Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 309 of 378
Found at i:93813088 original size:160 final size:160
Alignment explanation
Indices: 93812911--93813231 Score: 615
Period size: 160 Copynumber: 2.0 Consensus size: 160
93812901 TAAAAGTGGG
93812911 CTCTATCACCACACATTGGATACACAGATCTCCATCACATTAATGACTCAAAGAGTCTAACATAT
1 CTCTATCACCACACATTGGATACACAGATCTCCATCACATTAATGACTCAAAGAGTCTAACATAT
93812976 CCCATAAGCATAGCATAAAACTAACACTCTCCAACACACTAACATGTCCCAATGAATGGAGCCTA
66 CCCATAAGCATAGCATAAAACTAACACTCTCCAACACACTAACATGTCCCAATGAATGGAGCCTA
93813041 ACTCGACATTCCCTTATCCCTCTCATCTAT
131 ACTCGACATTCCCTTATCCCTCTCATCTAT
* *
93813071 CTCTATCACCACACATTGGGTACACAGATCTCCATCACATTAATGACTCAAAGAGTCTAACCTAT
1 CTCTATCACCACACATTGGATACACAGATCTCCATCACATTAATGACTCAAAGAGTCTAACATAT
*
93813136 CCCATAAGCATAGCATAAAACTAACACTCTCCAACACACTAACATGTCCTAATGAATGGAGCCTA
66 CCCATAAGCATAGCATAAAACTAACACTCTCCAACACACTAACATGTCCCAATGAATGGAGCCTA
93813201 ACTCGACATTCCCTTATCCCTCTCATCTAT
131 ACTCGACATTCCCTTATCCCTCTCATCTAT
93813231 C
1 C
93813232 CCGGGGCCTC
Statistics
Matches: 158, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
160 158 1.00
ACGTcount: A:0.34, C:0.31, G:0.09, T:0.25
Consensus pattern (160 bp):
CTCTATCACCACACATTGGATACACAGATCTCCATCACATTAATGACTCAAAGAGTCTAACATAT
CCCATAAGCATAGCATAAAACTAACACTCTCCAACACACTAACATGTCCCAATGAATGGAGCCTA
ACTCGACATTCCCTTATCCCTCTCATCTAT
Found at i:93815841 original size:15 final size:15
Alignment explanation
Indices: 93815821--93815853 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
93815811 TTTAGTATGT
93815821 GATGATCTTATTGAA
1 GATGATCTTATTGAA
93815836 GATGATCTTATTGAA
1 GATGATCTTATTGAA
93815851 GAT
1 GAT
93815854 TTTTTTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.39
Consensus pattern (15 bp):
GATGATCTTATTGAA
Found at i:93823597 original size:39 final size:41
Alignment explanation
Indices: 93823535--93823639 Score: 135
Period size: 39 Copynumber: 2.6 Consensus size: 41
93823525 TGAGAAATTG
*
93823535 AATGATATCCGGGCTAAGCCCCGAAGACAATTATGCT-G-A
1 AATGATATCCGGGCTAAGACCCGAAGACAATTATGCTAGTA
* * *
93823574 AATGATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTA
1 AATGATATCCGGGCTAAGACCCGAAGACAATTATGCTAGTA
**
93823615 GCT-ATATCCGGGCTAAGACCCGAAG
1 AATGATATCCGGGCTAAGACCCGAAG
93823640 GCATTCGTGC
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
39 33 0.58
40 22 0.39
41 2 0.04
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (41 bp):
AATGATATCCGGGCTAAGACCCGAAGACAATTATGCTAGTA
Found at i:93823632 original size:40 final size:40
Alignment explanation
Indices: 93823539--93823689 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
93823529 AAATTGAATG
* * * *
93823539 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-G-AAAT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGAT
* *
93823577 GATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 -ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGAT
* * *
93823618 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCCAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGAT
* *
93823658 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
93823690 AAATCGTGAT
Statistics
Matches: 96, Mismatches: 12, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
39 32 0.33
40 60 0.62
41 4 0.04
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGAT
Found at i:93823704 original size:40 final size:39
Alignment explanation
Indices: 93823537--93823721 Score: 153
Period size: 40 Copynumber: 4.7 Consensus size: 39
93823527 AGAAATTGAA
* *
93823537 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAA--
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * *
93823576 TGATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* **
93823616 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCCAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTG-CAAATG
* *
93823656 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* * *
93823696 TGATATCCGGGTTAAGTCCCGTAGGC
1 TGATATCCGGGCTAAGACCCGAAGGC
93823722 CTTGGTGCGG
Statistics
Matches: 117, Mismatches: 21, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
36 2 0.02
37 3 0.03
38 2 0.02
39 27 0.23
40 80 0.68
41 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:93832831 original size:46 final size:44
Alignment explanation
Indices: 93832772--93832886 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
93832762 ACAGGACAGA
* *
93832772 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
93832818 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
93832862 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
93832887 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:93832867 original size:44 final size:45
Alignment explanation
Indices: 93832772--93832905 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
93832762 ACAGGACAGA
* *
93832772 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
93832818 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
93832862 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
93832906 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:93840107 original size:44 final size:45
Alignment explanation
Indices: 93840012--93840145 Score: 162
Period size: 46 Copynumber: 3.0 Consensus size: 45
93840002 ACAGGACAGA
* *
93840012 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
93840058 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * *
93840102 ACAGGAATAATTCATGTAAGTCCATGTCAAAGATATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
93840146 CAGATATTGA
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
44 36 0.48
45 1 0.01
46 38 0.51
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:93845356 original size:20 final size:20
Alignment explanation
Indices: 93845327--93845374 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
93845317 GACAAGCCAC
* * *
93845327 CAGTAATGCAGATAAAGTGA
1 CAGTATTGCAGACAAACTGA
*
93845347 CAGTATTGCAGACAAACTGG
1 CAGTATTGCAGACAAACTGA
93845367 CAGTATTG
1 CAGTATTG
93845375 TGGACAAGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.23
Consensus pattern (20 bp):
CAGTATTGCAGACAAACTGA
Found at i:93845360 original size:60 final size:60
Alignment explanation
Indices: 93845288--93845411 Score: 142
Period size: 60 Copynumber: 2.1 Consensus size: 60
93845278 TCAAGTTACG
* * * * * *
93845288 AGTATTGTAGACAAGCTGCCAAT-TATATGGACAAGCCACCAGTAATGCAGATAAAGTGAC
1 AGTATTGCAGACAAACTGCCAGTAT-TATGGACAAGCAACCAGAAATGCAGATAAACTGAC
* * * *
93845348 AGTATTGCAGACAAACTGGCAGTATTGTGGACAAGTAACCAGAAATGCAGATAAACTGTC
1 AGTATTGCAGACAAACTGCCAGTATTATGGACAAGCAACCAGAAATGCAGATAAACTGAC
93845408 AGTA
1 AGTA
93845412 CTTCCTCGTT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 52 0.98
61 1 0.02
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.22
Consensus pattern (60 bp):
AGTATTGCAGACAAACTGCCAGTATTATGGACAAGCAACCAGAAATGCAGATAAACTGAC
Found at i:93846381 original size:2 final size:2
Alignment explanation
Indices: 93846374--93846409 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
93846364 TGATGTCAAG
93846374 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
93846410 CGTATTTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93854012 original size:17 final size:16
Alignment explanation
Indices: 93853981--93854051 Score: 62
Period size: 16 Copynumber: 4.6 Consensus size: 16
93853971 AGAAATGAAA
93853981 ACAAAATAAAATAAAG
1 ACAAAATAAAATAAAG
*
93853997 ACAAAACTAAAGTAAAG
1 ACAAAA-TAAAATAAAG
*
93854014 -C--AATTAAATAAAAG
1 ACAAAATAAAAT-AAAG
93854028 A-AAAATAAAATAAA-
1 ACAAAATAAAATAAAG
*
93854042 ATAAAATAAA
1 ACAAAATAAA
93854052 TTGCTAACTC
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
13 4 0.09
14 7 0.16
15 11 0.24
16 14 0.31
17 9 0.20
ACGTcount: A:0.73, C:0.06, G:0.06, T:0.15
Consensus pattern (16 bp):
ACAAAATAAAATAAAG
Found at i:93854044 original size:10 final size:10
Alignment explanation
Indices: 93853973--93854051 Score: 50
Period size: 10 Copynumber: 7.2 Consensus size: 10
93853963 ATAAAGGTAG
*
93853973 AAATGAAAACA
1 AAAT-AAAATA
93853984 AAATAAAATA
1 AAATAAAATA
*
93853994 AAGACAAAACTA
1 AA-ATAAAA-TA
* *
93854006 AAGTAAAGCAATT
1 AAAT-AA--AATA
*
93854019 AAATAAAAGAA
1 AAATAAAA-TA
93854030 AAATAAAATA
1 AAATAAAATA
93854040 AAATAAAATA
1 AAATAAAATA
93854050 AA
1 AA
93854052 TTGCTAACTC
Statistics
Matches: 53, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
10 22 0.42
11 17 0.32
12 8 0.15
13 4 0.08
14 2 0.04
ACGTcount: A:0.73, C:0.05, G:0.06, T:0.15
Consensus pattern (10 bp):
AAATAAAATA
Found at i:93862177 original size:2 final size:2
Alignment explanation
Indices: 93862170--93862198 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
93862160 CAATCATCAA
93862170 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
93862199 CAAAAATCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:93864973 original size:2 final size:2
Alignment explanation
Indices: 93864966--93864994 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
93864956 AAGCACAAAC
93864966 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
93864995 ACATACATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:93866294 original size:15 final size:15
Alignment explanation
Indices: 93866274--93866304 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
93866264 GGTTCTTGGT
93866274 CTAAACATATTCAAA
1 CTAAACATATTCAAA
*
93866289 CTAAACTTATTCAAA
1 CTAAACATATTCAAA
93866304 C
1 C
93866305 ATATTTTCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (15 bp):
CTAAACATATTCAAA
Found at i:93866579 original size:15 final size:15
Alignment explanation
Indices: 93866556--93866586 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
93866546 TCAAAAATTC
93866556 CAATACAAAACATAT
1 CAATACAAAACATAT
*
93866571 CAATCCAAAACATAT
1 CAATACAAAACATAT
93866586 C
1 C
93866587 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:93867501 original size:8 final size:8
Alignment explanation
Indices: 93867488--93867519 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
93867478 TCGATATCTA
93867488 CGAAACAT
1 CGAAACAT
93867496 CGAAACAT
1 CGAAACAT
93867504 CGAAACAT
1 CGAAACAT
93867512 CGAAACAT
1 CGAAACAT
93867520 GGAATACATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.12, T:0.12
Consensus pattern (8 bp):
CGAAACAT
Found at i:93868633 original size:26 final size:27
Alignment explanation
Indices: 93868580--93868717 Score: 162
Period size: 26 Copynumber: 5.2 Consensus size: 27
93868570 GTGACGAAGT
*
93868580 CACCAGATACAGATAT-CGTGGCATAGC
1 CACCAGA-ACAGATATATGTGGCATAGC
*
93868607 CACCA-AACAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCATAGC
*
93868633 CACCA-ATCAGATA-ATCGTGGCATAGC
1 CACCAGAACAGATATAT-GTGGCATAGC
*
93868659 CACCAGAATAGATATATGTGGCA-AGC
1 CACCAGAACAGATATATGTGGCATAGC
*
93868685 CACCAGATCAGATA-ATTGTGGCATAGC
1 CACCAGAACAGATATA-TGTGGCATAGC
93868712 CACCAG
1 CACCAG
93868718 GACGCTTCCT
Statistics
Matches: 97, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
25 11 0.11
26 58 0.60
27 26 0.27
28 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.18
Consensus pattern (27 bp):
CACCAGAACAGATATATGTGGCATAGC
Found at i:93868678 original size:53 final size:53
Alignment explanation
Indices: 93868562--93868717 Score: 221
Period size: 53 Copynumber: 3.0 Consensus size: 53
93868552 GCGAGGCTGC
* *
93868562 CAGATAT-TGTGACGAAGTCACCAGATACAGAT-ATCGTGGCATAGCCACCA-AA
1 CAGATATATGTGGC-AAGCCACCAGAT-CAGATAATCGTGGCATAGCCACCAGAA
93868614 CAGATATATGTGGCAGAGCCACCA-ATCAGATAATCGTGGCATAGCCACCAGAA
1 CAGATATATGTGGCA-AGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAA
* *
93868667 TAGATATATGTGGCAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CAGATATATGTGGCAAGCCACCAGATCAGATAATCGTGGCATAGCCACCAG
93868718 GACGCTTCCT
Statistics
Matches: 95, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
51 5 0.05
52 36 0.38
53 54 0.57
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.19
Consensus pattern (53 bp):
CAGATATATGTGGCAAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAA
Found at i:93870358 original size:26 final size:26
Alignment explanation
Indices: 93870326--93870433 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
93870316 TGAAATGCCC
*
93870326 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
93870352 ATTATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
93870378 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
93870404 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
93870430 ATCA
1 ATCA
93870434 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:93875708 original size:27 final size:27
Alignment explanation
Indices: 93875663--93875821 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
93875653 GCGCGGCTGC
*
93875663 CAGATATTGTGAC-GAAGCCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
* *
93875690 CAGATATTGTGGTAGAGCCACCAGA-G
1 CAGATATTGTGGCAGAGCCACCAGATA
*
93875716 CAGATATATGTGGTAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
93875743 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
93875770 CAGATATATGTGGCAGAGCCACCAG-TT
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
93875797 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
93875822 GACGCTTCCT
Statistics
Matches: 114, Mismatches: 10, Indels: 16
0.81 0.07 0.11
Matches are distributed among these distances:
26 9 0.08
27 100 0.88
28 5 0.04
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:93875763 original size:54 final size:54
Alignment explanation
Indices: 93875678--93875821 Score: 218
Period size: 54 Copynumber: 2.7 Consensus size: 54
93875668 ATTGTGACGA
* * * *
93875678 AGCCACCAGATACAGAT-ATTGTGGTAGAGCCACCAGAGCAGATATATGTGGTAG
1 AGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAG
*
93875732 AGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAG
1 AGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAG
*
93875786 AGCCACCAGTTCAGATAATTGTGGCATAGCCACCAG
1 AGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
93875822 GACGCTTCCT
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (54 bp):
AGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAG
Found at i:93877471 original size:26 final size:26
Alignment explanation
Indices: 93877440--93877547 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
93877430 TGAAATGCCC
*
93877440 ATCATGGAACATTTACCTAGTCCATT
1 ATCATGGAACATTTACCTAATCCATT
*
93877466 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAATCCATT
*
93877492 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAATCCATT
93877518 ATCATGGAACATTTACCTAA-CCTATT
1 ATCATGGAACATTTACCTAATCC-ATT
93877544 ATCA
1 ATCA
93877548 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 2 0.03
26 74 0.97
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAATCCATT
Found at i:93878942 original size:19 final size:21
Alignment explanation
Indices: 93878918--93878956 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
93878908 CACTTGACAC
93878918 AAGGGC-ACACG-CCGTGTGG
1 AAGGGCAACACGCCCGTGTGG
93878937 AAGGGCAACACGCCCGTGTG
1 AAGGGCAACACGCCCGTGTG
93878957 ACCATATCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 5 0.28
21 7 0.39
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.10
Consensus pattern (21 bp):
AAGGGCAACACGCCCGTGTGG
Found at i:93881610 original size:46 final size:46
Alignment explanation
Indices: 93881512--93881677 Score: 140
Period size: 46 Copynumber: 3.5 Consensus size: 46
93881502 ATGAAGATTC
* * * * *
93881512 CATGTCCCAAACATGGTGTTACACTGACTA-TCATATCATA-GCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGC-ACTCATCTCA-AGGCCGATG
* * *
93881559 TATGTCCCAGACATGTCTTACACTGGC-TTACGTCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCACT-CATCTCAAGGCCGATG
* * * * *
93881605 CATGTCCTAGACATGTCTTACCCTAGCACTCATCTCGATGCCGATGG
1 CATGTCCCAGACATGTCTTACACTGGCACTCATCTCAAGGCCGAT-G
93881652 CATGTCCCAGACATGGTCTTACACTG
1 CATGTCCCAGACAT-GTCTTACACTG
93881678 TCTTTCATAA
Statistics
Matches: 95, Mismatches: 18, Indels: 11
0.77 0.15 0.09
Matches are distributed among these distances:
45 2 0.02
46 57 0.60
47 27 0.28
48 9 0.09
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCACTCATCTCAAGGCCGATG
Found at i:93885889 original size:39 final size:39
Alignment explanation
Indices: 93885826--93885939 Score: 156
Period size: 39 Copynumber: 2.9 Consensus size: 39
93885816 CAGTGATGTT
*
93885826 TATCCGGACTTAGGGTCTGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCTGCAGGCTATGTGCTGGAATTA
* * *
93885865 TATCTGGACTTAAGGTCTGTAGGCTATGTGCAGGAATTA
1 TATCCGGACTTAAGGTCTGCAGGCTATGTGCTGGAATTA
* * * *
93885904 TAACCAGACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 TATCCGGACTTAAGGTCTGCAGGCTATGTGCTGGAA
93885940 ATATGTCTGG
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 64 1.00
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCTGCAGGCTATGTGCTGGAATTA
Found at i:93888042 original size:40 final size:39
Alignment explanation
Indices: 93887997--93888126 Score: 145
Period size: 40 Copynumber: 3.3 Consensus size: 39
93887987 CGGAATACAA
93887997 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* ** *
93888037 CCGGATAGAATGACTTGCACGAATGCCTTCGAGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
93888077 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
93888117 CCGGATATAA
1 CCGGATATAA
93888127 TTTCCAGCAT
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
39 3 0.04
40 70 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.24
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:93895986 original size:30 final size:30
Alignment explanation
Indices: 93895945--93896003 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
93895935 AAATTCACAT
* *
93895945 CTTTGATAAAATGACCATTTTGCCCCTAGA
1 CTTTGACAAAATGACCATTTTACCCCTAGA
93895975 CTTTGACAAAATGACCATTTTACCCCTAG
1 CTTTGACAAAATGACCATTTTACCCCTAG
93896004 GCTTGAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (30 bp):
CTTTGACAAAATGACCATTTTACCCCTAGA
Found at i:93899311 original size:93 final size:93
Alignment explanation
Indices: 93899199--93899371 Score: 319
Period size: 93 Copynumber: 1.9 Consensus size: 93
93899189 CGCCCATAAG
* *
93899199 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
93899264 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
93899292 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
93899357 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
93899372 CAAATATCCC
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:93899367 original size:46 final size:46
Alignment explanation
Indices: 93899192--93899367 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
93899182 TGTAACCCGC
* * *
93899192 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
93899238 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
93899288 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
93899331 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
93899368 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:93904302 original size:2 final size:2
Alignment explanation
Indices: 93904261--93904294 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
93904251 ATTCACACAC
*
93904261 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93904295 GCATATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:93905074 original size:41 final size:44
Alignment explanation
Indices: 93905004--93905126 Score: 139
Period size: 41 Copynumber: 2.9 Consensus size: 44
93904994 ATGCTATCTC
* * *
93905004 ATATCGATGCC-ACTGTCCCAAACAGGGTCTTACACGAATCA-A
1 ATATCGATGCCAACTGTCCCAGACATGGTCTTACACGAACCACA
* * *
93905046 ATAT-GATGTCGA-TGTCCCAGACATGGTCTTACACATAACCACA
1 ATATCGATGCCAACTGTCCCAGACATGGTCTTACAC-GAACCACA
*
93905089 ATATCGATGCCAACT-TCCCAGACGTGGTCTTACACGAA
1 ATATCGATGCCAACTGTCCCAGACATGGTCTTACACGAA
93905127 AACACATATC
Statistics
Matches: 67, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
41 25 0.37
42 9 0.13
43 7 0.10
44 25 0.37
45 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.24
Consensus pattern (44 bp):
ATATCGATGCCAACTGTCCCAGACATGGTCTTACACGAACCACA
Found at i:93905739 original size:15 final size:15
Alignment explanation
Indices: 93905716--93905746 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
93905706 TCAAAAATTC
93905716 CAATACAAAACATAT
1 CAATACAAAACATAT
*
93905731 CAATCCAAAACATAT
1 CAATACAAAACATAT
93905746 C
1 C
93905747 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:93905975 original size:56 final size:56
Alignment explanation
Indices: 93905906--93906019 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
93905896 GTTACATACC
*
93905906 TTGATTGAGCTTAGCAATGGCCGAATATAAGAAAACTTTATTTATTTTCTTTTATT
1 TTGATTGACCTTAGCAATGGCCGAATATAAGAAAACTTTATTTATTTTCTTTTATT
93905962 TTGATTGACCTTAGCAATGGCCGAATATAAGAAAACTTTATTTATTTTCTTTTATT
1 TTGATTGACCTTAGCAATGGCCGAATATAAGAAAACTTTATTTATTTTCTTTTATT
93906018 TT
1 TT
93906020 AGGCTTTGAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (56 bp):
TTGATTGACCTTAGCAATGGCCGAATATAAGAAAACTTTATTTATTTTCTTTTATT
Found at i:93909027 original size:54 final size:54
Alignment explanation
Indices: 93908952--93909060 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
93908942 TTTAAAAAAT
93908952 TATGTTGGAGCCCATGACCGTTTGGGATTCCTGGGATGGGATGTTTGAAAATTA
1 TATGTTGGAGCCCATGACCGTTTGGGATTCCTGGGATGGGATGTTTGAAAATTA
93909006 TATGTTGGAGCCCATGACCGTTTGGGATTCCTGGGATGGGATGTTTGAAAATTA
1 TATGTTGGAGCCCATGACCGTTTGGGATTCCTGGGATGGGATGTTTGAAAATTA
93909060 T
1 T
93909061 CTCAAGTTCT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.22, C:0.13, G:0.31, T:0.34
Consensus pattern (54 bp):
TATGTTGGAGCCCATGACCGTTTGGGATTCCTGGGATGGGATGTTTGAAAATTA
Found at i:93909651 original size:27 final size:29
Alignment explanation
Indices: 93909621--93909695 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 29
93909611 AGATGACTCG
* *
93909621 GTGAACCCCTAGCTCG-CAATC-TACCCT
1 GTGAACCCCTAGCTCGTAAAACTTACCCT
* *
93909648 GTGAACACCTAGTTCGTAAAACTTACCCT
1 GTGAACCCCTAGCTCGTAAAACTTACCCT
* *
93909677 GTGAACCACTAGTTCGTAA
1 GTGAACCCCTAGCTCGTAA
93909696 CTTATCGTGC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
27 14 0.35
28 3 0.08
29 23 0.57
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (29 bp):
GTGAACCCCTAGCTCGTAAAACTTACCCT
Found at i:93910010 original size:22 final size:22
Alignment explanation
Indices: 93909985--93910026 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
93909975 CCCATTCATA
93909985 CATCAAT-TAGACAGATCACAGG
1 CATCAATGTA-ACAGATCACAGG
*
93910007 CATCAATGTAACATATCACA
1 CATCAATGTAACAGATCACA
93910027 CCTTATTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.43, C:0.24, G:0.12, T:0.21
Consensus pattern (22 bp):
CATCAATGTAACAGATCACAGG
Found at i:93911021 original size:17 final size:17
Alignment explanation
Indices: 93910998--93911073 Score: 107
Period size: 17 Copynumber: 4.5 Consensus size: 17
93910988 GCAATATCAT
*
93910998 ATAGGTTCGCATATATC
1 ATAGGTTCGCATATAAC
*
93911015 ATGGGTTCGCATATAAC
1 ATAGGTTCGCATATAAC
* *
93911032 ACAGGCTCGCATATAAC
1 ATAGGTTCGCATATAAC
*
93911049 ATGGGTTCGCATATAAC
1 ATAGGTTCGCATATAAC
93911066 ATAGGTTC
1 ATAGGTTC
93911074 ACACATGGTA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 50 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (17 bp):
ATAGGTTCGCATATAAC
Found at i:93911091 original size:17 final size:17
Alignment explanation
Indices: 93911071--93911103 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
93911061 ATAACATAGG
*
93911071 TTCACACATGGTATAAA
1 TTCACACATAGTATAAA
93911088 TTCACACATAGTATAA
1 TTCACACATAGTATAA
93911104 CAGGGTTTGC
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:0.42, C:0.18, G:0.09, T:0.30
Consensus pattern (17 bp):
TTCACACATAGTATAAA
Found at i:93913273 original size:75 final size:75
Alignment explanation
Indices: 93913154--93913325 Score: 205
Period size: 75 Copynumber: 2.4 Consensus size: 75
93913144 CATGGCAAAG
** *
93913154 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
93913213 CCATACTGAGC
65 CCATACCGAGC
93913224 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
93913289 CATACCGAGT
66 CATACCGAGC
***
93913299 TAAAAAAATGTAGGTATGGTATT-TCAA
1 T-GTGAAATGTAGGTATGGTATTATCAA
93913326 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 1 0.01
75 46 0.53
76 18 0.21
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:93913292 original size:35 final size:35
Alignment explanation
Indices: 93913157--93913323 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
93913147 GGCAAAGTGT
* **
93913157 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
93913192 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
93913227 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
93913267 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTT-AA
*
93913303 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
93913324 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
35 64 0.55
36 21 0.18
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:93913315 original size:36 final size:35
Alignment explanation
Indices: 93913253--93913323 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
93913243 ATTATCAAAT
* *
93913253 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
93913288 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
93913324 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Found at i:93920772 original size:75 final size:75
Alignment explanation
Indices: 93920653--93920824 Score: 205
Period size: 75 Copynumber: 2.4 Consensus size: 75
93920643 CATGGCAAAG
** *
93920653 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
93920712 CCATACTGAGC
65 CCATACCGAGC
93920723 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
93920788 CATACCGAGT
66 CATACCGAGC
***
93920798 TAAAAAAATGTAGGTATGGTATT-TCAA
1 T-GTGAAATGTAGGTATGGTATTATCAA
93920825 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 1 0.01
75 46 0.53
76 18 0.21
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:93920791 original size:35 final size:35
Alignment explanation
Indices: 93920656--93920822 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
93920646 GGCAAAGTGT
* **
93920656 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
93920691 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
93920726 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
93920766 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTT-AA
*
93920802 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
93920823 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
35 64 0.55
36 21 0.18
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:93920814 original size:36 final size:35
Alignment explanation
Indices: 93920752--93920822 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
93920742 ATTATCAAAT
* *
93920752 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
93920787 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
93920823 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Found at i:93939193 original size:17 final size:16
Alignment explanation
Indices: 93939169--93939207 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
93939159 AAAAATTTAA
93939169 AATTAATAATGT-TATC
1 AATTAATAAT-TATATC
93939185 AACTTAATAATTATATC
1 AA-TTAATAATTATATC
93939202 AATTAA
1 AATTAA
93939208 AATAAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (16 bp):
AATTAATAATTATATC
Found at i:93957101 original size:104 final size:103
Alignment explanation
Indices: 93956978--93957176 Score: 389
Period size: 104 Copynumber: 1.9 Consensus size: 103
93956968 GCAAGGGAAC
93956978 ATGTAGAAAAAATAAAGAAATGAAAAAAAAATGAGCATGGATGCCCCCCCTTTTGTTGCCGTGAG
1 ATGTAGAAAAAATAAAGAAATGAAAAAAAAATGAGCATGGATGCCCCCCCTTTTGTTGCCGTGAG
93957043 TAGAGGAAAAAGAAAGGAAAAAAATTTGTTAGTGGATT
66 TAGAGGAAAAAGAAAGGAAAAAAATTTGTTAGTGGATT
93957081 ATGTAGAAAAAAATAAAGAAATGAAAAAAAAATGAGCATGGATGCCCCCCCTTTTGTTGCCGTGA
1 ATGTAG-AAAAAATAAAGAAATGAAAAAAAAATGAGCATGGATGCCCCCCCTTTTGTTGCCGTGA
93957146 GTAGAGGAAAAAGAAAGGAAAAAAATTTGTT
65 GTAGAGGAAAAAGAAAGGAAAAAAATTTGTT
93957177 CATCCATTCT
Statistics
Matches: 95, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
103 6 0.06
104 89 0.94
ACGTcount: A:0.46, C:0.10, G:0.23, T:0.22
Consensus pattern (103 bp):
ATGTAGAAAAAATAAAGAAATGAAAAAAAAATGAGCATGGATGCCCCCCCTTTTGTTGCCGTGAG
TAGAGGAAAAAGAAAGGAAAAAAATTTGTTAGTGGATT
Found at i:93958305 original size:29 final size:29
Alignment explanation
Indices: 93958272--93958370 Score: 135
Period size: 29 Copynumber: 3.4 Consensus size: 29
93958262 CGAGATTGGA
93958272 ACTAAGTGTGCGTGCTGGAAATATATGGC
1 ACTAAGTGTGCGTGCTGGAAATATATGGC
*
93958301 ACTAAGTGTGCGTGCTGGAAATATTTGGC
1 ACTAAGTGTGCGTGCTGGAAATATATGGC
** * *
93958330 ACTAAGTGTGCAAGCTGGAAAAATACGGC
1 ACTAAGTGTGCGTGCTGGAAATATATGGC
**
93958359 ACTGGGTGTGCG
1 ACTAAGTGTGCG
93958371 AGTTCGGAGG
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.25
Consensus pattern (29 bp):
ACTAAGTGTGCGTGCTGGAAATATATGGC
Found at i:93968765 original size:40 final size:40
Alignment explanation
Indices: 93968663--93968814 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
93968653 AAATTGAATG
* * * * *
93968663 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAAT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGAT
* *
93968702 GATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 -ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGAT
* * *
93968743 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCCAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGAT
* *
93968783 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
93968815 AAATCGTGAT
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
39 3 0.03
40 88 0.92
41 5 0.05
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGAT
Found at i:93968829 original size:40 final size:39
Alignment explanation
Indices: 93968661--93968846 Score: 153
Period size: 40 Copynumber: 4.7 Consensus size: 39
93968651 AGAAATTGAA
* * *
93968661 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAA-A
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * *
93968701 TGATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* **
93968741 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCCAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTG-CAAATG
* *
93968781 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* * *
93968821 TGATATCCGGGTTAAGTCCCGTAGGC
1 TGATATCCGGGCTAAGACCCGAAGGC
93968847 CTTGGTGCGG
Statistics
Matches: 117, Mismatches: 22, Indels: 14
0.76 0.14 0.09
Matches are distributed among these distances:
37 2 0.02
38 3 0.03
39 6 0.05
40 103 0.88
41 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:93980600 original size:48 final size:48
Alignment explanation
Indices: 93980535--93980764 Score: 242
Period size: 48 Copynumber: 4.9 Consensus size: 48
93980525 AGGGTTATAT
93980535 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
*
93980583 GATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATGA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
* * * * *
93980631 GATCCCATGTAAGACCATATTTGGGATATGACATTGGCGTCGATATGA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
* * *
93980679 GA-CATCGTGTAAGACCATAG-CTAGG-C-T---ATTGGCATC-AGTATGTA
1 GATC-CCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGA-TATG-A
* * * *
93980723 TGATCCCATGTAAGGCCATATCTGGGATATGGCATTGACATC
1 -GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
93980765 TTACTATGTG
Statistics
Matches: 151, Mismatches: 19, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
42 1 0.01
43 12 0.08
44 1 0.01
45 17 0.11
46 2 0.01
47 2 0.01
48 108 0.72
50 8 0.05
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
Found at i:93988378 original size:17 final size:17
Alignment explanation
Indices: 93988356--93988433 Score: 83
Period size: 17 Copynumber: 4.6 Consensus size: 17
93988346 TAGTTTTCAC
93988356 ATGAATTAAATTAATAA
1 ATGAATTAAATTAATAA
*
93988373 ATGAATTAAATGAATAA
1 ATGAATTAAATTAATAA
93988390 ATGAATT-AA-T-ATAA
1 ATGAATTAAATTAATAA
*
93988404 TTTGACAGTTAAA-TAATAA
1 -ATGA-A-TTAAATTAATAA
93988423 ATGAATTAAAT
1 ATGAATTAAAT
93988434 GTACAAGCTT
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
14 4 0.08
15 3 0.06
16 8 0.16
17 26 0.51
18 6 0.12
19 4 0.08
ACGTcount: A:0.55, C:0.01, G:0.09, T:0.35
Consensus pattern (17 bp):
ATGAATTAAATTAATAA
Found at i:93988390 original size:8 final size:8
Alignment explanation
Indices: 93988356--93988395 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
93988346 TAGTTTTCAC
93988356 ATGAATTAA
1 ATGAA-TAA
*
93988365 ATTAATAA
1 ATGAATAA
93988373 ATGAATTAA
1 ATGAA-TAA
93988382 ATGAATAA
1 ATGAATAA
93988390 ATGAAT
1 ATGAAT
93988396 TAATATAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 16 0.57
9 12 0.43
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (8 bp):
ATGAATAA
Found at i:93996212 original size:6 final size:6
Alignment explanation
Indices: 93996165--93996196 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
93996155 AGTTATAAGA
93996165 TTTTA- TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
93996197 GTTAAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:93996872 original size:17 final size:18
Alignment explanation
Indices: 93996850--93996883 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
93996840 ATTTGGGCCA
93996850 TGTGGG-CCACACGGGTG
1 TGTGGGTCCACACGGGTG
93996867 TGTGGGTCCACACGGGT
1 TGTGGGTCCACACGGGT
93996884 AGTCCACATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.12, C:0.24, G:0.44, T:0.21
Consensus pattern (18 bp):
TGTGGGTCCACACGGGTG
Found at i:93999005 original size:80 final size:80
Alignment explanation
Indices: 93998921--93999069 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
93998911 TATGGTAACC
* * * *
93998921 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
93998985 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
93999001 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
93999066 CCGG
66 CCGG
93999070 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:93999011 original size:40 final size:38
Alignment explanation
Indices: 93998962--93999069 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
93998952 ATCACGATTT
*
93998962 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
93999002 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
93999042 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
93999070 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:94006930 original size:80 final size:80
Alignment explanation
Indices: 94006846--94006994 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
94006836 TATGGTAACC
* * * *
94006846 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
94006910 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
94006926 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
94006991 CCGG
66 CCGG
94006995 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:94006936 original size:40 final size:38
Alignment explanation
Indices: 94006887--94006994 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
94006877 ATCACGATTT
*
94006887 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
94006927 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
94006967 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
94006995 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:94010243 original size:29 final size:28
Alignment explanation
Indices: 94010180--94010277 Score: 114
Period size: 29 Copynumber: 3.6 Consensus size: 28
94010170 GTGACGAGAT
94010180 TGGCACTAAG-GTGCGGCTGGAAATATA
1 TGGCACTAAGTGTGCGGCTGGAAATATA
94010207 --GCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCG-GCTGGAAATATA
* *
94010234 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGC-GGCTGGAAATATA
* *
94010263 CGGCACT-GGTGTGCG
1 TGGCACTAAGTGTGCG
94010278 AGCTCGAGGT
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
25 8 0.13
26 5 0.08
27 12 0.20
28 6 0.10
29 30 0.49
ACGTcount: A:0.29, C:0.16, G:0.33, T:0.22
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGGCTGGAAATATA
Found at i:94018041 original size:29 final size:29
Alignment explanation
Indices: 94018008--94018086 Score: 131
Period size: 29 Copynumber: 2.7 Consensus size: 29
94017998 ACGAGATTGG
*
94018008 ACTAAGTGTGCGTGCTGGAAATATATGGC
1 ACTAAGTGTGCATGCTGGAAATATATGGC
*
94018037 ACTAAGTGTGCATGCTGGAAATATTTGGC
1 ACTAAGTGTGCATGCTGGAAATATATGGC
*
94018066 ACTAAGTGTGCAAGCTGGAAA
1 ACTAAGTGTGCATGCTGGAAA
94018087 AATACGGCGC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (29 bp):
ACTAAGTGTGCATGCTGGAAATATATGGC
Found at i:94022648 original size:47 final size:46
Alignment explanation
Indices: 94022539--94022649 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 46
94022529 TCGGGATAAG
94022539 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACA-TATAGTA
* *
94022586 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACA-ATAGTCGA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATATAGT--A
94022633 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
94022650 AATCAATGTC
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
45 5 0.09
46 1 0.02
47 51 0.89
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (46 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATATAGTA
Found at i:94024805 original size:20 final size:20
Alignment explanation
Indices: 94024769--94024810 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
94024759 TTCAATCATA
*
94024769 TAAAAAAAAGTACAACAAAT
1 TAAAAAAAAGTAAAACAAAT
*
94024789 TAAAGAAAAA-TAAAACATAT
1 TAAA-AAAAAGTAAAACAAAT
94024809 TA
1 TA
94024811 GATTTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.69, C:0.07, G:0.05, T:0.19
Consensus pattern (20 bp):
TAAAAAAAAGTAAAACAAAT
Found at i:94035455 original size:59 final size:60
Alignment explanation
Indices: 94035362--94035474 Score: 192
Period size: 59 Copynumber: 1.9 Consensus size: 60
94035352 CTACATTTTT
94035362 TTTTTTGGTCCTAATTATACTCTCACGACAATCAAGTGCCATGGATCTAATTTTATCAAA
1 TTTTTTGGTCCTAATTATACTCTCACGACAATCAAGTGCCATGGATCTAATTTTATCAAA
* * *
94035422 TTTTTT-GTCCTAATTATACTCTCATGACTATCAAGTGCCATGGATCTAGTTTT
1 TTTTTTGGTCCTAATTATACTCTCACGACAATCAAGTGCCATGGATCTAATTTT
94035475 TATTATAGAA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
59 44 0.88
60 6 0.12
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (60 bp):
TTTTTTGGTCCTAATTATACTCTCACGACAATCAAGTGCCATGGATCTAATTTTATCAAA
Found at i:94036829 original size:41 final size:41
Alignment explanation
Indices: 94036784--94036863 Score: 92
Period size: 41 Copynumber: 2.0 Consensus size: 41
94036774 ACCAACAAGA
*
94036784 ACAACAACAATAA-A-ATCAGCATAAATAAATAAACATATTCT
1 ACAAC-ACAATAAGATATCAGCA-AAAAAAATAAACATATTCT
* * *
94036825 ACAACTCAATAAGATATGAGGAAAAAAAATAAACATATT
1 ACAACACAATAAGATATCAGCAAAAAAAATAAACATATT
94036864 AATAAAAGCT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
40 6 0.18
41 22 0.67
42 5 0.15
ACGTcount: A:0.59, C:0.14, G:0.06, T:0.21
Consensus pattern (41 bp):
ACAACACAATAAGATATCAGCAAAAAAAATAAACATATTCT
Found at i:94041461 original size:2 final size:2
Alignment explanation
Indices: 94041454--94041496 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
94041444 TTAAAAGATA
*
94041454 AT AT AT AT AT AA 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
94041496 A
1 A
94041497 CCCCAAAACA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:94045661 original size:8 final size:8
Alignment explanation
Indices: 94045648--94045694 Score: 94
Period size: 8 Copynumber: 5.9 Consensus size: 8
94045638 TTAGAAATAT
94045648 ATATATAC
1 ATATATAC
94045656 ATATATAC
1 ATATATAC
94045664 ATATATAC
1 ATATATAC
94045672 ATATATAC
1 ATATATAC
94045680 ATATATAC
1 ATATATAC
94045688 ATATATA
1 ATATATA
94045695 TAAACTTTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 39 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATATAC
Found at i:94048571 original size:13 final size:13
Alignment explanation
Indices: 94048549--94048581 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
94048539 AGGATTTTTT
94048549 TTAT-TAAACTAA
1 TTATCTAAACTAA
94048561 TTATCTAAACTAA
1 TTATCTAAACTAA
*
94048574 TTAACTAA
1 TTATCTAA
94048582 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:94050827 original size:28 final size:28
Alignment explanation
Indices: 94050796--94050867 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
94050786 TCGATATTTT
*
94050796 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* *
94050824 GCACACTATGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
94050852 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
94050868 ATTTGATTGC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.32
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:94056660 original size:21 final size:20
Alignment explanation
Indices: 94056636--94056680 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
94056626 TCGCTTCTCC
*
94056636 CACGCCCGTGTTTTATGGTA
1 CACGCCCGTGTATTATGGTA
* *
94056656 GCACGCCTGTGTATTATTGTA
1 -CACGCCCGTGTATTATGGTA
94056677 CACG
1 CACG
94056681 GCTGAATGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.33
Consensus pattern (20 bp):
CACGCCCGTGTATTATGGTA
Found at i:94058792 original size:71 final size:71
Alignment explanation
Indices: 94058708--94058871 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
94058698 CGATTTGTCT
94058708 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
94058773 CTTTCA
66 CTTTCA
94058779 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
94058844 CTTTCA
66 CTTTCA
94058850 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
94058872 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:94058909 original size:71 final size:70
Alignment explanation
Indices: 94058708--94058905 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
94058698 CGATTTGTCT
* * * *
94058708 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
94058773 CTTTCA
65 CTTTCA
* * * *
94058779 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
94058844 CTTTCA
65 CTTTCA
* *
94058850 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
94058906 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:94061456 original size:26 final size:26
Alignment explanation
Indices: 94061427--94061534 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
94061417 TGGTACAAAT
94061427 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
94061453 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
94061479 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
94061505 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
94061531 TGAT
1 TGAT
94061535 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:94068747 original size:28 final size:29
Alignment explanation
Indices: 94068648--94068746 Score: 150
Period size: 28 Copynumber: 3.5 Consensus size: 29
94068638 AATGAGATTG
94068648 GCACTAAGTGTGCGAGTTT-AATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
*
94068676 ACACTAAGTGTGCGAGTTTGAATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
*
94068705 GCACTAAGTGTGCGGGTTTGAATAT-TA-A
1 GCACTAAGTGTGCGAGTTTGAAT-TGTATA
94068733 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
94068747 GACTTACTGT
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
28 33 0.50
29 32 0.48
30 1 0.02
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.32
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTGAATTGTATA
Found at i:94071420 original size:26 final size:26
Alignment explanation
Indices: 94071381--94071488 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
94071371 ATGGTAAAAT
*
94071381 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
94071407 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
94071433 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
94071459 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
94071485 TGAT
1 TGAT
94071489 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:94075863 original size:13 final size:13
Alignment explanation
Indices: 94075845--94075869 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94075835 GATTTTTTTA
94075845 TTAAACTAATTAT
1 TTAAACTAATTAT
94075858 TTAAACTAATTA
1 TTAAACTAATTA
94075870 ACTAATTTAA
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:94077214 original size:20 final size:19
Alignment explanation
Indices: 94077191--94077232 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
94077181 TAAAGAAAGT
94077191 AAAT-AAAATGGAAAGTAATG
1 AAATGAAAAT-GAAAGTAA-G
*
94077211 AAATGCAAATGAAAGTAAG
1 AAATGAAAATGAAAGTAAG
94077230 AAA
1 AAA
94077233 ATTTGAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 12 0.60
21 4 0.20
ACGTcount: A:0.62, C:0.02, G:0.19, T:0.17
Consensus pattern (19 bp):
AAATGAAAATGAAAGTAAG
Found at i:94077684 original size:15 final size:16
Alignment explanation
Indices: 94077664--94077694 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
94077654 TTGGTGCCTT
94077664 TTTGAT-ATGTGTTAA
1 TTTGATAATGTGTTAA
94077679 TTTGATAATGTGTTAA
1 TTTGATAATGTGTTAA
94077695 AGCATGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (16 bp):
TTTGATAATGTGTTAA
Found at i:94079044 original size:17 final size:19
Alignment explanation
Indices: 94079017--94079051 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
94079007 ATGTTGTGAA
94079017 TTATATATTTT-AAATTTT
1 TTATATATTTTGAAATTTT
94079035 TTAT-TATTTTGAAATTT
1 TTATATATTTTGAAATTT
94079052 AATATCCGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (19 bp):
TTATATATTTTGAAATTTT
Found at i:94083813 original size:40 final size:39
Alignment explanation
Indices: 94083648--94083831 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
94083638 AAATTGAATG
* * *
94083648 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
94083688 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
94083728 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
94083768 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
94083807 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
94083832 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:94083856 original size:80 final size:81
Alignment explanation
Indices: 94083688--94083876 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
94083678 GCTGGAAATT
* * * *
94083688 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
94083753 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
94083769 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
94083832 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
94083848 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
94083877 ATTGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:94095744 original size:77 final size:77
Alignment explanation
Indices: 94095617--94095759 Score: 191
Period size: 77 Copynumber: 1.9 Consensus size: 77
94095607 AAGTACTTAT
* * *
94095617 ATCATGGCCCGAAGCCAAATCAAGGTAACTTATATCCAAAGTACTGATATCATGGCCCGAAGCCA
1 ATCATGGCCCGAAGCCAAATCAAGATAACTCATATCCAAAGTACTAATATCATGGCCCGAAGCCA
94095682 AATTAGTCGATA
66 AATTAGTCGATA
* * * *
94095694 ATCATGGCCCGAAGCCAAATC-AGTATAACTCGTA-CCTGAAGTGCTAATATCATGGCCTGAAGC
1 ATCATGGCCCGAAGCCAAATCAAG-ATAACTCATATCC-AAAGTACTAATATCATGGCCCGAAGC
94095757 CAA
64 CAA
94095760 CTCAATGTCT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
76 4 0.07
77 53 0.93
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (77 bp):
ATCATGGCCCGAAGCCAAATCAAGATAACTCATATCCAAAGTACTAATATCATGGCCCGAAGCCA
AATTAGTCGATA
Found at i:94098233 original size:27 final size:27
Alignment explanation
Indices: 94098203--94098256 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
94098193 TTTTTAAAGG
94098203 TTAAAATGGTAAATGAACAATAAAAAA
1 TTAAAATGGTAAATGAACAATAAAAAA
*
94098230 TTAAAATTGTAAATGAACAATAAAAAA
1 TTAAAATGGTAAATGAACAATAAAAAA
94098257 AATTAAGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.63, C:0.04, G:0.09, T:0.24
Consensus pattern (27 bp):
TTAAAATGGTAAATGAACAATAAAAAA
Found at i:94100399 original size:54 final size:54
Alignment explanation
Indices: 94100279--94100399 Score: 120
Period size: 54 Copynumber: 2.2 Consensus size: 54
94100269 TGTTCAAGTT
* *
94100279 AGTGAGTTACACGACCTAGCACATAGCCTGACACACGGACGTGTGTAACAACTC
1 AGTGAGTTACACGACCTAGCACACAGCCTGACACACGGACGTGTGGAACAACTC
* * * * * ** *
94100333 AGAT-AGTCACACGACCTAGCACACGGCTTGGCACACAGG-CTTGTGGGGCTACTC
1 AG-TGAGTTACACGACCTAGCACACAGCCTGACACAC-GGACGTGTGGAACAACTC
94100387 AGTGAGTTACACG
1 AGTGAGTTACACG
94100400 GGTGAGGACA
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
53 1 0.02
54 49 0.92
55 3 0.06
ACGTcount: A:0.28, C:0.27, G:0.26, T:0.19
Consensus pattern (54 bp):
AGTGAGTTACACGACCTAGCACACAGCCTGACACACGGACGTGTGGAACAACTC
Found at i:94104091 original size:29 final size:29
Alignment explanation
Indices: 94104049--94104130 Score: 155
Period size: 29 Copynumber: 2.8 Consensus size: 29
94104039 TTATTTTTTT
94104049 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
94104078 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
*
94104107 TTTCCAGCACGCACACTTAGTGCC
1 TTTCCAGCATGCACACTTAGTGCC
94104131 TATCTCGTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (29 bp):
TTTCCAGCATGCACACTTAGTGCCATATA
Found at i:94106510 original size:6 final size:6
Alignment explanation
Indices: 94106494--94106571 Score: 138
Period size: 6 Copynumber: 13.0 Consensus size: 6
94106484 TGGTTTTATC
* *
94106494 AAAATG GAAATG AAAATG AAAATT AAAATG AAAATG AAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
94106542 AAAATG AAAATG AAAATG AAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG
94106572 GGAAATGATT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.65, C:0.00, G:0.17, T:0.18
Consensus pattern (6 bp):
AAAATG
Found at i:94110004 original size:43 final size:42
Alignment explanation
Indices: 94109938--94110098 Score: 141
Period size: 43 Copynumber: 3.8 Consensus size: 42
94109928 AGCTCGTACC
* * * *
94109938 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATTG
1 ATGCCAATGTCCCAAACGTGGTCTTACACGAAATCAAATA-CG
*
94109981 ATGCCACTGTCCCAAACAG-GGTCTTACACGAAATCAAATACG
1 ATGCCAATGTCCCAAAC-GTGGTCTTACACGAAATCAAATACG
* * *
94110023 ATGCCAATGTCCTAGA-GATGGTCTTGCACGTAAATCATAACT-CG
1 ATGCCAATGTCCCAAACG-TGGTCTTACACG-AAATCA-AA-TACG
* * *
94110067 ATGCCAACGT-CCAAACGTGCTCTTACATGAAA
1 ATGCCAATGTCCCAAACGTGGTCTTACACGAAA
94110099 ACACATATCG
Statistics
Matches: 96, Mismatches: 15, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
40 1 0.01
42 27 0.28
43 52 0.54
44 15 0.16
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAAACGTGGTCTTACACGAAATCAAATACG
Found at i:94111213 original size:13 final size:13
Alignment explanation
Indices: 94111194--94111231 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
94111184 CACAAACGAT
94111194 AAAATTTTCACAC
1 AAAATTTTCACAC
*
94111207 GAAATTTTCACAC
1 AAAATTTTCACAC
*
94111220 AAAACTTTCACA
1 AAAATTTTCACA
94111232 GATATCAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.45, C:0.24, G:0.03, T:0.29
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:94117659 original size:43 final size:41
Alignment explanation
Indices: 94117609--94117705 Score: 106
Period size: 41 Copynumber: 2.3 Consensus size: 41
94117599 CCCAGATGTA
*
94117609 GTCTTACATGTAATCAAATATCAATGCCACA-ATCCCAGATAGG
1 GTCTTACATGTAATCAAATA-CAATG-CA-ATATCCCAGACAGG
* * * * *
94117652 GTCTTACACGAAATCAAATACGATGCAATGTCCCAGACATG
1 GTCTTACATGTAATCAAATACAATGCAATATCCCAGACAGG
94117693 GTCTTACATGTAA
1 GTCTTACATGTAA
94117706 ATCATAACTC
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
40 1 0.02
41 22 0.49
42 4 0.09
43 18 0.40
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (41 bp):
GTCTTACATGTAATCAAATACAATGCAATATCCCAGACAGG
Found at i:94117698 original size:41 final size:44
Alignment explanation
Indices: 94117641--94117745 Score: 137
Period size: 44 Copynumber: 2.5 Consensus size: 44
94117631 AATGCCACAA
* *
94117641 TCCCAGATAGGGTCTTACACG-AAATCA-AA-TACGATG-CAATG
1 TCCCAGACATGGTCTTACACGTAAATCATAACT-CGATGCCAATG
*
94117682 TCCCAGACATGGTCTTACATGTAAATCATAACTCGATGCCAATG
1 TCCCAGACATGGTCTTACACGTAAATCATAACTCGATGCCAATG
*
94117726 TCACAGACATGGTCTTACAC
1 TCCCAGACATGGTCTTACAC
94117746 AAAAACACAT
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
41 18 0.33
42 6 0.11
43 7 0.13
44 24 0.44
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (44 bp):
TCCCAGACATGGTCTTACACGTAAATCATAACTCGATGCCAATG
Found at i:94123162 original size:19 final size:19
Alignment explanation
Indices: 94123138--94123182 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
94123128 AAGATATACC
*
94123138 ACATTTAACCATCACATGA
1 ACATTTAACCATAACATGA
* *
94123157 ACATTTAAGCATAACATGC
1 ACATTTAACCATAACATGA
94123176 ACATTTA
1 ACATTTA
94123183 GTAGGTTTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.29
Consensus pattern (19 bp):
ACATTTAACCATAACATGA
Found at i:94124176 original size:15 final size:16
Alignment explanation
Indices: 94124151--94124185 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
94124141 TTAAGAGTCT
94124151 ACTTCGAGTTACACGA
1 ACTTCGAGTTACACGA
94124167 ACTT-GAGTTACACGA
1 ACTTCGAGTTACACGA
94124182 ACTT
1 ACTT
94124186 ACCTGGTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (16 bp):
ACTTCGAGTTACACGA
Found at i:94147050 original size:25 final size:25
Alignment explanation
Indices: 94147022--94147069 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
94147012 TTATACCATG
* * *
94147022 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
94147047 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
94147070 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:94147172 original size:20 final size:20
Alignment explanation
Indices: 94147112--94147172 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
94147102 ATAAATATGG
*
94147112 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
94147132 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
94147152 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
94147172 T
1 T
94147173 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:94147249 original size:24 final size:24
Alignment explanation
Indices: 94147222--94147387 Score: 248
Period size: 24 Copynumber: 7.0 Consensus size: 24
94147212 GAGGAAGTGA
94147222 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
94147246 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
94147270 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
94147294 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
94147317 AAAAGGGCTTATG-CCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
94147340 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
94147364 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
94147388 ATGATAAAGC
Statistics
Matches: 133, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
22 9 0.07
23 24 0.18
24 89 0.67
25 11 0.08
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:94147639 original size:30 final size:31
Alignment explanation
Indices: 94147579--94147641 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
94147569 CGTTTACAGT
94147579 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
94147610 AAAGGCTTCGGCCCAGTGTTATG-AATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
94147640 AA
1 AA
94147642 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:94153502 original size:25 final size:25
Alignment explanation
Indices: 94153474--94153521 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
94153464 TTATACCATG
* * *
94153474 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
94153499 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
94153522 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:94153624 original size:20 final size:20
Alignment explanation
Indices: 94153564--94153624 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
94153554 ATAAATATGG
*
94153564 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
94153584 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
94153604 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
94153624 T
1 T
94153625 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:94153701 original size:24 final size:24
Alignment explanation
Indices: 94153674--94153816 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
94153664 GAGGAAGTGA
94153674 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
94153698 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
94153722 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
94153745 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
94153769 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
94153793 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
94153817 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:94153767 original size:47 final size:47
Alignment explanation
Indices: 94153674--94153816 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
94153664 GAGGAAGTGA
94153674 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
94153722 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
94153769 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
94153817 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:94153790 original size:71 final size:72
Alignment explanation
Indices: 94153674--94153817 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
94153664 GAGGAAGTGA
*
94153674 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
94153737 CCAGTTAT
65 CCAGTTAT
** * *
94153745 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
94153810 CAGTTAT
66 CAGTTAT
94153817 A
1 A
94153818 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:94154043 original size:31 final size:31
Alignment explanation
Indices: 94154008--94154071 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
94153998 TGTTTACAGT
94154008 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
94154039 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
94154070 AA
1 AA
94154072 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:94156410 original size:34 final size:34
Alignment explanation
Indices: 94156335--94156416 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
94156325 TACCAGTGGG
* * * *
94156335 GCCTAAGCCCATATCAGTAACAGTGGCAATCTGA
1 GCCTTAGCCCATTTCAATAACAGTAGCAATCTGA
* *
94156369 GCCTTAGCCCATTTCAATAACAGTAGTAATCTGG
1 GCCTTAGCCCATTTCAATAACAGTAGCAATCTGA
**
94156403 GTTTTAGCCCATTT
1 GCCTTAGCCCATTT
94156417 TAGTAATAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (34 bp):
GCCTTAGCCCATTTCAATAACAGTAGCAATCTGA
Found at i:94156447 original size:18 final size:18
Alignment explanation
Indices: 94156418--94156474 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
94156408 AGCCCATTTT
*
94156418 AGTAATAGTAATCAGTGC
1 AGTAACAGTAATCAGTGC
*
94156436 AGTAACCA-TAATCAATGC
1 AGTAA-CAGTAATCAGTGC
94156454 AGTAACAGTAATCAGTGC
1 AGTAACAGTAATCAGTGC
94156472 AGT
1 AGT
94156475 GTACAAACAG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 2 0.06
18 31 0.91
19 1 0.03
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (18 bp):
AGTAACAGTAATCAGTGC
Found at i:94162154 original size:22 final size:23
Alignment explanation
Indices: 94162129--94162174 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
94162119 CAACCAAATC
94162129 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
94162151 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
94162174 A
1 A
94162175 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:94162180 original size:23 final size:23
Alignment explanation
Indices: 94162136--94162180 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
94162126 ATCAATTCAA
*
94162136 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
94162159 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
94162181 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:94165415 original size:42 final size:43
Alignment explanation
Indices: 94165369--94165462 Score: 136
Period size: 43 Copynumber: 2.2 Consensus size: 43
94165359 TCCTAGATAG
*
94165369 GGTCTTACACAAAATCACAATA-GATGCCAATGTCCCAAACAT
1 GGTCTTACACAAAATCACAATACAATGCCAATGTCCCAAACAT
* * * *
94165411 GGTCTTACACATAATCTCAATACAATGCCAATGTCCTAGACAT
1 GGTCTTACACAAAATCACAATACAATGCCAATGTCCCAAACAT
94165454 GGTCTTACA
1 GGTCTTACA
94165463 TGTTATCGCA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 20 0.43
43 26 0.57
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.26
Consensus pattern (43 bp):
GGTCTTACACAAAATCACAATACAATGCCAATGTCCCAAACAT
Found at i:94165454 original size:43 final size:42
Alignment explanation
Indices: 94165350--94165462 Score: 136
Period size: 42 Copynumber: 2.7 Consensus size: 42
94165340 ATACATATCG
* * * * *
94165350 ATGCCACTATCCTAGATAGGGTCTTACACAAAATCACAATAG
1 ATGCCAATGTCCTAGACATGGTCTTACACAAAATCACAATAA
* * * *
94165392 ATGCCAATGTCCCAAACATGGTCTTACACATAATCTCAATACA
1 ATGCCAATGTCCTAGACATGGTCTTACACAAAATCACAATA-A
94165435 ATGCCAATGTCCTAGACATGGTCTTACA
1 ATGCCAATGTCCTAGACATGGTCTTACA
94165463 TGTTATCGCA
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
42 33 0.56
43 26 0.44
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (42 bp):
ATGCCAATGTCCTAGACATGGTCTTACACAAAATCACAATAA
Found at i:94169719 original size:48 final size:48
Alignment explanation
Indices: 94169645--94169820 Score: 248
Period size: 48 Copynumber: 3.7 Consensus size: 48
94169635 CATTAGGGGA
* *
94169645 TTCATTTATTTGGCTTCAGGCCATGATATTGGCACTTCAGGTGCGAGC
1 TTCATTGATTTGGCTTCAGGCCATGATATTGGCACTTCGGGTGCGAGC
* *
94169693 TTCATTGATTTGGCTTTAGGCTATGATATTGGCACTTCGGGTGCGAGC
1 TTCATTGATTTGGCTTCAGGCCATGATATTGGCACTTCGGGTGCGAGC
* *
94169741 TTCATTGATTTGGCTTCAGGCCATGATATTAGCACTTTGGGTGCGAG-
1 TTCATTGATTTGGCTTCAGGCCATGATATTGGCACTTCGGGTGCGAGC
* * **
94169788 AT-ATTGAGTTGGCTTTGGGCCATGATATTGGCA
1 TTCATTGATTTGGCTTCAGGCCATGATATTGGCA
94169821 TTTAGTCTAC
Statistics
Matches: 115, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
46 27 0.23
47 1 0.01
48 87 0.76
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.36
Consensus pattern (48 bp):
TTCATTGATTTGGCTTCAGGCCATGATATTGGCACTTCGGGTGCGAGC
Found at i:94172072 original size:27 final size:28
Alignment explanation
Indices: 94172034--94172121 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 28
94172024 GTGACAGAGT
* * *
94172034 CACCAGATACAGATATTTTGTGGCA-TGC
1 CACCAGA-ACAGATATTATCTGGCAGGGC
94172062 CACCAGAACAGATA-TATCTGGCAGGGC
1 CACCAGAACAGATATTATCTGGCAGGGC
94172089 CACCAGAACAGATA-TATCTGGCAGGGC
1 CACCAGAACAGATATTATCTGGCAGGGC
94172116 CACCAG
1 CACCAG
94172122 GACGCTTCCT
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 7 0.12
27 42 0.75
28 7 0.12
ACGTcount: A:0.32, C:0.26, G:0.24, T:0.18
Consensus pattern (28 bp):
CACCAGAACAGATATTATCTGGCAGGGC
Found at i:94183125 original size:12 final size:12
Alignment explanation
Indices: 94183108--94183137 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
94183098 TTTCAAATGG
94183108 CCAAAATCATTA
1 CCAAAATCATTA
94183120 CCAAAATCATTA
1 CCAAAATCATTA
94183132 CCAAAA
1 CCAAAA
94183138 CATAACTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (12 bp):
CCAAAATCATTA
Found at i:94192607 original size:15 final size:15
Alignment explanation
Indices: 94192587--94192632 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
94192577 CATGTTGTTA
94192587 TATTATATTAACCTT
1 TATTATATTAACCTT
94192602 TATTATATTAA--TT
1 TATTATATTAACCTT
*
94192615 TACTA-ATTTAACCTT
1 TATTATA-TTAACCTT
94192630 TAT
1 TAT
94192633 AATAATCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.38
15 15 0.58
ACGTcount: A:0.35, C:0.11, G:0.00, T:0.54
Consensus pattern (15 bp):
TATTATATTAACCTT
Found at i:94193578 original size:29 final size:29
Alignment explanation
Indices: 94193546--94193604 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
94193536 TAATTACAAA
94193546 GGTTAAAAAGGTAAATAATATATTATTAT
1 GGTTAAAAAGGTAAATAATATATTATTAT
94193575 GGTTAAAAAGGTAAATAATATATTATTAT
1 GGTTAAAAAGGTAAATAATATATTATTAT
94193604 G
1 G
94193605 AAATAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.37
Consensus pattern (29 bp):
GGTTAAAAAGGTAAATAATATATTATTAT
Found at i:94194637 original size:86 final size:85
Alignment explanation
Indices: 94194533--94194692 Score: 200
Period size: 86 Copynumber: 1.9 Consensus size: 85
94194523 ATATGTGTTA
* *
94194533 TCGTGTAAGACCACGTCTAGGAC-GTTAGCATCGAT-TTGTGATTTAC-GTGTTAGACCATGTCT
1 TCGTGTAAGACCACGTCTAGGACAG-TAGCATCGATATT-TGA-TTACAG-GTAAGACCACGTCT
94194595 GGGACATTGGCATCGTATTTGATT
62 GGGACATTGGCATCGTATTTGATT
** * *
94194619 TCGTGTAAGACCTTGTCTAGGACAGTGGCATCGATATTTGATTACAGGTAAGACCGCGTCTGGGA
1 TCGTGTAAGACCACGTCTAGGACAGTAGCATCGATATTTGATTACAGGTAAGACCACGTCTGGGA
*
94194684 CGTTGGCAT
66 CATTGGCAT
94194693 TGTACGAGCT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
85 27 0.42
86 34 0.53
87 3 0.05
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.32
Consensus pattern (85 bp):
TCGTGTAAGACCACGTCTAGGACAGTAGCATCGATATTTGATTACAGGTAAGACCACGTCTGGGA
CATTGGCATCGTATTTGATT
Found at i:94194691 original size:43 final size:43
Alignment explanation
Indices: 94194520--94194692 Score: 167
Period size: 43 Copynumber: 4.0 Consensus size: 43
94194510 ACATAGGATT
* *
94194520 TCGATATGTG-TTATCGTGTAAGACCACGTCTAGGACGTTAGCA
1 TCGATATTTGATTA-CGTGTAAGACCACGTCTAGGACGTTGGCA
* * * *
94194563 TCGAT-TTGTGATTTACGTGTTAGACCATGTCTGGGACATTGGCA
1 TCGATATT-TGA-TTACGTGTAAGACCACGTCTAGGACGTTGGCA
* **
94194607 TCG-TATTTGATTTCGTGTAAGACCTTGTCTAGGACAG-TGGCA
1 TCGATATTTGATTACGTGTAAGACCACGTCTAGGAC-GTTGGCA
* *
94194649 TCGATATTTGATTACAG-GTAAGACCGCGTCTGGGACGTTGGCA
1 TCGATATTTGATTAC-GTGTAAGACCACGTCTAGGACGTTGGCA
94194692 T
1 T
94194693 TGTACGAGCT
Statistics
Matches: 107, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
42 31 0.29
43 43 0.40
44 30 0.28
45 3 0.03
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (43 bp):
TCGATATTTGATTACGTGTAAGACCACGTCTAGGACGTTGGCA
Found at i:94200055 original size:43 final size:43
Alignment explanation
Indices: 94200007--94200142 Score: 218
Period size: 43 Copynumber: 3.2 Consensus size: 43
94199997 GCATGAAACT
*
94200007 CGGTGATGTGTATTTGGGCCTTCGTGCCTAGCAGGCTTCATGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGC
*
94200050 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGC
* * * *
94200093 AGGTGATATGTATTCGGGCCTTCGTGCCTAGCAAGCTTAATGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGC
94200136 CGGTGAT
1 CGGTGAT
94200143 TCAAGCAAGG
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 85 1.00
ACGTcount: A:0.14, C:0.23, G:0.32, T:0.31
Consensus pattern (43 bp):
CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGC
Found at i:94200332 original size:29 final size:29
Alignment explanation
Indices: 94200299--94200456 Score: 101
Period size: 29 Copynumber: 5.5 Consensus size: 29
94200289 ATGATTAGAG
*
94200299 GCACTGTGTGTGCAAATTCCTTTAACCGA
1 GCACTATGTGTGCAAATTCCTTTAACCGA
* ** **
94200328 GCACTATGTGTGCGAGA-T-CGGTAATTGA
1 GCACTATGTGTGC-AAATTCCTTTAACCGA
* *
94200356 GGCACTGTGTGTGCGAATTCCTTTAACCGA
1 -GCACTATGTGTGCAAATTCCTTTAACCGA
* * ** **
94200386 GCACTATGTGTTCGAGA-T--GGTAATTGA
1 GCACTATGTGTGC-AAATTCCTTTAACCGA
* *
94200413 GGCACTGTGTGTGCGAATTCCTTTAACCGA
1 -GCACTATGTGTGCAAATTCCTTTAACCGA
94200443 GCACTATGTGTGCA
1 GCACTATGTGTGCA
94200457 GATCGTAATT
Statistics
Matches: 89, Mismatches: 31, Indels: 18
0.64 0.22 0.13
Matches are distributed among these distances:
27 6 0.07
28 19 0.21
29 50 0.56
30 14 0.16
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (29 bp):
GCACTATGTGTGCAAATTCCTTTAACCGA
Found at i:94200369 original size:58 final size:58
Alignment explanation
Indices: 94200296--94200519 Score: 384
Period size: 57 Copynumber: 3.9 Consensus size: 58
94200286 CGAATGATTA
*
94200296 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
*
94200354 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTTCGAGAT-GGTAATT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
94200411 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGC-AGATC-GTAATT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
* *
94200467 GAGGCACTGTGTGTGCGAGTT-CTTCAACCGAGCACTATGTGTGCGAGATCGGT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGT
94200520 CATGGGCACT
Statistics
Matches: 158, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
55 22 0.14
56 35 0.22
57 53 0.34
58 48 0.30
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (58 bp):
GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
Found at i:94200538 original size:115 final size:115
Alignment explanation
Indices: 94200272--94200515 Score: 385
Period size: 115 Copynumber: 2.2 Consensus size: 115
94200262 GAATGAATAT
*
94200272 GAGCATTATGTGTGCGA-AT-G--ATTAGAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACT
1 GAGCACTATGTGTGCGAGATGGTAATT-GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACT
*
94200333 ATGTGTGCGAGATCGGTAATTGAGGCACTGTGTGTGCGAATTCCTTTAACC
65 ATGTGTGCGAGATCGGTAATTGAGGCACTGTGTGTGCGAATTCCTTCAACC
* *
94200384 GAGCACTATGTGTTCGAGATGGTAATTGAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTA
1 GAGCACTATGTGTGCGAGATGGTAATTGAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTA
*
94200449 TGTGTGC-AGATC-GTAATTGAGGCACTGTGTGTGCGAGTT-CTTCAACC
66 TGTGTGCGAGATCGGTAATTGAGGCACTGTGTGTGCGAATTCCTTCAACC
94200496 GAGCACTATGTGTGCGAGAT
1 GAGCACTATGTGTGCGAGAT
94200516 CGGTCATGGG
Statistics
Matches: 122, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
112 41 0.34
113 28 0.23
114 6 0.05
115 44 0.36
116 3 0.02
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (115 bp):
GAGCACTATGTGTGCGAGATGGTAATTGAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTA
TGTGTGCGAGATCGGTAATTGAGGCACTGTGTGTGCGAATTCCTTCAACC
Done.