Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 84 of 93
Found at i:13145160 original size:17 final size:17
Alignment explanation
Indices: 13145126--13145160 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
13145116 GATTTTAATG
*
13145126 TAAAAATTAGTAATATA
1 TAAAAATTAGTAAAATA
*
13145143 TAAAAATTATTAAAATA
1 TAAAAATTAGTAAAATA
13145160 T
1 T
13145161 TATTTATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (17 bp):
TAAAAATTAGTAAAATA
Found at i:13150834 original size:30 final size:30
Alignment explanation
Indices: 13150795--13150851 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
13150785 AAAAACCCAT
* * *
13150795 GAAATGGTTTTAGAATTGCATAAGCCATTA
1 GAAACGGTTTCAGAATTGCACAAGCCATTA
*
13150825 GAAACGGTTTCGGAATTGCACAAGCCA
1 GAAACGGTTTCAGAATTGCACAAGCCA
13150852 ATTTTCCTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (30 bp):
GAAACGGTTTCAGAATTGCACAAGCCATTA
Found at i:13163811 original size:34 final size:32
Alignment explanation
Indices: 13163751--13163832 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 32
13163741 AAATGATTTT
* *
13163751 AATTTTC-TTTTTACTAATTTTCATATAACTATA
1 AATTTTCTTTTTTATTAATTTTCATAT-A-TAGA
13163784 AATATTTCTTTTTTATTAATTTT-ATATATAGA
1 AAT-TTTCTTTTTTATTAATTTTCATATATAGA
*
13163816 TATTTTCTTTTTTATTA
1 AATTTTCTTTTTTATTA
13163833 TATAAAGATT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
31 14 0.32
32 5 0.11
33 4 0.09
34 8 0.18
35 13 0.30
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.61
Consensus pattern (32 bp):
AATTTTCTTTTTTATTAATTTTCATATATAGA
Found at i:13163882 original size:20 final size:21
Alignment explanation
Indices: 13163859--13163897 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
13163849 TATATATTAA
* *
13163859 TAAATAATATTTA-TATTTTT
1 TAAAAAATAATTATTATTTTT
13163879 TAAAAAATAATTATTATTT
1 TAAAAAATAATTATTATTT
13163898 ATTATATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TAAAAAATAATTATTATTTTT
Found at i:13163905 original size:30 final size:30
Alignment explanation
Indices: 13163857--13163927 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 30
13163847 ATTATATATT
*
13163857 AATAAATAATATTTA-TAT-TTT-TTAAAA
1 AATAAATATTATTTATTATATTTATTAAAA
*
13163884 AATAATTATTATTTATTATATTTATTAAAA
1 AATAAATATTATTTATTATATTTATTAAAA
*
13163914 TATAAATATTATTT
1 AATAAATATTATTT
13163928 TTAACTATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 13 0.35
28 3 0.08
29 3 0.08
30 18 0.49
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
AATAAATATTATTTATTATATTTATTAAAA
Found at i:13163936 original size:27 final size:29
Alignment explanation
Indices: 13163868--13163956 Score: 83
Period size: 30 Copynumber: 3.1 Consensus size: 29
13163858 ATAAATAATA
* * * *
13163868 TTTATATTTTTTAAAAAATAATTATTATT
1 TTTATATCTATTAAAATATAAATATTATT
*
13163897 TATTATATTTATTAAAATATAAATATTATT
1 T-TTATATCTATTAAAATATAAATATTATT
* *
13163927 TTTA-A-CTATTAACATATAAAATATGATT
1 TTTATATCTATTAAAATAT-AAATATTATT
13163955 TT
1 TT
13163957 AATAAAATGT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
27 10 0.19
28 12 0.23
29 4 0.08
30 26 0.50
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (29 bp):
TTTATATCTATTAAAATATAAATATTATT
Found at i:13171872 original size:19 final size:18
Alignment explanation
Indices: 13171843--13171878 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
13171833 GAGAAGCTCG
13171843 AATTCAATTTTAAATTTA
1 AATTCAATTTTAAATTTA
13171861 AATTCGAATTTTAAATTT
1 AATTC-AATTTTAAATTT
13171879 GATTTAAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.50
Consensus pattern (18 bp):
AATTCAATTTTAAATTTA
Found at i:13172066 original size:20 final size:19
Alignment explanation
Indices: 13172015--13172053 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13172005 AATTAAAAAT
*
13172015 AATA-AAAAATATTTATTAA
1 AATATAAAAA-ATTGATTAA
13172034 AATATAAAAAATTGATTAA
1 AATATAAAAAATTGATTAA
13172053 A
1 A
13172054 CATGTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
AATATAAAAAATTGATTAA
Found at i:13172096 original size:22 final size:22
Alignment explanation
Indices: 13172048--13172093 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
13172038 TAAAAAATTG
13172048 ATTAAACATGTAAATAATTTAA
1 ATTAAACATGTAAATAATTTAA
* *
13172070 ATTAAATATTTAAAT-ATTTAA
1 ATTAAACATGTAAATAATTTAA
13172091 ATT
1 ATT
13172094 TAATTTGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
ATTAAACATGTAAATAATTTAA
Found at i:13172585 original size:20 final size:22
Alignment explanation
Indices: 13172537--13172587 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
13172527 TAATCAAAAT
* *
13172537 AATTAATCGAATCGATTTAATTT
1 AATTAAT-TAATCGATTTAATTA
13172560 AATTAATTAATCGA-TT-ATTA
1 AATTAATTAATCGATTTAATTA
13172580 AATTAATT
1 AATTAATT
13172588 TTGATCGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 11 0.42
21 2 0.08
22 6 0.23
23 7 0.27
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (22 bp):
AATTAATTAATCGATTTAATTA
Found at i:13172594 original size:22 final size:23
Alignment explanation
Indices: 13172569--13172612 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
13172559 TAATTAATTA
* *
13172569 ATCGATT-ATTAAATTAATTTTG
1 ATCGATTGATAAAAATAATTTTG
13172591 ATCGATTGATAAAAATAATTTT
1 ATCGATTGATAAAAATAATTTT
13172613 AAAAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (23 bp):
ATCGATTGATAAAAATAATTTTG
Found at i:13174966 original size:15 final size:15
Alignment explanation
Indices: 13174946--13174987 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 15
13174936 ATATATAATA
13174946 ATATTTTAAATATTT
1 ATATTTTAAATATTT
*
13174961 ATATTTAAAAAATATTT
1 ATATTT--TAAATATTT
13174978 ATATTTTAAA
1 ATATTTTAAA
13174988 AAATAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.39
17 14 0.61
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATTTTAAATATTT
Found at i:13174973 original size:17 final size:18
Alignment explanation
Indices: 13174953--13174992 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
13174943 ATAATATTTT
13174953 AAATATTTATA-TTTAAA
1 AAATATTTATATTTTAAA
13174970 AAATATTTATATTTTAAA
1 AAATATTTATATTTTAAA
13174988 AAATA
1 AAATA
13174993 ATATTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATATTTATATTTTAAA
Found at i:13174998 original size:15 final size:15
Alignment explanation
Indices: 13174942--13175000 Score: 57
Period size: 15 Copynumber: 3.8 Consensus size: 15
13174932 ATATATATAT
*
13174942 AATAATATTTTAAAT
1 AATAATATTTTAAAA
* *
13174957 ATTTATA-TTTAAAA
1 AATAATATTTTAAAA
13174971 AATATTTATATTTTAAAA
1 AATA---ATATTTTAAAA
13174989 AATAATATTTTA
1 AATAATATTTTA
13175001 TTAATTTCAG
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
14 8 0.23
15 13 0.37
17 3 0.09
18 11 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATAATATTTTAAAA
Found at i:13175004 original size:18 final size:18
Alignment explanation
Indices: 13174954--13175004 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
13174944 TAATATTTTA
13174954 AATATTTATATTTAAAAAAT
1 AATATTT-TA-TTAAAAAAT
* *
13174974 ATTTATATT-TTAAAAAAT
1 A-ATATTTTATTAAAAAAT
13174992 AATATTTTATTAA
1 AATATTTTATTAA
13175005 TTTCAGGTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
17 5 0.20
18 14 0.56
20 2 0.08
21 4 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATATTTTATTAAAAAAT
Found at i:13177575 original size:2 final size:2
Alignment explanation
Indices: 13177568--13177592 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13177558 GCTGGTAAAA
13177568 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
13177593 AATCAAGAAA
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:13182611 original size:14 final size:16
Alignment explanation
Indices: 13182572--13182626 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
13182562 TATTTATTTA
*
13182572 TATATATTTATATAAT
1 TATATATTTAAATAAT
*
13182588 TATATTTTTAAAT-AT
1 TATATATTTAAATAAT
*
13182603 T-TATATTTAAAAAAT
1 TATATATTTAAATAAT
*
13182618 AATAT-TTTA
1 TATATATTTA
13182627 TTAATTTCAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
14 9 0.28
15 9 0.28
16 14 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATATATTTAAATAAT
Found at i:13194229 original size:3 final size:3
Alignment explanation
Indices: 13194221--13194248 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
13194211 TTTATGAGAA
13194221 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
13194249 AATACAAGTC
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:13194690 original size:21 final size:21
Alignment explanation
Indices: 13194643--13194713 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 21
13194633 TTAATTTCAG
**
13194643 TAAAATTAAATA--ATAATAA
1 TAAAATTAAATACTATAACGA
** *
13194662 TAAAATTAGTTACTGTAACGA
1 TAAAATTAAATACTATAACGA
*
13194683 TAATATTAAATACTATAACGA
1 TAAAATTAAATACTATAACGA
13194704 TAAAATTAAA
1 TAAAATTAAA
13194714 ATAAATGATG
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
19 10 0.25
21 30 0.75
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (21 bp):
TAAAATTAAATACTATAACGA
Found at i:13196215 original size:30 final size:31
Alignment explanation
Indices: 13196132--13196223 Score: 84
Period size: 31 Copynumber: 3.0 Consensus size: 31
13196122 TTTAAATGAA
* *
13196132 TTTA-ATAAATTAAAAATATAT-TTTATATT
1 TTTATATAAATTAAAAATAAATATATATATT
** *
13196161 TTTATATTGA-TACAAATTATAATATATAT-TT
1 TTTATATAAATTA-AAAATA-AATATATATATT
*
13196192 TTTATATAAATTAAAAATAAATATATAAATT
1 TTTATATAAATTAAAAATAAATATATATATT
13196223 T
1 T
13196224 ATCAAATTTA
Statistics
Matches: 48, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
29 6 0.12
30 16 0.33
31 20 0.42
32 6 0.12
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (31 bp):
TTTATATAAATTAAAAATAAATATATATATT
Found at i:13196606 original size:30 final size:25
Alignment explanation
Indices: 13196562--13196626 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 25
13196552 AAAAAAAGTG
13196562 AATATGATATAATTTAATATTTTAATAAA
1 AATAT-ATATAATTTAATA---TAATAAA
13196591 AATTATATATGAATTTAATATAATAAA
1 AA-TATATAT-AATTTAATATAATAAA
13196618 AATATATAT
1 AATATATAT
13196627 TTTATATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
26 7 0.21
27 9 0.26
29 6 0.18
30 12 0.35
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (25 bp):
AATATATATAATTTAATATAATAAA
Found at i:13198381 original size:42 final size:43
Alignment explanation
Indices: 13198335--13198425 Score: 109
Period size: 41 Copynumber: 2.2 Consensus size: 43
13198325 TAAATTTTAT
13198335 TAATTTTATATATA-ATTATTATTAAAATTTTA-AATCATATTA
1 TAATTTTATATATATATTA-TATTAAAATTTTATAATCATATTA
* * * *
13198377 TAATTTT-TATTTATATTATATTTATATTTTATTATCATATTA
1 TAATTTTATATATATATTATATTAAAATTTTATAATCATATTA
13198419 T-ATTTTA
1 TAATTTTA
13198426 AATTATCAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
41 21 0.50
42 21 0.50
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.59
Consensus pattern (43 bp):
TAATTTTATATATATATTATATTAAAATTTTATAATCATATTA
Found at i:13198400 original size:11 final size:11
Alignment explanation
Indices: 13198384--13198423 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
13198374 TTATAATTTT
13198384 TATTTATATTA
1 TATTTATATTA
*
13198395 TATTTATATTT
1 TATTTATATTA
13198406 TATTATCATATTA
1 TATT-T-ATATTA
13198419 TATTT
1 TATTT
13198424 TAAATTATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 14 0.56
12 2 0.08
13 9 0.36
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTTATATTA
Found at i:13198424 original size:18 final size:16
Alignment explanation
Indices: 13198372--13198425 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 16
13198362 TTTTAAATCA
*
13198372 TATTATAATTTTTATTT
1 TATTAT-ATTTATATTT
13198389 ATATTATATTTATATTT
1 -TATTATATTTATATTT
13198406 TATTATCATATTATATTT
1 TATTAT-AT-TTATATTT
13198424 TA
1 TA
13198426 AATTATCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
16 6 0.18
17 11 0.33
18 16 0.48
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTATATTTATATTT
Found at i:13205272 original size:16 final size:16
Alignment explanation
Indices: 13205251--13205283 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
13205241 GATGAGATGT
13205251 TAGAATATGTAAAATC
1 TAGAATATGTAAAATC
*
13205267 TAGAATATGTGAAATC
1 TAGAATATGTAAAATC
13205283 T
1 T
13205284 TTCACAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.33
Consensus pattern (16 bp):
TAGAATATGTAAAATC
Found at i:13208112 original size:2 final size:2
Alignment explanation
Indices: 13208100--13208149 Score: 64
Period size: 2 Copynumber: 25.0 Consensus size: 2
13208090 TTAGCAAAAC
* * *
13208100 TA TA AA TA TA TA TA TA TA TA TA TA CA TA CA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
13208142 TA TG TA TA
1 TA TA TA TA
13208150 AAATCAAGTA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (2 bp):
TA
Found at i:13214960 original size:16 final size:16
Alignment explanation
Indices: 13214929--13214972 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
13214919 TGTGATCATT
13214929 AACAAA-AAAAAAAAA
1 AACAAATAAAAAAAAA
*
13214944 AA-AGAATAAAAAGAAA
1 AACA-AATAAAAAAAAA
13214960 AACAAATAAAAAA
1 AACAAATAAAAAA
13214973 GCAGGACAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 1 0.04
15 4 0.17
16 18 0.75
17 1 0.04
ACGTcount: A:0.86, C:0.05, G:0.05, T:0.05
Consensus pattern (16 bp):
AACAAATAAAAAAAAA
Found at i:13227757 original size:6 final size:6
Alignment explanation
Indices: 13227746--13227777 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
13227736 ATGTATAAGG
13227746 GCATGT GCATGT GCATGT GCATGT GCATGT GC
1 GCATGT GCATGT GCATGT GCATGT GCATGT GC
13227778 TTCTACTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.19, G:0.34, T:0.31
Consensus pattern (6 bp):
GCATGT
Found at i:13232984 original size:29 final size:28
Alignment explanation
Indices: 13232928--13233009 Score: 69
Period size: 29 Copynumber: 2.8 Consensus size: 28
13232918 ATATATAATT
*
13232928 TATAAT-TATTTATTTTAAATTATCAGA
1 TATAATATATTTATTTTAAATTAACAGA
*
13232955 TATAATATATTTTATTTT-AATCTAAGAGA
1 TATAATATA-TTTATTTTAAAT-TAACAGA
*
13232984 TTAAATAATTTATTTATCTTTAAATT
1 -T--ATAATATATTTAT-TTTAAATT
13233010 TTTTTTACCA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
27 6 0.14
28 5 0.11
29 13 0.30
30 1 0.02
31 5 0.11
32 11 0.25
33 3 0.07
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (28 bp):
TATAATATATTTATTTTAAATTAACAGA
Found at i:13233753 original size:15 final size:15
Alignment explanation
Indices: 13233733--13233777 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
13233723 ATCGATTAAA
13233733 ATTTTAAATTATATT
1 ATTTTAAATTATATT
* *
13233748 ATTTTAAATTTTTTT
1 ATTTTAAATTATATT
*
13233763 ATATTATAATTATAT
1 ATTTTA-AATTATAT
13233778 CATATCATTA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
15 18 0.75
16 6 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTTTAAATTATATT
Found at i:13233803 original size:10 final size:10
Alignment explanation
Indices: 13233741--13233806 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
13233731 AAATTTTAAA
13233741 TTATATTATT
1 TTATATTATT
* *
13233751 TTAAATTTTT
1 TTATATTATT
*
13233761 TTATATTATAA
1 TTATATTAT-T
* *
13233772 TTATATCATA
1 TTATATTATT
*
13233782 TCAT-TATATT
1 TTATAT-TATT
13233792 TTATATTATT
1 TTATATTATT
13233802 TTATA
1 TTATA
13233807 AAATATTAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
9 1 0.02
10 33 0.77
11 9 0.21
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATATTATT
Found at i:13233833 original size:20 final size:20
Alignment explanation
Indices: 13233808--13233845 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13233798 TATTTTATAA
13233808 AATATTAAAATTTATATATT
1 AATATTAAAATTTATATATT
* *
13233828 AATATTATATTTTATATA
1 AATATTAAAATTTATATA
13233846 AAAATTAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AATATTAAAATTTATATATT
Found at i:13233961 original size:2 final size:2
Alignment explanation
Indices: 13233954--13233983 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
13233944 GCTTTATTTT
13233954 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13233984 TCATATGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:13248966 original size:16 final size:17
Alignment explanation
Indices: 13248940--13248976 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
13248930 TTTTTTATAA
*
13248940 AAAATTTTGGATTTGAT
1 AAAATTTTGGATTCGAT
13248957 AAAA-TTTGGATTCGAT
1 AAAATTTTGGATTCGAT
13248973 AAAA
1 AAAA
13248977 GGAATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (17 bp):
AAAATTTTGGATTCGAT
Found at i:13249179 original size:29 final size:29
Alignment explanation
Indices: 13249147--13249234 Score: 104
Period size: 29 Copynumber: 3.0 Consensus size: 29
13249137 TTTATCATTC
* * *
13249147 TATTCGAATAAATTTTTATTTTTTTATTT
1 TATTCAAATAAATTTTTAATTTTTAATTT
13249176 TATTCAAATAAATTTTTAATTTTTAATTT
1 TATTCAAATAAATTTTTAATTTTTAATTT
* * **
13249205 ACACTCAAATAAACATTTAATTTTTAATTT
1 -TATTCAAATAAATTTTTAATTTTTAATTT
13249235 ATATCATAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 26 0.51
30 25 0.49
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.56
Consensus pattern (29 bp):
TATTCAAATAAATTTTTAATTTTTAATTT
Found at i:13249213 original size:30 final size:30
Alignment explanation
Indices: 13249153--13249235 Score: 105
Period size: 30 Copynumber: 2.8 Consensus size: 30
13249143 ATTCTATTCG
* * * *
13249153 AATAAATTTTTATTTTTTTATTT-TATTCA
1 AATAAATTTTTAATTTTTAATTTACACTCA
13249182 AATAAATTTTTAATTTTTAATTTACACTCA
1 AATAAATTTTTAATTTTTAATTTACACTCA
**
13249212 AATAAACATTTAATTTTTAATTTA
1 AATAAATTTTTAATTTTTAATTTA
13249236 TATCATAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 21 0.45
30 26 0.55
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (30 bp):
AATAAATTTTTAATTTTTAATTTACACTCA
Found at i:13257707 original size:15 final size:16
Alignment explanation
Indices: 13257687--13257719 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
13257677 ATACTTTTAT
13257687 ATTTATAT-TATATAA
1 ATTTATATATATATAA
*
13257702 ATTTATATATATGTAA
1 ATTTATATATATATAA
13257718 AT
1 AT
13257720 GTATTCATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
ATTTATATATATATAA
Found at i:13260205 original size:22 final size:24
Alignment explanation
Indices: 13260164--13260216 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 24
13260154 ATAATTATTT
*
13260164 TATATAAAA--TTTATTTAAAT-A
1 TATATAAAATTTTTATTAAAATAA
13260185 TAT-TAAAATTTTTATTAAAATAA
1 TATATAAAATTTTTATTAAAATAA
13260208 TATATAAAA
1 TATATAAAA
13260217 ATTTAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 5 0.19
21 3 0.11
22 10 0.37
23 4 0.15
24 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TATATAAAATTTTTATTAAAATAA
Found at i:13260998 original size:17 final size:17
Alignment explanation
Indices: 13260962--13261000 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
13260952 CAATTTTAAG
*
13260962 ATTATTATAATAAATTA
1 ATTATTATAATAAATAA
13260979 ATTATTATAAT-AATAAA
1 ATTATTATAATAAAT-AA
13260996 ATTAT
1 ATTAT
13261001 CAAAATGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTATTATAATAAATAA
Found at i:13262233 original size:21 final size:21
Alignment explanation
Indices: 13262204--13262252 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
13262194 TTTTCGGTAC
*
13262204 TTAACCAAACAAAAGCTATGA
1 TTAATCAAACAAAAGCTATGA
13262225 TTAATCAAACAAAAGCTATGA
1 TTAATCAAACAAAAGCTATGA
13262246 TTAATCA
1 TTAATCA
13262253 TTTATTTTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.51, C:0.16, G:0.08, T:0.24
Consensus pattern (21 bp):
TTAATCAAACAAAAGCTATGA
Found at i:13262692 original size:29 final size:29
Alignment explanation
Indices: 13262623--13262692 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
13262613 AATGACCTTC
*
13262623 AAATTATAATAAAATATTTAATATAGAACCT
1 AAATTAT-A-AAAATATTTAATATAGAACAT
*
13262654 AAACTT-TAAAAATATTTAATATAGTACAT
1 AAA-TTATAAAAATATTTAATATAGAACAT
*
13262683 GAATTATAAA
1 AAATTATAAA
13262693 TTTATCAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
28 2 0.06
29 25 0.74
30 1 0.03
31 4 0.12
32 2 0.06
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (29 bp):
AAATTATAAAAATATTTAATATAGAACAT
Found at i:13264148 original size:7 final size:7
Alignment explanation
Indices: 13264136--13264160 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13264126 CATGATTTCC
13264136 TTTTCTT
1 TTTTCTT
13264143 TTTTCTT
1 TTTTCTT
13264150 TTTTCTT
1 TTTTCTT
13264157 TTTT
1 TTTT
13264161 TGCCCTCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTCTT
Found at i:13264249 original size:14 final size:14
Alignment explanation
Indices: 13264216--13264248 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
13264206 CATTTTTTTT
13264216 ATTTTTGTTTAGCA
1 ATTTTTGTTTAGCA
13264230 ATTTTTGTTTAGC-
1 ATTTTTGTTTAGCA
13264243 ATTTTT
1 ATTTTT
13264249 TAAATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.18, C:0.06, G:0.12, T:0.64
Consensus pattern (14 bp):
ATTTTTGTTTAGCA
Found at i:13264379 original size:33 final size:32
Alignment explanation
Indices: 13264308--13264379 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 32
13264298 GATAAACTAA
13264308 TTAATAAAAAACTAAAAATTGAATAAATATGT
1 TTAATAAAAAACTAAAAATTGAATAAATATGT
**
13264340 AAAATAAATAAA-TAATAAATTGAATAAATACT-T
1 TTAATAAA-AAACTAA-AAATTGAATAAATA-TGT
13264373 TTAATAA
1 TTAATAA
13264380 TTTTCAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
32 9 0.27
33 23 0.70
34 1 0.03
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (32 bp):
TTAATAAAAAACTAAAAATTGAATAAATATGT
Found at i:13271241 original size:100 final size:100
Alignment explanation
Indices: 13271068--13271262 Score: 318
Period size: 100 Copynumber: 1.9 Consensus size: 100
13271058 TTGTAACTGG
* * * *
13271068 AAGCAAATTAGAAGCATATTTTGTGAGTGTAACAGTAGAAAGTAGAAAGCCCTTTACAATTTTGG
1 AAGCAAATTAGAAGCATATGTTGTAAGTGTAACAGTAGAAACTAGAAAGCCATTTACAATTTTGG
**
13271133 TCATCATCACTTAGGTAATGATTAATCATAATTGA
66 TCATCATCACTTAGAAAATGATTAATCATAATTGA
* *
13271168 AAGCAAATTAGAAGCATATGTTGTAAGTGTAGCTGTAGAAACTAGAAAGCCATTTACAATTTTGG
1 AAGCAAATTAGAAGCATATGTTGTAAGTGTAACAGTAGAAACTAGAAAGCCATTTACAATTTTGG
13271233 TCATCATCACTTAGAAAATGATTAATCATA
66 TCATCATCACTTAGAAAATGATTAATCATA
13271263 GGAACATTGT
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 87 1.00
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.31
Consensus pattern (100 bp):
AAGCAAATTAGAAGCATATGTTGTAAGTGTAACAGTAGAAACTAGAAAGCCATTTACAATTTTGG
TCATCATCACTTAGAAAATGATTAATCATAATTGA
Found at i:13279508 original size:21 final size:21
Alignment explanation
Indices: 13279484--13279534 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
13279474 AAATAATCAT
*
13279484 AAAAATAATTTTAAA-ATATAA
1 AAAAATAATATTAAATAT-TAA
*
13279505 AAAATAAAATATTAAATATTAA
1 AAAA-ATAATATTAAATATTAA
13279527 AAAAATAA
1 AAAAATAA
13279535 AAAAATGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 7 0.28
22 16 0.64
23 2 0.08
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAAATAATATTAAATATTAA
Found at i:13279706 original size:21 final size:19
Alignment explanation
Indices: 13279666--13279706 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
13279656 TACTAGCCTA
13279666 ATATCATAAAAATAAATTT
1 ATATCATAAAAATAAATTT
*
13279685 ATATCAATAAATAATTAATTT
1 ATATC-ATAAA-AATAAATTT
13279706 A
1 A
13279707 ATTGATTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 5 0.26
21 9 0.47
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (19 bp):
ATATCATAAAAATAAATTT
Found at i:13281357 original size:19 final size:20
Alignment explanation
Indices: 13281333--13281372 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
13281323 TATCGGAGTG
13281333 AAAAAAATTT-TATAATTTTA
1 AAAAAAATTTATA-AATTTTA
13281353 AAAAAAATTTATAAATTTTA
1 AAAAAAATTTATAAATTTTA
13281373 TATCGATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAAAAATTTATAAATTTTA
Found at i:13286209 original size:2 final size:2
Alignment explanation
Indices: 13286202--13286230 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
13286192 GGGAAGCATA
13286202 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13286231 CACACACAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13290098 original size:2 final size:2
Alignment explanation
Indices: 13290093--13290121 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
13290083 CCCCCATAGA
13290093 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 T
13290122 TTGTCGCCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:13302674 original size:26 final size:24
Alignment explanation
Indices: 13302614--13302674 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 24
13302604 TATAATTTTT
13302614 ATATAAAATATCATATAAATATAA
1 ATATAAAATATCATATAAATATAA
** **
13302638 ATATTTTAATATTTTATATAATATAA
1 ATA-TAAAATATCATATA-AATATAA
13302664 ATATACAAATA
1 ATATA-AAATA
13302675 ATCAAATTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
24 3 0.11
25 11 0.39
26 14 0.50
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (24 bp):
ATATAAAATATCATATAAATATAA
Found at i:13302923 original size:12 final size:13
Alignment explanation
Indices: 13302903--13302963 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 13
13302893 ATATTATTTT
13302903 TAATATAAATATAA
1 TAAT-TAAATATAA
13302917 -AATTAAATAAATATA
1 TAATTAAAT--ATA-A
*
13302932 TAAATAAATATAA
1 TAATTAAATATAA
13302945 -AATTAAATA-AA
1 TAATTAAATATAA
13302956 TAATTAAA
1 TAATTAAA
13302964 AATTAATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
11 2 0.05
12 20 0.50
13 4 0.10
14 6 0.15
15 1 0.03
16 7 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TAATTAAATATAA
Found at i:13302928 original size:16 final size:16
Alignment explanation
Indices: 13302902--13302957 Score: 75
Period size: 16 Copynumber: 3.7 Consensus size: 16
13302892 AATATTATTT
13302902 TTAATATAAATATAAAA
1 TTAA-ATAAATATAAAA
13302919 TTAAATAAATAT---A
1 TTAAATAAATATAAAA
13302932 -TAAATAAATATAAAA
1 TTAAATAAATATAAAA
13302947 TTAAATAAATA
1 TTAAATAAATA
13302958 ATTAAAAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 11 0.31
13 1 0.03
15 1 0.03
16 18 0.51
17 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TTAAATAAATATAAAA
Found at i:13302937 original size:24 final size:23
Alignment explanation
Indices: 13302905--13302981 Score: 82
Period size: 24 Copynumber: 3.2 Consensus size: 23
13302895 ATTATTTTTA
13302905 ATATAAATATAAAATTAAATAAAT
1 ATATAAATA-AAAATTAAATAAAT
* *
13302929 ATATAAATAAATATAAAATTAAAT
1 ATATAAATAAAAATTAAA-TAAAT
* * *
13302953 AAATAATTAAAAATTAATATATAT
1 ATATAAATAAAAATTAA-ATAAAT
13302977 ATATA
1 ATATA
13302982 TATGGGTCGA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
23 7 0.16
24 35 0.81
25 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
ATATAAATAAAAATTAAATAAAT
Found at i:13302963 original size:28 final size:27
Alignment explanation
Indices: 13302902--13302963 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 27
13302892 AATATTATTT
13302902 TTAATATAAATATAAAATTAAATAAATA
1 TTAA-ATAAATATAAAATTAAATAAATA
13302930 TATAAATAAATATAAAATTAAATAAATAA
1 T-TAAATAAATATAAAATTAAATAAAT-A
13302959 TTAAA
1 TTAAA
13302964 AATTAATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
28 27 0.84
29 5 0.16
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (27 bp):
TTAAATAAATATAAAATTAAATAAATA
Found at i:13304463 original size:13 final size:13
Alignment explanation
Indices: 13304415--13304465 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
13304405 AATATGATAA
*
13304415 TATAATATAAAATAA
1 TATAA-ATAAAA-AT
13304430 TATAAATTAAAAAT
1 TATAAA-TAAAAAT
*
13304444 T-TTAATAAAAAT
1 TATAAATAAAAAT
13304456 TATAAATAAA
1 TATAAATAAA
13304466 TTTTTAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 8 0.26
13 10 0.32
14 3 0.10
15 10 0.32
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
TATAAATAAAAAT
Found at i:13304524 original size:31 final size:33
Alignment explanation
Indices: 13304512--13304579 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 33
13304502 TATAAATTAT
*
13304512 AATATAT-AATTTTTACA-TAAAATATAATATA
1 AATATATAAATTTTTATATTAAAATATAATATA
**
13304543 AATATATAAATTTTTAATATT-TTATATAATATA
1 AATATATAAATTTTT-ATATTAAAATATAATATA
13304576 AATA
1 AATA
13304580 CACAAATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
31 7 0.23
32 7 0.23
33 16 0.52
34 1 0.03
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (33 bp):
AATATATAAATTTTTATATTAAAATATAATATA
Found at i:13310223 original size:17 final size:17
Alignment explanation
Indices: 13310201--13310233 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13310191 TCAATTAGAT
13310201 TTTAATAATAAA-ATTTA
1 TTTAAT-ATAAATATTTA
13310218 TTTAATATAAATATTT
1 TTTAATATAAATATTT
13310234 TTATAGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTAATATAAATATTTA
Found at i:13320396 original size:24 final size:25
Alignment explanation
Indices: 13320363--13320418 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
13320353 AAATAATAAT
* *
13320363 AAAAATTATTATAATTATGA-TTGA
1 AAAAAATATTATAATTATAATTTGA
* *
13320387 AAAAAATATTATTATTATAATTTTA
1 AAAAAATATTATAATTATAATTTGA
13320412 AAAAAAT
1 AAAAAAT
13320419 TCATAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 17 0.63
25 10 0.37
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (25 bp):
AAAAAATATTATAATTATAATTTGA
Found at i:13324649 original size:11 final size:11
Alignment explanation
Indices: 13324633--13324657 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13324623 TAACACCTCC
13324633 TTCATCAATGT
1 TTCATCAATGT
13324644 TTCATCAATGT
1 TTCATCAATGT
13324655 TTC
1 TTC
13324658 TTCCTCCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.20, G:0.08, T:0.48
Consensus pattern (11 bp):
TTCATCAATGT
Found at i:13332544 original size:11 final size:11
Alignment explanation
Indices: 13332528--13332566 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
13332518 CATGAAACTC
13332528 TCTTTTTTTTT
1 TCTTTTTTTTT
13332539 TCTTTTTTTTT
1 TCTTTTTTTTT
* * *
13332550 CCATTTTTTCT
1 TCTTTTTTTTT
13332561 TCTTTT
1 TCTTTT
13332567 AATAAAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:13340962 original size:19 final size:20
Alignment explanation
Indices: 13340938--13340984 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
13340928 AATTTATGAG
*
13340938 TTTAATTAAATTTT-TATAT
1 TTTAATTAAATTTTAAATAT
*
13340957 TTTAA-TATATTTTAAATAT
1 TTTAATTAAATTTTAAATAT
13340976 TTTAATTAA
1 TTTAATTAA
13340985 TAAATTATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 7 0.30
19 14 0.61
20 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTAATTAAATTTTAAATAT
Found at i:13340977 original size:9 final size:10
Alignment explanation
Indices: 13340952--13340981 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
13340942 ATTAAATTTT
13340952 TATATTTTAA
1 TATATTTTAA
13340962 TATATTTTAA
1 TATATTTTAA
13340972 -ATATTTTAA
1 TATATTTTAA
13340981 T
1 T
13340982 TAATAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TATATTTTAA
Found at i:13350184 original size:27 final size:28
Alignment explanation
Indices: 13350132--13350198 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
13350122 CTCTCATTTC
* *
13350132 ATTTTTATTTTTTATTTTGAAAATTTAT
1 ATTTTTACTTTTTATTTTGAAAATTTAA
*
13350160 ATTTTTACTTTTT-TTTT-ATATATTTAA
1 ATTTTTACTTTTTATTTTGA-AAATTTAA
13350187 A-TTTTA-TTTTTA
1 ATTTTTACTTTTTA
13350199 AAATTTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
25 5 0.15
26 6 0.18
27 11 0.32
28 12 0.35
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.70
Consensus pattern (28 bp):
ATTTTTACTTTTTATTTTGAAAATTTAA
Found at i:13350196 original size:21 final size:19
Alignment explanation
Indices: 13350155--13350198 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
13350145 ATTTTGAAAA
* *
13350155 TTTATATTTTTACTTTTTT
1 TTTATATTTTAAATTTTTT
13350174 TTTATATATTTAAATTTTATT
1 TTTATAT-TTTAAATTTT-TT
13350195 TTTA
1 TTTA
13350199 AAATTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 7 0.33
20 8 0.38
21 6 0.29
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTATATTTTAAATTTTTT
Found at i:13350223 original size:34 final size:33
Alignment explanation
Indices: 13350139--13350224 Score: 88
Period size: 32 Copynumber: 2.6 Consensus size: 33
13350129 TTCATTTTTA
***
13350139 TTTTTTAT-T-TTGAAAATTTATATTTTTACTTT
1 TTTTTTATATATTG-AAATTTATATTTTTAAAAT
*
13350171 TTTTTTATATATTTAAATTT-TATTTTTAAAAT
1 TTTTTTATATATTGAAATTTATATTTTTAAAAT
13350203 TTTTTTATGATATGTGAAATTT
1 TTTTTTAT-ATAT-TGAAATTT
13350225 GATAGGCTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
32 25 0.56
33 11 0.24
34 9 0.20
ACGTcount: A:0.29, C:0.01, G:0.05, T:0.65
Consensus pattern (33 bp):
TTTTTTATATATTGAAATTTATATTTTTAAAAT
Found at i:13351331 original size:2 final size:2
Alignment explanation
Indices: 13351326--13351362 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
13351316 TGTGCTTTAT
13351326 AC AC AC 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 AC AC AC A
13351363 TTGTCACCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:13351818 original size:23 final size:23
Alignment explanation
Indices: 13351788--13351838 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
13351778 CTTTTTATGT
13351788 AAAACGTGTAGTAGTAATAGTAG
1 AAAACGTGTAGTAGTAATAGTAG
13351811 AAAACGTGTAGTAGTAATAGTAG
1 AAAACGTGTAGTAGTAATAGTAG
*
13351834 TAAAC
1 AAAAC
13351839 TTTCAATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.45, C:0.06, G:0.24, T:0.25
Consensus pattern (23 bp):
AAAACGTGTAGTAGTAATAGTAG
Found at i:13360369 original size:23 final size:23
Alignment explanation
Indices: 13360339--13360385 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
13360329 GGACCACATA
*
13360339 TATCAGTCAGGTTTGTTCTTAAC
1 TATCAGTCAGCTTTGTTCTTAAC
13360362 TATCAGTCAGCTTTGTTCTTAAC
1 TATCAGTCAGCTTTGTTCTTAAC
13360385 T
1 T
13360386 CAGGTGTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.45
Consensus pattern (23 bp):
TATCAGTCAGCTTTGTTCTTAAC
Found at i:13365179 original size:78 final size:78
Alignment explanation
Indices: 13365048--13365197 Score: 228
Period size: 78 Copynumber: 1.9 Consensus size: 78
13365038 TCCAAACTCT
* ** * *
13365048 TACTCGCATACATCATATTTATGTGGACCCTCTCAGTCTTTTTTAATCCACTCACAAACAAACAT
1 TACTCCCATACATCATATTTATGTGGACCCTCTCAGTCTCCTCTAATACACTCACAAACAAACAT
13365113 ACACACCTCCATA
66 ACACACCTCCATA
* * *
13365126 TACTCCCATACATCATATTTATGTGGACCCTCTCAGTCTCCTCTAGTATACTCACAAATAAACAT
1 TACTCCCATACATCATATTTATGTGGACCCTCTCAGTCTCCTCTAATACACTCACAAACAAACAT
13365191 ACACACC
66 ACACACC
13365198 CATAAGACGT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
78 64 1.00
ACGTcount: A:0.32, C:0.31, G:0.07, T:0.30
Consensus pattern (78 bp):
TACTCCCATACATCATATTTATGTGGACCCTCTCAGTCTCCTCTAATACACTCACAAACAAACAT
ACACACCTCCATA
Found at i:13365399 original size:52 final size:52
Alignment explanation
Indices: 13365315--13365461 Score: 197
Period size: 52 Copynumber: 2.8 Consensus size: 52
13365305 TATAACCATG
* ** * *
13365315 CAAACTTGCCCATTAAGAATCCCTTTCTTTTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCTTTTTCCTTTTAGAATTCTTCTCCTGCAAGT
*
13365367 CAAACTTGCCTATTAAGAATCTTTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCTTTTTCCTTTTAGAATTCTTCTCCTGCAAGT
* * *
13365419 CAAACTTACCTATTAAGAATCTTTTTTCTCTT-GAAATTCTTCT
1 CAAACTTGCCTATTAAGAATCTTTTTCCTTTTAG-AATTCTTCT
13365462 TTTACATGGT
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
51 1 0.01
52 84 0.99
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.44
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCTTTTTCCTTTTAGAATTCTTCTCCTGCAAGT
Found at i:13376968 original size:13 final size:13
Alignment explanation
Indices: 13376950--13376976 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13376940 TCAAAGCCAC
13376950 ACGCTAAGACAGA
1 ACGCTAAGACAGA
13376963 ACGCTAAGACAGA
1 ACGCTAAGACAGA
13376976 A
1 A
13376977 AGCGAAACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.22, T:0.07
Consensus pattern (13 bp):
ACGCTAAGACAGA
Found at i:13386607 original size:9 final size:9
Alignment explanation
Indices: 13386593--13386617 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13386583 AACAACTGCA
13386593 GTAGTAGTG
1 GTAGTAGTG
13386602 GTAGTAGTG
1 GTAGTAGTG
13386611 GTAGTAG
1 GTAGTAG
13386618 AAGAGTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (9 bp):
GTAGTAGTG
Found at i:13404053 original size:36 final size:36
Alignment explanation
Indices: 13404012--13404083 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
13404002 AGTTACCTTT
13404012 CATTCCCATCTATGTTTGAAATGACAAATTAGTTAA
1 CATTCCCATCTATGTTTGAAATGACAAATTAGTTAA
13404048 CATTCCCATCTATGTTTGAAATGACAAATTAGTTAA
1 CATTCCCATCTATGTTTGAAATGACAAATTAGTTAA
13404084 AAAACCAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (36 bp):
CATTCCCATCTATGTTTGAAATGACAAATTAGTTAA
Found at i:13404162 original size:172 final size:172
Alignment explanation
Indices: 13403876--13404219 Score: 670
Period size: 172 Copynumber: 2.0 Consensus size: 172
13403866 CGTTACCTTT
13403876 CATTCCCATCTATGTTTGAAATGACAAATTAGTTAAAAAACCAAGAGCAAGACTCAATTGATCAT
1 CATTCCCATCTATGTTTGAAATGACAAATTAGTTAAAAAACCAAGAGCAAGACTCAATTGATCAT
13403941 AAGATTATTATCCCCCCCTTACCCAAATTTTTAAACTTTTCTGAAATGTTTTTTTAACTATAGTT
66 AAGATTATTATCCCCCCCTTACCCAAATTTTTAAACTTTTCTGAAATGTTTTTTTAACTATAGTT
13404006 ACCTTTCATTCCCATCTATGTTTGAAATGACAAATTAGTTAA
131 ACCTTTCATTCCCATCTATGTTTGAAATGACAAATTAGTTAA
13404048 CATTCCCATCTATGTTTGAAATGACAAATTAGTTAAAAAACCAAGAGCAAGACTCAATTGATCAT
1 CATTCCCATCTATGTTTGAAATGACAAATTAGTTAAAAAACCAAGAGCAAGACTCAATTGATCAT
* *
13404113 AAGATTATTATCCTCCCCTTCCCCAAATTTTTAAACTTTTCTGAAATGTTTTTTTAACTATAGTT
66 AAGATTATTATCCCCCCCTTACCCAAATTTTTAAACTTTTCTGAAATGTTTTTTTAACTATAGTT
13404178 ACCTTTCATTCCCATCTATGTTTGAAATGACAAATTAGTTAA
131 ACCTTTCATTCCCATCTATGTTTGAAATGACAAATTAGTTAA
13404220 AAAACCAAGA
Statistics
Matches: 170, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
172 170 1.00
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (172 bp):
CATTCCCATCTATGTTTGAAATGACAAATTAGTTAAAAAACCAAGAGCAAGACTCAATTGATCAT
AAGATTATTATCCCCCCCTTACCCAAATTTTTAAACTTTTCTGAAATGTTTTTTTAACTATAGTT
ACCTTTCATTCCCATCTATGTTTGAAATGACAAATTAGTTAA
Found at i:13412049 original size:28 final size:29
Alignment explanation
Indices: 13412014--13412073 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 29
13412004 TTCATGTATA
*
13412014 TATATATATTCATATTAATTAT-TTTATT
1 TATATATATTCATATTAATTATATCTATT
*
13412042 TATATATATTCATATTTATTATATCTATT
1 TATATATATTCATATTAATTATATCTATT
13412071 TAT
1 TAT
13412074 GTATCGCGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 21 0.72
29 8 0.28
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (29 bp):
TATATATATTCATATTAATTATATCTATT
Found at i:13412482 original size:18 final size:18
Alignment explanation
Indices: 13412438--13412484 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
13412428 CATATCATAT
* *
13412438 TCATATTTAAAATTTAAA
1 TCATATTTATAATCTAAA
*
13412456 T-ATATTTTATAATCTATA
1 TCATA-TTTATAATCTAAA
13412474 TCATATTTATA
1 TCATATTTATA
13412485 TTTTAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 3 0.12
18 18 0.75
19 3 0.12
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (18 bp):
TCATATTTATAATCTAAA
Found at i:13413320 original size:66 final size:65
Alignment explanation
Indices: 13413221--13413346 Score: 216
Period size: 66 Copynumber: 1.9 Consensus size: 65
13413211 CAATTTTATT
*
13413221 TTCTTTTTGAGACATTATCTATACCATGCAATCTGCAAATTACGCTTTTATGGGGTTCATCTATA
1 TTCTTTTTGAGACATTATCTATACCATGCAATCTGCAAATTACGCTTTTATCGGGTTCATCTATA
* *
13413286 TTCTTTTTGAGACATCTATCTATACTATTCAATCTGCAAATTACGCTTTTATCGGGTTCAT
1 TTCTTTTTGAGACAT-TATCTATACCATGCAATCTGCAAATTACGCTTTTATCGGGTTCAT
13413347 GTACTCCAAG
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
65 15 0.26
66 42 0.74
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.43
Consensus pattern (65 bp):
TTCTTTTTGAGACATTATCTATACCATGCAATCTGCAAATTACGCTTTTATCGGGTTCATCTATA
Found at i:13416611 original size:3 final size:3
Alignment explanation
Indices: 13416603--13416627 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13416593 CGGCAGTTGC
13416603 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
13416628 GTTGGTTTTG
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:13417751 original size:18 final size:18
Alignment explanation
Indices: 13417728--13417774 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
13417718 TGCTTTAATT
13417728 CTAACAAGAGCTCTTCCA
1 CTAACAAGAGCTCTTCCA
13417746 CTAACAAGAGCTCTTCCA
1 CTAACAAGAGCTCTTCCA
13417764 CTAACAAGAGC
1 CTAACAAGAGC
13417775 CCATTTGAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.36, C:0.32, G:0.13, T:0.19
Consensus pattern (18 bp):
CTAACAAGAGCTCTTCCA
Found at i:13422434 original size:34 final size:30
Alignment explanation
Indices: 13422376--13422463 Score: 85
Period size: 34 Copynumber: 2.9 Consensus size: 30
13422366 ATAGTTATTC
13422376 AAATTTT--TATC-ATTTTATTATAATTAATTA
1 AAATTTTAATATCTATTTTATT-TAATTAA--A
* *
13422406 AATTTGTTAATATTTATTTTCATTTAATTAAA
1 AAATT-TTAATATCTATTTT-ATTTAATTAAA
13422438 AAATTTTAATATCTA-TTTATTTAATT
1 AAATTTTAATATCTATTTTATTTAATT
13422464 CAACCTTCTA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
29 8 0.16
30 7 0.14
31 11 0.22
32 5 0.10
33 3 0.06
34 12 0.24
35 3 0.06
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (30 bp):
AAATTTTAATATCTATTTTATTTAATTAAA
Found at i:13439668 original size:2 final size:2
Alignment explanation
Indices: 13439661--13439685 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13439651 TTTAATGGGT
13439661 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 A
13439686 TATATATATG
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:13439699 original size:2 final size:2
Alignment explanation
Indices: 13439694--13439750 Score: 96
Period size: 2 Copynumber: 28.5 Consensus size: 2
13439684 CATATATATA
* *
13439694 TG TG TG TG TG TG TG TG TG TG TA TG TG TG TG TA TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
13439736 TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG T
13439751 ATGATATATA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.04, C:0.00, G:0.46, T:0.51
Consensus pattern (2 bp):
TG
Found at i:13440941 original size:13 final size:14
Alignment explanation
Indices: 13440923--13440953 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
13440913 GGGCTTCAAG
13440923 TTTTGTTTTTTT-T
1 TTTTGTTTTTTTGT
13440936 TTTTGTTTTTTTGT
1 TTTTGTTTTTTTGT
13440950 TTTT
1 TTTT
13440954 TTATGTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (14 bp):
TTTTGTTTTTTTGT
Found at i:13440952 original size:18 final size:18
Alignment explanation
Indices: 13440922--13440961 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
13440912 GGGGCTTCAA
*
13440922 GTTTTGTTTTTTTTTTTT
1 GTTTTGTTTTTTTTTTAT
13440940 GTTTT-TTTGTTTTTTTAT
1 GTTTTGTTT-TTTTTTTAT
13440958 GTTT
1 GTTT
13440962 CTTACAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.85
Consensus pattern (18 bp):
GTTTTGTTTTTTTTTTAT
Found at i:13449420 original size:30 final size:31
Alignment explanation
Indices: 13449311--13449420 Score: 91
Period size: 32 Copynumber: 3.5 Consensus size: 31
13449301 AATTTATATA
*
13449311 TTTATGTTATAT-AAATATTAAAATATATATTT
1 TTTATTTTATATAAAATA-TAAAATAT-TATTT
* * ** *
13449343 ATATTTTTTTATATAAAA-ATTATGTATTATAT
1 -T-TTATTTTATATAAAATATAAAATATTATTT
*
13449375 TTTATATTAGTATAAAATATAAAATATTATTT
1 TTTATTTTA-TATAAAATATAAAATATTATTT
13449407 TTTATTTTA-ATAAA
1 TTTATTTTATATAAA
13449421 TTTATATATA
Statistics
Matches: 60, Mismatches: 13, Indels: 11
0.71 0.15 0.13
Matches are distributed among these distances:
30 11 0.18
31 8 0.13
32 22 0.37
33 6 0.10
34 10 0.17
35 3 0.05
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (31 bp):
TTTATTTTATATAAAATATAAAATATTATTT
Found at i:13456238 original size:15 final size:15
Alignment explanation
Indices: 13456217--13456258 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
13456207 TGATGAGGAG
13456217 GAAGGAGAGGAAAGC
1 GAAGGAGAGGAAAGC
* *
13456232 GAGGGAGAGGAAAGT
1 GAAGGAGAGGAAAGC
13456247 GAAGGAGAGGAA
1 GAAGGAGAGGAA
13456259 GAGGAGAGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.45, C:0.02, G:0.50, T:0.02
Consensus pattern (15 bp):
GAAGGAGAGGAAAGC
Found at i:13456261 original size:21 final size:20
Alignment explanation
Indices: 13456232--13456281 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
13456222 AGAGGAAAGC
* *
13456232 GAGGGAGAGGAAAGTGAAGG
1 GAGGAAGAGGAAAGGGAAGG
*
13456252 AGAGGAAGAGGAGAGGGAAGG
1 -GAGGAAGAGGAAAGGGAAGG
*
13456273 GATGAAGAG
1 GAGGAAGAG
13456282 ATTGGCGAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.42, C:0.00, G:0.54, T:0.04
Consensus pattern (20 bp):
GAGGAAGAGGAAAGGGAAGG
Found at i:13458489 original size:40 final size:40
Alignment explanation
Indices: 13458445--13458520 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
13458435 TAATGACTTA
13458445 GTCAAATATCATGATTATAGTTATGCTCTGTATGTGCACG
1 GTCAAATATCATGATTATAGTTATGCTCTGTATGTGCACG
*
13458485 GTCAAATATCATGATTATAGTTATGGTCTGTATGTG
1 GTCAAATATCATGATTATAGTTATGCTCTGTATGTG
13458521 GTTGTAAGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (40 bp):
GTCAAATATCATGATTATAGTTATGCTCTGTATGTGCACG
Found at i:13460098 original size:2 final size:2
Alignment explanation
Indices: 13460091--13460127 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
13460081 AAATACAATG
* *
13460091 TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13460128 TAACAAGCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13463795 original size:4 final size:4
Alignment explanation
Indices: 13463786--13463815 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
13463776 TATATAATTG
13463786 TACA TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TA
13463816 TATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:13463820 original size:2 final size:2
Alignment explanation
Indices: 13463813--13463837 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13463803 ACATACATAC
13463813 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
13463838 CATTATTAAG
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:13464570 original size:2 final size:2
Alignment explanation
Indices: 13464563--13464588 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13464553 TATAGCTATG
13464563 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
13464589 TAAAATGGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13465063 original size:16 final size:17
Alignment explanation
Indices: 13465031--13465063 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
13465021 AAGCTAAATT
13465031 GTTTATATTTCTCTTTA
1 GTTTATATTTCTCTTTA
*
13465048 GTTTAT-TTTTTCTTTA
1 GTTTATATTTCTCTTTA
13465064 TGTTGTTGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.15, C:0.09, G:0.06, T:0.70
Consensus pattern (17 bp):
GTTTATATTTCTCTTTA
Found at i:13465149 original size:2 final size:2
Alignment explanation
Indices: 13465142--13465167 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13465132 CATATGATGC
13465142 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
13465168 CCAAGTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13465213 original size:2 final size:2
Alignment explanation
Indices: 13465206--13465233 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13465196 CATATGCTGC
13465206 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
13465234 CCAAGTCAAA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13465224 original size:64 final size:66
Alignment explanation
Indices: 13465123--13465248 Score: 220
Period size: 66 Copynumber: 1.9 Consensus size: 66
13465113 TTTAAACGAA
13465123 AAAACTAATCATATGATGC-ATATATATATATATATATATATATATCCAAGT-AAAAAAAATCAT
1 AAAACTAATCATATGATGCAATATATATATATATATATATATATATCCAAGTCAAAAAAAATCAT
13465186 C
66 C
*
13465187 AAAACTAATCATATGCTGCATATATATATATATATATATATATATATCCAAGTCAAAAAAAA
1 AAAACTAATCATATGATGCA-ATATATATATATATATATATATATATCCAAGTCAAAAAAAA
13465249 GAAAATTACC
Statistics
Matches: 58, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
64 18 0.31
66 32 0.55
67 8 0.14
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.33
Consensus pattern (66 bp):
AAAACTAATCATATGATGCAATATATATATATATATATATATATATCCAAGTCAAAAAAAATCAT
C
Found at i:13470283 original size:13 final size:14
Alignment explanation
Indices: 13470252--13470283 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
13470242 AAATATAAAA
13470252 TATATTTTTATATC
1 TATATTTTTATATC
13470266 T-TATTTTTATAT-
1 TATATTTTTATATC
13470278 TATATT
1 TATATT
13470284 CAAATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.06
13 15 0.88
14 1 0.06
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
TATATTTTTATATC
Found at i:13471678 original size:32 final size:31
Alignment explanation
Indices: 13471632--13471692 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
13471622 TCGTATATTG
**
13471632 TATCATATAATATATTAAAATTTATATATTTA
1 TATCATATAATATA-TAAAAAATATATATTTA
**
13471664 TATCATATTTTATATAAAAAATATATATT
1 TATCATATAATATATAAAAAATATATATT
13471693 ATAATTTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 13 0.52
32 12 0.48
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (31 bp):
TATCATATAATATATAAAAAATATATATTTA
Found at i:13471704 original size:32 final size:34
Alignment explanation
Indices: 13471668--13471744 Score: 83
Period size: 32 Copynumber: 2.4 Consensus size: 34
13471658 TATTTATATC
*
13471668 ATATTTTATATAAAAAATAT-ATAT-TATAATTT
1 ATATTTTATATAAAAAATATAAAATATATAATTT
* *
13471700 ATA-TTGATAT-AAAAATATAAAATATATATTTT
1 ATATTTTATATAAAAAATATAAAATATATAATTT
*
13471732 TTATTTTAT-TAAA
1 ATATTTTATATAAA
13471745 TTTATATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
30 8 0.22
31 9 0.25
32 13 0.36
33 6 0.17
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (34 bp):
ATATTTTATATAAAAAATATAAAATATATAATTT
Found at i:13472418 original size:20 final size:20
Alignment explanation
Indices: 13472395--13472465 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 20
13472385 TATATTCGTA
13472395 TTATATAAAATATTAATAAT
1 TTATATAAAATATTAATAAT
* *
13472415 TTATATAATTATATT-ATATT
1 TTATATAA-AATATTAATAAT
13472435 TTATATGAAAATTATGTATTATAAT
1 TTATAT-AAAA-TAT-TA--ATAAT
13472460 TTATAT
1 TTATAT
13472466 TAACATAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
20 19 0.47
21 10 0.25
22 1 0.03
25 10 0.25
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (20 bp):
TTATATAAAATATTAATAAT
Found at i:13472546 original size:15 final size:13
Alignment explanation
Indices: 13472520--13472544 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13472510 TCATATTATC
13472520 TTCGTATATTTTA
1 TTCGTATATTTTA
13472533 TTCGTATATTTT
1 TTCGTATATTTT
13472545 TTTATCGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.08, G:0.08, T:0.64
Consensus pattern (13 bp):
TTCGTATATTTTA
Found at i:13473170 original size:21 final size:21
Alignment explanation
Indices: 13473129--13473171 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
13473119 TAAAATTATA
* **
13473129 ATTTTTTATTTAGTTTGGATT
1 ATTTTTTATTTAATTCAGATT
13473150 ATTTTTTATTTAATTCAGATT
1 ATTTTTTATTTAATTCAGATT
13473171 A
1 A
13473172 AAATTAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.63
Consensus pattern (21 bp):
ATTTTTTATTTAATTCAGATT
Found at i:13473411 original size:14 final size:13
Alignment explanation
Indices: 13473365--13473421 Score: 55
Period size: 14 Copynumber: 4.2 Consensus size: 13
13473355 AACATTTATA
*
13473365 AAATTAAATTAA-
1 AAATTAATTTAAT
13473377 AAATTAA-TTAATT
1 AAATTAATTTAA-T
13473390 AAATTTAATTTCAAT
1 AAA-TTAATTT-AAT
13473405 AAATTAATTTTAAT
1 AAATTAA-TTTAAT
13473419 AAA
1 AAA
13473422 AAAATAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
11 4 0.10
12 7 0.18
13 3 0.08
14 14 0.36
15 9 0.23
16 2 0.05
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (13 bp):
AAATTAATTTAAT
Found at i:13473785 original size:17 final size:16
Alignment explanation
Indices: 13473729--13473822 Score: 79
Period size: 17 Copynumber: 5.8 Consensus size: 16
13473719 TATTTGATAA
*
13473729 AAATTTAAAT-TATTT
1 AAATTAAAATATATTT
13473744 AAATTAAAATAT-TTT
1 AAATTAAAATATATTT
13473759 ATTAATTAAAATATATTT
1 A--AATTAAAATATATTT
* *
13473777 AAATATAAAATTTAATT
1 AAAT-TAAAATATATTT
*
13473794 AAATTCATAAAT-TATTC
1 AAATT-A-AAATATATTT
13473811 AAA-TAAAATATA
1 AAATTAAAATATA
13473823 AAATACTTAA
Statistics
Matches: 66, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
14 4 0.06
15 16 0.24
16 6 0.09
17 32 0.48
18 8 0.12
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATTAAAATATATTT
Found at i:13483428 original size:23 final size:23
Alignment explanation
Indices: 13483402--13483452 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
13483392 CATAATCAAA
*
13483402 TATTAAATTAATATA-TAAAAAAT
1 TATTAAA-TAATAAATTAAAAAAT
*
13483425 TATTAAATAATAAATTAAAATAT
1 TATTAAATAATAAATTAAAAAAT
13483448 TATTA
1 TATTA
13483453 TACAAATTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
TATTAAATAATAAATTAAAAAAT
Found at i:13483810 original size:22 final size:22
Alignment explanation
Indices: 13483774--13483818 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
13483764 TAAAAAAATT
13483774 ATTTTAATGTATTTA-ATATTAA
1 ATTTTAATGTATTTATA-ATTAA
* *
13483796 ATTTTAATTTTTTTATAATTAA
1 ATTTTAATGTATTTATAATTAA
13483818 A
1 A
13483819 AAAATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTTTAATGTATTTATAATTAA
Found at i:13484451 original size:6 final size:6
Alignment explanation
Indices: 13484440--13484482 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
13484430 TTATCTCTTT
* *
13484440 TGTCTC TGTCTC TGTCTC TGTCTC TGTCTC TATCTT TGTCTC T
1 TGTCTC TGTCTC TGTCTC TGTCTC TGTCTC TGTCTC TGTCTC T
13484483 ATTTCTGGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.02, C:0.30, G:0.14, T:0.53
Consensus pattern (6 bp):
TGTCTC
Found at i:13484483 original size:12 final size:12
Alignment explanation
Indices: 13484440--13484489 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
13484430 TTATCTCTTT
*
13484440 TGTCTCTGTCTC
1 TGTCTCTATCTC
*
13484452 TGTCTCTGTCTC
1 TGTCTCTATCTC
*
13484464 TGTCTCTATCTT
1 TGTCTCTATCTC
*
13484476 TGTCTCTATTTC
1 TGTCTCTATCTC
13484488 TG
1 TG
13484490 GATCTGAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.04, C:0.28, G:0.14, T:0.54
Consensus pattern (12 bp):
TGTCTCTATCTC
Found at i:13491343 original size:90 final size:91
Alignment explanation
Indices: 13491204--13491383 Score: 247
Period size: 90 Copynumber: 2.0 Consensus size: 91
13491194 TGTAGTCAAA
13491204 ATTGTCAACGGTATTACACAAACAAAAAGGTGAAAAATTCCAGAAATATCAATGTTAATAAAAAG
1 ATTGTCAACGGTATTACACAAACAAAAAGGTGAAAAATTCCAGAAATATCAATGTTAATAAAAAG
13491269 TTTCAAATTGCAGAATTAGGAGAGGC
66 TTTCAAATTGCAGAATTAGGAGAGGC
* * * * * * *
13491295 ATTGTCCACTGTATTACACACA-AAAAAGGTGAAATATTCCA-AGGATATCAGTTTTAATAAAAA
1 ATTGTCAACGGTATTACACAAACAAAAAGGTGAAAAATTCCAGA-AATATCAATGTTAATAAAAA
* * *
13491358 GTTTTAAATTGCAGATTTGGGAGAGG
65 GTTTCAAATTGCAGAATTAGGAGAGG
13491384 GATAAGATAC
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
89 1 0.01
90 58 0.74
91 19 0.24
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (91 bp):
ATTGTCAACGGTATTACACAAACAAAAAGGTGAAAAATTCCAGAAATATCAATGTTAATAAAAAG
TTTCAAATTGCAGAATTAGGAGAGGC
Found at i:13493962 original size:18 final size:18
Alignment explanation
Indices: 13493941--13493975 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13493931 TAATATTTAT
*
13493941 AAAATTAATAACTTATTA
1 AAAATTAATAAATTATTA
*
13493959 AAAATTATTAAATTATT
1 AAAATTAATAAATTATT
13493976 TTTTATCAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATTAATAAATTATTA
Found at i:13495986 original size:20 final size:21
Alignment explanation
Indices: 13495949--13495999 Score: 95
Period size: 20 Copynumber: 2.5 Consensus size: 21
13495939 CCTGAAATTA
13495949 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
13495970 ATAAAATATTA-TTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
13495990 ATAAAATATT
1 ATAAAATATT
13496000 TAAAAATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:13496003 original size:15 final size:16
Alignment explanation
Indices: 13495983--13496025 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
13495973 AAATATTATT
13495983 TTTAAATATA-AAATA
1 TTTAAATATATAAATA
* *
13495998 TTTAAAAATATAATTA
1 TTTAAATATATAAATA
*
13496014 TATAAATATATA
1 TTTAAATATATA
13496026 TAAATAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTAAATATATAAATA
Found at i:13496029 original size:26 final size:26
Alignment explanation
Indices: 13495988--13496047 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
13495978 TTATTTTTAA
*
13495988 ATATAAA-ATATTTAAA-AATATAATT
1 ATATAAATATATATAAATAAT-TAATT
13496013 ATATAAATATATATAAATAATTAATT
1 ATATAAATATATATAAATAATTAATT
13496039 A-ACTAAATA
1 ATA-TAAATA
13496048 ATTAATTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
25 8 0.26
26 20 0.65
27 3 0.10
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
ATATAAATATATATAAATAATTAATT
Found at i:13496047 original size:16 final size:15
Alignment explanation
Indices: 13496025--13496064 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
13496015 ATAAATATAT
13496025 ATAAATAATTAATTA
1 ATAAATAATTAATTA
13496040 ACTAAATAATTAATTA
1 A-TAAATAATTAATTA
13496056 A-AAATAATT
1 ATAAATAATT
13496065 TTTTATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.33
15 1 0.04
16 15 0.62
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAATAATTAATTA
Found at i:13497742 original size:24 final size:24
Alignment explanation
Indices: 13497710--13497755 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
13497700 AATGTCATTA
13497710 ACATCTTCAATGCCATAGCCATCG
1 ACATCTTCAATGCCATAGCCATCG
* *
13497734 ACATCTTCAATTCCATGGCCAT
1 ACATCTTCAATGCCATAGCCAT
13497756 TGAGTTAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.11, T:0.28
Consensus pattern (24 bp):
ACATCTTCAATGCCATAGCCATCG
Found at i:13503736 original size:13 final size:13
Alignment explanation
Indices: 13503690--13503748 Score: 57
Period size: 13 Copynumber: 4.4 Consensus size: 13
13503680 TTTTTTAATT
13503690 AAAATAATTTTTA
1 AAAATAATTTTTA
*
13503703 AAATTTAATTTATT-
1 AAA-ATAATTT-TTA
* *
13503717 TATATAATTTTTA
1 AAAATAATTTTTA
13503730 AAAATAATTTTTA
1 AAAATAATTTTTA
13503743 ATAAAT
1 A-AAAT
13503749 TTTAAATTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
12 2 0.06
13 21 0.58
14 11 0.31
15 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
AAAATAATTTTTA
Found at i:13504492 original size:32 final size:32
Alignment explanation
Indices: 13504426--13504499 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
13504416 TAAATTTGAT
* *
13504426 AATTAATATATTTATATCATATAAAATATTAA
1 AATTTATATATTTATATCATATAAAATATAAA
* ***
13504458 AATTTATATATTTATATTATATTTTATATAAA
1 AATTTATATATTTATATCATATAAAATATAAA
13504490 AA-TTATATAT
1 AATTTATATAT
13504500 CATAATTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 8 0.22
32 28 0.78
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (32 bp):
AATTTATATATTTATATCATATAAAATATAAA
Found at i:13510600 original size:2 final size:2
Alignment explanation
Indices: 13510595--13510620 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13510585 AACAAAAAAA
13510595 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
13510621 TAATACCCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13510835 original size:22 final size:22
Alignment explanation
Indices: 13510806--13510882 Score: 82
Period size: 25 Copynumber: 3.3 Consensus size: 22
13510796 AATATATTTT
13510806 TTATTTTATTAAATTTAATTATA
1 TTATTTTA-TAAATTTAATTATA
*
13510829 TTATTTAATAAAAATTTAAATTATA
1 TTATTT--TATAAATTT-AATTATA
** *
13510854 TTATTTTATATTTTTATTTATA
1 TTATTTTATAAATTTAATTATA
13510876 TTATTTT
1 TTATTTT
13510883 TAATCATATC
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
22 13 0.28
23 12 0.26
24 6 0.13
25 15 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTATTTTATAAATTTAATTATA
Done.