Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 32 of 84
Found at i:7447778 original size:126 final size:125
Alignment explanation
Indices: 7447646--7447887 Score: 285
Period size: 126 Copynumber: 1.9 Consensus size: 125
7447636 CTTAAAAAAT
* * *
7447646 ACCTTCAAT-AATT-ATGTACATAAATTAAAAGGAATTAGTGAAGGTGTTTTTCTA-G-AATAAA
1 ACCTTCAATAAATTCATGTA-A-AAAATAAAAGGAATTAATCAAGGTGTTTTT-TATGAAATAAA
* * *
7447707 CACCTTTACTAACCGTTTTAAAATTTAAGTAGTGAAATATTTAAAGGCATTTTGTACTAGAAGAC
63 CACCTTCAATAACC-CTTTAAAATTTAAGTAGTGAAATA-TTAAAGGCATTTTGTACTAGAAGAC
* * * *
7447772 ACCTTCAATAAATTCTTTTAAAAAATAAAATGAATTAATCAAGGTGTTTTTTATGAAATAAATAC
1 ACCTTCAATAAATTCATGTAAAAAATAAAAGGAATTAATCAAGGTGTTTTTTATGAAATAAACAC
* * **
7447837 CTTCAATAACCCTTTAAAATTTTAGTAGTGTAATATTAAAGGTGTTTTGTA
66 CTTCAATAACCCTTTAAAATTTAAGTAGTGAAATATTAAAGGCATTTTGTA
7447888 GAGAAGATAC
Statistics
Matches: 98, Mismatches: 14, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
125 16 0.16
126 57 0.58
127 22 0.22
128 3 0.03
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.37
Consensus pattern (125 bp):
ACCTTCAATAAATTCATGTAAAAAATAAAAGGAATTAATCAAGGTGTTTTTTATGAAATAAACAC
CTTCAATAACCCTTTAAAATTTAAGTAGTGAAATATTAAAGGCATTTTGTACTAGAAGAC
Found at i:7450481 original size:21 final size:21
Alignment explanation
Indices: 7450456--7450496 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
7450446 CATATTACAC
7450456 AAGTTGGTGATATTGATATTG
1 AAGTTGGTGATATTGATATTG
*
7450477 AAGTTGGTGATCTTGATATT
1 AAGTTGGTGATATTGATATT
7450497 CAAAATAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.02, G:0.27, T:0.44
Consensus pattern (21 bp):
AAGTTGGTGATATTGATATTG
Found at i:7456680 original size:23 final size:21
Alignment explanation
Indices: 7456650--7456692 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7456640 AAATAATTAA
*
7456650 TATAATTAATATTGAAAAAATAT
1 TATAATT-ATAAT-AAAAAATAT
7456673 TATAATTATAATAAAAAATA
1 TATAATTATAATAAAAAATA
7456693 AAAAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 4 0.21
23 7 0.37
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
TATAATTATAATAAAAAATAT
Found at i:7465297 original size:13 final size:13
Alignment explanation
Indices: 7465275--7465307 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
7465265 AAAGGTGGAA
7465275 AAAAAAAGAAAAT
1 AAAAAAAGAAAAT
*
7465288 AAAAAGAGAAAAT
1 AAAAAAAGAAAAT
7465301 AAAAAAA
1 AAAAAAA
7465308 AAGAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (13 bp):
AAAAAAAGAAAAT
Found at i:7465304 original size:23 final size:23
Alignment explanation
Indices: 7465272--7465315 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
7465262 GTGAAAGGTG
* *
7465272 GAAAAAAAAAGAAAATAAAAAGA
1 GAAAAAAAAAAAAAAGAAAAAGA
*
7465295 GAAAATAAAAAAAAAGAAAAA
1 GAAAAAAAAAAAAAAGAAAAA
7465316 AAGATGAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (23 bp):
GAAAAAAAAAAAAAAGAAAAAGA
Found at i:7465304 original size:25 final size:26
Alignment explanation
Indices: 7465273--7465324 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 26
7465263 TGAAAGGTGG
7465273 AAAAAAAAAGAAAATAAAAAGA-GAAAAT
1 AAAAAAAAAG--AA-AAAAAGATGAAAAT
7465301 AAAAAAAAAGAAAAAAAGATGAAA
1 AAAAAAAAAGAAAAAAAGATGAAA
7465325 GAAGGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 7 0.30
26 6 0.26
28 10 0.43
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.06
Consensus pattern (26 bp):
AAAAAAAAAGAAAAAAAGATGAAAAT
Found at i:7465317 original size:13 final size:13
Alignment explanation
Indices: 7465273--7465317 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
7465263 TGAAAGGTGG
7465273 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
* *
7465286 ATAAAAAGAGAAAA
1 AAAAAAAAAG-AAA
7465300 TAAAAAAAAAGAAA
1 -AAAAAAAAAGAAA
7465314 AAAA
1 AAAA
7465318 GATGAAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 12 0.46
14 6 0.23
15 8 0.31
ACGTcount: A:0.87, C:0.00, G:0.09, T:0.04
Consensus pattern (13 bp):
AAAAAAAAAGAAA
Found at i:7466766 original size:43 final size:42
Alignment explanation
Indices: 7466718--7466799 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 42
7466708 GCCTTTGAAC
* * *
7466718 TCAAATGAGAAG-TTTTGAATTTTTGAATGTGAATCTCCAAAAT
1 TCAAATGAAAAGCTTTAG-ATTTTTGAATATGAAT-TCCAAAAT
*
7466761 TCAAATGAAAAGCTTTAGATTTTTGGATATGAATTCCAA
1 TCAAATGAAAAGCTTTAGATTTTTGAATATGAATTCCAA
7466800 GTTTGCCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 5 0.15
43 25 0.74
44 4 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.37
Consensus pattern (42 bp):
TCAAATGAAAAGCTTTAGATTTTTGAATATGAATTCCAAAAT
Found at i:7467185 original size:32 final size:32
Alignment explanation
Indices: 7467139--7467199 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
7467129 TCTATTTAGA
7467139 GGAGCAATTTACTTTTCAAAAGTTACGGTGTC
1 GGAGCAATTTACTTTTCAAAAGTTACGGTGTC
*
7467171 GGAGTAATTTACTTTTCAAAAGTTACGGT
1 GGAGCAATTTACTTTTCAAAAGTTACGGT
7467200 ACCTCTGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (32 bp):
GGAGCAATTTACTTTTCAAAAGTTACGGTGTC
Found at i:7467223 original size:74 final size:72
Alignment explanation
Indices: 7467098--7467241 Score: 198
Period size: 74 Copynumber: 2.0 Consensus size: 72
7467088 TGATTGTTAA
* ** * *
7467098 GGAGCAATTTACTTTCCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAAGTT
1 GGAGCAATTTACTTTCAAAAGTTACGGTACCTCTATTTAGAGGAGCAATTTAC-CTTCAAAAGTT
7467163 ACGGTGTC
65 ACGGTGTC
* *
7467171 GGAGTAATTTACTTTTCAAAAGTTACGGTACCTCTGTTTAGAGGAGCAATTTACCTTCAAAAGTT
1 GGAGCAATTTAC-TTTCAAAAGTTACGGTACCTCTATTTAGAGGAGCAATTTACCTTCAAAAGTT
*
7467236 ATGGTG
65 ACGGTG
7467242 CCTCTGTTTG
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
73 26 0.42
74 36 0.58
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (72 bp):
GGAGCAATTTACTTTCAAAAGTTACGGTACCTCTATTTAGAGGAGCAATTTACCTTCAAAAGTTA
CGGTGTC
Found at i:7467234 original size:41 final size:41
Alignment explanation
Indices: 7467171--7467315 Score: 184
Period size: 41 Copynumber: 3.5 Consensus size: 41
7467161 TTACGGTGTC
* * *
7467171 GGAGTAATTTACTTTTCAAAAGTTACGGTACCTCTGTTTAGA
1 GGAGCAATTTAC-TTTCAAAAGTTATGGTGCCTCTGTTTAGA
* *
7467213 GGAGCAATTTACCTTCAAAAGTTATGGTGCCTCTGTTTGGA
1 GGAGCAATTTACTTTCAAAAGTTATGGTGCCTCTGTTTAGA
* * *
7467254 GGAGTAATTTACTTTC-AAAGTTATGGTGCCTTTATTTAGA
1 GGAGCAATTTACTTTCAAAAGTTATGGTGCCTCTGTTTAGA
* *
7467294 GGAGCAATTTGCTTTCCAAAGT
1 GGAGCAATTTACTTTCAAAAGT
7467316 CATTTAACCT
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
40 35 0.39
41 44 0.49
42 11 0.12
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.37
Consensus pattern (41 bp):
GGAGCAATTTACTTTCAAAAGTTATGGTGCCTCTGTTTAGA
Found at i:7467296 original size:40 final size:41
Alignment explanation
Indices: 7467171--7467339 Score: 171
Period size: 41 Copynumber: 4.1 Consensus size: 41
7467161 TTACGGTGTC
* * *
7467171 GGAGTAATTTACTTTTCAAAAGTTACGGTACCTCTGTTTAGA
1 GGAGCAATTTAC-TTTCAAAAGTTATGGTACCTCTATTTAGA
* * * *
7467213 GGAGCAATTTACCTTCAAAAGTTATGGTGCCTCTGTTTGGA
1 GGAGCAATTTACTTTCAAAAGTTATGGTACCTCTATTTAGA
* * *
7467254 GGAGTAATTTACTTTC-AAAGTTATGGTGCCTTTATTTAGA
1 GGAGCAATTTACTTTCAAAAGTTATGGTACCTCTATTTAGA
* * * * *
7467294 GGAGCAATTTGCTTTCCAAAGTCAT-TTAACCTTTATTTAGA
1 GGAGCAATTTACTTTCAAAAGTTATGGT-ACCTCTATTTAGA
7467335 GGAGC
1 GGAGC
7467340 TTTGTTTGTT
Statistics
Matches: 110, Mismatches: 15, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
40 36 0.33
41 63 0.57
42 11 0.10
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (41 bp):
GGAGCAATTTACTTTCAAAAGTTATGGTACCTCTATTTAGA
Found at i:7467337 original size:81 final size:83
Alignment explanation
Indices: 7467171--7467338 Score: 189
Period size: 81 Copynumber: 2.0 Consensus size: 83
7467161 TTACGGTGTC
* *
7467171 GGAGTAATTTACTTTTCAAAAGTTACGGTACCTCTGTTTAGAGGAGCAATTTACCTTCAAAAGTT
1 GGAGTAATTTACTTTTCAAAAGTTACGGTACCTCTATTTAGAGGAGCAATTTACCTTCAAAAGTC
* * *
7467236 ATGGTGCCTCTGTTTGGA
66 ATGGTACCTCTATTTAGA
* * * * * *
7467254 GGAGTAATTTAC-TTTC-AAAGTTATGGTGCCTTTATTTAGAGGAGCAATTTGCTTTCCAAAGTC
1 GGAGTAATTTACTTTTCAAAAGTTACGGTACCTCTATTTAGAGGAGCAATTTACCTTCAAAAGTC
* *
7467317 AT-TTAACCTTTATTTAGA
66 ATGGT-ACCTCTATTTAGA
7467335 GGAG
1 GGAG
7467339 CTTTGTTTGT
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
80 1 0.01
81 54 0.76
82 4 0.06
83 12 0.17
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (83 bp):
GGAGTAATTTACTTTTCAAAAGTTACGGTACCTCTATTTAGAGGAGCAATTTACCTTCAAAAGTC
ATGGTACCTCTATTTAGA
Found at i:7467375 original size:42 final size:42
Alignment explanation
Indices: 7467327--7467477 Score: 180
Period size: 42 Copynumber: 3.6 Consensus size: 42
7467317 ATTTAACCTT
* * *
7467327 TATTTAGAGGAGCTTTGTTTGTTTTCAAAGTCGTTGAGCCTC
1 TATTTAGAGAAGCTTTATTTATTTTCAAAGTCGTTGAGCCTC
* * *
7467369 TGTTTAGAGAAGTTTTATTTATTTTCAAAATCGTTGAGCCTC
1 TATTTAGAGAAGCTTTATTTATTTTCAAAGTCGTTGAGCCTC
* *
7467411 TATTTAGAGGAA-CTTTATTTATTTTCAAAAGTCATTGAGCATC
1 TATTTAGA-GAAGCTTTATTTATTTTC-AAAGTCGTTGAGCCTC
* *
7467454 TATTTAAAGAAGCTTT-GTTATTTT
1 TATTTAGAGAAGCTTTATTTATTTT
7467478 TTCTTTTAAA
Statistics
Matches: 93, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 66 0.71
43 27 0.29
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.45
Consensus pattern (42 bp):
TATTTAGAGAAGCTTTATTTATTTTCAAAGTCGTTGAGCCTC
Found at i:7468827 original size:10 final size:10
Alignment explanation
Indices: 7468812--7468836 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
7468802 GACGAAAATT
7468812 AATAATAATA
1 AATAATAATA
7468822 AATAATAATA
1 AATAATAATA
7468832 AATAA
1 AATAA
7468837 ATCTTTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AATAATAATA
Found at i:7475721 original size:2 final size:2
Alignment explanation
Indices: 7475710--7475747 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
7475700 TATGATTGAA
7475710 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7475748 CACATATGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7477691 original size:38 final size:38
Alignment explanation
Indices: 7477640--7477716 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
7477630 CTTGGGAGAA
*
7477640 GAGAAGAGAAGTGCAGAGAAACATGTTACCATTGACTT
1 GAGAAGAGAAGTGCAGAGAAACACGTTACCATTGACTT
7477678 GAGAAGAGAAGTGCAGAGAAACACGTTACCATTGACTT
1 GAGAAGAGAAGTGCAGAGAAACACGTTACCATTGACTT
7477716 G
1 G
7477717 CTTTTCATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.39, C:0.14, G:0.27, T:0.19
Consensus pattern (38 bp):
GAGAAGAGAAGTGCAGAGAAACACGTTACCATTGACTT
Found at i:7478306 original size:20 final size:20
Alignment explanation
Indices: 7478281--7478322 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
7478271 TGAAATTATC
7478281 AATTAAAA-TAATTAAATTAA
1 AATTAAAATTAA-TAAATTAA
*
7478301 AATTAAAATTGATAAATTAA
1 AATTAAAATTAATAAATTAA
7478321 AA
1 AA
7478323 GGTTTGTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
AATTAAAATTAATAAATTAA
Found at i:7483258 original size:24 final size:24
Alignment explanation
Indices: 7483200--7483258 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
7483190 TAACTTTGAT
* * *
7483200 TAATTATAATAAAAAATATTTTCA
1 TAATTATAATTAAAAATATTATAA
7483224 TAATTATAATTAAAAATATTATAA
1 TAATTATAATTAAAAATATTATAA
*
7483248 TAATTTTAATT
1 TAATTATAATT
7483259 GATTATGGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
TAATTATAATTAAAAATATTATAA
Found at i:7483264 original size:58 final size:59
Alignment explanation
Indices: 7483152--7483264 Score: 140
Period size: 58 Copynumber: 1.9 Consensus size: 59
7483142 GTATAGTAGG
* *
7483152 AAAAACATTTTCATAACTATAACAAGAAGATATTATATTAACTTTGATTAATTATAATA
1 AAAAACATTTTCATAACTATAACAAGAAGATATTATAATAACTTTAATTAATTATAATA
* * * * *
7483211 AAAAATATTTTCATAATTATAATTAA-AA-ATATTATAATAATTTTAATTGATTAT
1 AAAAACATTTTCATAACTATAA-CAAGAAGATATTATAATAACTTTAATTAATTAT
7483265 GGGGGAAGAG
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
58 22 0.48
59 22 0.48
60 2 0.04
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.42
Consensus pattern (59 bp):
AAAAACATTTTCATAACTATAACAAGAAGATATTATAATAACTTTAATTAATTATAATA
Found at i:7484018 original size:20 final size:18
Alignment explanation
Indices: 7483993--7484051 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
7483983 TTTTTCAAAT
7483993 AATATTCAAATAATTATTAA
1 AATATT-AAA-AATTATTAA
*
7484013 AATATTAAAAATTATT-T
1 AATATTAAAAATTATTAA
*
7484030 ATTATT-AAAATATATTAA
1 AATATTAAAAAT-TATTAA
7484048 AATA
1 AATA
7484052 ATTTATTGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 5 0.15
17 9 0.27
18 10 0.30
19 3 0.09
20 6 0.18
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
AATATTAAAAATTATTAA
Found at i:7484056 original size:26 final size:26
Alignment explanation
Indices: 7484005--7484072 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
7483995 TATTCAAATA
* *
7484005 ATTATTAAAATAT-TAAAAATTATTT
1 ATTATTAAAATATATTAAAATAATTT
7484030 ATTATTAAAATATATTAAAATAATTT
1 ATTATTAAAATATATTAAAATAATTT
*
7484056 ATTGTTAAAAT-TATTAA
1 ATTATTAAAATATATTAA
7484073 TATTAAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
25 19 0.49
26 20 0.51
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (26 bp):
ATTATTAAAATATATTAAAATAATTT
Found at i:7484077 original size:9 final size:9
Alignment explanation
Indices: 7484004--7484077 Score: 50
Period size: 9 Copynumber: 8.6 Consensus size: 9
7483994 ATATTCAAAT
7484004 AATTATTAA
1 AATTATTAA
7484013 AA-TATTAAA
1 AATTATT-AA
7484022 AATTATT--
1 AATTATTAA
*
7484029 TATTATTAA
1 AATTATTAA
7484038 AATATATTAA
1 AAT-TATTAA
*
7484048 AATAATT--
1 AATTATTAA
* *
7484055 TATTGTTAA
1 AATTATTAA
7484064 AATTATTAA
1 AATTATTAA
*
7484073 TATTA
1 AATTA
7484078 AAAAATAATT
Statistics
Matches: 49, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
7 10 0.20
8 4 0.08
9 22 0.45
10 13 0.27
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (9 bp):
AATTATTAA
Found at i:7484080 original size:15 final size:16
Alignment explanation
Indices: 7484041--7484119 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 16
7484031 TTATTAAAAT
7484041 ATATTAAAATAATTTA
1 ATATTAAAATAATTTA
* * *
7484057 TTGTTAAAATTA-TTA
1 ATATTAAAATAATTTA
7484072 ATATTAAAA-AATAATTA
1 ATATTAAAATAAT--TTA
*
7484089 TATTTTAATAATAATATTTA
1 -ATATTAA-AAT-A-ATTTA
7484109 ATATTAAAATA
1 ATATTAAAATA
7484120 TTATGTTAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 15
0.67 0.11 0.21
Matches are distributed among these distances:
14 1 0.02
15 10 0.21
16 9 0.19
17 4 0.09
18 9 0.19
19 8 0.17
20 3 0.06
21 1 0.02
22 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (16 bp):
ATATTAAAATAATTTA
Found at i:7484114 original size:37 final size:33
Alignment explanation
Indices: 7484046--7484117 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 33
7484036 AAAATATATT
7484046 AAAATAATTTATTGTTAAAATTATTAATATTAA
1 AAAATAATTTATTGTTAAAATTATTAATATTAA
7484079 AAAATAATTATATT-TTAATAATAATATTTAATATTAA
1 AAAATAATT-TATTGTTAA-AAT--TA-TTAATATTAA
7484116 AA
1 AA
7484118 TATTATGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
33 13 0.38
34 7 0.21
36 2 0.06
37 12 0.35
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (33 bp):
AAAATAATTTATTGTTAAAATTATTAATATTAA
Found at i:7484128 original size:19 final size:18
Alignment explanation
Indices: 7484041--7484135 Score: 69
Period size: 18 Copynumber: 5.5 Consensus size: 18
7484031 TTATTAAAAT
7484041 ATATTAAAAT-A-ATTTA
1 ATATTAAAATAATATTTA
* *
7484057 TTGTTAAAAT--TA-TTA
1 ATATTAAAATAATATTTA
*
7484072 ATATTAAAA-AATAATTA
1 ATATTAAAATAATATTTA
*
7484089 TATTTTAATAATAATATTTA
1 -ATATTAA-AATAATATTTA
*
7484109 ATATTAAAATATTATGTTA
1 ATATTAAAATAATAT-TTA
7484128 ATA-TAAAA
1 ATATTAAAA
7484136 GAACTTAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
15 10 0.16
16 11 0.17
17 3 0.05
18 18 0.29
19 14 0.22
20 7 0.11
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
ATATTAAAATAATATTTA
Found at i:7484222 original size:13 final size:13
Alignment explanation
Indices: 7484188--7484232 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
7484178 TCATATATTA
7484188 TAATATTATTTGT
1 TAATATTATTTGT
**
7484201 TAACGTTATTTGT
1 TAATATTATTTGT
*
7484214 TAATATTATTTAT
1 TAATATTATTTGT
7484227 TAATAT
1 TAATAT
7484233 ATTATATTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (13 bp):
TAATATTATTTGT
Found at i:7484240 original size:17 final size:17
Alignment explanation
Indices: 7484227--7484313 Score: 57
Period size: 16 Copynumber: 5.5 Consensus size: 17
7484217 TATTATTTAT
7484227 TAATATATTATATTAAA
1 TAATATATTATATTAAA
* *
7484244 TAGTATATTAT-TTATA
1 TAATATATTATATTAAA
*
7484260 TAATATTATT-TA-TAAG
1 TAATA-TATTATATTAAA
*
7484276 TAA-A-ATTATACTAAA
1 TAATATATTATATTAAA
7484291 -AA-ATATTA-A-TAAA
1 TAATATATTATATTAAA
7484304 TAATTATATT
1 TAA-TATATT
7484314 CATAAACAGT
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
13 7 0.12
14 8 0.14
15 8 0.14
16 19 0.34
17 14 0.25
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (17 bp):
TAATATATTATATTAAA
Found at i:7484242 original size:26 final size:25
Alignment explanation
Indices: 7484159--7484261 Score: 70
Period size: 26 Copynumber: 4.1 Consensus size: 25
7484149 AACTATTTAT
* * *
7484159 TATTT-TTTATATTTTTTATTCATA
1 TATTTATTAATATTATTTATTAATA
*
7484183 TA-TTA-TAATATTATTTGTTAACGT-
1 TATTTATTAATATTATTTATTAA--TA
*
7484207 TATTTGTTAATATTATTTATTAATA
1 TATTTATTAATATTATTTATTAATA
* *
7484232 TATTATATTAAATAGTATATTATTTATA
1 TATT-TATT-AATATTAT-TTATTAATA
7484260 TA
1 TA
7484262 ATATTATTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 14
0.73 0.11 0.17
Matches are distributed among these distances:
23 14 0.23
24 5 0.08
25 7 0.11
26 18 0.30
27 7 0.11
28 10 0.16
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (25 bp):
TATTTATTAATATTATTTATTAATA
Found at i:7487287 original size:5 final size:5
Alignment explanation
Indices: 7487271--7487318 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
7487261 TAATTATTAT
* * * *
7487271 TATAA TTATAA TATAA TATAA TATAA CATGA TATAC TATAG TATAA TA
1 TATAA -TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TA
7487319 ATATGATATA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
5 30 0.86
6 5 0.14
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:7487354 original size:9 final size:9
Alignment explanation
Indices: 7487340--7487373 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
7487330 CATATAAATC
7487340 AATAATAAA
1 AATAATAAA
*
7487349 AATAATAAT
1 AATAATAAA
*
7487358 GATAATAAA
1 AATAATAAA
7487367 AATAATA
1 AATAATA
7487374 TCAATAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (9 bp):
AATAATAAA
Found at i:7487379 original size:15 final size:15
Alignment explanation
Indices: 7487352--7487384 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
7487342 TAATAAAAAT
7487352 AATAATGATAATAAA
1 AATAATGATAATAAA
7487367 AATAAT-ATCAATAAA
1 AATAATGAT-AATAAA
7487382 AAT
1 AAT
7487385 TGGTTCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 2 0.12
15 15 0.88
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (15 bp):
AATAATGATAATAAA
Found at i:7487380 original size:18 final size:18
Alignment explanation
Indices: 7487333--7487380 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
7487323 GATATAACAT
7487333 ATAA-ATCAATAATAAAA
1 ATAATATCAATAATAAAA
*
7487350 ATAATAAT-GATAATAAAA
1 ATAAT-ATCAATAATAAAA
7487368 ATAATATCAATAA
1 ATAATATCAATAA
7487381 AAATTGGTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 6 0.23
18 18 0.69
19 2 0.08
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (18 bp):
ATAATATCAATAATAAAA
Found at i:7487761 original size:115 final size:114
Alignment explanation
Indices: 7487559--7487917 Score: 312
Period size: 115 Copynumber: 3.1 Consensus size: 114
7487549 AGAATTGAGT
* * * * * * * * *
7487559 CAAGATCAAATGA-CTGAGACAAAGGTCACGAGTCTGAAAGCGACTAAGATCAAGTCAAGGTCGA
1 CAAGATCGAATGATC-GAGAC-AATGTCACGAGTTTGAAAGAGACCACGATCGAGTCGAGGTCAA
* * *
7487623 AGATGAATGA-CTAAGATAATGTCGTAAGTCAAAAAAATGATCTGGATCGAAC
64 AAATAAATGATC-GAGATAATGTCGTAAGTCAAAAAAATGATCTGGAT-GAAC
* * *
7487675 CAAGATCGAATGATCGAGACAATGTTACGAGTTTGAAAGAGACCAGGATCGAGTCGAGGTGAAAA
1 CAAGATCGAATGATCGAGACAATGTCACGAGTTTGAAAGAGACCACGATCGAGTCGAGGTCAAAA
* * *
7487740 ATAAATGATTGAGATGATGTCGCT-AGTCAAAAAAATGATCTGGATTAAGC
66 ATAAATGATCGAGATAATGTCG-TAAGTCAAAAAAATGATCTGGATGAA-C
* * * ** * * * *
7487790 CAAGATTGAATTATCGGGATGATGTCACGAGTTTGAAAGTGATCACGATTGAGTCGAGGTCAAAG
1 CAAGATCGAATGATCGAGACAATGTCACGAGTTTGAAAGAGACCACGATCGAGTCGAGGTCAAAA
* * * * * *
7487855 ATGAATGATCGAGACAAT-ACTGTAAGTTAAAAAAATGATCTAGATTGAGC
66 ATAAATGATCGAGATAATGTC-GTAAGTCAAAAAAATGATCTGGA-TGAAC
*
7487905 CAAGATCGGATGA
1 CAAGATCGAATGA
7487918 CTGGGATGAT
Statistics
Matches: 195, Mismatches: 41, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
114 4 0.02
115 170 0.87
116 20 0.10
117 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (114 bp):
CAAGATCGAATGATCGAGACAATGTCACGAGTTTGAAAGAGACCACGATCGAGTCGAGGTCAAAA
ATAAATGATCGAGATAATGTCGTAAGTCAAAAAAATGATCTGGATGAAC
Found at i:7487924 original size:115 final size:115
Alignment explanation
Indices: 7487644--7487928 Score: 315
Period size: 115 Copynumber: 2.5 Consensus size: 115
7487634 TAAGATAATG
* * * ** *
7487644 TCGTAAGTCAAAAAAATGATCTGGATCGAACCAAGATCGAATGATCGAGACAATGTTACGAGTTT
1 TCGTAAGTCAAAAAAATGATCTGGATTGAGCCAAGATCGAATGATCGGGATGATGTCACGAGTTT
* * * ** *
7487709 GAAAGAGACCAGGATCGAGTCGAGGTGAAAAATAAATGATTGAGATGATG
66 GAAAGAGACCACGATCGAGTCGAGGTCAAAAATAAATGATCGAGACAATC
* * *
7487759 TCGCT-AGTCAAAAAAATGATCTGGATTAAGCCAAGATTGAATTATCGGGATGATGTCACGAGTT
1 TCG-TAAGTCAAAAAAATGATCTGGATTGAGCCAAGATCGAATGATCGGGATGATGTCACGAGTT
* * * * *
7487823 TGAAAGTGATCACGATTGAGTCGAGGTCAAAGATGAATGATCGAGACAATAC
65 TGAAAGAGACCACGATCGAGTCGAGGTCAAAAATAAATGATCGAGACAAT-C
* * *
7487875 T-GTAAGTTAAAAAAATGATCTAGATTGAGCCAAGATCGGATGA-CTGGGATGATG
1 TCGTAAGTCAAAAAAATGATCTGGATTGAGCCAAGATCGAATGATC-GGGATGATG
7487929 CTGCAAGTCT
Statistics
Matches: 140, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
114 2 0.01
115 136 0.97
116 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (115 bp):
TCGTAAGTCAAAAAAATGATCTGGATTGAGCCAAGATCGAATGATCGGGATGATGTCACGAGTTT
GAAAGAGACCACGATCGAGTCGAGGTCAAAAATAAATGATCGAGACAATC
Found at i:7488055 original size:59 final size:60
Alignment explanation
Indices: 7487934--7488130 Score: 150
Period size: 59 Copynumber: 3.3 Consensus size: 60
7487924 TGATGCTGCA
* * * * *** * * * * *
7487934 AGTCTAAAAGTGACCAAGACCAAGTCGAGATTGAAGATAAATGATC-GAACGATATCATG
1 AGTCTGAAAGTGACTAAGATCGAGTCGAGACCAAAGATGAATGATCGGGATGATACCACG
* * * *
7487993 AGTCTGAAAGTGACTAAGATCGAGTTGAGGCCGAAGATGAATGA-CTGGGATGAT-GCACG
1 AGTCTGAAAGTGACTAAGATCGAGTCGAGACCAAAGATGAATGATC-GGGATGATACCACG
* * * **
7488052 AGTCTAAAAGCGA-TCAAGATCGAGTCGAGATCAAAGATGAATGATCGGGATGATACCATA
1 AGTCTGAAAGTGACT-AAGATCGAGTCGAGACCAAAGATGAATGATCGGGATGATACCACG
*
7488112 AGTTTGAAAGTGACTAAGA
1 AGTCTGAAAGTGACTAAGA
7488131 CTAAGTTAGG
Statistics
Matches: 107, Mismatches: 25, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
58 2 0.02
59 82 0.77
60 22 0.21
61 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.27, T:0.21
Consensus pattern (60 bp):
AGTCTGAAAGTGACTAAGATCGAGTCGAGACCAAAGATGAATGATCGGGATGATACCACG
Found at i:7488078 original size:118 final size:120
Alignment explanation
Indices: 7487914--7488130 Score: 294
Period size: 119 Copynumber: 1.8 Consensus size: 120
7487904 CCAAGATCGG
* * **
7487914 ATGACTGGGATGATGCTGCAAGTCTAAAAGTGACCAAGACCAAGTCGAGATTGAAGATAAATGAT
1 ATGACTGGGATGATGCTACAAGTCTAAAAGCGACCAAGACCAAGTCGAGATCAAAGATAAATGAT
* *
7487979 C-GAACGATATCATGAGTCTGAAAGTGACTAAGATCGAGTTGAGGCCGAAGATGA
66 CGGAACGATACCATAAGTCTGAAAGTGACTAAGATCGAGTTGAGGCCGAAGATGA
* * * * *
7488033 ATGACTGGGATGATGC-ACGAGTCTAAAAGCGATCAAGATCGAGTCGAGATCAAAGATGAATGAT
1 ATGACTGGGATGATGCTACAAGTCTAAAAGCGACCAAGACCAAGTCGAGATCAAAGATAAATGAT
* * *
7488097 CGGGATGATACCATAAGTTTGAAAGTGACTAAGA
66 CGGAACGATACCATAAGTCTGAAAGTGACTAAGA
7488131 CTAAGTTAGG
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
118 40 0.48
119 43 0.52
ACGTcount: A:0.37, C:0.14, G:0.28, T:0.21
Consensus pattern (120 bp):
ATGACTGGGATGATGCTACAAGTCTAAAAGCGACCAAGACCAAGTCGAGATCAAAGATAAATGAT
CGGAACGATACCATAAGTCTGAAAGTGACTAAGATCGAGTTGAGGCCGAAGATGA
Found at i:7488150 original size:119 final size:119
Alignment explanation
Indices: 7487914--7488155 Score: 283
Period size: 119 Copynumber: 2.0 Consensus size: 119
7487904 CCAAGATCGG
* * **
7487914 ATGACTGGGATGATGCTGCAAGTCTAAAAGTGACCAAGACCAAGTCGAGATTGAAGATAAATGAT
1 ATGACTGGGATGATGCTACAAGTCTAAAAGCGACCAAGACCAAGTCGAGATCAAAGATAAATGAT
* * * *
7487979 CGAACGATATCATGAGTCTGAAAGTGACTAAGATCGAGTTGAGGCCGAAGATGA
66 CGAACGATACCATAAGTCTGAAAGTGACTAAGATCAAGTTGAGGCCAAAGATGA
* * * * *
7488033 ATGACTGGGATGATGC-ACGAGTCTAAAAGCGATCAAGATCGAGTCGAGATCAAAGATGAATGAT
1 ATGACTGGGATGATGCTACAAGTCTAAAAGCGACCAAGACCAAGTCGAGATCAAAGATAAATGAT
* * * *
7488097 CGGGATGATACCATAAGTTTGAAAGTGACTAAGA-CTAAGTT-AGGGTCAAAGATGA
66 C-GAACGATACCATAAGTCTGAAAGTGACTAAGATC-AAGTTGA-GGCCAAAGATGA
7488152 ATGA
1 ATGA
7488156 TTGGAATAAT
Statistics
Matches: 103, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
118 42 0.41
119 61 0.59
ACGTcount: A:0.38, C:0.13, G:0.28, T:0.21
Consensus pattern (119 bp):
ATGACTGGGATGATGCTACAAGTCTAAAAGCGACCAAGACCAAGTCGAGATCAAAGATAAATGAT
CGAACGATACCATAAGTCTGAAAGTGACTAAGATCAAGTTGAGGCCAAAGATGA
Found at i:7493646 original size:12 final size:12
Alignment explanation
Indices: 7493629--7493661 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
7493619 GATTTAGGTC
7493629 GGGTCAACATGT
1 GGGTCAACATGT
*
7493641 GGGTCAACTTGT
1 GGGTCAACATGT
7493653 GGGTCAACA
1 GGGTCAACA
7493662 CGCGTGTCGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.24
Consensus pattern (12 bp):
GGGTCAACATGT
Found at i:7494212 original size:58 final size:59
Alignment explanation
Indices: 7494144--7494301 Score: 250
Period size: 57 Copynumber: 2.7 Consensus size: 59
7494134 TTTTTTTTAG
* *
7494144 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTG-AAATTTATTTTTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTATTTCTAA
* * *
7494202 GGAAAATTGATACTTTCAAC-TTTCCCCAAAAA-ATATTTTTGGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTATTTCTAA
7494259 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT
7494302 TTGGAACTTT
Statistics
Matches: 89, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
56 8 0.09
57 43 0.48
58 31 0.35
59 7 0.08
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTATTTCTAA
Found at i:7494353 original size:17 final size:17
Alignment explanation
Indices: 7494326--7494365 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
7494316 TTTTTTTATT
*
7494326 TAAAGAAAAATAGAAAAA
1 TAAA-AAAAATAAAAAAA
7494344 TAAAAAAAATAAAAAAA
1 TAAAAAAAATAAAAAAA
*
7494361 GAAAA
1 TAAAA
7494366 GTAAAACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.10
Consensus pattern (17 bp):
TAAAAAAAATAAAAAAA
Found at i:7494363 original size:23 final size:25
Alignment explanation
Indices: 7494331--7494383 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 25
7494321 TTATTTAAAG
*
7494331 AAAAATAGAAAAATAAAA-AAAA-T
1 AAAAAAAGAAAAATAAAACAAAACT
*
7494354 AAAAAAAGAAAAGTAAAACAAAACT
1 AAAAAAAGAAAAATAAAACAAAACT
7494379 AAAAA
1 AAAAA
7494384 TAAATAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 16 0.62
24 4 0.15
25 6 0.23
ACGTcount: A:0.81, C:0.04, G:0.06, T:0.09
Consensus pattern (25 bp):
AAAAAAAGAAAAATAAAACAAAACT
Found at i:7494440 original size:13 final size:13
Alignment explanation
Indices: 7494422--7494461 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
7494412 AAACCTAATC
7494422 TAATAAATACAAA
1 TAATAAATACAAA
7494435 TAATAAATA-AACA
1 TAATAAATACAA-A
7494448 -AATAAA-ACAAA
1 TAATAAATACAAA
7494459 TAA
1 TAA
7494462 AATTCAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
11 2 0.08
12 12 0.50
13 10 0.42
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.20
Consensus pattern (13 bp):
TAATAAATACAAA
Found at i:7494836 original size:18 final size:18
Alignment explanation
Indices: 7494810--7494850 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
7494800 AACACCGGTG
*
7494810 CGGATTCTGGAAATTCGC
1 CGGAATCTGGAAATTCGC
*
7494828 CGGAATCTGGAAATTTGC
1 CGGAATCTGGAAATTCGC
7494846 CGGAA
1 CGGAA
7494851 GTTCGCCGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (18 bp):
CGGAATCTGGAAATTCGC
Found at i:7494874 original size:16 final size:17
Alignment explanation
Indices: 7494853--7494884 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7494843 TGCCGGAAGT
7494853 TCGCCGG-TTCTGGGAA
1 TCGCCGGTTTCTGGGAA
7494869 TCGCCGGTTTCTGGGA
1 TCGCCGGTTTCTGGGA
7494885 TTCTTCGCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.09, C:0.25, G:0.38, T:0.28
Consensus pattern (17 bp):
TCGCCGGTTTCTGGGAA
Found at i:7494951 original size:29 final size:30
Alignment explanation
Indices: 7494908--7494976 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
7494898 ACTGGGCAGG
* * *
7494908 TCGCCGGAAACTTC-AAGTTGGCCGGAATT
1 TCGCCGGAAAATTCAAAGTTCGCCGGAAAT
*
7494937 TCGCCGGAAAATTCAAATTTCGCCGGAAAT
1 TCGCCGGAAAATTCAAAGTTCGCCGGAAAT
*
7494967 TCACCGGAAA
1 TCGCCGGAAA
7494977 CTGGAAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 13 0.38
30 21 0.62
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (30 bp):
TCGCCGGAAAATTCAAAGTTCGCCGGAAAT
Found at i:7494968 original size:18 final size:19
Alignment explanation
Indices: 7494933--7494969 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
7494923 AGTTGGCCGG
7494933 AATTTCGCCGGAAAATTCA
1 AATTTCGCCGGAAAATTCA
7494952 AATTTCGCCGG-AAATTCA
1 AATTTCGCCGGAAAATTCA
7494970 CCGGAAACTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (19 bp):
AATTTCGCCGGAAAATTCA
Found at i:7494985 original size:30 final size:30
Alignment explanation
Indices: 7494928--7494987 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
7494918 CTTCAAGTTG
* * *
7494928 GCCGGAATTTCGCCGGAAAATTCAAATTTC
1 GCCGGAAATTCACCGGAAAATGCAAATTTC
* *
7494958 GCCGGAAATTCACCGGAAACTGGAAATTTC
1 GCCGGAAATTCACCGGAAAATGCAAATTTC
7494988 CAGAAATTCC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (30 bp):
GCCGGAAATTCACCGGAAAATGCAAATTTC
Found at i:7495370 original size:20 final size:22
Alignment explanation
Indices: 7495336--7495375 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
7495326 ATATAAAAAT
7495336 AAAAAAATAATATCAGATAATC
1 AAAAAAATAATATCAGATAATC
7495358 AAAAAAA-AA-ATCAGATAA
1 AAAAAAATAATATCAGATAA
7495376 AATTAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 2 0.11
22 7 0.39
ACGTcount: A:0.70, C:0.07, G:0.05, T:0.17
Consensus pattern (22 bp):
AAAAAAATAATATCAGATAATC
Found at i:7495415 original size:31 final size:30
Alignment explanation
Indices: 7495352--7495431 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 30
7495342 ATAATATCAG
* **
7495352 ATAATCAAAAAAAAAATCAGATAAAATTAAA
1 ATAAT-AAAAAAAAAATAAGATAAAACAAAA
*
7495383 ATAATAAAAAAATAAATAAGATAAACCAAAA
1 ATAATAAAAAAA-AAATAAGATAAAACAAAA
7495414 ATATATTACAAAAAAAAA
1 ATA-A-TA-AAAAAAAAA
7495432 ATAATAATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 7 0.17
31 22 0.54
32 1 0.02
33 5 0.12
34 6 0.15
ACGTcount: A:0.72, C:0.06, G:0.03, T:0.19
Consensus pattern (30 bp):
ATAATAAAAAAAAAATAAGATAAAACAAAA
Found at i:7495465 original size:19 final size:16
Alignment explanation
Indices: 7495430--7495541 Score: 67
Period size: 16 Copynumber: 6.9 Consensus size: 16
7495420 TACAAAAAAA
7495430 AAATAATAATAATAAT
1 AAATAATAATAATAAT
7495446 AAATATATAACTATATAAT
1 AAATA-ATAA-TA-ATAAT
*
7495465 AAATACAT-ATAA-ATCT
1 AAATA-ATAATAATA-AT
*
7495481 AATCTAATAA-AA-AAT
1 AA-ATAATAATAATAAT
*
7495496 AAATAA-AAGATATACAT
1 AAATAATAATA-ATA-AT
7495513 -AATAATAATAATAAT
1 AAATAATAATAATAAT
7495528 AAATACATAA-AATA
1 AAATA-ATAATAATA
7495542 CAAAAGAAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 26
0.71 0.06 0.24
Matches are distributed among these distances:
13 2 0.03
14 4 0.05
15 7 0.09
16 31 0.40
17 18 0.23
18 3 0.04
19 12 0.16
ACGTcount: A:0.64, C:0.05, G:0.01, T:0.29
Consensus pattern (16 bp):
AAATAATAATAATAAT
Found at i:7495520 original size:23 final size:23
Alignment explanation
Indices: 7495491--7495541 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
7495481 AATCTAATAA
*
7495491 AAAATAAATAA-AAGATATACAT
1 AAAATAAATAATAAGAAATACAT
*
7495513 AATAAT-AATAATAATAAATACAT
1 AA-AATAAATAATAAGAAATACAT
7495536 AAAATA
1 AAAATA
7495542 CAAAAGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (23 bp):
AAAATAAATAATAAGAAATACAT
Found at i:7495731 original size:1 final size:1
Alignment explanation
Indices: 7495721--7495804 Score: 96
Period size: 1 Copynumber: 84.0 Consensus size: 1
7495711 CAACTCAACA
* ** * * * *
7495721 TTTTTATTTTTTTGATTTTTTTTTTTTTTTTTGTTTTTTTGTTTTTTTTTGTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
7495786 GTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTT
7495805 GCCGAAGCTC
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 68 1.00
ACGTcount: A:0.02, C:0.00, G:0.07, T:0.90
Consensus pattern (1 bp):
T
Found at i:7495892 original size:39 final size:41
Alignment explanation
Indices: 7495811--7496154 Score: 555
Period size: 39 Copynumber: 8.6 Consensus size: 41
7495801 TTTTGCCGAA
* * *
7495811 GCTCCTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
7495852 GCTCCTCTAAACAGAGG-ACCACGACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
7495891 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
7495931 GCTCCTCT-AACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* *
7495971 GCTCCTCTCAACAGAGGTACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
7496012 GCTCCTCTAAACAGAGGCA--ACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
7496051 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
7496092 GCTCCTCTAAACAGAGGCA--ACGACTTTGAAAA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
7496130 GCTCCTCTAAACAGAGGCACCACGA
1 GCTCCTCTAAACAGAGGCACCACGA
7496155 NNNNNNNNNN
Statistics
Matches: 288, Mismatches: 7, Indels: 17
0.92 0.02 0.05
Matches are distributed among these distances:
38 25 0.09
39 107 0.37
40 50 0.17
41 106 0.37
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:7495966 original size:80 final size:80
Alignment explanation
Indices: 7495811--7496154 Score: 554
Period size: 80 Copynumber: 4.3 Consensus size: 80
7495801 TTTTGCCGAA
* * * *
7495811 GCTCCTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGACCACG
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGG-CAACG
7495875 ACTTTG-AAAGTAAATT
64 ACTTTGAAAAGTAAATT
*
7495891 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAA-TAAATTGCTCCTCT-AACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACG
7495954 ACTTTGAAAAGTAAATT
64 ACTTTGAAAAGTAAATT
* *
7495971 GCTCCTCTCAACAGAGGTACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAC
7496036 TTTGAAAAGTAAATT
66 TTTGAAAAGTAAATT
7496051 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAC
7496116 TTTGAAAA-TAAATT
66 TTTGAAAAGTAAATT
7496130 GCTCCTCTAAACAGAGGCACCACGA
1 GCTCCTCTAAACAGAGGCACCACGA
7496155 NNNNNNNNNN
Statistics
Matches: 250, Mismatches: 8, Indels: 13
0.92 0.03 0.05
Matches are distributed among these distances:
77 1 0.00
78 8 0.03
79 58 0.23
80 159 0.64
81 14 0.06
82 10 0.04
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (80 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAC
TTTGAAAAGTAAATT
Found at i:7497369 original size:56 final size:56
Alignment explanation
Indices: 7497274--7497540 Score: 468
Period size: 55 Copynumber: 4.7 Consensus size: 56
7497264 TTTTTTTTAG
7497274 GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTTGAAATTTATTT-TAA
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAATA-TTTTTTTGAAATTTATTTCTAA
7497330 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATA-TTTTTTGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTTGAAATTTATTTCTAA
7497386 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATA-TTTTTTTGAAATTTATTTCTAA
7497444 GGAAAATTGATACTTTCAACTTTTCCCAAAAATA-TTTTTTGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAATTTATTTCTAA
7497499 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTT
7497541 TTGGAATTTT
Statistics
Matches: 204, Mismatches: 0, Indels: 13
0.94 0.00 0.06
Matches are distributed among these distances:
55 72 0.35
56 57 0.28
57 27 0.13
58 48 0.24
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.45
Consensus pattern (56 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAATTTATTTCTAA
Found at i:7497468 original size:28 final size:28
Alignment explanation
Indices: 7497437--7497523 Score: 65
Period size: 28 Copynumber: 3.1 Consensus size: 28
7497427 TTGAAATTTA
7497437 TTTCTAAGGAAAATTGATACTTTCAACT
1 TTTCTAAGGAAAATTGATACTTTCAACT
** ** * *
7497465 TTTCCCA--AAAA-T-ATTTTTTGAAATTT
1 TTTCTAAGGAAAATTGATACTTT-CAA-CT
7497491 ATTTCTAAGGAAAATTGATACTTTCAACT
1 -TTTCTAAGGAAAATTGATACTTTCAACT
7497520 TTTC
1 TTTC
7497524 CCTAAAAATA
Statistics
Matches: 40, Mismatches: 12, Indels: 14
0.61 0.18 0.21
Matches are distributed among these distances:
24 5 0.12
25 3 0.08
26 5 0.12
27 5 0.12
28 9 0.22
29 5 0.12
30 3 0.08
31 5 0.12
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (28 bp):
TTTCTAAGGAAAATTGATACTTTCAACT
Found at i:7497471 original size:113 final size:113
Alignment explanation
Indices: 7497274--7497541 Score: 513
Period size: 113 Copynumber: 2.4 Consensus size: 113
7497264 TTTTTTTTAG
7497274 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTTGAAATTTATTTTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTTAAGGAAAATT
7497338 GATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAATTTATTTCTAA
66 GATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAATTTATTTCTAA
7497386 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTCTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTT-TAAGGAAAAT
7497451 TGATACTTTCAAC-TTTTCCCAAAAATATTTTTTGAAATTTATTTCTAA
65 TGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAATTTATTTCTAA
7497499 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT
7497542 TGGAATTTTG
Statistics
Matches: 154, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
112 27 0.18
113 104 0.68
114 23 0.15
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (113 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTTAAGGAAAATT
GATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAATTTATTTCTAA
Found at i:7497586 original size:14 final size:13
Alignment explanation
Indices: 7497564--7497634 Score: 54
Period size: 14 Copynumber: 5.0 Consensus size: 13
7497554 TTTTTTTATT
*
7497564 TAAAAAAATAGAA
1 TAAAAAAATAAAA
7497577 TAATAAAAATAAAA
1 TAA-AAAAATAAAA
*
7497591 TAAAAAAGA-AAAG
1 TAAAAAA-ATAAAA
7497604 TAAAACAAAATAAAAA
1 T-AAA-AAAAT-AAAA
7497620 TAAAATAAGATAAAA
1 TAAAA-AA-ATAAAA
7497635 AGAATATTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
13 11 0.23
14 18 0.38
15 12 0.26
16 6 0.13
ACGTcount: A:0.77, C:0.01, G:0.06, T:0.15
Consensus pattern (13 bp):
TAAAAAAATAAAA
Found at i:7497590 original size:5 final size:5
Alignment explanation
Indices: 7497568--7497634 Score: 50
Period size: 5 Copynumber: 13.8 Consensus size: 5
7497558 TTTATTTAAA
* * * * *
7497568 AAAAT AGAAT AATA- AAAAT AAAAT AAAA- AAGA- AAAGT AAAAC AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
*
7497615 AAAAAT AAAAT AAGAT AAAA
1 -AAAAT AAAAT AAAAT AAAA
7497635 AGAATATTAA
Statistics
Matches: 47, Mismatches: 12, Indels: 6
0.72 0.18 0.09
Matches are distributed among these distances:
4 8 0.17
5 34 0.72
6 5 0.11
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:7497594 original size:11 final size:11
Alignment explanation
Indices: 7497578--7497627 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
7497568 AAAATAGAAT
7497578 AATAAAAATAA
1 AATAAAAATAA
*
7497589 AATAAAAAAGAA
1 AAT-AAAAATAA
*
7497601 AAGT-AAAACAA
1 AA-TAAAAATAA
7497612 AATAAAAATAA
1 AATAAAAATAA
7497623 AATAA
1 AATAA
7497628 GATAAAAAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 1 0.03
11 22 0.67
12 9 0.27
13 1 0.03
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.14
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:7497618 original size:16 final size:16
Alignment explanation
Indices: 7497578--7497635 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
7497568 AAAATAGAAT
*
7497578 AATAAAAATAAAATAA
1 AATAAAAATAAAACAA
*
7497594 AAAAGAAAAGTAAAACAA
1 AATA-AAAA-TAAAACAA
*
7497612 AATAAAAATAAAATAA
1 AATAAAAATAAAACAA
*
7497628 GATAAAAA
1 AATAAAAA
7497636 GAATATTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 17 0.49
17 8 0.23
18 10 0.29
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (16 bp):
AATAAAAATAAAACAA
Found at i:7497705 original size:21 final size:20
Alignment explanation
Indices: 7497681--7497719 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7497671 AATAAATAAA
* *
7497681 CAAATAAAACAAATAAAAATT
1 CAAA-AAAAAAAAAAAAAATT
7497702 CAAAAAAAAAAAAAAAAA
1 CAAAAAAAAAAAAAAAAA
7497720 CCTGGAGCGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.82, C:0.08, G:0.00, T:0.10
Consensus pattern (20 bp):
CAAAAAAAAAAAAAAAAATT
Found at i:7498199 original size:19 final size:19
Alignment explanation
Indices: 7498175--7498211 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
7498165 TGGCCGGAGA
7498175 TTTCGCCGGAAAATTCAAG
1 TTTCGCCGGAAAATTCAAG
7498194 TTTCGCCGGAAAATTCAA
1 TTTCGCCGGAAAATTCAA
7498212 CCGGAAACTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (19 bp):
TTTCGCCGGAAAATTCAAG
Found at i:7498640 original size:24 final size:24
Alignment explanation
Indices: 7498587--7498642 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 24
7498577 ATATGATAGT
* *
7498587 ATAAAAATAAAAAAATAATATCAG
1 ATAAAATTAAAAAAATAAAATCAG
7498611 AT--AATTCAAAAAAA-AAAATCAG
1 ATAAAATT-AAAAAAATAAAATCAG
7498633 ATAAAATTAA
1 ATAAAATTAA
7498643 CAGATATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
22 12 0.44
23 9 0.33
24 6 0.22
ACGTcount: A:0.70, C:0.05, G:0.04, T:0.21
Consensus pattern (24 bp):
ATAAAATTAAAAAAATAAAATCAG
Found at i:7499695 original size:9 final size:9
Alignment explanation
Indices: 7499681--7499762 Score: 55
Period size: 9 Copynumber: 8.8 Consensus size: 9
7499671 AATCGAAGAG
7499681 AAAATAAAT
1 AAAATAAAT
7499690 AAAATAAAT
1 AAAATAAAT
7499699 AAAATAAAAT
1 AAAAT-AAAT
* *
7499709 TAAA-AAGT
1 AAAATAAAT
7499717 AAAATAAA-
1 AAAATAAAT
7499725 AATAATAAGGAT
1 AA-AATAA--AT
7499737 AATAAT-AAT
1 AA-AATAAAT
7499746 AATAAT-AAT
1 AA-AATAAAT
7499755 AATAATAA
1 AA-AATAA
7499763 TATATTATAG
Statistics
Matches: 62, Mismatches: 4, Indels: 13
0.78 0.05 0.16
Matches are distributed among these distances:
8 8 0.13
9 38 0.61
10 8 0.13
11 2 0.03
12 6 0.10
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (9 bp):
AAAATAAAT
Found at i:7499704 original size:18 final size:19
Alignment explanation
Indices: 7499681--7499762 Score: 68
Period size: 18 Copynumber: 4.4 Consensus size: 19
7499671 AATCGAAGAG
7499681 AAAATAAATAA-AATAAAT
1 AAAATAAATAATAATAAAT
*
7499699 AAAATAAA-ATTAA-AAAGT
1 AAAATAAATAATAATAAA-T
7499717 AAAATAAA-AATAATAAGGAT
1 AAAATAAATAATAATAA--AT
7499737 AATAAT-AATAATAAT-AAT
1 AA-AATAAATAATAATAAAT
7499755 AATAATAA
1 AA-AATAA
7499763 TATATTATAG
Statistics
Matches: 54, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
17 4 0.07
18 31 0.57
19 3 0.06
20 6 0.11
21 10 0.19
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (19 bp):
AAAATAAATAATAATAAAT
Found at i:7499816 original size:3 final size:3
Alignment explanation
Indices: 7499719--7499782 Score: 67
Period size: 3 Copynumber: 21.3 Consensus size: 3
7499709 TAAAAAGTAA
* * *
7499719 AAT AAA AAT AAT AAG GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* *
7499768 TAT AGT -AT AAT AAT A
1 AAT AAT AAT AAT AAT A
7499783 TGATATAACA
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
2 1 0.02
3 46 0.94
4 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7501273 original size:57 final size:56
Alignment explanation
Indices: 7501130--7501277 Score: 163
Period size: 57 Copynumber: 2.6 Consensus size: 56
7501120 AGTTCTACCA
* * * *
7501130 CCTACTTCTAACTCTCTTGAATCAAGCTCTGATACCACTTGATATTAGACTCTATGG
1 CCTACTTCTAACTCTC-TGAATTAAGCTTTGATACCACTTGATATCAGACTATATGG
* * * *
7501187 CCTAC-TCTTACCTCTCTCGAACTAAGCTTTGATGCCACTTGATATCAGACTATGTGG
1 CCTACTTC-TAACTCTCT-GAATTAAGCTTTGATACCACTTGATATCAGACTATATGG
* *
7501244 CCTACTTCTAACTTTTCTGAATTAGGCTTTGATA
1 CCTACTTCTAAC-TCTCTGAATTAAGCTTTGATA
7501278 TGATTTATCA
Statistics
Matches: 74, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
56 3 0.04
57 65 0.88
58 6 0.08
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (56 bp):
CCTACTTCTAACTCTCTGAATTAAGCTTTGATACCACTTGATATCAGACTATATGG
Found at i:7503088 original size:67 final size:63
Alignment explanation
Indices: 7502964--7503134 Score: 177
Period size: 67 Copynumber: 2.6 Consensus size: 63
7502954 AATTTTTATG
* * * * * *
7502964 AAGGGATTATTAAAGGCATTTTTGGCAAAAAAATGCCTTTAATAATCCATTCTAATTTTATTTTA
1 AAGGGATTATTCAAGGCATTTTTGAC-AAAAAATACCTTGAATAACCCATTCTAATTTT-TTGTA
7503029 CTAAGGGATTATTCAAGAG-ATTTTTGACAAAAAATACCTTGAATAACCCCCATTC-AATTTTTT
1 --AAGGGATTATTCAAG-GCATTTTTGACAAAAAATACCTTGAATAA--CCCATTCTAATTTTTT
7503092 GTA
61 GTA
* *
7503095 AA-AGAATATTCAAGGCATTTTTGACAAAAATATACCTTGA
1 AAGGGATTATTCAAGGCATTTTTGACAAAAA-ATACCTTGA
7503135 GTATTTCCTT
Statistics
Matches: 91, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
62 1 0.01
63 24 0.26
64 11 0.12
66 20 0.22
67 28 0.31
68 7 0.08
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (63 bp):
AAGGGATTATTCAAGGCATTTTTGACAAAAAATACCTTGAATAACCCATTCTAATTTTTTGTA
Found at i:7503322 original size:123 final size:120
Alignment explanation
Indices: 7503145--7503411 Score: 272
Period size: 121 Copynumber: 2.2 Consensus size: 120
7503135 GTATTTCCTT
* * * * * *
7503145 AAAAAATTGAATTACATTATTCAAAGTGTTTCTAGTCAAAAACGCTTTGAATAATC-CCTTCGTA
1 AAAAAATTGAATAAGATTATTCAAAGTGTTTCTAGCCAAAAACGCCTTGAATAATCTCCGTC-AA
* * *
7503209 TTTTT-T-ATATGAATTATTTAAGGCGTTTTGAGTAAAAAACATCTTGAATAATCCT-TTA
65 TTTTTGTGA-ATGAATTATTTAAGGC--ATT-AGCAAAAAACACCTTGAAT-ATCCTATTA
* * * * *
7503267 AAAAAATTGAATAAGATTATTGAAGGTATTTTCTAGCCAAAGATGCCTTGAATAATCTCCGTCAA
1 AAAAAATTGAATAAGATTATTCAAAGT-GTTTCTAGCCAAAAACGCCTTGAATAATCTCCGTCAA
* * * *
7503332 TTTTTGTGAGTGGATTATTTAAGGCATTAGCCAAAAACACCTTGAATATTCTATTA
65 TTTTTGTGAATGAATTATTTAAGGCATTAGCAAAAAACACCTTGAATATCCTATTA
*
7503388 AAAAAATTGAATGAGATTATTCAA
1 AAAAAATTGAATAAGATTATTCAA
7503412 TGCGTTTTTT
Statistics
Matches: 120, Mismatches: 20, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
120 4 0.03
121 41 0.34
122 25 0.21
123 30 0.25
124 19 0.16
125 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.36
Consensus pattern (120 bp):
AAAAAATTGAATAAGATTATTCAAAGTGTTTCTAGCCAAAAACGCCTTGAATAATCTCCGTCAAT
TTTTGTGAATGAATTATTTAAGGCATTAGCAAAAAACACCTTGAATATCCTATTA
Found at i:7504116 original size:23 final size:23
Alignment explanation
Indices: 7504060--7504116 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
7504050 TTTTGATTAT
7504060 AAATTAAATTCGAATTAAAAAATA
1 AAATTAAA-TCGAATTAAAAAATA
* * *
7504084 AAATTCAATCGAATT-TAAATTA
1 AAATTAAATCGAATTAAAAAATA
7504106 AATATTAAATC
1 AA-ATTAAATC
7504117 ACAAATTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 7 0.25
23 14 0.50
24 7 0.25
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
AAATTAAATCGAATTAAAAAATA
Found at i:7505848 original size:24 final size:22
Alignment explanation
Indices: 7505821--7505866 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 22
7505811 TATTTTAATG
7505821 ATTTAAAATTATTATCACAAAAAA
1 ATTTAAAATTATTAT-A-AAAAAA
*
7505845 ATTTTAAATTATTATAAAAAAA
1 ATTTAAAATTATTATAAAAAAA
7505867 TATAATTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 6 0.29
23 1 0.05
24 14 0.67
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
ATTTAAAATTATTATAAAAAAA
Found at i:7505883 original size:23 final size:23
Alignment explanation
Indices: 7505857--7505904 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
7505847 TTTAAATTAT
7505857 TATAAAAAAATATAATTGTTAAA
1 TATAAAAAAATATAATTGTTAAA
** * *
7505880 TATAAATCACTATAATTTTTAAA
1 TATAAAAAAATATAATTGTTAAA
7505903 TA
1 TA
7505905 AATCATACCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (23 bp):
TATAAAAAAATATAATTGTTAAA
Found at i:7506047 original size:32 final size:32
Alignment explanation
Indices: 7506002--7506063 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
7505992 ACATAAAAAA
7506002 AAAAAAAAAGTTTTGATTGATGGTCTAAACTT
1 AAAAAAAAAGTTTTGATTGATGGTCTAAACTT
*
7506034 AAAAAAAAGGTTTTGATTGATGGTCTAAAC
1 AAAAAAAAAGTTTTGATTGATGGTCTAAAC
7506064 GTGTTCAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.18, T:0.32
Consensus pattern (32 bp):
AAAAAAAAAGTTTTGATTGATGGTCTAAACTT
Found at i:7507213 original size:31 final size:31
Alignment explanation
Indices: 7507166--7507235 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
7507156 AATTTTTATA
7507166 TATTATT-AA-TAAATTAAATAATATTATTT
1 TATTATTAAATTAAATTAAATAATATTATTT
7507195 TATTATTAAATTAAATTAAATAATATTATTT
1 TATTATTAAATTAAATTAAATAATATTATTT
*
7507226 T-TTAATAAAT
1 TATTATTAAAT
7507236 AATTTTTTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
29 7 0.18
30 10 0.26
31 21 0.55
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (31 bp):
TATTATTAAATTAAATTAAATAATATTATTT
Found at i:7507223 original size:26 final size:26
Alignment explanation
Indices: 7507165--7507224 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
7507155 TAATTTTTAT
*
7507165 ATATTATTAATAAATTAAATAATATT
1 ATATTATTAATAAATTAAATAATATA
* *
7507191 ATTTTATTATTAAATTAAATTAA-ATA
1 ATATTATTAATAAATTAAA-TAATATA
7507217 ATATTATT
1 ATATTATT
7507225 TTTTAATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 26 0.90
27 3 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
ATATTATTAATAAATTAAATAATATA
Found at i:7507249 original size:14 final size:15
Alignment explanation
Indices: 7507222--7507250 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7507212 AAATAATATT
7507222 ATTTTTTAATAAATA
1 ATTTTTTAATAAATA
7507237 ATTTTTTAA-AAATA
1 ATTTTTTAATAAATA
7507251 TTAATTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTTTTTAATAAATA
Found at i:7507258 original size:16 final size:16
Alignment explanation
Indices: 7507210--7507258 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
7507200 TTAAATTAAA
7507210 TTAAATAATATTATTTT
1 TTAAA-AATATTATTTT
7507227 TTAATAAATA--ATTTT
1 TTAA-AAATATTATTTT
7507242 TTAAAAATATTAATTTT
1 TTAAAAATATT-ATTTT
7507259 GATATATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 5 0.18
15 9 0.32
17 13 0.46
18 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAAAAATATTATTTT
Found at i:7507648 original size:18 final size:18
Alignment explanation
Indices: 7507625--7507681 Score: 51
Period size: 22 Copynumber: 2.9 Consensus size: 18
7507615 AAATTTCAAA
7507625 TTAATAAATTAATAAAAT
1 TTAATAAATTAATAAAAT
*
7507643 TTAATATGAAAATTAATAATAT
1 TT-A-AT--AAATTAATAAAAT
* *
7507665 TTAAAAAATTATTAAAA
1 TTAATAAATTAATAAAA
7507682 ATATTGTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
18 12 0.39
19 1 0.03
20 3 0.10
21 1 0.03
22 14 0.45
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
TTAATAAATTAATAAAAT
Found at i:7508812 original size:17 final size:18
Alignment explanation
Indices: 7508782--7508818 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
7508772 ACAAAAATAC
7508782 AAAAATAATAATAAAAAT
1 AAAAATAATAATAAAAAT
*
7508800 AAAAATGAT-ATAAAAAT
1 AAAAATAATAATAAAAAT
7508817 AA
1 AA
7508819 CTACATGTCA
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:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (18 bp):
AAAAATAATAATAAAAAT
Found at i:7513226 original size:2 final size:2
Alignment explanation
Indices: 7513219--7513246 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7513209 CGGATCAAAA
7513219 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
7513247 CTAGGCCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7513507 original size:13 final size:14
Alignment explanation
Indices: 7513489--7513518 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7513479 ATAAAAAATA
7513489 AAATAAA-TTTATT
1 AAATAAATTTTATT
7513502 AAATAAATTTTATT
1 AAATAAATTTTATT
7513516 AAA
1 AAA
7513519 ATTAATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATAAATTTTATT
Found at i:7514066 original size:2 final size:2
Alignment explanation
Indices: 7514059--7514084 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7514049 ATTTATGGTC
7514059 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
7514085 AATAGACAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7514499 original size:21 final size:20
Alignment explanation
Indices: 7514459--7514511 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
7514449 TTAATATAAT
7514459 AATTAAAATTTTTGATTTTA
1 AATTAAAATTTTTGATTTTA
*
7514479 AATTAAATTATTTTTTA-TTTA
1 AATTAAA--ATTTTTGATTTTA
*
7514500 TATTAAAATTTT
1 AATTAAAATTTT
7514512 ATCATCTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 5 0.17
20 7 0.24
21 10 0.34
22 7 0.24
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
AATTAAAATTTTTGATTTTA
Found at i:7514508 original size:22 final size:22
Alignment explanation
Indices: 7514419--7514509 Score: 73
Period size: 22 Copynumber: 4.0 Consensus size: 22
7514409 TTATTTTTTA
7514419 ATTTTTTATTTATATTAAAATT
1 ATTTTTTATTTATATTAAAATT
7514441 -TTGTTTT-TTTA-ATATAATAATT
1 ATT-TTTTATTTATAT-TAA-AATT
* *
7514463 AAAATTTTTGATTTTAAATT-AAATT
1 ---ATTTTTTA-TTTATATTAAAATT
7514488 ATTTTTTATTTATATTAAAATT
1 ATTTTTTATTTATATTAAAATT
7514510 TTATCATCTT
Statistics
Matches: 55, Mismatches: 3, Indels: 22
0.69 0.04 0.28
Matches are distributed among these distances:
20 2 0.04
21 16 0.29
22 20 0.36
25 7 0.13
26 3 0.05
27 5 0.09
28 2 0.04
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
ATTTTTTATTTATATTAAAATT
Found at i:7521909 original size:13 final size:13
Alignment explanation
Indices: 7521891--7521916 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7521881 ACTCTGTACT
7521891 GCTAAATATAAAA
1 GCTAAATATAAAA
7521904 GCTAAATATAAAA
1 GCTAAATATAAAA
7521917 AGTTCTGCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (13 bp):
GCTAAATATAAAA
Found at i:7525870 original size:14 final size:14
Alignment explanation
Indices: 7525851--7525891 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
7525841 TTTGATGAAC
*
7525851 AAAAAAAATTTACA
1 AAAAAAAATTTAAA
7525865 AAAAAAAATTCTAAA
1 AAAAAAAATT-TAAA
7525880 AGAAAAAAATTT
1 A-AAAAAAATTT
7525892 TAATAGATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 10 0.42
15 5 0.21
16 9 0.38
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (14 bp):
AAAAAAAATTTAAA
Found at i:7527990 original size:398 final size:398
Alignment explanation
Indices: 7527254--7528051 Score: 1596
Period size: 398 Copynumber: 2.0 Consensus size: 398
7527244 AATTCACAAT
7527254 ATGCTCTCATTCATTGATTTGCAACAAATTTACACCACACCAACAAAGAAAACATAAAAGACAAA
1 ATGCTCTCATTCATTGATTTGCAACAAATTTACACCACACCAACAAAGAAAACATAAAAGACAAA
7527319 TCAATCTCACTCTCTCACTTTCCGGGAACAAAGTTAGTGGCATAAGCCCAGGCATTGTTGTTGAC
66 TCAATCTCACTCTCTCACTTTCCGGGAACAAAGTTAGTGGCATAAGCCCAGGCATTGTTGTTGAC
7527384 AGGGTCAGCAAGGTGGTCAGCCAAGTTCTCCAATGGTCCCTTTCCGGTCACGATGGCTTGGACGA
131 AGGGTCAGCAAGGTGGTCAGCCAAGTTCTCCAATGGTCCCTTTCCGGTCACGATGGCTTGGACGA
7527449 AGAATCCAAACATGGAGAACATAGCCAATCTGCCGTTCTTGATCTCCTTGACCTTCAGCTCAGCG
196 AGAATCCAAACATGGAGAACATAGCCAATCTGCCGTTCTTGATCTCCTTGACCTTCAGCTCAGCG
7527514 AATGACTCTGGGTCATCAGCAAGACCCAATGGGTCAAAGCTACCACCTGGGTACAACGGGTCAGT
261 AATGACTCTGGGTCATCAGCAAGACCCAATGGGTCAAAGCTACCACCTGGGTACAACGGGTCAGT
7527579 CACCTCGCCAAGTGGCCCACCAGCAATGCGGTAACCCTCAACAGCTCCCATCAAGATAACTTGGC
326 CACCTCGCCAAGTGGCCCACCAGCAATGCGGTAACCCTCAACAGCTCCCATCAAGATAACTTGGC
7527644 AAGCCCAA
391 AAGCCCAA
7527652 ATGCTCTCATTCATTGATTTGCAACAAATTTACACCACACCAACAAAGAAAACATAAAAGACAAA
1 ATGCTCTCATTCATTGATTTGCAACAAATTTACACCACACCAACAAAGAAAACATAAAAGACAAA
7527717 TCAATCTCACTCTCTCACTTTCCGGGAACAAAGTTAGTGGCATAAGCCCAGGCATTGTTGTTGAC
66 TCAATCTCACTCTCTCACTTTCCGGGAACAAAGTTAGTGGCATAAGCCCAGGCATTGTTGTTGAC
7527782 AGGGTCAGCAAGGTGGTCAGCCAAGTTCTCCAATGGTCCCTTTCCGGTCACGATGGCTTGGACGA
131 AGGGTCAGCAAGGTGGTCAGCCAAGTTCTCCAATGGTCCCTTTCCGGTCACGATGGCTTGGACGA
7527847 AGAATCCAAACATGGAGAACATAGCCAATCTGCCGTTCTTGATCTCCTTGACCTTCAGCTCAGCG
196 AGAATCCAAACATGGAGAACATAGCCAATCTGCCGTTCTTGATCTCCTTGACCTTCAGCTCAGCG
7527912 AATGACTCTGGGTCATCAGCAAGACCCAATGGGTCAAAGCTACCACCTGGGTACAACGGGTCAGT
261 AATGACTCTGGGTCATCAGCAAGACCCAATGGGTCAAAGCTACCACCTGGGTACAACGGGTCAGT
7527977 CACCTCGCCAAGTGGCCCACCAGCAATGCGGTAACCCTCAACAGCTCCCATCAAGATAACTTGGC
326 CACCTCGCCAAGTGGCCCACCAGCAATGCGGTAACCCTCAACAGCTCCCATCAAGATAACTTGGC
7528042 AAGCCCAA
391 AAGCCCAA
7528050 AT
1 AT
7528052 AGCCAAAATG
Statistics
Matches: 400, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
398 400 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (398 bp):
ATGCTCTCATTCATTGATTTGCAACAAATTTACACCACACCAACAAAGAAAACATAAAAGACAAA
TCAATCTCACTCTCTCACTTTCCGGGAACAAAGTTAGTGGCATAAGCCCAGGCATTGTTGTTGAC
AGGGTCAGCAAGGTGGTCAGCCAAGTTCTCCAATGGTCCCTTTCCGGTCACGATGGCTTGGACGA
AGAATCCAAACATGGAGAACATAGCCAATCTGCCGTTCTTGATCTCCTTGACCTTCAGCTCAGCG
AATGACTCTGGGTCATCAGCAAGACCCAATGGGTCAAAGCTACCACCTGGGTACAACGGGTCAGT
CACCTCGCCAAGTGGCCCACCAGCAATGCGGTAACCCTCAACAGCTCCCATCAAGATAACTTGGC
AAGCCCAA
Found at i:7529280 original size:25 final size:22
Alignment explanation
Indices: 7529226--7529287 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 22
7529216 TAAAATAATA
7529226 AATAATTATAAATAATTTATTATT
1 AATAATT-TAAA-AATTTATTATT
*
7529250 TATAATTTAATAAATTTAATATATT
1 AATAATTTAA-AAATTT-AT-TATT
*
7529275 AATAATATAAAAA
1 AATAATTTAAAAA
7529288 ATACTTACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
23 8 0.25
24 12 0.38
25 12 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AATAATTTAAAAATTTATTATT
Found at i:7529289 original size:25 final size:24
Alignment explanation
Indices: 7529226--7529322 Score: 83
Period size: 25 Copynumber: 4.0 Consensus size: 24
7529216 TAAAATAATA
*
7529226 AATAATTATAAATAATTTAT-TATT
1 AATAA-TATAAAAAATTTATATATT
* * *
7529250 TATAATTTAATAAATTTAATATATT
1 AATAATATAAAAAATTT-ATATATT
*
7529275 AATAATATAAAAAATACTTACATATT
1 AATAATATAAAAAAT--TTATATATT
*
7529301 AA-AAAATAAAAAATTTA-ATATT
1 AATAATATAAAAAATTTATATATT
7529323 CATTTAATAT
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
22 5 0.08
23 12 0.20
24 6 0.10
25 27 0.45
26 8 0.13
27 2 0.03
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
AATAATATAAAAAATTTATATATT
Found at i:7529329 original size:11 final size:11
Alignment explanation
Indices: 7529313--7529351 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
7529303 AAAATAAAAA
7529313 ATTTAATAT-T
1 ATTTAATATAT
7529323 CATTTAATATAT
1 -ATTTAATATAT
*
7529335 ATTTAATAGAT
1 ATTTAATATAT
7529346 ATTTAA
1 ATTTAA
7529352 ATTTTAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 25 0.96
12 1 0.04
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (11 bp):
ATTTAATATAT
Found at i:7538652 original size:16 final size:16
Alignment explanation
Indices: 7538631--7538663 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7538621 GAAATAATTC
*
7538631 ATTATAATATTTTTTT
1 ATTATAAAATTTTTTT
7538647 ATTATAAAATTTTTTT
1 ATTATAAAATTTTTTT
7538663 A
1 A
7538664 ATAAAGTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTATAAAATTTTTTT
Found at i:7540535 original size:18 final size:19
Alignment explanation
Indices: 7540509--7540549 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
7540499 AACCGAACCG
*
7540509 TTTTGATTTTTTT-TGTAT
1 TTTTAATTTTTTTGTGTAT
*
7540527 TTTTAATTTTTTTGTTTAT
1 TTTTAATTTTTTTGTGTAT
7540546 TTTT
1 TTTT
7540550 TGTAGTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.80
Consensus pattern (19 bp):
TTTTAATTTTTTTGTGTAT
Found at i:7540757 original size:23 final size:23
Alignment explanation
Indices: 7540731--7540782 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
7540721 GAAAAGTTGA
*
7540731 AAGTTTCAATTTTTCTTGAAAAT
1 AAGTTTCAATTTTCCTTGAAAAT
*
7540754 AAGTATCAATTTTCCTTGAAAAT
1 AAGTTTCAATTTTCCTTGAAAAT
7540777 AAGTTT
1 AAGTTT
7540783 TCTAAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (23 bp):
AAGTTTCAATTTTCCTTGAAAAT
Found at i:7540764 original size:81 final size:81
Alignment explanation
Indices: 7540673--7540838 Score: 269
Period size: 81 Copynumber: 2.0 Consensus size: 81
7540663 GAAAAATTGA
* * * *
7540673 AAGTATCAATTTTTCTTGGAAATAAGTTTTCTAAAAAATTTTTTTAACGAAAAGTTGAAAGTTTC
1 AAGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAATATTTTTAACGAAAAGTTGAAAGTATC
7540738 AATTTTTCTTGAAAAT
66 AATTTTTCTTGAAAAT
* *
7540754 AAGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAATATTTTTAAGGAAAAGTTGACAGTATC
1 AAGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAATATTTTTAACGAAAAGTTGAAAGTATC
*
7540819 AATTTTTCTTGCAAAT
66 AATTTTTCTTGAAAAT
7540835 AAGT
1 AAGT
7540839 TTTCAAAAAA
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.41
Consensus pattern (81 bp):
AAGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAATATTTTTAACGAAAAGTTGAAAGTATC
AATTTTTCTTGAAAAT
Found at i:7540823 original size:58 final size:59
Alignment explanation
Indices: 7540754--7540884 Score: 192
Period size: 60 Copynumber: 2.2 Consensus size: 59
7540744 TCTTGAAAAT
* *
7540754 AAGTATCAATTTTCCTTGAAAATAAGTTTTC-TAAAAAATATTTTTAAGGAAAAGTTGA
1 AAGTATCAATTTTCCTTGAAAATAAGTTTTCAAAAAAAATATTTTCAAGGAAAAGTTGA
* * * *
7540812 CAGTATCAATTTTTCTTGCAAATAAGTTTTCAAAAAAAAATATTTTCGAGGAAAAGTTGA
1 AAGTATCAATTTTCCTTGAAAATAAGTTTTC-AAAAAAAATATTTTCAAGGAAAAGTTGA
7540872 AAGTATCAATTTT
1 AAGTATCAATTTT
7540885 TTTCAAAATT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
58 28 0.44
60 36 0.56
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.37
Consensus pattern (59 bp):
AAGTATCAATTTTCCTTGAAAATAAGTTTTCAAAAAAAATATTTTCAAGGAAAAGTTGA
Found at i:7540878 original size:60 final size:57
Alignment explanation
Indices: 7540754--7540946 Score: 205
Period size: 58 Copynumber: 3.3 Consensus size: 57
7540744 TCTTGAAAAT
* * * *
7540754 AAGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAATATTTTTAAGGAAAAGTTGA
1 AAGTATCAATTTTTCTTGCAAATAAGTTTTCAAAAAAATA-TTTTGAGGAAAAGTTGA
*
7540812 CAGTATCAATTTTTCTTGCAAATAAGTTTTCAAAAAAAAATATTTTCGAGGAAAAGTTGA
1 AAGTATCAATTTTTCTTGCAAATAAGTTTTC--AAAAAAATATTTT-GAGGAAAAGTTGA
* * * *
7540872 AAGTATCAATTTTT-TT-CAAAATTAAAG-TCTGAGAAAAATATTTTG-GGAAAAAATTGA
1 AAGTATCAATTTTTCTTGC-AAA-T-AAGTTTTCAAAAAAATATTTTGAGG-AAAAGTTGA
7540929 AAGTATCAATTTTTCTTG
1 AAGTATCAATTTTTCTTG
7540947 TACAAAAGCA
Statistics
Matches: 116, Mismatches: 10, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
56 2 0.02
57 23 0.20
58 43 0.37
59 9 0.08
60 36 0.31
61 3 0.03
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (57 bp):
AAGTATCAATTTTTCTTGCAAATAAGTTTTCAAAAAAATATTTTGAGGAAAAGTTGA
Found at i:7545921 original size:63 final size:63
Alignment explanation
Indices: 7545844--7546024 Score: 308
Period size: 63 Copynumber: 2.9 Consensus size: 63
7545834 GAAGCTGGTG
* *
7545844 TTGAAAAGCTTATGAACGATGACCAAGTGACAGATGATAAAATTTATTTTGAAATGGCTAGTA
1 TTGAGAAGCTTATGAACGATGACCAAGTGACAGATGATGAAATTTATTTTGAAATGGCTAGTA
*
7545907 TTGAGAAGCTTATGAATGATGACCAAGTGACAGATGATGAAATTTATTTTGAAATGGCTAGTA
1 TTGAGAAGCTTATGAACGATGACCAAGTGACAGATGATGAAATTTATTTTGAAATGGCTAGTA
* * *
7545970 TTGAGAAACTTATGAACGATGACCAAGTGATAGAAGATGAAATTTATTTTGAAAT
1 TTGAGAAGCTTATGAACGATGACCAAGTGACAGATGATGAAATTTATTTTGAAAT
7546025 AGTTAGTGCT
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 111 1.00
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (63 bp):
TTGAGAAGCTTATGAACGATGACCAAGTGACAGATGATGAAATTTATTTTGAAATGGCTAGTA
Found at i:7546481 original size:21 final size:21
Alignment explanation
Indices: 7546432--7546479 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
7546422 GAACCTTTTG
* *
7546432 ATGAAAATTTTTTAATTTCAA
1 ATGAAAATCTTTGAATTTCAA
7546453 ATGAAAATCTTTGAATTTCAA
1 ATGAAAATCTTTGAATTTCAA
7546474 A-GAAAA
1 ATGAAAA
7546480 ATGTTAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (21 bp):
ATGAAAATCTTTGAATTTCAA
Found at i:7547224 original size:40 final size:40
Alignment explanation
Indices: 7547169--7547501 Score: 317
Period size: 40 Copynumber: 8.0 Consensus size: 40
7547159 GAAAAGCTTT
* * * *
7547169 ATTTAATTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGC
1 ATTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGC
* *
7547209 ATTTATTTTTTAAAGTCGTTGAGCCTTTGTTTAGAGGAGC
1 ATTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGC
* * * *
7547249 -TTTGTTTATTGTCCAAAGTTGTTGAGCTTCTGTTTAAAGGAGC
1 ATTT-ATT-TT-T-CAAAGTCGTTGAGCCTCTGTTTAGAGGAGC
* * ** *
7547292 TTTATTTATTTTTTTAAAAGTCGTTAAGCCTCTAATTAGATGAGC
1 ---ATTTA--TTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGC
* * * *
7547337 TATTTATTTTTTAAAGTCATTGAGCCTCTGATTAGAGAAGCC
1 -ATTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAG-C
* *
7547379 ATTTATTTTTCAAAGTCGTTAAGCCTCTGTTTGGAGGAGC
1 ATTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGC
* * *
7547419 ATTTATTTTTCAAAGTCATTGAGCCTCTATTTAGAAGAGC
1 ATTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGC
7547459 TTTATTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGC
1 ---ATTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGC
7547502 TTTGTTTATT
Statistics
Matches: 238, Mismatches: 41, Indels: 25
0.78 0.13 0.08
Matches are distributed among these distances:
39 3 0.01
40 72 0.30
41 63 0.26
42 2 0.01
43 68 0.29
45 22 0.09
46 1 0.00
47 5 0.02
48 2 0.01
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.43
Consensus pattern (40 bp):
ATTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGC
Found at i:7547250 original size:83 final size:84
Alignment explanation
Indices: 7547153--7547514 Score: 358
Period size: 83 Copynumber: 4.3 Consensus size: 84
7547143 ATGTTGTCTT
** * ** * *
7547153 TGTTTAGAAAAGCTTTATTTAATTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGC-ATTTATTT
1 TGTTTAGAGGAGCTTTATTTATTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCTATTTATTT
* * *
7547217 TTTAAAGTCGTTGAGCCTT
66 TTCAAAGTCGTTAAGCCTC
* * * ** * *
7547236 TGTTTAGAGGAGCTTTGTTTATTGTCCAAAGTTGTTGAGCTTCTGTTTAAAGGAGCTTTATTTAT
1 TGTTTAGAGGAGCTTTATTTATTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGC--TATTTA-
*
7547301 TTTTTTAAAAGTCGTTAAGCCTC
63 -TTTTTCAAAGTCGTTAAGCCTC
** * * * * *
7547324 TAATTAGATGAGC--TATTTATTTTTTAAAGTCATTGAGCCTCTGATTAGAGAAGCCATTTATTT
1 TGTTTAGAGGAGCTTTATTTATTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCTATTTATTT
7547387 TTCAAAGTCGTTAAGCCTC
66 TTCAAAGTCGTTAAGCCTC
* * *
7547406 TGTTTGGAGGAGC---ATTTATTTTTCAAAGTCATTGAGCCTCTATTTAGAAGAGCTTTATTTAT
1 TGTTTAGAGGAGCTTTATTTATTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGC--TATTTAT
*
7547468 TTTTCAAAGTCGTTGAGCCTC
64 TTTTCAAAGTCGTTAAGCCTC
*
7547489 TGTTTAGAGGAGCTTTGTTTATTTTT
1 TGTTTAGAGGAGCTTTATTTATTTTT
7547515 TTGAAATTGT
Statistics
Matches: 228, Mismatches: 41, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
81 35 0.15
82 30 0.13
83 84 0.37
84 5 0.02
86 45 0.20
88 29 0.13
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.44
Consensus pattern (84 bp):
TGTTTAGAGGAGCTTTATTTATTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCTATTTATTT
TTCAAAGTCGTTAAGCCTC
Found at i:7547273 original size:43 final size:43
Alignment explanation
Indices: 7547153--7547579 Score: 390
Period size: 43 Copynumber: 10.0 Consensus size: 43
7547143 ATGTTGTCTT
** * * * *
7547153 TGTTTAGAAAAGCTTTATTTAATTTTCAAAGTTGTGGTGCCTC
1 TGTTTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTC
* *
7547196 TGTTTAGAGGAGC---ATTTATTTTTTAAAGTCGTTGAGCCTT
1 TGTTTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTC
* * * * *
7547236 TGTTTAGAGGAGCTTTGTTTATTGTCCAAAGTTGTTGAGCTTC
1 TGTTTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTC
* * *
7547279 TGTTTAAAGGAGCTTTATTTATTTTTTTAAAAGTCGTTAAGCCTC
1 TGTTTAGAGGAGCTTTATTTA--TTTTTCAAAGTCGTTGAGCCTC
** * * *
7547324 TAATTAGATGAGC--TATTTATTTTTTAAAGTCATTGAGCCTC
1 TGTTTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTC
* * * *
7547365 TGATTAGAGAAGC--CATTTATTTTTCAAAGTCGTTAAGCCTC
1 TGTTTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTC
* *
7547406 TGTTTGGAGGAGC---ATTTATTTTTCAAAGTCATTGAGCCTC
1 TGTTTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTC
* *
7547446 TATTTAGAAGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTC
1 TGTTTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTC
* * *
7547489 TGTTTAGAGGAGCTTTGTTTATTTTTTTGAAA-TTGTTGAGCCTC
1 TGTTTAGAGGAGCTTTATTTA--TTTTTCAAAGTCGTTGAGCCTC
* * * * *
7547533 TGCTTAAAGGAGCCTTTGTTTATTTTTTCAAAGTTGTTGAGTCTC
1 TGTTTAGAGGAG-CTTTATTTA-TTTTTCAAAGTCGTTGAGCCTC
7547578 TG
1 TG
7547580 CCGTTAAGCC
Statistics
Matches: 317, Mismatches: 55, Indels: 22
0.80 0.14 0.06
Matches are distributed among these distances:
40 69 0.22
41 63 0.20
43 100 0.32
44 30 0.09
45 55 0.17
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (43 bp):
TGTTTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTC
Found at i:7549499 original size:20 final size:19
Alignment explanation
Indices: 7549471--7549549 Score: 72
Period size: 19 Copynumber: 4.1 Consensus size: 19
7549461 AGTCGAACAG
*
7549471 TTTTGATTTTTTTGGTATAT
1 TTTTTATTTTTTT-GTATAT
*
7549491 TTTTTATTTTTTTGTTTAT
1 TTTTTATTTTTTTGTATAT
7549510 TTTTTATAGTTTTTT-T-TAT
1 TTTTTAT--TTTTTTGTATAT
* * *
7549529 TTTTTATGTGTTTGTTTAT
1 TTTTTATTTTTTTGTATAT
7549548 TT
1 TT
7549550 ATTTGGAATA
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
17 4 0.08
18 1 0.02
19 27 0.53
20 13 0.25
21 6 0.12
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (19 bp):
TTTTTATTTTTTTGTATAT
Found at i:7549508 original size:12 final size:12
Alignment explanation
Indices: 7549493--7549554 Score: 54
Period size: 12 Copynumber: 5.0 Consensus size: 12
7549483 TGGTATATTT
7549493 TTTATTTTTTTG
1 TTTATTTTTTTG
7549505 TTTATTTTTTATAG
1 TTTATTTTTT-T-G
*
7549519 TTT-TTTTTATTT
1 TTTATTTTT-TTG
* *
7549531 TTTATGTGTTTG
1 TTTATTTTTTTG
*
7549543 TTTATTTATTTG
1 TTTATTTTTTTG
7549555 GAATATTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
12 25 0.62
13 10 0.25
14 5 0.12
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (12 bp):
TTTATTTTTTTG
Found at i:7549522 original size:19 final size:18
Alignment explanation
Indices: 7549488--7549549 Score: 79
Period size: 19 Copynumber: 3.3 Consensus size: 18
7549478 TTTTTTGGTA
*
7549488 TATTTTTTATTTTTTTGTT
1 TATTTTTTA-TGTTTTGTT
*
7549507 TATTTTTTATAGTTTTTTT
1 TATTTTTTAT-GTTTTGTT
7549526 TATTTTTTATGTGTTTGTT
1 TATTTTTTATGT-TTTGTT
7549545 TATTT
1 TATTT
7549550 ATTTGGAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 3 0.08
19 35 0.92
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (18 bp):
TATTTTTTATGTTTTGTT
Found at i:7549677 original size:59 final size:59
Alignment explanation
Indices: 7549594--7549826 Score: 262
Period size: 57 Copynumber: 4.0 Consensus size: 59
7549584 AAAATAATAT
* *
7549594 AAAATAAAATTTTCAAGAATAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTTG
1 AAAATAAAGTTTTCAA-AAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTTG
* * *
7549654 AAAAT-AAGTTTTCAAAAAAAATATTTTCGAGGAAAAGTTGAAAGCATCAATTTTCTTTG
1 AAAATAAAGTTTTC-AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTTG
* ** *
7549713 AAAAT-AA-TTTTCTAAAAAAGGTTTTTGAGAAAAAGTTGAAAGTATCAATTTT-TCTCG
1 AAAATAAAGTTTTCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCT-TTG
* * * * * *
7549770 AAATTAAAG-TCTCAGAAAAATA-TTTTGGGGAAAAGTTGAAAGTATCAATTTTTTTTG
1 AAAATAAAGTTTTCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTTG
7549827 TACAAAAGCA
Statistics
Matches: 147, Mismatches: 21, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
56 1 0.01
57 70 0.48
58 16 0.11
59 53 0.36
60 7 0.05
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.36
Consensus pattern (59 bp):
AAAATAAAGTTTTCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTTG
Found at i:7552743 original size:2 final size:2
Alignment explanation
Indices: 7552722--7552780 Score: 66
Period size: 2 Copynumber: 30.0 Consensus size: 2
7552712 AGCCTGAGTC
* * * * *
7552722 AT AT GT AT AC AT AC AT AT AT AT AT AT AT AT A- AT AT AC AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7552763 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
7552781 TTGTTCTTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (2 bp):
AT
Found at i:7552757 original size:27 final size:27
Alignment explanation
Indices: 7552727--7552779 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
7552717 GAGTCATATG
*
7552727 TATACATACATATATATATATATATAA
1 TATACACACATATATATATATATATAA
*
7552754 TATACACATATATATATATATATATA
1 TATACACACATATATATATATATATA
7552780 TTTGTTCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.42
Consensus pattern (27 bp):
TATACACACATATATATATATATATAA
Found at i:7558605 original size:3 final size:3
Alignment explanation
Indices: 7558597--7558622 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7558587 TTTGCAAAAT
7558597 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
7558623 AAACAAAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:7558668 original size:3 final size:3
Alignment explanation
Indices: 7558660--7558684 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7558650 TTTTTATTTG
7558660 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
7558685 TCGTTTCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:7559224 original size:19 final size:20
Alignment explanation
Indices: 7559187--7559229 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
7559177 TCGATGATAA
*
7559187 ATGGATGGCAACTATGATCG
1 ATGGATGGCAACGATGATCG
7559207 ATGGATGGC-ACGATGATCG
1 ATGGATGGCAACGATGATCG
7559226 ATGG
1 ATGG
7559230 CAAATTCTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (20 bp):
ATGGATGGCAACGATGATCG
Found at i:7559571 original size:21 final size:21
Alignment explanation
Indices: 7559532--7559582 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
7559522 AAATTTTTGA
*
7559532 ATTATT-TTTTGAATATTATT
1 ATTATTATTTTAAATATTATT
* *
7559552 TTTATTATTTTAAATTTTATT
1 ATTATTATTTTAAATATTATT
*
7559573 ATTAGTATTT
1 ATTATTATTT
7559583 ATGTATGTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (21 bp):
ATTATTATTTTAAATATTATT
Found at i:7559661 original size:16 final size:16
Alignment explanation
Indices: 7559640--7559671 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7559630 TTGTAATATT
7559640 AATAAATAACAAAATA
1 AATAAATAACAAAATA
*
7559656 AATAAATAATAAAATA
1 AATAAATAACAAAATA
7559672 CATAGCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (16 bp):
AATAAATAACAAAATA
Found at i:7575464 original size:2 final size:2
Alignment explanation
Indices: 7575459--7575492 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7575449 AAAGGAAAAT
7575459 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7575493 TTTGAATGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7576627 original size:31 final size:29
Alignment explanation
Indices: 7576586--7576690 Score: 108
Period size: 30 Copynumber: 3.5 Consensus size: 29
7576576 AAAATTTATG
*
7576586 TTAAAGATTTATTTAGATATAAATTTCAAAA
1 TTAAAAATTTATTTAGATATAAA-TT-AAAA
7576617 TTAAAAATTTATTT-GA-ATGCAAATTAAAA
1 TTAAAAATTTATTTAGATAT--AAATTAAAA
*
7576646 GTTAATAATTTATTTTA-ATATAAATTAAAGA
1 -TTAAAAATTTA-TTTAGATATAAATTAAA-A
7576677 TTAAAAATTTATTT
1 TTAAAAATTTATTT
7576691 GAATGTAATA
Statistics
Matches: 64, Mismatches: 3, Indels: 16
0.77 0.04 0.19
Matches are distributed among these distances:
29 9 0.14
30 32 0.50
31 21 0.33
32 2 0.03
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.44
Consensus pattern (29 bp):
TTAAAAATTTATTTAGATATAAATTAAAA
Found at i:7576714 original size:30 final size:29
Alignment explanation
Indices: 7576613--7576712 Score: 112
Period size: 30 Copynumber: 3.4 Consensus size: 29
7576603 TATAAATTTC
*
7576613 AAAATTAAAAATTTATTTGAATGCAAATTA
1 AAAATTAAAAATTTATTTGAATG-TAATTA
* * * *
7576643 AAAGTTAATAATTTATTTTAATATAAATTA
1 AAAATTAAAAATTTATTTGAATGT-AATTA
*
7576673 AAGATTAAAAATTTATTTGAATGTAA-TA
1 AAAATTAAAAATTTATTTGAATGTAATTA
7576701 AAAATATAAAAA
1 AAAAT-TAAAAA
7576713 ATATCTAAAT
Statistics
Matches: 57, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
28 6 0.11
29 8 0.14
30 43 0.75
ACGTcount: A:0.55, C:0.01, G:0.06, T:0.38
Consensus pattern (29 bp):
AAAATTAAAAATTTATTTGAATGTAATTA
Found at i:7578428 original size:40 final size:40
Alignment explanation
Indices: 7578372--7578453 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 40
7578362 GGTATTTATC
*
7578372 TGGGTTTGGTCAGTAAAAATATCTTGTGTGATTCAAAGTT
1 TGGGTTTGGTCAGTAAAAATATCTTGTATGATTCAAAGTT
* * **
7578412 TGGGTTTGGTCGGTAAAAATATGTTGTATGATTTTAAGTT
1 TGGGTTTGGTCAGTAAAAATATCTTGTATGATTCAAAGTT
7578452 TG
1 TG
7578454 ACATGCAACG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.26, C:0.05, G:0.27, T:0.43
Consensus pattern (40 bp):
TGGGTTTGGTCAGTAAAAATATCTTGTATGATTCAAAGTT
Found at i:7583825 original size:24 final size:23
Alignment explanation
Indices: 7583781--7583825 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
7583771 TTTAATTTAA
*
7583781 TTTAAAATTAATAAAATATTATT
1 TTTAAAATAAATAAAATATTATT
7583804 TTTAAATATAAATATAAA-ATTA
1 TTTAAA-ATAAATA-AAATATTA
7583826 AATAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 6 0.32
24 10 0.53
25 3 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TTTAAAATAAATAAAATATTATT
Found at i:7590491 original size:28 final size:30
Alignment explanation
Indices: 7590445--7590524 Score: 73
Period size: 28 Copynumber: 2.9 Consensus size: 30
7590435 TTTGATAATT
*
7590445 TTTATTATTATATCGTATA-AAATATTATA
1 TTTATTATTATATCGTATATAAAAATTATA
**
7590474 TTTA-TATTATATTTTATATAAAAA-T-TA
1 TTTATTATTATATCGTATATAAAAATTATA
* *
7590501 TTTATTATAAT-TCATAT-TAAAAAT
1 TTTATTATTATATCGTATATAAAAAT
7590525 AAAAAATATA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
26 6 0.14
27 10 0.24
28 18 0.43
29 8 0.19
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.53
Consensus pattern (30 bp):
TTTATTATTATATCGTATATAAAAATTATA
Done.