Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004593.1 Hibiscus syriacus cultivar Beakdansim tig00010263_pilon, 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: 1592963
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 7
Found at i:711758 original size:16 final size:18
Alignment explanation
Indices: 711739--711771 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
711729 CCATGGAAGG
711739 TTTATTT-TTAA-ATTTA
1 TTTATTTATTAATATTTA
711755 TTTATTTATTAATATTT
1 TTTATTTATTAATATTT
711772 TAATTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTATTTATTAATATTTA
Found at i:712033 original size:17 final size:17
Alignment explanation
Indices: 712008--712050 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
711998 AATTTTTAAG
712008 TTAAA-TAAAAAATATT
1 TTAAATTAAAAAATATT
712024 TTAAATTAAAAAATATT
1 TTAAATTAAAAAATATT
712041 TTAAATTAAA
1 TTAAATTAAA
712051 CTTAAATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.19
17 21 0.81
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TTAAATTAAAAAATATT
Found at i:712515 original size:27 final size:27
Alignment explanation
Indices: 712475--712543 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 27
712465 AAAATGTATC
* * *
712475 ATACTTAAAATATTTTGGTCAAAATAG
1 ATACATAAAGTATTTTGGTCAAAAAAG
* *
712502 GTACATAAAGTATTTTTTGTCAAAAAAG
1 ATACATAAAGTA-TTTTGGTCAAAAAAG
*
712530 ATACCTAAAGTATT
1 ATACATAAAGTATT
712544 CGATCCTTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
27 11 0.32
28 23 0.68
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (27 bp):
ATACATAAAGTATTTTGGTCAAAAAAG
Found at i:712525 original size:28 final size:28
Alignment explanation
Indices: 712487--712543 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
712477 ACTTAAAATA
* *
712487 TTTTGGTCAAAATAGGTACATAAAGTAT
1 TTTTGGTCAAAAAAGATACATAAAGTAT
* *
712515 TTTTTGTCAAAAAAGATACCTAAAGTAT
1 TTTTGGTCAAAAAAGATACATAAAGTAT
712543 T
1 T
712544 CGATCCTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (28 bp):
TTTTGGTCAAAAAAGATACATAAAGTAT
Found at i:712693 original size:29 final size:31
Alignment explanation
Indices: 712624--712693 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
712614 TAAAAAAATT
*
712624 GAATACTTTAGATACCTATTTTGACCAAAAA
1 GAATACTTTAGATACCTATTTAGACCAAAAA
**
712655 GAATACTTTAGATATTTATTTAGA-CAAAAA
1 GAATACTTTAGATACCTATTTAGACCAAAAA
712685 -AATACTTTA
1 GAATACTTTA
712694 ATTACTTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 9 0.25
30 6 0.17
31 21 0.58
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (31 bp):
GAATACTTTAGATACCTATTTAGACCAAAAA
Found at i:714414 original size:17 final size:18
Alignment explanation
Indices: 714381--714415 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
714371 TACCACTTGA
*
714381 ACAAACCCTATTGATGAT
1 ACAAACCCTAATGATGAT
714399 ACAAACCC-AATGATGAT
1 ACAAACCCTAATGATGAT
714416 GCATTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.43, C:0.23, G:0.11, T:0.23
Consensus pattern (18 bp):
ACAAACCCTAATGATGAT
Found at i:724068 original size:16 final size:17
Alignment explanation
Indices: 724040--724074 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
724030 AAGACTTTCC
724040 GAGTAACTTTAATTATA
1 GAGTAACTTTAATTATA
*
724057 GAGTAA-TTTAATTTTA
1 GAGTAACTTTAATTATA
724073 GA
1 GA
724075 ATAAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.40, C:0.03, G:0.14, T:0.43
Consensus pattern (17 bp):
GAGTAACTTTAATTATA
Found at i:725243 original size:14 final size:14
Alignment explanation
Indices: 725224--725253 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
725214 CAACTAACTG
725224 TTAGTAACAGTTAA
1 TTAGTAACAGTTAA
*
725238 TTAGTAACATTTAA
1 TTAGTAACAGTTAA
725252 TT
1 TT
725254 TTTTCTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (14 bp):
TTAGTAACAGTTAA
Found at i:729238 original size:30 final size:30
Alignment explanation
Indices: 729189--729248 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
729179 AGTATGTGAG
* *
729189 GTATATTATTCTTTTATTTAAATATTTAAA
1 GTATATAATTCTTTTATTTAAATACTTAAA
*
729219 GTATATAATT-TTTTAATTTAGATACTTAAA
1 GTATATAATTCTTTT-ATTTAAATACTTAAA
729249 TAAAAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.53
Consensus pattern (30 bp):
GTATATAATTCTTTTATTTAAATACTTAAA
Found at i:734124 original size:29 final size:27
Alignment explanation
Indices: 734071--734131 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
734061 AAAATTTTAC
*
734071 TATACGTATAAATCATAATAGTATAAA
1 TATACGTATAAATCATAATAATATAAA
*
734098 TATACGATATGAAAT-ATATATAATATATA
1 TATACG-TAT-AAATCATA-ATAATATAAA
734127 TATAC
1 TATAC
734132 CCCGAATTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 6 0.21
28 6 0.21
29 17 0.59
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.36
Consensus pattern (27 bp):
TATACGTATAAATCATAATAATATAAA
Found at i:744351 original size:10 final size:10
Alignment explanation
Indices: 744332--744406 Score: 73
Period size: 10 Copynumber: 7.6 Consensus size: 10
744322 GGTAAAGGTT
744332 TAAAAAAAAA
1 TAAAAAAAAA
*
744342 -AAATAAAAA
1 TAAAAAAAAA
*
744351 -AAAAAAAAC
1 TAAAAAAAAA
*
744360 TAAATAAAAA
1 TAAAAAAAAA
* *
744370 TACATAATAAA
1 TA-AAAAAAAA
*
744381 TAAAAATAAA
1 TAAAAAAAAA
744391 TAAAAAAAAA
1 TAAAAAAAAA
744401 TAAAAA
1 TAAAAA
744407 TGTATGTATA
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
9 15 0.28
10 31 0.58
11 7 0.13
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.15
Consensus pattern (10 bp):
TAAAAAAAAA
Found at i:744466 original size:24 final size:24
Alignment explanation
Indices: 744439--744517 Score: 56
Period size: 26 Copynumber: 3.1 Consensus size: 24
744429 AAATAGTAAC
744439 AATAATAATAAATAAATGAAAAAT
1 AATAATAATAAATAAATGAAAAAT
*
744463 AAT-ATACATATAATATAACTAAAAAAT
1 AATAATA-ATA-AATA-AA-TGAAAAAT
744490 -ATAGAT-ATAAAATAAAAATGAAAAAT
1 AATA-ATAAT-AAAT--AAATGAAAAAT
744516 AA
1 AA
744518 ATATATATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 17
0.69 0.03 0.27
Matches are distributed among these distances:
23 3 0.07
24 6 0.14
25 4 0.09
26 16 0.37
27 11 0.26
28 3 0.07
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.25
Consensus pattern (24 bp):
AATAATAATAAATAAATGAAAAAT
Found at i:744475 original size:26 final size:26
Alignment explanation
Indices: 744446--744529 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 26
744436 AACAATAATA
744446 ATAAATAAATGAAAAATAATATACAT
1 ATAAATAAATGAAAAATAATATACAT
* *
744472 ATAATATAACT--AAAA-AATATAGAT
1 ATAA-ATAAATGAAAAATAATATACAT
*
744496 ATAAAATAAAAATGAAAAATAAATATATAT
1 AT-AAAT--AAATGAAAAAT-AATATACAT
744526 ATAA
1 ATAA
744530 CGTAGGAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
24 12 0.26
25 6 0.13
26 7 0.15
27 5 0.11
28 4 0.09
29 2 0.04
30 10 0.22
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (26 bp):
ATAAATAAATGAAAAATAATATACAT
Found at i:744521 original size:24 final size:26
Alignment explanation
Indices: 744449--744522 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 26
744439 AATAATAATA
*
744449 AATAAATGAAAAAT-AATATACATAT
1 AATAAATGAAAAATAAATATACAAAT
*
744474 AATATAACTAAAAAATATAGATATA-AAAT
1 AATA-AA-TGAAAAATA-A-ATATACAAAT
744503 AA-AAATGAAAAATAAATATA
1 AATAAATGAAAAATAAATATA
744523 TATATAACGT
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
24 5 0.12
25 5 0.12
26 10 0.24
27 9 0.22
28 1 0.02
29 6 0.15
30 5 0.12
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.26
Consensus pattern (26 bp):
AATAAATGAAAAATAAATATACAAAT
Found at i:744619 original size:15 final size:13
Alignment explanation
Indices: 744594--744658 Score: 62
Period size: 15 Copynumber: 4.8 Consensus size: 13
744584 ATAATAATAT
*
744594 AAAATAATATAGAA
1 AAAAAAATATA-AA
744608 AAAGAAAATATAAA
1 AAA-AAAATATAAA
744622 AAAAAAA-A-AAA
1 AAAAAAATATAAA
*
744633 AATAAAATATAAA
1 AAAAAAATATAAA
744646 TAAATAAAATATA
1 -AAA-AAAATATA
744659 TATATATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
11 9 0.21
12 2 0.05
13 7 0.16
14 10 0.23
15 15 0.35
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.18
Consensus pattern (13 bp):
AAAAAAATATAAA
Found at i:744632 original size:17 final size:17
Alignment explanation
Indices: 744606--744639 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
744596 AATAATATAG
* *
744606 AAAAAGAAAATATAAAA
1 AAAAAAAAAAAATAAAA
744623 AAAAAAAAAAAATAAAA
1 AAAAAAAAAAAATAAAA
744640 TATAAATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.09
Consensus pattern (17 bp):
AAAAAAAAAAAATAAAA
Found at i:744639 original size:24 final size:24
Alignment explanation
Indices: 744606--744654 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
744596 AATAATATAG
744606 AAAAAGAAAATATAAAAAAAAAAA
1 AAAAAGAAAATATAAAAAAAAAAA
* * *
744630 AAAAATAAAATATAAATAAATAAA
1 AAAAAGAAAATATAAAAAAAAAAA
744654 A
1 A
744655 TATATATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.84, C:0.00, G:0.02, T:0.14
Consensus pattern (24 bp):
AAAAAGAAAATATAAAAAAAAAAA
Found at i:744640 original size:5 final size:5
Alignment explanation
Indices: 744557--744656 Score: 52
Period size: 5 Copynumber: 20.4 Consensus size: 5
744547 AAAAACATAG
* * * * *
744557 TAAAA TAGAA -AAAA TATAA TAAGATA TATAA TAATA TAAAA TAATA TAGAAA
1 TAAAA TAAAA TAAAA TAAAA TAA-A-A TAAAA TAAAA TAAAA TAAAA TA-AAA
*
744609 -AAGAA -AATA TAAAA -AAAA -AAAA -AAAA TAAAA TATAAA T-AAA TAAAA
1 TAA-AA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TA-AAA TAAAA TAAAA
744655 TA
1 TA
744657 TATATATATA
Statistics
Matches: 74, Mismatches: 12, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
4 21 0.28
5 42 0.57
6 8 0.11
7 3 0.04
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:744661 original size:2 final size:2
Alignment explanation
Indices: 744654--744697 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
744644 AATAAATAAA
*
744654 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
744695 AT A
1 AT A
744698 AATAAGGGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:745130 original size:37 final size:37
Alignment explanation
Indices: 745089--745169 Score: 90
Period size: 37 Copynumber: 2.2 Consensus size: 37
745079 GAATCATATC
* * *
745089 TTTAGGAATTTAAATAATAGTAGAACTCTATCCTATT
1 TTTAGGAATTTAAATAATAGCAAAACTATATCCTATT
* * ** *
745126 TTTAGGAGTTTGAATCCTAGCAAAATTATATCCTATT
1 TTTAGGAATTTAAATAATAGCAAAACTATATCCTATT
745163 TTTAGGA
1 TTTAGGA
745170 GTATGAATCC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.41
Consensus pattern (37 bp):
TTTAGGAATTTAAATAATAGCAAAACTATATCCTATT
Found at i:746177 original size:101 final size:104
Alignment explanation
Indices: 745902--746346 Score: 656
Period size: 104 Copynumber: 4.3 Consensus size: 104
745892 GCATTGTTCA
* * ** *
745902 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGAATCTGA-A-T--GAAATT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
745962 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
746001 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAA
1 -GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAA
*
746066 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCT
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
746106 G-GTCCAATATCC-TCGTTGTG-AGTTGAAATTGGCTCTGCGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
746168 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
746207 GAAGTCC-ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAA
1 G-AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAA
*
746271 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCT
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
746311 CGAGTACCACGATATCCTCCGTCGTGGAGTTGAAAT
1 -GAGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
746347 CGCGGATGGC
Statistics
Matches: 316, Mismatches: 15, Indels: 20
0.90 0.04 0.06
Matches are distributed among these distances:
100 37 0.12
101 81 0.26
102 15 0.05
103 23 0.07
104 86 0.27
105 52 0.16
108 22 0.07
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (104 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
Found at i:747098 original size:65 final size:65
Alignment explanation
Indices: 746913--747389 Score: 280
Period size: 65 Copynumber: 7.1 Consensus size: 65
746903 GAAGAGATAG
* * * *
746913 AATTCGTTTCAAGGGAAAT-GATCTCAAAGATATATGTTGTTTCATGAGAAACGGTCTCAAG-GA
1 AATTTGTTTCAAGGGAAATAAAT-TCAAAG--AT-T-TTGTTTCAAGAGAAACTGTCTCAAGAGA
* *
746976 AACAA
61 GACGA
* * * *
746981 AATTATGTTTTAAGGGAAA-AAA-T-GAAGATTTTGTGTTTCAAGAGTAACTGTCTCAAGGGAGA
1 AATT-TGTTTCAAGGGAAATAAATTCAAAGA-TTT-TGTTTCAAGAGAAACTGTCTCAAGAGAGA
747043 CGA
63 CGA
* * * *
747046 AATTTGTTTTAGGGGAAATAAATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGATAGACGA
1 AATTTGTTTCAAGGGAAATAAATTCAAAGATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGA
* ** * * * *
747111 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA-ACTTAGTTCCAAAAGAAACTGTCTCAA
1 AATTTGTTTCAAGGGAAA-----T--A-A-ATTCAAAGATTTTGTTTCAAGAGAAACTGTCTCAA
747175 -AGGAGACGA
57 GA-GAGACGA
* * * * * *
747184 AATTTGTTTCAAAGAAAACATATTCAAATATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC-A
1 AATTTGTTTCAAGGGAAATAAATTCAAAGATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGA
* * * * *
747248 AATTTATTTCAAGAGAAACT--GTCTCAAGAGACAAATTTTGTTTCAAGGGAAACTATCTC-A-A
1 AATTTGTTTCAAGGGAAA-TAAAT-TCAA-AG----ATTTTGTTTCAAGAGAAACTGTCTCAAGA
747309 GAGACGA
59 GAGACGA
* *** *
747316 AATTTATTTCAAGGGAAATGTTTTCAATG-TTTATGTTTCAAGAGAAACTGTCTCAAGAGAGAC-
1 AATTTGTTTCAAGGGAAATAAATTCAAAGATTT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACG
747379 A
65 A
747380 AATCTTGTTT
1 AAT-TTGTTT
747390 TAAGAAAAAC
Statistics
Matches: 323, Mismatches: 52, Indels: 71
0.72 0.12 0.16
Matches are distributed among these distances:
62 3 0.01
63 21 0.07
64 65 0.20
65 95 0.29
66 9 0.03
67 13 0.04
68 27 0.08
69 38 0.12
70 1 0.00
72 2 0.01
73 44 0.14
74 5 0.02
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.30
Consensus pattern (65 bp):
AATTTGTTTCAAGGGAAATAAATTCAAAGATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGA
Found at i:747129 original size:36 final size:35
Alignment explanation
Indices: 747077--747399 Score: 220
Period size: 36 Copynumber: 9.5 Consensus size: 35
747067 ATTCAAAGAT
* *
747077 TTTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAA
747113 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAA
* * *
747149 CTTAGTTCCAAAAGAAACTGTCTCAA-AGGAGACGAAA
1 -TTTGTTTCAAGAGAAACTGTCTCAAGA-GAGAC-AAA
* * *
747186 TTTGTTTCAA-AGAAAACATAT-TC---A-A-A-TAT
1 TTTGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAA
*
747215 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA
*
747250 TTTATTTCAAGAGAAACTGTCTC-A-AGAGACAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA
* *
747283 TTTTGTTTCAAGGGAAACTATCTC-A-AGAGACGAAA
1 -TTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAA
* * * * *
747318 TTTATTTCAAGGGAAA-TGTTTTC-A-A-TG----T
1 TTTGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAA
747346 TTATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA
1 TT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA
* *
747382 TCTTGTTTTAAGAAAAAC
1 T-TTGTTTCAAGAGAAAC
747400 AATCATGAGT
Statistics
Matches: 229, Mismatches: 33, Indels: 50
0.73 0.11 0.16
Matches are distributed among these distances:
28 4 0.02
29 32 0.14
30 4 0.02
31 2 0.01
32 3 0.01
33 12 0.05
34 50 0.22
35 27 0.12
36 62 0.27
37 33 0.14
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (35 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA
Found at i:747174 original size:37 final size:36
Alignment explanation
Indices: 747089--747200 Score: 120
Period size: 37 Copynumber: 3.1 Consensus size: 36
747079 TGTTTCAAGG
* * * * *
747089 GAAACTGTCTCAAGATAGACGAAATTTGTTTCAAGA
1 GAAACTGTCTCAAGAGAGACAAAATTAGTTCCAAAA
747125 GAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAA
1 GAAACTGTCTCAAGAGAGACAAAA-TTAGTTCCAAAA
* * *
747162 GAAACTGTCTCAA-AGGAGACGAAATTTGTTTC-AAA
1 GAAACTGTCTCAAGA-GAGACAAAATTAGTTCCAAAA
747197 GAAA
1 GAAA
747201 ACATATTCAA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
35 7 0.11
36 29 0.44
37 30 0.45
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.23
Consensus pattern (36 bp):
GAAACTGTCTCAAGAGAGACAAAATTAGTTCCAAAA
Found at i:747232 original size:102 final size:98
Alignment explanation
Indices: 747113--747293 Score: 274
Period size: 102 Copynumber: 1.8 Consensus size: 98
747103 ATAGACGAAA
747113 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAAGG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAACTTA-TTCCAAAAGAAACTGTCTC-AA-G
747178 AGACGAAA-TTTGTTTCAAAGAAAACATATTCAAATAT
62 AGAC-AAATTTTGTTTCAAAGAAAACATATTCAAATAT
* * * *
747215 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAATTTATTTCAAGAGAAACTGTCTCAAGAGAC
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAACTTATTCCAAAAGAAACTGTCTCAAGAGAC
747280 AAATTTTGTTTCAA
66 AAATTTTGTTTCAA
747294 GGGAAACTAT
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
97 3 0.04
98 15 0.20
99 2 0.03
100 17 0.23
101 6 0.08
102 31 0.42
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (98 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAACTTATTCCAAAAGAAACTGTCTCAAGAGAC
AAATTTTGTTTCAAAGAAAACATATTCAAATAT
Found at i:747300 original size:34 final size:34
Alignment explanation
Indices: 747077--747333 Score: 224
Period size: 36 Copynumber: 7.5 Consensus size: 34
747067 ATTCAAAGAT
747077 TTTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAG--AGACGAAA
* *
747113 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTC-A-AGAGACGAAA
* * **
747149 CTTAGTTCCAAAAGAAACTGTCTCAAAGGAGACGAAA
1 -TTTGTTTCAAGGGAAACTGTCTC-AA-GAGACGAAA
* * * * *
747186 TTTGTTTCAAAGAAAACATAT-TC-A-A-A--TAT
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGAGACGAAA
747215 TTTGTTTCAAGGGAAACTGTCTCAAGAGA-GACAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGACG--AAA
* *
747250 TTTATTTCAAGAGAAACTGTCTCAAGAGAC-AAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGACGAAA
*
747283 TTTTGTTTCAAGGGAAACTATCTCAAGAGACGAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGACGAAA
*
747318 TTTATTTCAAGGGAAA
1 TTTGTTTCAAGGGAAA
747334 TGTTTTCAAT
Statistics
Matches: 182, Mismatches: 24, Indels: 32
0.76 0.10 0.13
Matches are distributed among these distances:
28 2 0.01
29 18 0.10
30 1 0.01
31 2 0.01
32 2 0.01
33 3 0.02
34 43 0.24
35 31 0.17
36 45 0.25
37 33 0.18
38 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (34 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGACGAAA
Found at i:748970 original size:29 final size:30
Alignment explanation
Indices: 748925--748981 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
748915 TTTTTTATCC
*
748925 CTTTTTCTTTTTTCTTTTTGTTATTTTTTG
1 CTTTTTCTTTTTGCTTTTTGTTATTTTTTG
* *
748955 CTTTTT-TTTTTGCTTTTTTTTCTTTTT
1 CTTTTTCTTTTTGCTTTTTGTTATTTTT
748982 GCCCTTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.02, C:0.11, G:0.05, T:0.82
Consensus pattern (30 bp):
CTTTTTCTTTTTGCTTTTTGTTATTTTTTG
Found at i:748990 original size:18 final size:16
Alignment explanation
Indices: 748926--748983 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
748916 TTTTTATCCC
*
748926 TTTTTCTTTTTTCTTT
1 TTTTTCTTTTTGCTTT
748942 TTGTTAT-TTTTTGC---
1 TT-TT-TCTTTTTGCTTT
748956 TTTTT-TTTTTGCTTT
1 TTTTTCTTTTTGCTTT
748971 TTTTTCTTTTTGC
1 TTTTTCTTTTTGC
748984 CCTTTTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
12 8 0.23
13 2 0.06
14 2 0.06
15 5 0.14
16 9 0.26
17 8 0.23
18 1 0.03
ACGTcount: A:0.02, C:0.10, G:0.07, T:0.81
Consensus pattern (16 bp):
TTTTTCTTTTTGCTTT
Found at i:750171 original size:8 final size:8
Alignment explanation
Indices: 750155--750193 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
750145 ATTGTAGATG
750155 AAAATGCA
1 AAAATGCA
*
750163 AAAAGGCA
1 AAAATGCA
750171 AAAATGC-
1 AAAATGCA
750178 AAAATGCA
1 AAAATGCA
*
750186 AGAATGCA
1 AAAATGCA
750194 TGAAATGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (8 bp):
AAAATGCA
Found at i:750181 original size:15 final size:15
Alignment explanation
Indices: 750155--750193 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
750145 ATTGTAGATG
750155 AAAATGCAAAAAGGCA
1 AAAATGC-AAAAGGCA
*
750171 AAAATGCAAAATGCA
1 AAAATGCAAAAGGCA
*
750186 AGAATGCA
1 AAAATGCA
750194 TGAAATGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (15 bp):
AAAATGCAAAAGGCA
Found at i:752878 original size:28 final size:25
Alignment explanation
Indices: 752847--752902 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 25
752837 ACACATAATG
752847 AAAATAAATAAATAGTATAATAAA-ATAA
1 AAAATAAA-AAA-A-TATAA-AAATATAA
752875 AAAATAAAAAAATATAAAAATATAA
1 AAAATAAAAAAATATAAAAATATAA
752900 AAA
1 AAA
752903 TGTATGTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 3 0.11
25 12 0.44
26 1 0.04
27 3 0.11
28 8 0.30
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (25 bp):
AAAATAAAAAAATATAAAAATATAA
Found at i:752894 original size:8 final size:8
Alignment explanation
Indices: 752868--752903 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
752858 ATAGTATAAT
752868 AAAATA-A
1 AAAATATA
*
752875 AAAATAAA
1 AAAATATA
752883 AAAATATA
1 AAAATATA
752891 AAAATATA
1 AAAATATA
752899 AAAAT
1 AAAAT
752904 GTATGTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (8 bp):
AAAATATA
Found at i:752895 original size:16 final size:15
Alignment explanation
Indices: 752863--752903 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
752853 AATAAATAGT
*
752863 ATAATAAAATAAAAA
1 ATAAAAAAATAAAAA
752878 ATAAAAAAATATAAAA
1 ATAAAAAAATA-AAAA
*
752894 ATATAAAAAT
1 ATAAAAAAAT
752904 GTATGTATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (15 bp):
ATAAAAAAATAAAAA
Found at i:753094 original size:2 final size:2
Alignment explanation
Indices: 753089--753113 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
753079 AGATAAAAAA
753089 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
753114 ATAATAGAAA
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:753185 original size:10 final size:10
Alignment explanation
Indices: 753153--753210 Score: 53
Period size: 12 Copynumber: 5.3 Consensus size: 10
753143 AAATGAAAAA
*
753153 ATAATAATAA
1 ATAATAATAT
*
753163 ATAAATAAAAT
1 AT-AATAATAT
753174 ATAATAATAT
1 ATAATAATAT
753184 ATATATATATAT
1 ATA-ATA-ATAT
753196 ATATATATATAT
1 ATA-ATA-ATAT
753208 ATA
1 ATA
753211 TTTATACATA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
10 12 0.29
11 11 0.26
12 19 0.45
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
ATAATAATAT
Found at i:753205 original size:8 final size:8
Alignment explanation
Indices: 753172--753228 Score: 73
Period size: 8 Copynumber: 7.4 Consensus size: 8
753162 AATAAATAAA
753172 ATATA-AT
1 ATATATAT
753179 A-ATATAT
1 ATATATAT
753186 ATATATAT
1 ATATATAT
753194 ATATATAT
1 ATATATAT
753202 ATATATAT
1 ATATATAT
* *
753210 ATTTATAC
1 ATATATAT
*
753218 ATATAAAT
1 ATATATAT
753226 ATA
1 ATA
753229 AGGGTTAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
6 3 0.07
7 4 0.09
8 36 0.84
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (8 bp):
ATATATAT
Found at i:753229 original size:6 final size:6
Alignment explanation
Indices: 753172--753228 Score: 73
Period size: 6 Copynumber: 9.8 Consensus size: 6
753162 AATAAATAAA
* *
753172 ATATA- ATA-AT ATATAT ATATAT ATATAT ATATAT ATATAT TTATAC
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
*
753218 ATATAA ATATA
1 ATATAT ATATA
753229 AGGGTTAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
4 1 0.02
5 6 0.13
6 39 0.85
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (6 bp):
ATATAT
Found at i:756041 original size:18 final size:17
Alignment explanation
Indices: 756004--756042 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
755994 AAGATAAAAT
* *
756004 TTATTTTAAAACAATGA
1 TTATTTAAAAACAATAA
756021 TTATTTAAAACACAATAA
1 TTATTTAAAA-ACAATAA
756039 TTAT
1 TTAT
756043 CTTTTATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (17 bp):
TTATTTAAAAACAATAA
Found at i:756146 original size:27 final size:27
Alignment explanation
Indices: 756114--756165 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
756104 ACCGATTCAA
756114 AGTTAATTAACCTAATGTATTGAAATT
1 AGTTAATTAACCTAATGTATTGAAATT
756141 AGTTAATTAACCTAATGTATTGAAA
1 AGTTAATTAACCTAATGTATTGAAA
756166 ATTTTCAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (27 bp):
AGTTAATTAACCTAATGTATTGAAATT
Found at i:762224 original size:21 final size:21
Alignment explanation
Indices: 762198--762250 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
762188 GTTTCCAGAT
*
762198 TCGCAACGCGAACATGGACTA
1 TCGCAACGCGAACATCGACTA
*
762219 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACATCGACTA
*
762240 TCGCAATGCGA
1 TCGCAACGCGA
762251 TTTTTCAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.30, G:0.23, T:0.17
Consensus pattern (21 bp):
TCGCAACGCGAACATCGACTA
Found at i:762288 original size:21 final size:21
Alignment explanation
Indices: 762262--762369 Score: 103
Period size: 21 Copynumber: 5.0 Consensus size: 21
762252 TTTTCAAATT
*
762262 CGTTGCGATAGTCCAAGTTCG
1 CGTTGCGATAGTCCAAATTCG
*
762283 CGTTGCGATAGTCGAAATTCG
1 CGTTGCGATAGTCCAAATTCG
* *
762304 TGTTGCGATTTATTCCAAATTCG
1 CGTTGCGA--TAGTCCAAATTCG
* *
762327 CGTTGTGATTTATTCCAAATT--
1 CGTTGCGA--TAGTCCAAATTCG
*
762348 CGTTGCGATAGTCCAAAATCG
1 CGTTGCGATAGTCCAAATTCG
762369 C
1 C
762370 AACGACTGGT
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
19 9 0.12
21 34 0.47
23 30 0.41
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.34
Consensus pattern (21 bp):
CGTTGCGATAGTCCAAATTCG
Found at i:762331 original size:23 final size:23
Alignment explanation
Indices: 762246--762356 Score: 98
Period size: 21 Copynumber: 5.3 Consensus size: 23
762236 ACTATCGCAA
762246 TGCGATTT-TT-CAAATT--CGT
1 TGCGATTTATTCCAAATTCGCGT
* *
762265 TGCGA--TAGTCCAAGTTCGCGT
1 TGCGATTTATTCCAAATTCGCGT
* * *
762286 TGCGA--TAGTCGAAATTCGTGT
1 TGCGATTTATTCCAAATTCGCGT
762307 TGCGATTTATTCCAAATTCGCGT
1 TGCGATTTATTCCAAATTCGCGT
*
762330 TGTGATTTATTCCAAATT--CGT
1 TGCGATTTATTCCAAATTCGCGT
762351 TGCGAT
1 TGCGAT
762357 AGTCCAAAAT
Statistics
Matches: 76, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
17 1 0.01
18 1 0.01
19 10 0.13
21 34 0.45
23 30 0.39
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.39
Consensus pattern (23 bp):
TGCGATTTATTCCAAATTCGCGT
Found at i:762353 original size:44 final size:43
Alignment explanation
Indices: 762246--762369 Score: 125
Period size: 44 Copynumber: 3.0 Consensus size: 43
762236 ACTATCGCAA
*
762246 TGCGATTT-TT-CAAATTCGTTGCGA-TAGTCCAAGTTCGCGT
1 TGCGATTTATTCCAAATTCGTTGCGATTAGTCCAAATTCGCGT
* * *
762286 TGCGA--TAGTCGAAATTCGTGTTGCGATTTATTCCAAATTCGCGT
1 TGCGATTTATTCCAAATTC--GTTGCGA-TTAGTCCAAATTCGCGT
* *
762330 TGTGATTTATTCCAAATTCGTTGCGA-TAGTCCAAAATCGC
1 TGCGATTTATTCCAAATTCGTTGCGATTAGTCCAAATTCGC
762370 AACGACTGGT
Statistics
Matches: 67, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 11 0.16
42 19 0.28
44 25 0.37
46 10 0.15
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.36
Consensus pattern (43 bp):
TGCGATTTATTCCAAATTCGTTGCGATTAGTCCAAATTCGCGT
Found at i:764756 original size:2 final size:2
Alignment explanation
Indices: 764749--764795 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
764739 TATTTACCTT
764749 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
764791 TA TA T
1 TA TA T
764796 TGTTATTCCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:767659 original size:60 final size:60
Alignment explanation
Indices: 767578--767695 Score: 157
Period size: 60 Copynumber: 2.0 Consensus size: 60
767568 TCATATGTCT
* * * * *
767578 CTAAACTATGACTTTTATTTTAAATTTA-TCTTTAAACTTTTGAATATTCTAATTTCATCC
1 CTAAACTATAACTTTCATTTTAAA-TTAGTCATTAAACTTTTAAACATTCTAATTTCATCC
* *
767638 CTAATCTATAACTTTCATTTTAAATTAGTCATTAAATTTTTAAACATTCTAATTTCAT
1 CTAAACTATAACTTTCATTTTAAATTAGTCATTAAACTTTTAAACATTCTAATTTCAT
767696 TCTCAAACTG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
59 3 0.06
60 47 0.94
ACGTcount: A:0.34, C:0.14, G:0.03, T:0.49
Consensus pattern (60 bp):
CTAAACTATAACTTTCATTTTAAATTAGTCATTAAACTTTTAAACATTCTAATTTCATCC
Found at i:769123 original size:21 final size:21
Alignment explanation
Indices: 769097--769146 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
769087 AGATAATTAA
769097 CATCTGGTACAAACAGAGAGG
1 CATCTGGTACAAACAGAGAGG
769118 CATCTGGTACAAACAGAGAGG
1 CATCTGGTACAAACAGAGAGG
769139 CATC-GGTA
1 CATCTGGTA
769147 AGGTTGATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.36, C:0.20, G:0.28, T:0.16
Consensus pattern (21 bp):
CATCTGGTACAAACAGAGAGG
Found at i:770150 original size:37 final size:36
Alignment explanation
Indices: 770091--770210 Score: 181
Period size: 35 Copynumber: 3.3 Consensus size: 36
770081 ATCCCATTAT
* *
770091 CATTTTTC-AACAAACATATACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
770127 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
770163 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
770198 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
770211 TTGGTTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
35 35 0.45
36 13 0.17
37 29 0.38
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:770166 original size:21 final size:21
Alignment explanation
Indices: 770142--770202 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
770132 TTCAAAGAAA
770142 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
770163 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
770177 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
770198 CATTT
1 CATTT
770203 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:770219 original size:35 final size:36
Alignment explanation
Indices: 770093--770237 Score: 142
Period size: 35 Copynumber: 4.1 Consensus size: 36
770083 CCCATTATCA
*
770093 TTTTTCAACA-AACA-TATACCAAACTTTGAAAAAC-T
1 TTTTTCAA-AGAACAGT-TACCAAACTTTGAAAACCAT
*
770128 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACCA-
1 -TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
*
770165 -TTTTCAAAGAAACATTTACCAAACTTTGAAAACCAT
1 TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
***
770201 TTTTTCAAAG-TTGGTTACCAAAC-TTGAAAACCAT
1 TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
770235 TTT
1 TTT
770238 AATACTTTCA
Statistics
Matches: 98, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
34 14 0.14
35 45 0.46
36 8 0.08
37 30 0.31
38 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.33
Consensus pattern (36 bp):
TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
Found at i:774711 original size:37 final size:36
Alignment explanation
Indices: 774664--774770 Score: 153
Period size: 35 Copynumber: 2.9 Consensus size: 36
774654 CAACAAACAT
*
774664 AACATCTACCAAACTTTGAAAAACTATTTTTCAAAAA
1 AACATTTACCAAACTTTG-AAAACTATTTTTCAAAAA
*
774701 AACATTTACCAAACTTTGAAAACTA-TTTTCAAAGA
1 AACATTTACCAAACTTTGAAAACTATTTTTCAAAAA
* *
774736 AACATTTATCAAACTTTGAAAACCATTTTTTCAAA
1 AACATTTACCAAACTTTGAAAACTA-TTTTTCAAA
774771 GTTAGTTACC
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
35 32 0.50
36 7 0.11
37 25 0.39
ACGTcount: A:0.46, C:0.18, G:0.04, T:0.33
Consensus pattern (36 bp):
AACATTTACCAAACTTTGAAAACTATTTTTCAAAAA
Found at i:774784 original size:35 final size:36
Alignment explanation
Indices: 774670--774798 Score: 124
Period size: 35 Copynumber: 3.6 Consensus size: 36
774660 ACATAACATC
* * *
774670 TACCAAACTTTGAAAAAC-TATTTTTCAAAAAAACATT
1 TACCAAACTTTGAAAACCAT-TTTTTC-AAAGAACAGT
* *
774707 TACCAAACTTTGAAAA-C-TATTTTCAAAGAAACATT
1 TACCAAACTTTGAAAACCATTTTTTCAAAG-AACAGT
* **
774742 TATCAAACTTTGAAAACCATTTTTTCAAAG-TTAGT
1 TACCAAACTTTGAAAACCATTTTTTCAAAGAACAGT
774777 TACCAAAC-TTGAAAACCATTTT
1 TACCAAACTTTGAAAACCATTTT
774799 AATACTTTCA
Statistics
Matches: 81, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
34 17 0.21
35 35 0.43
36 3 0.04
37 26 0.32
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.34
Consensus pattern (36 bp):
TACCAAACTTTGAAAACCATTTTTTCAAAGAACAGT
Found at i:776209 original size:2 final size:2
Alignment explanation
Indices: 776202--776239 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
776192 TAGCTTTTTA
*
776202 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
776240 AAAGATAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:777216 original size:2 final size:2
Alignment explanation
Indices: 777211--777240 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
777201 CTCCATCAAG
777211 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
777241 CTTTTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:785071 original size:22 final size:22
Alignment explanation
Indices: 785007--785119 Score: 93
Period size: 22 Copynumber: 5.1 Consensus size: 22
784997 CCTCTTAATA
* * * *
785007 GAATTATTCAACGATGAATGAT
1 GAATCATTCAGCGTTGAATGTT
* *
785029 GAATTATTCAACGTTGAATGTT
1 GAATCATTCAGCGTTGAATGTT
785051 GAATCATTCAGCGTTGAATGTT
1 GAATCATTCAGCGTTGAATGTT
* * * *
785073 AAACCGTTCAGTGTTGAATGTT
1 GAATCATTCAGCGTTGAATGTT
* * *
785095 GAA-CTGTTCAGCGCTGAATGCT
1 GAATC-ATTCAGCGTTGAATGTT
785117 GAA
1 GAA
785120 CCGTTCAACA
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
21 1 0.01
22 77 0.99
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.34
Consensus pattern (22 bp):
GAATCATTCAGCGTTGAATGTT
Found at i:785120 original size:22 final size:22
Alignment explanation
Indices: 785035--785126 Score: 112
Period size: 22 Copynumber: 4.2 Consensus size: 22
785025 TGATGAATTA
* * *
785035 TTCAACGTTGAATGTTGAATCA
1 TTCAGCGTTGAATGTTGAACCG
*
785057 TTCAGCGTTGAATGTTAAACCG
1 TTCAGCGTTGAATGTTGAACCG
* *
785079 TTCAGTGTTGAATGTTGAACTG
1 TTCAGCGTTGAATGTTGAACCG
* *
785101 TTCAGCGCTGAATGCTGAACCG
1 TTCAGCGTTGAATGTTGAACCG
785123 TTCA
1 TTCA
785127 ACATTCAGCG
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 59 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (22 bp):
TTCAGCGTTGAATGTTGAACCG
Found at i:786210 original size:57 final size:59
Alignment explanation
Indices: 786149--786278 Score: 171
Period size: 57 Copynumber: 2.2 Consensus size: 59
786139 ATATTAGGGT
*
786149 AAAGTATACAAATGGTTTTCCGACTATAGAGT-ATGTTTTGTTGAG-TCCC-ATATATTA
1 AAAGTATACAAATGGTTTTCCAACTATAGAGTGATGTTTTGTTGAGCTCCCGA-ATATTA
*
786206 AAAGT-TACAAAATGGTTTTTCAACTATAGAGTGATGTTTTGTTGAGTCTCCCGAATATTA
1 AAAGTATAC-AAATGGTTTTCCAACTATAGAGTGATGTTTTGTTGAG-CTCCCGAATATTA
786266 AAAGTTATA-AAAT
1 AAAG-TATACAAAT
786279 AGTCACCCGA
Statistics
Matches: 64, Mismatches: 2, Indels: 11
0.83 0.03 0.14
Matches are distributed among these distances:
56 3 0.05
57 26 0.41
58 13 0.20
60 18 0.28
61 2 0.03
62 2 0.03
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.38
Consensus pattern (59 bp):
AAAGTATACAAATGGTTTTCCAACTATAGAGTGATGTTTTGTTGAGCTCCCGAATATTA
Found at i:786292 original size:60 final size:57
Alignment explanation
Indices: 786168--786292 Score: 144
Period size: 60 Copynumber: 2.1 Consensus size: 57
786158 AAATGGTTTT
* ***
786168 CCGACTATAGAGTATGTTTTGTTGAGTCCCATATATTAAAAGTTACAAAATGGTTTT
1 CCGACTATAGAGTATGTTTTGTTGAGTCCCATATATTAAAAGTTACAAAATAGTCAC
* * *
786225 TCAACTATAGAGTGATGTTTTGTTGAGTCTCCCGA-ATATTAAAAGTTATAAAATAGTCAC
1 CCGACTATAGAGT-ATGTTTTGTTGAG--TCCC-ATATATTAAAAGTTACAAAATAGTCAC
786285 CCGACTAT
1 CCGACTAT
786293 TCATATGTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
57 11 0.20
58 13 0.24
60 30 0.55
61 1 0.02
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (57 bp):
CCGACTATAGAGTATGTTTTGTTGAGTCCCATATATTAAAAGTTACAAAATAGTCAC
Found at i:787162 original size:22 final size:23
Alignment explanation
Indices: 787136--787187 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
787126 GATTGACATT
787136 AATTAATACTA-ATATAGTA-TTA
1 AATTAATACTATATATA-TATTTA
*
787158 AATTAATATTATATATATATTTA
1 AATTAATACTATATATATATTTA
787181 AATTAAT
1 AATTAAT
787188 TTAAATTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
AATTAATACTATATATATATTTA
Found at i:787222 original size:33 final size:33
Alignment explanation
Indices: 787155--787215 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 33
787145 TAATATAGTA
787155 TTAAATTAATATTATATATATATTTAAATTAAT
1 TTAAATTAATATTATATATATATTTAAATTAAT
*
787188 TTAAATT-ATGTTA-ATATAT-TCTTAAATT
1 TTAAATTAATATTATATATATAT-TTAAATT
787216 TAAATTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 1 0.04
31 13 0.50
32 5 0.19
33 7 0.27
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (33 bp):
TTAAATTAATATTATATATATATTTAAATTAAT
Found at i:816101 original size:10 final size:9
Alignment explanation
Indices: 816075--816100 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
816065 ATTTTTAGTG
816075 ATTTTTTTA
1 ATTTTTTTA
816084 ATTTTTTTA
1 ATTTTTTTA
816093 ATTTTTTT
1 ATTTTTTT
816101 TTCAAATGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:823348 original size:16 final size:17
Alignment explanation
Indices: 823320--823351 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
823310 TAATTTTAAG
823320 ATTTTATTTAAAAAAAT
1 ATTTTATTTAAAAAAAT
823337 ATTTTA-TTAAAAAAA
1 ATTTTATTTAAAAAAA
823352 ACAGCCCACG
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTTTATTTAAAAAAAT
Found at i:823352 original size:17 final size:17
Alignment explanation
Indices: 823320--823352 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
823310 TAATTTTAAG
*
823320 ATTTTATTTAAAAAAAT
1 ATTTTATTAAAAAAAAT
823337 ATTTTATTAAAAAAAA
1 ATTTTATTAAAAAAAA
823353 CAGCCCACGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTTATTAAAAAAAAT
Found at i:834864 original size:91 final size:91
Alignment explanation
Indices: 834700--834870 Score: 245
Period size: 91 Copynumber: 1.9 Consensus size: 91
834690 TCATTGCATC
* **
834700 CCAAGGAAACAAGCACATCCAATTTTCAAGTCCAAAAGGATGACCAAATTGATGCCATACAATGT
1 CCAAGGAAACAAACACATCCAATTTTCAAGTCCAAAAGGATGACCAAATTGATGCCATACAACAT
834765 ACCGAGATCAAATTTCAAGATACACA
66 ACCGAGATCAAATTTCAAGATACACA
* * * *
834791 CCAAGGAAACAAACACATCTAATTTTCAA-TTCAAAATGGATGATCAAATTGATGTCATACAACA
1 CCAAGGAAACAAACACATCCAATTTTCAAGTCCAAAA-GGATGACCAAATTGATGCCATACAACA
* *
834855 TATCTAGATCAAATTT
65 TACCGAGATCAAATTT
834871 AAAGCTTCAC
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
90 6 0.09
91 64 0.91
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.24
Consensus pattern (91 bp):
CCAAGGAAACAAACACATCCAATTTTCAAGTCCAAAAGGATGACCAAATTGATGCCATACAACAT
ACCGAGATCAAATTTCAAGATACACA
Found at i:836979 original size:21 final size:21
Alignment explanation
Indices: 836953--836992 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
836943 AAAAATTAAG
836953 ACCTCAA-CTGGTTCACCTAAA
1 ACCTCAATC-GGTTCACCTAAA
836974 ACCTCAATCGGTTCACCTA
1 ACCTCAATCGGTTCACCTA
836993 GCTCCCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.30, C:0.35, G:0.10, T:0.25
Consensus pattern (21 bp):
ACCTCAATCGGTTCACCTAAA
Found at i:837561 original size:21 final size:21
Alignment explanation
Indices: 837535--837574 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
837525 AAAAATTAAG
837535 ACCTCAA-CTGGTTCACCTAAA
1 ACCTCAATC-GGTTCACCTAAA
837556 ACCTCAATCGGTTCACCTA
1 ACCTCAATCGGTTCACCTA
837575 GCTCCCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.30, C:0.35, G:0.10, T:0.25
Consensus pattern (21 bp):
ACCTCAATCGGTTCACCTAAA
Found at i:846309 original size:32 final size:32
Alignment explanation
Indices: 846229--846310 Score: 101
Period size: 32 Copynumber: 2.6 Consensus size: 32
846219 AAGGGTATTA
* * *
846229 ATGTGGCCTTAGTGGCGTGAGCATAGTTGCTT
1 ATGTGGCCTTAGTGACGTGAGCATAGATACTT
**
846261 ATGTGGATTTAGTGACGTGAGCATAGATACTT
1 ATGTGGCCTTAGTGACGTGAGCATAGATACTT
* *
846293 GTGTGGCCTTAATGACGT
1 ATGTGGCCTTAGTGACGT
846311 TTGTAATGTT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.21, C:0.13, G:0.32, T:0.34
Consensus pattern (32 bp):
ATGTGGCCTTAGTGACGTGAGCATAGATACTT
Found at i:851961 original size:2 final size:2
Alignment explanation
Indices: 851954--851993 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
851944 GGAACTTGCT
*
851954 TA TA TA TA TA TA TA TA GA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
851994 CAAAGAAGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:856610 original size:23 final size:23
Alignment explanation
Indices: 856560--856611 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
856550 TAAAATTAAA
* *
856560 AAAAATTAGTGGTTAGAAGTTAG
1 AAAAGTTAGTGGTTAGAAATTAG
*
856583 AAAAGTTAGTTGTTAGAAATTAG
1 AAAAGTTAGTGGTTAGAAATTAG
*
856606 TAAAGT
1 AAAAGT
856612 CTGTATCGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.33
Consensus pattern (23 bp):
AAAAGTTAGTGGTTAGAAATTAG
Found at i:857393 original size:60 final size:60
Alignment explanation
Indices: 857300--857424 Score: 232
Period size: 60 Copynumber: 2.1 Consensus size: 60
857290 GGGCCAATTA
857300 GGGTTTAGGATATTAGGTTTAATGGATTTTAGTTTGGCAATGGGTTATGGTAATGTATTT
1 GGGTTTAGGATATTAGGTTTAATGGATTTTAGTTTGGCAATGGGTTATGGTAATGTATTT
* *
857360 GGGTTTTGGATATTATGTTTAATGGATTTTAGTTTGGCAATGGGTTATGGTAATGTATTT
1 GGGTTTAGGATATTAGGTTTAATGGATTTTAGTTTGGCAATGGGTTATGGTAATGTATTT
857420 GGGTT
1 GGGTT
857425 AAATGGTTTG
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.22, C:0.02, G:0.30, T:0.46
Consensus pattern (60 bp):
GGGTTTAGGATATTAGGTTTAATGGATTTTAGTTTGGCAATGGGTTATGGTAATGTATTT
Found at i:857924 original size:16 final size:16
Alignment explanation
Indices: 857892--857934 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 16
857882 AACCAAAGTT
857892 ATATATTATTTTAAATA
1 ATATATT-TTTTAAATA
857909 AT-TATTTTTTACAATA
1 ATATATTTTTTA-AATA
857925 ATATATTTTT
1 ATATATTTTT
857935 ACCTTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.21
16 10 0.42
17 9 0.38
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
ATATATTTTTTAAATA
Found at i:864426 original size:18 final size:18
Alignment explanation
Indices: 864384--864427 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
864374 TTAGCACCCC
*
864384 ATTAACTTTATTTTAATG
1 ATTAAATTTATTTTAATG
*
864402 ATGAAATTTATTTTAA-G
1 ATTAAATTTATTTTAATG
864419 TATTAAATT
1 -ATTAAATT
864428 GGTAATTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 1 0.05
18 21 0.95
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (18 bp):
ATTAAATTTATTTTAATG
Found at i:864536 original size:18 final size:18
Alignment explanation
Indices: 864513--864553 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
864503 TACCTTAGCT
*
864513 AAAATATCAACTAAAGTA
1 AAAATATCAACCAAAGTA
*
864531 AAAATATCAACCGAAGTA
1 AAAATATCAACCAAAGTA
864549 AAAAT
1 AAAAT
864554 TAAAGTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.61, C:0.12, G:0.07, T:0.20
Consensus pattern (18 bp):
AAAATATCAACCAAAGTA
Found at i:867831 original size:123 final size:125
Alignment explanation
Indices: 867684--867931 Score: 482
Period size: 123 Copynumber: 2.0 Consensus size: 125
867674 TTCGGTTAGG
867684 GTAAGATCTTATGGACCCAAGGTGCTCCCTTAGGTTGGCTCCTACACCCTTTGGGCCTAGGATAA
1 GTAAGATCTTATGGACCCAAGGTGCTCCCTTAGGTTGGCTCCTACACCCTTTGGGCCTAGGATAA
867749 GTCCTTATAAATGCAGTTCTAGGGAACTGCATATGGTGTACGGTTTGA-GG-GATTTCGT
66 GTCCTTATAAATGCAGTTCTAGGGAACTGCATATGGTGTACGGTTTGAGGGTGATTTCGT
867807 GTAAGATCTTATGGACCCAAGGTGCTCCCTTAGGTTGGCTCCTACACCCTTTGGGCCTAGGATAA
1 GTAAGATCTTATGGACCCAAGGTGCTCCCTTAGGTTGGCTCCTACACCCTTTGGGCCTAGGATAA
867872 GTCCTTATAAATGCAGTTCTAGGGAACTGCATATGGTGTACGGTTTGAGGGTGATTTCGT
66 GTCCTTATAAATGCAGTTCTAGGGAACTGCATATGGTGTACGGTTTGAGGGTGATTTCGT
867932 ATTTTAAACT
Statistics
Matches: 123, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
123 113 0.92
124 2 0.02
125 8 0.07
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (125 bp):
GTAAGATCTTATGGACCCAAGGTGCTCCCTTAGGTTGGCTCCTACACCCTTTGGGCCTAGGATAA
GTCCTTATAAATGCAGTTCTAGGGAACTGCATATGGTGTACGGTTTGAGGGTGATTTCGT
Found at i:868670 original size:2 final size:2
Alignment explanation
Indices: 868663--868691 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
868653 TACTATGAAT
868663 TA 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 TA T
868692 TTGATAAAGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:871620 original size:12 final size:13
Alignment explanation
Indices: 871598--871627 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
871588 ATTTATTCTT
871598 TATATAATATAAA
1 TATATAATATAAA
871611 TATA-AATATAAA
1 TATATAATATAAA
871623 TATAT
1 TATAT
871628 CCTACTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TATATAATATAAA
Found at i:881600 original size:2 final size:2
Alignment explanation
Indices: 881593--881622 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
881583 TAGAGAATGA
*
881593 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
881623 GTTTAAGCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:885000 original size:2 final size:2
Alignment explanation
Indices: 884993--885024 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
884983 TCAAGAAAAT
*
884993 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
885025 GTAATGAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:894915 original size:34 final size:34
Alignment explanation
Indices: 894875--894943 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
894865 GTCTAAACCT
* *
894875 TAGACGCATTGCTTTCCATGTGTTTCTCCCACCC
1 TAGACGCATTGCCTTCCATGCGTTTCTCCCACCC
894909 TAGACGCATTGCCTTCCATGCGTTTCTCCCACCC
1 TAGACGCATTGCCTTCCATGCGTTTCTCCCACCC
894943 T
1 T
894944 CGAAGTCGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.14, C:0.38, G:0.14, T:0.33
Consensus pattern (34 bp):
TAGACGCATTGCCTTCCATGCGTTTCTCCCACCC
Found at i:895373 original size:15 final size:15
Alignment explanation
Indices: 895355--895415 Score: 68
Period size: 15 Copynumber: 3.9 Consensus size: 15
895345 TGAAGAAAGA
895355 AAGAAAAGAAGGAGG
1 AAGAAAAGAAGGAGG
* *
895370 AAGAAATGAAGAAGAAGA
1 AAG-AA--AAGAAGGAGG
895388 AAGAAAAGAAGGAGG
1 AAGAAAAGAAGGAGG
*
895403 AAGAAGAGAAGGA
1 AAGAAAAGAAGGA
895416 AACAATCAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
15 23 0.61
16 2 0.05
17 2 0.05
18 11 0.29
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (15 bp):
AAGAAAAGAAGGAGG
Found at i:895388 original size:33 final size:31
Alignment explanation
Indices: 895343--895407 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 31
895333 AAAAGAGGAG
895343 AATGAAGAAAGAAAGAAAAGAAGGAGGAAGA
1 AATGAAGAAAGAAAGAAAAGAAGGAGGAAGA
895374 AATGAAGAAGAAGAAAGAAAAGAAGGAGGAAGA
1 AATGAAG-A-AAGAAAGAAAAGAAGGAGGAAGA
895407 A
1 A
895408 GAGAAGGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 7 0.22
32 1 0.03
33 24 0.75
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.03
Consensus pattern (31 bp):
AATGAAGAAAGAAAGAAAAGAAGGAGGAAGA
Found at i:895659 original size:18 final size:19
Alignment explanation
Indices: 895636--895683 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 19
895626 GATGATGTTG
895636 TTATTATT-TAATAAAATA
1 TTATTATTATAATAAAATA
*
895654 TTATTATATGATAATAAATTA
1 TTATTAT-T-ATAATAAAATA
895675 TTATTATTA
1 TTATTATTA
895684 AATGGTAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 7 0.27
19 2 0.08
20 1 0.04
21 16 0.62
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TTATTATTATAATAAAATA
Found at i:896650 original size:5 final size:5
Alignment explanation
Indices: 896640--896982 Score: 536
Period size: 5 Copynumber: 68.0 Consensus size: 5
896630 AAAAGAAGGT
896640 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATAT- ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
896689 ATATA ATATA ATATA ATATA ATAT- ATAT- ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
896737 ATATA ATATA ATATA ATATA ATATA ATATA ATAT- ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
*
896786 ATATA ATATA ATAT- ATAAA TATATA ATATAA TATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA -ATATA ATAT-A -ATATA ATATA ATATA
896833 ATATA ATATA ATATA ATATA ATATA ATATA ATAATA TATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA AT-ATA -ATATA ATATA ATATA
896885 ATATA ATATA ATATA ATATA ATATA ATATA TATATAA TATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA -ATAT-A -ATATA ATATA
* *
896933 ATATA ATATA TATATA ATATA ATATA ATATA ATATT ATAT- ATAAA ATATA
1 ATATA ATATA -ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
896983 TTATTTATTT
Statistics
Matches: 320, Mismatches: 5, Indels: 26
0.91 0.01 0.07
Matches are distributed among these distances:
4 22 0.07
5 264 0.82
6 22 0.07
7 12 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:898380 original size:121 final size:121
Alignment explanation
Indices: 898248--898614 Score: 499
Period size: 121 Copynumber: 3.0 Consensus size: 121
898238 TCGAAGATTA
*
898248 AATTAATTTTAATTTATTAAAATTAGGACTAAATTGATAGAATCTATAAGTAAAAGTGACCAAAT
1 AATTAATTTTAATTTATTAAAATTAGGACTAAATTGAT-GAATATATAAGTAAAAGTGACCAAAT
*
898313 GTGTAATTATATCAATTTTATTAAATTTTAAAAGTTAA-ACGAGATAAAAATATATT
65 GTGTAATTATATCAATTTTATTAAATTTTAAAAGTTAAGATGAGATAAAAATATATT
* * * * *
898369 AATTAATTTTAATTTTTTAAAATTACGACTAAATTGATGGAATATAAAAGTATAAGTGACAAAAT
1 AATTAATTTTAATTTATTAAAATTAGGACTAAATTGAT-GAATATATAAGTAAAAGTGACCAAAT
* * *
898434 GTGTAATTATATCAATTTTATTAAGTTTTAAAAGTTAAGATGGGGTGTGATAAAAA-ATATA
65 GTGTAATTATATCAATTTTATTAAATTTTAAAAGTTAAGA-----TGAGATAAAAATATATT
* * * *
898495 AAATAATTTTAATTTATTAAAATTAGGACAAAATTGAT--ATATATAAGTTAAACTGACCAAATG
1 AATTAATTTTAATTTATTAAAATTAGGACTAAATTGATGAATATATAAGTAAAAGTGACCAAATG
*
898558 TGTAATTATATCAATTTGATTAAATTTTAAAAGTTAAGATGAGATAAAATATATATT
66 TGTAATTATATCAATTTTATTAAATTTTAAAAGTTAAGATGAGATAAAA-ATATATT
898615 TTATGTTAGA
Statistics
Matches: 214, Mismatches: 24, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
118 9 0.04
119 1 0.00
120 4 0.02
121 95 0.44
122 1 0.00
123 57 0.27
126 38 0.18
127 9 0.04
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.38
Consensus pattern (121 bp):
AATTAATTTTAATTTATTAAAATTAGGACTAAATTGATGAATATATAAGTAAAAGTGACCAAATG
TGTAATTATATCAATTTTATTAAATTTTAAAAGTTAAGATGAGATAAAAATATATT
Found at i:898655 original size:26 final size:26
Alignment explanation
Indices: 898626--898676 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
898616 TATGTTAGAT
* *
898626 AATAACAAAAAATTATATTTTTAATA
1 AATAACAAAAAAGTATATATTTAATA
*
898652 AATAACAATAAAGTATATATTTAAT
1 AATAACAAAAAAGTATATATTTAAT
898677 TTAATTTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (26 bp):
AATAACAAAAAAGTATATATTTAATA
Found at i:898863 original size:112 final size:113
Alignment explanation
Indices: 898759--899100 Score: 314
Period size: 112 Copynumber: 3.0 Consensus size: 113
898749 AATTATTATA
898759 TTAAAAAT-ATATAAATTAATTTTAATTTTTTTAAAATTATGACTAAATTGATAGAATATAAAAG
1 TTAAAAATAATATAAATTAATTTTAATTTTTTTAAAATTATGACTAAATTGATAGAATATAAAAG
*
898823 TATAAGTGACCAAATGTGTAATTATATAAATTTTATTAAATTTAAAAG
66 TATAAGTGACCAAATGTGTAATTATATAAATTTTATTAAATTTTAAAG
* *** * * ** ** * *
898871 TT-AAGATGGGATAAA--AATATAAAGTAATTTTAATTTTTTGGACTAAATTGATAGAATATATA
1 TTAAAAATAATATAAATTAATTTTAA-TTTTTTTAAAATTAT-GACTAAATTGATAGAATATAAA
* * *
898933 AGTAAAAATAACCAAATGTGTAATTATATAAATTTTATTAAATTTTAAAAG
64 AGTATAAGTGACCAAATGTGTAATTATATAAATTTTATTAAATTTT-AAAG
898984 TTAAGATGAGATAAAATATAGAAATTAATTTTAA-TTTTTTAAAATTATGACTAAA-T--T-G--
1 TTAA-A--A-AT--AATAT--AAATTAATTTTAATTTTTTTAAAATTATGACTAAATTGATAGAA
* * *
899042 -AT-AAAGTATAAGTGACAAAATGTGTAATTATATCAATTTTATTAAATATTAAAAG
58 TATAAAAGTATAAGTGACCAAATGTGTAATTATATAAATTTTATTAAAT-TTTAAAG
899097 TTAA
1 TTAA
899101 GATGAGATAA
Statistics
Matches: 181, Mismatches: 33, Indels: 31
0.74 0.13 0.13
Matches are distributed among these distances:
110 6 0.03
111 14 0.08
112 70 0.39
113 53 0.29
114 5 0.03
115 1 0.01
117 1 0.01
118 3 0.02
120 3 0.02
121 7 0.04
122 12 0.07
124 6 0.03
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.39
Consensus pattern (113 bp):
TTAAAAATAATATAAATTAATTTTAATTTTTTTAAAATTATGACTAAATTGATAGAATATAAAAG
TATAAGTGACCAAATGTGTAATTATATAAATTTTATTAAATTTTAAAG
Found at i:899068 original size:113 final size:111
Alignment explanation
Indices: 898798--899117 Score: 425
Period size: 113 Copynumber: 2.8 Consensus size: 111
898788 TTTAAAATTA
898798 TGACTAAATTGATAGAATATAAAAGTATAAGTGACCAAATGTGTAATTATATAAATTTTATTAAA
1 TGAC-AAATTGATAGAATAT-AAAGTATAAGTGACCAAATGTGTAATTATATAAATTTTATTAAA
* *
898863 -TTTAAAAGTTAAGATGGGATAAAA-ATATAAAGTAATTTTAATTTTT
64 TTTTAAAAGTTAAGATGAGATAAAATATAGAAAGTAATTTTAATTTTT
* * *
898909 TGGACTAAATTGATAGAATATATAAGTAAAAATAACCAAATGTGTAATTATATAAATTTTATTAA
1 T-GAC-AAATTGATAGAATATA-AAGTATAAGTGACCAAATGTGTAATTATATAAATTTTATTAA
*
898974 ATTTTAAAAGTTAAGATGAGATAAAATATAGAAATTAATTTTAATTTTT
63 ATTTTAAAAGTTAAGATGAGATAAAATATAGAAAGTAATTTTAATTTTT
* *
899023 T-A-AAATTATGACTA-AATTGATAAAGTATAAGTGACAAAATGTGTAATTATATCAATTTTATT
1 TGACAAA-T-TGA-TAGAA-T-ATAAAGTATAAGTGACCAAATGTGTAATTATATAAATTTTATT
*
899085 AAATATTAAAAGTTAAGATGAGATAAAAATATA
61 AAATTTTAAAAGTTAAGATGAGAT-AAAATATA
899118 TTTTTATGTT
Statistics
Matches: 187, Mismatches: 12, Indels: 17
0.87 0.06 0.08
Matches are distributed among these distances:
110 3 0.02
111 3 0.02
112 65 0.35
113 84 0.45
114 32 0.17
ACGTcount: A:0.48, C:0.03, G:0.12, T:0.37
Consensus pattern (111 bp):
TGACAAATTGATAGAATATAAAGTATAAGTGACCAAATGTGTAATTATATAAATTTTATTAAATT
TTAAAAGTTAAGATGAGATAAAATATAGAAAGTAATTTTAATTTTT
Found at i:899262 original size:21 final size:21
Alignment explanation
Indices: 899238--899279 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
899228 TTAAAACTAG
899238 AATACATAAATTATTATAAAA
1 AATACATAAATTATTATAAAA
899259 AATACATAAATTATTATAAAA
1 AATACATAAATTATTATAAAA
899280 TAAATTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (21 bp):
AATACATAAATTATTATAAAA
Found at i:911480 original size:10 final size:10
Alignment explanation
Indices: 911465--911520 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
911455 ACGGTCGACT
911465 GTTGACCAGC
1 GTTGACCAGC
911475 GTTGACCA-C
1 GTTGACCAGC
911484 AGTTGACCAGC
1 -GTTGACCAGC
* * *
911495 ATTGACCGGT
1 GTTGACCAGC
*
911505 ATTGACCGAGC
1 GTTGACC-AGC
911516 GTTGA
1 GTTGA
911521 ACGACCTTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
9 1 0.03
10 30 0.81
11 6 0.16
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (10 bp):
GTTGACCAGC
Found at i:914074 original size:48 final size:48
Alignment explanation
Indices: 914022--914125 Score: 133
Period size: 48 Copynumber: 2.2 Consensus size: 48
914012 AATATTTTTA
914022 TCTGATTTCCGACT-TGAATTCTGTTCTGATATATT-A-CATGAATTCTGT
1 TCTGATTTCCGA-TATGAATTCTGTTCTGATAT-TTGATC-TGAATTCTGT
* *
914070 TCTGATTTCTGATATGGATTCTGTTCTGATATTTGATCTGAATTCTGT
1 TCTGATTTCCGATATGAATTCTGTTCTGATATTTGATCTGAATTCTGT
*
914118 TTTGATTT
1 TCTGATTT
914126 ATGATATCTC
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
47 3 0.06
48 46 0.92
49 1 0.02
ACGTcount: A:0.20, C:0.13, G:0.16, T:0.50
Consensus pattern (48 bp):
TCTGATTTCCGATATGAATTCTGTTCTGATATTTGATCTGAATTCTGT
Found at i:914130 original size:24 final size:24
Alignment explanation
Indices: 914036--914130 Score: 104
Period size: 24 Copynumber: 4.0 Consensus size: 24
914026 ATTTCCGACT
* *
914036 TGAATTCTGTTCTGATATATTA-C
1 TGAATTCTGTTCTGATTTATGATC
* *
914059 ATGAATTCTGTTCTGATTTCTGATA
1 -TGAATTCTGTTCTGATTTATGATC
*
914084 TGGATTCTGTTCTGATATT-TGATC
1 TGAATTCTGTTCTGAT-TTATGATC
*
914108 TGAATTCTGTTTTGATTTATGAT
1 TGAATTCTGTTCTGATTTATGAT
914131 ATCTCCTTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
23 2 0.03
24 56 0.93
25 2 0.03
ACGTcount: A:0.22, C:0.11, G:0.17, T:0.51
Consensus pattern (24 bp):
TGAATTCTGTTCTGATTTATGATC
Found at i:914131 original size:48 final size:48
Alignment explanation
Indices: 914039--914132 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
914029 TCCGACTTGA
*
914039 ATTCTGTTCTGATATATTACATGAATTCTGTTCTGATTTCTGATATGG
1 ATTCTGTTCTGATATATTACATGAATTCTGTTCTGATTTATGATATGG
*
914087 ATTCTGTTCTGATAT-TTGATC-TGAATTCTGTTTTGATTTATGATAT
1 ATTCTGTTCTGATATATT-A-CATGAATTCTGTTCTGATTTATGATAT
914133 CTCCTTTTAC
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 2 0.05
48 39 0.93
49 1 0.02
ACGTcount: A:0.22, C:0.11, G:0.16, T:0.51
Consensus pattern (48 bp):
ATTCTGTTCTGATATATTACATGAATTCTGTTCTGATTTATGATATGG
Found at i:918282 original size:73 final size:72
Alignment explanation
Indices: 918189--918362 Score: 188
Period size: 73 Copynumber: 2.4 Consensus size: 72
918179 GATCTCCATT
* * * * *
918189 TTTATAATTAATTGTTATTTTTCTCATT-TGTAGAGGTAGATATTATGTATTTGTACTCTTCGTA
1 TTTATAA-TAATTATTATTTTTCTCATTAT-TAGAGGCAGATATCATATATTTATACTCTTCGTA
918253 ATCTCTACA
64 ATCTCTACA
* * * * *
918262 TTTATAATGAATTATTATTTTTCTTATTATTGGAGGCAGATATCATATGTTTATACTCTTTGTGA
1 TTTATAAT-AATTATTATTTTTCTCATTATTAGAGGCAGATATCATATATTTATACTCTTCGTAA
* *
918327 TCTTTACT
65 TCTCTACA
*
918335 TTTATAATAGACTATTATTTTTCTCATT
1 TTTATAATA-ATTATTATTTTTCTCATT
918363 CATAGAAGTA
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
72 2 0.02
73 81 0.96
74 1 0.01
ACGTcount: A:0.26, C:0.10, G:0.11, T:0.52
Consensus pattern (72 bp):
TTTATAATAATTATTATTTTTCTCATTATTAGAGGCAGATATCATATATTTATACTCTTCGTAAT
CTCTACA
Found at i:920174 original size:11 final size:11
Alignment explanation
Indices: 920158--920190 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
920148 CGAGTTAATA
920158 TGTTTTTTTTT
1 TGTTTTTTTTT
920169 TG-TTTTTTTT
1 TGTTTTTTTTT
920179 TGTTTTTTTTT
1 TGTTTTTTTTT
920190 T
1 T
920191 TAATTTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (11 bp):
TGTTTTTTTTT
Found at i:920176 original size:10 final size:10
Alignment explanation
Indices: 920161--920189 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
920151 GTTAATATGT
920161 TTTTTTTTTG
1 TTTTTTTTTG
920171 TTTTTTTTTG
1 TTTTTTTTTG
920181 TTTTTTTTT
1 TTTTTTTTT
920190 TTAATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:920197 original size:21 final size:21
Alignment explanation
Indices: 920158--920200 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
920148 CGAGTTAATA
*
920158 TGTTTTTTTTTTGTTTTTTTT
1 TGTTTTTTTTTTGTATTTTTT
*
920179 TGTTTTTTTTTT-TAATTTTT
1 TGTTTTTTTTTTGTATTTTTT
920199 TG
1 TG
920201 CGTCATCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.05, C:0.00, G:0.09, T:0.86
Consensus pattern (21 bp):
TGTTTTTTTTTTGTATTTTTT
Found at i:922719 original size:266 final size:264
Alignment explanation
Indices: 922190--922719 Score: 985
Period size: 266 Copynumber: 2.0 Consensus size: 264
922180 GCGCATACGT
922190 AGACTGCAGGGTTTTGTTGTTGTTGTTGTAAACCAAATATAATGGCTTTATATCACTCCAACACA
1 AGACTGCAGGGTTTTGTTGTTGTTGTTGTAAACCAAATATAATGGCTTTATATCACTCCAACACA
922255 ATACTTCCAATTTCTCCCCAAATCTATGTCCATTTCAATACCCACTGCTTATCTATCAATTATCT
66 ATACTTCCAATTTCTCCCCAAATCTATGTCCATTTCAATACCCACTGCTTATCTATCAATTATCT
922320 TCAAAAGAGGGCTTCTCTTTAATTATTGAATATACCTGTTTAAATATTTATTATTTATATATGTT
131 TCAAAAGAGGGCTTCTCTTTAATTATTGAATATACCTGTTTAAATATTTATTATTTATATATGTT
*
922385 ATATTTAATACTCAATGTTGCTTGACTTATTATTTATTCAACGGTTCATATATCATGTTTATGCC
196 ATATTTAATACTCAATGTTGCTTGAATTATTATTTATTCAACGGTTCATATATCATGTTTATGCC
922450 CAAC
261 CAAC
922454 AGACTGCAGGGTTTTGTTGTTGTTGTTGT-AACCAAATATAATGGCTTTTATATCACTCCAACAC
1 AGACTGCAGGGTTTTGTTGTTGTTGTTGTAAACCAAATATAATGGC-TTTATATCACTCCAACAC
922518 AATACTTCCAATTTCTCCCCAAATCTTATGTCCATTTCAATACCCACTGCTTATCTATTCAATTA
65 AATACTTCCAATTTCTCCCCAAATC-TATGTCCATTTCAATACCCACTGCTTATCTA-TCAATTA
922583 TTCTTCAAAAGAGGGCTTCTCTTTAATTATTGAATATACCTGTTTAAATATTTAATTATTTATAT
128 -TCTTCAAAAGAGGGCTTCTCTTTAATTATTGAATATACCTGTTTAAATATTT-ATTATTTATAT
922648 ATG-T-TATTTAATACTCAATGTTGCTTGAATTATTATTTATTCAACGGTTCATATATCATGTTT
191 ATGTTATATTTAATACTCAATGTTGCTTGAATTATTATTTATTCAACGGTTCATATATCATGTTT
922711 ATGCCCAAC
256 ATGCCCAAC
922720 TGTCTCTTAG
Statistics
Matches: 260, Mismatches: 1, Indels: 8
0.97 0.00 0.03
Matches are distributed among these distances:
263 16 0.06
264 72 0.28
265 31 0.12
266 74 0.28
267 53 0.20
268 14 0.05
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (264 bp):
AGACTGCAGGGTTTTGTTGTTGTTGTTGTAAACCAAATATAATGGCTTTATATCACTCCAACACA
ATACTTCCAATTTCTCCCCAAATCTATGTCCATTTCAATACCCACTGCTTATCTATCAATTATCT
TCAAAAGAGGGCTTCTCTTTAATTATTGAATATACCTGTTTAAATATTTATTATTTATATATGTT
ATATTTAATACTCAATGTTGCTTGAATTATTATTTATTCAACGGTTCATATATCATGTTTATGCC
CAAC
Found at i:923528 original size:18 final size:16
Alignment explanation
Indices: 923481--923530 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 16
923471 CATTTTTGTA
923481 TTTATTATTTATACTTT
1 TTTATTATTTATA-TTT
923498 TTTATCT-TTTATATTT
1 TTTAT-TATTTATATTT
923514 GTTCTATTATTTATATT
1 -TT-TATTATTTATATT
923531 CGTTGTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.10
17 14 0.48
18 12 0.41
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (16 bp):
TTTATTATTTATATTT
Found at i:925354 original size:21 final size:21
Alignment explanation
Indices: 925328--925382 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
925318 TACAAATAAA
925328 AAAAATAAATATAAAAATACT
1 AAAAATAAATATAAAAATACT
* * * *
925349 AGAAATAAAAATTAAATTACT
1 AAAAATAAATATAAAAATACT
*
925370 AAAAATTAATATA
1 AAAAATAAATATA
925383 TATATATATA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAAATAAATATAAAAATACT
Found at i:925385 original size:2 final size:2
Alignment explanation
Indices: 925378--925418 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
925368 CTAAAAATTA
925378 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
925419 ACCAGAGTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:928452 original size:2 final size:2
Alignment explanation
Indices: 928445--928474 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
928435 ACTTAAGGGG
928445 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
928475 TAATTATCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:929715 original size:12 final size:12
Alignment explanation
Indices: 929695--929744 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
929685 AAAATCATTT
*
929695 AAATCTATTTTA
1 AAATTTATTTTA
929707 AAATTTATTTTA
1 AAATTTATTTTA
* *
929719 AAATATATATT-
1 AAATTTATTTTA
*
929730 -GATTTATTTTA
1 AAATTTATTTTA
929741 AAAT
1 AAAT
929745 ATGAAAAATT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
10 7 0.24
12 22 0.76
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (12 bp):
AAATTTATTTTA
Found at i:929734 original size:22 final size:22
Alignment explanation
Indices: 929709--930118 Score: 506
Period size: 22 Copynumber: 18.6 Consensus size: 22
929699 CTATTTTAAA
*
929709 ATTTATTTTAAAATATATATTG
1 ATTTATTTTAAAATATAGATTG
***
929731 ATTTATTTTAAAATAT-GAAAA
1 ATTTATTTTAAAATATAGATTG
*
929752 ATTTTATTTTAAAATATGGATTG
1 A-TTTATTTTAAAATATAGATTG
*
929775 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATAGATTG
*
929797 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATAGATTG
***
929819 ATTTATTTTAAAATAT-GAAAA
1 ATTTATTTTAAAATATAGATTG
929840 ATTTTATTTTAAAATAT-GAATTG
1 A-TTTATTTTAAAATATAG-ATTG
* ***
929863 ATTTATTTTAAAATATGAAAAAA
1 ATTTATTTTAAAATAT-AGATTG
*
929886 AATTATTTTAAAATATAGATTG
1 ATTTATTTTAAAATATAGATTG
929908 ATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAAATATAGATTG
*
929930 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATAGATTG
* *
929952 ATTTATTTTAAAATGTGGATTG
1 ATTTATTTTAAAATATAGATTG
* *
929974 ATTTATTTTAAAATATGGATTA
1 ATTTATTTTAAAATATAGATTG
*
929996 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATAGATTG
*
930018 ATTTATTTTAAAATAT-GAATTA
1 ATTTATTTTAAAATATAG-ATTG
*
930040 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATAGATTG
* *
930062 ATTTATTCTAAAATATGGATTG
1 ATTTATTTTAAAATATAGATTG
930084 ATTTATTTTAAAATAT-GAATTG
1 ATTTATTTTAAAATATAG-ATTG
930106 ATTTATTTTAAAA
1 ATTTATTTTAAAA
930119 AAAAGTATTA
Statistics
Matches: 347, Mismatches: 32, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
21 7 0.02
22 318 0.92
23 22 0.06
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (22 bp):
ATTTATTTTAAAATATAGATTG
Found at i:929786 original size:66 final size:66
Alignment explanation
Indices: 929709--930118 Score: 565
Period size: 66 Copynumber: 6.2 Consensus size: 66
929699 CTATTTTAAA
* ***
929709 ATTTATTTTAAAATATATATTGATTTATTTTAAAATAT-GAAAAATTTTATTTTAAAATATGGAT
1 ATTTATTTTAAAATATAGATTGATTTATTTTAAAATATGGATTGA-TTTATTTTAAAATATGGAT
929773 TG
65 TG
* **
929775 ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATAT-GAAA
1 ATTTATTTTAAAATATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATT
*
929839 A
66 G
* *** * *
929840 ATTTTATTTTAAAATAT-GAATTGATTTATTTTAAAATATGAAAAAAAATTATTTTAAAATATAG
1 A-TTTATTTTAAAATATAG-ATTGATTTATTTTAAAATATG-GATTGATTTATTTTAAAATATGG
929904 ATTG
63 ATTG
*
929908 ATTTATTTTAAAATATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATGTGGATT
1 ATTTATTTTAAAATATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATT
929973 G
66 G
* * *
929974 ATTTATTTTAAAATATGGATTAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGAATT
1 ATTTATTTTAAAATATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATT
*
930039 A
66 G
* * *
930040 ATTTATTTTAAAATATGGATTGATTTATTCTAAAATATGGATTGATTTATTTTAAAATATGAATT
1 ATTTATTTTAAAATATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATT
930105 G
66 G
930106 ATTTATTTTAAAA
1 ATTTATTTTAAAA
930119 AAAAGTATTA
Statistics
Matches: 307, Mismatches: 31, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
65 4 0.01
66 244 0.79
67 55 0.18
68 4 0.01
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (66 bp):
ATTTATTTTAAAATATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATT
G
Found at i:932324 original size:37 final size:36
Alignment explanation
Indices: 932290--932359 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 36
932280 TACAAATTGT
932290 AAAATATTTATAT-ATTTTCTTTAAAAAATTAAATTC
1 AAAATATTTATATAATTTT-TTTAAAAAATTAAATTC
* *
932326 ATAATATTTATATAAATTTTTTTACAAAATTAAA
1 AAAATATTTATAT-AATTTTTTTAAAAAATTAAA
932360 AATATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
36 12 0.40
37 13 0.43
38 5 0.17
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (36 bp):
AAAATATTTATATAATTTTTTTAAAAAATTAAATTC
Found at i:933516 original size:2 final size:2
Alignment explanation
Indices: 933509--933575 Score: 56
Period size: 2 Copynumber: 36.5 Consensus size: 2
933499 CCGCCCCGAT
* * * *
933509 TA TA TA TA TA TA TA TA TA -A TA TT TT TA TA T- TT TT TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
933548 TA -A T- TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
933576 TTTCGGGTTC
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
1 6 0.11
2 50 0.89
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (2 bp):
TA
Found at i:933602 original size:26 final size:25
Alignment explanation
Indices: 933568--933618 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
933558 TATATATATA
933568 TATAATATTTTCGGGTTC-GGTTCGGG
1 TATAATA-TTTCGGG-TCGGGTTCGGG
933594 TATAATATTTCGGGTCGGGTTCGGG
1 TATAATATTTCGGGTCGGGTTCGGG
933619 GACGGGACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 2 0.08
25 15 0.62
26 7 0.29
ACGTcount: A:0.16, C:0.12, G:0.33, T:0.39
Consensus pattern (25 bp):
TATAATATTTCGGGTCGGGTTCGGG
Found at i:936711 original size:21 final size:20
Alignment explanation
Indices: 936625--936782 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
936615 AAATGACCAA
**
936625 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
936644 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
936664 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
936684 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
936705 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
936726 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
936746 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
936767 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
936783 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:936814 original size:20 final size:20
Alignment explanation
Indices: 936749--936998 Score: 229
Period size: 20 Copynumber: 12.5 Consensus size: 20
936739 CGATTTTCCA
* ** *
936749 AAATCGCAACGCGAATATGA
1 AAATCGCAACGTGAATCCGT
* *
936769 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGTGAATC-CGT
*
936789 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGTGAATCCGT
* * *
936809 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGTGAATCCGT
* * *
936829 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGTGAATCCGT
* * *
936849 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGTGAATCCGT
936869 AAATCGCAACGAT-AATCCGT
1 AAATCGCAACG-TGAATCCGT
* *
936889 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGTGAATCCGT
936909 AAATCGCAACGAT-AATCCGT
1 AAATCGCAACG-TGAATCCGT
* *
936929 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGTGAATCCGT
936949 AAATCGCAACGAT-AATCCGT
1 AAATCGCAACG-TGAATCCGT
* *
936969 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGTGAATCCGT
*
936989 AAATCACAAC
1 AAATCGCAAC
936999 ACTGAAATTT
Statistics
Matches: 195, Mismatches: 27, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
20 194 0.99
21 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGTGAATCCGT
Found at i:937715 original size:24 final size:24
Alignment explanation
Indices: 937676--937722 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
937666 AAATTTGGTC
937676 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
937700 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
937723 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:940274 original size:19 final size:19
Alignment explanation
Indices: 940234--940331 Score: 125
Period size: 19 Copynumber: 5.4 Consensus size: 19
940224 GATTCTCTCG
* *
940234 TTGCGATTGTAATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
940254 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
940273 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
940287 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
940306 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
940325 TTGCGAT
1 TTGCGAT
940332 AGTCAATTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
14 6 0.09
16 7 0.10
17 7 0.10
19 36 0.52
20 13 0.19
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:940282 original size:53 final size:52
Alignment explanation
Indices: 940215--940331 Score: 207
Period size: 53 Copynumber: 2.2 Consensus size: 52
940205 GAAATGAAAA
940215 TCGCATTGCGATTCTCTCGTTGCGATTGTAATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTGTAATTT-CGCATTGCGATTTTCATT
* *
940268 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTGTAATTTCGCATTGCGATTTTCATT
940320 TCGCATTGCGAT
1 TCGCATTGCGAT
940332 AGTCAATTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 30 0.48
53 32 0.52
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTCTCTCGTTGCGATTGTAATTTCGCATTGCGATTTTCATT
Found at i:940427 original size:14 final size:14
Alignment explanation
Indices: 940408--940462 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
940398 CGGAAATGAA
940408 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
940422 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
940441 AATCGCAACGAGAG
1 AATCGCAACGAGAG
940455 AATCGCAA
1 AATCGCAA
940463 TGCGAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:940442 original size:33 final size:33
Alignment explanation
Indices: 940390--940550 Score: 243
Period size: 33 Copynumber: 4.7 Consensus size: 33
940380 CCATTACATT
940390 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAA
940424 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
*
940457 TCGCAATGCGAAATG-AAATCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAA
940494 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
*
940527 TCGCAATGCGAAATTAAAATCGCA
1 TCGCAATGCGAAATGAAAATCGCA
940551 TTGCGATTCT
Statistics
Matches: 118, Mismatches: 3, Indels: 13
0.88 0.02 0.10
Matches are distributed among these distances:
32 9 0.08
33 66 0.56
34 12 0.10
36 3 0.03
37 19 0.16
38 9 0.08
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
Found at i:940502 original size:70 final size:68
Alignment explanation
Indices: 940390--940556 Score: 241
Period size: 70 Copynumber: 2.4 Consensus size: 68
940380 CCATTACATT
*
940390 TCGCAATGCGGAAATGAAAATCGCAA--CG-AGAGAATCGCAATGCGAAATGAAAATCGCAACGA
1 TCGCAATGC-GAAATG-AAATCGCAATGCGAAGAAAATCGCAATGCGAAATGAAAATCGCAACGA
940452 GAGAA
64 GAGAA
940457 TCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGA
1 TCGCAATGCGAAATGAAATCGCAATGCG-AA-GAAAATCGCAATGCGAAATGAAAATCGCAACGA
940522 GAGAA
64 GAGAA
* *
940527 TCGCAATGCGAAATTAAAATCGCATTGCGA
1 TCGCAATGCGAAA-TGAAATCGCAATGCGA
940557 TTCTCCATTG
Statistics
Matches: 91, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
65 9 0.10
66 6 0.07
67 11 0.12
69 1 0.01
70 51 0.56
71 13 0.14
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (68 bp):
TCGCAATGCGAAATGAAATCGCAATGCGAAGAAAATCGCAATGCGAAATGAAAATCGCAACGAGA
GAA
Found at i:940589 original size:52 final size:52
Alignment explanation
Indices: 940527--940641 Score: 142
Period size: 52 Copynumber: 2.2 Consensus size: 52
940517 AACGAGAGAA
*
940527 TCGCAATGCGAAATTAAAATCGCATTGCGATTCTC-CATTGCGATTTTCATT
1 TCGCATTGCGAAATTAAAATCGCATTGCGATTCTCTCATTGCGATTTTCATT
** * ** * *
940578 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTTATT
1 T-CGCATTGCGAAATTAAAATCGCATTGCGATTCTCTCATTGCGATTTTCATT
940631 TCGCATTGCGA
1 TCGCATTGCGA
940642 TTTTCATTTC
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
51 1 0.02
52 38 0.70
53 15 0.28
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (52 bp):
TCGCATTGCGAAATTAAAATCGCATTGCGATTCTCTCATTGCGATTTTCATT
Found at i:940604 original size:19 final size:19
Alignment explanation
Indices: 940562--940661 Score: 138
Period size: 19 Copynumber: 5.5 Consensus size: 19
940552 TGCGATTCTC
940562 CATTGCGATTTTCATTTCCG
1 CATTGCGATTTTCATTT-CG
940582 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
940601 CATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
*
940617 --TTGCGATTTTTATTTCG
1 CATTGCGATTTTCATTTCG
940634 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
940653 CATTGCGAT
1 CATTGCGAT
940662 AGTCAATTTT
Statistics
Matches: 71, Mismatches: 4, Indels: 11
0.83 0.05 0.13
Matches are distributed among these distances:
14 6 0.08
16 6 0.08
17 7 0.10
19 35 0.49
20 17 0.24
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:940642 original size:52 final size:52
Alignment explanation
Indices: 940546--940661 Score: 198
Period size: 52 Copynumber: 2.2 Consensus size: 52
940536 GAAATTAAAA
940546 TCGCATTGCGATTCTCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
* *
940598 TCGCATTGCGATTCTCTCGTTGCGATTTTTATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTC-CATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
940650 TCGCATTGCGAT
1 TCGCATTGCGAT
940662 AGTCAATTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
52 46 0.75
53 15 0.25
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTCTCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:940785 original size:14 final size:14
Alignment explanation
Indices: 940766--940802 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
940756 CATCAATTAC
940766 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
940780 ACAAATCATCTTTT
1 ACAAATCAACTTTT
940794 ACAAATCAA
1 ACAAATCAA
940803 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:942724 original size:14 final size:14
Alignment explanation
Indices: 942705--942794 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
942695 TTGAAATGAA
942705 AATCGCAACGAGAG
1 AATCGCAACGAGAG
942719 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
942736 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
942752 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
942771 AATCGCAACGAGAG
1 AATCGCAACGAGAG
942785 AATCGCAACG
1 AATCGCAACG
942795 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:942742 original size:33 final size:33
Alignment explanation
Indices: 942697--942811 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
942687 TCTTTTGGTT
942697 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
942730 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
942763 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
942796 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
942812 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Done.