
Found at i:1069077 original size:24 final size:24
Alignment explanation
Indices: 1069050--1069095 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1069040 CTAATTAAAT
* *
1069050 TTTATAAATAATTAATATTTATTG
1 TTTAAAAATAATTAAAATTTATTG
*
1069074 TTTAAAAATATTTAAAATTTAT
1 TTTAAAAATAATTAAAATTTAT
1069096 ATTTCATATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
TTTAAAAATAATTAAAATTTATTG
Found at i:1069098 original size:30 final size:30
Alignment explanation
Indices: 1069059--1069115 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
1069049 TTTTATAAAT
1069059 AATTAATATTT-AT-TGTTTAAAAATATTTAA
1 AATTAATATTTCATATG-TT-AAAATATTTAA
*
1069089 AATTTATATTTCATATGTTAAAATATT
1 AATTAATATTTCATATGTTAAAATATT
1069116 AACAACAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (30 bp):
AATTAATATTTCATATGTTAAAATATTTAA
Found at i:1069741 original size:7 final size:7
Alignment explanation
Indices: 1069729--1069770 Score: 84
Period size: 7 Copynumber: 6.0 Consensus size: 7
1069719 CATGTCAAGC
1069729 ATATTAT
1 ATATTAT
1069736 ATATTAT
1 ATATTAT
1069743 ATATTAT
1 ATATTAT
1069750 ATATTAT
1 ATATTAT
1069757 ATATTAT
1 ATATTAT
1069764 ATATTAT
1 ATATTAT
1069771 GATTACACTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
ATATTAT
Found at i:1070474 original size:2 final size:2
Alignment explanation
Indices: 1070467--1070516 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
1070457 GGCATGTTAT
1070467 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1070509 TA T- TA TA T
1 TA TA TA TA T
1070517 TTTAAACCAA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.