Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 150 of 295
Found at i:47025752 original size:38 final size:38
Alignment explanation
Indices: 47025701--47025777 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
47025691 TGTTGAATTT
*
47025701 AAACTCTGGTGTTGGAGGGATCCTACATCGGGAAGCTA
1 AAACTCTGGTGTTGGAGGGATCCCACATCGGGAAGCTA
47025739 AAACTCTGGTGTTGGAGGGATCCCACATCGGGAAGCTA
1 AAACTCTGGTGTTGGAGGGATCCCACATCGGGAAGCTA
47025777 A
1 A
47025778 CATAAGAGGG
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:0.27, C:0.19, G:0.31, T:0.22
Consensus pattern (38 bp):
AAACTCTGGTGTTGGAGGGATCCCACATCGGGAAGCTA
Found at i:47026233 original size:27 final size:27
Alignment explanation
Indices: 47026198--47026867 Score: 276
Period size: 27 Copynumber: 24.9 Consensus size: 27
47026188 AATACTTTAG
47026198 TTTACTAAAATTACCGAAATACCCTCGA
1 TTTA-TAAAATTACCGAAATACCCTCGA
* * * *
47026226 TTTGTAAAATTACTGAAATACCTTTGA
1 TTTATAAAATTACCGAAATACCCTCGA
* * *
47026253 CTTGTAAAATTACC-AAAGTACCC-CCA
1 TTTATAAAATTACCGAAA-TACCCTCGA
* * **
47026279 GTTTATAATATTACCAAAATACTATCGA
1 -TTTATAAAATTACCGAAATACCCTCGA
*
47026307 TTT-TAAAATTACTGAAATACCCTCGA
1 TTTATAAAATTACCGAAATACCCTCGA
* * * *
47026333 CTTGTAAATTTATC-AAAGTAGCCCT-GA
1 TTTATAAAATTACCGAAA-TA-CCCTCGA
* ***
47026360 TTTA-AAGAATTACTGTTTTACCCTCGA
1 TTTATAA-AATTACCGAAATACCCTCGA
* **
47026387 TTTACAAAATTACC-ATTTTACCCTCGA
1 TTTATAAAATTACCGA-AATACCCTCGA
*** *
47026414 TTTATAAAATTACCGTTTTACCCTTGA
1 TTTATAAAATTACCGAAATACCCTCGA
* **
47026441 TTTATAGAATTACC-ATTTTACCCTCGA
1 TTTATAAAATTACCGA-AATACCCTCGA
* * **
47026468 TTTATAGAATTA-CTATTTTACCCTCGA
1 TTTATAAAATTACCGA-AATACCCTCGA
* ** *
47026495 TTTAAAAAATTACC-ATTTTACGCTCGA
1 TTTATAAAATTACCGA-AATACCCTCGA
* **
47026522 TTTATAAAATTA-CTATTTTACCCTCGA
1 TTTATAAAATTACCGA-AATACCCTCGA
* **
47026549 -TTATAGAATTACC-ATTTTACCCTCGA
1 TTTATAAAATTACCGA-AATACCCTCGA
* * *** *
47026575 TTTACAAAATTACTGTTTTACGCTCGA
1 TTTATAAAATTACCGAAATACCCTCGA
* * ***
47026602 TTTATGAAATTATCGTTTTACCCTCGA
1 TTTATAAAATTACCGAAATACCCTCGA
* * ***
47026629 TTTATAGAATTATCGTTTTACCCTCGA
1 TTTATAAAATTACCGAAATACCCTCGA
* * * * *
47026656 TTCACAAAATTACTGAAATACCCTTGG
1 TTTATAAAATTACCGAAATACCCTCGA
* * *
47026683 TTTACAAAATTACCAAAATACCC-CTGG
1 TTTATAAAATTACCGAAATACCCTC-GA
* * *
47026710 TTTGTAAAATTACC-AAATTACCCTTGG
1 TTTATAAAATTACCGAAA-TACCCTCGA
* ** * *
47026737 TTTGTAAAATTACTAAAATACCCTTGG
1 TTTATAAAATTACCGAAATACCCTCGA
** *
47026764 TTTATAAAATTACAAAAATACCC-CTGG
1 TTTATAAAATTACCGAAATACCCTC-GA
* * *
47026791 TTTGTAAAATTACCAAAATACCCTTGA
1 TTTATAAAATTACCGAAATACCCTCGA
* * * * *
47026818 TTTGTGAAATTATCAAAAAACCCTCGA
1 TTTATAAAATTACCGAAATACCCTCGA
** *
47026845 TTCGTAAAA-TACTGAAATACCCT
1 TTTATAAAATTACCGAAATACCCT
47026868 TGTAGGGTAG
Statistics
Matches: 523, Mismatches: 93, Indels: 54
0.78 0.14 0.08
Matches are distributed among these distances:
26 71 0.14
27 434 0.83
28 18 0.03
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.36
Consensus pattern (27 bp):
TTTATAAAATTACCGAAATACCCTCGA
Found at i:47026350 original size:80 final size:82
Alignment explanation
Indices: 47026196--47026352 Score: 228
Period size: 80 Copynumber: 1.9 Consensus size: 82
47026186 ACAATACTTT
* * * *
47026196 AGTTTACTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCTTTGACTTGTAAA
1 AGTTTACTAAAATTACCAAAATACCATCGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAA
47026261 ATTACCAAAGTACCCCC
66 ATTACCAAAGTACCCCC
* *
47026278 AGTTTA-TAATATTACCAAAATACTATCGATTT-TAAAATTACTGAAATACCCTCGACTTGTAAA
1 AGTTTACTAAAATTACCAAAATACCATCGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAA
* *
47026341 TTTATCAAAGTA
66 ATTACCAAAGTA
47026353 GCCCTGATTT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 39 0.58
81 22 0.33
82 6 0.09
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.33
Consensus pattern (82 bp):
AGTTTACTAAAATTACCAAAATACCATCGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAA
ATTACCAAAGTACCCCC
Found at i:47026442 original size:81 final size:81
Alignment explanation
Indices: 47026358--47026668 Score: 414
Period size: 81 Copynumber: 3.9 Consensus size: 81
47026348 AAGTAGCCCT
* * * *
47026358 GATTTAAAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATAAAA
1 GATTTAAAGAATTACTATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAA
* *
47026423 TTACCGTTTTACCCTT
66 TTACCGTTTTACGCTC
* * * *
47026439 GATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTAAAAAA
1 GATTTAAAGAATTACTATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAA
*
47026504 TTACCATTTTACGCTC
66 TTACCGTTTTACGCTC
47026520 GATTTATAA-AATTACTATTTTACCCTCGA-TTATAGAATTACCATTTTACCCTCGATTTACAAA
1 GATTTA-AAGAATTACTATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAA
*
47026583 ATTACTGTTTTACGCTC
65 ATTACCGTTTTACGCTC
* * * * *
47026600 GATTT-ATGAAATTA-TCGTTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTCACAA
1 GATTTAAAG-AATTACT-ATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAA
47026663 AATTAC
64 AATTAC
47026669 TGAAATACCC
Statistics
Matches: 204, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
78 1 0.00
79 1 0.00
80 69 0.34
81 132 0.65
82 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (81 bp):
GATTTAAAGAATTACTATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAA
TTACCGTTTTACGCTC
Found at i:47026679 original size:54 final size:54
Alignment explanation
Indices: 47026354--47026668 Score: 422
Period size: 54 Copynumber: 5.9 Consensus size: 54
47026344 ATCAAAGTAG
*
47026354 CCCT-GATTTA-AAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAA-AATTACTGTTTTACCCTCGATTTATAAAATTACCATTTTA
* * *
47026407 CCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACTGTTTTACCCTCGATTTATAAAATTACCATTTTA
* * *
47026461 CCCTCGATTTATAGAATTACTATTTTACCCTCGATTTAAAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACTGTTTTACCCTCGATTTATAAAATTACCATTTTA
* * *
47026515 CGCTCGATTTATAAAATTACTATTTTACCCTCGA-TTATAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACTGTTTTACCCTCGATTTATAAAATTACCATTTTA
* * * * *
47026568 CCCTCGATTTACAAAATTACTGTTTTACGCTCGATTTATGAAATTATCGTTTTA
1 CCCTCGATTTATAAAATTACTGTTTTACCCTCGATTTATAAAATTACCATTTTA
* * *
47026622 CCCTCGATTTATAGAATTA-TCGTTTTACCCTCGATTCACAAAATTAC
1 CCCTCGATTTATAAAATTACT-GTTTTACCCTCGATTTATAAAATTAC
47026669 TGAAATACCC
Statistics
Matches: 229, Mismatches: 29, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
53 52 0.23
54 175 0.76
55 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.41
Consensus pattern (54 bp):
CCCTCGATTTATAAAATTACTGTTTTACCCTCGATTTATAAAATTACCATTTTA
Found at i:47026892 original size:27 final size:27
Alignment explanation
Indices: 47026858--47027127 Score: 326
Period size: 27 Copynumber: 10.0 Consensus size: 27
47026848 GTAAAATACT
* *
47026858 GAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
47026885 AAAATACCCCTGTATGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
47026912 GAAATA-CCCTCGTAGGGTAAAACTACC
1 GAAATACCCCT-GTAGGGTAGAATTACC
* * * *
47026939 GAAATAACCTTGTAGGATAGAACTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
47026966 AAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
47026993 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
47027020 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
47027047 GAAATACCCTTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
47027074 AAAATACCCCTATAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
47027101 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
47027128 ATTTTGTCCC
Statistics
Matches: 208, Mismatches: 33, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 4 0.02
27 201 0.97
28 3 0.01
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:47027357 original size:25 final size:24
Alignment explanation
Indices: 47027329--47027397 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 24
47027319 AGGAAGTACT
*
47027329 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
* * *
47027353 GAAAAAGGCTTTGCCCGAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
47027378 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
47027398 ATTAAAAGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
24 18 0.47
25 20 0.53
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:47027386 original size:24 final size:24
Alignment explanation
Indices: 47027329--47027410 Score: 94
Period size: 24 Copynumber: 3.4 Consensus size: 24
47027319 AGGAAGTACT
* *
47027329 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
* *
47027353 GAAAAAGGCTTTGCCCGAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
*
47027378 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATC
47027401 AAAAGAGGCT
1 AAAAG-GGCT
47027411 AGGCCTCCAG
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
23 9 0.18
24 20 0.41
25 20 0.41
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:47031014 original size:55 final size:54
Alignment explanation
Indices: 47030919--47031068 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
47030909 CTACTTTGTT
* ** * *
47030919 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
47030973 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
47031028 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
47031069 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:47031031 original size:27 final size:27
Alignment explanation
Indices: 47030891--47031068 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
47030881 TAAATTGTAC
47030891 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
47030918 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
47030944 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
47030972 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
47031000 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
47031027 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
47031054 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47031069 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:47031032 original size:82 final size:81
Alignment explanation
Indices: 47030892--47031047 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
47030882 AAATTGTACA
* * * *
47030892 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
47030957 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
47030973 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
47031036 TGTGCGAGTTGA
63 TGTGCGAATTGA
47031048 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:47048531 original size:11 final size:11
Alignment explanation
Indices: 47048515--47048550 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
47048505 AGCCGAATAG
47048515 AAGAAAGAAAA
1 AAGAAAGAAAA
47048526 AAGAAAGAAAA
1 AAGAAAGAAAA
*
47048537 AAAAAAGAGAAA
1 AAGAAAGA-AAA
47048549 AA
1 AA
47048551 AAGCTCTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 18 0.78
12 5 0.22
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAGAAAGAAAA
Found at i:47048535 original size:15 final size:15
Alignment explanation
Indices: 47048515--47048552 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
47048505 AGCCGAATAG
*
47048515 AAGAAAGAAAAAAGA
1 AAGAAAAAAAAAAGA
47048530 AAGAAAAAAAAAAG-
1 AAGAAAAAAAAAAGA
47048544 -AGAAAAAAA
1 AAGAAAAAAA
47048553 GCTCTCATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.41
15 13 0.59
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAGAAAAAAAAAAGA
Found at i:47049182 original size:38 final size:38
Alignment explanation
Indices: 47049140--47049387 Score: 415
Period size: 38 Copynumber: 6.4 Consensus size: 38
47049130 AACATAGACA
*
47049140 TGTATGTTCGGCCACATGAATCAGTACATAAGTTGATG
1 TGTATGTTCGGCCACATGAATGAGTACATAAGTTGATG
47049178 TGTATGTTCGGCCACATGAATGAGTACATAAGTTGATG
1 TGTATGTTCGGCCACATGAATGAGTACATAAGTTGATG
*
47049216 TGTATGTTCGGGTTCGGCCACATGAAGGAGTACATAAGTTGATG
1 TGTA---T---GTTCGGCCACATGAATGAGTACATAAGTTGATG
47049260 TGTATGTTCGGCCACATGAATGAGTACATAAGTTGATG
1 TGTATGTTCGGCCACATGAATGAGTACATAAGTTGATG
47049298 TGTATGTTCGGCCACATGAATGAGTACATAAGTTGATG
1 TGTATGTTCGGCCACATGAATGAGTACATAAGTTGATG
47049336 TGTATGTTCGGCCACATGAATGAGTACATAAGTTGATG
1 TGTATGTTCGGCCACATGAATGAGTACATAAGTTGATG
*
47049374 TGTGTGTTCGGCCA
1 TGTATGTTCGGCCA
47049388 TAGGTAAGCA
Statistics
Matches: 200, Mismatches: 4, Indels: 12
0.93 0.02 0.06
Matches are distributed among these distances:
38 162 0.81
41 2 0.01
44 36 0.18
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (38 bp):
TGTATGTTCGGCCACATGAATGAGTACATAAGTTGATG
Found at i:47050077 original size:40 final size:41
Alignment explanation
Indices: 47049983--47050203 Score: 212
Period size: 40 Copynumber: 5.6 Consensus size: 41
47049973 TATTCGAATG
* *
47049983 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTA-GTGACT
* * * *
47050024 ATAACTGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAG-TGACT
* * *
47050064 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGACT
*
47050104 ATATCCGGGCTAAG-TCCCGAAGGCA-TCTGTGCTAGTGACC
1 ATATCCGGGCTAAGATCCCGAAGGCATTC-GTGCTAGTGACT
* * *
47050144 ATATCCGGGCTAAGA-CCCGAAGGCCTT-GTGCAAGT-AGTT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGA-CT
47050183 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
47050204 ATTACTTGAG
Statistics
Matches: 149, Mismatches: 21, Indels: 23
0.77 0.11 0.12
Matches are distributed among these distances:
37 1 0.01
38 14 0.09
39 15 0.10
40 89 0.60
41 29 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGACT
Found at i:47050158 original size:80 final size:78
Alignment explanation
Indices: 47049983--47050203 Score: 234
Period size: 80 Copynumber: 2.8 Consensus size: 78
47049973 TATTCGAATG
* * * * *
47049983 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACTGGACTAAGAT-CCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTA-G-GATTATATCCGGGCTAAG-TCCCGAAGG
*
47050047 CATTCGTGCGAGTTGCT
62 CATTCGTGCGAGTTGCC
47050064 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAG-GATTATATCCGGGCTAAGTCCCGAAGGCA
*
47050129 -TCTGTGCTAG-TGACC
64 TTC-GTGCGAGTTG-CC
* * * *
47050144 ATATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTTATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGGA-TTATATCCGGGCTAAGTCCCGAAG
47050204 ATTACTTGAG
Statistics
Matches: 123, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 15 0.12
79 21 0.17
80 55 0.45
81 32 0.26
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (78 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGGATTATATCCGGGCTAAGTCCCGAAGGCATT
CGTGCGAGTTGCC
Found at i:47053100 original size:93 final size:93
Alignment explanation
Indices: 47052993--47053163 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
47052983 GCCCCTAAGT
* *
47052993 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47053058 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
47053086 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47053151 CGAGTTCGGATGC
66 CGAGTTCGGATGC
47053164 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:47053160 original size:46 final size:46
Alignment explanation
Indices: 47052988--47053160 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
47052978 AACCCGCCCC
* * *
47052988 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
47053034 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
47053082 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
47053127 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
47053161 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:47058661 original size:93 final size:93
Alignment explanation
Indices: 47058546--47058714 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
47058536 CGCCCTAAGT
* * *
47058546 GAACTCGGGCTCAACTCAACGAGCTCAGG-CGTTTC-CATCCATAAGTTAACTCGGACTCAACTC
1 GAACTCGGACTCAACTCAACGAGCTC-GGAC-ATTCGCATCCATAAGTGAACTCGGACTCAACTC
47058609 AACGAGTTCGGATACCTAGTTACATTTAAC
64 AACGAGTTCGGATACCTAGTTACATTTAAC
* * *
47058639 GAACTCGGACTCAACTGAACGAGTTCGGACATTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47058704 CGAGTTCGGAT
66 CGAGTTCGGAT
47058715 GCTCAACCAT
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
92 5 0.07
93 63 0.93
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATACCTAGTTACATTTAAC
Found at i:47058706 original size:46 final size:46
Alignment explanation
Indices: 47058541--47058713 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
47058531 TAACCCGCCC
* * *
47058541 TAAGTGAACTCGGGCTCAACTCAACGAGCTCAGG-CGTTTC-CATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGAC-ATTCGCATCCA
* * * * * *
47058587 TAAGTTAACTCGGACTCAACTCAACGAGTTCGGATACCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACA-TTCGCATCCA
* *
47058633 TTTAA-CGAACTCGGACTCAACTGAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
47058680 TAAGTGAACTTGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
47058714 TGCTCAACCA
Statistics
Matches: 100, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
45 5 0.05
46 61 0.61
47 31 0.31
48 3 0.03
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:47061018 original size:34 final size:33
Alignment explanation
Indices: 47060974--47061038 Score: 67
Period size: 34 Copynumber: 1.9 Consensus size: 33
47060964 AATATCAGTG
* * *
47060974 TGGACTTTAGCTCAATACAGTAGCAGTATCCGTG
1 TGGACCTTAGCCCAATACAGTA-CAGTATCAGTG
* * *
47061008 TGGGCCTTAGCCCAATTCAGTACAGTGTCAG
1 TGGACCTTAGCCCAATACAGTACAGTATCAG
47061039 AATGCATACA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
33 7 0.28
34 18 0.72
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (33 bp):
TGGACCTTAGCCCAATACAGTACAGTATCAGTG
Found at i:47073022 original size:45 final size:45
Alignment explanation
Indices: 47072579--47073021 Score: 599
Period size: 45 Copynumber: 9.9 Consensus size: 45
47072569 TTTTCTCAAA
* * *
47072579 TCACCGGCATT-TCGCCTGCTAGGCTC-GAGGCCCG-ATATCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
* * * *
47072621 TCACCGACATTATAGCCTGTTAGGCTCGAAA-GCCCGAA-AAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAA-CATT
* *
47072666 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
* *
47072711 TCACTGGCATTATAGCTTGCTAGGCTCAAAGGCCCGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
*
47072756 TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
* *
47072801 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
* * * *
47072846 TCACAGGCATTATAGCCTGCTAAGCTCAGAGGCCCAAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
* * *
47072891 TCACCGGCATTATAGCCTGCTAAGCTCAGAGGCCCAAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
* * * *
47072936 TCACTGACATTATAGCCTGCTAGGCTCAGAGGCCCGAATAATATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
*
47072981 TCACCGGTATTATAGCCTGCTAGGCTCAAAGGCCCGAATAA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAA
47073022 TCAAATCAAC
Statistics
Matches: 360, Mismatches: 34, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
42 10 0.03
43 13 0.04
44 9 0.03
45 326 0.91
46 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
Found at i:47075189 original size:21 final size:21
Alignment explanation
Indices: 47075163--47075205 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
47075153 TAAGATTTAA
47075163 TTACATAATTTATTCAGCTTC
1 TTACATAATTTATTCAGCTTC
47075184 TTACATAATTTATTCAGCTTC
1 TTACATAATTTATTCAGCTTC
47075205 T
1 T
47075206 AACTCATCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.19, G:0.05, T:0.49
Consensus pattern (21 bp):
TTACATAATTTATTCAGCTTC
Found at i:47092163 original size:39 final size:39
Alignment explanation
Indices: 47092119--47092394 Score: 455
Period size: 39 Copynumber: 7.1 Consensus size: 39
47092109 ATGCAAGACA
47092119 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
47092158 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
47092197 CTGGAAATATATCCGGGCCAAAGTTCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
47092236 CTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
47092275 CTGGAAATATATCCGGGCCAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
47092314 CTGGAAATGTATCCGGGAC-AAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGG-CTAAAGTCCCGCAGGCTTCGTG
* *
47092353 CTGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
47092392 CTG
1 CTG
47092395 ATAATATAAT
Statistics
Matches: 220, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 219 1.00
40 1 0.00
ACGTcount: A:0.21, C:0.25, G:0.30, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:47093781 original size:32 final size:33
Alignment explanation
Indices: 47093735--47093798 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
47093725 AACATTGGGT
*
47093735 ACTGGGCCGAAG-CCCTTTTCAGA-ATACAGTAA
1 ACTGGGCCGAAGCCCCTCTTCAGATA-ACAGTAA
**
47093767 ACTGGGCCTTAGCCCCTCTTCAGATAACAGTA
1 ACTGGGCCGAAGCCCCTCTTCAGATAACAGTA
47093799 TGGCCCATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 10 0.37
33 16 0.59
34 1 0.04
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (33 bp):
ACTGGGCCGAAGCCCCTCTTCAGATAACAGTAA
Found at i:47094122 original size:65 final size:65
Alignment explanation
Indices: 47094047--47094177 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
47094037 AGTCCCATGC
*
47094047 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAATAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
47094112 ATCAGATAATAATAACATGGCATGCAATAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAATAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
47094177 A
1 A
47094178 ACCCTAGGGG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (65 bp):
ATCAGATAATAATAACATGGCATGCAATAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
Found at i:47096977 original size:24 final size:24
Alignment explanation
Indices: 47096950--47096997 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
47096940 GTTAATATAA
*
47096950 ATTATGGTATTTATATTAAGACAT
1 ATTATGGTATTTACATTAAGACAT
*
47096974 ATTATGGTCTTTACATTAAGACAT
1 ATTATGGTATTTACATTAAGACAT
47096998 GTGCCCTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.44
Consensus pattern (24 bp):
ATTATGGTATTTACATTAAGACAT
Found at i:47098862 original size:43 final size:43
Alignment explanation
Indices: 47098814--47098964 Score: 157
Period size: 43 Copynumber: 3.5 Consensus size: 43
47098804 ATGGAGATGA
* *
47098814 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGT
1 GATTACATGTAAGACCATATCTAGGACATTGGCATTGTATTGT
* * *
47098857 GATTACATGTAAGACAATGTCTAGGACATTGGCATCAT-TAAT-T
1 GATTACATGTAAGACCATATCTAGGACATTGGCAT--TGTATTGT
* * *
47098900 GATTACGTGTAAGACGC-TATCTAGGACAATGGCATCG-ATATGT
1 GATTACATGTAAGAC-CATATCTAGGACATTGGCATTGTAT-TGT
*
47098943 GATAACATGTAAGACCATATCT
1 GATTACATGTAAGACCATATCT
47098965 GGGATATGGC
Statistics
Matches: 90, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 83 0.92
44 3 0.03
45 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATATCTAGGACATTGGCATTGTATTGT
Found at i:47107893 original size:8 final size:8
Alignment explanation
Indices: 47107871--47107910 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
47107861 CGAATCTGAG
47107871 TAAAAAAA
1 TAAAAAAA
47107879 -AATAAAAA
1 TAA-AAAAA
47107887 TAAAAAAA
1 TAAAAAAA
47107895 T--AAAAA
1 TAAAAAAA
47107901 TAAAAAAA
1 TAAAAAAA
47107909 TA
1 TA
47107911 TTTTTTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
6 6 0.21
7 2 0.07
8 18 0.64
9 2 0.07
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
TAAAAAAA
Found at i:47107893 original size:14 final size:14
Alignment explanation
Indices: 47107874--47107910 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
47107864 ATCTGAGTAA
47107874 AAAAAAATAAAAAT
1 AAAAAAATAAAAAT
47107888 AAAAAAATAAAAAT
1 AAAAAAATAAAAAT
47107902 AAAAAAATA
1 AAAAAAATA
47107911 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (14 bp):
AAAAAAATAAAAAT
Found at i:47111610 original size:55 final size:54
Alignment explanation
Indices: 47111515--47111664 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
47111505 CTACTTTGTT
* ** * *
47111515 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
47111569 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
47111624 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
47111665 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:47111627 original size:27 final size:27
Alignment explanation
Indices: 47111487--47111664 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
47111477 TAAATTGTAC
47111487 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
47111514 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
47111540 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
47111568 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
47111596 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
47111623 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
47111650 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47111665 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:47111628 original size:82 final size:81
Alignment explanation
Indices: 47111488--47111643 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
47111478 AAATTGTACA
* * * *
47111488 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
47111553 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
47111569 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
47111632 TGTGCGAGTTGA
63 TGTGCGAATTGA
47111644 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:47119517 original size:27 final size:26
Alignment explanation
Indices: 47119461--47119634 Score: 136
Period size: 27 Copynumber: 6.5 Consensus size: 26
47119451 AAATTGTACA
* *
47119461 GCACTAAGTGTGCG-ATTCTACTTTGTT
1 GCACTAAGTGTGCGAATT-GACTATG-T
* *
47119488 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATG-T
* *
47119515 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATG-T
**
47119542 GCACTAAGTGTGCGGTTTGACTATGT
1 GCACTAAGTGTGCGAATTGACTATGT
* * *
47119568 GCACT-AGTGTGCGATTTGATTACGT
1 GCACTAAGTGTGCGAATTGACTATGT
* * * *
47119593 GGCACTAAATGTGCGAGTTGATTATAT
1 -GCACTAAGTGTGCGAATTGACTATGT
*
47119620 AGCACTGAGTGTGCG
1 -GCACTAAGTGTGCG
47119635 GGCTCATATA
Statistics
Matches: 120, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
25 17 0.14
26 10 0.08
27 91 0.76
28 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (26 bp):
GCACTAAGTGTGCGAATTGACTATGT
Found at i:47121301 original size:21 final size:20
Alignment explanation
Indices: 47121261--47121301 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
47121251 TTAAGAATAA
* *
47121261 TAAATAATAAGCATGGTGAT
1 TAAATAATAAGAAGGGTGAT
47121281 TAAATAATGAAGAAGGGTGAT
1 TAAATAAT-AAGAAGGGTGAT
47121302 GGAGAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.46, C:0.02, G:0.24, T:0.27
Consensus pattern (20 bp):
TAAATAATAAGAAGGGTGAT
Found at i:47122735 original size:27 final size:27
Alignment explanation
Indices: 47122616--47122745 Score: 104
Period size: 26 Copynumber: 4.8 Consensus size: 27
47122606 GCGAAATGCA
*
47122616 ATTATG-ATGCAC-AAGTGTGCGAATTG
1 ATTATGTA-GCACTAAGTGTGCGAGTTG
** ** *
47122642 ACCATGCGGCACTAAGTTGTGCGGGTTTG
1 ATTATGTAGCACTAAG-TGTGCGAG-TTG
*
47122671 ACTATGTAGCACTAAGTGTGCGA-TTG
1 ATTATGTAGCACTAAGTGTGCGAGTTG
* * *
47122697 ATTACGTGGCACTAAATGTGCGAGTTG
1 ATTATGTAGCACTAAGTGTGCGAGTTG
* *
47122724 ATTATATAGCACTGAGTGTGCG
1 ATTATGTAGCACTAAGTGTGCG
47122746 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 18, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
26 30 0.37
27 23 0.28
28 12 0.15
29 16 0.20
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
ATTATGTAGCACTAAGTGTGCGAGTTG
Found at i:47139146 original size:41 final size:41
Alignment explanation
Indices: 47139091--47139179 Score: 128
Period size: 41 Copynumber: 2.2 Consensus size: 41
47139081 AGACTGTTAT
47139091 AAAAAATTATAAAA-TATAAATTAATTAAAATTACATAAATA
1 AAAAAATTATAAAATTA-AAATTAATTAAAATTACATAAATA
* *
47139132 AAAAAATTCA-AAAATTAAAATTAATTAAATTTACATAAATG
1 AAAAAATT-ATAAAATTAAAATTAATTAAAATTACATAAATA
47139173 AAAAAAT
1 AAAAAAT
47139180 ATTAAATAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
41 41 0.93
42 3 0.07
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.30
Consensus pattern (41 bp):
AAAAAATTATAAAATTAAAATTAATTAAAATTACATAAATA
Found at i:47140288 original size:3 final size:3
Alignment explanation
Indices: 47140267--47140319 Score: 54
Period size: 3 Copynumber: 17.3 Consensus size: 3
47140257 TATATAAATG
* * *
47140267 AAT AAT ATT AGAT AA- AAT AAT AAT AAT AAT GAT GAT AAT AAT AAT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
47140312 AAAT AAT A
1 -AAT AAT A
47140320 TATATAAGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
2 2 0.05
3 36 0.84
4 5 0.12
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:47140450 original size:23 final size:23
Alignment explanation
Indices: 47140406--47140451 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
47140396 TATTAAAATT
*
47140406 TATATATAAAAAGATAAGTAAAA
1 TATATATAAAAAGATAACTAAAA
*
47140429 TATATA-AAAAACGTTAACTAAAA
1 TATATATAAAAA-GATAACTAAAA
47140452 AAATGAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.63, C:0.04, G:0.07, T:0.26
Consensus pattern (23 bp):
TATATATAAAAAGATAACTAAAA
Found at i:47141897 original size:21 final size:21
Alignment explanation
Indices: 47141873--47141913 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
47141863 CTTTGACAAA
*
47141873 TTTAATGAGAAATTTGAGAGC
1 TTTAAGGAGAAATTTGAGAGC
* *
47141894 TTTAGGGAGAAATTTTAGAG
1 TTTAAGGAGAAATTTGAGAG
47141914 ATTTTTGGCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.02, G:0.27, T:0.34
Consensus pattern (21 bp):
TTTAAGGAGAAATTTGAGAGC
Found at i:47142865 original size:85 final size:81
Alignment explanation
Indices: 47142689--47142889 Score: 240
Period size: 85 Copynumber: 2.4 Consensus size: 81
47142679 TTGAGTATTG
* ** *
47142689 AGGAAGATGTTGATTTTATAGTCTCATTAAGTTTCACTTCTATGTCTCTTATTCTTTTAGATGAT
1 AGGAAGATGTTGATTTTATGGTCTTTTTAAGTTTCACTTCTATCTCTCTTATTCTTTTAGATGAT
* * *
47142754 TGCATGCTTGTGTTTG
66 TGCATACTTGTGTGTA
* * * *
47142770 AGGAATATGTTGATTTTATGGTCTTTTTAATTTTCACTTCTACATCTCTTCTGTTTTTTTTTAGA
1 AGGAAGATGTTGATTTTATGGTCTTTTTAAGTTTCACTTCT--ATCTC-TCT-TATTCTTTTAGA
*
47142835 TGATTGCATATTTGTGTGTA
62 TGATTGCATACTTGTGTGTA
*
47142855 AGGAAGATGTTGATTTTTATGGTCTTTTAAAGTTT
1 AGGAAGATGTTGA-TTTTATGGTCTTTTTAAGTTT
47142890 TTTGTTTTTT
Statistics
Matches: 100, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
81 36 0.36
83 4 0.04
84 3 0.03
85 38 0.38
86 19 0.19
ACGTcount: A:0.21, C:0.10, G:0.18, T:0.51
Consensus pattern (81 bp):
AGGAAGATGTTGATTTTATGGTCTTTTTAAGTTTCACTTCTATCTCTCTTATTCTTTTAGATGAT
TGCATACTTGTGTGTA
Found at i:47143472 original size:12 final size:12
Alignment explanation
Indices: 47143455--47143482 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
47143445 AAAATCTATT
47143455 TTTTTATTGTTG
1 TTTTTATTGTTG
47143467 TTTTTATTGTTG
1 TTTTTATTGTTG
47143479 TTTT
1 TTTT
47143483 CTTCCTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.00, G:0.14, T:0.79
Consensus pattern (12 bp):
TTTTTATTGTTG
Found at i:47143598 original size:30 final size:30
Alignment explanation
Indices: 47143564--47143626 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
47143554 ACTTATTTTA
*
47143564 TTGTTAATTTTGTTATTATTTTAAAGGTAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* *
47143594 TTGTTAATTTTGTTATTTTTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
47143624 TTG
1 TTG
47143627 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.22, C:0.02, G:0.16, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:47148104 original size:20 final size:19
Alignment explanation
Indices: 47148038--47148128 Score: 64
Period size: 17 Copynumber: 5.3 Consensus size: 19
47148028 ATTTTAATAG
47148038 TTTAATATTAAA-T-TTAA
1 TTTAATATTAAATTATTAA
47148055 TTTAATACTT--A-TATTAA
1 TTTAATA-TTAAATTATTAA
47148072 --TAATATT---TTATTAA
1 TTTAATATTAAATTATTAA
47148086 TTTAATATTAAAGTTATT-A
1 TTTAATATTAAA-TTATTAA
47148105 TCTTAATATTAAA-T-TTAA
1 T-TTAATATTAAATTATTAA
47148123 TTTAAT
1 TTTAAT
47148129 GTTTATCTTA
Statistics
Matches: 63, Mismatches: 0, Indels: 22
0.74 0.00 0.26
Matches are distributed among these distances:
14 8 0.13
15 5 0.08
16 9 0.14
17 18 0.29
18 5 0.08
19 2 0.03
20 16 0.25
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (19 bp):
TTTAATATTAAATTATTAA
Found at i:47148123 original size:51 final size:48
Alignment explanation
Indices: 47148021--47148119 Score: 119
Period size: 48 Copynumber: 2.0 Consensus size: 48
47148011 ATTTCAAAAA
* * *
47148021 TAATATTATTTTAATAGTTTAATATTAAATTTAATTTAATACTTATAT
1 TAATAATATTTTAATAATTTAATATTAAATTTAATTTAATACTTAAAT
* *
47148069 TAATAATATTTTATTAATTTAATATTAAAGTTATTATCTTAATA-TTAAAT
1 TAATAATATTTTAATAATTTAATATTAAA-TT-TAAT-TTAATACTTAAAT
47148119 T
1 T
47148120 TAATTTAATG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
48 26 0.60
49 2 0.05
50 9 0.21
51 6 0.14
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (48 bp):
TAATAATATTTTAATAATTTAATATTAAATTTAATTTAATACTTAAAT
Found at i:47152170 original size:50 final size:51
Alignment explanation
Indices: 47152093--47152221 Score: 206
Period size: 50 Copynumber: 2.5 Consensus size: 51
47152083 GACCATGGCA
* *
47152093 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
47152144 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
47152194 ACAAGTGAAAAGTGGTACCTTCGGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
47152222 CTGATCAATG
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 48 0.67
51 24 0.33
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:47152237 original size:31 final size:31
Alignment explanation
Indices: 47152197--47152307 Score: 161
Period size: 31 Copynumber: 3.6 Consensus size: 31
47152187 ACAAATGACA
*
47152197 AGTGAAAAGTGGTACCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
47152228 AATGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
47152259 AGTGAAAAATGGTAGC-TCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
*
47152290 AGTGAATAGTGGTAGCTT
1 AGTGAAAAGTGGTAGCTT
47152308 AAGCTAAAAG
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
30 2 0.03
31 67 0.96
32 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:47155086 original size:42 final size:42
Alignment explanation
Indices: 47155036--47155259 Score: 211
Period size: 42 Copynumber: 5.0 Consensus size: 42
47155026 CTTCATTTTC
** * * *
47155036 TCGATGCCATAGTTCAACTATGGTCTGACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
47155079 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
47155120 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT---AT-TCACATA
** *
47155169 TCGATGCCATAGCCCAGCCCTAGTCTTACACGGATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC--AT---AT-TCACATA
*
47155217 TCGATGCCATAGCCTAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
47155258 TC
1 TC
47155260 TCACTGATAC
Statistics
Matches: 159, Mismatches: 14, Indels: 18
0.83 0.07 0.09
Matches are distributed among these distances:
41 11 0.07
42 63 0.40
43 2 0.01
45 2 0.01
47 2 0.01
48 44 0.28
49 35 0.22
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:47155225 original size:48 final size:48
Alignment explanation
Indices: 47155106--47155320 Score: 249
Period size: 48 Copynumber: 4.5 Consensus size: 48
47155096 TATGGTCTTA
47155106 CACATATTCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
** * *
47155156 CACATATCACATATCGATGCCATAGCCCAGCCCTAGTCTTACACGGAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
*
47155204 CACATATCACATATCGATGCCATAGCCTAGCTATGGTCTTACACGAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
* * * * * * * *
47155252 CACATATCTCA-CT-GATACCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACAC-GAAT
*
47155299 CATATATCACAT-T-GATGCCATA
1 CACATATCACATATCGATGCCATA
47155321 TTTTAGTTCA
Statistics
Matches: 142, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
46 24 0.17
47 21 0.15
48 55 0.39
49 36 0.25
50 6 0.04
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.27
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
Found at i:47158166 original size:36 final size:40
Alignment explanation
Indices: 47158085--47158204 Score: 133
Period size: 40 Copynumber: 3.1 Consensus size: 40
47158075 TTGGCACCTT
* *
47158085 GTGCCTTATCGGATAATTCGAAGTAATAATTTGACACCCA
1 GTGCCTTATCGGATAATCCGAAGTAATAATTAGACACCCA
*
47158125 GTGCCTTATCGGGTAA-CCGAAGT-A-AATTAG-CACCCA
1 GTGCCTTATCGGATAATCCGAAGTAATAATTAGACACCCA
* **
47158161 GTGCCTCATCAAATTAATCCGAAGTAATAAATT-GACACCCA
1 GTGCCTTATCGGA-TAATCCGAAGTAAT-AATTAGACACCCA
47158202 GTG
1 GTG
47158205 TCTCATCGAC
Statistics
Matches: 67, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
36 15 0.22
37 8 0.12
38 8 0.12
39 7 0.10
40 16 0.24
41 13 0.19
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (40 bp):
GTGCCTTATCGGATAATCCGAAGTAATAATTAGACACCCA
Found at i:47158200 original size:41 final size:40
Alignment explanation
Indices: 47158098--47158211 Score: 112
Period size: 41 Copynumber: 2.9 Consensus size: 40
47158088 CCTTATCGGA
* * * **
47158098 TAATTCGAAGTAATAATTTGACACCCAGTGCCTTATCGGG
1 TAATCCGAAGTAATAAATTGACACCCAGTGCCTCATCAAG
*
47158138 TAA-CCGAAG---TAAATT-AGCACCCAGTGCCTCATCAAAT
1 TAATCCGAAGTAATAAATTGA-CACCCAGTGCCTCATC-AAG
*
47158175 TAATCCGAAGTAATAAATTGACACCCAGTGTCTCATC
1 TAATCCGAAGTAATAAATTGACACCCAGTGCCTCATC
47158212 GACTCGAAGT
Statistics
Matches: 60, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
35 1 0.02
36 20 0.33
37 3 0.05
38 6 0.10
39 5 0.08
40 3 0.05
41 21 0.35
42 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (40 bp):
TAATCCGAAGTAATAAATTGACACCCAGTGCCTCATCAAG
Found at i:47158667 original size:19 final size:19
Alignment explanation
Indices: 47158643--47158692 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
47158633 TTCTCCTTCT
*
47158643 TTCTCTTTTTCTTTCTTTC
1 TTCTCTTTTTCTCTCTTTC
* *
47158662 TTCTCTGTTTCACTCTTTC
1 TTCTCTTTTTCTCTCTTTC
47158681 TGT-TCTTTTTCT
1 T-TCTCTTTTTCT
47158693 ATTTCATTTC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 24 0.96
20 1 0.04
ACGTcount: A:0.02, C:0.26, G:0.04, T:0.68
Consensus pattern (19 bp):
TTCTCTTTTTCTCTCTTTC
Found at i:47158731 original size:5 final size:5
Alignment explanation
Indices: 47158721--47158814 Score: 170
Period size: 5 Copynumber: 18.8 Consensus size: 5
47158711 ATTTAGTTAT
*
47158721 TATAA TATAA TATAA TATAA TATAA TATAA TATAG TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
*
47158771 CATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
47158815 TATTTACTTA
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 85 1.00
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:47158868 original size:42 final size:45
Alignment explanation
Indices: 47158796--47158880 Score: 113
Period size: 42 Copynumber: 1.9 Consensus size: 45
47158786 TATAATATAA
* *
47158796 TATAATATAATATAATATATATTTACTTAACTTTTAAGTTTTATTAT
1 TATAATAT-ATATAATATATATTTA-TTAACTTTAAAATTTTATTAT
47158843 TATAATAT-TATAATATATA-TT-TTAACTTTAAAATTTTA
1 TATAATATATATAATATATATTTATTAACTTTAAAATTTTA
47158881 ATTAAATACA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
42 15 0.42
44 2 0.06
45 11 0.31
47 8 0.22
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (45 bp):
TATAATATATATAATATATATTTATTAACTTTAAAATTTTATTAT
Found at i:47160871 original size:5 final size:5
Alignment explanation
Indices: 47160847--47160928 Score: 68
Period size: 5 Copynumber: 16.8 Consensus size: 5
47160837 TTTTTATAAA
* *
47160847 TATAT TAT-T TA-AT TAGAT TATAT TAT-T ATATTAT TATACT GTAAAT
1 TATAT TATAT TATAT TATAT TATAT TATAT -TA-TAT TATA-T -TATAT
47160893 TATAT TA-AT TATA- T-TAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
47160929 AAATGAATCA
Statistics
Matches: 64, Mismatches: 3, Indels: 20
0.74 0.03 0.23
Matches are distributed among these distances:
3 2 0.03
4 13 0.20
5 40 0.62
6 5 0.08
7 4 0.06
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:47160872 original size:29 final size:29
Alignment explanation
Indices: 47160829--47160930 Score: 81
Period size: 29 Copynumber: 3.6 Consensus size: 29
47160819 TGATAAAAAT
* *
47160829 ATTAGATTTTTTTATAAATATATTATTTA
1 ATTAGATTATATTATAAATATATTATTTA
47160858 ATTAGATTATATTAT---TATATTATTATA
1 ATTAGATTATATTATAAATATATTATT-TA
* * *
47160885 CTGTAAATTATA-T-TAATTATATTA-TTA
1 AT-TAGATTATATTATAAATATATTATTTA
*
47160912 TATTATATTATATTATAAA
1 -ATTAGATTATATTATAAA
47160931 ATGAATCAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
26 10 0.17
27 14 0.24
28 11 0.19
29 23 0.40
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (29 bp):
ATTAGATTATATTATAAATATATTATTTA
Found at i:47160874 original size:8 final size:8
Alignment explanation
Indices: 47160863--47160927 Score: 67
Period size: 8 Copynumber: 7.2 Consensus size: 8
47160853 ATTTAATTAG
47160863 ATTATATT
1 ATTATATT
47160871 ATTATATT
1 ATTATATT
47160879 ATTATACTGT
1 ATTATA-T-T
47160889 AAATTATATT
1 --ATTATATT
47160899 AATTATATT
1 -ATTATATT
47160908 ATTATATTAT
1 ATTATA-T-T
47160918 ATTATATT
1 ATTATATT
47160926 AT
1 AT
47160928 AAAATGAATC
Statistics
Matches: 51, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
8 23 0.45
9 12 0.24
10 9 0.18
11 1 0.02
12 6 0.12
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (8 bp):
ATTATATT
Found at i:47161814 original size:18 final size:19
Alignment explanation
Indices: 47161781--47161823 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
47161771 AGTATTGATA
47161781 TTGAATTGAATGAAAATGTG
1 TTGAATTG-ATGAAAATGTG
47161801 TTGAATTG-TGAAAATGTG
1 TTGAATTGATGAAAATGTG
47161819 -TGAAT
1 TTGAAT
47161824 ATATGGATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 10 0.43
20 8 0.35
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (19 bp):
TTGAATTGATGAAAATGTG
Found at i:47165724 original size:18 final size:18
Alignment explanation
Indices: 47165698--47165734 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
47165688 ATCATTCGTT
*
47165698 TAACTAGTTCAAAACACA
1 TAACCAGTTCAAAACACA
47165716 TAACCAGTTCAAAACACA
1 TAACCAGTTCAAAACACA
47165734 T
1 T
47165735 TCAAACACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.24, G:0.05, T:0.22
Consensus pattern (18 bp):
TAACCAGTTCAAAACACA
Found at i:47165739 original size:11 final size:11
Alignment explanation
Indices: 47165723--47165752 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
47165713 ACATAACCAG
47165723 TTCAAAACACA
1 TTCAAAACACA
47165734 TTC-AAACACA
1 TTCAAAACACA
47165744 TTCAAAACA
1 TTCAAAACA
47165753 TATCAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (11 bp):
TTCAAAACACA
Found at i:47165742 original size:10 final size:10
Alignment explanation
Indices: 47165727--47165759 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
47165717 AACCAGTTCA
47165727 AAACACATTC
1 AAACACATTC
47165737 AAACACATTC
1 AAACACATTC
47165747 AAA-ACATATC
1 AAACACAT-TC
47165757 AAA
1 AAA
47165760 AATAATCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.58, C:0.24, G:0.00, T:0.18
Consensus pattern (10 bp):
AAACACATTC
Found at i:47167988 original size:25 final size:25
Alignment explanation
Indices: 47167959--47168008 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
47167949 TTCGTAACAT
47167959 AACTCAAGTTCATTTTCATCAATGA
1 AACTCAAGTTCATTTTCATCAATGA
47167984 AACTCAAGTTCATTTTCATCAATGA
1 AACTCAAGTTCATTTTCATCAATGA
47168009 CATACCTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (25 bp):
AACTCAAGTTCATTTTCATCAATGA
Found at i:47168280 original size:72 final size:72
Alignment explanation
Indices: 47168198--47168437 Score: 304
Period size: 72 Copynumber: 3.3 Consensus size: 72
47168188 CACGGATCTG
* * * * *
47168198 TACACAAAGTCAGCACCCGGAACCCAAAGGATTATCATGTAATGTCCGCTCATTGAGATACTCAC
1 TACACAAAGTCAACACCCAGACCCCAAAGCATTATCATGTAATGTCCGCTCATTGAGTTACTCAC
47168263 AGGTTTA
66 AGGTTTA
* * **
47168270 TACTCAAAGTCAACACCTAGACCCCAAAGCATTATCATGTAATGTCCATTCATTGAGTTACTCAC
1 TACACAAAGTCAACACCCAGACCCCAAAGCATTATCATGTAATGTCCGCTCATTGAGTTACTCAC
*
47168335 GGGTTTA
66 AGGTTTA
* * * **
47168342 TACACAAAGTCAATACCCAGACCCCAAAGCATTAGCACG-AGATG-CTCGCTCAGCGAGTTACTC
1 TACACAAAGTCAACACCCAGACCCCAAAGCATTATCATGTA-ATGTC-CGCTCATTGAGTTACTC
47168405 ACAGGTTTA
64 ACAGGTTTA
*
47168414 TACACAAAGTCAATACCCAGACCC
1 TACACAAAGTCAACACCCAGACCC
47168438 ACATTACATA
Statistics
Matches: 146, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
71 2 0.01
72 144 0.99
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.23
Consensus pattern (72 bp):
TACACAAAGTCAACACCCAGACCCCAAAGCATTATCATGTAATGTCCGCTCATTGAGTTACTCAC
AGGTTTA
Found at i:47168753 original size:19 final size:19
Alignment explanation
Indices: 47168724--47168766 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
47168714 TCGAATCTTT
47168724 ATCAA-GAATATCCATATA
1 ATCAATGAATATCCATATA
47168742 ATCAATGAATATCCATATA
1 ATCAATGAATATCCATATA
47168761 ATCAAT
1 ATCAAT
47168767 CATACAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.30
Consensus pattern (19 bp):
ATCAATGAATATCCATATA
Found at i:47170748 original size:37 final size:37
Alignment explanation
Indices: 47170698--47170774 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
47170688 GCTTTGAACC
*
47170698 CTTGAAACCCTAATTCTCTTTCTTTCTCTTTTTCTTT
1 CTTGAAACCCTAATTCTCCTTCTTTCTCTTTTTCTTT
47170735 CTTGAAACCCTAATTCTCCTTCTTTCTCTTTTTCTTT
1 CTTGAAACCCTAATTCTCCTTCTTTCTCTTTTTCTTT
47170772 CTT
1 CTT
47170775 TCTTCTCTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.13, C:0.29, G:0.03, T:0.56
Consensus pattern (37 bp):
CTTGAAACCCTAATTCTCCTTCTTTCTCTTTTTCTTT
Found at i:47172096 original size:33 final size:33
Alignment explanation
Indices: 47172045--47172206 Score: 98
Period size: 33 Copynumber: 4.8 Consensus size: 33
47172035 ACATTTGTAG
* * *
47172045 TGCCATAACCCAGTTATGGTCTTATCAT-CAGAA
1 TGCCATAGCCTAGCTATGGTCTTA-CATACAGAA
* * *
47172078 TGTCATAGCCTAGCTATGGTCTTACATATAAACA
1 TGCCATAGCCTAGCTATGGTCTTACATACAGA-A
* * * * * * * *
47172112 CTGTCATGGTCC-AACCATGGTCTTACGTCCATAG
1 -TGCCATAG-CCTAGCTATGGTCTTACATACAGAA
* *
47172146 TGCCATA-ACTCAGTTATGGTCTTATCAT-CAGAA
1 TGCCATAGCCT-AGCTATGGTCTTA-CATACAGAA
47172179 TGCCATAGCCTAGCTATGGTCTTACATA
1 TGCCATAGCCTAGCTATGGTCTTACATA
47172207 TAACCATTGG
Statistics
Matches: 95, Mismatches: 25, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
31 1 0.01
32 6 0.06
33 59 0.62
34 5 0.05
35 22 0.23
36 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (33 bp):
TGCCATAGCCTAGCTATGGTCTTACATACAGAA
Found at i:47176085 original size:249 final size:247
Alignment explanation
Indices: 47175643--47176173 Score: 695
Period size: 249 Copynumber: 2.1 Consensus size: 247
47175633 TACGGTTCTA
* * * *
47175643 ACACTAACTCAATCAAATACATTATTAATATTAGAAATCTTATCACAAGCGTATGCGTGTGGAAA
1 ACACAAACTCAATCAAATACATTATTAATA-TATAAATCCTATCACAAACGTATGCGTGTGGAAA
** * * * *
47175708 CCACAAATTTTTAACATAAACGTCTGTTTAAAAATCACATACAATAAATTATAAAACGTGTGGTT
65 CCACAAATTTAAAACACAAACATCTGTTTAAAAATCACATACAATAAATAATAAAACGTATGGTT
* *
47175773 TGAAACTAATTATTAATAACACATGAAATATGTAAGTTATTAAAATTAAAAAAAAGTAGATTAAA
130 TGAAACTAATTAATAATAACACATGAAATATGTAACTTATTAAAATTAAAAAAAAGTAGATTAAA
*
47175838 TTGCTTATCATGGTGTACTAATCAATCTTGAGTCGATGTTGAGTTAACTTGCG
195 TTGCTTATCATAGTGTACTAATCAATCTTGAGTCGATGTTGAGTTAACTTGCG
* *
47175891 ACACCAACTCAATCAAATGCATTATTAATACTATAAATCCTATCACAAACGTATGCGTGTGGAAA
1 ACACAAACTCAATCAAATACATTATTAATA-TATAAATCCTATCACAAACGTATGCGTGTGGAAA
* * * * * * * * *
47175956 CCAGAAATTTAAAATACAAATATTTGTTTTAGAAATCATATGCAATAAATAATGAAATGTATGGT
65 CCACAAATTTAAAACACAAACATCTG-TTTAAAAATCACATACAATAAATAATAAAACGTATGGT
* * *
47176021 TTGAAACTAATTAATAATAACACATGAAAATATGTATCTTATTAAAA-TGAAAAAAATTAGATTA
129 TTGAAACTAATTAATAATAACACATG-AAATATGTAACTTATTAAAATTAAAAAAAAGTAGATTA
* ** * * * *
47176085 AATTGTTTATCATAGTGTTGTCATCAATCTTGAGTTGGTGTTGAGTTAACTTGTG
193 AATTGCTTATCATAGTGTACTAATCAATCTTGAGTCGATGTTGAGTTAACTTGCG
* *
47176140 ATACAAACTCAATTAAATACATTATTAATATATA
1 ACACAAACTCAATCAAATACATTATTAATATATA
47176174 TAATTGATAT
Statistics
Matches: 243, Mismatches: 38, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
248 81 0.33
249 144 0.59
250 18 0.07
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (247 bp):
ACACAAACTCAATCAAATACATTATTAATATATAAATCCTATCACAAACGTATGCGTGTGGAAAC
CACAAATTTAAAACACAAACATCTGTTTAAAAATCACATACAATAAATAATAAAACGTATGGTTT
GAAACTAATTAATAATAACACATGAAATATGTAACTTATTAAAATTAAAAAAAAGTAGATTAAAT
TGCTTATCATAGTGTACTAATCAATCTTGAGTCGATGTTGAGTTAACTTGCG
Found at i:47177365 original size:25 final size:26
Alignment explanation
Indices: 47177328--47177379 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
47177318 TCAAACATGC
47177328 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAA-TTAACTCCTAGGGGT
* *
47177354 ATTTCGGT-AATTATCTCCTAGGGGT
1 ATTTAGGTCAATTAACTCCTAGGGGT
47177379 A
1 A
47177380 AAATTGTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 12 0.52
26 7 0.30
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (26 bp):
ATTTAGGTCAATTAACTCCTAGGGGT
Found at i:47178895 original size:26 final size:26
Alignment explanation
Indices: 47178864--47179023 Score: 232
Period size: 26 Copynumber: 6.2 Consensus size: 26
47178854 TGAAATGCCC
*
47178864 ATCATGCAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
47178890 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
47178916 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
47178942 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* **
47178968 ATCATGGAATATTTACCTAATTCATT
1 ATCATGGAACATTTACCTAAACCATT
47178994 ATCATGGAACATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
47179020 ATCA
1 ATCA
47179024 ATTTGTACCA
Statistics
Matches: 121, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
25 1 0.01
26 120 0.99
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:47178941 original size:52 final size:52
Alignment explanation
Indices: 47178864--47179023 Score: 275
Period size: 52 Copynumber: 3.1 Consensus size: 52
47178854 TGAAATGCCC
* * *
47178864 ATCATGCAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
47178916 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
* *
47178968 ATCATGGAATATTTACCTAATTCATTATCATGGAACATTTACCTAACTCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
47179020 ATCA
1 ATCA
47179024 ATTTGTACCA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 103 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (52 bp):
ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
Found at i:47180047 original size:118 final size:118
Alignment explanation
Indices: 47179874--47180115 Score: 459
Period size: 118 Copynumber: 2.1 Consensus size: 118
47179864 AATGAAAGTA
47179874 AAGTTTAAGCAGTAAATTAGATGTGTTTAACGAAAATAAAATTTGGATATCAATTTACAATAAAA
1 AAGTTTAAGCAGTAAATTAGATGTGTTTAACGAAAATAAAATTTGGATATCAATTTACAATAAAA
*
47179939 TTTTACAAAGTTTAATTCAGATACTTATTCGTAGATTTAAAAGGGTTAAAGAT
66 TTTTACAAAGTTTAATTCAGATACTTATTAGTAGATTTAAAAGGGTTAAAGAT
*
47179992 AAGTTTAAGCAGTAAATTAGATGTGTTTAACGAAAATAAAATTTGGATATCAATTTGCAATAAAA
1 AAGTTTAAGCAGTAAATTAGATGTGTTTAACGAAAATAAAATTTGGATATCAATTTACAATAAAA
47180057 TTTTACAAAGTTTAATTCAGATACTTATTAGTAGATTTAAAAGGGTTAAAGAT
66 TTTTACAAAGTTTAATTCAGATACTTATTAGTAGATTTAAAAGGGTTAAAGAT
47180110 -AGTTTA
1 AAGTTTA
47180116 CTTGAAATGA
Statistics
Matches: 122, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
117 6 0.05
118 116 0.95
ACGTcount: A:0.43, C:0.06, G:0.15, T:0.36
Consensus pattern (118 bp):
AAGTTTAAGCAGTAAATTAGATGTGTTTAACGAAAATAAAATTTGGATATCAATTTACAATAAAA
TTTTACAAAGTTTAATTCAGATACTTATTAGTAGATTTAAAAGGGTTAAAGAT
Found at i:47181094 original size:15 final size:15
Alignment explanation
Indices: 47181074--47181103 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
47181064 TTGCTTGCTT
47181074 GCTTTTACCTGGCTC
1 GCTTTTACCTGGCTC
47181089 GCTTTTACCTGGCTC
1 GCTTTTACCTGGCTC
47181104 TTGAAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.33, G:0.20, T:0.40
Consensus pattern (15 bp):
GCTTTTACCTGGCTC
Found at i:47186313 original size:26 final size:26
Alignment explanation
Indices: 47186277--47186326 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
47186267 TGTTATAGAG
47186277 AGTGACTCTTATACACCTACAACAGC
1 AGTGACTCTTATACACCTACAACAGC
47186303 AGTGACTCTTATACACCTACAACA
1 AGTGACTCTTATACACCTACAACA
47186327 ACACGTCGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.36, C:0.30, G:0.10, T:0.24
Consensus pattern (26 bp):
AGTGACTCTTATACACCTACAACAGC
Found at i:47186834 original size:20 final size:20
Alignment explanation
Indices: 47186809--47186854 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
47186799 ATCATGTTTG
47186809 ATAGTTCAAATTGTAATTAC
1 ATAGTTCAAATTGTAATTAC
47186829 ATAGTTCAAATTGTAATTAC
1 ATAGTTCAAATTGTAATTAC
47186849 ATAGTT
1 ATAGTT
47186855 ATATTAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (20 bp):
ATAGTTCAAATTGTAATTAC
Found at i:47192685 original size:22 final size:22
Alignment explanation
Indices: 47192660--47192702 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
47192650 AATTAAATTT
47192660 TTAAATT-CAAAAAATATAAAAA
1 TTAAATTCCAAAAAAT-TAAAAA
*
47192682 TTAAATTCCTAAAAATTAAAA
1 TTAAATTCCAAAAAATTAAAA
47192703 TAAGAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (22 bp):
TTAAATTCCAAAAAATTAAAAA
Found at i:47199475 original size:94 final size:94
Alignment explanation
Indices: 47199314--47199537 Score: 288
Period size: 94 Copynumber: 2.4 Consensus size: 94
47199304 TTTGTACGGT
* * *
47199314 GATATGTATGCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACAACATGAGAGCCAGTGTAA
1 GATATATAAGCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACAACACGAGAGCCAGTGTAA
*
47199379 GACATGTCTGAGACATGCATCGGCCTCGA
66 GACATGTCTGAGACATGCATCGACCTCGA
* * * ** * *
47199408 GATATTTAAGCTAGTGTAAGACATGTCTGGGACATGCATC-GGCATTGAGACGAGAGCTAGTGTA
1 GATATATAAGCTAGTGTAAGACATGTCTAGGACATGCATCAGCCA-CAACACGAGAGCCAGTGTA
* *
47199472 AGACATGTCTGGGACATGCATCGACCTCGT
65 AGACATGTCTGAGACATGCATCGACCTCGA
* * *
47199502 GATATACAAGCTAGTGTAAGACCTATCTAGGACATG
1 GATATATAAGCTAGTGTAAGACATGTCTAGGACATG
47199538 GTGTTAGCTT
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
93 3 0.03
94 109 0.97
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.24
Consensus pattern (94 bp):
GATATATAAGCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACAACACGAGAGCCAGTGTAA
GACATGTCTGAGACATGCATCGACCTCGA
Found at i:47199535 original size:48 final size:48
Alignment explanation
Indices: 47199323--47199537 Score: 201
Period size: 46 Copynumber: 4.6 Consensus size: 48
47199313 TGATATGTAT
* * * * * *
47199323 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCAC--AACATGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGATAT-ACAA
* * * **
47199369 GCCAGTGTAAGACATGTCTGAGACATGCATCGGCCTCGAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGATATACAA
* *
47199417 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCAT--TG--AGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGATATAC-A-A
*
47199463 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGTGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGATATACAA
* * *
47199511 GCTAGTGTAAGACCTATCTAGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
47199538 GTGTTAGCTT
Statistics
Matches: 138, Mismatches: 22, Indels: 16
0.78 0.12 0.09
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 68 0.49
48 64 0.46
49 1 0.01
50 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGATATACAA
Found at i:47199613 original size:49 final size:49
Alignment explanation
Indices: 47199363--47199682 Score: 179
Period size: 48 Copynumber: 6.7 Consensus size: 49
47199353 CAGCCACAAC
* * * * *
47199363 ATGAGAGCCAGTGTAAGA-CATGTCTGAGACAT-GCATCGGCCTCGAGAT
1 ATGAAAGCCAGTGTAAGACCA-GTCTGGGACATGGCATCGACCTCGATAG
** * * * *
47199411 ATTTAAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTG--AG
1 ATGAAAGCCAGTGTAAGACCA-GTCTGGGACATGGCATCGACCTCGATAG
* * *
47199457 ACGAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCG-T-G
1 ATGAAAGCCAGTGTAAGACCA-GTCTGGGACATGGCATCGACCTCGATAG
* * * ** * * *
47199503 ATATACAAGCTAGTGTAAGACCTA-TCTAGGACATGGTGT-TAGCTTG-TAG
1 AT-GA-AAGCCAGTGTAAGACC-AGTCTGGGACATGGCATCGACCTCGATAG
* *
47199552 -TG--TGTCAGTGTAAGACCAGTCTGGGACATGGCATCGACAC-CGATAG
1 ATGAAAGCCAGTGTAAGACCAGTCTGGGACATGGCATCGAC-CTCGATAG
* * * * *
47199598 ATGAGAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGCTAT
1 ATGAAAGCCAGTGTAAGACCAGTCTGGGACATGGCATCGACCTCGATAG
*
47199647 ATGAAAGCCAGTGTAAGGCCATGTCTGGGACATGGC
1 ATGAAAGCCAGTGTAAGACCA-GTCTGGGACATGGC
47199683 GTCGGCATCT
Statistics
Matches: 213, Mismatches: 43, Indels: 30
0.74 0.15 0.10
Matches are distributed among these distances:
43 1 0.00
44 24 0.11
45 2 0.01
46 44 0.21
47 3 0.01
48 66 0.31
49 58 0.27
50 15 0.07
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (49 bp):
ATGAAAGCCAGTGTAAGACCAGTCTGGGACATGGCATCGACCTCGATAG
Found at i:47199688 original size:50 final size:50
Alignment explanation
Indices: 47199326--47199689 Score: 186
Period size: 46 Copynumber: 7.7 Consensus size: 50
47199316 TATGTATGCT
* * * *
47199326 AGTGTAAGA-CATGTCTAGGACAT-GCATCAGC-CAC-A-ACATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGATAGATGAAAGCC
* * * ** *
47199372 AGTGTAAGA-CATGTCTGAGACAT-GCATCGGC-CTCGAGATATTTAAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGATAGATGAAAGCC
** * * *
47199420 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTG--AGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATAGATGAAAGCC
* * *
47199466 AGTGTAAGA-CATGTCTGGGACAT-GCATCGAC-CTCG-T-GATATACAAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGATAGAT-GA-AAGCC
* * ** ** ** * *
47199514 AGTGTAAGACC-TATCTAGGACATGGTGTTAGC-TTG-TAG-TG--TGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATAGATGAAAGCC
* *
47199558 AGTGTAAGACCA-GTCTGGGACATGGCATCGACACCGATAGATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATAGATGAAAGCC
* *
47199607 AGTGTAAGACC-TGTCTGGGACATGGCATCGGC-CTCGCTATATGAAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGATAGATGAAAGCC
* *
47199656 AGTGTAAGGCCATGTCTGGGACATGGCGTCGGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
47199690 TCTTAACCCA
Statistics
Matches: 245, Mismatches: 53, Indels: 35
0.74 0.16 0.11
Matches are distributed among these distances:
44 25 0.10
45 1 0.00
46 72 0.29
47 4 0.02
48 64 0.26
49 59 0.24
50 20 0.08
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATAGATGAAAGCC
Found at i:47202588 original size:93 final size:93
Alignment explanation
Indices: 47202476--47202647 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
47202466 GCCCATAAGT
* *
47202476 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAAATCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAAATCAA
47202541 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
47202569 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAAATCAA
* *
47202634 CGAGTTCTGATGCC
66 CGAGCTCGGATGCC
47202648 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAAATCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:47202638 original size:46 final size:46
Alignment explanation
Indices: 47202468--47202646 Score: 216
Period size: 46 Copynumber: 3.9 Consensus size: 46
47202458 TGTAACCCGC
** *
47202468 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCGCAT
* * *
47202514 CCATAAGTGAACTCGGACTCAAATCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-CTCGCAT
* *** *
47202560 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGCTCGCAT
* *
47202607 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCTGATGC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC
47202647 CCAAATATCC
Statistics
Matches: 111, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
46 75 0.68
47 36 0.32
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCGCAT
Found at i:47206007 original size:38 final size:38
Alignment explanation
Indices: 47205975--47206134 Score: 196
Period size: 38 Copynumber: 4.2 Consensus size: 38
47205965 GCAGGCTATA
47205975 TGCTGGAATTATATCCGGGTTAAATCTCGCAGGCTTCG
1 TGCTGGAATTATATCCGGGTTAAATCTCGCAGGCTTCG
*
47206013 TGCTGGTAA-TATATCCGGGTTAAATCTCGCAAGCTTCG
1 TGCTGG-AATTATATCCGGGTTAAATCTCGCAGGCTTCG
* * * *
47206051 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTGG
1 TGCTGGAATTATATCCGGGTTAAATCTCGCAGGCTTCG
* * * * *
47206089 TGCTGGTATTATATCTGAGTTTAAAGTCCCGTAGGCTTCG
1 TGCTGGAATTATATCCG-GGTTAAA-TCTCGCAGGCTTCG
47206129 TGCTGG
1 TGCTGG
47206135 TGTTATGTTT
Statistics
Matches: 107, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
37 1 0.01
38 81 0.76
39 8 0.07
40 17 0.16
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.33
Consensus pattern (38 bp):
TGCTGGAATTATATCCGGGTTAAATCTCGCAGGCTTCG
Found at i:47206067 original size:76 final size:78
Alignment explanation
Indices: 47205975--47206140 Score: 219
Period size: 76 Copynumber: 2.2 Consensus size: 78
47205965 GCAGGCTATA
* * *
47205975 TGCTGGAATTATATCCGGGTTAAATCTCGCAGGCTTCGTGCTGGTAATATATCCG-GGTTAAA-T
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTCGTGCTGGTAATATATCCGAGGTTAAAGT
*
47206038 CTCGCAAGCTTCG
66 CCCGCAAGCTTCG
* * * *
47206051 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTGGTGCTGGTATTATATCTGAGTTTAAAGT
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTCGTGCTGGTAATATATCCGAGGTTAAAGT
* *
47206116 CCCGTAGGCTTCG
66 CCCGCAAGCTTCG
*
47206129 TGCTGGTGTTAT
1 TGCTGGTATTAT
47206141 GTTTGGGTTT
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
76 49 0.64
77 6 0.08
78 22 0.29
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.34
Consensus pattern (78 bp):
TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTCGTGCTGGTAATATATCCGAGGTTAAAGT
CCCGCAAGCTTCG
Found at i:47213885 original size:48 final size:47
Alignment explanation
Indices: 47213823--47213990 Score: 205
Period size: 48 Copynumber: 3.6 Consensus size: 47
47213813 TGATATGTGT
* *
47213823 GCTAGTGTAAGACATGTCTGGGACATATATTGGCCTTGAGATATATAA
1 GCTAGTGTAAGACATGTCTGGGACATACATCGGCCTTGAGATATA-AA
* * * *
47213871 GCTAGTGTAAGACATGTCTGGGACATACATCGACATTGAGAT-GAGA
1 GCTAGTGTAAGACATGTCTGGGACATACATCGGCCTTGAGATATAAA
* * *
47213917 GCTAGTGTAAAACATGTCTGGGACATGCATCGGCC-TCACGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATACATCGGCCTTGA-GATATA-AA
*
47213965 GCTAGTGTAAGACTTGTCTGGGACAT
1 GCTAGTGTAAGACATGTCTGGGACAT
47213991 GGCATCAGCT
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
45 2 0.02
46 35 0.34
47 2 0.02
48 63 0.62
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATACATCGGCCTTGAGATATAAA
Found at i:47216727 original size:17 final size:17
Alignment explanation
Indices: 47216705--47216739 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
47216695 GTTATAGATG
47216705 CCTTTATCATGGGAGTA
1 CCTTTATCATGGGAGTA
47216722 CCTTTATCATGGGAGTA
1 CCTTTATCATGGGAGTA
47216739 C
1 C
47216740 AAAATGACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (17 bp):
CCTTTATCATGGGAGTA
Found at i:47221693 original size:69 final size:69
Alignment explanation
Indices: 47221574--47222066 Score: 485
Period size: 69 Copynumber: 7.2 Consensus size: 69
47221564 CAGGATAAAA
* * * *
47221574 AGTTAGTGATAGCAAAGCTCCCAAG-T-T-ATATTAAGGCTCGCAGGATAAAAACTGCAGCCTGT
1 AGTTAGCGAGAGCAAAGCTCCC-AGCTGTCATACTAAGGCTCGCAGGATAAAAACTGCAGCCTCT
47221636 AACAC
65 AACAC
* * * * * * *
47221641 AATTAGCAACAGCAAAGCTCCTAGCTATCATACAAAGGCTCGCAGGATAAAAA-TCGCAGCCTCC
1 AGTTAGCGAGAGCAAAGCTCCCAGCTGTCATACTAAGGCTCGCAGGATAAAAACT-GCAGCCTCT
*
47221705 AACAT
65 AACAC
* * * *
47221710 AGTTAGCGAGAGCAAACCTCCCAGCTATCATACTAAGGCTCGCAGGATAAAAACCGCAGCCTTTA
1 AGTTAGCGAGAGCAAAGCTCCCAGCTGTCATACTAAGGCTCGCAGGATAAAAACTGCAGCCTCTA
47221775 ACAC
66 ACAC
* * * * * * * * *
47221779 AGTTAGTGAGGGTAAAGCTCCTAACTGTCACACTAAGGCTCGCAAGATAAAAACCGCAACCTCTA
1 AGTTAGCGAGAGCAAAGCTCCCAGCTGTCATACTAAGGCTCGCAGGATAAAAACTGCAGCCTCTA
47221844 ACAC
66 ACAC
* * * * * * *
47221848 AATTTA-CGTGAGCAAAGCTCCCAGTTGTCATACTAAGGCTTGTAGGATAAAAACCGTAGCCTCT
1 -AGTTAGCGAGAGCAAAGCTCCCAGCTGTCATACTAAGGCTCGCAGGATAAAAACTGCAGCCTCT
*
47221912 AACAT
65 AACAC
* * * * * *
47221917 AGTTAGCGAGAGCAAAGCTCCCAACTGTCATAGTAAGGCTTGAAGGATAAAAAGT-CTAGCCTCC
1 AGTTAGCGAGAGCAAAGCTCCCAGCTGTCATACTAAGGCTCGCAGGATAAAAACTGC-AGCCTCT
47221981 AACAC
65 AACAC
* * * * * * *
47221986 AGTTAGTGAGAGCAAAGGTCCCACCTGTCATACTAAGGCTTGTAGGATAAAGACTGCAGCCTCCA
1 AGTTAGCGAGAGCAAAGCTCCCAGCTGTCATACTAAGGCTCGCAGGATAAAAACTGCAGCCTCTA
*
47222051 ACAT
66 ACAC
47222055 AGTTAGCGAGAG
1 AGTTAGCGAGAG
47222067 TTAAAAACTT
Statistics
Matches: 351, Mismatches: 66, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
66 2 0.01
67 18 0.05
68 6 0.02
69 320 0.91
70 5 0.01
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (69 bp):
AGTTAGCGAGAGCAAAGCTCCCAGCTGTCATACTAAGGCTCGCAGGATAAAAACTGCAGCCTCTA
ACAC
Found at i:47221966 original size:207 final size:207
Alignment explanation
Indices: 47221574--47222025 Score: 536
Period size: 207 Copynumber: 2.2 Consensus size: 207
47221564 CAGGATAAAA
* * * * * * * *
47221574 AGTTAGTGATAGCAAAGCTCCCAA--GTTATATTAAGGCTCGCAGGATAAAAACTGCAGCCTGTA
1 AGTTAGTGAGAGCAAAGCTCCCAACTGTCACACTAAGGCTCGCAAGATAAAAACCGCAACCTCTA
* *
47221637 ACACAATTAGCAACAGCAAAGCTCCTAGCTATCATACAAAGGCTCGCAGGATAAAAATCGCAGCC
66 ACACAATTAGCAACAGCAAAGCTCCCAGCTATCATACAAAGGCTCGCAGGATAAAAACCGCAGCC
* *
47221702 TCCAACATAGTTAGCGAGAGCAAACCTCCCAGCTATCATACTAAGGCTCGCAGGATAAAAACCG-
131 TCCAACATAGTTAGCGAGAGCAAACCTCCCAACTATCATACTAAGGCTCGAAGGATAAAAA--GT
**
47221766 C-AGCCTTTAACAC
194 CTAGCCTCCAACAC
* * *
47221779 AGTTAGTGAGGGTAAAGCTCCTAACTGTCACACTAAGGCTCGCAAGATAAAAACCGCAACCTCTA
1 AGTTAGTGAGAGCAAAGCTCCCAACTGTCACACTAAGGCTCGCAAGATAAAAACCGCAACCTCTA
*** * * * * * *
47221844 ACACAATTTA-CGTGAGCAAAGCTCCCAGTTGTCATACTAAGGCTTGTAGGATAAAAACCGTAGC
66 ACACAA-TTAGCAACAGCAAAGCTCCCAGCTATCATACAAAGGCTCGCAGGATAAAAACCGCAGC
* * * * *
47221908 CTCTAACATAGTTAGCGAGAGCAAAGCTCCCAACTGTCATAGTAAGGCTTGAAGGATAAAAAGTC
130 CTCCAACATAGTTAGCGAGAGCAAACCTCCCAACTATCATACTAAGGCTCGAAGGATAAAAAGTC
47221973 TAGCCTCCAACAC
195 TAGCCTCCAACAC
* * *
47221986 AGTTAGTGAGAGCAAAGGTCCCACCTGTCATACTAAGGCT
1 AGTTAGTGAGAGCAAAGCTCCCAACTGTCACACTAAGGCT
47222026 TGTAGGATAA
Statistics
Matches: 205, Mismatches: 37, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
205 21 0.10
206 1 0.00
207 180 0.88
208 3 0.01
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (207 bp):
AGTTAGTGAGAGCAAAGCTCCCAACTGTCACACTAAGGCTCGCAAGATAAAAACCGCAACCTCTA
ACACAATTAGCAACAGCAAAGCTCCCAGCTATCATACAAAGGCTCGCAGGATAAAAACCGCAGCC
TCCAACATAGTTAGCGAGAGCAAACCTCCCAACTATCATACTAAGGCTCGAAGGATAAAAAGTCT
AGCCTCCAACAC
Found at i:47227991 original size:29 final size:28
Alignment explanation
Indices: 47227959--47228025 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
47227949 TTCGGGCCAG
*
47227959 ATGGGCCATATGAATGTGATTTGGGCCTA
1 ATGGGCCATATGAATGAGA-TTGGGCCTA
47227988 ATGGGCCATATGAATGAGATTGGGCCTA
1 ATGGGCCATATGAATGAGATTGGGCCTA
*
47228016 GTGGGCCATA
1 ATGGGCCATA
47228026 AGCATGTAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 18 0.50
29 18 0.50
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.27
Consensus pattern (28 bp):
ATGGGCCATATGAATGAGATTGGGCCTA
Found at i:47228020 original size:28 final size:28
Alignment explanation
Indices: 47227947--47228025 Score: 106
Period size: 29 Copynumber: 2.8 Consensus size: 28
47227937 GCTTGGAGTG
*
47227947 GATTCGGGCC-AGATGGGCCATATGAATGT
1 GATT-GGGCCTAG-TGGGCCATATGAATGA
*
47227976 GATTTGGGCCTAATGGGCCATATGAATGA
1 GA-TTGGGCCTAGTGGGCCATATGAATGA
47228005 GATTGGGCCTAGTGGGCCATA
1 GATTGGGCCTAGTGGGCCATA
47228026 AGCATGTAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
28 18 0.40
29 24 0.53
30 3 0.07
ACGTcount: A:0.24, C:0.16, G:0.34, T:0.25
Consensus pattern (28 bp):
GATTGGGCCTAGTGGGCCATATGAATGA
Found at i:47231182 original size:31 final size:31
Alignment explanation
Indices: 47231128--47231212 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
47231118 TGGGTGTGTG
* *
47231128 GGCCACACGGGCGTGTGGACCCACATAGGCA
1 GGCCACACGGGCGTGTGGGCCCACACAGGCA
* * *
47231159 GGCTACACGAGCGTATGGGCCCACACAGGCA
1 GGCCACACGGGCGTGTGGGCCCACACAGGCA
*
47231190 GGCCACACGGGCATGTGGGCCCA
1 GGCCACACGGGCGTGTGGGCCCA
47231213 TTATACAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.22, C:0.33, G:0.35, T:0.09
Consensus pattern (31 bp):
GGCCACACGGGCGTGTGGGCCCACACAGGCA
Found at i:47233836 original size:27 final size:26
Alignment explanation
Indices: 47233796--47233900 Score: 104
Period size: 27 Copynumber: 3.9 Consensus size: 26
47233786 GGAAGTGTCC
**
47233796 TGGTGGCTAAGCCACAATTATCTGATT
1 TGGTGGCTCTGCCAC-ATTATCTGATT
47233823 TGGTGGCTCTGCCACATATATCTG-TT
1 TGGTGGCTCTGCCACAT-TATCTGATT
* *
47233849 CTGGTGGCTCTGCCACGATTATTTGTATC
1 -TGGTGGCTCTGCCAC-ATTATCTG-ATT
* *
47233878 TGGTGACTCTGTCACATTATCTG
1 TGGTGGCTCTGCCACATTATCTG
47233901 TTCTGGTAGC
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
26 4 0.06
27 46 0.70
28 15 0.23
29 1 0.02
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGATT
Found at i:47233899 original size:54 final size:54
Alignment explanation
Indices: 47233795--47233907 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
47233785 AGGAAGTGTC
* *
47233795 CTGGTGGCTAAGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTAAGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
** * * *
47233849 CTGGTGGCTCTGCCACGATTATTTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTAAGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
47233903 CTGGT
1 CTGGT
47233908 AGCCATGCTG
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTAAGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:47234906 original size:17 final size:17
Alignment explanation
Indices: 47234864--47234906 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
47234854 GTGGAATGGG
* *
47234864 TTTACAAAAACAAATAT
1 TTTATAAAAACAAAAAT
*
47234881 TTT-TGAAAACAAAAAT
1 TTTATAAAAACAAAAAT
47234897 TTTATAAAAA
1 TTTATAAAAA
47234907 TTGAAAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (17 bp):
TTTATAAAAACAAAAAT
Found at i:47241442 original size:46 final size:46
Alignment explanation
Indices: 47241369--47241546 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
47241359 TGTAACCCAC
* *
47241369 CCATAAGTGAACTCGGACTCAAATCAACGAGCTCGGGTGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCACAT
* * **
47241415 CCATGAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-CCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTC-ACAT
* *** * * ** **
47241461 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTTGGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGTTCACAT
*
47241508 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
47241547 CCCAAATATC
Statistics
Matches: 103, Mismatches: 26, Indels: 6
0.76 0.19 0.04
Matches are distributed among these distances:
45 1 0.01
46 70 0.68
47 32 0.31
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCACAT
Found at i:47243222 original size:37 final size:34
Alignment explanation
Indices: 47243172--47243243 Score: 81
Period size: 37 Copynumber: 2.0 Consensus size: 34
47243162 AGTTGTGCCA
* *
47243172 TTTTTCTGACCATCTTTCCTCCTCCTCCTTTCTTTTC
1 TTTTTCTCACCATC-TACCTCCTCCT-C-TTCTTTTC
* *
47243209 TTTTTCTCTCCATCTACCTTCTCCTCTTCTTTTC
1 TTTTTCTCACCATCTACCTCCTCCTCTTCTTTTC
47243243 T
1 T
47243244 CCATAGCCGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
34 9 0.29
35 1 0.03
36 9 0.29
37 12 0.39
ACGTcount: A:0.06, C:0.38, G:0.01, T:0.56
Consensus pattern (34 bp):
TTTTTCTCACCATCTACCTCCTCCTCTTCTTTTC
Found at i:47244464 original size:27 final size:26
Alignment explanation
Indices: 47244424--47244535 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
47244414 AGGAAGCGTC
*
47244424 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
47244451 CTGGTGGCTCTGCCACATATATCT-ATT
1 CTGGTGGCTCTGCCACAT-TATCTGA-T
*
47244478 CTGGTGGCTCTACCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
47244506 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
47244532 CTGG
1 CTGG
47244536 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
26 8 0.11
27 49 0.66
28 16 0.22
29 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:47244528 original size:54 final size:54
Alignment explanation
Indices: 47244424--47244535 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
47244414 AGGAAGCGTC
* *
47244424 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTATACCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
* * * *
47244478 CTGGTGGCTCTACCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATACCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTATT
47244532 CTGG
1 CTGG
47244536 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATACCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
Found at i:47249916 original size:14 final size:14
Alignment explanation
Indices: 47249897--47249924 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
47249887 TTCGAATGTC
47249897 CACATGGCTTATGA
1 CACATGGCTTATGA
47249911 CACATGGCTTATGA
1 CACATGGCTTATGA
47249925 TTTGAGATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (14 bp):
CACATGGCTTATGA
Found at i:47253327 original size:17 final size:18
Alignment explanation
Indices: 47253305--47253340 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
47253295 CACATTGAAG
47253305 TGTTTT-AGTGAAAACCT
1 TGTTTTCAGTGAAAACCT
*
47253322 TGTTTTCATTGAAAACCT
1 TGTTTTCAGTGAAAACCT
47253340 T
1 T
47253341 CTTTAAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCT
Found at i:47254597 original size:28 final size:28
Alignment explanation
Indices: 47254562--47254634 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 28
47254552 GCTTATGACT
* *
47254562 CACTAGGCCCAATCTCAT-TCGTATGGCC
1 CACTAGGCCCAATCACATCT-ATATGGCC
*
47254590 CATTAGGCCCAAATCACATCTATATGGCC
1 CACTAGGCCC-AATCACATCTATATGGCC
47254619 CACTAGGCCCAATCAC
1 CACTAGGCCCAATCAC
47254635 TTTTACAGTC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 15 0.38
29 23 0.59
30 1 0.03
ACGTcount: A:0.27, C:0.36, G:0.15, T:0.22
Consensus pattern (28 bp):
CACTAGGCCCAATCACATCTATATGGCC
Found at i:47254878 original size:16 final size:16
Alignment explanation
Indices: 47254854--47254889 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
47254844 GTAGCCAAAC
*
47254854 TTTCGGCTTTTTGGCA
1 TTTCAGCTTTTTGGCA
47254870 TTTCAGCTTTTTGGCA
1 TTTCAGCTTTTTGGCA
47254886 TTTC
1 TTTC
47254890 GACTTTTCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.08, C:0.19, G:0.19, T:0.53
Consensus pattern (16 bp):
TTTCAGCTTTTTGGCA
Found at i:47254904 original size:16 final size:16
Alignment explanation
Indices: 47254854--47254896 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
47254844 GTAGCCAAAC
*
47254854 TTTCGGCTTTTTGGCA
1 TTTCGACTTTTTGGCA
47254870 TTTC-AGCTTTTTGGCA
1 TTTCGA-CTTTTTGGCA
47254886 TTTCGACTTTT
1 TTTCGACTTTT
47254897 CGGGATTTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 23 0.96
17 1 0.04
ACGTcount: A:0.09, C:0.19, G:0.19, T:0.53
Consensus pattern (16 bp):
TTTCGACTTTTTGGCA
Found at i:47278605 original size:43 final size:44
Alignment explanation
Indices: 47278421--47278669 Score: 186
Period size: 43 Copynumber: 5.5 Consensus size: 44
47278411 TACCCAAAAA
* ** * * * * *
47278421 CTCGCACACTTAGTGCCAA-ATAAATAGCTGAAGTTTTATCAAT
1 CTCGCACACTTAGTGCCAATGTATTTAGCCGAAGCTATCTCAGT
* * *
47278464 CTCGCAC-CATAAGTGCCAATATGTATATATAGCCGGAGCTATCTCAAT
1 CTCGCACAC-TTAGTGCC-A-ATGTAT-T-TAGCCGAAGCTATCTCAGT
* * * *
47278512 CACGCACAC-TATGTGCCAATATATGTATATAGCCGAAGTTATCT-AAT
1 CTCGCACACTTA-GTGCC---A-ATGTATTTAGCCGAAGCTATCTCAGT
**
47278559 CTCGCACACTTAGTGCCAATGTATTTAGTCC-AAGCTAT-TTGGT
1 CTCGCACACTTAGTGCCAATGTATTTAG-CCGAAGCTATCTCAGT
* *
47278602 CTCGTACACTTAGTGCCAATATATTTAGCCGAAGCTATCTCAGT
1 CTCGCACACTTAGTGCCAATGTATTTAGCCGAAGCTATCTCAGT
47278646 CTCGCACACTTAGTGCCAATGTAT
1 CTCGCACACTTAGTGCCAATGTAT
47278670 AATATATATA
Statistics
Matches: 165, Mismatches: 26, Indels: 29
0.75 0.12 0.13
Matches are distributed among these distances:
42 4 0.02
43 63 0.38
44 29 0.18
45 1 0.01
46 2 0.01
47 17 0.10
48 40 0.24
49 1 0.01
50 8 0.05
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (44 bp):
CTCGCACACTTAGTGCCAATGTATTTAGCCGAAGCTATCTCAGT
Found at i:47297820 original size:105 final size:105
Alignment explanation
Indices: 47297638--47297842 Score: 383
Period size: 105 Copynumber: 2.0 Consensus size: 105
47297628 GGGCACACGA
47297638 CCAAGGCAAATGCCCATGCCTCCGGGCCGTGTCCCTCACACAGTTGAGACACATGGCTATGTCAT
1 CCAAGGCAAATGCCCATGCCTCCGGGCCGTGTCCCTCACACAGTTGAGACACATGGCTATGTCAT
47297703 AGCCCGTGTGGCCAATTCGAAACTAAAGTACATGACACAG
66 AGCCCGTGTGGCCAATTCGAAACTAAAGTACATGACACAG
** *
47297743 CCAAGGCAAATGCCTGTGCCTCCGGGCCGTGTCCCTCACACAGTTGAGACACATGGCTGTGTCAT
1 CCAAGGCAAATGCCCATGCCTCCGGGCCGTGTCCCTCACACAGTTGAGACACATGGCTATGTCAT
47297808 AGCCCGTGTGGCCAATTCGAAACTAAAGTACATGA
66 AGCCCGTGTGGCCAATTCGAAACTAAAGTACATGA
47297843 TGCAGGGGAC
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 97 1.00
ACGTcount: A:0.26, C:0.30, G:0.24, T:0.20
Consensus pattern (105 bp):
CCAAGGCAAATGCCCATGCCTCCGGGCCGTGTCCCTCACACAGTTGAGACACATGGCTATGTCAT
AGCCCGTGTGGCCAATTCGAAACTAAAGTACATGACACAG
Found at i:47303369 original size:43 final size:43
Alignment explanation
Indices: 47303321--47303416 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 43
47303311 TCCTAGATAT
** * *
47303321 GGTCTTACATGTTATCAC-ATATCGATGCCACTGTCCCACACAG
1 GGTCTTACATGAAATCACAATA-CAATGCCAATGTCCCACACAG
* * * *
47303364 GGTCTTACACGAAATCACAATACAATGCCAATGTCCTAGACAT
1 GGTCTTACATGAAATCACAATACAATGCCAATGTCCCACACAG
47303407 GGTCTTACAT
1 GGTCTTACAT
47303417 TGACTCTCTT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
43 40 0.93
44 3 0.07
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (43 bp):
GGTCTTACATGAAATCACAATACAATGCCAATGTCCCACACAG
Found at i:47304989 original size:30 final size:31
Alignment explanation
Indices: 47304931--47304992 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
47304921 CTTTTCACAC
47304931 TTCATATTTCATAACACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
** *
47304962 TTCATATTTCATATTACT-GGTCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
47304992 T
1 T
47304993 ACTGTAAACG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 12 0.43
31 16 0.57
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.39
Consensus pattern (31 bp):
TTCATATTTCATAACACTGGGCCGAAGCCTT
Found at i:47305228 original size:25 final size:24
Alignment explanation
Indices: 47305186--47305308 Score: 167
Period size: 25 Copynumber: 5.0 Consensus size: 24
47305176 GCTTTATCAT
*
47305186 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
47305211 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
47305235 ATAACTGAGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
*
47305260 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
47305285 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
47305309 CACTTCCTCC
Statistics
Matches: 91, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
24 32 0.35
25 59 0.65
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:47305239 original size:49 final size:50
Alignment explanation
Indices: 47305177--47305308 Score: 173
Period size: 49 Copynumber: 2.6 Consensus size: 50
47305167 AGCATAGCTG
*
47305177 CTTTATCATATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCATAAGCC
1 CTTTAT-A-ATAACTGGAGGCATAAGCC-CTTTTAATAACTGGGGCATAAGCC
*
47305229 CTTT-TAATAACT-GAGGCATAAGCCCTTTATCATAACTGGGGCATAAGCC
1 CTTTATAATAACTGGAGGCATAAGCCCTTT-TAATAACTGGGGCATAAGCC
*
47305278 CTTTATCATAACTGG-GGCATAAGCCCTTTTA
1 CTTTATAATAACTGGAGGCATAAGCCCTTTTA
47305309 CACTTCCTCC
Statistics
Matches: 72, Mismatches: 4, Indels: 11
0.83 0.05 0.13
Matches are distributed among these distances:
48 10 0.14
49 34 0.47
50 22 0.31
51 2 0.03
52 4 0.06
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (50 bp):
CTTTATAATAACTGGAGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
Found at i:47305382 original size:20 final size:20
Alignment explanation
Indices: 47305357--47305423 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
47305347 TTATGAATAC
47305357 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
47305377 ATCATGTGCATAGCATACAT
1 ATCATGTGCATATCATACAT
*
47305397 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
47305417 ACCATGT
1 ATCATGT
47305424 TTACTAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:47312014 original size:75 final size:77
Alignment explanation
Indices: 47311835--47312052 Score: 246
Period size: 75 Copynumber: 2.8 Consensus size: 77
47311825 TTGAATGTTG
* * * * * * *
47311835 TCCGGGCTAAGTCCCGAAAGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGATCCGAAGACAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAATCCGGGCTAAG-CCCGAAGGCA-
*
47311898 TTGTGTGAGATACTAAT
61 TTGTGCGAGATACTAAT
*
47311915 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCGAAGGCATTGTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTGTG
47311979 CGAGATACTAAT
66 CGAGATACTAAT
* * *
47311991 TCC-GGCTAAGCCCGAAGGCATTTGTGTGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATT
47312053 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 12, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
75 42 0.34
76 19 0.16
77 19 0.16
79 21 0.17
80 20 0.16
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (77 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTGTG
CGAGATACTAAT
Found at i:47312054 original size:40 final size:39
Alignment explanation
Indices: 47311888--47312054 Score: 250
Period size: 39 Copynumber: 4.3 Consensus size: 39
47311878 GGACTAAGAT
*
47311888 CCGAAGACATTTGTGTGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
*
47311927 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-
1 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
*
47311965 CCGAAGGCA-TTGTGCGAGATACTAATTCC-GGCTAAGC
1 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
* * *
47312002 CCGAAGGCATTTGTGTGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAG-C
47312042 CCGAAGGCATTTG
1 CCGAAGGCATTTG
47312055 AACGAGGAGC
Statistics
Matches: 118, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
36 7 0.06
37 29 0.25
38 26 0.22
39 42 0.36
40 14 0.12
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGC
Found at i:47319244 original size:39 final size:40
Alignment explanation
Indices: 47319143--47319365 Score: 298
Period size: 39 Copynumber: 5.7 Consensus size: 40
47319133 TTGAATGTTG
* *
47319143 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
47319182 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
47319223 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
47319262 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
47319301 TCCAGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
47319340 TCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
47319366 AACGAGGAGC
Statistics
Matches: 168, Mismatches: 9, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
39 111 0.66
40 44 0.26
41 12 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:47319398 original size:39 final size:40
Alignment explanation
Indices: 47319196--47319398 Score: 116
Period size: 39 Copynumber: 5.2 Consensus size: 40
47319186 GGACTAAGAT
** * * *
47319196 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCT-AAGC
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAATC
** * * *
47319235 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCT-AAGC
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAATC
** * * * *
47319274 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCAGGCT-AAGC
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAATC
** * *
47319313 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATC
* *
47319353 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATT
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATC
47319392 CCGAAGG
1 CCGAAGG
47319399 TACGTGATTT
Statistics
Matches: 149, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
38 1 0.01
39 122 0.82
40 26 0.17
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATC
Found at i:47329942 original size:13 final size:12
Alignment explanation
Indices: 47329915--47329956 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
47329905 ACAAAACCAA
47329915 TTTTTTCAAACT
1 TTTTTTCAAACT
*
47329927 TTTTTTCGAACT
1 TTTTTTCAAACT
* *
47329939 TTTTTTAAAAAT
1 TTTTTTCAAACT
47329951 TTTTTT
1 TTTTTT
47329957 AACTTACTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.64
Consensus pattern (12 bp):
TTTTTTCAAACT
Found at i:47331446 original size:30 final size:30
Alignment explanation
Indices: 47331412--47331470 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
47331402 TATGAGCCTT
*
47331412 GGGGCAAAAGTGTAAATATGTAAAAGTTTA
1 GGGGCAAAAATGTAAATATGTAAAAGTTTA
* * *
47331442 GGGGCAAAAATGTAATTTTGTCAAAGTTT
1 GGGGCAAAAATGTAAATATGTAAAAGTTT
47331471 GAGTCAAGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAAATATGTAAAAGTTTA
Found at i:47344998 original size:55 final size:55
Alignment explanation
Indices: 47344923--47345033 Score: 195
Period size: 55 Copynumber: 2.0 Consensus size: 55
47344913 GTCAGGCTCA
*
47344923 AGCAAGGCCAAGGCACACGGACGTGTCTTGTGGCCGTGTGATCAAGTCAGTATGT
1 AGCAAGGCCAAGGCAAACGGACGTGTCTTGTGGCCGTGTGATCAAGTCAGTATGT
* *
47344978 AGCACGGCCAAGGCAAACGGACGTGTCTTGTGGCCTTGTGATCAAGTCAGTATGT
1 AGCAAGGCCAAGGCAAACGGACGTGTCTTGTGGCCGTGTGATCAAGTCAGTATGT
47345033 A
1 A
47345034 TGCCCTATTT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.23
Consensus pattern (55 bp):
AGCAAGGCCAAGGCAAACGGACGTGTCTTGTGGCCGTGTGATCAAGTCAGTATGT
Found at i:47349148 original size:42 final size:43
Alignment explanation
Indices: 47349042--47349150 Score: 112
Period size: 43 Copynumber: 2.6 Consensus size: 43
47349032 TAAATACAAT
* * * * *
47349042 GCCAACATCCCAGACGTGGTCTTCCATGTAATCAAACATCGAT
1 GCCAATATCCCAGACATGGTCTTACATGAAATCAAACATCGAA
* * * * *
47349085 GCCATTGTCCCAGACAAGGTCTTACATGAAATCATATA-CGAA
1 GCCAATATCCCAGACATGGTCTTACATGAAATCAAACATCGAA
*
47349127 GCCAATATCCCAGATATGGTCTTA
1 GCCAATATCCCAGACATGGTCTTA
47349151 TACGTAAAAC
Statistics
Matches: 52, Mismatches: 14, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
42 23 0.44
43 29 0.56
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
GCCAATATCCCAGACATGGTCTTACATGAAATCAAACATCGAA
Found at i:47353399 original size:21 final size:21
Alignment explanation
Indices: 47353375--47353414 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
47353365 CATATGCAAG
*
47353375 GAAGCTTCCTAGAAATTTCTT
1 GAAGATTCCTAGAAATTTCTT
* *
47353396 GAAGATTTCTAGAATTTTC
1 GAAGATTCCTAGAAATTTC
47353415 AGCTCATTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (21 bp):
GAAGATTCCTAGAAATTTCTT
Found at i:47354749 original size:41 final size:43
Alignment explanation
Indices: 47354650--47354795 Score: 199
Period size: 43 Copynumber: 3.4 Consensus size: 43
47354640 TGTGTTCTCA
**
47354650 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
1 TGTAAGACCACGTCTGGGACAATGGCATCGATATGTGATTACG
* * * *
47354693 TGTAAGACCATGTCTGGGACAACGGCATCG-TATTTGATT-TG
1 TGTAAGACCACGTCTGGGACAATGGCATCGATATGTGATTACG
*
47354734 TGTAAGACC-CTGTCTGGGACAATGGCATCGATATGTGATTACA
1 TGTAAGACCAC-GTCTGGGACAATGGCATCGATATGTGATTACG
47354777 TGTAAGACCACGTCTGGGA
1 TGTAAGACCACGTCTGGGA
47354796 TGTTGGCATT
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
41 28 0.32
42 16 0.18
43 43 0.49
44 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACAATGGCATCGATATGTGATTACG
Found at i:47358397 original size:17 final size:17
Alignment explanation
Indices: 47358375--47358409 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
47358365 CTCAGGCTGA
*
47358375 ATCAGAACTGATGCTTC
1 ATCAGAACCGATGCTTC
47358392 ATCAGAACCGATGCTTC
1 ATCAGAACCGATGCTTC
47358409 A
1 A
47358410 GTTAACAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (17 bp):
ATCAGAACCGATGCTTC
Done.