Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold364
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: 2089110
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 10
Found at i:650231 original size:21 final size:21
Alignment explanation
Indices: 650202--650253 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
650192 TTAAGAGTTA
* **
650202 TTTTTAAAAAAATTTGA-TAT
1 TTTTTAAAAAAAATAAATTAT
*
650222 TTTTTAAAAATAATAAATTAT
1 TTTTTAAAAAAAATAAATTAT
650243 TTTTTAAAAAA
1 TTTTTAAAAAA
650254 GTCGATCCTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
TTTTTAAAAAAAATAAATTAT
Found at i:650885 original size:26 final size:29
Alignment explanation
Indices: 650856--650919 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 29
650846 ATTATTAATT
650856 ATAAATATA-ATTTTCAT-AA-TTTATAA
1 ATAAATATATATTTTCATAAACTTTATAA
* *
650882 ATAAAT-TATATTTTTATAAACTTTATTA
1 ATAAATATATATTTTCATAAACTTTATAA
650910 ATAAATATAT
1 ATAAATATAT
650920 TAAAAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 2 0.06
26 13 0.41
27 2 0.06
28 12 0.38
29 3 0.09
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (29 bp):
ATAAATATATATTTTCATAAACTTTATAA
Found at i:652780 original size:2 final size:2
Alignment explanation
Indices: 652773--652799 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
652763 CAACGTTTGT
652773 TA 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 TA T
652800 CTTCCAGGAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:655503 original size:2 final size:2
Alignment explanation
Indices: 655498--655523 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
655488 TATACGTAAG
655498 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
655524 ATTCTAAAAA
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:660226 original size:21 final size:18
Alignment explanation
Indices: 660212--660270 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
660202 AATATGTAAT
660212 AAATAATAATTAATATAA
1 AAATAATAATTAATATAA
*
660230 AAATTATAATTAAT-TAA
1 AAATAATAATTAATATAA
* * *
660247 TATTAATATATTATTATCAA
1 AAATAATA-ATTAATAT-AA
660267 AAAT
1 AAAT
660271 TAACACGTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
17 8 0.26
18 18 0.58
19 1 0.03
20 4 0.13
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATAATAATTAATATAA
Found at i:662165 original size:2 final size:2
Alignment explanation
Indices: 662152--662187 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
662142 ATCACAGGTT
* *
662152 TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
662188 GATAAACCCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:664755 original size:2 final size:2
Alignment explanation
Indices: 664750--664774 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
664740 CTTTTTTTTA
664750 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
664775 AGGTATCCTT
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:665906 original size:28 final size:24
Alignment explanation
Indices: 665848--665908 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 24
665838 AGTGTATTTA
*
665848 TTTA-TATTTTTAAAAATTTTATT
1 TTTATTATTTATAAAAATTTTATT
665871 TTTATTATTTATATAAAATTATTATAT
1 TTTATTATTTATA-AAAATT-TTAT-T
665898 TTTATTTATTT
1 TTTA-TTATTT
665909 TCTTAGAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
23 4 0.12
24 7 0.22
25 6 0.19
26 4 0.12
27 5 0.16
28 6 0.19
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTATTATTTATAAAAATTTTATT
Found at i:667913 original size:9 final size:10
Alignment explanation
Indices: 667891--667933 Score: 54
Period size: 9 Copynumber: 4.4 Consensus size: 10
667881 TAAAATATTT
*
667891 TTATATTATA
1 TTATAATATA
667901 TTATAAT-TA
1 TTATAATATA
667910 TTAT-ATATA
1 TTATAATATA
667919 TTATAATCATA
1 TTATAAT-ATA
667930 TTAT
1 TTAT
667934 CGGATCTATC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
8 2 0.07
9 12 0.41
10 8 0.28
11 7 0.24
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (10 bp):
TTATAATATA
Found at i:667923 original size:55 final size:55
Alignment explanation
Indices: 667807--667923 Score: 123
Period size: 55 Copynumber: 2.1 Consensus size: 55
667797 TTATATATTT
* *
667807 TATTATATTATAATTATTTTTAAAATATTTTATATAAATTTTTAATAAATAAATA
1 TATTATATTATAATTAATTTTAAAATATTTTATATAAATTTATAATAAATAAATA
* * * * *
667862 -ATTTATATTAT-TTTAATTTTAAAATATTTT-TATATTATATTATAATTATTATATA
1 TA-TTATATTATAATTAATTTTAAAATATTTTATATA-AAT-TTATAATAAATAAATA
667917 TATTATA
1 TATTATA
667924 ATCATATTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
53 4 0.08
54 20 0.39
55 26 0.51
56 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (55 bp):
TATTATATTATAATTAATTTTAAAATATTTTATATAAATTTATAATAAATAAATA
Found at i:669855 original size:2 final size:2
Alignment explanation
Indices: 669848--669886 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
669838 TAGATTAAAA
* * *
669848 AG AG AG AG AG AG AG AG GG AG AG AG AG AA AG AG TG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
669887 TTTGGTAACG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.49, T:0.03
Consensus pattern (2 bp):
AG
Found at i:672282 original size:4 final size:4
Alignment explanation
Indices: 672275--672300 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
672265 CGCGCTATAT
672275 ATGG ATGG ATGG ATGG ATGG ATGG AT
1 ATGG ATGG ATGG ATGG ATGG ATGG AT
672301 AGATTATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.46, T:0.27
Consensus pattern (4 bp):
ATGG
Found at i:672988 original size:24 final size:25
Alignment explanation
Indices: 672961--673016 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
672951 ATTCTAATAC
672961 ATTTATTT-ATATAAGAATTCAATT
1 ATTTATTTAATATAAGAATTCAATT
* * * *
672985 ATTT-TTTAATATACGCATTTATTT
1 ATTTATTTAATATAAGAATTCAATT
673009 ATTTATTT
1 ATTTATTT
673017 GTTTATCATG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 3 0.12
24 20 0.77
25 3 0.12
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (25 bp):
ATTTATTTAATATAAGAATTCAATT
Found at i:675306 original size:21 final size:23
Alignment explanation
Indices: 675267--675321 Score: 89
Period size: 22 Copynumber: 2.5 Consensus size: 23
675257 ATTATTTAAA
675267 AATATTTAAATATTTTTAT-ATT
1 AATATTTAAATATTTTTATAATT
675289 AATATTTAAATA-TTTTATAATT
1 AATATTTAAATATTTTTATAATT
675311 AA-ATTTAAATA
1 AATATTTAAATA
675322 AAATTTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 15 0.47
22 17 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
AATATTTAAATATTTTTATAATT
Found at i:675331 original size:29 final size:27
Alignment explanation
Indices: 675299--675354 Score: 69
Period size: 26 Copynumber: 2.0 Consensus size: 27
675289 AATATTTAAA
675299 TATTTTATAATTAAATTTAAATAA-AATTT
1 TATTTT-TAATTAAA--TAAATAATAATTT
*
675328 TATTTTTTATTAAATAAATAATAATTT
1 TATTTTTAATTAAATAAATAATAATTT
675355 AAGTACAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 7 0.28
27 5 0.20
28 7 0.28
29 6 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
TATTTTTAATTAAATAAATAATAATTT
Found at i:676990 original size:26 final size:26
Alignment explanation
Indices: 676938--676990 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
676928 TATTATTTTT
* * *
676938 ATTTAATAAAATAAAAGTTATATTAA
1 ATTTAAAAAAATAAAAGTCATAATAA
676964 ATTTAAAAAAATTAAAA-TCATAATAA
1 ATTTAAAAAAA-TAAAAGTCATAATAA
676990 A
1 A
676991 ATAATTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (26 bp):
ATTTAAAAAAATAAAAGTCATAATAA
Found at i:677039 original size:16 final size:17
Alignment explanation
Indices: 677010--677041 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
677000 AATTGATATT
677010 AATTAAATTTATTCATA
1 AATTAAATTTATTCATA
677027 AATTAAA-TTATTCAT
1 AATTAAATTTATTCAT
677042 CTAAACCGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTAAATTTATTCATA
Found at i:677577 original size:15 final size:15
Alignment explanation
Indices: 677557--677614 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
677547 ATATTTTATT
677557 TTATTTTAAAAATTA
1 TTATTTTAAAAATTA
677572 TTATTTCAGATAAAAATTA
1 TTATTT----TAAAAATTA
*
677591 TT-TTTTAAAAACTA
1 TTATTTTAAAAATTA
*
677605 TCATTTTAAA
1 TTATTTTAAA
677615 TGATAATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 9 0.25
15 13 0.36
18 3 0.08
19 11 0.31
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (15 bp):
TTATTTTAAAAATTA
Found at i:679103 original size:34 final size:33
Alignment explanation
Indices: 679057--679236 Score: 211
Period size: 34 Copynumber: 5.4 Consensus size: 33
679047 GTAAAAACCA
*
679057 CCATTTAATCAACAATGGCAACTTACCAAATCTC
1 CCATTTAATCAACAATGGTAAC-TACCAAATCTC
* *
679091 CCATTTAGTCAACAATGGTAAGTTACCAAATCTC
1 CCATTTAATCAACAATGGTAA-CTACCAAATCTC
679125 CCATTTAATCAACAATGGTAAGCTACCAAATCT-
1 CCATTTAATCAACAATGGTAA-CTACCAAATCTC
* * *
679158 CCATTTAGTCAACAATGGTAAACCACCAAATCAC
1 CCATTTAATCAACAATGGT-AACTACCAAATCTC
* * * *
679192 CCATTTAATCAACAATGATAAATTACTAAATC-A
1 CCATTTAATCAACAATGGT-AACTACCAAATCTC
679225 CCATTTAATCAA
1 CCATTTAATCAA
679237 TAATTCTCTA
Statistics
Matches: 129, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
33 39 0.30
34 90 0.70
ACGTcount: A:0.41, C:0.25, G:0.07, T:0.27
Consensus pattern (33 bp):
CCATTTAATCAACAATGGTAACTACCAAATCTC
Found at i:679195 original size:67 final size:66
Alignment explanation
Indices: 679057--679236 Score: 234
Period size: 67 Copynumber: 2.7 Consensus size: 66
679047 GTAAAAACCA
* ***
679057 CCATTTAATCAACAATGGCAACTTACCAAATCTCCCATTTAGTCAACAATGGTAAGTTACCAAAT
1 CCATTTAATCAACAATGGTAAC-TACCAAATCT-CCATTTAGTCAACAATGGTAAACCACCAAAT
*
679122 CTC
64 CAC
679125 CCATTTAATCAACAATGGTAAGCTACCAAATCTCCATTTAGTCAACAATGGTAAACCACCAAATC
1 CCATTTAATCAACAATGGTAA-CTACCAAATCTCCATTTAGTCAACAATGGTAAACCACCAAATC
679190 AC
65 AC
* * * * *
679192 CCATTTAATCAACAATGATAAATTACTAAATCACCATTTAATCAA
1 CCATTTAATCAACAATGGT-AACTACCAAATCTCCATTTAGTCAA
679237 TAATTCTCTA
Statistics
Matches: 100, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
67 67 0.67
68 32 0.32
69 1 0.01
ACGTcount: A:0.41, C:0.25, G:0.07, T:0.27
Consensus pattern (66 bp):
CCATTTAATCAACAATGGTAACTACCAAATCTCCATTTAGTCAACAATGGTAAACCACCAAATCA
C
Found at i:683338 original size:19 final size:19
Alignment explanation
Indices: 683314--683352 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
683304 TGTACAGTAA
*
683314 CCGTATACTTGAATAATAC
1 CCGTATACATGAATAATAC
*
683333 CCGTATACATGAATAGTAC
1 CCGTATACATGAATAATAC
683352 C
1 C
683353 TCGACAACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (19 bp):
CCGTATACATGAATAATAC
Found at i:683769 original size:33 final size:33
Alignment explanation
Indices: 683657--683806 Score: 160
Period size: 34 Copynumber: 4.5 Consensus size: 33
683647 TGGTAAAAAC
*
683657 CACCATTTAATCAACAATGAC-AACCTATCAAAT
1 CACCATTTAATCAACAATGACAAACC-ACCAAAT
* * * * * *
683690 CTCCCATTTAGTTAACAAT-AGTAAGCTACCAAAT
1 C-ACCATTTAATCAACAATGA-CAAACCACCAAAT
683724 CACCCATTTAATCAACAATGACAAACCACCAAAT
1 CA-CCATTTAATCAACAATGACAAACCACCAAAT
* * *
683758 CACCATTTAATCAACAATGATAAACTACTAAAT
1 CACCATTTAATCAACAATGACAAACCACCAAAT
683791 CACCATTTAATCAACA
1 CACCATTTAATCAACA
683807 TTATATAATA
Statistics
Matches: 96, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
33 46 0.48
34 47 0.49
35 3 0.03
ACGTcount: A:0.45, C:0.27, G:0.04, T:0.25
Consensus pattern (33 bp):
CACCATTTAATCAACAATGACAAACCACCAAAT
Found at i:691224 original size:16 final size:16
Alignment explanation
Indices: 691203--691236 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
691193 CACGAATATC
691203 TTTCGTGTCGTAATTG
1 TTTCGTGTCGTAATTG
691219 TTTCGTGTCGTAATTG
1 TTTCGTGTCGTAATTG
691235 TT
1 TT
691237 CATATGTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.24, T:0.53
Consensus pattern (16 bp):
TTTCGTGTCGTAATTG
Found at i:692650 original size:14 final size:14
Alignment explanation
Indices: 692625--692663 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
692615 TTTATTCGAG
* *
692625 AAATATTAAAATTT
1 AAATAATAAAATCT
*
692639 ATATAATAAAATCT
1 AAATAATAAAATCT
692653 AAATAATAAAA
1 AAATAATAAAA
692664 AAATTACCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATAATAAAATCT
Found at i:698218 original size:14 final size:14
Alignment explanation
Indices: 698201--698243 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
698191 TATAATTGTT
*
698201 TACATATACGTATA
1 TACATATACATATA
698215 TACATATACATATA
1 TACATATACATATA
*
698229 TATATATACATATA
1 TACATATACATATA
698243 T
1 T
698244 GCAAGCAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.40
Consensus pattern (14 bp):
TACATATACATATA
Found at i:698224 original size:20 final size:20
Alignment explanation
Indices: 698201--698242 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
698191 TATAATTGTT
*
698201 TACATATACGTATATACATA
1 TACATATACATATATACATA
*
698221 TACATATATATATATACATA
1 TACATATACATATATACATA
698241 TA
1 TA
698243 TGCAAGCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (20 bp):
TACATATACATATATACATA
Found at i:698801 original size:10 final size:11
Alignment explanation
Indices: 698781--698848 Score: 63
Period size: 11 Copynumber: 6.3 Consensus size: 11
698771 TTATGATATA
698781 AAATATAAAAT
1 AAATATAAAAT
698792 AAAT-TAAAAT
1 AAATATAAAAT
*
698802 ATGATATAAAA-
1 A-AATATAAAAT
698813 ATAATATAAAAT
1 A-AATATAAAAT
*
698825 AATTATAATAA-
1 AAATATAA-AAT
698836 AAA-ATAAAAT
1 AAATATAAAAT
698846 AAA
1 AAA
698849 AAATAATATA
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.50
12 8 0.17
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (11 bp):
AAATATAAAAT
Found at i:698815 original size:13 final size:11
Alignment explanation
Indices: 698782--698860 Score: 54
Period size: 12 Copynumber: 6.7 Consensus size: 11
698772 TATGATATAA
698782 AATAT-AAAAT
1 AATATAAAAAT
698792 AA-ATTAAAATAT
1 AATA-TAAAA-AT
*
698804 GATATAAAAAT
1 AATATAAAAAT
698815 AATATAAAATAAT
1 AATAT-AAA-AAT
*
698828 TATAATAAAAAAT
1 AAT-AT-AAAAAT
*
698841 AAAATAAAAAAT
1 AATAT-AAAAAT
698853 AATATAAA
1 AATATAAA
698861 CATCTTATAA
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
9 1 0.02
10 3 0.05
11 12 0.21
12 24 0.43
13 10 0.18
14 6 0.11
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (11 bp):
AATATAAAAAT
Found at i:698826 original size:16 final size:16
Alignment explanation
Indices: 698782--698844 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
698772 TATGATATAA
698782 AATATAAAATAAATTAA-
1 AATATAAAATAAA--AAT
* *
698799 AATATGATATAAAAAT
1 AATATAAAATAAAAAT
**
698815 AATATAAAATAATTAT
1 AATATAAAATAAAAAT
*
698831 AATAAAAAATAAAA
1 AATATAAAATAAAA
698845 TAAAAAATAA
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
15 2 0.06
16 23 0.64
17 11 0.31
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (16 bp):
AATATAAAATAAAAAT
Found at i:703590 original size:21 final size:24
Alignment explanation
Indices: 703565--703613 Score: 77
Period size: 22 Copynumber: 2.2 Consensus size: 24
703555 ATTATTACAT
703565 AAAAA-TTATTTATTTTT-TA-TG
1 AAAAATTTATTTATTTTTATATTG
703586 AAAAATTTATTTATTTTTATATTG
1 AAAAATTTATTTATTTTTATATTG
703610 AAAA
1 AAAA
703614 CTTTGCAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 5 0.20
22 12 0.48
23 2 0.08
24 6 0.24
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (24 bp):
AAAAATTTATTTATTTTTATATTG
Found at i:706012 original size:26 final size:26
Alignment explanation
Indices: 705955--706010 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
705945 ATCATGAGAG
* *
705955 TTTTGTTGTCATGTTGTTCTGTTCAT
1 TTTTCTTGTCATGTTGTTCAGTTCAT
705981 TTTTCTTGTCATGTTGTGATCAG-TCAT
1 TTTTCTTGTCATGTTGT--TCAGTTCAT
706008 TTT
1 TTT
706011 CTGTTCCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 16 0.62
27 7 0.27
28 3 0.12
ACGTcount: A:0.11, C:0.12, G:0.18, T:0.59
Consensus pattern (26 bp):
TTTTCTTGTCATGTTGTTCAGTTCAT
Found at i:716804 original size:2 final size:2
Alignment explanation
Indices: 716797--716822 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
716787 CTGGCAAAGG
716797 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
716823 CCCCCCCCCC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:724397 original size:23 final size:23
Alignment explanation
Indices: 724371--724415 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
724361 TATGAATAAA
724371 AATAAAAATAA-AAAGAAGAAAAC
1 AATAAAAATAACAAA-AAGAAAAC
724394 AATAAAAATAACAAAAAGAAAA
1 AATAAAAATAACAAAAAGAAAA
724416 GCCACTTAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.80, C:0.04, G:0.07, T:0.09
Consensus pattern (23 bp):
AATAAAAATAACAAAAAGAAAAC
Found at i:727821 original size:3 final size:3
Alignment explanation
Indices: 727813--727837 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
727803 AGCAAATCTC
727813 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
727838 TGATAGTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:728015 original size:28 final size:28
Alignment explanation
Indices: 727974--728034 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 28
727964 AACATCATAT
* *
727974 AAAAACAAATTAAT-AGTTAAACTAATC
1 AAAAACAAATTAATAAGTAAAAATAATC
*
728001 AAAAATCAATTTAATAAGTAAAAATAATC
1 AAAAA-CAAATTAATAAGTAAAAATAATC
728030 AAAAA
1 AAAAA
728035 ATTAGATTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 5 0.17
28 8 0.28
29 16 0.55
ACGTcount: A:0.64, C:0.08, G:0.03, T:0.25
Consensus pattern (28 bp):
AAAAACAAATTAATAAGTAAAAATAATC
Found at i:728235 original size:16 final size:18
Alignment explanation
Indices: 728200--728236 Score: 51
Period size: 16 Copynumber: 2.1 Consensus size: 18
728190 TTTATTTTAA
728200 ATTAAATTAATATTTAAAT
1 ATTAAATTAATA-TTAAAT
728219 ATTAAA-TAATA-TAAAT
1 ATTAAATTAATATTAAAT
728235 AT
1 AT
728237 ATGAAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.39
18 5 0.28
19 6 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTAAAT
Found at i:728354 original size:3 final size:3
Alignment explanation
Indices: 728348--728375 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
728338 AACTTTTTTT
728348 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
728376 GTTGGTGTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:728641 original size:24 final size:22
Alignment explanation
Indices: 728607--728668 Score: 61
Period size: 24 Copynumber: 2.7 Consensus size: 22
728597 ATTTATTGAA
728607 TTTAAAAAATAAATTAATTATTT
1 TTTAAAAAATAAATTAA-TATTT
* **
728630 TTATAAATAATATTTTAATATTT
1 TT-TAAAAAATAAATTAATATTT
**
728653 TTTAAAATTTAAATTA
1 TTTAAAAAATAAATTA
728669 TAAAATTAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
22 9 0.30
23 9 0.30
24 12 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTAAAAAATAAATTAATATTT
Found at i:731809 original size:13 final size:14
Alignment explanation
Indices: 731787--731823 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
731777 TCCAATATTT
731787 ATATTT-AATATAA
1 ATATTTAAATATAA
731800 A-ATTTAAATATAA
1 ATATTTAAATATAA
*
731813 ATATTAAAATA
1 ATATTTAAATA
731824 CACATAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 4 0.19
13 9 0.43
14 8 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATTTAAATATAA
Found at i:733662 original size:6 final size:6
Alignment explanation
Indices: 733653--733700 Score: 60
Period size: 6 Copynumber: 8.0 Consensus size: 6
733643 TGATGGCTCC
* * * *
733653 GATGGG GATGGG GATGGG AATGGG AATGGG CATGGG CATGGG GATGGG
1 GATGGG GATGGG GATGGG GATGGG GATGGG GATGGG GATGGG GATGGG
733701 TGTCATGGAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.21, C:0.04, G:0.58, T:0.17
Consensus pattern (6 bp):
GATGGG
Found at i:733681 original size:18 final size:18
Alignment explanation
Indices: 733654--733700 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
733644 GATGGCTCCG
*
733654 ATGGGGATGGGGATGGGA
1 ATGGGGATGGGCATGGGA
* *
733672 ATGGGAATGGGCATGGGC
1 ATGGGGATGGGCATGGGA
733690 ATGGGGATGGG
1 ATGGGGATGGG
733701 TGTCATGGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.21, C:0.04, G:0.57, T:0.17
Consensus pattern (18 bp):
ATGGGGATGGGCATGGGA
Found at i:734417 original size:3 final size:3
Alignment explanation
Indices: 734409--734434 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
734399 AGTTCAAGTA
734409 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
734435 AATCACAAAG
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:734961 original size:43 final size:43
Alignment explanation
Indices: 734900--734986 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
734890 CACCACCTGT
734900 TTGTTGTAATGAGTTCCACACAAATCATCATTTTGCTATCTTA
1 TTGTTGTAATGAGTTCCACACAAATCATCATTTTGCTATCTTA
734943 TTGTTGTAATGAGTTCCACACAAATCATCATTTTGCTATCTTA
1 TTGTTGTAATGAGTTCCACACAAATCATCATTTTGCTATCTTA
734986 T
1 T
734987 GAATGACTTT
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:0.28, C:0.18, G:0.11, T:0.43
Consensus pattern (43 bp):
TTGTTGTAATGAGTTCCACACAAATCATCATTTTGCTATCTTA
Found at i:735316 original size:2 final size:2
Alignment explanation
Indices: 735311--735341 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
735301 AAAAAAAAAA
735311 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
735342 ATGATTGCGT
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:744930 original size:2 final size:2
Alignment explanation
Indices: 744923--744967 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
744913 TGCCATTTGG
744923 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
744965 AT A
1 AT A
744968 GTGGGATGTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:747987 original size:13 final size:11
Alignment explanation
Indices: 747969--748006 Score: 51
Period size: 10 Copynumber: 3.4 Consensus size: 11
747959 CATACAAAGG
747969 TTTTCTTCTTTT
1 TTTTCTT-TTTT
747981 CTTTTCTTTTTT
1 -TTTTCTTTTTT
747993 TTTT-TTTTTT
1 TTTTCTTTTTT
748003 TTTT
1 TTTT
748007 TGTATAGCCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.40
11 4 0.16
12 4 0.16
13 7 0.28
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:760019 original size:6 final size:6
Alignment explanation
Indices: 760008--760034 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
759998 CGGATTCTCA
760008 AAAATT AAAATT AAAATT AAAATT AAA
1 AAAATT AAAATT AAAATT AAAATT AAA
760035 CTGACACTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
AAAATT
Found at i:760783 original size:6 final size:6
Alignment explanation
Indices: 760776--760813 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
760766 TTAAAACTCT
* *
760776 CTCTCT CTCTCC CTCTCC CTCTCC CTCTCC ATCTCC CT
1 CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CT
760814 AAAAAAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.03, C:0.61, G:0.00, T:0.37
Consensus pattern (6 bp):
CTCTCC
Found at i:761330 original size:3 final size:3
Alignment explanation
Indices: 761322--761347 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
761312 GAACATGAAC
761322 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
761348 ACAAAGAAGC
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:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:762591 original size:2 final size:2
Alignment explanation
Indices: 762584--762624 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
762574 TGTTTCATGT
762584 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
762625 TCATTTCACA
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:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:763434 original size:18 final size:18
Alignment explanation
Indices: 763411--763445 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
763401 TTAAAGATGC
*
763411 AATTATATTTTTTATTTT
1 AATTATATTATTTATTTT
763429 AATTATATTATTTATTT
1 AATTATATTATTTATTT
763446 ATTTATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
AATTATATTATTTATTTT
Found at i:763458 original size:18 final size:21
Alignment explanation
Indices: 763414--763460 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
763404 AAGATGCAAT
763414 TATATTT-TTTATTTTAATTA
1 TATATTTATTTATTTTAATTA
763434 TATTATTTATTTA-TTT-ATTA
1 TA-TATTTATTTATTTTAATTA
763454 -ATATTTA
1 TATATTTA
763461 ATTCGAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 6 0.24
19 1 0.04
20 6 0.24
21 8 0.32
22 4 0.16
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TATATTTATTTATTTTAATTA
Found at i:765610 original size:3 final size:3
Alignment explanation
Indices: 765602--765627 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
765592 AAGTCAAACC
765602 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
765628 GTTTAAAATG
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:769851 original size:34 final size:34
Alignment explanation
Indices: 769803--769869 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
769793 ATTTCCTTGT
*
769803 TTAAAAGGGGTTGCAATGCACTAATGTAGTGGGC
1 TTAAAAGGGATTGCAATGCACTAATGTAGTGGGC
*
769837 TTAAAAGGGATTGCAATGCATTAATGTAGTGGG
1 TTAAAAGGGATTGCAATGCACTAATGTAGTGGG
769870 TCGAAATGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (34 bp):
TTAAAAGGGATTGCAATGCACTAATGTAGTGGGC
Found at i:773012 original size:12 final size:12
Alignment explanation
Indices: 772993--773025 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
772983 TTAATTAAAA
772993 TAAT-AATAATT
1 TAATAAATAATT
773004 TAATAAATAATT
1 TAATAAATAATT
773016 TAA-AAATAAT
1 TAATAAATAAT
773026 AATATTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
TAATAAATAATT
Found at i:780596 original size:18 final size:19
Alignment explanation
Indices: 780546--780603 Score: 61
Period size: 17 Copynumber: 3.3 Consensus size: 19
780536 AAAATATTTT
*
780546 TAAAA-AATATA-TATATA
1 TAAAATAATATATTAAATA
*
780563 TAAAATATTA-ATTAAAT-
1 TAAAATAATATATTAAATA
*
780580 TAAAATAATATATTAAATG
1 TAAAATAATATATTAAATA
780599 TAAAA
1 TAAAA
780604 AATTTTTTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 15 0.44
18 14 0.41
19 5 0.15
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
TAAAATAATATATTAAATA
Found at i:780659 original size:66 final size:66
Alignment explanation
Indices: 780589--780863 Score: 146
Period size: 76 Copynumber: 3.9 Consensus size: 66
780579 TTAAAATAAT
* * * * *
780589 ATATTAAATGTAAA-AAATTTTTTGTTTTAATGTAAAATAATAGCTAAACTGAAGTAACATATAA
1 ATATT-AATATAAAGAAATTTTTTATTTTAATATAAAATAATAACTAAACTGAAATAACATATAA
780653 AA
65 AA
* * * * *
780655 ATATTTATATAAAGAATTTTTTTATTTTAATATAAGATAGTAACTAAATTGAAATAACACGT-TA
1 ATATTAATATAAAGAAATTTTTTATTTTAATATAAAATAATAACTAAACTGAAATAACA--TATA
780719 GAAGA
64 -AA-A
* * *
780724 ATATACGAATAGTTACGTAGAGAATTTTCTT-TTTTAATAAAAAATAATAACTAAACTGAAATGA
1 ATAT--TAATA--TA--AAGA-AATTTT-TTATTTTAATATAAAATAATAACTAAACTGAAAT-A
*
780788 CACGT-TAGAAGA
57 -ACATATA-AA-A
* * * *
780800 ATATACGAATTTTATATAGAGAATTTTTT-TTTTAATATAAGATAGTAACTAAACTGAAATAACA
1 ATAT--TAA---TATAAAGA-AATTTTTTATTTTAATATAAAATAATAACTAAACTGAAATAACA
780864 CTTTAAAAGA
Statistics
Matches: 168, Mismatches: 23, Indels: 30
0.76 0.10 0.14
Matches are distributed among these distances:
65 6 0.04
66 42 0.25
67 2 0.01
68 3 0.02
69 5 0.03
71 3 0.02
72 2 0.01
73 3 0.02
74 30 0.18
75 14 0.08
76 49 0.29
77 5 0.03
78 2 0.01
79 2 0.01
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (66 bp):
ATATTAATATAAAGAAATTTTTTATTTTAATATAAAATAATAACTAAACTGAAATAACATATAAA
A
Found at i:780858 original size:150 final size:150
Alignment explanation
Indices: 780658--780931 Score: 401
Period size: 150 Copynumber: 1.8 Consensus size: 150
780648 TATAAAAATA
* *
780658 TTTATATAAAGAATTTTTTTATTTTAATATAAGATAGTAACTAAATTGAAATAACACGTTAGAAG
1 TTTATATAAAGAATTTTTTTATTTTAATATAAGATAGTAACTAAACTGAAATAACACGTTAAAAG
* * *
780723 AATATACGAATAGTTACGTAGAGAA-TTTTCTTTTTTAATAAAAAATAATAACTAAACTGAAATG
66 AATATACGAATAATTACATA-A-AAGATTT-TTTTTTAATAAAAAATAATAACTAAACTGAAATG
780787 ACACGTTAGAAGAATATACGAAT
128 ACACGTTAGAAGAATATACGAAT
* *
780810 TTTATATAGAGAA-TTTTTT-TTTTAATATAAGATAGTAACTAAACTGAAATAACACTTTAAAAG
1 TTTATATAAAGAATTTTTTTATTTTAATATAAGATAGTAACTAAACTGAAATAACACGTTAAAAG
* * * *
780873 AATATACGAATAATTACATAAAAGATTTTTTTTTAATATAAGATAGTAATTAAACTGAA
66 AATATACGAATAATTACATAAAAGATTTTTTTTTAATAAAAAATAATAACTAAACTGAA
780932 GTAACACATA
Statistics
Matches: 110, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
148 29 0.26
149 4 0.04
150 59 0.54
151 6 0.05
152 12 0.11
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (150 bp):
TTTATATAAAGAATTTTTTTATTTTAATATAAGATAGTAACTAAACTGAAATAACACGTTAAAAG
AATATACGAATAATTACATAAAAGATTTTTTTTTAATAAAAAATAATAACTAAACTGAAATGACA
CGTTAGAAGAATATACGAAT
Found at i:780874 original size:74 final size:76
Alignment explanation
Indices: 780654--780938 Score: 364
Period size: 74 Copynumber: 3.8 Consensus size: 76
780644 AACATATAAA
* * * *
780654 AATATTTATATAAAGAATTTTTTTATTTTAATATAAGATAGTAACTAAATTGAAATAACACGTTA
1 AATATTTACATAGAGAAGTTTTTT-TTTTAATATAAGATAGTAACTAAACTGAAATAACACGTTA
780719 GAAGAATATACG
65 GAAGAATATACG
* * * * * *
780731 AATAGTTACGTAGAGAA-TTTTCTTTTTTAATAAAAAATAATAACTAAACTGAAATGACACGTTA
1 AATATTTACATAGAGAAGTTTT-TTTTTTAATATAAGATAGTAACTAAACTGAAATAACACGTTA
780795 GAAGAATATACG
65 GAAGAATATACG
* * *
780807 AAT-TTTATATAGAGAA-TTTTTTTTTTAATATAAGATAGTAACTAAACTGAAATAACACTTTAA
1 AATATTTACATAGAGAAGTTTTTTTTTTAATATAAGATAGTAACTAAACTGAAATAACACGTTAG
780870 AAGAATATACG
66 AAGAATATACG
* * * *
780881 AATAATTACATA-A-AAGATTTTTTTTTAATATAAGATAGTAATTAAACTGAAGTAACAC
1 AATATTTACATAGAGAAGTTTTTTTTTTAATATAAGATAGTAACTAAACTGAAATAACAC
780939 ATAAGAAAAA
Statistics
Matches: 182, Mismatches: 23, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
73 2 0.01
74 91 0.50
75 20 0.11
76 54 0.30
77 15 0.08
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.36
Consensus pattern (76 bp):
AATATTTACATAGAGAAGTTTTTTTTTTAATATAAGATAGTAACTAAACTGAAATAACACGTTAG
AAGAATATACG
Found at i:781316 original size:17 final size:17
Alignment explanation
Indices: 781282--781331 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
781272 AATTTTAAAA
*
781282 AATAAATATATTCATATCG
1 AATACATATATT--TATCG
*
781301 AATACATATATTTATCT
1 AATACATATATTTATCG
*
781318 AATACTTATATTTA
1 AATACATATATTTA
781332 AATACGAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 17 0.61
19 11 0.39
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (17 bp):
AATACATATATTTATCG
Found at i:782970 original size:22 final size:21
Alignment explanation
Indices: 782927--782970 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
782917 TTACTCTATG
*
782927 AAAGTTTTATGATATTTTTTT
1 AAAGTTTTATGATATTTCTTT
782948 AAAGTTTATAATGA-ATTTCTTT
1 AAAGTTT-T-ATGATATTTCTTT
782970 A
1 A
782971 TTCTATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 7 0.35
22 9 0.45
23 4 0.20
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (21 bp):
AAAGTTTTATGATATTTCTTT
Found at i:784796 original size:2 final size:2
Alignment explanation
Indices: 784789--784813 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
784779 TCTGATGTAA
784789 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
784814 GACTACTCTT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:787876 original size:30 final size:30
Alignment explanation
Indices: 787842--787898 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
787832 TAATTTACGT
*
787842 TAAAATTTTATTTAAATATAAATTAAAAAA
1 TAAAAATTTATTTAAATATAAATTAAAAAA
*
787872 TAAAAATTTATTTAAATGTAAATTAAA
1 TAAAAATTTATTTAAATATAAATTAAA
787899 TATTATTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (30 bp):
TAAAAATTTATTTAAATATAAATTAAAAAA
Found at i:788496 original size:35 final size:34
Alignment explanation
Indices: 788453--788552 Score: 111
Period size: 35 Copynumber: 3.0 Consensus size: 34
788443 ATATATAATT
788453 TAATGATATTAAAAAAATAATATAAATACATATA
1 TAATGATATTAAAAAAATAATATAAATACATATA
* *
788487 TAAATGATATTAAAAAAATATTATAAA-ATA-ATA
1 T-AATGATATTAAAAAAATAATATAAATACATATA
* *
788520 TAAT-ATATT-TAAATATAAT-TAAATATCATATA
1 TAATGATATTAAAAAAATAATATAAATA-CATATA
788552 T
1 T
788553 TTAATATGTA
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
29 4 0.07
30 8 0.14
31 6 0.11
32 7 0.12
33 4 0.07
34 3 0.05
35 24 0.43
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (34 bp):
TAATGATATTAAAAAAATAATATAAATACATATA
Found at i:788507 original size:11 final size:13
Alignment explanation
Indices: 788458--788520 Score: 50
Period size: 11 Copynumber: 5.3 Consensus size: 13
788448 TAATTTAATG
788458 ATATTA-AAAA-A
1 ATATTATAAAATA
*
788469 ATAATAT-AAATA
1 ATATTATAAAATA
*
788481 CATA-TAT-AAATG
1 -ATATTATAAAATA
788493 ATATTA-AAAA-A
1 ATATTATAAAATA
788504 ATATTATAAAATA
1 ATATTATAAAATA
788517 ATAT
1 ATAT
788521 AATATATTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
11 17 0.40
12 17 0.40
13 8 0.19
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (13 bp):
ATATTATAAAATA
Found at i:788534 original size:15 final size:15
Alignment explanation
Indices: 788516--788590 Score: 52
Period size: 15 Copynumber: 5.2 Consensus size: 15
788506 ATTATAAAAT
788516 AATATAATATATTT-
1 AATATAATATATTTA
788530 AA-AT-ATA-A-TTA
1 AATATAATATATTTA
*
788541 AATATCATATATTTA
1 AATATAATATATTTA
* *
788556 ATATGTATTTATATTTA
1 A-ATATA-ATATATTTA
* *
788573 AATATTATATATATA
1 AATATAATATATTTA
788588 AAT
1 AAT
788591 TATTAAATGT
Statistics
Matches: 47, Mismatches: 7, Indels: 13
0.70 0.10 0.19
Matches are distributed among these distances:
10 2 0.04
11 3 0.06
12 5 0.11
13 5 0.11
14 3 0.06
15 14 0.30
16 6 0.13
17 9 0.19
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (15 bp):
AATATAATATATTTA
Found at i:788568 original size:17 final size:17
Alignment explanation
Indices: 788547--788586 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
788537 ATTAAATATC
788547 ATATATTT-AATATGTAT
1 ATATATTTAAATAT-TAT
*
788564 TTATATTTAAATATTAT
1 ATATATTTAAATATTAT
788581 ATATAT
1 ATATAT
788587 AAATTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
ATATATTTAAATATTAT
Found at i:788879 original size:3 final size:3
Alignment explanation
Indices: 788871--788902 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
788861 TAAAAATATC
788871 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
788903 TATTATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:788907 original size:3 final size:3
Alignment explanation
Indices: 788901--788931 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
788891 AATAATAATA
788901 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
788932 ACATGGTGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:792072 original size:2 final size:2
Alignment explanation
Indices: 792065--792097 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
792055 AGATTCCAGG
792065 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
792098 CTCACGATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:793411 original size:2 final size:2
Alignment explanation
Indices: 793406--793442 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
793396 ATATATATAT
*
793406 AG AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
793443 ATAGGCTGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:793688 original size:2 final size:2
Alignment explanation
Indices: 793683--793712 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
793673 AAAAAAAAAA
793683 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
793713 GATGTGGGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:798361 original size:20 final size:20
Alignment explanation
Indices: 798336--798424 Score: 63
Period size: 20 Copynumber: 4.8 Consensus size: 20
798326 ATTATTTTTA
*
798336 TATTATA-ATTATATTTAAAT
1 TATTATATATT-TATATAAAT
798356 TATTATATATTTATATAAAT
1 TATTATATATTTATATAAAT
798376 T-TTA-ATA--TAT-T-AAT
1 TATTATATATTTATATAAAT
* *
798390 AATT-TATA-TTAAAT-AAT
1 TATTATATATTTATATAAAT
798407 TATTAATATATTTATATA
1 TATT-ATATATTTATATA
798425 TTTATATTAT
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
14 3 0.05
15 6 0.11
16 5 0.09
17 7 0.13
18 3 0.05
19 7 0.13
20 21 0.38
21 3 0.05
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TATTATATATTTATATAAAT
Found at i:798368 original size:48 final size:51
Alignment explanation
Indices: 798329--798424 Score: 132
Period size: 52 Copynumber: 2.0 Consensus size: 51
798319 TACTTATATT
*
798329 ATTTT-TATATT-ATAA-TTATATT-TA-AATTATT-ATATATTTATATAA
1 ATTTTATATATTAATAATTTATATTAAATAATTATTAATATATTTATATAA
798374 ATTTTAATATATTAATAATTTATATTAAATAATTATTAATATATTTATATA
1 ATTTT-ATATATTAATAATTTATATTAAATAATTATTAATATATTTATATA
798425 TTTATATTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
45 5 0.12
47 6 0.14
48 4 0.09
49 7 0.16
50 1 0.02
51 7 0.16
52 13 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (51 bp):
ATTTTATATATTAATAATTTATATTAAATAATTATTAATATATTTATATAA
Found at i:798398 original size:33 final size:33
Alignment explanation
Indices: 798356--798446 Score: 114
Period size: 33 Copynumber: 2.7 Consensus size: 33
798346 ATATTTAAAT
798356 TATTATATATTTATATAAATTTTAATATATTAATA
1 TATT-TATA-TTATATAAATTTTAATATATTAATA
* *
798391 -ATTTATATTAAAT-AATTATTAATATATTTATA
1 TATTTATATTATATAAATT-TTAATATATTAATA
*
798423 TATTTATATTATATAATTTTTAAT
1 TATTTATATTATATAAATTTTAAT
798447 TAATTTTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
31 4 0.08
32 18 0.37
33 21 0.43
34 6 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (33 bp):
TATTTATATTATATAAATTTTAATATATTAATA
Found at i:798467 original size:33 final size:31
Alignment explanation
Indices: 798355--798478 Score: 106
Period size: 33 Copynumber: 3.8 Consensus size: 31
798345 TATATTTAAA
* *
798355 TTATTATATATTTATATAAATTTTAATATATTAA
1 TTATT-TATA-TTATATAATTTTTAATATATT-T
* * *
798389 TAATTTATATTAAATAATTATTAATATATTT
1 TTATTTATATTATATAATTTTTAATATATTT
798420 ATATATTTATATTATATAATTTTTAAT-TAATTT
1 -T-TATTTATATTATATAATTTTTAATAT-ATTT
* *
798453 TTATTATATAATTATATTATATTTAA
1 TTATT-TAT-ATTATATAATTTTTAA
798479 AATTAATAGA
Statistics
Matches: 75, Mismatches: 10, Indels: 11
0.78 0.10 0.11
Matches are distributed among these distances:
31 4 0.05
32 24 0.32
33 43 0.57
34 4 0.05
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (31 bp):
TTATTTATATTATATAATTTTTAATATATTT
Found at i:798468 original size:8 final size:8
Alignment explanation
Indices: 798339--798469 Score: 54
Period size: 8 Copynumber: 17.4 Consensus size: 8
798329 ATTTTTATAT
798339 TATAATTA
1 TATAATTA
798347 TAT--TTA
1 TATAATTA
* *
798353 AATTATTA
1 TATAATTA
*
798361 TATATTTA
1 TATAATTA
*
798369 TATAAATTT
1 TAT-AATTA
798378 TAATATATTA
1 T-ATA-ATTA
798388 -ATAATT-
1 TATAATTA
798394 TAT-ATTA
1 TATAATTA
*
798401 AATAATTA
1 TATAATTA
798409 T-TAA-TA
1 TATAATTA
798415 TAT--TTA
1 TATAATTA
798421 TAT-ATT-
1 TATAATTA
798427 TAT-ATTA
1 TATAATTA
798434 TATAATT-
1 TATAATTA
*
798441 TTTAATTAA
1 TATAATT-A
* *
798450 TTTTTATTA
1 -TATAATTA
798459 TATAATTA
1 TATAATTA
798467 TAT
1 TAT
798470 TATATTTAAA
Statistics
Matches: 94, Mismatches: 13, Indels: 32
0.68 0.09 0.23
Matches are distributed among these distances:
6 22 0.23
7 22 0.23
8 33 0.35
9 6 0.06
10 11 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
TATAATTA
Found at i:798473 original size:11 final size:11
Alignment explanation
Indices: 798309--798435 Score: 50
Period size: 11 Copynumber: 12.3 Consensus size: 11
798299 AATAAATTTG
798309 ATAATT-TATT
1 ATAATTATATT
*
798319 -TACTTATATT
1 ATAATTATATT
**
798329 ATTTTTATATT
1 ATAATTATATT
798340 ATAATTATATT
1 ATAATTATATT
*
798351 -TAAAT-TATT
1 ATAATTATATT
798360 ATATATT-TA-T
1 ATA-ATTATATT
798370 ATAA--AT-TT
1 ATAATTATATT
798378 -TAA-TATATT
1 ATAATTATATT
798387 AATAATTTATATT
1 -ATAA-TTATATT
798400 A-AA-TA-ATT
1 ATAATTATATT
798408 ATTAA-TATATTT
1 A-TAATTATA-TT
798420 ATATATTTATATT
1 ATA-A-TTATATT
798433 ATA
1 ATA
798436 TAATTTTTAA
Statistics
Matches: 91, Mismatches: 7, Indels: 35
0.68 0.05 0.26
Matches are distributed among these distances:
7 3 0.03
8 8 0.09
9 13 0.14
10 18 0.20
11 29 0.32
12 5 0.05
13 11 0.12
14 4 0.04
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.57
Consensus pattern (11 bp):
ATAATTATATT
Found at i:802714 original size:18 final size:18
Alignment explanation
Indices: 802691--802736 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
802681 AATCTCCAAG
802691 GGAAGTCACAACTGACAA
1 GGAAGTCACAACTGACAA
802709 GGAAGTCACAACTGACAA
1 GGAAGTCACAACTGACAA
*
802727 -GAAATCACAA
1 GGAAGTCACAA
802737 TATGTAGTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.48, C:0.22, G:0.20, T:0.11
Consensus pattern (18 bp):
GGAAGTCACAACTGACAA
Found at i:804762 original size:24 final size:21
Alignment explanation
Indices: 804734--804788 Score: 78
Period size: 19 Copynumber: 2.6 Consensus size: 21
804724 ATTTTGAGTT
804734 TAATATAATTATAAGATATAATA
1 TAATATAATTATAA-A-ATAATA
804757 TAA-ATAATTA-AAAATAATA
1 TAATATAATTATAAAATAATA
804776 TAATATAATTATA
1 TAATATAATTATA
804789 TATATAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 9 0.30
20 8 0.27
21 3 0.10
22 7 0.23
23 3 0.10
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
TAATATAATTATAAAATAATA
Found at i:804806 original size:22 final size:22
Alignment explanation
Indices: 804781--804863 Score: 64
Period size: 22 Copynumber: 3.7 Consensus size: 22
804771 TAATATAATA
804781 TAATTATATATATAAATTTATT
1 TAATTATATATATAAATTTATT
* * *
804803 TAATGTAAAT-TATTAATATATT
1 TAAT-TATATATATAAATTTATT
* *
804825 AAATTATATATA-ATATTTTATAT
1 TAATTATATATATA-AATTTAT-T
804848 ATAATTATA-ATATAAA
1 -TAATTATATATATAAA
804864 AATAATTTAA
Statistics
Matches: 45, Mismatches: 10, Indels: 11
0.68 0.15 0.17
Matches are distributed among these distances:
21 4 0.09
22 24 0.53
23 9 0.20
24 8 0.18
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (22 bp):
TAATTATATATATAAATTTATT
Found at i:804835 original size:14 final size:14
Alignment explanation
Indices: 804782--804850 Score: 52
Period size: 14 Copynumber: 4.8 Consensus size: 14
804772 AATATAATAT
804782 AATTATATATA-TA
1 AATTATATATATTA
*
804795 AATT-TATTTAATGTA
1 AATTATATAT-AT-TA
804810 AATTATTAATATATTA
1 AATTA-T-ATATATTA
*
804826 AATTATATATAATA
1 AATTATATATATTA
**
804840 TTTTATATATA
1 AATTATATATA
804851 ATTATAATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
12 4 0.09
13 5 0.11
14 16 0.36
15 7 0.16
16 7 0.16
17 3 0.07
18 3 0.07
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (14 bp):
AATTATATATATTA
Found at i:805647 original size:3 final size:3
Alignment explanation
Indices: 805639--805685 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
805629 GCATTAAAAA
805639 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
805686 ATATAAGCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:809281 original size:15 final size:16
Alignment explanation
Indices: 809257--809289 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
809247 CCACTTTGGG
809257 TTTTTCTTTTCTTTCC
1 TTTTTCTTTTCTTTCC
*
809273 TTTTT-TTTTTTTTCC
1 TTTTTCTTTTCTTTCC
809288 TT
1 TT
809290 CGTATCGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTCTTTTCTTTCC
Found at i:809387 original size:2 final size:2
Alignment explanation
Indices: 809380--809404 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
809370 CCCTTCATAG
809380 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
809405 CATCTTTTAT
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:809669 original size:47 final size:50
Alignment explanation
Indices: 809595--809687 Score: 138
Period size: 49 Copynumber: 1.9 Consensus size: 50
809585 GTGGTGTTTA
* *
809595 AAAAATATTTTTTTAAAATTTT-TT-TATAAAAAAATAATATATTTATAT
1 AAAAATATTTTTTAAAAATTTTATTATATAAATAAATAATATATTTATAT
*
809643 AAAAATA-TTTTTAAAAATTTTATTATATAAATAATTAATATATTT
1 AAAAATATTTTTTAAAAATTTTATTATATAAATAAATAATATATTT
809688 TAGTTACACA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
47 13 0.32
48 9 0.22
49 18 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (50 bp):
AAAAATATTTTTTAAAAATTTTATTATATAAATAAATAATATATTTATAT
Found at i:810656 original size:35 final size:36
Alignment explanation
Indices: 810617--810685 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 36
810607 GTCAGTAATT
810617 AAAT-AAAAATATTTTAAT-TTTT-TAATTTTAAAATA
1 AAATAAAAAATA-TTT-ATCTTTTATAATTTTAAAATA
810652 AAATAAAAAATATTTATCTTTTATAATTTTAAAA
1 AAATAAAAAATATTTATCTTTTATAATTTTAAAA
810686 AATAATTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
34 2 0.06
35 11 0.35
36 18 0.58
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (36 bp):
AAATAAAAAATATTTATCTTTTATAATTTTAAAATA
Found at i:811864 original size:2 final size:2
Alignment explanation
Indices: 811859--811894 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
811849 TAGATATATG
811859 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
811895 TACGGCCTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:815810 original size:18 final size:18
Alignment explanation
Indices: 815783--815842 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
815773 TTAATTTTAG
815783 TAATATTAAAAATAATAA
1 TAATATTAAAAATAATAA
* *
815801 TAATAAT-AAAATAAATTA
1 TAATATTAAAAAT-AATAA
815819 TAATATTAAAAAT-ATAA
1 TAATATTAAAAATAATAA
*
815836 TTATATT
1 TAATATT
815843 TATTTTTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 14 0.40
18 16 0.46
19 5 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TAATATTAAAAATAATAA
Found at i:815835 original size:21 final size:21
Alignment explanation
Indices: 815792--815840 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
815782 GTAATATTAA
*
815792 AAATAATAATAATAATAAAAT
1 AAATTATAATAATAATAAAAT
*
815813 AAATTATAAT-ATTA-AAAAT
1 AAATTATAATAATAATAAAAT
815832 ATAATTATA
1 A-AATTATA
815841 TTTATTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 6 0.24
20 10 0.40
21 9 0.36
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AAATTATAATAATAATAAAAT
Found at i:818619 original size:2 final size:2
Alignment explanation
Indices: 818606--818647 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
818596 TGCTTAAACA
*
818606 AT AT AC 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
818648 TGCTTAACCT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:821233 original size:12 final size:12
Alignment explanation
Indices: 821200--821226 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
821190 AATAGTTGCA
821200 TATATATATACG
1 TATATATATACG
821212 TATATATATACG
1 TATATATATACG
821224 TAT
1 TAT
821227 GTCTATATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (12 bp):
TATATATATACG
Found at i:821307 original size:2 final size:2
Alignment explanation
Indices: 821300--821330 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
821290 TAAGAAAGAA
*
821300 AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
821331 AACATCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:826129 original size:19 final size:19
Alignment explanation
Indices: 826105--826166 Score: 54
Period size: 19 Copynumber: 3.1 Consensus size: 19
826095 GGATTTGAAA
826105 ATTTATTTATTTATATTAT
1 ATTTATTTATTTATATTAT
*
826124 ATTTATATATTT-TAATTAT
1 ATTTATTTATTTAT-ATTAT
* *
826143 TTTTAAAATTATTTTATATTAT
1 ATTT--ATTTA-TTTATATTAT
826165 AT
1 AT
826167 AAAATTTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
18 1 0.03
19 19 0.58
21 3 0.09
22 9 0.27
23 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTATTTATTTATATTAT
Found at i:826177 original size:57 final size:55
Alignment explanation
Indices: 826113--826253 Score: 142
Period size: 59 Copynumber: 2.5 Consensus size: 55
826103 AAATTTATTT
* *
826113 ATTTATATTATATTTATATATTTTAATTATTTTTAAAATTATTT-TATATTATATAAA
1 ATTTATATTATATTTATATATTATAA--ATTTTTAAAA-TATTTAAATATTATATAAA
** *
826170 ATTTATATATTAATAATTTATATAACATAAATTTTTAAAATATTTAAATATTATATAAT
1 A-TT-TATATT-AT-ATTTATATATTATAAATTTTTAAAATATTTAAATATTATATAAA
*
826229 ATTTAAATTA-ATTTTATATATTATA
1 ATTTATATTATA-TTTATATATTATA
826254 TTTATATAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
54 1 0.01
55 11 0.16
56 1 0.01
57 6 0.09
58 9 0.13
59 28 0.40
60 2 0.03
61 12 0.17
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.55
Consensus pattern (55 bp):
ATTTATATTATATTTATATATTATAAATTTTTAAAATATTTAAATATTATATAAA
Found at i:826183 original size:44 final size:44
Alignment explanation
Indices: 826102--826188 Score: 106
Period size: 46 Copynumber: 2.0 Consensus size: 44
826092 GTTGGATTTG
* * *
826102 AAAATTTATTTATTTATATTATATTTATATATTTTAATTATTTTT
1 AAAATTTATTTATTTATATAAAATTTATATA-TTTAATAATTTTT
826147 AAAA-TTATTTTATATTATATAAAATTTATATA-TTAATAATTT
1 AAAATTTA-TTTAT-TTATATAAAATTTATATATTTAATAATTT
826189 ATATAACATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
44 12 0.32
45 9 0.24
46 16 0.43
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (44 bp):
AAAATTTATTTATTTATATAAAATTTATATATTTAATAATTTTT
Found at i:826189 original size:15 final size:15
Alignment explanation
Indices: 826155--826193 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
826145 TTAAAATTAT
826155 TTTATATTATATAAAA
1 TTTATA-TATATAAAA
826171 TTTATATAT-TAATAA
1 TTTATATATATAA-AA
826186 TTTATATA
1 TTTATATA
826194 ACATAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.14
15 13 0.59
16 6 0.27
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTTATATATATAAAA
Found at i:826204 original size:59 final size:55
Alignment explanation
Indices: 826141--826248 Score: 146
Period size: 59 Copynumber: 1.9 Consensus size: 55
826131 TATTTTAATT
*
826141 ATTTTTAAAATTATTT-TATATTATATAAAATTTATATATTAATAATTTATATAACATAA
1 ATTTTTAAAA-TATTTAAATATTATATAAAATTTA-A-ATTAAT--TTTATATAACATAA
*
826200 ATTTTTAAAATATTTAAATATTATATAATATTTAAATTAATTTTATATA
1 ATTTTTAAAATATTTAAATATTATATAAAATTTAAATTAATTTTATATA
826249 TTATATTTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
55 8 0.17
57 6 0.13
58 6 0.13
59 26 0.57
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (55 bp):
ATTTTTAAAATATTTAAATATTATATAAAATTTAAATTAATTTTATATAACATAA
Found at i:826788 original size:12 final size:12
Alignment explanation
Indices: 826768--826797 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
826758 GTAATTGCAC
*
826768 CATACACACATA
1 CATATACACATA
826780 CATATACACATA
1 CATATACACATA
826792 CATATA
1 CATATA
826798 TATATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (12 bp):
CATATACACATA
Found at i:830850 original size:193 final size:191
Alignment explanation
Indices: 830477--830883 Score: 553
Period size: 193 Copynumber: 2.1 Consensus size: 191
830467 CAGCTCTCCT
* * * * *
830477 ATCGAAGGTAATAGAGCTGACCTTGTGGTTATATATGAATTGTGGCTCTCCCTCTTAACAGCTAG
1 ATCGAAGGTAATAGGGCTGACCTTATGGGTATATATGAATTGTGGCTCTCCCTCCTAACAACTAG
* * * * * *
830542 TTTTTGGGGAATGGTTCTCCACAATCCATGTATCAATGTTATCAGAGCAAGGTTCGGTCCTTCGG
66 CTTTTGGGGAATGATTCTCCACAATCCATGTATCAATGGTATCAAAGCAAGGTTCGATCCTCCGG
* * * * *
830607 AGGGGGCTGTAATGCATTATCTCACATCGAAGGCAAAGGGGTCGACCTTGCGGGATCCCAC
131 AAGGGGCTGTAATGCATTATCTCACATCGAAGGCAAAAGGGCCAACCTTGCGAGATCCCAC
* * * *
830668 ATTGAAGGTAATAGGGCTGACCTTATGGGTATATATGGATTGTGGCTCTTCTTCCCTAACAACTA
1 ATCGAAGGTAATAGGGCTGACCTTATGGGTATATATGAATTGTGGCTCTCCCT-CCTAACAACTA
* * *
830733 GCTTTTGGGGAGTGATTCTCCACGATCCATGTATCAATGGTATCAAAGCTAGGTTTCGATCCTCC
65 GCTTTTGGGGAATGATTCTCCACAATCCATGTATCAATGGTATCAAAGCAAGG-TTCGATCCTCC
* *
830798 GGAAGGGGCTGTGATGCATTATCTCGCATCGAAGGCAAAAGGGCCAACCTTGCGAGATCCCAC
129 GGAAGGGGCTGTAATGCATTATCTCACATCGAAGGCAAAAGGGCCAACCTTGCGAGATCCCAC
* *
830861 ATCGAAGGCAATAGGGTTGACCT
1 ATCGAAGGTAATAGGGCTGACCT
830884 CCACGATCCA
Statistics
Matches: 186, Mismatches: 28, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
191 46 0.25
192 55 0.30
193 85 0.46
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (191 bp):
ATCGAAGGTAATAGGGCTGACCTTATGGGTATATATGAATTGTGGCTCTCCCTCCTAACAACTAG
CTTTTGGGGAATGATTCTCCACAATCCATGTATCAATGGTATCAAAGCAAGGTTCGATCCTCCGG
AAGGGGCTGTAATGCATTATCTCACATCGAAGGCAAAAGGGCCAACCTTGCGAGATCCCAC
Found at i:832126 original size:2 final size:2
Alignment explanation
Indices: 832119--832184 Score: 96
Period size: 2 Copynumber: 31.5 Consensus size: 2
832109 TTCATTCCTT
*
832119 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGG TGA TGA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A T-A T-A
832162 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
832185 GTTGATGCTG
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 55 0.90
3 6 0.10
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (2 bp):
TA
Found at i:839099 original size:12 final size:13
Alignment explanation
Indices: 839082--839110 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
839072 GAGCATTTTG
839082 ATTTATTTATTT-
1 ATTTATTTATTTC
839094 ATTTATTTATTTC
1 ATTTATTTATTTC
839107 ATTT
1 ATTT
839111 TGATTCAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTATTTATTTC
Found at i:843223 original size:6 final size:6
Alignment explanation
Indices: 843212--843247 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
843202 AAATGATCAT
843212 CCAAAC CCAAA- CC-AAC CCAAAC CCAAAC CCAAAC CC
1 CCAAAC CCAAAC CCAAAC CCAAAC CCAAAC CCAAAC CC
843248 GCCTCAGGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 2 0.07
5 4 0.14
6 22 0.79
ACGTcount: A:0.47, C:0.53, G:0.00, T:0.00
Consensus pattern (6 bp):
CCAAAC
Found at i:844537 original size:27 final size:29
Alignment explanation
Indices: 844474--844538 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
844464 TTTGAAATTT
844474 GAAGAGAGAGATTGGTCAGGGCTTATGAA
1 GAAGAGAGAGATTGGTCAGGGCTTATGAA
844503 GAAGAGAGAGATTGGTCAGGGCTTATGAA
1 GAAGAGAGAGATTGGTCAGGGCTTATGAA
*
844532 TAAGAGA
1 GAAGAGA
844539 AACCGCGCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.37, C:0.06, G:0.37, T:0.20
Consensus pattern (29 bp):
GAAGAGAGAGATTGGTCAGGGCTTATGAA
Found at i:850286 original size:2 final size:2
Alignment explanation
Indices: 850279--850306 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
850269 CGGCTTTCAT
850279 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
850307 ATCATCGTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:851911 original size:2 final size:2
Alignment explanation
Indices: 851904--851944 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
851894 GTGTTTGCCT
*
851904 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TT TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
851945 TCACTTCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:852114 original size:2 final size:2
Alignment explanation
Indices: 852109--852156 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
852099 GCTTTGCATA
852109 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
852151 AG AG AG
1 AG AG AG
852157 GCGGCAGATG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:856296 original size:6 final size:6
Alignment explanation
Indices: 856285--856313 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
856275 CATCTCGCCA
856285 TCTTTC TCTTTC TCTTTC TCTTTC TCTTT
1 TCTTTC TCTTTC TCTTTC TCTTTC TCTTT
856314 TTCAGTTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (6 bp):
TCTTTC
Found at i:859395 original size:20 final size:18
Alignment explanation
Indices: 859349--859395 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 18
859339 AAAATTCAAG
859349 TAATAA-TAAAACAAAAT
1 TAATAATTAAAACAAAAT
859366 TATATGAATTAAAACATAAGAT
1 TA-AT-AATTAAAACA-AA-AT
859388 TAATAATT
1 TAATAATT
859396 GAATTGGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
17 2 0.08
18 2 0.08
19 2 0.08
20 11 0.44
21 4 0.16
22 4 0.16
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (18 bp):
TAATAATTAAAACAAAAT
Found at i:861540 original size:2 final size:2
Alignment explanation
Indices: 861527--861559 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
861517 AATTGCATAA
861527 AT AT AT ACT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
861560 GTGATGGAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:861856 original size:22 final size:25
Alignment explanation
Indices: 861828--861888 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 25
861818 TTACTTATTA
861828 AAAATATAATAT-TA-AAAAAAT-T
1 AAAATATAATATATATAAAAAATAT
861850 AAAATATAATATAATATAAAAAATAAT
1 AAAATATAATAT-ATATAAAAAAT-AT
861877 ATAAATATAATA
1 A-AAATATAATA
861889 AAATAATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
22 12 0.36
24 2 0.06
25 7 0.21
27 2 0.06
28 10 0.30
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (25 bp):
AAAATATAATATATATAAAAAATAT
Found at i:861869 original size:17 final size:17
Alignment explanation
Indices: 861849--861989 Score: 64
Period size: 17 Copynumber: 8.2 Consensus size: 17
861839 TTAAAAAAAT
861849 TAAAATATAATATAATA
1 TAAAATATAATATAATA
*
861866 TAAAAAATAATATAAATA
1 TAAAATATAATAT-AATA
* *
861884 TAATAAAATAATTTTAATA
1 TAA-AATATAA-TATAATA
* *
861903 TATTAAA-ATTTATATAACA
1 TA--AAATA-TAATATAATA
861922 T-AAATAATTAATAT-AT-
1 TAAAAT-A-TAATATAATA
* *
861938 TAAAAT-TTATGTACATA
1 TAAAATATAATATA-ATA
861955 TAAAAT-TAATATAA-A
1 TAAAATATAATATAATA
*
861970 TACAATATAA-ATATATA
1 TAAAATATAATATA-ATA
861987 TAA
1 TAA
861990 TAAAAAAGTT
Statistics
Matches: 96, Mismatches: 13, Indels: 30
0.69 0.09 0.22
Matches are distributed among these distances:
14 4 0.04
15 9 0.09
16 11 0.11
17 31 0.32
18 14 0.15
19 20 0.21
20 6 0.06
21 1 0.01
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.38
Consensus pattern (17 bp):
TAAAATATAATATAATA
Found at i:861874 original size:19 final size:19
Alignment explanation
Indices: 861827--861936 Score: 59
Period size: 18 Copynumber: 5.7 Consensus size: 19
861817 GTTACTTATT
* *
861827 AAAAATATAATATTAAAAAA
1 AAAAATATAATA-TAATATA
861847 ATTAAAATATAATATAATAT-
1 A--AAAATATAATATAATATA
861867 AAAAA-ATAATATAAATATA
1 AAAAATATAATAT-AATATA
* *
861886 ATAAAATA-ATTTTAATATA
1 A-AAAATATAATATAATATA
* * *
861905 TTAAAAT-TTATATAACATA
1 -AAAAATATAATATAATATA
*
861924 AATAAT-TAATATA
1 AAAAATATAATATA
861937 TTAAAATTTA
Statistics
Matches: 70, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
17 7 0.10
18 19 0.27
19 19 0.27
20 9 0.13
21 5 0.07
22 11 0.16
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAATATAATATAATATA
Found at i:861883 original size:28 final size:27
Alignment explanation
Indices: 861830--861893 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 27
861820 ACTTATTAAA
*
861830 AATATAATATTAAAAAAATTAAAATAT
1 AATATAATATAAAAAAAATTAAAATAT
861857 AATATAATATAAAAAATAA-TATAAATAT
1 AATATAATATAAAAAA-AATTA-AAATAT
*
861885 AATAAAATA
1 AATATAATA
861894 ATTTTAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 17 0.52
28 16 0.48
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (27 bp):
AATATAATATAAAAAAAATTAAAATAT
Found at i:861962 original size:31 final size:32
Alignment explanation
Indices: 861897--861967 Score: 110
Period size: 32 Copynumber: 2.2 Consensus size: 32
861887 TAAAATAATT
861897 TTAATATATTAAAATTTATATAACATAAATAA
1 TTAATATATTAAAATTTATATAACATAAATAA
*
861929 TTAATATATTAAAATTTATGT-ACATATAA-AA
1 TTAATATATTAAAATTTATATAACATA-AATAA
861960 TTAATATA
1 TTAATATA
861968 AATACAATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
31 15 0.41
32 22 0.59
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (32 bp):
TTAATATATTAAAATTTATATAACATAAATAA
Found at i:866014 original size:34 final size:34
Alignment explanation
Indices: 865976--866127 Score: 187
Period size: 34 Copynumber: 4.4 Consensus size: 34
865966 ATTTTTTAGT
*
865976 CATTTAGTCAACAATGACAAACCATCAAATCACC
1 CATTTAGTCAACAATGACAAACCACCAAATCACC
* * *
866010 CATTTAGTCAATAATGGCAAACCACCAAATTACC
1 CATTTAGTCAACAATGACAAACCACCAAATCACC
* * *
866044 TTATTTAATCAACAATGACAAACCACCAAATCACG
1 -CATTTAGTCAACAATGACAAACCACCAAATCACC
* * *
866079 CATTTAGTCAACAATGGCAAACTACCAAATTACC
1 CATTTAGTCAACAATGACAAACCACCAAATCACC
* *
866113 CATTTCGTTAACAAT
1 CATTTAGTCAACAAT
866128 TCTCCCACTT
Statistics
Matches: 99, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
34 71 0.72
35 28 0.28
ACGTcount: A:0.42, C:0.26, G:0.07, T:0.24
Consensus pattern (34 bp):
CATTTAGTCAACAATGACAAACCACCAAATCACC
Found at i:866061 original size:69 final size:69
Alignment explanation
Indices: 865977--866112 Score: 227
Period size: 69 Copynumber: 2.0 Consensus size: 69
865967 TTTTTTAGTC
* * *
865977 ATTTAGTCAACAATGACAAACCATCAAATCACCCATTTAGTCAATAATGGCAAACCACCAAATTA
1 ATTTAATCAACAATGACAAACCACCAAATCACCCATTTAGTCAACAATGGCAAACCACCAAATTA
866042 CCTT
66 CCTT
* *
866046 ATTTAATCAACAATGACAAACCACCAAATCACGCATTTAGTCAACAATGGCAAACTACCAAATTA
1 ATTTAATCAACAATGACAAACCACCAAATCACCCATTTAGTCAACAATGGCAAACCACCAAATTA
866111 CC
66 CC
866113 CATTTCGTTA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.43, C:0.26, G:0.07, T:0.23
Consensus pattern (69 bp):
ATTTAATCAACAATGACAAACCACCAAATCACCCATTTAGTCAACAATGGCAAACCACCAAATTA
CCTT
Found at i:870601 original size:34 final size:33
Alignment explanation
Indices: 870563--870645 Score: 112
Period size: 34 Copynumber: 2.5 Consensus size: 33
870553 ATCTTTTAAT
* * * *
870563 CATTTAATTAATAATGACAAACTATCAAATTATC
1 CATTTAATCAATAATGACAAACCACCAAATCA-C
870597 CATTTAATCAATAATGACAAACCACCAAATCAC
1 CATTTAATCAATAATGACAAACCACCAAATCAC
870630 CTATTTAATCAATAAT
1 C-ATTTAATCAATAAT
870646 ATTAACTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
33 2 0.05
34 42 0.95
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.31
Consensus pattern (33 bp):
CATTTAATCAATAATGACAAACCACCAAATCAC
Found at i:882152 original size:126 final size:127
Alignment explanation
Indices: 881927--882175 Score: 473
Period size: 126 Copynumber: 2.0 Consensus size: 127
881917 AAGATTATGC
881927 GTAAGACAGCAGTTGGACAAGGCCAACAAAGGGGTAAAAAGAGACGGATTAGGCCTAGGTTAATA
1 GTAAGACAGCAGTTGGACAAGGCCAACAAAGGGGTAAAAAGAGACGGATTAGGCCTAGGTTAATA
881992 CAAACTGATTCCCTGGTCATTATTTCTGAGTGATAATCTTCAATTATT-TTTTTTTTTCTGA
66 CAAACTGATTCCCTGGTCATTATTTCTGAGTGATAATCTTCAATTATTATTTTTTTTTCTGA
*
882053 GTAAGACAGCAGTTGGACAAGGCCAACAAAGGGGTAAAAAGAGATGGATTAGGCCTAGGTTAATA
1 GTAAGACAGCAGTTGGACAAGGCCAACAAAGGGGTAAAAAGAGACGGATTAGGCCTAGGTTAATA
*
882118 CAAACTGATTCCCTGGTCATTATTTCTTAGTGATAATCTTCAATTATTATTTTTTTTT
66 CAAACTGATTCCCTGGTCATTATTTCTGAGTGATAATCTTCAATTATTATTTTTTTTT
882176 TTTGAAAAAA
Statistics
Matches: 120, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
126 111 0.93
127 9 0.08
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (127 bp):
GTAAGACAGCAGTTGGACAAGGCCAACAAAGGGGTAAAAAGAGACGGATTAGGCCTAGGTTAATA
CAAACTGATTCCCTGGTCATTATTTCTGAGTGATAATCTTCAATTATTATTTTTTTTTCTGA
Found at i:885636 original size:20 final size:21
Alignment explanation
Indices: 885598--885636 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
885588 GTAAAAAATT
* *
885598 TTAAAAACTATATATTAAAAA
1 TTAAAAACTAAATAGTAAAAA
885619 TTAAAAA-TAAATAGTAAA
1 TTAAAAACTAAATAGTAAA
885637 TAAATAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (21 bp):
TTAAAAACTAAATAGTAAAAA
Done.