Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 26 of 213
Found at i:6962920 original size:147 final size:149
Alignment explanation
Indices: 6962646--6962920 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
6962636 ATGATTATTG
*
6962646 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
6962711 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
6962776 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
* *
6962795 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTACTCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
6962858 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
6962921 ATATTCTTAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 94 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:6963016 original size:18 final size:17
Alignment explanation
Indices: 6962976--6963028 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
6962966 AAATATAAAT
6962976 TAAAATA-ATAA-TT-A
1 TAAAATATATAATTTAA
*
6962990 TTAAATATAT--TTTAA
1 TAAAATATATAATTTAA
6963005 TTAAAATATATAATTTAA
1 -TAAAATATATAATTTAA
6963023 TAAAAT
1 TAAAAT
6963029 TCTAATAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 8 0.26
15 3 0.10
16 9 0.29
17 6 0.19
18 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAATATATAATTTAA
Found at i:6963086 original size:60 final size:59
Alignment explanation
Indices: 6962902--6963088 Score: 157
Period size: 60 Copynumber: 3.1 Consensus size: 59
6962892 ATATAATTTA
*
6962902 ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTC-TAATAA-TAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
* * ** * * * ** * * * *
6962963 GTAAAATAT-AAATTAA-AATAATAATTAT-TAAATATATTTTAATTAAAATATATAAT-TT
1 ATAAAAT-TCTAA-TAATAAT-ATTCTTATATGAATTTACTAAAATCATAATATATGATACT
6963021 AATAAAATTCTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
1 -ATAAAATTCTAATAAT-AATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
6963082 ATAAAAT
1 ATAAAAT
6963089 ATAATTTGAA
Statistics
Matches: 91, Mismatches: 26, Indels: 19
0.67 0.19 0.14
Matches are distributed among these distances:
58 5 0.05
59 37 0.41
60 38 0.42
61 10 0.11
62 1 0.01
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (59 bp):
ATAAAATTCTAATAATAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
Found at i:6963087 original size:119 final size:120
Alignment explanation
Indices: 6962854--6963148 Score: 495
Period size: 119 Copynumber: 2.5 Consensus size: 120
6962844 TTACTCATAT
*
6962854 TTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTAAA-ATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* * *
6962919 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA
65 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
6962975 TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTC-TAATAATC
1 TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATC
*
6963039 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAT
66 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
* *
6963094 TTGAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTAAAATAA-TAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
6963149 TAAAATAATT
Statistics
Matches: 166, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
119 108 0.65
120 53 0.32
121 5 0.03
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (120 bp):
TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATC
AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
Found at i:6967056 original size:26 final size:25
Alignment explanation
Indices: 6967027--6967088 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 25
6967017 CAATAAGTCT
*
6967027 TTATATTTTTATTATTTTTTTATATA
1 TTATATTTTTATTATTTTTATAT-TA
*
6967053 TTATCATTTTAATTATTTTTATATTA
1 TTAT-ATTTTTATTATTTTTATATTA
6967079 TCTA-ATTTTT
1 T-TATATTTTT
6967089 TATAATATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 5 0.16
26 7 0.23
27 19 0.61
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.69
Consensus pattern (25 bp):
TTATATTTTTATTATTTTTATATTA
Found at i:6967916 original size:15 final size:15
Alignment explanation
Indices: 6967896--6967929 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6967886 ATGTGATTAA
6967896 TTTCAACTAATTTAT
1 TTTCAACTAATTTAT
* *
6967911 TTTCAATTACTTTAT
1 TTTCAACTAATTTAT
6967926 TTTC
1 TTTC
6967930 TAAAATTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTCAACTAATTTAT
Found at i:6978520 original size:15 final size:15
Alignment explanation
Indices: 6978500--6978533 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6978490 ATGTGATTAA
6978500 TTTCAACTAATTTAT
1 TTTCAACTAATTTAT
* *
6978515 TTTCAATTACTTTAT
1 TTTCAACTAATTTAT
6978530 TTTC
1 TTTC
6978534 TAAAATTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTCAACTAATTTAT
Found at i:6979008 original size:26 final size:28
Alignment explanation
Indices: 6978953--6979008 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
6978943 CTCTTTTATG
*
6978953 TATATAAATAAAATAATAAATATGTGAT
1 TATATAAATAAAATAATAAATATGTAAT
6978981 TATAT-AATAAAAT-ATAAAATAT-TAAT
1 TATATAAATAAAATAAT-AAATATGTAAT
6979007 TA
1 TA
6979009 AAAAGATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 7 0.27
27 14 0.54
28 5 0.19
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (28 bp):
TATATAAATAAAATAATAAATATGTAAT
Found at i:6984577 original size:7 final size:7
Alignment explanation
Indices: 6984565--6984590 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6984555 AAACAAACTC
6984565 AAAATAA
1 AAAATAA
6984572 AAAATAA
1 AAAATAA
6984579 AAAATAA
1 AAAATAA
6984586 AAAAT
1 AAAAT
6984591 CTTAACCAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATAA
Found at i:6984803 original size:22 final size:21
Alignment explanation
Indices: 6984770--6984810 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
6984760 TTTTATTTTA
6984770 ATATTTTCAAAAATATTAAGAT
1 ATATTTTC-AAAATATTAAGAT
6984792 ATATCTTT-AAAATATTAAG
1 ATAT-TTTCAAAATATTAAG
6984811 TAAGAGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.61
22 4 0.22
23 3 0.17
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (21 bp):
ATATTTTCAAAATATTAAGAT
Found at i:6986049 original size:20 final size:21
Alignment explanation
Indices: 6986019--6986057 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
6986009 ATTAAAGGTG
*
6986019 TTTATATTTTTTAATTTAATT
1 TTTATATTTTTTAAGTTAATT
6986040 TTTA-ATTTTTTAAGTTAA
1 TTTATATTTTTTAAGTTAA
6986058 ATTTGACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (21 bp):
TTTATATTTTTTAAGTTAATT
Found at i:6986060 original size:21 final size:21
Alignment explanation
Indices: 6986019--6986061 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
6986009 ATTAAAGGTG
*
6986019 TTTATATTTTTTAATTTAATT
1 TTTATATTTTTTAATTAAATT
6986040 TTTA-ATTTTTTAAGTTAAATT
1 TTTATATTTTTTAA-TTAAATT
6986061 T
1 T
6986062 GACTTTTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTATATTTTTTAATTAAATT
Found at i:6986068 original size:20 final size:20
Alignment explanation
Indices: 6986024--6986068 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
6986014 AGGTGTTTAT
* * *
6986024 ATTTTTTAATTTAATTTTTA
1 ATTTTTTAAGTTAAATTTGA
6986044 ATTTTTTAAGTTAAATTTGA
1 ATTTTTTAAGTTAAATTTGA
*
6986064 CTTTT
1 ATTTT
6986069 AGTTTTTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (20 bp):
ATTTTTTAAGTTAAATTTGA
Found at i:6987458 original size:2 final size:2
Alignment explanation
Indices: 6987414--6987440 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6987404 TCCATTCCTT
6987414 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
6987441 TTATTTATTT
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:6994561 original size:21 final size:21
Alignment explanation
Indices: 6994535--6994575 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6994525 AGACGAGCAA
* *
6994535 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
6994556 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
6994576 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:6996275 original size:12 final size:12
Alignment explanation
Indices: 6996258--6996288 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
6996248 GATTCCGACA
6996258 GCAGATAATCCC
1 GCAGATAATCCC
6996270 GCAGATAATCCC
1 GCAGATAATCCC
6996282 GCAGATA
1 GCAGATA
6996289 TGATGACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.35, C:0.29, G:0.19, T:0.16
Consensus pattern (12 bp):
GCAGATAATCCC
Found at i:7007898 original size:21 final size:21
Alignment explanation
Indices: 7007866--7007906 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
7007856 GAACATTTGG
7007866 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
7007887 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
7007907 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:7017002 original size:16 final size:17
Alignment explanation
Indices: 7016981--7017012 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
7016971 ATATTAGGGG
7016981 CAAAAGTAT-AATTTTA
1 CAAAAGTATGAATTTTA
7016997 CAAAAGTATGAATTTT
1 CAAAAGTATGAATTTT
7017013 GGACTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (17 bp):
CAAAAGTATGAATTTTA
Found at i:7030262 original size:29 final size:29
Alignment explanation
Indices: 7030201--7030263 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
7030191 CAAAGTATTA
*
7030201 AATAATTTATTAAAATAATAAATTATATC
1 AATAATTTATTAAAATAATAAATTAGATC
*
7030230 AATAATTTATT-ATATGAATAAATATAGAT-
1 AATAATTTATTAAAAT-AATAAAT-TAGATC
7030259 AATAA
1 AATAA
7030264 AATATGTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 3 0.10
29 23 0.77
30 4 0.13
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.40
Consensus pattern (29 bp):
AATAATTTATTAAAATAATAAATTAGATC
Found at i:7030340 original size:22 final size:21
Alignment explanation
Indices: 7030287--7030344 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
7030277 AATAATATTG
*
7030287 AAAAATATAATA-TTTTAAATT
1 AAAAATA-AATATTTTTAAAAT
7030308 AAAATATTAAATATTTTTAAAAAT
1 AAAA-A-TAAATATTTTT-AAAAT
7030332 AAAAATAAA-ATTT
1 AAAAATAAATATTT
7030345 ATTATCAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
21 8 0.25
22 9 0.28
23 7 0.22
24 8 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAATAAATATTTTTAAAAT
Found at i:7030342 original size:23 final size:21
Alignment explanation
Indices: 7030287--7030342 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 21
7030277 AATAATATTG
* *
7030287 AAAAATATAATATTTTAAATT
1 AAAAATAAAATATTTTAAAAT
*
7030308 AAAATATTAAATATTTTTAAAAAT
1 AAAA-ATAAAATA-TTTT-AAAAT
7030332 AAAAATAAAAT
1 AAAAATAAAAT
7030343 TTATTATCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 4 0.14
22 6 0.21
23 10 0.36
24 8 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAAATAAAATATTTTAAAAT
Found at i:7045991 original size:33 final size:33
Alignment explanation
Indices: 7045953--7046018 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
7045943 AATTTCATCC
7045953 TTTTCTTTAATTAATTTTCCATGGATGAATCAT
1 TTTTCTTTAATTAATTTTCCATGGATGAATCAT
7045986 TTTTCTTTAATTAATTTTCCATGGATGAATCAT
1 TTTTCTTTAATTAATTTTCCATGGATGAATCAT
7046019 CATACTTATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52
Consensus pattern (33 bp):
TTTTCTTTAATTAATTTTCCATGGATGAATCAT
Found at i:7049649 original size:18 final size:17
Alignment explanation
Indices: 7049628--7049705 Score: 57
Period size: 18 Copynumber: 4.3 Consensus size: 17
7049618 TTTATAAATT
*
7049628 TTTAAAACATTATTAAAA
1 TTTAAAA-AATATTAAAA
7049646 TTTATAAAAATATTAAAA
1 TTTA-AAAAATATTAAAA
* * *
7049664 TTCAAAAAAAATAAAAA
1 TTTAAAAAATATTAAAA
*
7049681 TTAATAAAAATCATTTAAAA
1 TTTA-AAAAAT-A-TTAAAA
*
7049701 GTTAA
1 TTTAA
7049706 CTCCAAAATT
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
17 14 0.30
18 21 0.45
19 5 0.11
20 7 0.15
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (17 bp):
TTTAAAAAATATTAAAA
Found at i:7049851 original size:13 final size:12
Alignment explanation
Indices: 7049829--7049855 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7049819 TTTTTATAAG
7049829 TTTTAAAAAAAA
1 TTTTAAAAAAAA
7049841 TTTTAAAAAAAA
1 TTTTAAAAAAAA
7049853 TTT
1 TTT
7049856 AAGTATAAAT
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TTTTAAAAAAAA
Found at i:7057721 original size:23 final size:22
Alignment explanation
Indices: 7057669--7057721 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
7057659 TCCACGTCTT
*
7057669 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
7057691 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
7057714 TTTCTTTT
1 TTTCTTTT
7057722 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:7066071 original size:30 final size:30
Alignment explanation
Indices: 7066016--7066072 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
7066006 GCCTGTGTTA
* **
7066016 TACACGGGCGGTCCACACGGTCGTGTGCTG
1 TACACAGGCGGTCCACACGACCGTGTGCTG
7066046 TACACAGGCGGTCCACACGACCGTGTG
1 TACACAGGCGGTCCACACGACCGTGTG
7066073 TAATTGGGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.18, C:0.32, G:0.33, T:0.18
Consensus pattern (30 bp):
TACACAGGCGGTCCACACGACCGTGTGCTG
Found at i:7067797 original size:19 final size:19
Alignment explanation
Indices: 7067773--7067809 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7067763 TGCAGTTAAT
* *
7067773 AAATTATTATTTAATTTTC
1 AAATTAATATCTAATTTTC
7067792 AAATTAATATCTAATTTT
1 AAATTAATATCTAATTTT
7067810 TATAAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (19 bp):
AAATTAATATCTAATTTTC
Found at i:7069748 original size:3 final size:3
Alignment explanation
Indices: 7069740--7069785 Score: 67
Period size: 3 Copynumber: 15.3 Consensus size: 3
7069730 TTTAGCAATT
*
7069740 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTTA TCA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
7069785 T
1 T
7069786 ATAATAGCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 1 0.03
3 35 0.90
4 3 0.08
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:7073966 original size:34 final size:33
Alignment explanation
Indices: 7073920--7073986 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
7073910 CAAAAATAAG
*
7073920 GAAAAGAAAAAAAAAGAAAAATCAAAGTCAAAA
1 GAAAAAAAAAAAAAAGAAAAATCAAAGTCAAAA
**
7073953 GAAAAAAAGAAAAAAAGATCAATCAAAGTCAAAA
1 GAAAAAAA-AAAAAAAGAAAAATCAAAGTCAAAA
7073987 ATAAGAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 7 0.23
34 23 0.77
ACGTcount: A:0.73, C:0.07, G:0.12, T:0.07
Consensus pattern (33 bp):
GAAAAAAAAAAAAAAGAAAAATCAAAGTCAAAA
Found at i:7074001 original size:6 final size:6
Alignment explanation
Indices: 7073992--7074034 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
7073982 CAAAAATAAG
*
7073992 AGAAAA AGAAAA A-AAAA GAGAAAA GGAAAA AG-AAA AGAAAA AG
1 AGAAAA AGAAAA AGAAAA -AGAAAA AGAAAA AGAAAA AGAAAA AG
7074035 GAGAGGTCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 9 0.28
6 19 0.59
7 4 0.12
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:7074004 original size:18 final size:17
Alignment explanation
Indices: 7073921--7074034 Score: 63
Period size: 18 Copynumber: 6.3 Consensus size: 17
7073911 AAAAATAAGG
7073921 AAAAGAAAAAAAA-AGA
1 AAAAGAAAAAAAAGAGA
* * *
7073937 AAAATCAAAGTCAAAAGAAA
1 AAAA-GAAA--AAAAAGAGA
*
7073957 AAAAG-AAAAAAAGATCA
1 AAAAGAAAAAAAAGA-GA
*
7073974 ATCAAAGTCAAAAATAAGAGA
1 A--AAAG--AAAAAAAAGAGA
7073995 AAAAGAAAAAAAAAGAGA
1 AAAAG-AAAAAAAAGAGA
*
7074013 AAAGGAAAAAGAAA-AGA
1 AAAAGAAAAA-AAAGAGA
7074030 AAAAG
1 AAAAG
7074035 GAGAGGTCAA
Statistics
Matches: 75, Mismatches: 12, Indels: 21
0.69 0.11 0.19
Matches are distributed among these distances:
16 10 0.13
17 17 0.23
18 20 0.27
19 12 0.16
20 6 0.08
21 2 0.03
22 8 0.11
ACGTcount: A:0.75, C:0.04, G:0.15, T:0.05
Consensus pattern (17 bp):
AAAAGAAAAAAAAGAGA
Found at i:7074035 original size:18 final size:17
Alignment explanation
Indices: 7073992--7074036 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
7073982 CAAAAATAAG
7073992 AGAAAAA-GAAAAAAAA
1 AGAAAAAGGAAAAAAAA
7074008 AGAGAAAAGGAAAAAGAAA
1 AGA-AAAAGGAAAAA-AAA
7074027 AGAAAAAGGA
1 AGAAAAAGGA
7074037 GAGGTCAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 3 0.12
17 4 0.15
18 13 0.50
19 6 0.23
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (17 bp):
AGAAAAAGGAAAAAAAA
Found at i:7076333 original size:50 final size:50
Alignment explanation
Indices: 7076126--7077354 Score: 655
Period size: 50 Copynumber: 24.7 Consensus size: 50
7076116 ATTGCAATTC
* * * * **
7076126 AAAGATTGAAGCCACAACGGTGAATTTTAC-TCCCAGGA-AATGCAGCGGA
1 AAAGATTGAAGCTACAACGGTGAATCTTACTTCCC-CGACATTGCAGTTGA
** * * * * * *
7076175 GCAGATTGAAGCTACAACAGCGAATCTCACTTCCCTGACATTGCAATT-C
1 AAAGATTGAAGCTACAACGGTGAATCTTACTTCCCCGACATTGCAGTTGA
* * * **
7076224 AAAGATTGAAGCCACAACGGTGAATCTTAC-TCCCAGGCGA-TGCAGCGGA
1 AAAGATTGAAGCTACAACGGTGAATCTTACTTCCCCGAC-ATTGCAGTTGA
** * * * * * *
7076273 GCAGATTGAAGCTACAGCGGCGAATCTCACTTCCCCGACATTACAATTTA
1 AAAGATTGAAGCTACAACGGTGAATCTTACTTCCCCGACATTGCAGTTGA
* * * ** **
7076323 AAAGATTGAAGCTACAACAGTGAATCTCACCT-CCTTAGCGA-TGCAGCGGA
1 AAAGATTGAAGCTACAACGGTGAATCTTACTTCCCCGA-C-ATTGCAGTTGA
* * * * ** *
7076373 ACAGATCGAAGCTACGACGGTGAATCTCT-CTTCCCTGACATCACAGTTTA
1 AAAGATTGAAGCTACAACGGTGAATCT-TACTTCCCCGACATTGCAGTTGA
* * ** * **
7076423 AAAGATCGAAGCCACAACGGTGAATCTTACTT-CTAGGCGA-TGCAGCGGA
1 AAAGATTGAAGCTACAACGGTGAATCTTACTTCCCCGAC-ATTGCAGTTGA
* ** * * * *
7076472 ACAGATTGAAGCTACAATAGCGAATCTTGCTTCCCCGACATTGCAATTCA
1 AAAGATTGAAGCTACAACGGTGAATCTTACTTCCCCGACATTGCAGTTGA
* * * ** ** * **
7076522 AAAGATCGAAGCCACAACGGTGAATCTTGCTT-CCAAACGGTGTAGCGGA
1 AAAGATTGAAGCTACAACGGTGAATCTTACTTCCCCGACATTGCAGTTGA
* * * * *
7076571 ACAGATTGAAGCTACGACGGTGAATCTCACTTCCCCGACATTGCAATTCA
1 AAAGATTGAAGCTACAACGGTGAATCTTACTTCCCCGACATTGCAGTTGA
* * * * * * * *
7076621 AAAGATCGAAGCCACAACGGCGAATCTTATTTCCCAGGCAGTGTAGTTGA
1 AAAGATTGAAGCTACAACGGTGAATCTTACTTCCCCGACATTGCAGTTGA
* * * * * * * *
7076671 ATAGATTGAAGCTACAACAGTGGATCTTGCTTCCTCGACATTACAATTCA
1 AAAGATTGAAGCTACAACGGTGAATCTTACTTCCCCGACATTGCAGTTGA
* * ** * **
7076721 AAAGATTGAAGCTACAACAGTGAATCTTACCTCCTTGGCGA-TGCAGCGGA
1 AAAGATTGAAGCTACAACGGTGAATCTTACTTCCCCGAC-ATTGCAGTTGA
* * * *
7076771 ACAGATTGAAGCTACAACGGTGAATCTCACTTCCCCGACATTGCAATTCA
1 AAAGATTGAAGCTACAACGGTGAATCTTACTTCCCCGACATTGCAGTTGA
* * * * *
7076821 AATGATTGAAGCCACAACAGTGAATCTTACTT-CCCAAGCGA-TGCAGTGGA
1 AAAGATTGAAGCTACAACGGTGAATCTTACTTCCCCGA-C-ATTGCAGTTGA
* * * ** * *
7076871 GAAGATTAAAGTTACAACGACGAATCTCACTTCCCCGACATTGCAGTTCA
1 AAAGATTGAAGCTACAACGGTGAATCTTACTTCCCCGACATTGCAGTTGA
* * * * **
7076921 AAAGATTG-AGGTCACAATGGCGAATCTTAC-TCCCAGACGA-TGCAGCAGA
1 AAAGATTGAAGCT-ACAACGGTGAATCTTACTTCCCCGAC-ATTGCAGTTGA
** * * * * * *
7076970 GCAGATTGAAACTACAACGGCGAATCTCACTTCCCCAACATTGCAATTCA
1 AAAGATTGAAGCTACAACGGTGAATCTTACTTCCCCGACATTGCAGTTGA
* ** * ** **
7077020 AAAGATTGAAGCCACAACAATGAATCTTACTTCCCAAGTGA-TGCAGCGGA
1 AAAGATTGAAGCTACAACGGTGAATCTTACTTCCC-CGACATTGCAGTTGA
** * * * * *
7077070 GCAGACTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGCAATTCA
1 AAAGATTGAAGCTACAACGGTGAATCTTACTTCCCCGACATTGCAGTTGA
* * ** **
7077120 AAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAAGTGA-TGCAGCAGA
1 AAAGATTGAAGCTACAACGGTGAATCTTACTTCCC-CGACATTGCAGTTGA
* * * * * *
7077170 GCAA-ACTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGCAATTCA
1 -AAAGATTGAAGCTACAACGGTGAATCTTACTTCCCCGACATTGCAGTTGA
* * * ** **
7077220 AAAGATTGAAGCCACAATGGTGAATCTTACTTCCCAAGTGA-TGCAGCGGA
1 AAAGATTGAAGCTACAACGGTGAATCTTACTTCCC-CGACATTGCAGTTGA
** * * * * * *
7077270 GCAGACTGAAGCTACAACGGCGAATCTCACTTCCCTGACATTGCAATTCA
1 AAAGATTGAAGCTACAACGGTGAATCTTACTTCCCCGACATTGCAGTTGA
* * * *
7077320 AAATAGTGAAGCCACAAGGGTGAATCTTACTTCCC
1 AAAGATTGAAGCTACAACGGTGAATCTTACTTCCC
7077355 GAACATCATA
Statistics
Matches: 842, Mismatches: 303, Indels: 69
0.69 0.25 0.06
Matches are distributed among these distances:
48 10 0.01
49 199 0.24
50 615 0.73
51 18 0.02
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (50 bp):
AAAGATTGAAGCTACAACGGTGAATCTTACTTCCCCGACATTGCAGTTGA
Found at i:7077084 original size:399 final size:398
Alignment explanation
Indices: 7076116--7077350 Score: 1604
Period size: 399 Copynumber: 3.1 Consensus size: 398
7076106 GAAACCATAG
* *
7076116 ATTGCAATTC-AAAGATTGAAGCCACAACGGTGAATTTTACTCCCAGGA-AATGCAGCGGAGCAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTCCCA-GACGATGCAGCGGAGCAG
* *
7076179 ATTGAAGCTACAACAGCGAATCTCACTTCCCTGACATTGCAATTC-AAAGATTGAAGCCACAACG
65 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACG
* *
7076243 GTGAATCTTAC-TCCCAGGCGATGCAGCGGAGCAGATTGAAGCTACAGCGGCGAATCTCACTTCC
130 GTGAATCTTACTTCCCAAG-GATGCAGCGGAGCAGATTGAAGCTACAACGGCGAATCTCACTTCC
* *
7076307 CCGACATTACAATTTAAAAGATTGAAGCTACAACAGTGAATCTCACCTCCTTAGCGATGCAGCGG
194 CCGACATTACAATTCAAAAGATTGAAGCTACAACAGTGAATCTTACCTCCTTAGCGATGCAGCGG
* * * * ** * * *
7076372 AACAGATCGAAGCTACGACGGTGAATCTCTCTTCCCTGACATCACAGTTTAAAAGATCGAAGCCA
259 AACAGATTGAAGCTACAACGGTGAATCTCACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCA
* * *
7076437 CAACGGTGAATCTTACTT-CTAGGCGATGCAGCGGA-ACAGATTGAAGCTACAA-TAGCGAATCT
324 CAACGGTGAATCTTACTTCCCAAGCGATGCAGCGGAGA-AGATTGAAGCTACAACGA-CGAATCT
**
7076499 TGCTTCCCCGAC
387 CACTTCCCCGAC
* * * * * * *
7076511 ATTGCAATTCAAAAGATCGAAGCCACAACGGTGAATCTTGCTTCCAAACGGTGTAGCGGAACAGA
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTCCCAGACGATGCAGCGGAGCAGA
* * *
7076576 TTGAAGCTACGACGGTGAATCTCACTTCCCCGACATTGCAATTCAAAAGATCGAAGCCACAACGG
66 TTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACGG
* * * ** ** * * * **
7076641 CGAATCTTATTTCCC-AGGCAGTGTAGTTGAATAGATTGAAGCTACAACAGTGGATCTTGCTTCC
131 TGAATCTTACTTCCCAAGG-A-TGCAGCGGAGCAGATTGAAGCTACAACGGCGAATCTCACTTCC
* *
7076705 TCGACATTACAATTCAAAAGATTGAAGCTACAACAGTGAATCTTACCTCCTTGGCGATGCAGCGG
194 CCGACATTACAATTCAAAAGATTGAAGCTACAACAGTGAATCTTACCTCCTTAGCGATGCAGCGG
*
7076770 AACAGATTGAAGCTACAACGGTGAATCTCACTTCCCCGACATTGCAATTCAAATGATTGAAGCCA
259 AACAGATTGAAGCTACAACGGTGAATCTCACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCA
* * * *
7076835 CAACAGTGAATCTTACTTCCCAAGCGATGCAGTGGAGAAGATTAAAGTTACAACGACGAATCTCA
324 CAACGGTGAATCTTACTTCCCAAGCGATGCAGCGGAGAAGATTGAAGCTACAACGACGAATCTCA
7076900 CTTCCCCGAC
389 CTTCCCCGAC
* * * * * *
7076910 ATTGCAGTTCAAAAGATTGAGGTCACAATGGCGAATCTTACTCCCAGACGATGCAGCAGAGCAGA
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTCCCAGACGATGCAGCGGAGCAGA
* * **
7076975 TTGAAACTACAACGGCGAATCTCACTTCCCCAACATTGCAATTCAAAAGATTGAAGCCACAACAA
66 TTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACGG
*
7077040 TGAATCTTACTTCCCAAGTGATGCAGCGGAGCAGACTGAAGCTACAACGGCGAATCTCACTTCCC
131 TGAATCTTACTTCCCAAG-GATGCAGCGGAGCAGATTGAAGCTACAACGGCGAATCTCACTTCCC
* * * * ** * *
7077105 CGACATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAAGTGATGCAGCAGA
195 CGACATTACAATTCAAAAGATTGAAGCTACAACAGTGAATCTTACCTCCTTAGCGATGCAGCGGA
* * * *
7077170 GCAAACTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCAC
260 ACAGATTGAAGCTACAACGGTGAATCTCACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCAC
* * * * *
7077235 AATGGTGAATCTTACTTCCCAAGTGATGCAGCGGAGCAGACTGAAGCTACAACGGCGAATCTCAC
325 AACGGTGAATCTTACTTCCCAAGCGATGCAGCGGAGAAGATTGAAGCTACAACGACGAATCTCAC
*
7077300 TTCCCTGAC
390 TTCCCCGAC
* * *
7077309 ATTGCAATTCAAAATAGTGAAGCCACAAGGGTGAATCTTACT
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACT
7077351 TCCCGAACAT
Statistics
Matches: 713, Mismatches: 116, Indels: 18
0.84 0.14 0.02
Matches are distributed among these distances:
395 11 0.02
396 84 0.12
397 29 0.04
398 169 0.24
399 414 0.58
400 5 0.01
401 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (398 bp):
ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTCCCAGACGATGCAGCGGAGCAGA
TTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACGG
TGAATCTTACTTCCCAAGGATGCAGCGGAGCAGATTGAAGCTACAACGGCGAATCTCACTTCCCC
GACATTACAATTCAAAAGATTGAAGCTACAACAGTGAATCTTACCTCCTTAGCGATGCAGCGGAA
CAGATTGAAGCTACAACGGTGAATCTCACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACA
ACGGTGAATCTTACTTCCCAAGCGATGCAGCGGAGAAGATTGAAGCTACAACGACGAATCTCACT
TCCCCGAC
Found at i:7077354 original size:100 final size:100
Alignment explanation
Indices: 7076116--7077354 Score: 1533
Period size: 100 Copynumber: 12.5 Consensus size: 100
7076106 GAAACCATAG
* * **
7076116 ATTGCAATTC-AAAGATTGAAGCCACAACGGTGAATTTTAC-TCCCAGGAAATGCAGCGGAGCAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAAGCGATGCAGCGGAGCAG
* *
7076179 ATTGAAGCTACAACAGCGAATCTCACTTCCCTGAC
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
*
7076214 ATTGCAATTC-AAAGATTGAAGCCACAACGGTGAATCTTAC-TCCCAGGCGATGCAGCGGAGCAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAAGCGATGCAGCGGAGCAG
*
7076277 ATTGAAGCTACAGCGGCGAATCTCACTTCCCCGAC
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * * * * ** *
7076312 ATTACAATTTAAAAGATTGAAGCTACAACAGTGAATCTCACCTCCTTAGCGATGCAGCGGAACAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAAGCGATGCAGCGGAGCAG
* * * * *
7076377 ATCGAAGCTACGACGGTGAATCTCTCTTCCCTGAC
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
** * * * * * *
7076412 ATCACAGTTTAAAAGATCGAAGCCACAACGGTGAATCTTACTT-CTAGGCGATGCAGCGGAACAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAAGCGATGCAGCGGAGCAG
** **
7076476 ATTGAAGCTACAATAGCGAATCTTGCTTCCCCGAC
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * * * *
7076511 ATTGCAATTCAAAAGATCGAAGCCACAACGGTGAATCTTGCTT-CCAAACGGTGTAGCGGAACAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAAGCGATGCAGCGGAGCAG
* *
7076575 ATTGAAGCTACGACGGTGAATCTCACTTCCCCGAC
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * * * ** **
7076610 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTATTTCCCAGGC-AGTGTAGTTGAATA
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAAGCGA-TGCAGCGGAGCA
* * * ** *
7076674 GATTGAAGCTACAACAGTGGATCTTGCTTCCTCGAC
65 GATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * * *** *
7076710 ATTACAATTCAAAAGATTGAAGCTACAACAGTGAATCTTACCTCCTTGGCGATGCAGCGGAACAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAAGCGATGCAGCGGAGCAG
*
7076775 ATTGAAGCTACAACGGTGAATCTCACTTCCCCGAC
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * *
7076810 ATTGCAATTCAAATGATTGAAGCCACAACAGTGAATCTTACTTCCCAAGCGATGCAGTGGAGAAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAAGCGATGCAGCGGAGCAG
* * *
7076875 ATTAAAGTTACAACGACGAATCTCACTTCCCCGAC
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * * * * *
7076910 ATTGCAGTTCAAAAGATTGAGGTCACAATGGCGAATCTTAC-TCCC-AGACGATGCAGCAGAGCA
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAAG-CGATGCAGCGGAGCA
* *
7076973 GATTGAAACTACAACGGCGAATCTCACTTCCCCAAC
65 GATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
** *
7077009 ATTGCAATTCAAAAGATTGAAGCCACAACAATGAATCTTACTTCCCAAGTGATGCAGCGGAGCAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAAGCGATGCAGCGGAGCAG
*
7077074 ACTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * *
7077109 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAAGTGATGCAGCAGAGCAA
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAAGCGATGCAGCGGAGCAG
*
7077174 ACTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* *
7077209 ATTGCAATTCAAAAGATTGAAGCCACAATGGTGAATCTTACTTCCCAAGTGATGCAGCGGAGCAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAAGCGATGCAGCGGAGCAG
* *
7077274 ACTGAAGCTACAACGGCGAATCTCACTTCCCTGAC
66 ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
* * *
7077309 ATTGCAATTCAAAATAGTGAAGCCACAAGGGTGAATCTTACTTCCC
1 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCC
7077355 GAACATCATA
Statistics
Matches: 994, Mismatches: 139, Indels: 14
0.87 0.12 0.01
Matches are distributed among these distances:
98 102 0.10
99 277 0.28
100 612 0.62
101 3 0.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (100 bp):
ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAAGCGATGCAGCGGAGCAG
ATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC
Found at i:7079013 original size:3 final size:3
Alignment explanation
Indices: 7079005--7079076 Score: 74
Period size: 3 Copynumber: 23.3 Consensus size: 3
7078995 TTTAGCAATT
* *
7079005 TTA TTA TTA TTA TCA TCTT TTA TTA TTA TTA TTA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* *
7079052 TTA TTG TTA CTTA TCA -TA TTA TTA T
1 TTA TTA TTA -TTA TTA TTA TTA TTA T
7079077 ATAATAGCTT
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
2 1 0.02
3 49 0.86
4 7 0.12
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:7079029 original size:16 final size:16
Alignment explanation
Indices: 7079008--7079076 Score: 65
Period size: 16 Copynumber: 4.4 Consensus size: 16
7078998 AGCAATTTTA
7079008 TTATTATTATCATCT-T
1 TTATTATTATCAT-TAT
*
7079024 TTATTATTATTATTAT
1 TTATTATTATCATTAT
*
7079040 TTATTATTATTATTA-
1 TTATTATTATCATTAT
*
7079055 TTGTTACTTATCA-TA-
1 TTATTA-TTATCATTAT
7079070 TTATTAT
1 TTATTAT
7079077 ATAATAGCTT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
14 1 0.02
15 13 0.28
16 33 0.70
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (16 bp):
TTATTATTATCATTAT
Found at i:7079056 original size:19 final size:19
Alignment explanation
Indices: 7079003--7079056 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
7078993 TTTTTAGCAA
*
7079003 TTTTATTATTATTATCATC
1 TTTTATTATTATTATTATC
7079022 TTTTATTATTATTATTAT-
1 TTTTATTATTATTATTATC
7079040 TTATTATTATTATTATT
1 TT-TTATTATTATTATT
7079057 GTTACTTATC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
18 2 0.06
19 31 0.94
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTATTATTATTATTATC
Found at i:7079065 original size:19 final size:17
Alignment explanation
Indices: 7079002--7079076 Score: 80
Period size: 19 Copynumber: 4.1 Consensus size: 17
7078992 TTTTTTAGCA
7079002 ATTTTATTATTATTATCAT
1 ATTTTATTATTATTAT--T
*
7079021 CTTTTATTATTATTATT
1 ATTTTATTATTATTATT
7079038 A-TTTATTATTATTATT
1 ATTTTATTATTATTATT
7079054 ATTGTTACTTATCATATTATT
1 ATT-TTA-TTAT--TATTATT
7079075 AT
1 AT
7079077 ATAATAGCTT
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
16 16 0.33
17 2 0.04
18 3 0.06
19 19 0.39
21 9 0.18
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.64
Consensus pattern (17 bp):
ATTTTATTATTATTATT
Found at i:7080238 original size:4 final size:4
Alignment explanation
Indices: 7080231--7080256 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
7080221 TTTTTGTCGA
7080231 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
7080257 TAAATTGTTC
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:7081804 original size:16 final size:16
Alignment explanation
Indices: 7081785--7081830 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
7081775 ATAGATGTGC
*
7081785 AAATATATGTGTATAA
1 AAATATATGTATATAA
*
7081801 AAAT-TATAGAATATAA
1 AAATATAT-GTATATAA
7081817 AAA-ATATGTATATA
1 AAATATATGTATATA
7081831 TATGTTTGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 9 0.36
16 16 0.64
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.35
Consensus pattern (16 bp):
AAATATATGTATATAA
Found at i:7082028 original size:3 final size:3
Alignment explanation
Indices: 7081987--7082014 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
7081977 AAAATAAAAC
7081987 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
7082015 TGCAGTGATA
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:7089479 original size:30 final size:29
Alignment explanation
Indices: 7089419--7089495 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 29
7089409 TTTCATGACC
* *
7089419 ACACGGGTGG-CCACACAAGCCTGTGTTGT
1 ACACGGGTGGTCCACAC-GGCCTGTGCTGT
*
7089448 ACACGGGTGGTCCACACGGTCGTGTGCTGT
1 ACACGGGTGGTCCACACGG-CCTGTGCTGT
* * *
7089478 ACACAGGCGGTTCACACG
1 ACACGGGTGGTCCACACG
7089496 ACCATGTGTA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 11 0.28
30 29 0.73
ACGTcount: A:0.19, C:0.29, G:0.32, T:0.19
Consensus pattern (29 bp):
ACACGGGTGGTCCACACGGCCTGTGCTGT
Found at i:7091175 original size:18 final size:19
Alignment explanation
Indices: 7091154--7091189 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7091144 GTGCTTTTAT
7091154 TCAA-AAAAAAACTTTGAA
1 TCAAGAAAAAAACTTTGAA
*
7091172 TCAAGAAAATAACTTTGA
1 TCAAGAAAAAAACTTTGA
7091190 TGTATGGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.56, C:0.11, G:0.08, T:0.25
Consensus pattern (19 bp):
TCAAGAAAAAAACTTTGAA
Found at i:7091788 original size:3 final size:3
Alignment explanation
Indices: 7091780--7091838 Score: 50
Period size: 3 Copynumber: 20.0 Consensus size: 3
7091770 GTGTAAATGA
* * * * *
7091780 AAT AAT AAT AGT CAT AAT AAT ATT AAT AAT AAC AAT AAAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
7091826 AA- AAT AA- AAT AAT
1 AAT AAT AAT AAT AAT
7091839 GTAGCATAAT
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
2 4 0.09
3 36 0.84
4 3 0.07
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:7093403 original size:44 final size:44
Alignment explanation
Indices: 7093310--7093416 Score: 108
Period size: 44 Copynumber: 2.4 Consensus size: 44
7093300 AGAGAAATGG
* * * *
7093310 GATCTGCTGTACTTGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTCTACTTGATCTACTTCACACCAATACAGGAAAACAA
* * **
7093354 AATCTGCTCT-CTTCGATCTACTTCACACCAGTATGGGAAAACAA
1 GATCTGCTCTACTT-GATCTACTTCACACCAATACAGGAAAACAA
* *
7093398 GATCTGCTGTATTTGATCT
1 GATCTGCTCTACTTGATCT
7093417 GCTCTCTTCG
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
43 3 0.06
44 45 0.90
45 2 0.04
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (44 bp):
GATCTGCTCTACTTGATCTACTTCACACCAATACAGGAAAACAA
Found at i:7093420 original size:58 final size:59
Alignment explanation
Indices: 7093355--7093478 Score: 214
Period size: 59 Copynumber: 2.1 Consensus size: 59
7093345 TGAAGACAAA
*
7093355 ATCTGCTCTCTTCGATCTACTTC-ACACCAGTATGGGAAAACAAGATCTGCTGTATTTG
1 ATCTGCTCTCTTCGATCTACTTCGACACCAATATGGGAAAACAAGATCTGCTGTATTTG
* *
7093413 ATCTGCTCTCTTCGATCTACTTCGCCACCAATATGGGAATACAAGATCTGCTGTATTTG
1 ATCTGCTCTCTTCGATCTACTTCGACACCAATATGGGAAAACAAGATCTGCTGTATTTG
7093472 ATCTGCT
1 ATCTGCT
7093479 TCACGCCAAT
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
58 23 0.37
59 39 0.63
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (59 bp):
ATCTGCTCTCTTCGATCTACTTCGACACCAATATGGGAAAACAAGATCTGCTGTATTTG
Found at i:7093503 original size:44 final size:44
Alignment explanation
Indices: 7093412--7093592 Score: 146
Period size: 45 Copynumber: 4.1 Consensus size: 44
7093402 TGCTGTATTT
* * * * *** *
7093412 GATCTGCTCTCTTCGATCTACTTCGCCACCAATATGGGAATACAA
1 GATCTGCTGTCTTTGATCTACTTC-ACGCCAATACATGAAGACAA
* *
7093457 GATCTGCTGTATTTGATCTGCTTCACGCCAATACATGAAGACAA
1 GATCTGCTGTCTTTGATCTACTTCACGCCAATACATGAAGACAA
** * * * * * *** *
7093501 GATCAACTCTCTTCGATCTACTTCGCCACCAGTATGGGGAGACAA
1 GATCTGCTGTCTTTGATCTACTTC-ACGCCAATACATGAAGACAA
*
7093546 GATCTGTTGTCTTTGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTGTCTTTGATCTACTTCACGCCAATACATGAAGACAA
7093590 GAT
1 GAT
7093593 TTGTTATCTT
Statistics
Matches: 100, Mismatches: 35, Indels: 3
0.72 0.25 0.02
Matches are distributed among these distances:
44 48 0.48
45 52 0.52
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (44 bp):
GATCTGCTGTCTTTGATCTACTTCACGCCAATACATGAAGACAA
Found at i:7093537 original size:89 final size:89
Alignment explanation
Indices: 7093418--7093592 Score: 296
Period size: 89 Copynumber: 2.0 Consensus size: 89
7093408 ATTTGATCTG
* *
7093418 CTCTCTTCGATCTACTTCGCCACCAATATGGGAATACAAGATCTGCTGTATTTGATCTGCTTCAC
1 CTCTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTGTATTTGATCTACTTCAC
7093483 GCCAATACATGAAGACAAGATCAA
66 GCCAATACATGAAGACAAGATCAA
* * * *
7093507 CTCTCTTCGATCTACTTCGCCACCAGTATGGGGAGACAAGATCTGTTGTCTTTGATCTACTTCAC
1 CTCTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTGTATTTGATCTACTTCAC
7093572 GCCAATACATGAAGACAAGAT
66 GCCAATACATGAAGACAAGAT
7093593 TTGTTATCTT
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 80 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (89 bp):
CTCTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTGTATTTGATCTACTTCAC
GCCAATACATGAAGACAAGATCAA
Found at i:7093548 original size:45 final size:45
Alignment explanation
Indices: 7093418--7093549 Score: 131
Period size: 44 Copynumber: 3.0 Consensus size: 45
7093408 ATTTGATCTG
* **
7093418 CTCTCTTCGATCTACTTCGCCACCAATATGGGAATACAAGATCTG
1 CTCTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCAA
* * * * * * ***
7093463 CTGTATTTGATCTGCTTC-ACGCCAATACATGAAGACAAGATCAA
1 CTCTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCAA
* *
7093507 CTCTCTTCGATCTACTTCGCCACCAGTATGGGGAGACAAGATC
1 CTCTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATC
7093550 TGTTGTCTTT
Statistics
Matches: 63, Mismatches: 23, Indels: 2
0.72 0.26 0.02
Matches are distributed among these distances:
44 32 0.51
45 31 0.49
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (45 bp):
CTCTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCAA
Found at i:7093564 original size:45 final size:45
Alignment explanation
Indices: 7093412--7093569 Score: 156
Period size: 45 Copynumber: 3.5 Consensus size: 45
7093402 TGCTGTATTT
*
7093412 GATCTGCTCTCTTCGATCTACTTCGCCACCAATATGGGAATACAA
1 GATCTGCTCTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
* * * * * * ***
7093457 GATCTGCTGTATTTGATCTGCTTC-ACGCCAATACATGAAGACAA
1 GATCTGCTCTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
** * *
7093501 GATCAACTCTCTTCGATCTACTTCGCCACCAGTATGGGGAGACAA
1 GATCTGCTCTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
* * *
7093546 GATCTGTTGTCTTTGATCTACTTC
1 GATCTGCTCTCTTCGATCTACTTC
7093570 ACGCCAATAC
Statistics
Matches: 84, Mismatches: 28, Indels: 2
0.74 0.25 0.02
Matches are distributed among these distances:
44 32 0.38
45 52 0.62
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (45 bp):
GATCTGCTCTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
Found at i:7093603 original size:44 final size:44
Alignment explanation
Indices: 7093453--7093603 Score: 131
Period size: 44 Copynumber: 3.4 Consensus size: 44
7093443 ATATGGGAAT
* * * *
7093453 ACAAGATCTGCTGTATTTGATCTGCTTCACGCCAATACATGAAG
1 ACAAGATCTGTTATCTTTGATCTACTTCACGCCAATACATGAAG
*** * * * * * *** *
7093497 ACAAGATCAACTCTCTTCGATCTACTTCGCCACCAGTATGGGGAG
1 ACAAGATCTGTTATCTTTGATCTACTTC-ACGCCAATACATGAAG
*
7093542 ACAAGATCTGTTGTCTTTGATCTACTTCACGCCAATACATGAAG
1 ACAAGATCTGTTATCTTTGATCTACTTCACGCCAATACATGAAG
*
7093586 ACAAGATTTGTTATCTTT
1 ACAAGATCTGTTATCTTT
7093604 CAACCTGCTC
Statistics
Matches: 79, Mismatches: 27, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
44 47 0.59
45 32 0.41
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (44 bp):
ACAAGATCTGTTATCTTTGATCTACTTCACGCCAATACATGAAG
Found at i:7097842 original size:9 final size:9
Alignment explanation
Indices: 7097824--7097908 Score: 100
Period size: 9 Copynumber: 9.4 Consensus size: 9
7097814 TTTGGTTAAA
7097824 AATTAACCG
1 AATTAACCG
*
7097833 AATTACCCG
1 AATTAACCG
*
7097842 AATTAACCT
1 AATTAACCG
*
7097851 AATTACCCG
1 AATTAACCG
*
7097860 AATTAACAG
1 AATTAACCG
*
7097869 AATTACCCG
1 AATTAACCG
7097878 AATT-ACTCG
1 AATTAAC-CG
7097887 AATTAACCG
1 AATTAACCG
*
7097896 AATTAACCT
1 AATTAACCG
7097905 AATT
1 AATT
7097909 GAATCATACA
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
8 1 0.02
9 60 0.95
10 2 0.03
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:7097847 original size:18 final size:18
Alignment explanation
Indices: 7097824--7097908 Score: 118
Period size: 18 Copynumber: 4.7 Consensus size: 18
7097814 TTTGGTTAAA
7097824 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
*
7097842 AATTAACCTAATTACCCG
1 AATTAACCGAATTACCCG
*
7097860 AATTAACAGAATTACCCG
1 AATTAACCGAATTACCCG
*
7097878 AATT-ACTCGAATTAACCG
1 AATTAAC-CGAATTACCCG
*
7097896 AATTAACCTAATT
1 AATTAACCGAATT
7097909 GAATCATACA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
17 2 0.03
18 55 0.93
19 2 0.03
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:7097860 original size:27 final size:27
Alignment explanation
Indices: 7097824--7097908 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
7097814 TTTGGTTAAA
* *
7097824 AATTAACCGAATTACCCGAATTAACCT
1 AATTACCCGAATTAACCGAATTAACCT
* * *
7097851 AATTACCCGAATTAACAGAATTACCCG
1 AATTACCCGAATTAACCGAATTAACCT
*
7097878 AATTACTCGAATTAACCGAATTAACCT
1 AATTACCCGAATTAACCGAATTAACCT
7097905 AATT
1 AATT
7097909 GAATCATACA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (27 bp):
AATTACCCGAATTAACCGAATTAACCT
Found at i:7098033 original size:18 final size:18
Alignment explanation
Indices: 7098010--7098076 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 18
7098000 AATTTTTATG
7098010 ATTGGGTTGGATTGGGTA
1 ATTGGGTTGGATTGGGTA
7098028 ATT--G--GG-TTGGGTA
1 ATTGGGTTGGATTGGGTA
**
7098041 ATTGGGTTGGATTGAATA
1 ATTGGGTTGGATTGGGTA
*
7098059 CTTGGGTTTGGATTGGGT
1 ATTGGG-TTGGATTGGGT
7098077 TTTGGTGAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
13 10 0.26
14 2 0.05
15 1 0.03
16 1 0.03
17 2 0.05
18 13 0.34
19 9 0.24
ACGTcount: A:0.16, C:0.01, G:0.42, T:0.40
Consensus pattern (18 bp):
ATTGGGTTGGATTGGGTA
Found at i:7098037 original size:13 final size:13
Alignment explanation
Indices: 7098016--7098050 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
7098006 TATGATTGGG
*
7098016 TTGGATTGGGTAA
1 TTGGGTTGGGTAA
7098029 TTGGGTTGGGTAA
1 TTGGGTTGGGTAA
7098042 TTGGGTTGG
1 TTGGGTTGG
7098051 ATTGAATACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.46, T:0.40
Consensus pattern (13 bp):
TTGGGTTGGGTAA
Found at i:7102421 original size:20 final size:20
Alignment explanation
Indices: 7102396--7102435 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
7102386 TAAAGGTCTT
7102396 TAATGCATATAATGCGATGC
1 TAATGCATATAATGCGATGC
*
7102416 TAATGCATATGATGCGATGC
1 TAATGCATATAATGCGATGC
7102436 ATGAGATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (20 bp):
TAATGCATATAATGCGATGC
Found at i:7105842 original size:19 final size:19
Alignment explanation
Indices: 7105820--7105856 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7105810 GTGCTTTTAT
7105820 TCAAAAAAAAAACTTTGAA
1 TCAAAAAAAAAACTTTGAA
* *
7105839 TCAAGAAAATAACTTTGA
1 TCAAAAAAAAAACTTTGA
7105857 TGTATGGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.11, G:0.08, T:0.24
Consensus pattern (19 bp):
TCAAAAAAAAAACTTTGAA
Found at i:7106455 original size:3 final size:3
Alignment explanation
Indices: 7106447--7106505 Score: 50
Period size: 3 Copynumber: 20.0 Consensus size: 3
7106437 GTGTAAATGA
* * * * *
7106447 AAT AAT AAT AGT CAT AAT AAT ATT AAT AAT AAC AAT AAAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
7106493 AA- AAT AA- AAT AAT
1 AAT AAT AAT AAT AAT
7106506 GTAGCATAAT
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
2 4 0.09
3 36 0.84
4 3 0.07
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:7110206 original size:103 final size:104
Alignment explanation
Indices: 7109962--7110227 Score: 426
Period size: 103 Copynumber: 2.6 Consensus size: 104
7109952 GTTGTACATA
** *
7109962 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
7110027 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* *
7110066 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
7110131 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
7110169 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
7110228 AATAACGGTT
Statistics
Matches: 149, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:7117693 original size:103 final size:104
Alignment explanation
Indices: 7117462--7117714 Score: 418
Period size: 103 Copynumber: 2.4 Consensus size: 104
7117452 GGGTTGATGT
* * **
7117462 GTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCTTTGAAATGTGAAA
1 GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTCTGAAATGAAAAA
*
7117527 GGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
66 GGGGGTTGCTATGTGCTGATTCCCCCAAGGGGTTGCTAA
*
7117566 GTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTCTGAAAT-AAAAA
1 GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTCTGAAATGAAAAA
7117630 GGGGGTTGCTATGTGCTGATTCCCCCAAGGGGTTGCTAA
66 GGGGGTTGCTATGTGCTGATTCCCCCAAGGGGTTGCTAA
* * *
7117669 GTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
7117715 AATAACGGTT
Statistics
Matches: 139, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
103 83 0.60
104 56 0.40
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (104 bp):
GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTCTGAAATGAAAAA
GGGGGTTGCTATGTGCTGATTCCCCCAAGGGGTTGCTAA
Found at i:7119064 original size:13 final size:14
Alignment explanation
Indices: 7119046--7119075 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
7119036 TGTTTAATGT
7119046 TTAATTAAG-TTAA
1 TTAATTAAGTTTAA
7119059 TTAATTAAGTTTAA
1 TTAATTAAGTTTAA
7119073 TTA
1 TTA
7119076 TATTTTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
TTAATTAAGTTTAA
Found at i:7119734 original size:17 final size:17
Alignment explanation
Indices: 7119712--7119747 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
7119702 AAATCTCTGA
7119712 TTCTGATACCCATATCT
1 TTCTGATACCCATATCT
*
7119729 TTCTGATACTCATATCT
1 TTCTGATACCCATATCT
7119746 TT
1 TT
7119748 GACTTTCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.25, G:0.06, T:0.47
Consensus pattern (17 bp):
TTCTGATACCCATATCT
Found at i:7121399 original size:20 final size:21
Alignment explanation
Indices: 7121374--7121419 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
7121364 ATAATTTTAT
* *
7121374 AAATTTGT-AAAACATTATTA
1 AAATTTATAAAAACATTAATA
*
7121394 AAATTTATAAAAATATTAATA
1 AAATTTATAAAAACATTAATA
7121415 AAATT
1 AAATT
7121420 CAAAAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
AAATTTATAAAAACATTAATA
Found at i:7121411 original size:21 final size:21
Alignment explanation
Indices: 7121382--7121429 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
7121372 ATAAATTTGT
* * * *
7121382 AAAACATTATTAAAATTTATA
1 AAAATATTAATAAAATTCAAA
7121403 AAAATATTAATAAAATTCAAA
1 AAAATATTAATAAAATTCAAA
7121424 AAAATA
1 AAAATA
7121430 AAATCGTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAATATTAATAAAATTCAAA
Found at i:7121555 original size:21 final size:21
Alignment explanation
Indices: 7121512--7121556 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
7121502 AATTTTATTT
* *
7121512 AATATTTTGATAAATTTTAAA
1 AATATTTTGACAAATTTAAAA
7121533 AATATTTT-ACAAATTTAATAA
1 AATATTTTGACAAATTTAA-AA
7121554 AAT
1 AAT
7121557 TAAAACTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
AATATTTTGACAAATTTAAAA
Found at i:7125334 original size:19 final size:19
Alignment explanation
Indices: 7125307--7125345 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
7125297 TAAGTAATGG
*
7125307 ATTATTATCTAATTTTCAT
1 ATTAATATCTAATTTTCAT
7125326 ATTAATATCTAATTTTCAT
1 ATTAATATCTAATTTTCAT
7125345 A
1 A
7125346 ATTTTTTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTAATATCTAATTTTCAT
Found at i:7134501 original size:6 final size:6
Alignment explanation
Indices: 7134490--7134516 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
7134480 GAAGAAGGGT
7134490 GGAAGA GGAAGA GGAAGA GGAAGA GGA
1 GGAAGA GGAAGA GGAAGA GGAAGA GGA
7134517 GAGTGGTTTT
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:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (6 bp):
GGAAGA
Found at i:7135431 original size:23 final size:23
Alignment explanation
Indices: 7135405--7135452 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
7135395 AATAAATAAT
7135405 GTTTGCCTAAATCAAAGCTCGAA
1 GTTTGCCTAAATCAAAGCTCGAA
7135428 GTTTGCCTAAATCAAAGCTCGAA
1 GTTTGCCTAAATCAAAGCTCGAA
7135451 GT
1 GT
7135453 CTTCTAGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (23 bp):
GTTTGCCTAAATCAAAGCTCGAA
Found at i:7147916 original size:21 final size:20
Alignment explanation
Indices: 7147887--7147926 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
7147877 TTTCCAATCG
*
7147887 AGTCGAGTGAAATTAAATTTA
1 AGTCAAGTGAAA-TAAATTTA
*
7147908 AGTCAAGTGGAATAAATTT
1 AGTCAAGTGAAATAAATTT
7147927 GTTTGAGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (20 bp):
AGTCAAGTGAAATAAATTTA
Found at i:7149512 original size:24 final size:24
Alignment explanation
Indices: 7149485--7149546 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
7149475 TGGTTCTTCG
*
7149485 GAGCTACCCGTTATTGGCTCGCAT
1 GAGCTTCCCGTTATTGGCTCGCAT
**
7149509 GAGCTTCCCGGTTA-TGGCTCTTAT
1 GAGCTTCCC-GTTATTGGCTCGCAT
7149533 GAGCTTCCCGTTAT
1 GAGCTTCCCGTTAT
7149547 ACAGCCCGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 4 0.12
24 25 0.76
25 4 0.12
ACGTcount: A:0.15, C:0.27, G:0.24, T:0.34
Consensus pattern (24 bp):
GAGCTTCCCGTTATTGGCTCGCAT
Found at i:7154137 original size:33 final size:31
Alignment explanation
Indices: 7154064--7154140 Score: 82
Period size: 33 Copynumber: 2.4 Consensus size: 31
7154054 GCATGCGTGC
* * *
7154064 ATTTTTTATATTATACGTACATATTTTTATA
1 ATTTTTTATATTATACATACATACTTATATA
* *
7154095 ATTTATTTATTTATATATATACATACTTATATA
1 ATTT-TTTATAT-TATACATACATACTTATATA
7154128 TATTTTTTATATT
1 -ATTTTTTATATT
7154141 TTATAATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
31 4 0.11
32 7 0.19
33 22 0.59
34 4 0.11
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (31 bp):
ATTTTTTATATTATACATACATACTTATATA
Found at i:7154153 original size:29 final size:29
Alignment explanation
Indices: 7154086--7154174 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 29
7154076 ATACGTACAT
*
7154086 ATTTTTATAATTTATTTATTTATATATATAC
1 ATTTTTAT-ATATATTT-TTTATATATATAC
** *
7154117 ATACTTATATATATTTTTTATATTTTATA-
1 ATTTTTATATATATTTTTTATA-TATATAC
* * *
7154146 ATTTTTATATACATTTTGTATACATATAC
1 ATTTTTATATATATTTTTTATATATATAC
7154175 GTGCATATAC
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
28 4 0.09
29 24 0.52
30 12 0.26
31 6 0.13
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.58
Consensus pattern (29 bp):
ATTTTTATATATATTTTTTATATATATAC
Found at i:7154477 original size:4 final size:4
Alignment explanation
Indices: 7154463--7154506 Score: 79
Period size: 4 Copynumber: 10.8 Consensus size: 4
7154453 ATTTTTATGT
7154463 TTTA GTTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
7154507 GTTATGGTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
4 35 0.90
5 4 0.10
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:7154580 original size:14 final size:15
Alignment explanation
Indices: 7154547--7154580 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7154537 TTTTTATTCG
* *
7154547 TTTTTGTTCATATTA
1 TTTTTGTTCACATCA
7154562 TTTTTGTTCACATCA
1 TTTTTGTTCACATCA
7154577 TTTT
1 TTTT
7154581 ATTTATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (15 bp):
TTTTTGTTCACATCA
Found at i:7162953 original size:21 final size:21
Alignment explanation
Indices: 7162927--7162970 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
7162917 GTGCCAAAGA
7162927 ATGGATGAATCTGTAGAAGCC
1 ATGGATGAATCTGTAGAAGCC
7162948 ATGGATGAATCTGTAGAAGCC
1 ATGGATGAATCTGTAGAAGCC
7162969 AT
1 AT
7162971 TGTAACAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (21 bp):
ATGGATGAATCTGTAGAAGCC
Found at i:7164860 original size:20 final size:19
Alignment explanation
Indices: 7164837--7164890 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
7164827 TTCATGCCAA
7164837 TTTTTTTAATTTTTATAATT
1 TTTTTTTAATTTTTAT-ATT
* **
7164857 TTTTTTAAATTTAAATATT
1 TTTTTTTAATTTTTATATT
*
7164876 TTTATTTTTATTTTT
1 TTT-TTTTAATTTTT
7164891 TCAAAATTAT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTTTAATTTTTATATT
Found at i:7169126 original size:51 final size:53
Alignment explanation
Indices: 7169022--7169229 Score: 361
Period size: 51 Copynumber: 4.0 Consensus size: 53
7169012 CTGAAATTAA
*
7169022 GACATAGTTTTGCCATTGTGTAAGGAACACACAGCCTTTCAGGGCCCCTAATT
1 GACATAGTTTTGCCATTGTGTAAGGAACACACAGCCTTTCAGGACCCCTAATT
*
7169075 GACATAGTTTTGCCATTGTGTAAAG-A-ACACAGCCTTTCAGGACCCCTAATT
1 GACATAGTTTTGCCATTGTGTAAGGAACACACAGCCTTTCAGGACCCCTAATT
*
7169126 GACATAGTTTTGCCATTGTGTAAGG-A-ACACAGCCTTTCAGGAACCCTAATT
1 GACATAGTTTTGCCATTGTGTAAGGAACACACAGCCTTTCAGGACCCCTAATT
7169177 GACATAGTTTTGCCATTGTGTAAGGAACACACAGCCTTTCAGGACCCCTAATT
1 GACATAGTTTTGCCATTGTGTAAGGAACACACAGCCTTTCAGGACCCCTAATT
7169230 TTCCCATGGA
Statistics
Matches: 148, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
51 98 0.66
52 2 0.01
53 48 0.32
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (53 bp):
GACATAGTTTTGCCATTGTGTAAGGAACACACAGCCTTTCAGGACCCCTAATT
Found at i:7169214 original size:104 final size:104
Alignment explanation
Indices: 7169022--7169229 Score: 357
Period size: 104 Copynumber: 2.0 Consensus size: 104
7169012 CTGAAATTAA
**
7169022 GACATAGTTTTGCCATTGTGTAAGGAACACACAGCCTTTCAGGGCCCCTAATTGACATAGTTTTG
1 GACATAGTTTTGCCATTGTGTAAGGAACACACAGCCTTTCAGGAACCCTAATTGACATAGTTTTG
7169087 CCATTGTGTAAAGAACACAGCCTTTCAGGACCCCTAATT
66 CCATTGTGTAAAGAACACAGCCTTTCAGGACCCCTAATT
7169126 GACATAGTTTTGCCATTGTGTAAGG-A-ACACAGCCTTTCAGGAACCCTAATTGACATAGTTTTG
1 GACATAGTTTTGCCATTGTGTAAGGAACACACAGCCTTTCAGGAACCCTAATTGACATAGTTTTG
*
7169189 CCATTGTGTAAGGAACACACAGCCTTTCAGGACCCCTAATT
66 CCATTGTGTAAAG-A-ACACAGCCTTTCAGGACCCCTAATT
7169230 TTCCCATGGA
Statistics
Matches: 99, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
102 47 0.47
103 2 0.02
104 50 0.51
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (104 bp):
GACATAGTTTTGCCATTGTGTAAGGAACACACAGCCTTTCAGGAACCCTAATTGACATAGTTTTG
CCATTGTGTAAAGAACACAGCCTTTCAGGACCCCTAATT
Found at i:7171778 original size:127 final size:126
Alignment explanation
Indices: 7171552--7171802 Score: 394
Period size: 127 Copynumber: 2.0 Consensus size: 126
7171542 CAGAAGTTTC
* *
7171552 CTATATGACAGTAAAACTACAAATTGAGCCACACAAGGCTACAAGGTCTTCAACAAATAATACAT
1 CTATATGACAGTAAAACTACAAATTAAGCCACACAACGCTACAAGGTCTTCAACAAATAATACAT
* * * * *
7171617 TTACTAAAAAATTTAATTCAAAACAAGCTTAGAGATCTTTCTCATGCTTGATTGGTGATTTT
66 TTACTAAAAAACTTAATTCAAAACAAACTTAGAGAT-ATTCTCATACTCGATTGGTGATTTT
* *
7171679 CTATATGACTGTAAAACTACAAATTAAGCCACACAACGCTACGAGGTCTTCAACAAATAATACAT
1 CTATATGACAGTAAAACTACAAATTAAGCCACACAACGCTACAAGGTCTTCAACAAATAATACAT
* *
7171744 TTTCTTAAAAACTTAATTCAAAACAAACTTAGAGATATTCTCATACTCGATTGGTGATT
66 TTACTAAAAAACTTAATTCAAAACAAACTTAGAGATATTCTCATACTCGATTGGTGATT
7171803 CTTCGGGCCC
Statistics
Matches: 113, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
126 20 0.18
127 93 0.82
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (126 bp):
CTATATGACAGTAAAACTACAAATTAAGCCACACAACGCTACAAGGTCTTCAACAAATAATACAT
TTACTAAAAAACTTAATTCAAAACAAACTTAGAGATATTCTCATACTCGATTGGTGATTTT
Found at i:7173791 original size:14 final size:14
Alignment explanation
Indices: 7173772--7173799 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7173762 CATATTTCTA
7173772 AGAAATATATACTT
1 AGAAATATATACTT
7173786 AGAAATATATACTT
1 AGAAATATATACTT
7173800 TGAGAGAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (14 bp):
AGAAATATATACTT
Found at i:7174441 original size:3 final size:3
Alignment explanation
Indices: 7174433--7174462 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
7174423 TAAATGCAAA
7174433 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
7174463 CAGCAGCAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TAG
Found at i:7174467 original size:3 final size:3
Alignment explanation
Indices: 7174461--7174498 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
7174451 TAGTAGTAGT
7174461 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AG
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AG
7174499 TACTAGTACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.32, G:0.34, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:7174514 original size:3 final size:3
Alignment explanation
Indices: 7174508--7174536 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7174498 GTACTAGTAC
7174508 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
7174537 GAAACTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:7181589 original size:87 final size:87
Alignment explanation
Indices: 7181436--7182124 Score: 1035
Period size: 87 Copynumber: 7.9 Consensus size: 87
7181426 ACAGTGTTTT
* * * *
7181436 GGGCTTGGGCTCGTTCGTAAATTTATAAACATGATGTAAATAATGCACGCCACGAAGATAATCAT
1 GGGCTTGGGCTCATTCGTAAATTTATAAACATGATGTAATTAACGCACGCCACGAAGAAAATCAT
7181501 TTCAAAAATGGAAATCCCTTTC
66 TTCAAAAATGGAAATCCCTTTC
*
7181523 GGGCATT-GGCTCATTCGTAAATTTATAAACATGATGTAATTAACGCACGCCACAAAGAAAATCA
1 GGGC-TTGGGCTCATTCGTAAATTTATAAACATGATGTAATTAACGCACGCCACGAAGAAAATCA
*
7181587 TTTCAAAAATGGATATCCCTTTC
65 TTTCAAAAATGGAAATCCCTTTC
*
7181610 GGGCTTGGGCTCATTCGTAAATTTATAGACATGATGTAATTAACGCACGCCACGAAGAAAATCAT
1 GGGCTTGGGCTCATTCGTAAATTTATAAACATGATGTAATTAACGCACGCCACGAAGAAAATCAT
7181675 TTCAAAAATGGAAATCCCTTTC
66 TTCAAAAATGGAAATCCCTTTC
* *
7181697 GGGCATT-GGCTCGTTCGTAAATTTATAAACATGATGTAACTAACGCACGCCACGAAGAAAATCA
1 GGGC-TTGGGCTCATTCGTAAATTTATAAACATGATGTAATTAACGCACGCCACGAAGAAAATCA
*
7181761 TTTCAAAAATGGATATCCCTTTC
65 TTTCAAAAATGGAAATCCCTTTC
* * *
7181784 AGGCTTGGGCTCGTTCGTAAATTTATAAACATGATGTAATTAACGCACACCACGAAG-AAATCAT
1 GGGCTTGGGCTCATTCGTAAATTTATAAACATGATGTAATTAACGCACGCCACGAAGAAAATCAT
7181848 TTCAAAAATGGAAATCCCTTTC
66 TTCAAAAATGGAAATCCCTTTC
* * * * * *
7181870 GGGCTTGGG-TTATTCGTAAACTTATAAACATGATGTAATTAAAGCACACGACAAAGAAAATCAT
1 GGGCTTGGGCTCATTCGTAAATTTATAAACATGATGTAATTAACGCACGCCACGAAGAAAATCAT
* *
7181934 TTCAAAAATGGAAATCCTTTTT
66 TTCAAAAATGGAAATCCCTTTC
* * * * * *
7181956 GAGCTTGGGCTCGTTCGTAAACTTATAAACATGATGTAATCAACACACGCCACGAAGAAAACCAT
1 GGGCTTGGGCTCATTCGTAAATTTATAAACATGATGTAATTAACGCACGCCACGAAGAAAATCAT
7182021 TTCAAAAATGGAAATCCCTTTC
66 TTCAAAAATGGAAATCCCTTTC
* ** * * *
7182043 GGGCTTGGGCTCATTCGTAAATTTATAAGCACAATGTAATCAACACACGCCACAAAGAAAATCAT
1 GGGCTTGGGCTCATTCGTAAATTTATAAACATGATGTAATTAACGCACGCCACGAAGAAAATCAT
7182108 TTCAAAAATGGAAATCC
66 TTCAAAAATGGAAATCC
7182125 GGTTAATAGG
Statistics
Matches: 550, Mismatches: 46, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
85 41 0.07
86 75 0.14
87 430 0.78
88 4 0.01
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (87 bp):
GGGCTTGGGCTCATTCGTAAATTTATAAACATGATGTAATTAACGCACGCCACGAAGAAAATCAT
TTCAAAAATGGAAATCCCTTTC
Found at i:7182094 original size:346 final size:348
Alignment explanation
Indices: 7181437--7182124 Score: 1096
Period size: 346 Copynumber: 2.0 Consensus size: 348
7181427 CAGTGTTTTG
* *
7181437 GGCTTGGGCTCGTTCGTAAATTTATAAACATGATGTAAATAATGCACGCCACGAAGATAATCATT
1 GGCTTGGGCTCGTTCGTAAATTTATAAACATGATGTAAATAACGCACACCACGAAGATAATCATT
* *
7181502 TCAAAAATGGAAATCCCTTTCGGGCATTGGCTCATTCGTAAATTTATAAACATGATGTAATTAAC
66 TCAAAAATGGAAATCCCTTTCGGGCATTGGCTCATTCGTAAACTTATAAACATGATGTAATTAAA
* * * *
7181567 GCACGCCACAAAGAAAATCATTTCAAAAATGGATATCCCTTTCGGGCTTGGGCTCATTCGTAAAT
131 GCACACCACAAAGAAAATCATTTCAAAAATGGAAATCCCTTTCGAGCTTGGGCTCATTCGTAAAC
* * * *
7181632 TTATAGACATGATGTAATTAACGCACGCCACGAAGAAAATCATTTCAAAAATGGAAATCCCTTTC
196 TTATAAACATGATGTAATCAACACACGCCACGAAGAAAACCATTTCAAAAATGGAAATCCCTTTC
* ** * *
7181697 GGGCATTGGCTCGTTCGTAAATTTATAAACATGATGTAACTAACGCACGCCACGAAGAAAATCAT
261 GGGCATTGGCTCATTCGTAAATTTATAAACACAATGTAACTAACACACGCCACAAAGAAAATCAT
*
7181762 TTCAAAAATGGATATCCCTTTCA
326 TTCAAAAATGGAAATCCCTTTCA
*
7181785 GGCTTGGGCTCGTTCGTAAATTTATAAACATGATGTAATTAACGCACACCACGAAGA-AATCATT
1 GGCTTGGGCTCGTTCGTAAATTTATAAACATGATGTAAATAACGCACACCACGAAGATAATCATT
* *
7181849 TCAAAAATGGAAATCCCTTTCGGGC-TTGGGTTATTCGTAAACTTATAAACATGATGTAATTAAA
66 TCAAAAATGGAAATCCCTTTCGGGCATTGGCTCATTCGTAAACTTATAAACATGATGTAATTAAA
* * * *
7181913 GCACACGACAAAGAAAATCATTTCAAAAATGGAAATCCTTTTTGAGCTTGGGCTCGTTCGTAAAC
131 GCACACCACAAAGAAAATCATTTCAAAAATGGAAATCCCTTTCGAGCTTGGGCTCATTCGTAAAC
7181978 TTATAAACATGATGTAATCAACACACGCCACGAAGAAAACCATTTCAAAAATGGAAATCCCTTTC
196 TTATAAACATGATGTAATCAACACACGCCACGAAGAAAACCATTTCAAAAATGGAAATCCCTTTC
*
7182043 GGGC-TTGGGCTCATTCGTAAATTTATAAGCACAATGTAA-TCAACACACGCCACAAAGAAAATC
261 GGGCATT-GGCTCATTCGTAAATTTATAAACACAATGTAACT-AACACACGCCACAAAGAAAATC
7182106 ATTTCAAAAATGGAAATCC
324 ATTTCAAAAATGGAAATCC
7182125 GGTTAATAGG
Statistics
Matches: 312, Mismatches: 26, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
345 3 0.01
346 223 0.71
347 32 0.10
348 54 0.17
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (348 bp):
GGCTTGGGCTCGTTCGTAAATTTATAAACATGATGTAAATAACGCACACCACGAAGATAATCATT
TCAAAAATGGAAATCCCTTTCGGGCATTGGCTCATTCGTAAACTTATAAACATGATGTAATTAAA
GCACACCACAAAGAAAATCATTTCAAAAATGGAAATCCCTTTCGAGCTTGGGCTCATTCGTAAAC
TTATAAACATGATGTAATCAACACACGCCACGAAGAAAACCATTTCAAAAATGGAAATCCCTTTC
GGGCATTGGCTCATTCGTAAATTTATAAACACAATGTAACTAACACACGCCACAAAGAAAATCAT
TTCAAAAATGGAAATCCCTTTCA
Found at i:7183512 original size:16 final size:16
Alignment explanation
Indices: 7183487--7183540 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
7183477 TGGTTCAGTA
* *
7183487 TAATGGAATAGAGCTG
1 TAATAGAATAAAGCTG
* *
7183503 TAATATAATAAAGTTG
1 TAATAGAATAAAGCTG
*
7183519 TAATAGAATAAAACTG
1 TAATAGAATAAAGCTG
7183535 TAATAG
1 TAATAG
7183541 CAATTCAATT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.48, C:0.04, G:0.19, T:0.30
Consensus pattern (16 bp):
TAATAGAATAAAGCTG
Found at i:7184006 original size:12 final size:12
Alignment explanation
Indices: 7183976--7184010 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
7183966 TATATGTGAC
7183976 TTAAAGAATAAT
1 TTAAAGAATAAT
*
7183988 TTAAAAGAGTAAT
1 TT-AAAGAATAAT
7184001 TTAAAGAATA
1 TTAAAGAATA
7184011 TCTTGTCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.31
Consensus pattern (12 bp):
TTAAAGAATAAT
Found at i:7186006 original size:28 final size:30
Alignment explanation
Indices: 7185975--7186039 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 30
7185965 AGTGATATGG
*
7185975 AAGAGAAATT-GAATAGAGAA-AAGAGAGA
1 AAGAGAAATTAGAAAAGAGAACAAGAGAGA
*
7186003 AAGAG--GTTAGAAAAGAGAACAAGAGAGA
1 AAGAGAAATTAGAAAAGAGAACAAGAGAGA
7186031 AAGAGAAAT
1 AAGAGAAAT
7186040 CTGTTGAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
26 2 0.07
27 9 0.30
28 18 0.60
30 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.29, T:0.09
Consensus pattern (30 bp):
AAGAGAAATTAGAAAAGAGAACAAGAGAGA
Found at i:7189819 original size:18 final size:18
Alignment explanation
Indices: 7189798--7189870 Score: 83
Period size: 18 Copynumber: 4.1 Consensus size: 18
7189788 CGTTTACGGC
*
7189798 ACTATTCACATTTACAGT
1 ACTATTCACATATACAGT
* * *
7189816 ACTATTCACGTATACGGC
1 ACTATTCACATATACAGT
*
7189834 ACTATTCACATATACGGT
1 ACTATTCACATATACAGT
* *
7189852 ACTGTTCACGTATACAGT
1 ACTATTCACATATACAGT
7189870 A
1 A
7189871 GTTGGGATTG
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (18 bp):
ACTATTCACATATACAGT
Found at i:7189839 original size:36 final size:36
Alignment explanation
Indices: 7189792--7189866 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
7189782 TACGACCGTT
*
7189792 TACGGCACTATTCACATTTACAGTACTATTCACGTA
1 TACGGCACTATTCACATATACAGTACTATTCACGTA
* *
7189828 TACGGCACTATTCACATATACGGTACTGTTCACGTA
1 TACGGCACTATTCACATATACAGTACTATTCACGTA
7189864 TAC
1 TAC
7189867 AGTAGTTGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.32
Consensus pattern (36 bp):
TACGGCACTATTCACATATACAGTACTATTCACGTA
Found at i:7195807 original size:34 final size:34
Alignment explanation
Indices: 7195769--7195839 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
7195759 GGTGGTCCAA
*
7195769 AATACTGACTCAACAAAGCTTGAAGATCACCCTT
1 AATACTAACTCAACAAAGCTTGAAGATCACCCTT
**
7195803 AATACTAACTCAGTAAAGCTTGAAGATCACCCTT
1 AATACTAACTCAACAAAGCTTGAAGATCACCCTT
7195837 AAT
1 AAT
7195840 CTCGATTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.25
Consensus pattern (34 bp):
AATACTAACTCAACAAAGCTTGAAGATCACCCTT
Found at i:7197363 original size:24 final size:24
Alignment explanation
Indices: 7197336--7197381 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
7197326 CTATTAACAT
*
7197336 TGTTCGTGAACATATTCAATTATA
1 TGTTCATGAACATATTCAATTATA
* * *
7197360 TGTTTATGAACATGTTCGATTA
1 TGTTCATGAACATATTCAATTA
7197382 AGTTAAATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.43
Consensus pattern (24 bp):
TGTTCATGAACATATTCAATTATA
Found at i:7199814 original size:28 final size:28
Alignment explanation
Indices: 7199762--7199831 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
7199752 AAATAAAAAA
*
7199762 TTACCAAAATGT-TATAACTTTTTTTAT
1 TTACCAAAATATATATAACTTTTTTTAT
*
7199789 TTACCAAAATATATATAATTTTTTTTAT
1 TTACCAAAATATATATAACTTTTTTTAT
7199817 TTACCAAAATATATA
1 TTACCAAAATATATA
7199832 AAAAAAAACA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 11 0.28
28 29 0.73
ACGTcount: A:0.40, C:0.10, G:0.01, T:0.49
Consensus pattern (28 bp):
TTACCAAAATATATATAACTTTTTTTAT
Found at i:7200225 original size:3 final size:3
Alignment explanation
Indices: 7200217--7200251 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
7200207 AAATTTATAG
7200217 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
7200252 AGATGTTACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:7201005 original size:18 final size:18
Alignment explanation
Indices: 7200977--7201021 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
7200967 TTGATATGGT
* *
7200977 TGGTGGTGAAGAAGAATG
1 TGGTGGCGAAGAAGAAGG
*
7200995 TGGTTGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
7201013 TGGTGGCGA
1 TGGTGGCGA
7201022 TCATTGGGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.04, G:0.47, T:0.20
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:7203360 original size:15 final size:15
Alignment explanation
Indices: 7203336--7203374 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
7203326 CAATAAGCAC
*
7203336 AATAACTAAAACTAG
1 AATAATTAAAACTAG
*
7203351 AATAATT-AAATTAG
1 AATAATTAAAACTAG
7203365 AATAATTAAA
1 AATAATTAAA
7203375 TTGATACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (15 bp):
AATAATTAAAACTAG
Found at i:7203367 original size:14 final size:14
Alignment explanation
Indices: 7203348--7203376 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7203338 TAACTAAAAC
7203348 TAGAATAATTAAAT
1 TAGAATAATTAAAT
7203362 TAGAATAATTAAAT
1 TAGAATAATTAAAT
7203376 T
1 T
7203377 GATACAAAAA
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:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (14 bp):
TAGAATAATTAAAT
Found at i:7205671 original size:11 final size:11
Alignment explanation
Indices: 7205655--7205682 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
7205645 ATTTAGTGTG
7205655 TTTTTTTCTAT
1 TTTTTTTCTAT
7205666 TTTTTTTCTAT
1 TTTTTTTCTAT
7205677 TTTTTT
1 TTTTTT
7205683 GGTTTTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTTCTAT
Found at i:7205731 original size:27 final size:28
Alignment explanation
Indices: 7205701--7205768 Score: 122
Period size: 27 Copynumber: 2.5 Consensus size: 28
7205691 ACTTTTTTTG
7205701 ATATATTTTGGTAAATAAAAAAA-TTAT
1 ATATATTTTGGTAAATAAAAAAAGTTAT
7205728 ATATATTTTGGTAAATAAAAAAAGTTAT
1 ATATATTTTGGTAAATAAAAAAAGTTAT
7205756 A-ATATTTTGGTAA
1 ATATATTTTGGTAA
7205769 TTTTTATTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 35 0.88
28 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (28 bp):
ATATATTTTGGTAAATAAAAAAAGTTAT
Found at i:7205790 original size:13 final size:13
Alignment explanation
Indices: 7205772--7205797 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7205762 TTGGTAATTT
7205772 TTATTTTTTTATA
1 TTATTTTTTTATA
7205785 TTATTTTTTTATA
1 TTATTTTTTTATA
7205798 AAACTCATAA
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTTTTTTATA
Found at i:7205830 original size:19 final size:18
Alignment explanation
Indices: 7205806--7205841 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
7205796 TAAAACTCAT
7205806 AATAAAACATTACAAAAAG
1 AATAAAACATTA-AAAAAG
*
7205825 AATAAAATATTAAAAAA
1 AATAAAACATTAAAAAA
7205842 TATCAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.72, C:0.06, G:0.03, T:0.19
Consensus pattern (18 bp):
AATAAAACATTAAAAAAG
Found at i:7206432 original size:16 final size:18
Alignment explanation
Indices: 7206411--7206445 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
7206401 TTCATGCTAA
7206411 ATATAT-CTAAA-AAATT
1 ATATATCCTAAATAAATT
7206427 ATATATCCTAAATAAATT
1 ATATATCCTAAATAAATT
7206445 A
1 A
7206446 ATAAAATACG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 5 0.29
18 6 0.35
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (18 bp):
ATATATCCTAAATAAATT
Found at i:7206591 original size:22 final size:22
Alignment explanation
Indices: 7206552--7206703 Score: 57
Period size: 22 Copynumber: 7.4 Consensus size: 22
7206542 CCTTCCTTCC
* *
7206552 CTCTTCTTCTTCTTTTTTTTTT
1 CTCTTCTTCTTCTCTTTTCTTT
7206574 CTCTTCTTCTT-TCCTTTTCTTT
1 CTCTTCTTCTTCT-CTTTTCTTT
*
7206596 C-CTTATT-TT-TC-TTTCTTT
1 CTCTTCTTCTTCTCTTTTCTTT
**
7206614 C-C-TCCCCTT-TCCTTTTCTTT
1 CTCTTCTTCTTCT-CTTTTCTTT
7206634 C-CTTCTT-TT-TC-TTTCTTT
1 CTCTTCTTCTTCTCTTTTCTTT
* *
7206652 C-C-TCTCCTT-TCCTTTTCCTT
1 CTCTTCTTCTTCT-CTTTTCTTT
* * *
7206672 CT-TTTTTTTTCTTCCTTTCTTT
1 CTCTTCTTCTTC-TCTTTTCTTT
7206694 CTTCTTCTTC
1 C-TCTTCTTC
7206704 CCCTCTCCTT
Statistics
Matches: 99, Mismatches: 17, Indels: 26
0.70 0.12 0.18
Matches are distributed among these distances:
17 4 0.04
18 24 0.24
19 4 0.04
20 22 0.22
21 12 0.12
22 27 0.27
23 2 0.02
24 4 0.04
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.68
Consensus pattern (22 bp):
CTCTTCTTCTTCTCTTTTCTTT
Found at i:7206595 original size:10 final size:10
Alignment explanation
Indices: 7206566--7206682 Score: 75
Period size: 10 Copynumber: 11.9 Consensus size: 10
7206556 TCTTCTTCTT
*
7206566 TTTTTTTTCTC
1 TTTTCTTTC-C
7206577 TTCTTCTTTCC
1 TT-TTCTTTCC
7206588 TTTTCTTTCC
1 TTTTCTTTCC
7206598 TTATT-TTT-C
1 TT-TTCTTTCC
7206607 -TTTCTTTCC
1 TTTTCTTTCC
***
7206616 TCCCCTTTCC
1 TTTTCTTTCC
7206626 TTTTCTTTCC
1 TTTTCTTTCC
7206636 TTCTT-TTT-C
1 TT-TTCTTTCC
7206645 -TTTCTTTCC
1 TTTTCTTTCC
* *
7206654 TCTCCTTTCC
1 TTTTCTTTCC
* *
7206664 TTTTCCTTCT
1 TTTTCTTTCC
*
7206674 TTTTTTTTC
1 TTTTCTTTC
7206683 TTCCTTTCTT
Statistics
Matches: 82, Mismatches: 15, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
7 4 0.05
8 8 0.10
9 4 0.05
10 51 0.62
11 9 0.11
12 6 0.07
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTCTTTCC
Found at i:7206610 original size:18 final size:18
Alignment explanation
Indices: 7206557--7206699 Score: 89
Period size: 18 Copynumber: 7.7 Consensus size: 18
7206547 CTTCCCTCTT
*
7206557 CTTCTTCTTT-TTTTTTTC
1 CTTCTT-TTTCTTTCTTTC
7206575 TCTTCTTCTTTCCTTTTCTTTC
1 -CTTCTT-TTT-C-TTTCTTTC
*
7206597 CTTATTTTTCTTTCTTTC
1 CTTCTTTTTCTTTCTTTC
* * *
7206615 CTCCCCTTTCCTTTTCTTTC
1 CT-TCTTTTTC-TTTCTTTC
7206635 CTTCTTTTTCTTTCTTTC
1 CTTCTTTTTCTTTCTTTC
* *
7206653 C-TCTCCTTTC-CT-TTTC
1 CTTCT-TTTTCTTTCTTTC
*
7206669 CTTCTTTTTTTTTC-TTC
1 CTTCTTTTTCTTTCTTTC
7206686 CTTTCTTTCTTCTT
1 C-TTCTTT-TTCTT
7206700 CTTCCCCTCT
Statistics
Matches: 98, Mismatches: 15, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
16 8 0.08
17 12 0.12
18 29 0.30
19 24 0.24
20 13 0.13
21 5 0.05
22 7 0.07
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.69
Consensus pattern (18 bp):
CTTCTTTTTCTTTCTTTC
Found at i:7206629 original size:38 final size:38
Alignment explanation
Indices: 7206582--7206690 Score: 164
Period size: 38 Copynumber: 2.9 Consensus size: 38
7206572 TTCTCTTCTT
7206582 CTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCCC
1 CTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCCC
* *
7206620 CTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTCTC
1 CTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCCC
* * * *
7206658 CTTTCCTTTTCCTTCTTTTTTTTTCTTCCTTTC
1 CTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTC
7206691 TTTCTTCTTC
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.66
Consensus pattern (38 bp):
CTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCCC
Found at i:7206651 original size:28 final size:28
Alignment explanation
Indices: 7206620--7206699 Score: 76
Period size: 34 Copynumber: 2.8 Consensus size: 28
7206610 CTTTCCTCCC
7206620 CTTTCCTTTTCTTTCCTTCTTTTTCTTT
1 CTTTCCTTTTCTTTCCTTCTTTTTCTTT
*
7206648 CTTTCCTCTCCTTTCCTTTTCCTTCTTTTTTTTT
1 CTTT-C-CT--TTT-C-TTTCCTTCTTTTTCTTT
7206682 C-TTCC-TTTCTTT-CTTCTT
1 CTTTCCTTTTCTTTCCTTCTT
7206700 CTTCCCCTCT
Statistics
Matches: 45, Mismatches: 1, Indels: 15
0.74 0.02 0.25
Matches are distributed among these distances:
25 6 0.13
26 3 0.07
27 1 0.02
28 7 0.16
29 1 0.02
30 2 0.04
31 1 0.02
32 4 0.09
33 3 0.07
34 17 0.38
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (28 bp):
CTTTCCTTTTCTTTCCTTCTTTTTCTTT
Found at i:7206700 original size:28 final size:31
Alignment explanation
Indices: 7206572--7206702 Score: 85
Period size: 33 Copynumber: 4.2 Consensus size: 31
7206562 TCTTTTTTTT
* * * *
7206572 TTCTCTTC-TTCTTTCCTTTTCTTTCCTTATTT
1 TTCT-TTCTTTCTTTCC-TTCCTTTCTTTCTTC
**
7206604 TTCTTTCTTTCCTCCCCTTTCCTTTTCTTTCCTTC
1 TTCTTTCTTT-CTTTCC-TTCC-TTTCTTT-CTTC
*
7206639 TT-TTTCTTTCTTTCCTCTCCTTTCCTTT-TCC
1 TTCTTTCTTTCTTTCCT-TCCTTT-CTTTCTTC
7206670 TTCTTT-TTT-TTT-CTTCCTTTCTTTCTTC
1 TTCTTTCTTTCTTTCCTTCCTTTCTTTCTTC
7206698 TTCTT
1 TTCTT
7206703 CCCCTCTCCT
Statistics
Matches: 81, Mismatches: 10, Indels: 20
0.73 0.09 0.18
Matches are distributed among these distances:
27 4 0.05
28 13 0.16
29 2 0.02
30 3 0.04
31 10 0.12
32 13 0.16
33 19 0.23
34 13 0.16
35 4 0.05
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (31 bp):
TTCTTTCTTTCTTTCCTTCCTTTCTTTCTTC
Found at i:7206701 original size:10 final size:10
Alignment explanation
Indices: 7206555--7206702 Score: 57
Period size: 10 Copynumber: 15.1 Consensus size: 10
7206545 TCCTTCCCTC
7206555 TTCTTCTTCT
1 TTCTTCTTCT
*
7206565 TT-TT-TTTT
1 TTCTTCTTCT
7206573 TCTCTTCTTCT
1 T-TCTTCTTCT
7206584 TTCCTT-TTCT
1 TT-CTTCTTCT
*
7206594 TTC--CTTAT
1 TTCTTCTTCT
7206602 TT-TTCTTTCT
1 TTCTTC-TTCT
* **
7206612 TTCCTCCCCT
1 TTCTTCTTCT
7206622 TTCCTT-TTCT
1 TT-CTTCTTCT
7206632 TTC--CTTCT
1 TTCTTCTTCT
7206640 TT-TTCTTTCT
1 TTCTTC-TTCT
* *
7206650 TTCCTCTCCT
1 TTCTTCTTCT
*
7206660 TTCCTT-TTCC
1 TT-CTTCTTCT
* *
7206670 TTCTTTTTTT
1 TTCTTCTTCT
7206680 TTCTTCCTTTCT
1 TTCTT-C-TTCT
7206692 TTCTTCTTCT
1 TTCTTCTTCT
7206702 T
1 T
7206703 CCCCTCTCCT
Statistics
Matches: 100, Mismatches: 19, Indels: 38
0.64 0.12 0.24
Matches are distributed among these distances:
8 15 0.15
9 10 0.10
10 51 0.51
11 16 0.16
12 8 0.08
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (10 bp):
TTCTTCTTCT
Found at i:7206819 original size:27 final size:27
Alignment explanation
Indices: 7206751--7206827 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
7206741 AATTTAAGGG
* **
7206751 TGGTGCCGCCAACAAGGAACCCTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTGTT
*
7206778 TGGTACCGCCAACAGGGTTCCCTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTGTT
*
7206805 TGGTGCCGCCAACAGTGTTCCCT
1 TGGTGCCGCCAACAGGGTTCCCT
7206828 CCACCAGGGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.17, C:0.31, G:0.26, T:0.26
Consensus pattern (27 bp):
TGGTGCCGCCAACAGGGTTCCCTTGTT
Found at i:7206906 original size:29 final size:28
Alignment explanation
Indices: 7206857--7206927 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 28
7206847 TGTTTTTTTT
7206857 TATATATTTTGGTAAATAAAAAAA-TTA
1 TATATATTTTGGTAAATAAAAAAAGTTA
7206884 TATATATTTTGGTAAATAAAAAAAAAGTTA
1 TATATATTTTGGTAAAT--AAAAAAAGTTA
*
7206914 TA-ACATTTTGGTAA
1 TATATATTTTGGTAA
7206928 TTTTTTATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
27 17 0.43
29 18 0.45
30 5 0.12
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.39
Consensus pattern (28 bp):
TATATATTTTGGTAAATAAAAAAAGTTA
Found at i:7208461 original size:7 final size:7
Alignment explanation
Indices: 7208445--7208479 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
7208435 ATTCAATTCG
7208445 ATTC-AA
1 ATTCAAA
7208451 ATTCAAA
1 ATTCAAA
7208458 ATTCAAA
1 ATTCAAA
7208465 ATTCAAA
1 ATTCAAA
7208472 ATTCAAA
1 ATTCAAA
7208479 A
1 A
7208480 AAGAAAATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.14
7 24 0.86
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (7 bp):
ATTCAAA
Found at i:7208486 original size:21 final size:20
Alignment explanation
Indices: 7208445--7208487 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
7208435 ATTCAATTCG
**
7208445 ATTCAAATTCAAAATTCAAA
1 ATTCAAATTCAAAAAACAAA
*
7208465 ATTCAAAATTCAAAAAAGAAA
1 ATTC-AAATTCAAAAAACAAA
7208486 AT
1 AT
7208488 CAAGTTGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (20 bp):
ATTCAAATTCAAAAAACAAA
Found at i:7208627 original size:16 final size:16
Alignment explanation
Indices: 7208606--7208636 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7208596 TTCTCCCTCG
*
7208606 GAATTTTAGTGGCATA
1 GAATTTTAGTCGCATA
7208622 GAATTTTAGTCGCAT
1 GAATTTTAGTCGCAT
7208637 TGACATCGAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (16 bp):
GAATTTTAGTCGCATA
Found at i:7210231 original size:87 final size:87
Alignment explanation
Indices: 7210113--7210457 Score: 485
Period size: 87 Copynumber: 4.0 Consensus size: 87
7210103 GGCAACAGTG
* * * * *
7210113 TTTCGGGCTTGGGCTCATTTGTAAATTTATAAACATGATGTAATTAACGCATGCCACAAAGAAAA
1 TTTCGGGCTTGGCCTCGTTCGTAAATTTATAAACATGATGTAATTAACACATGCCACGAAGAAAA
7210178 TCATTTCAAAAATGGAAATACC
66 TCATTTCAAAAATGGAAATACC
* * *
7210200 TTTTGGGCTTGGCCCCGTTCGTAAACTTATAAACATGATGTAATTAACACATGCCACGAAGAAAA
1 TTTCGGGCTTGGCCTCGTTCGTAAATTTATAAACATGATGTAATTAACACATGCCACGAAGAAAA
*
7210265 TCATTTCAAAAATGGAAATCCC
66 TCATTTCAAAAATGGAAATACC
* * * ** *
7210287 TTTCAGGCTTGGGCTTGTTCAAAAATTTATAAACATGATGTAATTATCACATGCCACGAAGAAAA
1 TTTCGGGCTTGGCCTCGTTCGTAAATTTATAAACATGATGTAATTAACACATGCCACGAAGAAAA
*
7210352 TCATTTCAAAAATGGAAATTCC
66 TCATTTCAAAAATGGAAATACC
* * * * *
7210374 TTTCGGGCTTGGCCTCATTTGTAAATTTATAAACATGATGTAAGTT-ACGCACGCCATGAAGAAA
1 TTTCGGGCTTGGCCTCGTTCGTAAATTTATAAACATGATGTAA-TTAACACATGCCACGAAGAAA
7210438 ATCATTTCAAAAATGGAAAT
65 ATCATTTCAAAAATGGAAAT
7210458 CAGATTAACA
Statistics
Matches: 227, Mismatches: 30, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
87 225 0.99
88 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (87 bp):
TTTCGGGCTTGGCCTCGTTCGTAAATTTATAAACATGATGTAATTAACACATGCCACGAAGAAAA
TCATTTCAAAAATGGAAATACC
Found at i:7215544 original size:21 final size:21
Alignment explanation
Indices: 7215504--7215544 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7215494 ATCTGCTCAA
* *
7215504 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGTTGTGAAGTAC
7215525 ACTCCACCTGTTGTGAAGTA
1 ACTCCACCTGTTGTGAAGTA
7215545 TTGCTCATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
ACTCCACCTGTTGTGAAGTAC
Found at i:7222667 original size:16 final size:15
Alignment explanation
Indices: 7222635--7222665 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7222625 CAAAAAAATT
7222635 ATTTTTTATTAATAA
1 ATTTTTTATTAATAA
*
7222650 ATTTTTTATTTATAA
1 ATTTTTTATTAATAA
7222665 A
1 A
7222666 ATCAAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTTTTATTAATAA
Found at i:7224219 original size:169 final size:170
Alignment explanation
Indices: 7223749--7224404 Score: 897
Period size: 170 Copynumber: 3.9 Consensus size: 170
7223739 AAATCGAACC
* * *
7223749 ATTTCCTTAAATATCACAAAATTCAACCCAAAACCCTAATTTTTTAAAACTGGCATGTATTTAAA
1 ATTTCCCTAAATATCACAAAATTCAACCCAAAACCCTAATTTTTTAAAACTGGCATATATCTAAA
* **
7223814 ATTTAACCGATGTTATTATTCATTGATAATGCATGAAACTTATATACCGACGATGCATCAAATAT
66 ATTTAACTGATGTTATTATTCATTGATAATGCATGAAACTTATGCACCGACGATGCATCAAATAT
* *
7223879 TATTTTATTTTCTTTCTATTTCTCTTCCCAAAATCAGTCT
131 TATTTTATTTTCTTTCTATTTCTCTTCCCAAGATCGGTCT
** * * *
7223919 ATTTATCAAAATATCGCAAAATTCAGCCCAAAACCCTAATTTTTTAAAACTGGCATATATCTAAA
1 ATTTCCCTAAATATCACAAAATTCAACCCAAAACCCTAATTTTTTAAAACTGGCATATATCTAAA
* * *
7223984 ATTTAATTGATGTTATTATTCACTAATAATGCATGAAACTTATGC-CCGGACGATGCATCAAATA
66 ATTTAACTGATGTTATTATTCATTGATAATGCATGAAACTTATGCACC-GACGATGCATCAAATA
* *
7224048 TTATTTTATTTTCTTTCTATTTATCTTCCCAAGATTGGTCT
130 TTATTTTATTTTCTTTCTATTTCTCTTCCCAAGATCGGTCT
*
7224089 ATTTCCCTAAATATCACAAAATTCAACTCAAAACCCTAA-TTTTTAAAACTGGCATATATCTAAA
1 ATTTCCCTAAATATCACAAAATTCAACCCAAAACCCTAATTTTTTAAAACTGGCATATATCTAAA
* * *
7224153 ATTTAATTGATGTTATTATTCATTGATAATGCATGAAACTTATGCCCCAACGATGCATCAAATAT
66 ATTTAACTGATGTTATTATTCATTGATAATGCATGAAACTTATGCACCGACGATGCATCAAATAT
* * * *
7224218 TATTTTATTTTATTTCTATTTCTCTTTCC-AGAACCGATCT
131 TATTTTATTTTCTTTCTATTTCTCTTCCCAAG-ATCGGTCT
* ** * **
7224258 ATTTCTCTAAATATTGCAAAATTCAACCCAAAACCCTAATTTTTTTAAATCTAACATATATCTAA
1 ATTTCCCTAAATATCACAAAATTCAACCCAAAACCCTAA-TTTTTTAAAACTGGCATATATCTAA
* * * * *
7224323 AATTTAACTGATGTTATTATTCACTTG-TAATGCATGAAGCTTATGTACCGACAATACATAAAAT
65 AATTTAACTGATGTTATTATTCA-TTGATAATGCATGAAACTTATGCACCGACGATGCATCAAAT
* *
7224387 ATTAGTTAATTTTCTTTC
129 ATTATTTTATTTTCTTTC
7224405 CTTGAAATAT
Statistics
Matches: 429, Mismatches: 51, Indels: 11
0.87 0.10 0.02
Matches are distributed among these distances:
168 2 0.00
169 152 0.35
170 184 0.43
171 88 0.21
172 3 0.01
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (170 bp):
ATTTCCCTAAATATCACAAAATTCAACCCAAAACCCTAATTTTTTAAAACTGGCATATATCTAAA
ATTTAACTGATGTTATTATTCATTGATAATGCATGAAACTTATGCACCGACGATGCATCAAATAT
TATTTTATTTTCTTTCTATTTCTCTTCCCAAGATCGGTCT
Done.