Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_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: 12616935
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 51
Found at i:4801274 original size:21 final size:21
Alignment explanation
Indices: 4801232--4801275 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
4801222 ATCTCGGGAG
*
4801232 CTAGCTCTTCACGCGCTGCTC
1 CTAGCTCTTCACGCGCTCCTC
* *
4801253 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGCGCTCCTC
4801274 CT
1 CT
4801276 CCTCCTCTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.07, C:0.43, G:0.16, T:0.34
Consensus pattern (21 bp):
CTAGCTCTTCACGCGCTCCTC
Found at i:4801633 original size:23 final size:24
Alignment explanation
Indices: 4801603--4801647 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
4801593 ACTTGGATTG
4801603 ATTTGAT-GTT-TCTGGATGTTTAA
1 ATTTGATGGTTGT-TGGATGTTTAA
4801626 ATTTGATGGTTGTTGGATGTTT
1 ATTTGATGGTTGTTGGATGTTT
4801648 GAACTATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.35
24 12 0.60
25 1 0.05
ACGTcount: A:0.18, C:0.02, G:0.27, T:0.53
Consensus pattern (24 bp):
ATTTGATGGTTGTTGGATGTTTAA
Found at i:4802446 original size:65 final size:63
Alignment explanation
Indices: 4802327--4802536 Score: 226
Period size: 65 Copynumber: 3.3 Consensus size: 63
4802317 TTTTTCAGAG
* * * * * **
4802327 TGATGCACCGATGAACCAATCCATGCATCGATGCACCATGAATTAAATTG-AACATCGAATGCAT
1 TGATGCATCGATGCA-CAA-CCATGCATCGATGCACTAAGGA-TATTTTGAAACATCGAATGCAT
4802391 T
63 T
4802392 TGATGCATCGATGCACATACCATGCATCGATGCACTAAGGAT-TTTATGAAAACATCGAATGCAT
1 TGATGCATCGATGCACA-ACCATGCATCGATGCACTAAGGATATTT-TG-AAACATCGAATGCAT
4802456 T
63 T
* * ** * *
4802457 TGATGCATTGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCA-CAACCATGCATCGATGCACTAAGGATATTTTGAAACATCGAATGCATT
4802521 TGATGCATCGATGCAC
1 TGATGCATCGATGCAC
4802537 TCTTAGTGCA
Statistics
Matches: 125, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 50 0.40
65 65 0.52
66 5 0.04
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (63 bp):
TGATGCATCGATGCACAACCATGCATCGATGCACTAAGGATATTTTGAAACATCGAATGCATT
Found at i:4802555 original size:19 final size:19
Alignment explanation
Indices: 4802533--4802575 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
4802523 ATGCATCGAT
4802533 GCACTCTTAGTGCACCGAC
1 GCACTCTTAGTGCACCGAC
*
4802552 GCACTCTTAGTGCACCGAT
1 GCACTCTTAGTGCACCGAC
4802571 GCACT
1 GCACT
4802576 AAGGGTCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.21, C:0.35, G:0.21, T:0.23
Consensus pattern (19 bp):
GCACTCTTAGTGCACCGAC
Found at i:4807012 original size:43 final size:42
Alignment explanation
Indices: 4806965--4807086 Score: 138
Period size: 41 Copynumber: 2.9 Consensus size: 42
4806955 CATCTTGAAC
* * * *
4806965 CTTTTTTTGACCTAGAGTACCTTTTTTCCGGTTTTCATTCTAA
1 CTTTTTTTTACCTAGAGCACC-TTTTTCAGGTTTTCACTCTAA
* *
4807008 CTTTTTTTTATCTAGAGCACCGTTTTCAGGTTTTCACTCTAA
1 CTTTTTTTTACCTAGAGCACCTTTTTCAGGTTTTCACTCTAA
* * * *
4807050 -TTTTTTTTACTTAGAGCACCCTTTTCGGGTTTCCACT
1 CTTTTTTTTACCTAGAGCACCTTTTTCAGGTTTTCACT
4807087 TTAGTTCTTT
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
41 32 0.47
42 18 0.26
43 18 0.26
ACGTcount: A:0.16, C:0.22, G:0.12, T:0.49
Consensus pattern (42 bp):
CTTTTTTTTACCTAGAGCACCTTTTTCAGGTTTTCACTCTAA
Found at i:4809378 original size:40 final size:40
Alignment explanation
Indices: 4809334--4809415 Score: 148
Period size: 40 Copynumber: 2.0 Consensus size: 40
4809324 ACCGTAGTGC
4809334 TACACATAAGGTCGTGCCCACCATATACACCG-AAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGTAA-TGTAT
4809374 TACACATAAGGTCGTGCCCACCATATACACCGTAATGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGTAATGTAT
4809414 TA
1 TA
4809416 TAAACCTGCA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
40 39 0.95
41 2 0.05
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGTAATGTAT
Found at i:4810782 original size:15 final size:15
Alignment explanation
Indices: 4810762--4810791 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4810752 AAAAATTGCA
4810762 CCGATTCCATGCCCT
1 CCGATTCCATGCCCT
4810777 CCGATTCCATGCCCT
1 CCGATTCCATGCCCT
4810792 AGAGCATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.47, G:0.13, T:0.27
Consensus pattern (15 bp):
CCGATTCCATGCCCT
Found at i:4812583 original size:6 final size:6
Alignment explanation
Indices: 4812576--4815388 Score: 4730
Period size: 6 Copynumber: 479.2 Consensus size: 6
4812566 GTGTATATAT
* *
4812576 ACATAT ACATAT ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4812624 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4812672 ACATAC ACATAC ACATAC ACATAC ACATACAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACAT--AC ACATAC ACATAC ACATAC
*
4812722 ACATAC -CATAC ACATAC ACATACC ACACAC ACATAC -C-TAC ACATAC
1 ACATAC ACATAC ACATAC ACATA-C ACATAC ACATAC ACATAC ACATAC
4812768 ACATAC ACATAC ACATAC ACATAC ACATAC AC--AC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4812814 ACATAC ACATAC ACATAC AC-TAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4812861 ACATAC ACATAC ACATAC ACAT-- ACATAC ACAATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC AC-ATAC ACATAC ACATAC
4812908 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4812956 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4813004 ACATAC ACAT-- ACATAC ACATAC ACATAC ACATAC ACAT-- ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4813048 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4813096 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4813144 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4813192 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4813240 AC--AC ACATAC ACATAC -CATAC ACATAC ACATAC ACATAC ACAT-C
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4813284 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4813332 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACA-AC AC-TAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4813378 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4813426 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATACAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACAT--AC
4813476 ACATAC ACAT-- ACATAC ACATAC ACATAC ACATAC ACATAC ACA-AC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4813521 ACATAC ACATAC ACATAC ACATAC ACATAC ACATACC ACATA- ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATA-C ACATAC ACATAC
4813569 ACATAC ACATAC ACAT-C -CATA- ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4813614 ACAT-- ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4813660 ACATAC ACATAC ACATAC -CATAC ACA-AC -CA-AC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4813704 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4813752 ACAT-- ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC AC--AC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
* *
4813796 ATACAC ACATAC ACATAC ACATAC AC--AC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4813842 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4813890 ACATAAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACAT-AC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
*
4813939 ACATAC ATACATAC ACATAC ACATAC ACATAC ACATAC ACATAC -CATAT
1 ACATAC --ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4813988 ACATAC ACATAC ACATACAC ACATAC ACATAC ACATAC ACATAC AC-TAC
1 ACATAC ACATAC ACAT--AC ACATAC ACATAC ACATAC ACATAC ACATAC
4814037 ACATAC ACATAC -CATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
*
4814084 AC--AC ACATAC ACATAC AC--AC ACATCC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
*
4814128 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC CCATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4814176 AC-TAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
*
4814223 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACCTACC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATA-C
4814272 ACATAC ACATAC ACATAC ACATAC AC--AC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
*
4814318 ACATAC ACATAC ACATAC CCATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4814366 ACATAC ACATAC AC--AC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4814412 ACATAC -CATAC AC-TAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4814458 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4814506 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
*
4814554 ACATAC ACATAC ACATAC ACCT-- ACA-AC ACATAC ACATAC -C--AC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4814596 ACATAC ACAT-- ACATAC ACATAC ACATACAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACAT--AC ACATAC ACATAC ACATAC
4814644 ACATAC ACAT-- ACATAC ACATAC ACA-AC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4814689 ACATAC ACATAC ACATAC ACATAC ACAT-- ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4814735 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACAATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC AC-ATAC
*
4814784 ACATAC ACAGAC ACATAC ACATAC ACATAC ACAATAC ACATAC ACATACAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC AC-ATAC ACATAC ACAT--AC
4814835 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC -CATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4814882 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4814930 ACATAC -CATAC ACATAC ACAT-- ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4814975 ACATAC ACATAC ACATAC ACATAC ACCATAC -CATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC A-CATAC ACATAC ACATAC ACATAC
4815023 ACATAC ACATAC ACA-AC -CATAC ACACTAC ACATAC ACATAC -CATAC
1 ACATAC ACATAC ACATAC ACATAC ACA-TAC ACATAC ACATAC ACATAC
4815069 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC -CATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
*
4815116 ACATAC ACATAC ACATAC ACATAC ACATAC ATATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4815164 ACATAC ACATAC ACAT-- ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4815210 AC--AC ACATAC ACATAC ACATAC AC-TAC ACATAC ACATAC ACA-AC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4815254 ACATAC ACATAC ACATAC ACATAC ACATAC ACATA- ACATAC ACAT--
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
*
4815299 ACATAC ACCTAC AC-TAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
4815346 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC A
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC A
4815389 TATATATATA
Statistics
Matches: 2681, Mismatches: 23, Indels: 206
0.92 0.01 0.07
Matches are distributed among these distances:
3 2 0.00
4 98 0.04
5 141 0.05
6 2353 0.88
7 51 0.02
8 36 0.01
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (6 bp):
ACATAC
Found at i:4821125 original size:2 final size:2
Alignment explanation
Indices: 4821113--4821154 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
4821103 TTCATTGGCA
4821113 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4821154 A
1 A
4821155 CAATGCTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4821878 original size:16 final size:17
Alignment explanation
Indices: 4821852--4821888 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
4821842 GGTCATCTCT
4821852 TTTTAAATTTTTATATA
1 TTTTAAATTTTTATATA
*
4821869 TTTT-AATTTTTTTATA
1 TTTTAAATTTTTATATA
4821885 TTTT
1 TTTT
4821889 TATTGATAAT
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:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTAAATTTTTATATA
Found at i:4823964 original size:9 final size:9
Alignment explanation
Indices: 4823952--4824002 Score: 59
Period size: 9 Copynumber: 5.7 Consensus size: 9
4823942 ATTAGAAAAA
4823952 TTATTATTT
1 TTATTATTT
4823961 TTATTATTT
1 TTATTATTT
*
4823970 TTATTATTA
1 TTATTATTT
*
4823979 TTA-AATTTT
1 TTATTA-TTT
*
4823988 TTATTAATT
1 TTATTATTT
4823997 TTATTA
1 TTATTA
4824003 ATATATCCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
8 1 0.03
9 33 0.94
10 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (9 bp):
TTATTATTT
Found at i:4823966 original size:12 final size:12
Alignment explanation
Indices: 4823951--4824002 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
4823941 TATTAGAAAA
*
4823951 ATTATTATTTTT
1 ATTATTAATTTT
*
4823963 ATTATT-TTTATT
1 ATTATTAATT-TT
4823975 ATTATTAAATTTT
1 ATTATT-AATTTT
4823988 -TTATTAATTTT
1 ATTATTAATTTT
4823999 ATTA
1 ATTA
4824003 ATATATCCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
11 9 0.26
12 22 0.63
13 2 0.06
14 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
ATTATTAATTTT
Found at i:4825269 original size:11 final size:11
Alignment explanation
Indices: 4825253--4825277 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4825243 TTATAAATGT
4825253 AAGTAAATATA
1 AAGTAAATATA
4825264 AAGTAAATATA
1 AAGTAAATATA
4825275 AAG
1 AAG
4825278 CAATATCTTG
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:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (11 bp):
AAGTAAATATA
Found at i:4827511 original size:19 final size:21
Alignment explanation
Indices: 4827480--4827518 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
4827470 ATATGTCACA
4827480 TCATCACTTTTAG-TGATATG
1 TCATCACTTTTAGATGATATG
4827500 TCATCA-TTTTAGATGATAT
1 TCATCACTTTTAGATGATAT
4827519 ATGTCACATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (21 bp):
TCATCACTTTTAGATGATATG
Found at i:4827864 original size:105 final size:105
Alignment explanation
Indices: 4827754--4827949 Score: 340
Period size: 105 Copynumber: 1.9 Consensus size: 105
4827744 GTCTGGAGTT
*
4827754 TTTTTTTTGTCGTTATTCCTTGCTTTTATTACATATCACCAATTCACAACCCTCCTTTTTAATAT
1 TTTTTTTGGTCGTTATTCCTTGCTTTTATTACATATCACCAATTCACAACCCTCCTTTTTAATAT
4827819 TTTCCAATAACC-TAATCATTTTGATTAATCATCGGGATTA
66 TTTCCAATAACCAT-ATCATTTTGATTAATCATCGGGATTA
* *
4827859 TTTTTTTGGTCTTTATTCCTTTCTTTTATTACATATCACCAATTCACAACCCTCCTTTTTAATAT
1 TTTTTTTGGTCGTTATTCCTTGCTTTTATTACATATCACCAATTCACAACCCTCCTTTTTAATAT
*
4827924 TTTCCAATAACCATTTCATTTTGATT
66 TTTCCAATAACCATATCATTTTGATT
4827950 TTTGGGTTGG
Statistics
Matches: 86, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
105 85 0.99
106 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.05, T:0.49
Consensus pattern (105 bp):
TTTTTTTGGTCGTTATTCCTTGCTTTTATTACATATCACCAATTCACAACCCTCCTTTTTAATAT
TTTCCAATAACCATATCATTTTGATTAATCATCGGGATTA
Found at i:4847025 original size:199 final size:202
Alignment explanation
Indices: 4846683--4847085 Score: 785
Period size: 199 Copynumber: 2.0 Consensus size: 202
4846673 TCAGCTCAAT
4846683 TGAACCAAATGAGGTATTCAAAATCTTTTCATTCTGCGTTACTTGTGTTTTCAAACATGACCAAA
1 TGAACCAAATGAGGTATTCAAAATCTTTTCATTCTGCGTTACTTGTGTTTTCAAACATGACCAAA
4846748 GTGATTTTAGATGAAAATATAGAATCGAAGATTCAAGTCATTTACAATCTATGACTATCGATCGT
66 GTGATTTTAGATGAAAATATAGAATCGAAGATTCAAGTCATTTACAATCTATGACTATCGATCGT
4846813 ATTATCAAACAACTCGAGTTACACAACTCCCAAACTTATGCATGACAACAAGTCAATTCATTAT-
131 ATTATCAAACAACTCGAGTTACACAACTCCCAAACTTATGCATGACAACAAGTCAATTCATTATC
4846877 CTTCCAG
196 CTTCCAG
4846884 TGAACCAAATGAGGTATTCAAAATCTTTTCA-TCTGCG-TACTTGTGTTTTCAAACATGACCAAA
1 TGAACCAAATGAGGTATTCAAAATCTTTTCATTCTGCGTTACTTGTGTTTTCAAACATGACCAAA
4846947 GTGATTTTAGATGAAAATATAGAATCGAAGATTCAAGTCATTTACAATCTATGACTATCGATCGT
66 GTGATTTTAGATGAAAATATAGAATCGAAGATTCAAGTCATTTACAATCTATGACTATCGATCGT
4847012 ATTATCAAACAACTCGAGTTACACAACTCCCAAACTTATGCATGACAACAAGTCAATTCATTATC
131 ATTATCAAACAACTCGAGTTACACAACTCCCAAACTTATGCATGACAACAAGTCAATTCATTATC
4847077 CTTCCAG
196 CTTCCAG
4847084 TG
1 TG
4847086 TATTCACTCT
Statistics
Matches: 201, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
199 155 0.77
200 15 0.07
201 31 0.15
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.32
Consensus pattern (202 bp):
TGAACCAAATGAGGTATTCAAAATCTTTTCATTCTGCGTTACTTGTGTTTTCAAACATGACCAAA
GTGATTTTAGATGAAAATATAGAATCGAAGATTCAAGTCATTTACAATCTATGACTATCGATCGT
ATTATCAAACAACTCGAGTTACACAACTCCCAAACTTATGCATGACAACAAGTCAATTCATTATC
CTTCCAG
Found at i:4857230 original size:17 final size:19
Alignment explanation
Indices: 4857208--4857244 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
4857198 TTTGAGTGTT
4857208 TACAAT-TT-AATGTTGAA
1 TACAATATTAAATGTTGAA
4857225 TACAATATTCAAATGTTGAA
1 TACAATATT-AAATGTTGAA
4857245 ATAAACAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.35
18 2 0.12
20 9 0.53
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (19 bp):
TACAATATTAAATGTTGAA
Found at i:4860834 original size:13 final size:13
Alignment explanation
Indices: 4860816--4860847 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4860806 AACTTTCTTT
4860816 TATTTTCTTTTTG
1 TATTTTCTTTTTG
4860829 TATTTTCTTTTTG
1 TATTTTCTTTTTG
*
4860842 GATTTT
1 TATTTT
4860848 TATAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.09, C:0.06, G:0.09, T:0.75
Consensus pattern (13 bp):
TATTTTCTTTTTG
Found at i:4864949 original size:22 final size:22
Alignment explanation
Indices: 4864924--4864977 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
4864914 GGATAAGGAT
4864924 GTGTTTTGAT-ATAATTAAGTTA
1 GTGTTTTGATGA-AATTAAGTTA
*
4864946 GTGTTATGATGAAATTAAGTTA
1 GTGTTTTGATGAAATTAAGTTA
*
4864968 GAGTTTTGAT
1 GTGTTTTGAT
4864978 TGTAGAGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 27 0.96
23 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.46
Consensus pattern (22 bp):
GTGTTTTGATGAAATTAAGTTA
Found at i:4867322 original size:877 final size:876
Alignment explanation
Indices: 4864946--4867521 Score: 4200
Period size: 876 Copynumber: 3.0 Consensus size: 876
4864936 AATTAAGTTA
* * * *
4864946 GTGTTATGATGAAATTAAGTTAGAGTTTTGATTGTAGAGATTTTATAAGGTTGAATCGAAGCTAA
1 GTGTTTTGATGAAATTAAGTTAGGGTTTTGATTGTAGAGATTTTATAAGGTTGAATCGAAGTTGA
* * *
4865011 TTTCATGCTTGTATCGGATCCAAATTGAGTAAAATCATGAAAACCCTAATCTTGAACTTACAAAG
66 TTTCATGCTTGAATCGAATCCAAATTGAGTAAAATCATGAAAACCCTAATCTTGAACATACAAAG
** * * *
4865076 CATTTATCCTCGACTATCGAGGATAAGAAAAATTATGGAAAAATTAGGTAGGGCCTGAAAATGAT
131 CATTTGGCATTGACTATCGAGGATAAGAAAAATTATGGAAAAATTAGGTAGGGGCTGAAAATGAT
* * *
4865141 TAGGAAGTATTCTACAAACCTTGGAAAAATTTGGGGATCATTATGTAATTTTATAAAAG-TATGG
196 TAGGAAGTATTCTAAAAACCTTGGAAAAATTTGGGGACCATTCTGTAATTTTATAAAAGTTA-GG
* * *
4865205 GGACTTAATTGGAAATTTTGGAAAAGTTATTTGTTGTTGTTTAATTGTTTAATAGTTGATATACT
260 GGACTTAATTGGAAATTTTGGAAAAGTTGTTGGTTGTTGTTTAATTG-TTAATAGTTGATGTACT
* *
4865270 ATGCTCGAAATTAATGTTTGAGTGTTGAAATTGAAGTTAGGATGTGAAATTGGATTATTTTGGAA
324 ATGCTGGAAATTAATGTTTGAGTGTTGAAATTGAAGTTAGGATGTGAAATTGGATTATATTGGAA
*
4865335 AGCTTGTAAAAGTTGAGGCTTAAATCACAAATATGG-AAGGTTGAGAG----CT-----TA-ATT
389 AGCTTGTAAAAGTTGAGGCTTAAATCACAAATATGGAAAGGTTGAGAGTTAACTGAAAATACTTT
* * *
4865389 GAGAAATTTGGATAAAAAGGAACTTGAGTGGTCAATTATAAGTTTTAAGGTTAACACTTATGTTG
454 GTGAAATTGGGATAAAAAGGAACTTGAGTGGTCAATTATAAGTTTTAAGGTCAACACTTATGTTG
* *
4865454 TGACATGAAATTTCTATCGAATGAGCATAGAAAGATTTATTAGGAAATTATTTTCTAATGTGTGC
519 TGACATGGAATTTCTATCGAATGAGCATCGAAAGATTTATTAGGAAATTATTTTCTAATGTGTGC
* * * *
4865519 CTATGTTAATAAGATTCTAACATGTGGCTATATTGTATATGTTTTGTAATGATGATCATTTATAT
584 CTATGTTAGTAAGATTCTAACATGTGGTTATATTGTATATGTTTTGTAATGATGCTAATTTATAT
4865584 TGTGTGCTTGAAATCAAGATCAAGCAATATTAAAGCTAAGGAAAAGCTTAAGGATGAAATGGGAA
649 TGTGTGCTTGAAATCAAGATCAAGCAATATTAAAGCTAAGGAAAAGCTTAAGGATGAAATGGGAA
* *
4865649 ATTCTAAGGAAAGTTTGCAAGCTAAGGACACCAGGTGAGTGCAAATTTAAGTTGTACTTATGTTA
714 ATTCTAAGGAAGGTTTGCAAGCTAAGGACACCAGCTGAGTGCAAATTTAAGTTGTACTTATGTTA
***
4865714 TCGAACAAATATTAGCTTGCGATGAGCCAGTGACGGGGTTACTATGG-AAAGTAGTTACTTATTA
779 TCGAACAAATATTAGCTTGCGATGAGCCAGTGACAAAGTTACTATGGAAAAG-AGTTACTTATTA
* * *
4865778 AGTTTGGACCTAACCCTAATATTGGGAGAATGAT
843 AGTTTCGACCTAACCATAATATTGGGAGAAGGAT
4865812 GTGTTTTGATGAAATTAAGTTA-GGTTTTGATTGTAGAGATTTTATAAGGTTGAATC-AATGTTG
1 GTGTTTTGATGAAATTAAGTTAGGGTTTTGATTGTAGAGATTTTATAAGGTTGAATCGAA-GTTG
* * *
4865875 ATTTCTTGCTTGAATCGAATCCAATTTGAGTAAAATCATGAAAACCCTAATGTTGAACATACAAA
65 ATTTCATGCTTGAATCGAATCCAAATTGAGTAAAATCATGAAAACCCTAATCTTGAACATACAAA
* *
4865940 GCATTTGGCATTGACTATCGAGGATAAGAAAAATTATGGAAAAATTAGGTAAGGGCTGAAAATAA
130 GCATTTGGCATTGACTATCGAGGATAAGAAAAATTATGGAAAAATTAGGTAGGGGCTGAAAATGA
* * **
4866005 TTAGTAAGTATTCTAAAAACCTTGGAAAAATTTGGGGACTATTCTGTAAACTTATAAAA-TTAGG
195 TTAGGAAGTATTCTAAAAACCTTGGAAAAATTTGGGGACCATTCTGTAATTTTATAAAAGTTAGG
* *
4866069 GAACTTATTTGGAAATTTTGGAAAAGTTGTTGGTTGTTGTTTAATTGATTAATAGTTGATGTACT
260 GGACTTAATTGGAAATTTTGGAAAAGTTGTTGGTTGTTGTTTAATTG-TTAATAGTTGATGTACT
*
4866134 TTGCTGGAAATTAATGTTTGAGTGTTGAAATTGAAGTTAGGATGTGAAATTGGATTATATTGGAA
324 ATGCTGGAAATTAATGTTTGAGTGTTGAAATTGAAGTTAGGATGTGAAATTGGATTATATTGGAA
* *
4866199 AACTTATAAAAGTTGAGGCTTAAATCACAAATATGGAAAGGTTGAGAGCTTAACTGAAAATACTT
389 AGCTTGTAAAAGTTGAGGCTTAAATCACAAATATGGAAAGGTTGAGAG-TTAACTGAAAATACTT
*
4866264 TGTGAAATTGGGATAAAAAGGAACTTGAGTGGCCAATTATAAGTTTTAAGGTCAACACTTATGTT
453 TGTGAAATTGGGATAAAAAGGAACTTGAGTGGTCAATTATAAGTTTTAAGGTCAACACTTATGTT
* *
4866329 GTGACATGGAATTTCTATCGAATGAGCGTCGAAAGATTTATTAAGAAATTATTTTCTAATGTGTG
518 GTGACATGGAATTTCTATCGAATGAGCATCGAAAGATTTATTAGGAAATTATTTTCTAATGTGTG
*
4866394 CCTATGTTAGTAAGATTCTAACATGTTGTTATATTGTATATGTTTTGTAATGATGCTAATTTATA
583 CCTATGTTAGTAAGATTCTAACATGTGGTTATATTGTATATGTTTTGTAATGATGCTAATTTATA
* *
4866459 TTGTGTGCTTGAAATCAAGATCAAGCAATATTTAAGCTAAGGAAAAGCTTAAGGATGAAATGAGA
648 TTGTGTGCTTGAAATCAAGATCAAGCAATATTAAAGCTAAGGAAAAGCTTAAGGATGAAATGGGA
4866524 AATTCTAAGGAAGGTTTGCAAGCTAAGGACACCAGCTGAGTGCAAATTTAAGTTGTACTTATGTT
713 AATTCTAAGGAAGGTTTGCAAGCTAAGGACACCAGCTGAGTGCAAATTTAAGTTGTACTTATGTT
* *
4866589 ATCGGAA-AAATATAAGCTTGCG-TGAGCCAGTGGCAAAGTTACTATGGAAAAGAGTTACTTATT
778 ATC-GAACAAATATTAGCTTGCGATGAGCCAGTGACAAAGTTACTATGGAAAAGAGTTACTTATT
*
4866652 AAGTTTCGACCTAACCATAATCTTGGGAGAAGGAT
842 AAGTTTCGACCTAACCATAATATTGGGAGAAGGAT
* *
4866687 GTGTTTTGATGAAATTAAGTTAGGGTTTTGATTGTAGAGATTTTGTAAGGCTGAATCGAAGTTGA
1 GTGTTTTGATGAAATTAAGTTAGGGTTTTGATTGTAGAGATTTTATAAGGTTGAATCGAAGTTGA
* *
4866752 TTTCATGCTTAAATCGAATCTAAATTGAGTAAAATCATGAAAACCCTAATCTTGAACATACAAAG
66 TTTCATGCTTGAATCGAATCCAAATTGAGTAAAATCATGAAAACCCTAATCTTGAACATACAAAG
4866817 CATTTGGCATTGACTATCGAGGATAAGAAAAATTATGGAAAAATTAGGTAGGGGCT-AAAATTGA
131 CATTTGGCATTGACTATCGAGGATAAGAAAAATTATGGAAAAATTAGGTAGGGGCTGAAAA-TGA
* * **
4866881 TTAGGAAGTATTCTATAAACCTTAGAAAAATTTGGGGACCATTCCATAATTTTATAAAAGTTAGG
195 TTAGGAAGTATTCTAAAAACCTTGGAAAAATTTGGGGACCATTCTGTAATTTTATAAAAGTTAGG
* * *
4866946 GGACCTAATTGGAGATTTTGGAAAAGTTGTTGGTTGTTATTTAATTGTTCAATAGTTGATGTACT
260 GGACTTAATTGGAAATTTTGGAAAAGTTGTTGGTTGTTGTTTAATTGTT-AATAGTTGATGTACT
4867011 ATGCTGGAAATTAATGTTTGAGTGTTGAAATTGAAGTTAGGATGTGAAATTGGATTATATTGGAA
324 ATGCTGGAAATTAATGTTTGAGTGTTGAAATTGAAGTTAGGATGTGAAATTGGATTATATTGGAA
4867076 AGCTTGTAAAAGTTGAGGCTTAAATCACAAATATGGAAAGGTTGAGAGATTAACTGAAAATACTT
389 AGCTTGTAAAAGTTGAGGCTTAAATCACAAATATGGAAAGGTTGAGAG-TTAACTGAAAATACTT
4867141 TGTGAAATTGGGATAAAAAGGAACTTGAGTGGTCAATTATAAGTTTTAAGGTCAACACTTATGTT
453 TGTGAAATTGGGATAAAAAGGAACTTGAGTGGTCAATTATAAGTTTTAAGGTCAACACTTATGTT
* * *
4867206 GTGATATGGAATTTCTATCGAATGAGCATCGGAAGATTTATTAGGAAATTATTTTATAATGTGTG
518 GTGACATGGAATTTCTATCGAATGAGCATCGAAAGATTTATTAGGAAATTATTTTCTAATGTGTG
* *
4867271 CCTATGTTAGTAAGATTTTAACATGTGGTTATATTGCATATGTTTTGTAATGATGCTAATTTATA
583 CCTATGTTAGTAAGATTCTAACATGTGGTTATATTGTATATGTTTTGTAATGATGCTAATTTATA
*
4867336 TTGTGTGCTTGAAATCAATATCAAGCAATATTAAAGCTAAGGAAAAGCTTAAGGATGAAATGGGA
648 TTGTGTGCTTGAAATCAAGATCAAGCAATATTAAAGCTAAGGAAAAGCTTAAGGATGAAATGGGA
4867401 AATTCTAAGGAAGGTTTGCAAGCTAAGGACACCAGCTGAGTGCAAATTTAAGTTGTACTTATGTT
713 AATTCTAAGGAAGGTTTGCAAGCTAAGGACACCAGCTGAGTGCAAATTTAAGTTGTACTTATGTT
* * *
4867466 ATCGAACAAATATTAGCTTGCGATGAGCCAATGACATAGTTACTATGGAAAGGAGT
778 ATCGAACAAATATTAGCTTGCGATGAGCCAGTGACAAAGTTACTATGGAAAAGAGT
4867522 GACTCCTAAA
Statistics
Matches: 1582, Mismatches: 105, Indels: 34
0.92 0.06 0.02
Matches are distributed among these distances:
864 159 0.10
865 217 0.14
866 21 0.01
870 2 0.00
875 91 0.06
876 540 0.34
877 523 0.33
878 29 0.02
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.34
Consensus pattern (876 bp):
GTGTTTTGATGAAATTAAGTTAGGGTTTTGATTGTAGAGATTTTATAAGGTTGAATCGAAGTTGA
TTTCATGCTTGAATCGAATCCAAATTGAGTAAAATCATGAAAACCCTAATCTTGAACATACAAAG
CATTTGGCATTGACTATCGAGGATAAGAAAAATTATGGAAAAATTAGGTAGGGGCTGAAAATGAT
TAGGAAGTATTCTAAAAACCTTGGAAAAATTTGGGGACCATTCTGTAATTTTATAAAAGTTAGGG
GACTTAATTGGAAATTTTGGAAAAGTTGTTGGTTGTTGTTTAATTGTTAATAGTTGATGTACTAT
GCTGGAAATTAATGTTTGAGTGTTGAAATTGAAGTTAGGATGTGAAATTGGATTATATTGGAAAG
CTTGTAAAAGTTGAGGCTTAAATCACAAATATGGAAAGGTTGAGAGTTAACTGAAAATACTTTGT
GAAATTGGGATAAAAAGGAACTTGAGTGGTCAATTATAAGTTTTAAGGTCAACACTTATGTTGTG
ACATGGAATTTCTATCGAATGAGCATCGAAAGATTTATTAGGAAATTATTTTCTAATGTGTGCCT
ATGTTAGTAAGATTCTAACATGTGGTTATATTGTATATGTTTTGTAATGATGCTAATTTATATTG
TGTGCTTGAAATCAAGATCAAGCAATATTAAAGCTAAGGAAAAGCTTAAGGATGAAATGGGAAAT
TCTAAGGAAGGTTTGCAAGCTAAGGACACCAGCTGAGTGCAAATTTAAGTTGTACTTATGTTATC
GAACAAATATTAGCTTGCGATGAGCCAGTGACAAAGTTACTATGGAAAAGAGTTACTTATTAAGT
TTCGACCTAACCATAATATTGGGAGAAGGAT
Found at i:4869105 original size:19 final size:20
Alignment explanation
Indices: 4869059--4869105 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
4869049 CTGCAATTTC
4869059 TTAATA-TAACTAGTATTAA
1 TTAATATTAACTAGTATTAA
*
4869078 AT-ATAATTAA-TAGTATTAA
1 TTAAT-ATTAACTAGTATTAA
4869097 TTAATATTA
1 TTAATATTA
4869106 TGTTATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
18 2 0.09
19 16 0.70
20 5 0.22
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (20 bp):
TTAATATTAACTAGTATTAA
Found at i:4869994 original size:21 final size:21
Alignment explanation
Indices: 4869970--4870020 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
4869960 ACTCATGGAA
*
4869970 TGGTAATTCCATCTGATCAGC
1 TGGTAATTCCACCTGATCAGC
4869991 TGGTAATTCCACCTGATCAGC
1 TGGTAATTCCACCTGATCAGC
4870012 TGGTAATTC
1 TGGTAATTC
4870021 AACTTCTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.33
Consensus pattern (21 bp):
TGGTAATTCCACCTGATCAGC
Found at i:4874235 original size:33 final size:33
Alignment explanation
Indices: 4874190--4874280 Score: 103
Period size: 33 Copynumber: 2.8 Consensus size: 33
4874180 TATACTAGCA
*
4874190 ATGTGTCACATTCAGATAATACACAACAGTCTC
1 ATGTGTCACATTCAGATAATACACAACAATCTC
* * *
4874223 ATGTGTCGCATTCATATAATGA-ACAACAATGTC
1 ATGTGTCACATTCAGATAAT-ACACAACAATCTC
* * *
4874256 ATGTTTCACATTTAGATAATGCACA
1 ATGTGTCACATTCAGATAATACACA
4874281 GTAGTGTCTC
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
33 46 0.98
34 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (33 bp):
ATGTGTCACATTCAGATAATACACAACAATCTC
Found at i:4874454 original size:29 final size:29
Alignment explanation
Indices: 4874422--4874508 Score: 79
Period size: 29 Copynumber: 2.9 Consensus size: 29
4874412 TTTTATTTGA
4874422 TTAATGACCAAAATATAAATTTTAAAAGT
1 TTAATGACCAAAATATAAATTTTAAAAGT
* *
4874451 TTAATG-GCAAAAGTATAAACTTTGGAAAAGT
1 TTAATGACCAAAA-TATAAA-TTT-TAAAAGT
* * *
4874482 TCAAGGACCAAAATGGT-AATTTTAAAA
1 TTAATGACCAAAAT-ATAAATTTTAAAA
4874509 AGTTACATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
28 5 0.11
29 16 0.35
30 6 0.13
31 13 0.28
32 6 0.13
ACGTcount: A:0.48, C:0.08, G:0.14, T:0.30
Consensus pattern (29 bp):
TTAATGACCAAAATATAAATTTTAAAAGT
Found at i:4875419 original size:167 final size:169
Alignment explanation
Indices: 4875143--4875481 Score: 664
Period size: 167 Copynumber: 2.0 Consensus size: 169
4875133 ATCTATTCAA
4875143 AAAACGCTATCTTTTGGTACCAATTATGCTTGCTCAACTTGCTTGATTTCAAATATCCCAAAATC
1 AAAACGCTATCTTTTGGTACCAATTATGCTTGCTCAACTTGCTTGATTTCAAATATCCCAAAATC
4875208 TTAGGGTTTGTGTTCACATAGGGTTCTTGAAGTTGATGATAAATCTTGATGATTTAGAGGTTGTA
66 TTAGGGTTTGTGTTCACATAGGGTTCTTGAAGTTGATGATAAATCTTGATGATTTAGAGGTTGTA
4875273 GATTCATTTT-AACTTTGA-TTATGATTAGAACATATTC
131 GATTCATTTTCAACTTTGATTTATGATTAGAACATATTC
4875310 AAAACGCTATCTTTTGGTACCAATTATGCTTGCTCAACTTGCTTGATTTCAAATATCCCAAAATC
1 AAAACGCTATCTTTTGGTACCAATTATGCTTGCTCAACTTGCTTGATTTCAAATATCCCAAAATC
4875375 TTAGGGTTTGTGTTCACATAGGGTTCTTGAAGTTGATGATAAATCTTGATGATTTAGAGGTTGTA
66 TTAGGGTTTGTGTTCACATAGGGTTCTTGAAGTTGATGATAAATCTTGATGATTTAGAGGTTGTA
4875440 GATTCATTTTCAACTTTGATTTATGATTAGAACATATTC
131 GATTCATTTTCAACTTTGATTTATGATTAGAACATATTC
4875479 AAA
1 AAA
4875482 CTTCCTAGAA
Statistics
Matches: 170, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
167 140 0.82
168 8 0.05
169 22 0.13
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (169 bp):
AAAACGCTATCTTTTGGTACCAATTATGCTTGCTCAACTTGCTTGATTTCAAATATCCCAAAATC
TTAGGGTTTGTGTTCACATAGGGTTCTTGAAGTTGATGATAAATCTTGATGATTTAGAGGTTGTA
GATTCATTTTCAACTTTGATTTATGATTAGAACATATTC
Found at i:4879664 original size:33 final size:33
Alignment explanation
Indices: 4879617--4879712 Score: 95
Period size: 33 Copynumber: 2.9 Consensus size: 33
4879607 ATACGATGGT
* * *
4879617 GATGGAAGTAGAGGTGAATGAATAGGTGATTAA
1 GATGGAAATAGAGGTGAATAAAGAGGTGATTAA
* *
4879650 GATGGAAATGGAGGTGAATAAAGAGGTGGTTAA
1 GATGGAAATAGAGGTGAATAAAGAGGTGATTAA
* * * *
4879683 GATAGAAGTA-AGGATGAATGAGGAGGTGAT
1 GATGGAAATAGAGG-TGAATAAAGAGGTGAT
4879713 GTCAAATGTA
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
32 3 0.06
33 48 0.94
ACGTcount: A:0.40, C:0.00, G:0.39, T:0.22
Consensus pattern (33 bp):
GATGGAAATAGAGGTGAATAAAGAGGTGATTAA
Found at i:4883930 original size:28 final size:29
Alignment explanation
Indices: 4883887--4883975 Score: 126
Period size: 29 Copynumber: 3.1 Consensus size: 29
4883877 AGTCCATTAT
* * *
4883887 TCTTTTATTAAACAGTGTTTAACCGTTCA
1 TCTTTTACTCAACAGTGTTTAACCATTCA
* *
4883916 TCTTTT-CTCAACAGTGTTTGACCTTTCA
1 TCTTTTACTCAACAGTGTTTAACCATTCA
4883944 TCTTTTACTCAACAGTGTTTAACCATTCA
1 TCTTTTACTCAACAGTGTTTAACCATTCA
4883973 TCT
1 TCT
4883976 AACTAGTATA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
28 24 0.45
29 29 0.55
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.45
Consensus pattern (29 bp):
TCTTTTACTCAACAGTGTTTAACCATTCA
Found at i:4884662 original size:82 final size:82
Alignment explanation
Indices: 4884499--4884796 Score: 391
Period size: 79 Copynumber: 3.7 Consensus size: 82
4884489 ATTTATGGCA
* * * * *
4884499 TCTTTTTTACCGATAATGCACCCATATGCATTTCAACCATGGCATC--C-TTTCATGCCAATAGT
1 TCTTTTATACTGATAATGCACCCATATGCATTTCAGCTATGGCATCATCATTTCATGCCAATAAT
4884561 GCACCCATATGCATTAT
66 GCACCCATATGCATTAT
* * * *
4884578 TCTTTTATGCTGATAACGCACCCATATGCATTTCATCTATGGCATCATCATTTCATACCAATAAT
1 TCTTTTATACTGATAATGCACCCATATGCATTTCAGCTATGGCATCATCATTTCATGCCAATAAT
4884643 GCACCCATATGCATTAT
66 GCACCCATATGCATTAT
* *
4884660 TCTTTTATACCGATAATGCACCCATATGCATTTCAGCTAT-G--TCATCATTTCATGCCAATGAT
1 TCTTTTATACTGATAATGCACCCATATGCATTTCAGCTATGGCATCATCATTTCATGCCAATAAT
*
4884722 GCACCTATATGCATTAT
66 GCACCCATATGCATTAT
* *
4884739 TCTTTTATTA-TGATAATGCACCCATATGCGTTTTAGCTATGGCATC--C-TTTCATGCCAA
1 TCTTTTA-TACTGATAATGCACCCATATGCATTTCAGCTATGGCATCATCATTTCATGCCAA
4884797 GTTAATTATG
Statistics
Matches: 194, Mismatches: 18, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
79 120 0.62
80 4 0.02
81 2 0.01
82 68 0.35
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.36
Consensus pattern (82 bp):
TCTTTTATACTGATAATGCACCCATATGCATTTCAGCTATGGCATCATCATTTCATGCCAATAAT
GCACCCATATGCATTAT
Found at i:4885368 original size:95 final size:97
Alignment explanation
Indices: 4885206--4885415 Score: 253
Period size: 95 Copynumber: 2.2 Consensus size: 97
4885196 TCGATACTAC
* * * * ** ** *
4885206 TACCATGGTACCGATACTTCTATACTATGGTACTGATACCTCCTTTTAGTATCAATACCTATTTT
1 TACCATGGTATCGATACTACAATACTATGGTACTGATACCCCCTTACAGTATCAATACAAATATT
*
4885271 AGGTT-CGATG-TTGCATGGTATCAATACCCT
66 AGGTTGCGATGTTTGCATAGTATCAATACCCT
* * *
4885301 TACCACGGTATCGATACTACAATACTATGGTACTGATACCCCCTTACGGTATCGATACAAATATT
1 TACCATGGTATCGATACTACAATACTATGGTACTGATACCCCCTTACAGTATCAATACAAATATT
* **
4885366 AGGTTGCGATGTTTGCTTAGTATTGATACCCT
66 AGGTTGCGATGTTTGCATAGTATCAATACCCT
*
4885398 TACTATGGTATCGATACT
1 TACCATGGTATCGATACT
4885416 GCCTCAATGG
Statistics
Matches: 95, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
95 58 0.61
96 5 0.05
97 32 0.34
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (97 bp):
TACCATGGTATCGATACTACAATACTATGGTACTGATACCCCCTTACAGTATCAATACAAATATT
AGGTTGCGATGTTTGCATAGTATCAATACCCT
Found at i:4889114 original size:19 final size:19
Alignment explanation
Indices: 4889069--4889106 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
4889059 TTTTTGATCC
4889069 CTTGTTTGTTTTTGAATTT
1 CTTGTTTGTTTTTGAATTT
4889088 CTTGTTTGTATTTT-AATTT
1 CTTGTTTGT-TTTTGAATTT
4889107 TTGATTTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.13, C:0.05, G:0.13, T:0.68
Consensus pattern (19 bp):
CTTGTTTGTTTTTGAATTT
Found at i:4890285 original size:11 final size:10
Alignment explanation
Indices: 4890252--4890286 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
4890242 TTTTTTCAAA
*
4890252 AAAAAAAAAC
1 AAAAAAAAGC
4890262 AAAAAAAAGC
1 AAAAAAAAGC
4890272 AAAAAAAAGCC
1 AAAAAAAAG-C
4890283 AAAA
1 AAAA
4890287 TTTCAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 18 0.78
11 5 0.22
ACGTcount: A:0.83, C:0.11, G:0.06, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGC
Found at i:4912616 original size:37 final size:37
Alignment explanation
Indices: 4912575--4912657 Score: 123
Period size: 37 Copynumber: 2.3 Consensus size: 37
4912565 AACTTCCTCC
4912575 ATTTTCTCTTATTTTCTCCCAAACAAGCTAATCAATT
1 ATTTTCTCTTATTTTCTCCCAAACAAGCTAATCAATT
* * * *
4912612 ATTTTCTCTCATTTTCTCTCAAACAAGTTGATCAATT
1 ATTTTCTCTTATTTTCTCCCAAACAAGCTAATCAATT
4912649 -TTTTCTCTT
1 ATTTTCTCTT
4912658 TTTCTTCTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
36 8 0.20
37 33 0.80
ACGTcount: A:0.25, C:0.23, G:0.04, T:0.48
Consensus pattern (37 bp):
ATTTTCTCTTATTTTCTCCCAAACAAGCTAATCAATT
Found at i:4914831 original size:2 final size:2
Alignment explanation
Indices: 4914824--4914854 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4914814 TATTCTCCAA
4914824 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4914855 ATAATGTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4915556 original size:53 final size:53
Alignment explanation
Indices: 4915492--4915595 Score: 172
Period size: 53 Copynumber: 2.0 Consensus size: 53
4915482 TAATGTAACG
* * *
4915492 AAATGGTAATTCACAAACTCATTATGAATACCATGCTTGCACAGATAGTGCAA
1 AAATGATAATTCACAAACTCATTATGAATACCATGCATGCACACATAGTGCAA
*
4915545 AAATGATAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGC
1 AAATGATAATTCACAAACTCATTATGAATACCATGCATGCACACATAGTGC
4915596 CGAAAGTACA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.26
Consensus pattern (53 bp):
AAATGATAATTCACAAACTCATTATGAATACCATGCATGCACACATAGTGCAA
Found at i:4917661 original size:29 final size:29
Alignment explanation
Indices: 4917615--4917696 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
4917605 TATCTGATAT
* *
4917615 TTTCTAAAGTTTATATTTTGGTCACTAAAC
1 TTTC-AAATTTTACATTTTGGTCACTAAAC
4917645 TTTCAAATTTTACATTTTGGTCACTAAAC
1 TTTCAAATTTTACATTTTGGTCACTAAAC
4917674 TTTCAAATTTTACATTTTGGTCA
1 TTTCAAATTTTACATTTTGGTCA
4917697 TTAATAAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.48
Consensus pattern (29 bp):
TTTCAAATTTTACATTTTGGTCACTAAAC
Found at i:4925484 original size:53 final size:53
Alignment explanation
Indices: 4925414--4925524 Score: 186
Period size: 53 Copynumber: 2.1 Consensus size: 53
4925404 ACTAATGTAA
* * *
4925414 CGAAATGATAATTCACAAACTCATTATGAATACCATGGGTGCACACATAGTGC
1 CGAAATGATAATCCACAAACTCATTATGAATACCATAGATGCACACATAGTGC
*
4925467 CGAAATGGTAATCCACAAACTCATTATGAATACCATAGATGCACACATAGTGC
1 CGAAATGATAATCCACAAACTCATTATGAATACCATAGATGCACACATAGTGC
4925520 CGAAA
1 CGAAA
4925525 GCACACAAAG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.23
Consensus pattern (53 bp):
CGAAATGATAATCCACAAACTCATTATGAATACCATAGATGCACACATAGTGC
Found at i:4927073 original size:11 final size:11
Alignment explanation
Indices: 4927057--4927081 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4927047 TTTCATGTTA
4927057 AATTTATCTTT
1 AATTTATCTTT
4927068 AATTTATCTTT
1 AATTTATCTTT
4927079 AAT
1 AAT
4927082 GAATATTAAA
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:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (11 bp):
AATTTATCTTT
Found at i:4933898 original size:18 final size:18
Alignment explanation
Indices: 4933856--4933901 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
4933846 TAGTTTGATT
* *
4933856 AATGAAATAACATTATTT
1 AATGAACTAACATTATTC
*
4933874 AATGAACTAACTTTATTC
1 AATGAACTAACATTATTC
4933892 AATGAACTAA
1 AATGAACTAA
4933902 ATGCATGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.35
Consensus pattern (18 bp):
AATGAACTAACATTATTC
Found at i:4935106 original size:19 final size:19
Alignment explanation
Indices: 4935055--4935111 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 19
4935045 AATGTGATCA
*
4935055 TTTTC-ACTCTCAATTCTC
1 TTTTCAACTCTCAATTATC
4935073 TTTTCAATGCTCTCAATGTAT-
1 TTTTCAA--CTCTCAAT-TATC
*
4935094 TTTTCAACTCTCATTTAT
1 TTTTCAACTCTCAATTAT
4935112 TCTTCTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
18 8 0.24
19 8 0.24
21 15 0.45
22 2 0.06
ACGTcount: A:0.21, C:0.25, G:0.04, T:0.51
Consensus pattern (19 bp):
TTTTCAACTCTCAATTATC
Found at i:4938944 original size:2 final size:2
Alignment explanation
Indices: 4938876--4938927 Score: 50
Period size: 2 Copynumber: 26.0 Consensus size: 2
4938866 CGATATTAAC
* * * * * *
4938876 AT AT AT AT AT AT AT AT AT AT GT AT GT GT GT GT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4938918 AT AT AT AT AT
1 AT AT AT AT AT
4938928 CATACTAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4939572 original size:49 final size:49
Alignment explanation
Indices: 4939507--4939613 Score: 169
Period size: 49 Copynumber: 2.2 Consensus size: 49
4939497 CGTCCTCGTA
* *
4939507 CCGTCCCCGTGCTAGGGACCTTTCAGGTAATTGAAACGGCCTTCCTCTG
1 CCGTCCCCGAGCTAGGGACATTTCAGGTAATTGAAACGGCCTTCCTCTG
* *
4939556 CCGTCCCCGAGCTAGGGACATTTCGGGTACTTGAAACGGCCTTCCTCTG
1 CCGTCCCCGAGCTAGGGACATTTCAGGTAATTGAAACGGCCTTCCTCTG
*
4939605 TCGTCCCCG
1 CCGTCCCCG
4939614 TGCAACATAG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.15, C:0.35, G:0.25, T:0.25
Consensus pattern (49 bp):
CCGTCCCCGAGCTAGGGACATTTCAGGTAATTGAAACGGCCTTCCTCTG
Found at i:4947818 original size:16 final size:16
Alignment explanation
Indices: 4947797--4947827 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4947787 TGCTTCAACT
4947797 TTTCTTTTCTTTTTCA
1 TTTCTTTTCTTTTTCA
4947813 TTTCTTTTCTTTTTC
1 TTTCTTTTCTTTTTC
4947828 TTCCTTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTCTTTTCTTTTTCA
Found at i:4947836 original size:16 final size:16
Alignment explanation
Indices: 4947800--4947835 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
4947790 TTCAACTTTT
*
4947800 CTTTTCTTTTTCATTT
1 CTTTTCTTTTTCATTC
4947816 CTTTTCTTTTTC-TTC
1 CTTTTCTTTTTCATTC
4947831 CTTTT
1 CTTTT
4947836 TGAGTGCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (16 bp):
CTTTTCTTTTTCATTC
Found at i:4947863 original size:23 final size:25
Alignment explanation
Indices: 4947824--4947877 Score: 76
Period size: 23 Copynumber: 2.2 Consensus size: 25
4947814 TTCTTTTCTT
4947824 TTTCTTCCTTTTTGAGTGCTTTCAA
1 TTTCTTCCTTTTTGAGTGCTTTCAA
* *
4947849 TTTCTT-C-TTTTGAGTGCTTTGAT
1 TTTCTTCCTTTTTGAGTGCTTTCAA
4947872 TTTCTT
1 TTTCTT
4947878 TGCTGGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 20 0.74
24 1 0.04
25 6 0.22
ACGTcount: A:0.09, C:0.17, G:0.13, T:0.61
Consensus pattern (25 bp):
TTTCTTCCTTTTTGAGTGCTTTCAA
Found at i:4952605 original size:44 final size:46
Alignment explanation
Indices: 4952485--4952611 Score: 179
Period size: 48 Copynumber: 2.8 Consensus size: 46
4952475 TATAAAATTT
4952485 CTTACCATTTATTCCATAAGCTCATAAGCTTATTTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCATAAGCTTATTTTTACCAAAATA
* *
4952531 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTT-CCAATATA
1 CTTACCATTT--ATTCCATAAGCTCATAAGCTTATTTTTACCAAAATA
*
4952578 CTTGCCA-TTATTCCGA-AAGCTCATAAGCTTATTT
1 CTTACCATTTATTCC-ATAAGCTCATAAGCTTATTT
4952612 GCATGGTTAC
Statistics
Matches: 74, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
44 22 0.30
45 1 0.01
46 12 0.16
47 13 0.18
48 26 0.35
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.39
Consensus pattern (46 bp):
CTTACCATTTATTCCATAAGCTCATAAGCTTATTTTTACCAAAATA
Found at i:4952808 original size:40 final size:40
Alignment explanation
Indices: 4952711--4952912 Score: 293
Period size: 40 Copynumber: 5.0 Consensus size: 40
4952701 ACCGTAGTGC
4952711 TACACATAAGGTCGTGCCCACCATATACA-C-AAGTGTA-
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
** ** *
4952748 TACAGTGTACACATAAGTGCCCACCATATACACCGAAGTGTAT
1 TACA-CATA-AGGT-CGTGCCCACCATATACACCGAAGTGTAT
4952791 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
4952831 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGCAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
4952871 TACACATAAGGTCGTGCCCACCATATACATCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
4952911 TA
1 TA
4952913 TAAACCTTCA
Statistics
Matches: 146, Mismatches: 13, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
37 4 0.03
38 2 0.01
39 2 0.01
40 122 0.84
41 3 0.02
42 9 0.06
43 4 0.03
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:4953789 original size:77 final size:78
Alignment explanation
Indices: 4953694--4953849 Score: 305
Period size: 77 Copynumber: 2.0 Consensus size: 78
4953684 CAGAATCTGC
4953694 TGTCCGATTTTTCTGACCTTTCCTTGGTTAAAAATTTATATCTCTTTGTATACACCTTGAAATTG
1 TGTCCGATTTTTCTGACCTTTCCTTGGTTAAAAATTTATATCTCTTTGTATACACCTTGAAATTG
4953759 ATCCCCGTTTGTT
66 ATCCCCGTTTGTT
4953772 TGTCCGA-TTTTCTGACCTTTCCTTGGTTAAAAATTTATATCTCTTTGTATACACCTTGAAATTG
1 TGTCCGATTTTTCTGACCTTTCCTTGGTTAAAAATTTATATCTCTTTGTATACACCTTGAAATTG
4953836 ATCCCCGTTTGTT
66 ATCCCCGTTTGTT
4953849 T
1 T
4953850 TAAACGAAAC
Statistics
Matches: 78, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
77 71 0.91
78 7 0.09
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.46
Consensus pattern (78 bp):
TGTCCGATTTTTCTGACCTTTCCTTGGTTAAAAATTTATATCTCTTTGTATACACCTTGAAATTG
ATCCCCGTTTGTT
Found at i:4954430 original size:36 final size:36
Alignment explanation
Indices: 4954383--4954460 Score: 147
Period size: 36 Copynumber: 2.2 Consensus size: 36
4954373 TTCCATTTTT
*
4954383 GCCATTAATGAATCTCCATATTCACCATAAAACCAA
1 GCCATCAATGAATCTCCATATTCACCATAAAACCAA
4954419 GCCATCAATGAATCTCCATATTCACCATAAAACCAA
1 GCCATCAATGAATCTCCATATTCACCATAAAACCAA
4954455 GCCATC
1 GCCATC
4954461 TGATCATTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.40, C:0.31, G:0.06, T:0.23
Consensus pattern (36 bp):
GCCATCAATGAATCTCCATATTCACCATAAAACCAA
Found at i:4965821 original size:19 final size:20
Alignment explanation
Indices: 4965797--4965845 Score: 82
Period size: 19 Copynumber: 2.5 Consensus size: 20
4965787 GCCAAATTCT
4965797 TGTATTTTCATTAA-AATCA
1 TGTATTTTCATTAATAATCA
4965816 TGTATTTTCATTAATAATCA
1 TGTATTTTCATTAATAATCA
*
4965836 TATATTTTCA
1 TGTATTTTCA
4965846 AAGGGGTCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.35, C:0.10, G:0.04, T:0.51
Consensus pattern (20 bp):
TGTATTTTCATTAATAATCA
Found at i:4969535 original size:19 final size:20
Alignment explanation
Indices: 4969508--4969556 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
4969498 GCCAAATTCT
*
4969508 TGTAATTTCATTA-AAATCA
1 TGTATTTTCATTATAAATCA
*
4969527 TGTATTTTCATTATTAATCA
1 TGTATTTTCATTATAAATCA
*
4969547 TTTATTTTCA
1 TGTATTTTCA
4969557 AAGGGGTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.53
Consensus pattern (20 bp):
TGTATTTTCATTATAAATCA
Found at i:4972468 original size:2 final size:2
Alignment explanation
Indices: 4972461--4972530 Score: 119
Period size: 2 Copynumber: 36.5 Consensus size: 2
4972451 GTTTCTAGTT
4972461 TA TA TA TA TA TA T- TA TA T- TA -A 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
4972500 TA 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 TA T
4972531 GGTTAATAAT
Statistics
Matches: 65, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
1 3 0.05
2 62 0.95
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4974758 original size:27 final size:25
Alignment explanation
Indices: 4974728--4974783 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
4974718 TTAGGGATGA
*
4974728 TTTTAGGAATTTTTAGA-AATTTATGTT
1 TTTTA-GAA-TTTTAGAGAAATTA-GTT
*
4974755 TTTTATAATTTTAGAGAAATTAGTT
1 TTTTAGAATTTTAGAGAAATTAGTT
4974780 TTTT
1 TTTT
4974784 TTAGATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 14 0.54
26 7 0.27
27 5 0.19
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.57
Consensus pattern (25 bp):
TTTTAGAATTTTAGAGAAATTAGTT
Found at i:4976095 original size:17 final size:17
Alignment explanation
Indices: 4976070--4976110 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
4976060 TCATTCAATA
*
4976070 AAACAAGTTCACT-AATT
1 AAACTAGTTCA-TAAATT
4976087 AAACTAGTTCATAAATT
1 AAACTAGTTCATAAATT
4976104 AAACTAG
1 AAACTAG
4976111 CTTATTTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 1 0.05
17 21 0.95
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (17 bp):
AAACTAGTTCATAAATT
Found at i:4977035 original size:21 final size:21
Alignment explanation
Indices: 4977009--4977066 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
4976999 CCCTTTACAA
4977009 AAAAGGTTCGATCCCTAGA-G
1 AAAAGGTTCGATCCCTAGATG
* *
4977029 TAAAAGGATCGATCCCTCGATG
1 -AAAAGGTTCGATCCCTAGATG
4977051 AAAAGGATT-GATCCCT
1 AAAAGG-TTCGATCCCT
4977067 TTCACAAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.22
Consensus pattern (21 bp):
AAAAGGTTCGATCCCTAGATG
Found at i:4980652 original size:37 final size:37
Alignment explanation
Indices: 4980611--4980683 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
4980601 CGAGCTTATG
4980611 GAATAAATGGCAAGTGTATTGATAAAATAAGCTTACA
1 GAATAAATGGCAAGTGTATTGATAAAATAAGCTTACA
* * *
4980648 GAATAAATGGTAAGTGTATTGGTAAAATAATCTTAC
1 GAATAAATGGCAAGTGTATTGATAAAATAAGCTTAC
4980684 GAGCTTATGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.30
Consensus pattern (37 bp):
GAATAAATGGCAAGTGTATTGATAAAATAAGCTTACA
Found at i:4980721 original size:24 final size:23
Alignment explanation
Indices: 4980649--4980723 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 23
4980639 AAGCTTACAG
4980649 AATAAATGGTAAGTGTATTGGTAA
1 AATAAATGGTAAGT-TATTGGTAA
**
4980673 AAT-AATCTTACGAGCTTA-TGG--A
1 AATAAATGGTA--AG-TTATTGGTAA
4980695 AATAAATGGTAAGTATATTGGTAA
1 AATAAATGGTAAGT-TATTGGTAA
4980719 AATAA
1 AATAA
4980724 GATAACGAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
20 1 0.03
21 4 0.10
22 7 0.18
23 10 0.26
24 12 0.31
25 4 0.10
26 1 0.03
ACGTcount: A:0.44, C:0.04, G:0.20, T:0.32
Consensus pattern (23 bp):
AATAAATGGTAAGTTATTGGTAA
Found at i:4980759 original size:45 final size:45
Alignment explanation
Indices: 4980648--4980794 Score: 213
Period size: 45 Copynumber: 3.2 Consensus size: 45
4980638 TAAGCTTACA
* *
4980648 GAATAAATGGTAAGTGTATTGGTAAAATAATCTTACGAGCTTATG
1 GAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* * *
4980693 GAAATAAATGGTAAGTATATTGGTAAAATAAGATAACGAGTTTATG
1 G-AATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* *
4980739 GAATAAATGATAAGTATATTGGTAAAATATGCTTACGAGCTTATG
1 GAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
*
4980784 GGATAAATGGT
1 GAATAAATGGT
4980795 GAGAAATTTT
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
45 49 0.55
46 40 0.45
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (45 bp):
GAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
Found at i:4983317 original size:21 final size:20
Alignment explanation
Indices: 4983291--4983329 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
4983281 ATATGCTAAA
4983291 CTATCA-AAGTGTGAGTTTTAG
1 CTATCAGAAGT-TGA-TTTTAG
4983312 CTATCAGAAGTTGATTTT
1 CTATCAGAAGTTGATTTT
4983330 CTTAGTCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (20 bp):
CTATCAGAAGTTGATTTTAG
Found at i:4983405 original size:6 final size:6
Alignment explanation
Indices: 4983385--4983494 Score: 79
Period size: 6 Copynumber: 18.8 Consensus size: 6
4983375 AAGATAAGAA
** * * *
4983385 AAAAAG AAACTG AAAAAG AAAAA- AAATAG GAAAAG -AAAA- AAACAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
* * *
4983430 AAAAAG AAAAAT AAGAAGG AAAAAA ATAAATAG AAAAAG -AAAAG -AAAAG
1 AAAAAG AAAAAG AA-AAAG AAAAAG A-AAA-AG AAAAAG AAAAAG AAAAAG
4983479 -AAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAA
4983495 AAATGAGACT
Statistics
Matches: 82, Mismatches: 15, Indels: 14
0.74 0.14 0.13
Matches are distributed among these distances:
5 26 0.32
6 44 0.54
7 10 0.12
8 2 0.02
ACGTcount: A:0.78, C:0.02, G:0.15, T:0.05
Consensus pattern (6 bp):
AAAAAG
Found at i:4983406 original size:17 final size:16
Alignment explanation
Indices: 4983386--4983440 Score: 65
Period size: 17 Copynumber: 3.3 Consensus size: 16
4983376 AGATAAGAAA
4983386 AAAAGAAACTGAAAAAG
1 AAAA-AAACTGAAAAAG
* *
4983403 AAAAAAAATAGGAAAAG
1 AAAAAAACT-GAAAAAG
*
4983420 AAAAAAACAGAAAAAG
1 AAAAAAACTGAAAAAG
4983436 AAAAA
1 AAAAA
4983441 TAAGAAGGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
16 15 0.47
17 17 0.53
ACGTcount: A:0.78, C:0.04, G:0.15, T:0.04
Consensus pattern (16 bp):
AAAAAAACTGAAAAAG
Found at i:4983438 original size:33 final size:31
Alignment explanation
Indices: 4983382--4983488 Score: 117
Period size: 33 Copynumber: 3.4 Consensus size: 31
4983372 TATAAGATAA
* *
4983382 GAAAAAAAGAAACTGAAAAAGAAAAAAAATAG
1 GAAAAAAAAAAACAGAAAAAGAAAAAAAA-AG
4983414 GAAAAGAAAAAAACAGAAAAAGAAAAATAAGAAG
1 GAAAA-AAAAAAACAGAAAAAGAAAAA-AA-AAG
* * *
4983448 GAAAAAAATAAATAGAAAAAGAAAAGAAAA-
1 GAAAAAAAAAAACAGAAAAAGAAAAAAAAAG
*
4983478 GAAAAGAAAAA
1 GAAAAAAAAAA
4983489 GAAAAAAAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
30 9 0.14
31 2 0.03
32 7 0.11
33 37 0.57
34 9 0.14
35 1 0.02
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.05
Consensus pattern (31 bp):
GAAAAAAAAAAACAGAAAAAGAAAAAAAAAG
Found at i:4983452 original size:27 final size:26
Alignment explanation
Indices: 4983397--4983494 Score: 108
Period size: 27 Copynumber: 3.7 Consensus size: 26
4983387 AAAGAAACTG
*
4983397 AAAAAGAAAAA-AAATAGGAAAAGAAA
1 AAAAAGAAAAAGAAA-AAGAAAAGAAA
* *
4983423 AAAACAGAAAAAGAAAAATAAGAAGGAA
1 AAAA-AGAAAAAGAAAAAGAA-AAGAAA
* *
4983451 AAAAATAAATAGAAAAAGAAAAGAAA
1 AAAAAGAAAAAGAAAAAGAAAAGAAA
4983477 AGAAAAGAAAAAGAAAAA
1 A-AAAAGAAAAAGAAAAA
4983495 AAATGAGACT
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
26 10 0.17
27 37 0.63
28 12 0.20
ACGTcount: A:0.80, C:0.01, G:0.15, T:0.04
Consensus pattern (26 bp):
AAAAAGAAAAAGAAAAAGAAAAGAAA
Found at i:4983464 original size:18 final size:19
Alignment explanation
Indices: 4983396--4983494 Score: 58
Period size: 17 Copynumber: 5.6 Consensus size: 19
4983386 AAAAGAAACT
4983396 GAAAAAGAAAAA-AA-ATAG
1 GAAAAAGAAAAATAAGA-AG
*
4983414 G-AAAAGAAAAA-AA-CA-
1 GAAAAAGAAAAATAAGAAG
4983429 GAAAAAGAAAAATAAGAAG
1 GAAAAAGAAAAATAAGAAG
*
4983448 GAAAAA-AATAAAT-AGAAA
1 GAAAAAGAA-AAATAAGAAG
* *
4983466 AAGAAAAG-AAAAGAA-AA-
1 GA-AAAAGAAAAATAAGAAG
4983483 GAAAAAGAAAAA
1 GAAAAAGAAAAA
4983495 AAATGAGACT
Statistics
Matches: 66, Mismatches: 6, Indels: 19
0.73 0.07 0.21
Matches are distributed among these distances:
15 1 0.02
16 16 0.24
17 19 0.29
18 14 0.21
19 16 0.24
ACGTcount: A:0.79, C:0.01, G:0.16, T:0.04
Consensus pattern (19 bp):
GAAAAAGAAAAATAAGAAG
Found at i:4983493 original size:16 final size:17
Alignment explanation
Indices: 4983386--4983492 Score: 82
Period size: 16 Copynumber: 6.5 Consensus size: 17
4983376 AGATAAGAAA
*
4983386 AAAAGAAACTGAAAAAG
1 AAAAGAAACAGAAAAAG
* * *
4983403 AAAAAAAATAGGAAAAG
1 AAAAGAAACAGAAAAAG
4983420 AAAA-AAACAGAAAAAG
1 AAAAGAAACAGAAAAAG
*
4983436 AAAA-ATA-AGAAGGAAA-
1 AAAAGAAACAGAA--AAAG
* *
4983452 AAAATAAATAGAAAAAG
1 AAAAGAAACAGAAAAAG
4983469 AAAAGAAA-AG-AAAAG
1 AAAAGAAACAGAAAAAG
4983484 AAAAAGAAA
1 -AAAAGAAA
4983493 AAAAATGAGA
Statistics
Matches: 75, Mismatches: 9, Indels: 13
0.77 0.09 0.13
Matches are distributed among these distances:
15 9 0.12
16 33 0.44
17 29 0.39
18 4 0.05
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.05
Consensus pattern (17 bp):
AAAAGAAACAGAAAAAG
Found at i:4986582 original size:6 final size:6
Alignment explanation
Indices: 4986549--4986679 Score: 121
Period size: 6 Copynumber: 21.8 Consensus size: 6
4986539 AAGATAAGAA
*
4986549 AAAAAG AAACAA- AAAAAG AAAGAAG AAAAAG -AAAA- AAACAG AAAAAG
1 AAAAAG AAA-AAG AAAAAG AAA-AAG AAAAAG AAAAAG AAAAAG AAAAAG
* * * *
4986596 AAAAGAAT AAAAAG AAAAAG AAAACG AAGAAG AAAAA- ATAAATAA AAAAAG
1 -AAA-AAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A-AAA-AG AAAAAG
4986647 -AAAAG -AAAAG AAAAAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
4986680 AATGACACTA
Statistics
Matches: 105, Mismatches: 9, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
5 20 0.19
6 64 0.61
7 18 0.17
8 3 0.03
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:4988631 original size:21 final size:22
Alignment explanation
Indices: 4988606--4988647 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
4988596 TGATTTGGTC
4988606 TTATTCAATTAAAT-GAATATT
1 TTATTCAATTAAATGGAATATT
* *
4988627 TTATTCATTTAAGTGGAATAT
1 TTATTCAATTAAATGGAATAT
4988648 AATGTAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.48
Consensus pattern (22 bp):
TTATTCAATTAAATGGAATATT
Found at i:4988943 original size:93 final size:93
Alignment explanation
Indices: 4988784--4988970 Score: 374
Period size: 93 Copynumber: 2.0 Consensus size: 93
4988774 TTTTGAGTAT
4988784 TCCGTAAAGTAGAAATTTCTATATGCGGAAAACAATATCATTTGGTACCAATATTGCATGATAAT
1 TCCGTAAAGTAGAAATTTCTATATGCGGAAAACAATATCATTTGGTACCAATATTGCATGATAAT
4988849 CTTGTTGGTGTTCAAAGATTGCAAATTC
66 CTTGTTGGTGTTCAAAGATTGCAAATTC
4988877 TCCGTAAAGTAGAAATTTCTATATGCGGAAAACAATATCATTTGGTACCAATATTGCATGATAAT
1 TCCGTAAAGTAGAAATTTCTATATGCGGAAAACAATATCATTTGGTACCAATATTGCATGATAAT
4988942 CTTGTTGGTGTTCAAAGATTGCAAATTC
66 CTTGTTGGTGTTCAAAGATTGCAAATTC
4988970 T
1 T
4988971 AAAGTTTGTG
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 94 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (93 bp):
TCCGTAAAGTAGAAATTTCTATATGCGGAAAACAATATCATTTGGTACCAATATTGCATGATAAT
CTTGTTGGTGTTCAAAGATTGCAAATTC
Found at i:4989227 original size:30 final size:29
Alignment explanation
Indices: 4989189--4989254 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
4989179 CAAGCCTTAG
*
4989189 AAAATTGGGGA-CCATTTCATAAAATTTTGA
1 AAAATTGGGGATCAATTT-AT-AAATTTTGA
* *
4989219 ACAATTGGGGATCAATTTGTAAATTTTGA
1 AAAATTGGGGATCAATTTATAAATTTTGA
4989248 AAAATTG
1 AAAATTG
4989255 ATGGGTTGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 15 0.48
30 11 0.35
31 5 0.16
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (29 bp):
AAAATTGGGGATCAATTTATAAATTTTGA
Found at i:4995473 original size:23 final size:22
Alignment explanation
Indices: 4995438--4995482 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
4995428 TTTTAACTCA
4995438 AACTTAATCCCTAATAAAATAAT
1 AACTTAATCCCTAA-AAAATAAT
*
4995461 AACTCTAAT-CCTAAAAGATAAT
1 AACT-TAATCCCTAAAAAATAAT
4995483 GCATCATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 9 0.45
24 4 0.20
ACGTcount: A:0.51, C:0.18, G:0.02, T:0.29
Consensus pattern (22 bp):
AACTTAATCCCTAAAAAATAAT
Found at i:4997230 original size:14 final size:14
Alignment explanation
Indices: 4997211--4997238 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4997201 TTCTAGTTCC
4997211 TAGTTCTTATAACT
1 TAGTTCTTATAACT
4997225 TAGTTCTTATAACT
1 TAGTTCTTATAACT
4997239 AGTGGGTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (14 bp):
TAGTTCTTATAACT
Found at i:4997692 original size:23 final size:23
Alignment explanation
Indices: 4997664--4997708 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4997654 AAACCCAGCA
4997664 AAGAAAATCAAAGCACTCAAAAG
1 AAGAAAATCAAAGCACTCAAAAG
* * *
4997687 AAGAAATTGAAAGCACTTAAAA
1 AAGAAAATCAAAGCACTCAAAA
4997709 AGGCAGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.13
Consensus pattern (23 bp):
AAGAAAATCAAAGCACTCAAAAG
Found at i:4997742 original size:4 final size:5
Alignment explanation
Indices: 4997713--4997741 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
4997703 TTAAAAAGGC
4997713 AGAAA AGAAA AGAAA AGAAA AG-AA AGAAA
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA
4997742 GTTTAAGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:5002467 original size:20 final size:21
Alignment explanation
Indices: 5002442--5002485 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
5002432 GTTTATTTGG
5002442 TATTTGG-TACTTGAATGTTT
1 TATTTGGTTACTTGAATGTTT
* *
5002462 TATTTGGTTATTTGAATTTTT
1 TATTTGGTTACTTGAATGTTT
5002483 TAT
1 TAT
5002486 GACTTTGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.20, C:0.02, G:0.16, T:0.61
Consensus pattern (21 bp):
TATTTGGTTACTTGAATGTTT
Found at i:5003214 original size:48 final size:48
Alignment explanation
Indices: 5003143--5003236 Score: 188
Period size: 48 Copynumber: 2.0 Consensus size: 48
5003133 AAATAAGTAC
5003143 GGGATTTACAACCAAATGAAGAGCCATGTTCACACCTGATGCATTTCA
1 GGGATTTACAACCAAATGAAGAGCCATGTTCACACCTGATGCATTTCA
5003191 GGGATTTACAACCAAATGAAGAGCCATGTTCACACCTGATGCATTT
1 GGGATTTACAACCAAATGAAGAGCCATGTTCACACCTGATGCATTT
5003237 TCACCTTCAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (48 bp):
GGGATTTACAACCAAATGAAGAGCCATGTTCACACCTGATGCATTTCA
Found at i:5004699 original size:21 final size:21
Alignment explanation
Indices: 5004657--5004712 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
5004647 AAGTATGTTT
* *
5004657 AGGATCAATTCCTCAAGTAAA
1 AGGATCAATCCCTCAAGAAAA
*
5004678 AGGATCAATCCCTCGATGAAAA
1 AGGATCAATCCCTC-AAGAAAA
*
5004700 ATGATCAATCCCT
1 AGGATCAATCCCT
5004713 TCCATTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.23
Consensus pattern (21 bp):
AGGATCAATCCCTCAAGAAAA
Found at i:5006399 original size:18 final size:18
Alignment explanation
Indices: 5006376--5006410 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
5006366 CTTTATATCT
5006376 AGAATAGGCACAAGTCTA
1 AGAATAGGCACAAGTCTA
5006394 AGAATAGGCACAAGTCT
1 AGAATAGGCACAAGTCT
5006411 TAGAGTAGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (18 bp):
AGAATAGGCACAAGTCTA
Found at i:5009777 original size:87 final size:87
Alignment explanation
Indices: 5009661--5009836 Score: 352
Period size: 87 Copynumber: 2.0 Consensus size: 87
5009651 TAAGTTCGAT
5009661 TCTAGTCATTTGTTTTTGATCTCTTAGTATTTATGTTATAAATGGTGTTTTCTTGATCTAAAATA
1 TCTAGTCATTTGTTTTTGATCTCTTAGTATTTATGTTATAAATGGTGTTTTCTTGATCTAAAATA
5009726 TAGATATCATTAACTAATTGTG
66 TAGATATCATTAACTAATTGTG
5009748 TCTAGTCATTTGTTTTTGATCTCTTAGTATTTATGTTATAAATGGTGTTTTCTTGATCTAAAATA
1 TCTAGTCATTTGTTTTTGATCTCTTAGTATTTATGTTATAAATGGTGTTTTCTTGATCTAAAATA
5009813 TAGATATCATTAACTAATTGTG
66 TAGATATCATTAACTAATTGTG
5009835 TC
1 TC
5009837 GAACCATAAA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 89 1.00
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.49
Consensus pattern (87 bp):
TCTAGTCATTTGTTTTTGATCTCTTAGTATTTATGTTATAAATGGTGTTTTCTTGATCTAAAATA
TAGATATCATTAACTAATTGTG
Found at i:5022796 original size:6 final size:6
Alignment explanation
Indices: 5022787--5022825 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
5022777 CATTATTCTA
* *
5022787 ATTATC ATTATC AGTATC ATTATC ATTATC TTTATC ATT
1 ATTATC ATTATC ATTATC ATTATC ATTATC ATTATC ATT
5022826 CAATGTTCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.31, C:0.15, G:0.03, T:0.51
Consensus pattern (6 bp):
ATTATC
Found at i:5023027 original size:23 final size:23
Alignment explanation
Indices: 5023001--5023058 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
5022991 CAAAGAACCA
*
5023001 CATAGTATTATCCTGAAGGACTG
1 CATAGAATTATCCTGAAGGACTG
* *
5023024 CATAGAATTGTCCTGAAGGACAG
1 CATAGAATTATCCTGAAGGACTG
* *
5023047 CGTATAATTATC
1 CATAGAATTATC
5023059 TCGAAAGACC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (23 bp):
CATAGAATTATCCTGAAGGACTG
Found at i:5024113 original size:59 final size:59
Alignment explanation
Indices: 5024050--5024250 Score: 187
Period size: 59 Copynumber: 3.4 Consensus size: 59
5024040 ATACCATTAG
** * *
5024050 TATGATTTTGTTACCATTTTAGTACATAATATGCCCTATCTGGAAATCCATATTTTCAA
1 TATGATTTCCTTACCATTTTAGCACATAATATGCCCTATCTGGAAATCCATAATTTCAA
* * * ** * * * *
5024109 TATGATTTCCTTATCA-CTTAGCACCCT--TAGTGCTTTATCTGGAAACCCACACA-CTCAG
1 TATGATTTCCTTACCATTTTAGCA-CATAATA-TGCCCTATCTGGAAATCCATA-ATTTCAA
* * *
5024167 GATGATTCCCTTACCATTTTAGCACATAATATGACCTATCTGGAAATCCATAATTTCAA
1 TATGATTTCCTTACCATTTTAGCACATAATATGCCCTATCTGGAAATCCATAATTTCAA
*
5024226 TATGATTTCCTTATCA-TTTAGCACA
1 TATGATTTCCTTACCATTTTAGCACA
5024251 CTCGGTGCTC
Statistics
Matches: 107, Mismatches: 28, Indels: 15
0.71 0.19 0.10
Matches are distributed among these distances:
57 2 0.02
58 50 0.47
59 53 0.50
60 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.37
Consensus pattern (59 bp):
TATGATTTCCTTACCATTTTAGCACATAATATGCCCTATCTGGAAATCCATAATTTCAA
Found at i:5024184 original size:117 final size:117
Alignment explanation
Indices: 5024060--5024296 Score: 348
Period size: 117 Copynumber: 2.0 Consensus size: 117
5024050 TATGATTTTG
* * *
5024060 TTACCATTTTAGTACATAATATGCCCTATCTGGAAATCCATATTTTCAATATGATTTCCTTATCA
1 TTACCATTTTAGCACATAATATGACCTATCTGGAAATCCATAATTTCAATATGATTTCCTTATCA
* * ** *
5024125 CTTAGCACCCTTAGTGCTTTATCTGGAAACCCACACACTCAGGATGATTCCC
66 CTTAGCACACTCAGTGCTCCATATGGAAACCCACACACTCAGGATGATTCCC
5024177 TTACCATTTTAGCACATAATATGACCTATCTGGAAATCCATAATTTCAATATGATTTCCTTATCA
1 TTACCATTTTAGCACATAATATGACCTATCTGGAAATCCATAATTTCAATATGATTTCCTTATCA
* * * * * *
5024242 TTTAGCACACTCGGTGCTCCATATGGAAATCCATACACTCAGTATGATTTCC
66 CTTAGCACACTCAGTGCTCCATATGGAAACCCACACACTCAGGATGATTCCC
5024294 TTA
1 TTA
5024297 TTATTCTAGT
Statistics
Matches: 106, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
117 106 1.00
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (117 bp):
TTACCATTTTAGCACATAATATGACCTATCTGGAAATCCATAATTTCAATATGATTTCCTTATCA
CTTAGCACACTCAGTGCTCCATATGGAAACCCACACACTCAGGATGATTCCC
Found at i:5024804 original size:19 final size:19
Alignment explanation
Indices: 5024780--5024830 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
5024770 TATTTAGGTG
*
5024780 TGCATCGATGTACTACTTA
1 TGCATCGATGCACTACTTA
5024799 TGCATCGATGCACTACTTA
1 TGCATCGATGCACTACTTA
5024818 TGCATCGATGCAC
1 TGCATCGATGCAC
5024831 CTTGCCCAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (19 bp):
TGCATCGATGCACTACTTA
Found at i:5028441 original size:12 final size:13
Alignment explanation
Indices: 5028418--5028446 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
5028408 ACCCGATAAC
5028418 TCTTTCGGAAATT
1 TCTTTCGGAAATT
5028431 TCTTT-GGAAATT
1 TCTTTCGGAAATT
5028443 TCTT
1 TCTT
5028447 AACTATAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.52
Consensus pattern (13 bp):
TCTTTCGGAAATT
Found at i:5030550 original size:7 final size:7
Alignment explanation
Indices: 5030538--5030575 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
5030528 TTTTTTAAAA
5030538 TGAATAG
1 TGAATAG
5030545 TGAATAG
1 TGAATAG
*
5030552 TGAATAA
1 TGAATAG
5030559 TGAATAG
1 TGAATAG
5030566 TGAATAG
1 TGAATAG
5030573 TGA
1 TGA
5030576 CTGTACCGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (7 bp):
TGAATAG
Found at i:5030560 original size:21 final size:21
Alignment explanation
Indices: 5030536--5030575 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
5030526 TATTTTTTAA
5030536 AATGAATAGTGAATAGTGAAT
1 AATGAATAGTGAATAGTGAAT
5030557 AATGAATAGTGAATAGTGA
1 AATGAATAGTGAATAGTGA
5030576 CTGTACCGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.25, T:0.28
Consensus pattern (21 bp):
AATGAATAGTGAATAGTGAAT
Found at i:5030864 original size:89 final size:89
Alignment explanation
Indices: 5030713--5030890 Score: 356
Period size: 89 Copynumber: 2.0 Consensus size: 89
5030703 GTAATTGCAC
5030713 CGAAGTTAAGGAATGTGAGTGCATTGAGGTTGTACACTAATGTTTTTACCACAATTCGTATAAAT
1 CGAAGTTAAGGAATGTGAGTGCATTGAGGTTGTACACTAATGTTTTTACCACAATTCGTATAAAT
5030778 TGCACCGAAGTGCCACATAGAAAT
66 TGCACCGAAGTGCCACATAGAAAT
5030802 CGAAGTTAAGGAATGTGAGTGCATTGAGGTTGTACACTAATGTTTTTACCACAATTCGTATAAAT
1 CGAAGTTAAGGAATGTGAGTGCATTGAGGTTGTACACTAATGTTTTTACCACAATTCGTATAAAT
5030867 TGCACCGAAGTGCCACATAGAAAT
66 TGCACCGAAGTGCCACATAGAAAT
5030891 TGCATTAAAG
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (89 bp):
CGAAGTTAAGGAATGTGAGTGCATTGAGGTTGTACACTAATGTTTTTACCACAATTCGTATAAAT
TGCACCGAAGTGCCACATAGAAAT
Found at i:5031003 original size:23 final size:23
Alignment explanation
Indices: 5030944--5031004 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
5030934 TATTATCCTA
* * *
5030944 AAAGACCGCGTAAAATTGTCTCG
1 AAAGACCGCTTAGAATTATCTCG
* *
5030967 AATGACAG-TATAGAATTATCTCG
1 AAAGACCGCT-TAGAATTATCTCG
5030990 AAAGACCGCTTAGAA
1 AAAGACCGCTTAGAA
5031005 CCCTCGACTC
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
23 28 0.97
24 1 0.03
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (23 bp):
AAAGACCGCTTAGAATTATCTCG
Found at i:5034217 original size:30 final size:28
Alignment explanation
Indices: 5034159--5034217 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 28
5034149 ATCATATTAG
5034159 GGATTTATTGAAAAGATTTAAAAAATGA
1 GGATTTATTGAAAAGATTTAAAAAATGA
*
5034187 GGATTTATTTGAATAA-ATGTTAAAAGATGA
1 GGATTTA-TTGAA-AAGAT-TTAAAAAATGA
5034217 G
1 G
5034218 AAAATGATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 7 0.26
29 7 0.26
30 13 0.48
ACGTcount: A:0.46, C:0.00, G:0.20, T:0.34
Consensus pattern (28 bp):
GGATTTATTGAAAAGATTTAAAAAATGA
Found at i:5041365 original size:19 final size:20
Alignment explanation
Indices: 5041327--5041377 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
5041317 GAAACCCCTT
5041327 TGAAAATACATGATTTTTAA
1 TGAAAATACATGATTTTTAA
*
5041347 TGAAAATACATTA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
5041366 TGAAGATACATG
1 TGAAAATACATG
5041378 TTCTTGGCTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:5043654 original size:19 final size:19
Alignment explanation
Indices: 5043619--5043656 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
5043609 TCTTTATTTC
*
5043619 ATTTTTTTATCTTTCCATT
1 ATTTTTTTATCTATCCATT
5043638 ATTTTTATTAT-TATCCATT
1 ATTTTT-TTATCTATCCATT
5043657 TCTTAATTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.21, C:0.13, G:0.00, T:0.66
Consensus pattern (19 bp):
ATTTTTTTATCTATCCATT
Found at i:5044681 original size:35 final size:35
Alignment explanation
Indices: 5044640--5044720 Score: 108
Period size: 35 Copynumber: 2.3 Consensus size: 35
5044630 TACTATATGT
* *
5044640 TCATCACTATCTTCCATCACTATTGCACGCCTATA
1 TCATCACTATCTTCCATCACCATTGAACGCCTATA
* *
5044675 TCATCACTATCTTCTATCACCATTTAACGCCTATA
1 TCATCACTATCTTCCATCACCATTGAACGCCTATA
* *
5044710 TAATCATTATC
1 TCATCACTATC
5044721 CCATTACCAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.28, C:0.31, G:0.04, T:0.37
Consensus pattern (35 bp):
TCATCACTATCTTCCATCACCATTGAACGCCTATA
Found at i:5044984 original size:17 final size:18
Alignment explanation
Indices: 5044954--5044990 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
5044944 CAACAAAAGC
5044954 AAAAACAAAGAAGAAGAA
1 AAAAACAAAGAAGAAGAA
*
5044972 AAAAACCAA-AAGAAGAA
1 AAAAACAAAGAAGAAGAA
5044989 AA
1 AA
5044991 TACTCCTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.78, C:0.08, G:0.14, T:0.00
Consensus pattern (18 bp):
AAAAACAAAGAAGAAGAA
Found at i:5045057 original size:16 final size:15
Alignment explanation
Indices: 5045015--5045048 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
5045005 ATTTGGAGTA
5045015 AAAAAGAA-AGAAAAG
1 AAAAAGAAGA-AAAAG
5045030 AAAAAGAAGAAAAAG
1 AAAAAGAAGAAAAAG
5045045 AAAA
1 AAAA
5045049 TTGAAGAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 17 0.94
16 1 0.06
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAAGAAGAAAAAG
Found at i:5054105 original size:16 final size:16
Alignment explanation
Indices: 5054082--5054123 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
5054072 CCAAAAAAAC
*
5054082 AAAA-AAAAAAGGCAA
1 AAAACAAAAAAGCCAA
*
5054097 AAAACAAAATAGCCAA
1 AAAACAAAAAAGCCAA
5054113 AAAACAAAAAA
1 AAAACAAAAAA
5054124 AAAGCCAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.79, C:0.12, G:0.07, T:0.02
Consensus pattern (16 bp):
AAAACAAAAAAGCCAA
Found at i:5054152 original size:37 final size:36
Alignment explanation
Indices: 5054073--5054153 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 36
5054063 TTAAAAAAAC
*
5054073 CAAAAAAACAAAAAAAAAAGGCAAAAAACAAAATAG
1 CAAAAAAACAAAAAAAAAAGCCAAAAAACAAAATAG
* **
5054109 CCAAAAAAC-AAAAAAAAAGCCAAAAAAACCAAAATTT
1 CAAAAAAACAAAAAAAAAAGCC-AAAAAA-CAAAATAG
5054146 CAAAAAAA
1 CAAAAAAA
5054154 TTGCAAACGA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
35 11 0.29
36 14 0.37
37 13 0.34
ACGTcount: A:0.75, C:0.15, G:0.05, T:0.05
Consensus pattern (36 bp):
CAAAAAAACAAAAAAAAAAGCCAAAAAACAAAATAG
Found at i:5059717 original size:22 final size:23
Alignment explanation
Indices: 5059678--5059724 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
5059668 ATAATGTTAC
*
5059678 TGGAAGTATGCCTTTAATGATGA
1 TGGAAGGATGCCTTTAATGATGA
*
5059701 TGGAAGGATG-CTTTAATGGTGA
1 TGGAAGGATGCCTTTAATGATGA
5059723 TG
1 TG
5059725 AATATGGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.28, C:0.06, G:0.32, T:0.34
Consensus pattern (23 bp):
TGGAAGGATGCCTTTAATGATGA
Found at i:5066897 original size:22 final size:23
Alignment explanation
Indices: 5066857--5066900 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
5066847 TTTTTTTCCT
*
5066857 TTTTGAGTGCTTTCGATTTCTTC
1 TTTTGAGTGCTTTCAATTTCTTC
5066880 TTTTGAGTGC-TTCAATTTCTT
1 TTTTGAGTGCTTTCAATTTCTT
5066901 TGCTGATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (23 bp):
TTTTGAGTGCTTTCAATTTCTTC
Found at i:5072019 original size:24 final size:23
Alignment explanation
Indices: 5071992--5072051 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
5071982 CTTTTATTTT
* *
5071992 CTTTTTTTTTCTTCTTTTTGAGTG
1 CTTTTATTTTCTTC-TTTTAAGTG
* *
5072016 CTTTTAATTTATTCTTTTAAGTG
1 CTTTTATTTTCTTCTTTTAAGTG
*
5072039 ATTTTATTTTCTT
1 CTTTTATTTTCTT
5072052 TGCTATATTT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
23 18 0.62
24 11 0.38
ACGTcount: A:0.13, C:0.10, G:0.08, T:0.68
Consensus pattern (23 bp):
CTTTTATTTTCTTCTTTTAAGTG
Found at i:5073037 original size:25 final size:25
Alignment explanation
Indices: 5073009--5073059 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
5072999 CAAGCTAGCT
5073009 TGAGTGTGGAGCTAGCTAGCAAGCA
1 TGAGTGTGGAGCTAGCTAGCAAGCA
*
5073034 TGAGTGTGGATCTAGCTAGCAAGCA
1 TGAGTGTGGAGCTAGCTAGCAAGCA
5073059 T
1 T
5073060 AGGGTTGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (25 bp):
TGAGTGTGGAGCTAGCTAGCAAGCA
Found at i:5075971 original size:21 final size:22
Alignment explanation
Indices: 5075945--5075995 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
5075935 TTTTCTTTTT
*
5075945 TTTCTTTTTGA-GTGCTTTTAA
1 TTTCTTTTTGATGTGCTTTGAA
* *
5075966 TTTCTTCTTTTATGTGCTTTGAT
1 TTTCTT-TTTGATGTGCTTTGAA
5075989 TTTCTTT
1 TTTCTTT
5075996 GCTAGATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 6 0.24
22 5 0.20
23 14 0.56
ACGTcount: A:0.10, C:0.12, G:0.12, T:0.67
Consensus pattern (22 bp):
TTTCTTTTTGATGTGCTTTGAA
Found at i:5076976 original size:25 final size:25
Alignment explanation
Indices: 5076942--5077037 Score: 183
Period size: 25 Copynumber: 3.8 Consensus size: 25
5076932 TAGCTTCAGC
*
5076942 GTGGAGCTAGCTAGCAAGCATTAGT
1 GTGGAGCTAGCTAGCAAGCATGAGT
5076967 GTGGAGCTAGCTAGCAAGCATGAGT
1 GTGGAGCTAGCTAGCAAGCATGAGT
5076992 GTGGAGCTAGCTAGCAAGCATGAGT
1 GTGGAGCTAGCTAGCAAGCATGAGT
5077017 GTGGAGCTAGCTAGCAAGCAT
1 GTGGAGCTAGCTAGCAAGCAT
5077038 AGGGTTGTTT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
25 70 1.00
ACGTcount: A:0.28, C:0.17, G:0.34, T:0.21
Consensus pattern (25 bp):
GTGGAGCTAGCTAGCAAGCATGAGT
Found at i:5080752 original size:23 final size:24
Alignment explanation
Indices: 5080711--5080763 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
5080701 TTCTTTTTCT
* * *
5080711 TTTCTTCTTTTTGATTGCTTTTAA
1 TTTCTTCTTTTTAAGTGCTTTGAA
*
5080735 TTTCTTC-TTTTAAGTGCTTTGAT
1 TTTCTTCTTTTTAAGTGCTTTGAA
5080758 TTTCTT
1 TTTCTT
5080764 TGCTAAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.11, C:0.13, G:0.09, T:0.66
Consensus pattern (24 bp):
TTTCTTCTTTTTAAGTGCTTTGAA
Found at i:5087306 original size:15 final size:14
Alignment explanation
Indices: 5087279--5087310 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
5087269 GATAACATAG
5087279 ATATATTCATCTAT
1 ATATATTCATCTAT
5087293 ATATATTACATCTAT
1 ATATATT-CATCTAT
5087308 ATA
1 ATA
5087311 GATATAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATATTCATCTAT
Found at i:5087555 original size:23 final size:23
Alignment explanation
Indices: 5087523--5087578 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
5087513 AGGTGCTTGA
*
5087523 AACAATATAAGAAATAAGTTTAG
1 AACAAGATAAGAAATAAGTTTAG
5087546 AACAAGATAAGAAATAAGTTTAG
1 AACAAGATAAGAAATAAGTTTAG
5087569 AACAAGATAA
1 AACAAGATAA
5087579 ACAAAAGATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.59, C:0.05, G:0.14, T:0.21
Consensus pattern (23 bp):
AACAAGATAAGAAATAAGTTTAG
Found at i:5095556 original size:13 final size:13
Alignment explanation
Indices: 5095538--5095562 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5095528 AAATTATGGC
5095538 TTTTTTATTTTTA
1 TTTTTTATTTTTA
5095551 TTTTTTATTTTT
1 TTTTTTATTTTT
5095563 TTTCCTATTT
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:5096863 original size:15 final size:16
Alignment explanation
Indices: 5096839--5096872 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
5096829 TAATTCCTAA
5096839 TAAAATAATAATAATT
1 TAAAATAATAATAATT
*
5096855 TAAAA-AATAATATTT
1 TAAAATAATAATAATT
5096870 TAA
1 TAA
5096873 CCCAACCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAAATAATAATAATT
Found at i:5097859 original size:2 final size:2
Alignment explanation
Indices: 5097852--5097884 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
5097842 TAAGAACAAC
*
5097852 AT AT AT AT AT AT AT AT AT AT AT -T AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5097885 CAAAGTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5099035 original size:17 final size:17
Alignment explanation
Indices: 5099013--5099046 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
5099003 AAAAAAAATC
5099013 TTGATGATAATGAACAT
1 TTGATGATAATGAACAT
5099030 TTGATGATAATGAACAT
1 TTGATGATAATGAACAT
5099047 GAATGAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (17 bp):
TTGATGATAATGAACAT
Found at i:5112932 original size:30 final size:31
Alignment explanation
Indices: 5112896--5112956 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
5112886 CATATTTGGG
5112896 ACAGCTT-GATGAAGCATTTTT-AAGACAAAA
1 ACAGCTTAG-TGAAGCATTTTTGAAGACAAAA
*
5112926 ACAGCTTAGTGGAGCATTTTTGGAAGACAAA
1 ACAGCTTAGTGAAGCATTTTT-GAAGACAAA
5112957 TAGCTTGGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 18 0.67
31 1 0.04
32 8 0.30
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.26
Consensus pattern (31 bp):
ACAGCTTAGTGAAGCATTTTTGAAGACAAAA
Found at i:5112986 original size:30 final size:31
Alignment explanation
Indices: 5112918--5112991 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 31
5112908 AGCATTTTTA
* *
5112918 AGACAAAAACAGCTTAGTGGAGCATTTTTGG
1 AGACACAAACAGCTTAGTGGAGCATTTTGGG
* * *
5112949 A-AGACAAATAGCTTGGTGGAGCA-TTTGGG
1 AGACACAAACAGCTTAGTGGAGCATTTTGGG
5112978 AGACACAAACAGCT
1 AGACACAAACAGCT
5112992 CACAAGAATC
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
29 6 0.17
30 28 0.80
31 1 0.03
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (31 bp):
AGACACAAACAGCTTAGTGGAGCATTTTGGG
Found at i:5113751 original size:5 final size:5
Alignment explanation
Indices: 5113741--5113765 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
5113731 GAAAATTAAA
5113741 AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG
5113766 CTCTAGTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:5129931 original size:16 final size:17
Alignment explanation
Indices: 5129882--5129931 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
5129872 AGTTATCTTC
*
5129882 ATTTTCTTACTATTC-T
1 ATTTTCTTACTTTTCAT
* *
5129898 ATTTCCTTATTCTTTCAT
1 ATTTTCTTACT-TTTCAT
5129916 ATTTTCTTA-TTTTCAT
1 ATTTTCTTACTTTTCAT
5129932 TACTTTATCC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 15 0.54
17 4 0.14
18 9 0.32
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTTTCTTACTTTTCAT
Found at i:5132112 original size:35 final size:35
Alignment explanation
Indices: 5132024--5132112 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 35
5132014 ATCTTTTATC
* *
5132024 ACCATTTTCACGCCTATAACATCACCGTCCTCCACT
1 ACCA-TTTCACGCCTATATCATCACCATCCTCCACT
* * * * * *
5132060 ACCATTGCACACTTATATCATTACCATCTTCCATT
1 ACCATTTCACGCCTATATCATCACCATCCTCCACT
*
5132095 GCCATTTCACGCCTATAT
1 ACCATTTCACGCCTATAT
5132113 AACCACCAAT
Statistics
Matches: 41, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
35 37 0.90
36 4 0.10
ACGTcount: A:0.26, C:0.36, G:0.06, T:0.33
Consensus pattern (35 bp):
ACCATTTCACGCCTATATCATCACCATCCTCCACT
Found at i:5132793 original size:16 final size:17
Alignment explanation
Indices: 5132744--5132793 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
5132734 AGTTATCTTC
*
5132744 ATTTTCTTACTATTC-T
1 ATTTTCTTACTTTTCAT
* *
5132760 ATTTCCTTATTCTTTCAT
1 ATTTTCTTACT-TTTCAT
5132778 ATTTTCTTA-TTTTCAT
1 ATTTTCTTACTTTTCAT
5132794 TACTTTATCC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 15 0.54
17 4 0.14
18 9 0.32
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTTTCTTACTTTTCAT
Found at i:5134974 original size:35 final size:35
Alignment explanation
Indices: 5134886--5134974 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 35
5134876 ATCTTTTATC
* *
5134886 ACCATTTTCACGCCTATAACATCACCGTCCTCCACT
1 ACCA-TTTCACGCCTATATCATCACCATCCTCCACT
* * * * * *
5134922 ACCATTGCACACTTATATCATTACCATCTTCCATT
1 ACCATTTCACGCCTATATCATCACCATCCTCCACT
*
5134957 GCCATTTCACGCCTATAT
1 ACCATTTCACGCCTATAT
5134975 AACCACCAAT
Statistics
Matches: 41, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
35 37 0.90
36 4 0.10
ACGTcount: A:0.26, C:0.36, G:0.06, T:0.33
Consensus pattern (35 bp):
ACCATTTCACGCCTATATCATCACCATCCTCCACT
Found at i:5135700 original size:26 final size:26
Alignment explanation
Indices: 5135671--5135731 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
5135661 ATCCATTTCT
*
5135671 TAACCTTTTCTATCCTACCCCTATCA
1 TAACCATTTCTATCCTACCCCTATCA
*
5135697 TAACCATTTCTATCCTACCCTTATCA
1 TAACCATTTCTATCCTACCCCTATCA
5135723 TAACCATTT
1 TAACCATTT
5135732 ATAGACCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.26, C:0.34, G:0.00, T:0.39
Consensus pattern (26 bp):
TAACCATTTCTATCCTACCCCTATCA
Found at i:5139503 original size:35 final size:35
Alignment explanation
Indices: 5139425--5139529 Score: 147
Period size: 35 Copynumber: 3.0 Consensus size: 35
5139415 CTACCTAACT
* * *
5139425 ATCACCATCTTCCATCACCATTTTCACGCATATAAC
1 ATCACCATCTTCCATTACCA-TTTCACGCCTATATC
* *
5139461 ATCACCATCTTCCATTACCACTGCACGCCTATATC
1 ATCACCATCTTCCATTACCATTTCACGCCTATATC
*
5139496 ATTACCATCTTCCATTACCATTTCACGCCTATAT
1 ATCACCATCTTCCATTACCATTTCACGCCTATAT
5139530 AACCACCAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
35 42 0.69
36 19 0.31
ACGTcount: A:0.28, C:0.36, G:0.04, T:0.32
Consensus pattern (35 bp):
ATCACCATCTTCCATTACCATTTCACGCCTATATC
Found at i:5146659 original size:19 final size:20
Alignment explanation
Indices: 5146619--5146659 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
5146609 CAAGTGCTGC
*
5146619 AACAAAAGCAACAAGAAAAA
1 AACAAAAGCAAAAAGAAAAA
5146639 AACAAAA-CAAAAAGAAGAAA
1 AACAAAAGCAAAAAGAA-AAA
5146659 A
1 A
5146660 GACTCCTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.78, C:0.12, G:0.10, T:0.00
Consensus pattern (20 bp):
AACAAAAGCAAAAAGAAAAA
Found at i:5149443 original size:10 final size:10
Alignment explanation
Indices: 5149428--5149459 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
5149418 ATTGGAGTGC
5149428 AAAAAGAAAG
1 AAAAAGAAAG
5149438 AAAAAGAAA-
1 AAAAAGAAAG
5149447 AAAAAG-AAG
1 AAAAAGAAAG
5149456 AAAA
1 AAAA
5149460 CAAAATTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.10
9 10 0.48
10 9 0.43
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:5149488 original size:31 final size:30
Alignment explanation
Indices: 5149440--5149508 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 30
5149430 AAAGAAAGAA
* *
5149440 AAAGAAAAAAAAGAAGAAAACAAAATTCAT
1 AAAGAAAAAAAAAAAGAAAAAAAAATTCAT
5149470 AAAGAAGAAAAAAAAAGAAAAAAAAATTCA-
1 AAAGAA-AAAAAAAAAGAAAAAAAAATTCAT
5149500 AAA-AAAAAA
1 AAAGAAAAAA
5149509 GAGAAAGCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
28 4 0.11
29 2 0.06
30 9 0.25
31 21 0.58
ACGTcount: A:0.80, C:0.04, G:0.09, T:0.07
Consensus pattern (30 bp):
AAAGAAAAAAAAAAAGAAAAAAAAATTCAT
Done.