Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold121
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: 1076282
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.33
Warning! 28062 characters in sequence are not A, C, G, or T
File 6 of 8
Found at i:678867 original size:21 final size:21
Alignment explanation
Indices: 678828--678867 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
678818 ATATATTGCC
* * *
678828 TAAATTTATTGGTATATTACT
1 TAAATATATTGATACATTACT
678849 TAAATATATTGATACATTA
1 TAAATATATTGATACATTA
678868 GACCAAGGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (21 bp):
TAAATATATTGATACATTACT
Found at i:678903 original size:21 final size:21
Alignment explanation
Indices: 678860--678907 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
678850 AAATATATTG
*
678860 ATACATTAGACCAAGGTACTA
1 ATACATTAGACCAAGATACTA
**
678881 ATACATTAGACCAAGATGTTA
1 ATACATTAGACCAAGATACTA
678902 ATACAT
1 ATACAT
678908 CAAGGCATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (21 bp):
ATACATTAGACCAAGATACTA
Found at i:713064 original size:32 final size:31
Alignment explanation
Indices: 713027--713101 Score: 107
Period size: 32 Copynumber: 2.4 Consensus size: 31
713017 AACCTACATT
713027 CATAACCCAATCCATAATAAAA-ATCCATAACA
1 CATAACCCAATCCATAATAAAACA--CATAACA
* *
713059 CATAACCAAACCCATAATAAAACACATAACA
1 CATAACCCAATCCATAATAAAACACATAACA
713090 CATAACCCAATC
1 CATAACCCAATC
713102 ACCCAGAACT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 17 0.45
32 20 0.53
33 1 0.03
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (31 bp):
CATAACCCAATCCATAATAAAACACATAACA
Found at i:713090 original size:31 final size:31
Alignment explanation
Indices: 713027--713096 Score: 97
Period size: 31 Copynumber: 2.2 Consensus size: 31
713017 AACCTACATT
* *
713027 CATAACCCAATCCATAATAAAAATCCATAACA
1 CATAACCAAACCCATAATAAAAA-CCATAACA
713059 CATAACCAAACCCATAAT-AAAACACATAACA
1 CATAACCAAACCCATAATAAAAAC-CATAACA
713090 CATAACC
1 CATAACC
713097 CAATCACCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
30 1 0.03
31 18 0.51
32 16 0.46
ACGTcount: A:0.54, C:0.30, G:0.00, T:0.16
Consensus pattern (31 bp):
CATAACCAAACCCATAATAAAAACCATAACA
Found at i:714938 original size:23 final size:22
Alignment explanation
Indices: 714925--714969 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
714915 TTTTTTACTA
714925 AAAAAAATGAAATTTCTTCACT
1 AAAAAAATGAAATTTCTTCACT
714947 AAAAAAATGAAATTTCTTC-CT
1 AAAAAAATGAAATTTCTTCACT
714968 AA
1 AA
714970 TCTTGTAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.31
Consensus pattern (22 bp):
AAAAAAATGAAATTTCTTCACT
Found at i:718615 original size:25 final size:25
Alignment explanation
Indices: 718578--718628 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
718568 TCCATCTCGC
*
718578 TACTCTTTGTATATCATATAATAAT
1 TACTCTTTATATATCATATAATAAT
718603 TACTCTTTATATATCATATAATAAT
1 TACTCTTTATATATCATATAATAAT
718628 T
1 T
718629 GATCATCTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.02, T:0.49
Consensus pattern (25 bp):
TACTCTTTATATATCATATAATAAT
Found at i:718953 original size:8 final size:8
Alignment explanation
Indices: 718940--718966 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
718930 AAAACTGCAT
718940 TTAACTTA
1 TTAACTTA
718948 TTAACTTA
1 TTAACTTA
718956 TTAACTTA
1 TTAACTTA
718964 TTA
1 TTA
718967 TAATAGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (8 bp):
TTAACTTA
Found at i:719087 original size:16 final size:17
Alignment explanation
Indices: 719062--719098 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
719052 TAAATTTAAT
719062 AAAAAGATAAAACAA-AC
1 AAAAAGATAAAA-AACAC
719079 AAAAA-ATAAAAAACAC
1 AAAAAGATAAAAAACAC
719095 AAAA
1 AAAA
719099 TTGATTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 2 0.11
16 12 0.63
17 5 0.26
ACGTcount: A:0.81, C:0.11, G:0.03, T:0.05
Consensus pattern (17 bp):
AAAAAGATAAAAAACAC
Found at i:719716 original size:23 final size:23
Alignment explanation
Indices: 719690--719745 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
719680 ATTAACATTT
719690 TTTAGTAATTTT-TTTAAAAAATA
1 TTTA-TAATTTTATTTAAAAAATA
* *
719713 TTTATTATTTTATTTAATAAATA
1 TTTATAATTTTATTTAAAAAATA
719736 TTTATCAATT
1 TTTAT-AATT
719746 AAAAAGTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.21
23 19 0.68
24 3 0.11
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTATAATTTTATTTAAAAAATA
Found at i:720139 original size:21 final size:21
Alignment explanation
Indices: 720096--720139 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
720086 AATAAAAATT
* *
720096 TATTAATAAATGAATAGTTAA
1 TATTAATAAAAGAATAGTCAA
720117 TATTAATAAAAGATATA-TCAA
1 TATTAATAAAAGA-ATAGTCAA
720138 TA
1 TA
720140 AAAAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (21 bp):
TATTAATAAAAGAATAGTCAA
Found at i:722787 original size:2 final size:2
Alignment explanation
Indices: 722770--722803 Score: 50
Period size: 2 Copynumber: 16.0 Consensus size: 2
722760 GTATATGTAC
722770 AT AT GAT AT CAT 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
722804 TATTTTATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 26 0.87
3 4 0.13
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:725222 original size:16 final size:16
Alignment explanation
Indices: 725198--725231 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
725188 ATATTCATAA
*
725198 ATTATTAATATTTATT
1 ATTAATAATATTTATT
725214 ATTAATAATATTTATT
1 ATTAATAATATTTATT
725230 AT
1 AT
725232 ATTTATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTAATAATATTTATT
Found at i:728720 original size:22 final size:23
Alignment explanation
Indices: 728686--728746 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
728676 GTAAAAAATA
728686 TAATATATATTTAAAAAATTATT
1 TAATATATATTTAAAAAATTATT
* * *
728709 TAATTTAT-TTTATATAATTATT
1 TAATATATATTTAAAAAATTATT
* *
728731 ATTATATTTATTTAAA
1 -TAATATATATTTAAA
728747 TATATTAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
22 12 0.41
23 12 0.41
24 5 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TAATATATATTTAAAAAATTATT
Found at i:728772 original size:17 final size:18
Alignment explanation
Indices: 728731--728773 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
728721 TATAATTATT
* *
728731 ATTATATTTATTTAAATAT
1 ATTAAATTTATTT-AATAA
728750 ATTAAATTTATTT-ATAA
1 ATTAAATTTATTTAATAA
728767 ATTAAAT
1 ATTAAAT
728774 AATTAATTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 10 0.45
19 12 0.55
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTAAATTTATTTAATAA
Found at i:728820 original size:23 final size:24
Alignment explanation
Indices: 728794--728864 Score: 67
Period size: 23 Copynumber: 3.0 Consensus size: 24
728784 TTTTATTTAA
728794 TAAATTTAATTTAA-ATTATTATT
1 TAAATTTAATTTAATATTATTATT
** *
728817 TAAA--TAATAAAATATTTTTTATT
1 TAAATTTAATTTAATA-TTATTATT
728840 TAAATTTAATTATATATATTATTAT
1 TAAATTTAATT-TA-ATATTATTAT
728865 AAAAAAAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 9
0.71 0.12 0.18
Matches are distributed among these distances:
21 6 0.17
22 1 0.03
23 15 0.42
25 4 0.11
26 7 0.19
27 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TAAATTTAATTTAATATTATTATT
Found at i:728873 original size:29 final size:30
Alignment explanation
Indices: 728841--728897 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
728831 TTTTTTATTT
728841 AAATTTAATTATAT-ATATTATTATAAAAA
1 AAATTTAATTATATAATATTATTATAAAAA
* * *
728870 AAATTTAATTTTTTAATATTATTTTAAA
1 AAATTTAATTATATAATATTATTATAAA
728898 TAATAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 12 0.50
30 12 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
AAATTTAATTATATAATATTATTATAAAAA
Found at i:730000 original size:2 final size:2
Alignment explanation
Indices: 729993--730017 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
729983 AAAAGGAGAT
729993 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
730018 CACCAAACCT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:730401 original size:14 final size:13
Alignment explanation
Indices: 730373--730423 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
730363 TTATCTTTAA
730373 TAAATTTAAATTT
1 TAAATTTAAATTT
*
730386 TAAATTTTAATATT
1 TAAATTTAAAT-TT
730400 TATAATTT--ATTT
1 TA-AATTTAAATTT
*
730412 TAATTTTAAATT
1 TAAATTTAAATT
730424 ACGTCTATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
11 4 0.12
12 4 0.12
13 15 0.47
14 4 0.12
15 5 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TAAATTTAAATTT
Found at i:731293 original size:14 final size:15
Alignment explanation
Indices: 731274--731339 Score: 68
Period size: 14 Copynumber: 4.5 Consensus size: 15
731264 TAAAATAATA
731274 ATTTATATA-TTTAT
1 ATTTATATATTTTAT
731288 ATTTATATATTTTAT
1 ATTTATATATTTTAT
731303 CATATTATA-A--TTAT
1 -AT-TTATATATTTTAT
*
731317 ATTTAAAATATTTTAT
1 ATTT-ATATATTTTAT
731333 ATTTATA
1 ATTTATA
731340 AAAATTTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
12 2 0.05
13 4 0.09
14 14 0.33
15 7 0.16
16 11 0.26
17 5 0.12
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTATATATTTTAT
Found at i:731419 original size:18 final size:17
Alignment explanation
Indices: 731376--731422 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
731366 ATTAATTTAA
731376 ATATTTAAATATT-TTTT
1 ATATTT-AATATTATTTT
731393 AT-TTT-ATATTATATTT
1 ATATTTAATATTAT-TTT
731409 ATATTTAATATTAT
1 ATATTTAATATTAT
731423 CATATTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
14 5 0.19
15 1 0.04
16 8 0.31
17 5 0.19
18 7 0.27
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
ATATTTAATATTATTTT
Found at i:731757 original size:36 final size:35
Alignment explanation
Indices: 731680--731772 Score: 89
Period size: 36 Copynumber: 2.5 Consensus size: 35
731670 ATTTTAATTT
* * *
731680 TTATATATATACTTTTAAAATATTTATTTATATTAA
1 TTATATAT-TATTTTTATATTATTTATTTATATTAA
*
731716 ATATATATTATTTTTATATTATTTGATTTATA-TATA
1 TTATATATTATTTTTATATTATTT-ATTTATATTA-A
*
731752 TTATATAATAATTATTTATAT
1 TTATAT-ATTATT-TTTATAT
731773 ACTATATTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
35 15 0.32
36 20 0.43
37 5 0.11
38 7 0.15
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (35 bp):
TTATATATTATTTTTATATTATTTATTTATATTAA
Found at i:732931 original size:2 final size:2
Alignment explanation
Indices: 732924--732953 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
732914 TTGACACCTG
*
732924 AT AT AT AT AC 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
732954 TTATTTATTT
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:732997 original size:16 final size:17
Alignment explanation
Indices: 732964--732997 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
732954 TTATTTATTT
732964 ATTTATTTTTAGTTTTA
1 ATTTATTTTTAGTTTTA
*
732981 ATTTTTTTTTA-TTTTA
1 ATTTATTTTTAGTTTTA
732997 A
1 A
732998 AGTGGTGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTATTTTTAGTTTTA
Found at i:733668 original size:22 final size:21
Alignment explanation
Indices: 733641--733681 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
733631 AATATTAAAA
733641 ATAATTT-TATATTAATATTTAT
1 ATAATTTATA-ATTAA-ATTTAT
733663 ATAATTTATAATTAAATTT
1 ATAATTTATAATTAAATTT
733682 GAATTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.22
22 12 0.67
23 2 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATAATTTATAATTAAATTTAT
Found at i:734769 original size:14 final size:14
Alignment explanation
Indices: 734752--734801 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
734742 TTTATAATTG
734752 TTATATTATATTTT
1 TTATATTATATTTT
734766 TTATATTATA--TT
1 TTATATTATATTTT
*
734778 TTATTTTAT-TTTT
1 TTATATTATATTTT
734791 TTAATATTATA
1 TT-ATATTATA
734802 CATAAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
12 10 0.33
13 4 0.13
14 16 0.53
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATATTATATTTT
Found at i:734781 original size:26 final size:26
Alignment explanation
Indices: 734732--734801 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
734722 CAGACAAGTA
734732 ATTATTATTTTTTATA--AT-TGTTAT
1 ATTA-TATTTTTTATATTATATGTTAT
*
734756 ATTATATTTTTTATATTATATTTTAT
1 ATTATATTTTTTATATTATATGTTAT
*
734782 TTTAT-TTTTTTAATATTATA
1 ATTATATTTTTT-ATATTATA
734802 CATAAAATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 4 0.10
25 8 0.20
26 17 0.43
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.69
Consensus pattern (26 bp):
ATTATATTTTTTATATTATATGTTAT
Found at i:735150 original size:28 final size:31
Alignment explanation
Indices: 735114--735181 Score: 88
Period size: 28 Copynumber: 2.3 Consensus size: 31
735104 AAAATTTGAT
* *
735114 TATTTTATTAT-ATTTATATT-ATTTTTT-A
1 TATTATATTATAACTTATATTAATTTTTTAA
*
735142 TATTATATTATAACTTATTTTAATTTTTTAA
1 TATTATATTATAACTTATATTAATTTTTTAA
735173 TATTATATT
1 TATTATATT
735182 TGTATCATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 10 0.29
29 7 0.21
30 7 0.21
31 10 0.29
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (31 bp):
TATTATATTATAACTTATATTAATTTTTTAA
Found at i:735761 original size:18 final size:19
Alignment explanation
Indices: 735734--735770 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
735724 TAGGTAACGT
*
735734 TATTTTTTTAAT-TTTAAA
1 TATTTATTTAATATTTAAA
735752 TATTTATTTAATATTTAAA
1 TATTTATTTAATATTTAAA
735771 AAATTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTTATTTAATATTTAAA
Found at i:735776 original size:20 final size:18
Alignment explanation
Indices: 735735--735777 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
735725 AGGTAACGTT
* *
735735 ATTTTTTTAATTTTAAAT
1 ATTTATTTAATTTTAAAA
735753 ATTTATTTAATATTTAAAAA
1 ATTTATTTAAT-TTT-AAAA
735773 ATTTA
1 ATTTA
735778 AATAAAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 10 0.48
19 3 0.14
20 8 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTATTTAATTTTAAAA
Found at i:735785 original size:13 final size:13
Alignment explanation
Indices: 735767--735819 Score: 54
Period size: 13 Copynumber: 3.8 Consensus size: 13
735757 ATTTAATATT
735767 TAAAAAATTTAAA
1 TAAAAAATTTAAA
735780 TAAAAACA-TTAAA
1 TAAAAA-ATTTAAA
735793 TTTAAAAATAATTTAAA
1 --T-AAAA-AATTTAAA
735810 TAAAAAATTT
1 TAAAAAATTT
735820 TATTTGTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
13 16 0.47
14 5 0.15
15 2 0.06
16 5 0.15
17 6 0.18
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (13 bp):
TAAAAAATTTAAA
Found at i:735830 original size:31 final size:29
Alignment explanation
Indices: 735764--735857 Score: 102
Period size: 30 Copynumber: 3.2 Consensus size: 29
735754 TTTATTTAAT
*
735764 ATTTAAAA-AATTTAAATAAAAACA-TTAA
1 ATTTAAAATAATTTAAATAAAAA-ATTTTA
735792 ATTTAAAAATAATTTAAATAAAAAATTTTA
1 ATTT-AAAATAATTTAAATAAAAAATTTTA
* * **
735822 TTTGTAAAATAAATTAAATTCAAAATTTTA
1 ATT-TAAAATAATTTAAATAAAAAATTTTA
735852 ATTTAA
1 ATTTAA
735858 TTTAATTAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
28 4 0.07
29 8 0.14
30 43 0.77
31 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.39
Consensus pattern (29 bp):
ATTTAAAATAATTTAAATAAAAAATTTTA
Found at i:735897 original size:24 final size:21
Alignment explanation
Indices: 735879--735917 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
735869 ATATTTTTAA
735879 TTATA-TAATTTATATTATTT
1 TTATATTAATTTATATTATTT
*
735899 TTATATTTATTTATATTAT
1 TTATATTAATTTATATTAT
735918 ATTCATAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTATATTAATTTATATTATTT
Found at i:735903 original size:11 final size:11
Alignment explanation
Indices: 735886--735920 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
735876 TAATTATATA
735886 ATTTATATTAT
1 ATTTATATTAT
*
735897 TTTTATATT-T
1 ATTTATATTAT
735907 ATTTATATTAT
1 ATTTATATTAT
735918 ATT
1 ATT
735921 CATAACATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
ATTTATATTAT
Found at i:735917 original size:26 final size:24
Alignment explanation
Indices: 735847--735920 Score: 78
Period size: 26 Copynumber: 2.9 Consensus size: 24
735837 AAATTCAAAA
*
735847 TTTTAATTTAATTTAATTAAATATAT
1 TTTTAATTT-ATTTAATTATAT-TAT
*
735873 TTTTAA-TTATATAATTTATATTAT
1 TTTTAATTTATTTAA-TTATATTAT
735897 TTTTATATTTATTTATATTATATT
1 TTTTA-ATTTATTTA-ATTATATT
735921 CATAACATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
24 13 0.32
25 8 0.20
26 19 0.46
27 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTTAATTTATTTAATTATATTAT
Found at i:736441 original size:19 final size:19
Alignment explanation
Indices: 736405--736440 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
736395 CAAATTACTA
*
736405 AAAATTAATATTTTAAAAG
1 AAAATAAATATTTTAAAAG
736424 AAAATAAAT-TTTTAAAA
1 AAAATAAATATTTTAAAA
736441 AATAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (19 bp):
AAAATAAATATTTTAAAAG
Found at i:736478 original size:10 final size:10
Alignment explanation
Indices: 736447--736513 Score: 57
Period size: 10 Copynumber: 6.7 Consensus size: 10
736437 AAAAAATAAA
736447 AAAT-AATAT
1 AAATAAATAT
736456 AAATAAACT-T
1 AAATAAA-TAT
736466 AAATAAATAT
1 AAATAAATAT
**
736476 AAACTATTTAT
1 AAA-TAAATAT
**
736487 TTATAAATAT
1 AAATAAATAT
*
736497 AAATAAATTT
1 AAATAAATAT
736507 AAATAAA
1 AAATAAA
736514 ATTTAAAATT
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
9 5 0.11
10 33 0.73
11 7 0.16
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (10 bp):
AAATAAATAT
Found at i:736496 original size:41 final size:40
Alignment explanation
Indices: 736451--736560 Score: 125
Period size: 41 Copynumber: 2.7 Consensus size: 40
736441 AATAAAAAAT
* *
736451 AATATAAATAAACTTAAATAAATATAAACTATT-TATTTATA
1 AATATAAATAAATTTAAATAAATATAAAAT-TTATATTTA-A
*
736492 AATATAAATAAATTTAAATAAAATTTAAAATTTATATTTAA
1 AATATAAATAAATTTAAAT-AAATATAAAATTTATATTTAA
* *
736533 AAT-TAAATTATATTTAAACAAATATAAA
1 AATATAAA-TAAATTTAAATAAATATAAA
736561 TAATATAGAT
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
40 12 0.20
41 33 0.55
42 15 0.25
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (40 bp):
AATATAAATAAATTTAAATAAATATAAAATTTATATTTAA
Found at i:739095 original size:30 final size:30
Alignment explanation
Indices: 739028--739095 Score: 70
Period size: 30 Copynumber: 2.2 Consensus size: 30
739018 GATATTGATC
*
739028 GTAAACTTGATGAATTAGACGTAATTACTCT
1 GTAAA-TTGATGAATTAGACATAATTACTCT
739059 -TAAAATTGATGAATATTAGACAT-ATTACT-T
1 GT-AAATTGATG-A-ATTAGACATAATTACTCT
739089 GTAAATT
1 GTAAATT
739096 TAACCGTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
30 13 0.41
31 11 0.34
32 8 0.25
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (30 bp):
GTAAATTGATGAATTAGACATAATTACTCT
Found at i:740595 original size:14 final size:14
Alignment explanation
Indices: 740549--740595 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
740539 ATTATATATT
740549 TATATAAATTTTAA
1 TATATAAATTTTAA
* * *
740563 TATATTAATATTAT
1 TATATAAATTTTAA
740577 TATATAAATTTTAA
1 TATATAAATTTTAA
*
740591 CATAT
1 TATAT
740596 TTATATATTT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (14 bp):
TATATAAATTTTAA
Found at i:740617 original size:28 final size:28
Alignment explanation
Indices: 740540--740609 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
740530 GTTTAAAGTA
*
740540 TTATATATTTATATAAATTTTAATATAT
1 TTATATATTTATATAAATTTTAACATAT
*
740568 TAATAT-TATTATATAAATTTTAACATAT
1 TTATATAT-TTATATAAATTTTAACATAT
740596 TTATATATTTATAT
1 TTATATATTTATAT
740610 TATTTTTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 1 0.03
28 35 0.95
29 1 0.03
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (28 bp):
TTATATATTTATATAAATTTTAACATAT
Found at i:741313 original size:3 final size:3
Alignment explanation
Indices: 741296--741331 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
741286 CTTATTTGAA
*
741296 TAT TAT TCT TA- TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
741332 TCAAGTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:741976 original size:9 final size:10
Alignment explanation
Indices: 741962--742006 Score: 56
Period size: 11 Copynumber: 4.3 Consensus size: 10
741952 GATTAAATGG
741962 ATTTTTAAAT
1 ATTTTTAAAT
741972 ATTTTATTAAAT
1 A-TTT-TTAAAT
741984 ATATTTTAAAT
1 AT-TTTTAAAT
741995 -TTTTTAAAT
1 ATTTTTAAAT
742004 ATT
1 ATT
742007 AATTCGGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
9 8 0.26
10 4 0.13
11 10 0.32
12 9 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
ATTTTTAAAT
Found at i:741989 original size:24 final size:23
Alignment explanation
Indices: 741953--742000 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
741943 TTTAATTAAG
*
741953 ATTAAATGGATTTTTAAATATTTT
1 ATTAAATAGA-TTTTAAATATTTT
* *
741977 ATTAAATATATTTTAAATTTTTT
1 ATTAAATAGATTTTAAATATTTT
742000 A
1 A
742001 AATATTAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (23 bp):
ATTAAATAGATTTTAAATATTTT
Found at i:742419 original size:16 final size:16
Alignment explanation
Indices: 742400--742452 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
742390 GAACTCAAAA
742400 AAACTCAAACCTGAAT
1 AAACTCAAACCTGAAT
*
742416 AAACTCGAACCTGAAT
1 AAACTCAAACCTGAAT
* *
742432 AAATTCAAACCTAAAT
1 AAACTCAAACCTGAAT
742448 AAACT
1 AAACT
742453 TGAACCCGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.51, C:0.23, G:0.06, T:0.21
Consensus pattern (16 bp):
AAACTCAAACCTGAAT
Found at i:742458 original size:16 final size:16
Alignment explanation
Indices: 742407--742463 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
742397 AAAAAACTCA
*
742407 AACCTGAATAAACTCG
1 AACCTGAATAAACTTG
*
742423 AACCTGAATAAA-TTCA
1 AACCTGAATAAACTT-G
*
742439 AACCTAAATAAACTTG
1 AACCTGAATAAACTTG
*
742455 AACCCGAAT
1 AACCTGAAT
742464 GAACCTAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 1 0.03
16 30 0.91
17 2 0.06
ACGTcount: A:0.47, C:0.23, G:0.09, T:0.21
Consensus pattern (16 bp):
AACCTGAATAAACTTG
Found at i:742474 original size:32 final size:32
Alignment explanation
Indices: 742400--742463 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
742390 GAACTCAAAA
* *
742400 AAACTCAAACCTGAATAAACTCGAACCTGAAT
1 AAACTCAAACCTAAATAAACTCGAACCCGAAT
* *
742432 AAATTCAAACCTAAATAAACTTGAACCCGAAT
1 AAACTCAAACCTAAATAAACTCGAACCCGAAT
742464 GAACCTAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.48, C:0.23, G:0.08, T:0.20
Consensus pattern (32 bp):
AAACTCAAACCTAAATAAACTCGAACCCGAAT
Found at i:742649 original size:27 final size:27
Alignment explanation
Indices: 742596--742658 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
742586 AATTTTTTTT
* *
742596 TAAATTATCTTTTAATAATAACATAATT
1 TAAATAAT-TTTTAATAATAACATAATA
* * **
742624 TTAATAATTTTTAATTATAATTTAATA
1 TAAATAATTTTTAATAATAACATAATA
742651 TAAATAAT
1 TAAATAAT
742659 ATAATTTATA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
27 22 0.79
28 6 0.21
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (27 bp):
TAAATAATTTTTAATAATAACATAATA
Found at i:742659 original size:30 final size:31
Alignment explanation
Indices: 742625--742696 Score: 85
Period size: 33 Copynumber: 2.3 Consensus size: 31
742615 AACATAATTT
742625 TAATAATTTTTA-ATTATAATTTAATATAAA
1 TAATAATTTTTATATTATAATTTAATATAAA
* * *
742655 TAATATAATTTATATTTTATTATTTAATATAAA
1 T-A-ATAATTTTTATATTATAATTTAATATAAA
742688 T-ATAATTTT
1 TAATAATTTT
742697 AAAATTTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 8 0.23
31 1 0.03
32 9 0.26
33 17 0.49
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (31 bp):
TAATAATTTTTATATTATAATTTAATATAAA
Found at i:746565 original size:22 final size:22
Alignment explanation
Indices: 746530--746571 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
746520 CCGCTTTAAA
*
746530 AAAAATAATGAATCTTTTTTTT
1 AAAAATAATGAATCTCTTTTTT
746552 AAAAATAACT-AATCTCTTTT
1 AAAAATAA-TGAATCTCTTTT
746572 AAAAATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (22 bp):
AAAAATAATGAATCTCTTTTTT
Found at i:746904 original size:2 final size:2
Alignment explanation
Indices: 746893--746927 Score: 52
Period size: 2 Copynumber: 16.5 Consensus size: 2
746883 ATATAGTGTG
746893 TA TA TGA TA TA TA TA TA TA TA TA TA TCA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA T-A TA TA TA T
746928 TATCATAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 27 0.87
3 4 0.13
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:746931 original size:12 final size:11
Alignment explanation
Indices: 746893--746934 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
746883 ATATAGTGTG
*
746893 TATATGATATA
1 TATATCATATA
746904 TATAT-ATATA
1 TATATCATATA
746914 TATATCATATA
1 TATATCATATA
746925 TATTATCATA
1 TA-TATCATA
746935 ACAATCAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.34
11 12 0.41
12 7 0.24
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (11 bp):
TATATCATATA
Found at i:747397 original size:2 final size:2
Alignment explanation
Indices: 747390--747415 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
747380 TTCTGAAGTT
747390 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
747416 GTCCGTAGGA
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):
TA
Found at i:747786 original size:14 final size:13
Alignment explanation
Indices: 747763--747797 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
747753 CTATACCTAT
747763 AAAAAAAAAAAGA
1 AAAAAAAAAAAGA
747776 AAAAGAAAAAAAGA
1 AAAA-AAAAAAAGA
747790 AACAAAAA
1 AA-AAAAA
747798 CTGGACTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.20
14 14 0.70
15 2 0.10
ACGTcount: A:0.89, C:0.03, G:0.09, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAGA
Found at i:747786 original size:18 final size:18
Alignment explanation
Indices: 747763--747797 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
747753 CTATACCTAT
*
747763 AAAAAAAAAAAGAAAAAG
1 AAAAAAAAAAACAAAAAG
*
747781 AAAAAAAGAAACAAAAA
1 AAAAAAAAAAACAAAAA
747798 CTGGACTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.89, C:0.03, G:0.09, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAACAAAAAG
Found at i:758264 original size:2 final size:2
Alignment explanation
Indices: 758257--758295 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
758247 CTACTACATA
758257 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 A
758296 AGTAGAGGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:764340 original size:18 final size:19
Alignment explanation
Indices: 764319--764362 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
764309 AATGTGATTG
*
764319 ATTAAAGTAA-TATTTTTA
1 ATTAAAATAATTATTTTTA
764337 ATTAAAATAATTTATTTTTA
1 ATTAAAATAA-TTATTTTTA
*
764357 TTTAAA
1 ATTAAA
764363 TTTAATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 9 0.41
20 13 0.59
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
ATTAAAATAATTATTTTTA
Found at i:764833 original size:16 final size:16
Alignment explanation
Indices: 764797--764835 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
764787 TAATATCACT
764797 TATA-AAATTTAAAAA
1 TATATAAATTTAAAAA
*
764812 TA-ATAAATTTATAAA
1 TATATAAATTTAAAAA
764827 TATATAAAT
1 TATATAAAT
764836 AAAGAACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 14 0.67
16 6 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TATATAAATTTAAAAA
Found at i:767087 original size:15 final size:16
Alignment explanation
Indices: 767055--767088 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
767045 TGTTATTAAT
*
767055 AATTCAAAAAATTATA
1 AATTAAAAAAATTATA
767071 AATTAAAAAAATT-TA
1 AATTAAAAAAATTATA
767086 AAT
1 AAT
767089 ATATAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
AATTAAAAAAATTATA
Found at i:767093 original size:23 final size:22
Alignment explanation
Indices: 767063--767105 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
767053 ATAATTCAAA
767063 AAATTATAAATTAAAAAAATTT
1 AAATTATAAATTAAAAAAATTT
*
767085 AAATATATAAATTAAATAAAT
1 AAAT-TATAAATTAAAAAAAT
767106 AAAATTAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATTATAAATTAAAAAAATTT
Found at i:768381 original size:23 final size:22
Alignment explanation
Indices: 768351--768408 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
768341 ATTATTCATA
768351 AATT-AATAATAAATATTTTTAT
1 AATTAAATAATAAAT-TTTTTAT
*
768373 AATTAAATAAAATAATTTTTTAT
1 AATTAAATAATA-AATTTTTTAT
*
768396 TATTAAATAATAA
1 AATTAAATAATAA
768409 TTTAAGATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 5 0.16
23 23 0.74
24 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AATTAAATAATAAATTTTTTAT
Found at i:768739 original size:2 final size:2
Alignment explanation
Indices: 768732--768758 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
768722 CGTTAAGATA
768732 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 A
768759 AGTATAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:769210 original size:16 final size:16
Alignment explanation
Indices: 769169--769231 Score: 53
Period size: 16 Copynumber: 4.0 Consensus size: 16
769159 TTTTTGTATT
*
769169 ATAA-TTATATTTAAA
1 ATAATTTATATTTATA
769184 AT-ATTATATATTTATA
1 ATAATT-TATATTTATA
*
769200 A-AATTTGATATATA-A
1 ATAATTT-ATATTTATA
769215 ATAATTTATATTATATA
1 ATAATTTATATT-TATA
769232 TATTTTAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
14 1 0.03
15 10 0.26
16 26 0.68
17 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
ATAATTTATATTTATA
Found at i:769873 original size:14 final size:15
Alignment explanation
Indices: 769840--769881 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
769830 TATGGCGCTA
*
769840 AATATATATAAATATG
1 AATATATAT-TATATG
769856 AATATATATTATAT-
1 AATATATATTATATG
*
769870 AATATAAATTAT
1 AATATATATTAT
769882 TAAAATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 11 0.46
15 4 0.17
16 9 0.38
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (15 bp):
AATATATATTATATG
Found at i:769888 original size:35 final size:34
Alignment explanation
Indices: 769849--769919 Score: 81
Period size: 35 Copynumber: 2.1 Consensus size: 34
769839 AAATATATAT
* *
769849 AAATATGAATATATAT-TATATAATATAAATTATTA
1 AAATATGAAAATATATATAAAT-ATATAAATT-TTA
* *
769884 AAATATTAAAATTTATATAAATATATAAATTTTA
1 AAATATGAAAATATATATAAATATATAAATTTTA
769918 AA
1 AA
769920 TAAAATTATG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
34 5 0.16
35 22 0.71
36 4 0.13
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (34 bp):
AAATATGAAAATATATATAAATATATAAATTTTA
Found at i:769907 original size:47 final size:45
Alignment explanation
Indices: 769851--769973 Score: 114
Period size: 47 Copynumber: 2.8 Consensus size: 45
769841 ATATATATAA
* *
769851 ATATGAATATATATTATATAATATAAATTATTAAAATATTAAAATTT
1 ATATAAATATATATTATATAATATAAATTATTAAAAGATTAAAA--T
* * *
769898 ATATAAATATATAAATTTTA-AATA-AAATTA-TGATAGATTAAAAT
1 ATATAAATATAT--ATTATATAATATAAATTATTAAAAGATTAAAAT
*
769942 ATATAAATATA-A-TATAT-ATATGAATTATTAAA
1 ATATAAATATATATTATATAATATAAATTATTAAA
769974 TTTACAAAGT
Statistics
Matches: 62, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
40 6 0.10
41 6 0.10
42 2 0.03
44 12 0.19
46 10 0.16
47 17 0.27
48 4 0.06
49 5 0.08
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (45 bp):
ATATAAATATATATTATATAATATAAATTATTAAAAGATTAAAAT
Found at i:769912 original size:19 final size:18
Alignment explanation
Indices: 769884--769927 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
769874 TAAATTATTA
*
769884 AAATATTAAAATTTATAT
1 AAATATTAAAATTTAAAT
*
769902 AAATATATAAATTTTAAAT
1 AAATAT-TAAAATTTAAAT
769921 AAA-ATTA
1 AAATATTA
769928 TGATAGATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 8 0.35
19 13 0.57
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATATTAAAATTTAAAT
Found at i:771401 original size:18 final size:18
Alignment explanation
Indices: 771380--771415 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
771370 TAAATTAAAT
771380 AAAT-TTTATTAATAATAA
1 AAATATTTA-TAATAATAA
771398 AAATATTTATAATAATAA
1 AAATATTTATAATAATAA
771416 TTTAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATATTTATAATAATAA
Found at i:773211 original size:20 final size:21
Alignment explanation
Indices: 773162--773244 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 21
773152 ATTTTTAAAA
773162 TATTTTATATATTTATATAAT
1 TATTTTATATATTTATATAAT
*
773183 TA-TTAATATA-TTA-ATAATT
1 TATTTTATATATTTATATAA-T
773202 TATTTTATATAAATTTTAATATAAT
1 TATTTTATAT--A-TTT-ATATAAT
*
773227 TATTTGTAT-TATATATAT
1 TATTT-TATATATTTATAT
773245 TTTTATTATT
Statistics
Matches: 50, Mismatches: 3, Indels: 18
0.70 0.04 0.25
Matches are distributed among these distances:
18 4 0.08
19 6 0.12
20 13 0.26
21 6 0.12
22 3 0.06
23 1 0.02
24 2 0.04
25 8 0.16
26 7 0.14
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (21 bp):
TATTTTATATATTTATATAAT
Found at i:773527 original size:18 final size:18
Alignment explanation
Indices: 773493--773529 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
773483 AGGAATTATG
**
773493 TTCCTTTTTTTTTTTTTT
1 TTCCTTTTTTTCATTTTT
773511 TTCCTTTTTTTCATTTTT
1 TTCCTTTTTTTCATTTTT
773529 T
1 T
773530 GGGGCAACCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.84
Consensus pattern (18 bp):
TTCCTTTTTTTCATTTTT
Found at i:774465 original size:2 final size:2
Alignment explanation
Indices: 774458--774495 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
774448 TTCCGTCGAT
*
774458 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TG TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
774496 CTTTTTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.47, G:0.03, T:0.50
Consensus pattern (2 bp):
TC
Found at i:776199 original size:90 final size:88
Alignment explanation
Indices: 776048--776222 Score: 237
Period size: 90 Copynumber: 2.0 Consensus size: 88
776038 TATTAAATTT
* * **
776048 TCAGTGAAGCAACTCATAATTACTTATCAATTTTTTGTTAGATTTTGAGTGTCTTAAAGAGAGCT
1 TCAGTGAACCAACTCATAATTAATTATCAATTTTTTGGCAGATTTTGAGTGTCTTAAAGAGAGCT
*
776113 TTGTAT-TATTTTTGGATATTGTG
66 CTGT-TCTATTTTTGGATATTGTG
* *
776136 TCAGTGAACCAACTCATAGTTAATTAT-AATTCTTTTTGGCAGGTTTTAGAGTGTCTTAAAGAGA
1 TCAGTGAACCAACTCATAATTAATTATCAA-T-TTTTTGGCAGATTTT-GAGTGTCTTAAAGAGA
776200 GCTCTGTTCTATTTTTGGATATT
63 GCTCTGTTCTATTTTTGGATATT
776223 ATGTTTTGCA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
87 2 0.03
88 25 0.33
89 13 0.17
90 36 0.47
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.44
Consensus pattern (88 bp):
TCAGTGAACCAACTCATAATTAATTATCAATTTTTTGGCAGATTTTGAGTGTCTTAAAGAGAGCT
CTGTTCTATTTTTGGATATTGTG
Found at i:796610 original size:64 final size:66
Alignment explanation
Indices: 796536--796661 Score: 213
Period size: 67 Copynumber: 1.9 Consensus size: 66
796526 TTTAAAAAAT
796536 TTTCAATCATATTGTAGA-AATTATT-GAGT-AATTTTCTCCCTCATAAACTCTTCATGAAAGAT
1 TTTCAATCATATTGTAGATAATTATTGGAGTCAA-TTTCTCCCTCATAAACTCTTCATGAAAGAT
796598 AA
65 AA
796600 TTTCAATCATATTGTAGATTAATTATTGGAGTCAATTTCTCCCTCATAAACTCTTCATGAAA
1 TTTCAATCATATTGTAGA-TAATTATTGGAGTCAATTTCTCCCTCATAAACTCTTCATGAAA
796662 AGAAAGTGAA
Statistics
Matches: 58, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
64 18 0.31
66 7 0.12
67 31 0.53
68 2 0.03
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.40
Consensus pattern (66 bp):
TTTCAATCATATTGTAGATAATTATTGGAGTCAATTTCTCCCTCATAAACTCTTCATGAAAGATA
A
Found at i:801181 original size:19 final size:18
Alignment explanation
Indices: 801098--801181 Score: 79
Period size: 16 Copynumber: 4.8 Consensus size: 18
801088 GATATCTAGA
801098 AAATCAGGAAATCT-CA-
1 AAATCAGGAAATCTGCAG
* *
801114 AAATCAGTAAATTTGCAG
1 AAATCAGGAAATCTGCAG
*
801132 ATAT--GGAAATCTGCAG
1 AAATCAGGAAATCTGCAG
801148 AAATCA-GAAAGTCTGCTAG
1 AAATCAGGAAA-TCTGC-AG
*
801167 AAATTAGGAAATCTG
1 AAATCAGGAAATCTG
801182 GAAATCTGAA
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
16 25 0.46
17 6 0.11
18 8 0.15
19 11 0.20
20 4 0.07
ACGTcount: A:0.44, C:0.13, G:0.19, T:0.24
Consensus pattern (18 bp):
AAATCAGGAAATCTGCAG
Found at i:801184 original size:8 final size:8
Alignment explanation
Indices: 801173--801204 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
801163 CTAGAAATTA
801173 GGAAATCT
1 GGAAATCT
801181 GGAAATCT
1 GGAAATCT
*
801189 GAAAATCT
1 GGAAATCT
801197 GGAAATCT
1 GGAAATCT
801205 ACAGTATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.25
Consensus pattern (8 bp):
GGAAATCT
Found at i:801559 original size:34 final size:34
Alignment explanation
Indices: 801521--801625 Score: 97
Period size: 34 Copynumber: 3.1 Consensus size: 34
801511 GATAGATGTA
801521 AAAGGGGATTTAAATAAATTATCAGACTTGACTT
1 AAAGGGGATTTAAATAAATTATCAGACTTGACTT
* * * * ** * ** * *
801555 AAA--GGAATAAAAAAAAGTAAAAAACTACAGTA
1 AAAGGGGATTTAAATAAATTATCAGACTTGACTT
801587 AAAGGGGATTTAAATAAATTATCAGACTTGACTT
1 AAAGGGGATTTAAATAAATTATCAGACTTGACTT
801621 AAAGG
1 AAAGG
801626 AATAATGAAA
Statistics
Matches: 47, Mismatches: 22, Indels: 4
0.64 0.30 0.05
Matches are distributed among these distances:
32 21 0.45
34 26 0.55
ACGTcount: A:0.50, C:0.08, G:0.17, T:0.25
Consensus pattern (34 bp):
AAAGGGGATTTAAATAAATTATCAGACTTGACTT
Found at i:801624 original size:66 final size:66
Alignment explanation
Indices: 801518--801654 Score: 256
Period size: 66 Copynumber: 2.1 Consensus size: 66
801508 TGAGATAGAT
801518 GTAAAAGGGGATTTAAATAAATTATCAGACTTGACTTAAAGGAATAAAAAAAAGTAAAAAACTAC
1 GTAAAAGGGGATTTAAATAAATTATCAGACTTGACTTAAAGGAATAAAAAAAAGTAAAAAACTAC
801583 A
66 A
**
801584 GTAAAAGGGGATTTAAATAAATTATCAGACTTGACTTAAAGGAATAATGAAAAGTAAAAAACTAC
1 GTAAAAGGGGATTTAAATAAATTATCAGACTTGACTTAAAGGAATAAAAAAAAGTAAAAAACTAC
801649 A
66 A
801650 GTAAA
1 GTAAA
801655 GTTGTTGGTA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 69 1.00
ACGTcount: A:0.53, C:0.07, G:0.16, T:0.23
Consensus pattern (66 bp):
GTAAAAGGGGATTTAAATAAATTATCAGACTTGACTTAAAGGAATAAAAAAAAGTAAAAAACTAC
A
Found at i:809775 original size:24 final size:24
Alignment explanation
Indices: 809726--809775 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
809716 TAGGGATCAT
* *
809726 AATCTTCTAAGATATTGTTCCGCA
1 AATCTTCTAAGATATCGTTCCACA
809750 AATCTTCTAAGATATCG-TCCAACA
1 AATCTTCTAAGATATCGTTCC-ACA
809774 AA
1 AA
809776 AGCCTTATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.32
Consensus pattern (24 bp):
AATCTTCTAAGATATCGTTCCACA
Found at i:816584 original size:15 final size:15
Alignment explanation
Indices: 816564--816595 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
816554 ATAGACGTAA
816564 AAACAGATAGGAGAG
1 AAACAGATAGGAGAG
*
816579 AAACAGATTGGAGAG
1 AAACAGATAGGAGAG
816594 AA
1 AA
816596 TAGCTTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.31, T:0.09
Consensus pattern (15 bp):
AAACAGATAGGAGAG
Found at i:816835 original size:19 final size:18
Alignment explanation
Indices: 816773--816845 Score: 73
Period size: 16 Copynumber: 4.2 Consensus size: 18
816763 AAAAATCAAG
*
816773 AAATCT-CA-AAATCAGT
1 AAATCTGCAGAAATCAGA
* *
816789 AAATTTGCAG--ATCTGA
1 AAATCTGCAGAAATCAGA
*
816805 AAATCTGCAGAAATCAGG
1 AAATCTGCAGAAATCAGA
816823 AAATCTGCTAGAAATCAGA
1 AAATCTGC-AGAAATCAGA
816842 AAAT
1 AAAT
816846 ATGGAAATCT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
16 18 0.40
17 2 0.04
18 12 0.27
19 13 0.29
ACGTcount: A:0.47, C:0.15, G:0.15, T:0.23
Consensus pattern (18 bp):
AAATCTGCAGAAATCAGA
Found at i:817270 original size:14 final size:14
Alignment explanation
Indices: 817251--817279 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
817241 TTCTCCAAGT
817251 AACTAGGTTGCCCC
1 AACTAGGTTGCCCC
817265 AACTAGGTTGCCCC
1 AACTAGGTTGCCCC
817279 A
1 A
817280 TACATAAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (14 bp):
AACTAGGTTGCCCC
Found at i:820173 original size:18 final size:18
Alignment explanation
Indices: 820150--820187 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
820140 ATCTGAAGCT
820150 TCGGAATCTATAATCCAC
1 TCGGAATCTATAATCCAC
820168 TCGGAATCTATAATCCAC
1 TCGGAATCTATAATCCAC
820186 TC
1 TC
820188 TGATGAGTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.29, G:0.11, T:0.29
Consensus pattern (18 bp):
TCGGAATCTATAATCCAC
Found at i:820640 original size:19 final size:18
Alignment explanation
Indices: 820568--820649 Score: 82
Period size: 16 Copynumber: 4.7 Consensus size: 18
820558 GATATCTAGA
*
820568 AAATCAGGAAATCT-CA-
1 AAATCAGAAAATCTGCAG
* *
820584 AAATCAGTAAATTTGCAG
1 AAATCAGAAAATCTGCAG
*
820602 --ATCTGAAAATCTGCAG
1 AAATCAGAAAATCTGCAG
820618 AAATCAGAAAATCTGCTAG
1 AAATCAGAAAATCTGC-AG
*
820637 AAATCAGGAAATC
1 AAATCAGAAAATC
820650 AGGAAATTTG
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
16 25 0.46
17 2 0.04
18 13 0.24
19 14 0.26
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (18 bp):
AAATCAGAAAATCTGCAG
Found at i:820682 original size:16 final size:16
Alignment explanation
Indices: 820643--820682 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
820633 CTAGAAATCA
* *
820643 GGAAATCAGGAAATTT
1 GGAAATCTGAAAATTT
*
820659 GAAAATCTGAAAATTT
1 GGAAATCTGAAAATTT
820675 GGAAATCT
1 GGAAATCT
820683 ACAGTTACAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.28
Consensus pattern (16 bp):
GGAAATCTGAAAATTT
Found at i:826644 original size:452 final size:452
Alignment explanation
Indices: 825800--827154 Score: 2692
Period size: 452 Copynumber: 3.0 Consensus size: 452
825790 CCAGTTTGTG
*
825800 ATTTGTGATTTGCAACGAGGATGAATCTCCATAAACTGGTGCAGAATTGATGCTAGTAAGGGACG
1 ATTTGTGATTTGCAACTAGGATGAATCTCCATAAACTGGTGCAGAATTGATGCTAGTAAGGGACG
825865 AAGGCCTTGCTGTGGATGAGGAACCAGAATCATCCTTTCCTTCCATGATGGGTGATCAATTTTTA
66 AAGGCCTTGCTGTGGATGAGGAACCAGAATCATCCTTTCCTTCCATGATGGGTGATCAATTTTTA
825930 TGGATGTTTAGTGTGGCAGAGGGGAAAAAAAAATTGACAGAGGAAGATAGAGGCAGGTTGATCAG
131 TGGATGTTTAGTGTGGCAGAGGGGAAAAAAAAATTGACAGAGGAAGATAGAGGCAGGTTGATCAG
825995 CAGTGCATGCTGGAAAAATTGACAAGAATCTCTGATACCATAAAATCGATAGGTTCAATTTGAAT
196 CAGTGCATGCTGGAAAAATTGACAAGAATCTCTGATACCATAAAATCGATAGGTTCAATTTGAAT
*
826060 TGAAAGCTATATTTTTCATTGATAGTGTAAAGACTATATATACAGGCTGCTCTACATAAAATCAG
261 TGAAAGCTATATTTTTCATTGATAGTGTAAAGACTATATATACAGGCTGCTCTACACAAAATCAG
826125 GAAGAAAATAAACTAATTTCCTATTTTACAGATTTACACAATCTTTATTCTAGGAAACAAATCAG
326 GAAGAAAATAAACTAATTTCCTATTTTACAGATTTACACAATCTTTATTCTAGGAAACAAATCAG
826190 CCTTAAGAATAGGAAAAAATATTCCTAACTATTTCCTAAAATAGGTCCAAGATTTGCAACAA
391 CCTTAAGAATAGGAAAAAATATTCCTAACTATTTCCTAAAATAGGTCCAAGATTTGCAACAA
826252 ATTTGTGATTTGCAACTAGGATGAATCTCCATAAACTGGTGCAGAATTGATGCTAGTAAGGGACG
1 ATTTGTGATTTGCAACTAGGATGAATCTCCATAAACTGGTGCAGAATTGATGCTAGTAAGGGACG
826317 AAGGCCTTGCTGTGGATGAGGAACCAGAATCATCCTTTCCTTCCATGATGGGTGATCAATTTTTA
66 AAGGCCTTGCTGTGGATGAGGAACCAGAATCATCCTTTCCTTCCATGATGGGTGATCAATTTTTA
826382 TGGATGTTTAGTGTGGCAGAGGGGAAAAAAAAATTGACAGAGGAAGATAGAGGCAGGTTGATCAG
131 TGGATGTTTAGTGTGGCAGAGGGGAAAAAAAAATTGACAGAGGAAGATAGAGGCAGGTTGATCAG
826447 CAGTGCATGCTGGAAAAATTGACAAGAATCTCTGATACCATAAAATCGATAGGTTCAATTTGAAT
196 CAGTGCATGCTGGAAAAATTGACAAGAATCTCTGATACCATAAAATCGATAGGTTCAATTTGAAT
826512 TGAAAGCTATATTTTTCATTGATAGTGTAAAGACTATATATACAGGCTGCTCTACACAAAATCAG
261 TGAAAGCTATATTTTTCATTGATAGTGTAAAGACTATATATACAGGCTGCTCTACACAAAATCAG
826577 GAAGAAAATAAACTAATTTCCTATTTTACAGATTTACACAATCTTTATTCTAGGAAACAAATCAG
326 GAAGAAAATAAACTAATTTCCTATTTTACAGATTTACACAATCTTTATTCTAGGAAACAAATCAG
826642 CCTTAAGAATAGGAAAAAATATTCCTAACTATTTCCTAAAATAGGTCCAAGATTTGCAACAA
391 CCTTAAGAATAGGAAAAAATATTCCTAACTATTTCCTAAAATAGGTCCAAGATTTGCAACAA
826704 ATTTGTGATTTGCAACTAGGATGAATCTCCATAAACTGGTGCAGAATTGATGCTAGTAAGGGACG
1 ATTTGTGATTTGCAACTAGGATGAATCTCCATAAACTGGTGCAGAATTGATGCTAGTAAGGGACG
826769 AAGGCCTTGCTGTGGATGAGGAACCAGAATCATCCTTTCCTTCCATGATGGGTGATCAATTTTTA
66 AAGGCCTTGCTGTGGATGAGGAACCAGAATCATCCTTTCCTTCCATGATGGGTGATCAATTTTTA
826834 TGGATGTTTAGTGTGGCAGAGGGGAAAAAAAAATTGACAGAGGAAGATAGAGGCAGGTTGATCAG
131 TGGATGTTTAGTGTGGCAGAGGGGAAAAAAAAATTGACAGAGGAAGATAGAGGCAGGTTGATCAG
826899 CAGTGCATGCTGGAAAAATTGACAAGAATCTCTGATACCATAAAATCGATAGGTTCAATTTGAAT
196 CAGTGCATGCTGGAAAAATTGACAAGAATCTCTGATACCATAAAATCGATAGGTTCAATTTGAAT
826964 TGAAAGCTATATTTTTCATTGATAGTGTAAAGACTATATATACAGGCTGCTCTACACAAAATCAG
261 TGAAAGCTATATTTTTCATTGATAGTGTAAAGACTATATATACAGGCTGCTCTACACAAAATCAG
827029 GAAGAAAATAAACTAATTTCCTATTTTACAGATTTACACAATCTTTATTCTAGGAAACAAATCAG
326 GAAGAAAATAAACTAATTTCCTATTTTACAGATTTACACAATCTTTATTCTAGGAAACAAATCAG
827094 CCTTAAGAATAGGAAAAAATATTCCTAACTATTTCCTAAAATAGGTCCAAGATTTGCAACA
391 CCTTAAGAATAGGAAAAAATATTCCTAACTATTTCCTAAAATAGGTCCAAGATTTGCAACA
827155 GGTACTAACA
Statistics
Matches: 901, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
452 901 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (452 bp):
ATTTGTGATTTGCAACTAGGATGAATCTCCATAAACTGGTGCAGAATTGATGCTAGTAAGGGACG
AAGGCCTTGCTGTGGATGAGGAACCAGAATCATCCTTTCCTTCCATGATGGGTGATCAATTTTTA
TGGATGTTTAGTGTGGCAGAGGGGAAAAAAAAATTGACAGAGGAAGATAGAGGCAGGTTGATCAG
CAGTGCATGCTGGAAAAATTGACAAGAATCTCTGATACCATAAAATCGATAGGTTCAATTTGAAT
TGAAAGCTATATTTTTCATTGATAGTGTAAAGACTATATATACAGGCTGCTCTACACAAAATCAG
GAAGAAAATAAACTAATTTCCTATTTTACAGATTTACACAATCTTTATTCTAGGAAACAAATCAG
CCTTAAGAATAGGAAAAAATATTCCTAACTATTTCCTAAAATAGGTCCAAGATTTGCAACAA
Found at i:832001 original size:14 final size:14
Alignment explanation
Indices: 831940--832012 Score: 51
Period size: 14 Copynumber: 5.1 Consensus size: 14
831930 CTATAATAAG
* *
831940 TAATAAATAACATA
1 TAATTAATAATATA
831954 TAATTAATAATAATA
1 TAATTAATAAT-ATA
* * *
831969 TACA--CATTATATG
1 TA-ATTAATAATATA
*
831982 TTATTAATAATATA
1 TAATTAATAATATA
831996 TAATTAATAATAATA
1 TAATTAATAAT-ATA
832011 TA
1 TA
832013 CGCATTATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
12 1 0.02
13 3 0.07
14 29 0.66
15 10 0.23
16 1 0.02
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (14 bp):
TAATTAATAATATA
Found at i:836187 original size:79 final size:79
Alignment explanation
Indices: 835933--836442 Score: 416
Period size: 79 Copynumber: 6.5 Consensus size: 79
835923 AATGGGGTTT
* * * * * * * * *
835933 GAGTATTCCCTCGAAAACAACGAGGTTGGAGTAT-TCTCGATAGTCAAAAACCGATATTTTAGAA
1 GAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCT-GATGGTGAAAAATCGATATTTTAAAA
835997 ATAAAA-CTGTGG-TTG
65 ATAAAATC-G-GGATTG
*** * * * ** *
836012 GAGT-T-TTTTTGGAAATAACAGGGTTAGAGTATCTTTGATGGTGAAAAAATCGATATTTTGAAA
1 GAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCTGATGGTG-AAAAATCGATATTTTAAAA
836075 ATAAAAAT-GGGATTG
65 AT-AAAATCGGGATTG
* * * *
836090 GAGCATCCTC-TCAGAAATAACGGGGTTGGAGTATCCCTGATGGTTG-AAAATCAATATTTTAAA
1 GAGTATCCCCTTGA-AAATAACGGGGTTGGAGTATCCCTGATGG-TGAAAAATCGATATTTTAAA
*
836153 AATAAAATCGGGGTTG
64 AATAAAATCGGGATTG
* * * * *
836169 AAGTATCCCCTTGAAAATAACGGGGTTGGAGCATCCCCGATGGT-AGAAAATTGATATTTTGAAA
1 GAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCTGATGGTGA-AAAATCGATATTTTAAAA
836233 ATAAAATCGGGATTG
65 ATAAAATCGGGATTG
* * * * * *
836248 GAGTATCCCTTTAAAAATAACGAGGTTGGAATATCCCCGATGATGAAAAATCGATATTTTAAAAA
1 GAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCTGATGGTGAAAAATCGATATTTTAAAAA
836313 -AAGAA-CTGAGG-TTG
66 TAA-AATC-G-GGATTG
* * *
836327 GAGTAT-CCCTTAGAAAATAACGGGGTTAGAGTATCCCTAATAGTGAAAAATCGATATTTTAAAA
1 GAGTATCCCCTT-GAAAATAACGGGGTTGGAGTATCCCTGATGGTGAAAAATCGATATTTTAAAA
* *
836391 ATAGAATTGGGATTG
65 ATAAAATCGGGATTG
* * ** * *
836406 GAATATTCTATCGAAAATAACGGGGTTGGAATATCCC
1 GAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCC
836443 CAATGGTCCT
Statistics
Matches: 346, Mismatches: 63, Indels: 44
0.76 0.14 0.10
Matches are distributed among these distances:
77 25 0.07
78 43 0.12
79 242 0.70
80 34 0.10
81 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.29
Consensus pattern (79 bp):
GAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCTGATGGTGAAAAATCGATATTTTAAAAA
TAAAATCGGGATTG
Found at i:839060 original size:34 final size:35
Alignment explanation
Indices: 839022--839088 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
839012 CCTTACAACA
839022 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
839056 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
839089 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:839564 original size:13 final size:13
Alignment explanation
Indices: 839546--839571 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
839536 CAATTTTTTG
839546 TGTATCGATACAT
1 TGTATCGATACAT
839559 TGTATCGATACAT
1 TGTATCGATACAT
839572 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:839636 original size:21 final size:21
Alignment explanation
Indices: 839610--839685 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
839600 CTGCCAAGAA
839610 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
839631 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
839651 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
839672 ATGTATCGATACAT
1 ATGTATCGATACAT
839686 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:839655 original size:20 final size:20
Alignment explanation
Indices: 839630--839703 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
839620 ACATCTTTTT
839630 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
839650 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
839671 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
839691 CATGTATCGATAC
1 CATGTATCGATAC
839704 TTTTAAGGGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:839667 original size:41 final size:41
Alignment explanation
Indices: 839610--839703 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
839600 CTGCCAAGAA
839610 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
839651 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
839692 ATGTATCGATAC
1 ATGTATCGATAC
839704 TTTTAAGGGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:840353 original size:23 final size:23
Alignment explanation
Indices: 840323--840369 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
840313 ATCTCCCCCT
840323 TAATCAAGTAATTCATATCAAAA
1 TAATCAAGTAATTCATATCAAAA
840346 TAATCAAGTAATTCATATCAAAA
1 TAATCAAGTAATTCATATCAAAA
840369 T
1 T
840370 TTATTTGCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAATCAAGTAATTCATATCAAAA
Found at i:841538 original size:13 final size:13
Alignment explanation
Indices: 841520--841544 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
841510 ACTGAAGCAA
841520 TGTATCGATACAT
1 TGTATCGATACAT
841533 TGTATCGATACA
1 TGTATCGATACA
841545 ATCTGGAAAA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:842144 original size:23 final size:24
Alignment explanation
Indices: 842099--842145 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
842089 CAAAGAATTG
*
842099 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
842123 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
842146 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:844729 original size:34 final size:35
Alignment explanation
Indices: 844691--844757 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
844681 CCTTACAACA
844691 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
844725 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
844758 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:845233 original size:13 final size:13
Alignment explanation
Indices: 845215--845240 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
845205 CAATTTTTTG
845215 TGTATCGATACAT
1 TGTATCGATACAT
845228 TGTATCGATACAT
1 TGTATCGATACAT
845241 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:845305 original size:21 final size:21
Alignment explanation
Indices: 845279--845354 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
845269 CTGCCAAGAA
845279 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
845300 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
845320 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
845341 ATGTATCGATACAT
1 ATGTATCGATACAT
845355 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:845324 original size:20 final size:20
Alignment explanation
Indices: 845299--845372 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
845289 ACATCTTTTT
845299 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
845319 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
845340 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
845360 CATGTATCGATAC
1 CATGTATCGATAC
845373 TTTTAAGGGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:845336 original size:41 final size:41
Alignment explanation
Indices: 845279--845372 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
845269 CTGCCAAGAA
845279 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
845320 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
845361 ATGTATCGATAC
1 ATGTATCGATAC
845373 TTTTAAGGGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:846073 original size:22 final size:21
Alignment explanation
Indices: 846048--846102 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
846038 AAAACTTAAA
846048 ATGTATCGATAAAATTATAAGT
1 ATGTATCGATAAAATT-TAAGT
* **
846070 ATGTATCGAT-ACATTTACTT
1 ATGTATCGATAAAATTTAAGT
846090 ATGTATCGATAAA
1 ATGTATCGATAAA
846103 TTTCCTTGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 13 0.46
21 5 0.18
22 10 0.36
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (21 bp):
ATGTATCGATAAAATTTAAGT
Found at i:847698 original size:21 final size:21
Alignment explanation
Indices: 847674--847714 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
847664 TGTTTGCATT
* *
847674 TCATTTTTGATTTTTTTATTA
1 TCATATTTGATTGTTTTATTA
*
847695 TCATATTTGCTTGTTTTATT
1 TCATATTTGATTGTTTTATT
847715 TATATGTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.68
Consensus pattern (21 bp):
TCATATTTGATTGTTTTATTA
Found at i:851580 original size:2 final size:2
Alignment explanation
Indices: 851573--851603 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
851563 GATAAATTGC
851573 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 A
851604 ATGGAGGGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:851933 original size:3 final size:3
Alignment explanation
Indices: 851925--851960 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
851915 AACTAGATAC
851925 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
851961 TTAGAACTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:852431 original size:14 final size:14
Alignment explanation
Indices: 852408--852450 Score: 61
Period size: 14 Copynumber: 3.0 Consensus size: 14
852398 TTAGCTTGAG
852408 TTTT-AAATAAAAT
1 TTTTCAAATAAAAT
852421 TTTTCAAATAAAAT
1 TTTTCAAATAAAAT
852435 TTATTCAATATAAAAT
1 TT-TTCAA-ATAAAAT
852451 ATTATTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.15
14 11 0.41
15 5 0.19
16 7 0.26
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (14 bp):
TTTTCAAATAAAAT
Found at i:852471 original size:17 final size:18
Alignment explanation
Indices: 852427--852474 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
852417 AAATTTTTCA
*
852427 AATAAAATTTATTCAATAT
1 AATAAAA-TTATTTAATAT
*
852446 AA-AATATTATTTAAT-T
1 AATAAAATTATTTAATAT
852462 AATAAAATTATTT
1 AATAAAATTATTT
852475 TATTTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 3 0.12
17 17 0.68
18 3 0.12
19 2 0.08
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
AATAAAATTATTTAATAT
Found at i:852899 original size:18 final size:18
Alignment explanation
Indices: 852873--852910 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
852863 TAATAATTTA
852873 AAAATATTTAATTTAAATT
1 AAAATATTTAATTT-AATT
852892 AAAA-ATTTAATTTAATT
1 AAAATATTTAATTTAATT
852909 AA
1 AA
852911 TTTATATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
18 9 0.47
19 4 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AAAATATTTAATTTAATT
Found at i:852956 original size:22 final size:22
Alignment explanation
Indices: 852925--852972 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
852915 TATTATTATC
852925 TTTAAGATAT-AATATTTAATAAA
1 TTTAAGATATCAATATTT-AT-AA
852948 TTTAA-ATATCAATATTTATAA
1 TTTAAGATATCAATATTTATAA
852969 TTTA
1 TTTA
852973 TTTTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.25
22 6 0.25
23 12 0.50
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TTTAAGATATCAATATTTATAA
Found at i:853019 original size:25 final size:24
Alignment explanation
Indices: 852973--853021 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
852963 TTATAATTTA
* **
852973 TTTTTTTATTATCAAATTATAACT
1 TTTTTTTATTATAAAAAAATAACT
852997 TTTTTTTATATATAAAAAAATAACT
1 TTTTTTTAT-TATAAAAAAATAACT
853022 AATCTGAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (24 bp):
TTTTTTTATTATAAAAAAATAACT
Found at i:853380 original size:2 final size:2
Alignment explanation
Indices: 853368--853411 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
853358 TTGAAGGTCC
853368 AT AT A- 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
853409 AT A
1 AT A
853412 AAATTTATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:854027 original size:25 final size:27
Alignment explanation
Indices: 853981--854036 Score: 82
Period size: 25 Copynumber: 2.2 Consensus size: 27
853971 ATATATTTTT
853981 TATT-TTATAATTATAAATATAATAAA
1 TATTATTATAATTATAAATATAATAAA
*
854007 TATTATTAT-ATT-TAATTATAATAAA
1 TATTATTATAATTATAAATATAATAAA
854032 TATTA
1 TATTA
854037 ATAATAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 17 0.61
26 7 0.25
27 4 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
TATTATTATAATTATAAATATAATAAA
Found at i:858108 original size:189 final size:190
Alignment explanation
Indices: 857758--858136 Score: 609
Period size: 189 Copynumber: 2.0 Consensus size: 190
857748 AATTTCATAT
* * ** *
857758 TAAAAAATTAAAAATAGAACAATTATAGTTATTTAGATTTTTACTGAGAAATCTTTTTGTAAAGT
1 TAAAAAATTAAAAATAGAACAATGATAGTAATTTAGATTTTTACCAAAAAATCTTTTTGTAAAGT
* * *
857823 TACAAATAAAACAAAAGTAATTACTTTTTTCTTTTACAATAATAATTTTAAATTTTAAATTAATC
66 TACAAAGAAAACAAAAGTAATTACTTTTTTCTTTTACAATAATAATTTAAAATTTTAAACTAATC
* *
857888 AATAATTAAAAATTATTATAATAGGTATGTATATAATTATTACATTATTTTACATAAAAA
131 AAAAATTAAAAATTATTATAATAGATATGTATATAATTATTACATTATTTTACATAAAAA
*
857948 TAAAAGAA-TAAAAATAGAATAATGATAGTAATTTAGATTTTTACCAAAAAATCTTTTTGTAAAG
1 TAAAA-AATTAAAAATAGAACAATGATAGTAATTTAGATTTTTACCAAAAAATCTTTTTGTAAAG
* *
858012 TTACAAAGAAAATAAAAGTAATTA-TTTTTTTTTTTACAATAATAATTTAAAATTTTAAACTAAT
65 TTACAAAGAAAACAAAAGTAATTACTTTTTTCTTTTACAATAATAATTTAAAATTTTAAACTAAT
*
858076 CAAAAATTAAAAATTATTATAATAGATATGTATATAATTATTACATTATTTTATATAAAAA
130 CAAAAATTAAAAATTATTATAATAGATATGTATATAATTATTACATTATTTTACATAAAAA
858137 CAAGAACATA
Statistics
Matches: 174, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
189 95 0.55
190 77 0.44
191 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.06, T:0.41
Consensus pattern (190 bp):
TAAAAAATTAAAAATAGAACAATGATAGTAATTTAGATTTTTACCAAAAAATCTTTTTGTAAAGT
TACAAAGAAAACAAAAGTAATTACTTTTTTCTTTTACAATAATAATTTAAAATTTTAAACTAATC
AAAAATTAAAAATTATTATAATAGATATGTATATAATTATTACATTATTTTACATAAAAA
Found at i:858331 original size:16 final size:16
Alignment explanation
Indices: 858312--858363 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
858302 AGTTAGAGTT
*
858312 ATTTCGAGTTCGAATC
1 ATTTCGAATTCGAATC
**
858328 ATTTCGAATTTAAATC
1 ATTTCGAATTCGAATC
*
858344 ATTTTGAATTCGAATC
1 ATTTCGAATTCGAATC
858360 ATTT
1 ATTT
858364 TAAATTTAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (16 bp):
ATTTCGAATTCGAATC
Found at i:858364 original size:16 final size:16
Alignment explanation
Indices: 858320--858369 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
858310 TTATTTCGAG
*
858320 TTCGAATCATTTCGAA
1 TTCGAATCATTTTGAA
**
858336 TTTAAATCATTTTGAA
1 TTCGAATCATTTTGAA
*
858352 TTCGAATCATTTTAAA
1 TTCGAATCATTTTGAA
858368 TT
1 TT
858370 TAAGTAAATC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.46
Consensus pattern (16 bp):
TTCGAATCATTTTGAA
Found at i:858803 original size:19 final size:18
Alignment explanation
Indices: 858775--858820 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
858765 ATTTGATCTA
* * *
858775 AAAATATTTAATTTTTTT
1 AAAATTTTTAATATATTT
858793 AAATATTTTTAATATATTT
1 AAA-ATTTTTAATATATTT
858812 AAAATTTTT
1 AAAATTTTT
858821 TAAAAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
AAAATTTTTAATATATTT
Found at i:861061 original size:24 final size:24
Alignment explanation
Indices: 861034--861080 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
861024 TAGTACTTCT
* *
861034 ATTAAAATTCTAGTATCATGTTGG
1 ATTAAAATTCTAGGAACATGTTGG
861058 ATTAAAATTCTAGGAACATGTTG
1 ATTAAAATTCTAGGAACATGTTG
861081 AATTTATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (24 bp):
ATTAAAATTCTAGGAACATGTTGG
Found at i:861322 original size:27 final size:25
Alignment explanation
Indices: 861292--861343 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
861282 ATTTAAAAAA
861292 AATTGATAATATATTTTTTATTATATT
1 AATTGATAA-ATA-TTTTTATTATATT
** *
861319 AATTTTTAAATATTTTTATTTTATT
1 AATTGATAAATATTTTTATTATATT
861344 TAATAAAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 12 0.55
26 3 0.14
27 7 0.32
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
AATTGATAAATATTTTTATTATATT
Found at i:863975 original size:37 final size:38
Alignment explanation
Indices: 863925--864002 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 38
863915 GCTAATGCGC
863925 TTAGCGCATCACATAAACGCATTGTTCAAT-AAAAATT
1 TTAGCGCATCACATAAACGCATTGTTCAATAAAAAATT
* **
863962 TTAGCGCATCACATAAATGCATTGTTTGATAAAAAATT
1 TTAGCGCATCACATAAACGCATTGTTCAATAAAAAATT
864000 TTA
1 TTA
864003 TTGATTCCGT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
37 27 0.73
38 10 0.27
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (38 bp):
TTAGCGCATCACATAAACGCATTGTTCAATAAAAAATT
Found at i:864060 original size:32 final size:32
Alignment explanation
Indices: 864014--864083 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
864004 TGATTCCGTT
*
864014 ATCTCTGTCATCTCTTACAAAAGATATCTTAA
1 ATCTATGTCATCTCTTACAAAAGATATCTTAA
864046 ATCTATGTCATCTCTTACAAAAGATATCTTAA
1 ATCTATGTCATCTCTTACAAAAGATATCTTAA
864078 ATCTAT
1 ATCTAT
864084 TCAACGATGC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.36, C:0.20, G:0.06, T:0.39
Consensus pattern (32 bp):
ATCTATGTCATCTCTTACAAAAGATATCTTAA
Found at i:864882 original size:14 final size:14
Alignment explanation
Indices: 864857--864899 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
864847 ATATATTTTT
864857 TAAAAATATAATAAC
1 TAAAAAT-TAATAAC
*
864872 TAAAAATTAATAAA
1 TAAAAATTAATAAC
864886 TAAAAATT-ATAAC
1 TAAAAATTAATAAC
864899 T
1 T
864900 TTAAAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 5 0.19
14 14 0.54
15 7 0.27
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (14 bp):
TAAAAATTAATAAC
Found at i:865125 original size:18 final size:19
Alignment explanation
Indices: 865099--865134 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
865089 TTGATTAAAA
*
865099 AATTCATATTT-TTTATTT
1 AATTAATATTTATTTATTT
865117 AATTAATATTTATTTATT
1 AATTAATATTTATTTATT
865135 AATATAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
AATTAATATTTATTTATTT
Done.