Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 186 of 362
Found at i:61778601 original size:22 final size:22
Alignment explanation
Indices: 61778576--61778628 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
61778566 CTTATATATT
61778576 TTTTTATTTATTCTTATTTTTA
1 TTTTTATTTATTCTTATTTTTA
* *
61778598 -TTTTATTTTATTTTTATTTTTG
1 TTTTTA-TTTATTCTTATTTTTA
*
61778620 TTTTGATTT
1 TTTTTATTT
61778629 TTATTTTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 5 0.19
22 17 0.65
23 4 0.15
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.79
Consensus pattern (22 bp):
TTTTTATTTATTCTTATTTTTA
Found at i:61778603 original size:5 final size:5
Alignment explanation
Indices: 61778577--61778660 Score: 57
Period size: 5 Copynumber: 15.8 Consensus size: 5
61778567 TTATATATTT
*
61778577 TTTTA -TTTA TTCTTA TTTTTA TTTTA TTTTA TTTTTA TTTTTG TTTTGA
1 TTTTA TTTTA TT-TTA -TTTTA TTTTA TTTTA -TTTTA -TTTTA TTTT-A
*
61778626 TTTTTA TTTTCA TTTCAA TTTTA --TTA TTTTA TTTT
1 -TTTTA TTTT-A TTT-TA TTTTA TTTTA TTTTA TTTT
61778661 GAAAGACATA
Statistics
Matches: 65, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
3 3 0.05
4 4 0.06
5 27 0.42
6 25 0.38
7 6 0.09
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:61782126 original size:45 final size:45
Alignment explanation
Indices: 61782062--61782177 Score: 151
Period size: 45 Copynumber: 2.6 Consensus size: 45
61782052 AAGATATCTG
* *
61782062 AACTCATTGAGTTGGTCTGGGTTCGTGATATATATGAGGCATCCA
1 AACTCATTGAGTTGGTCTGGGTTCATGATATATATGAGACATCCA
* * *
61782107 AACTCATTGAGTTGGTCTGGGTTCATGATATGTATGTGACATCCG
1 AACTCATTGAGTTGGTCTGGGTTCATGATATATATGAGACATCCA
* * * *
61782152 AGCTCGTTGAGTTGGTCCGAGTTCAT
1 AACTCATTGAGTTGGTCTGGGTTCAT
61782178 AATGGATGTG
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (45 bp):
AACTCATTGAGTTGGTCTGGGTTCATGATATATATGAGACATCCA
Found at i:61786685 original size:92 final size:94
Alignment explanation
Indices: 61786542--61786711 Score: 224
Period size: 92 Copynumber: 1.8 Consensus size: 94
61786532 ATATCTGTGT
* * *
61786542 CGATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCGTAGCCGATG-CATGTCCCAGACA
1 CGATGCCAAGTCCCAAACATGGTCTTACACTAACACATCTCATAGCCGATGCCATGTCCCAGACA
61786606 TG-TCTTACACTGGCTTACGTCTTGAGCC
66 TGATCTTACACTGGCTTACGTCTTGAGCC
* * *
61786634 CGATG-CAAGTCCCAAACAT-GTCTTACACTAGCACTCATCTCA-ATGCTGATGCCATGTCCCAT
1 CGATGCCAAGTCCCAAACATGGTCTTACACTA--ACACATCTCATA-GCCGATGCCATGTCCCAG
61786696 ACATGATCTTACACTG
63 ACATGATCTTACACTG
61786712 TCTCTCATAA
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
90 11 0.16
91 13 0.19
92 19 0.28
93 14 0.21
94 10 0.15
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.26
Consensus pattern (94 bp):
CGATGCCAAGTCCCAAACATGGTCTTACACTAACACATCTCATAGCCGATGCCATGTCCCAGACA
TGATCTTACACTGGCTTACGTCTTGAGCC
Found at i:61786733 original size:94 final size:92
Alignment explanation
Indices: 61786489--61786764 Score: 258
Period size: 94 Copynumber: 2.9 Consensus size: 92
61786479 TGGGGTCAGG
* * *
61786489 TGCTGATGCCATGTCCCAGACATGGTCTTACACAAGT-TCTAACATATCTGTGTCGATGCCATGT
1 TGCTGATGCCATGTCCCAGACAT-GTCTTACAC-TGTCTCT-ACATA-ATGTGCCGATG-CATGT
*
61786553 CCCAGACATGGTCTTACACTA--ACACATCTCG
61 CCCAGACAT-GTCTTACACTAGCACACATCTCA
* * * ** * *
61786584 TAGCCGATG-CATGTCCCAGACATGTCTTACACTGGCT-TACGTCTTGAGCCCGATGCAAGTCCC
1 T-GCTGATGCCATGTCCCAGACATGTCTTACACTGTCTCTACATAATGTG-CCGATGCATGTCCC
* *
61786647 AAACATGTCTTACACTAGCACTCATCTCAA
64 AGACATGTCTTACACTAGCACACATCTC-A
* *
61786677 TGCTGATGCCATGTCCCATACATGATCTTACACTGTCTCT-CATAATGTGGCTGATGCATGTCCC
1 TGCTGATGCCATGTCCCAGACATG-TCTTACACTGTCTCTACATAATGT-GCCGATGCATGTCCC
* *
61786741 GGACATGTCTTACACTAGCTCACA
64 AGACATGTCTTACACTAGCACACA
61786765 CAATGACCCA
Statistics
Matches: 146, Mismatches: 25, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
90 11 0.08
91 15 0.10
92 22 0.15
93 17 0.12
94 58 0.40
95 17 0.12
96 6 0.04
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (92 bp):
TGCTGATGCCATGTCCCAGACATGTCTTACACTGTCTCTACATAATGTGCCGATGCATGTCCCAG
ACATGTCTTACACTAGCACACATCTCA
Found at i:61792303 original size:24 final size:24
Alignment explanation
Indices: 61792271--61792320 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
61792261 TTTTTAAGAC
*
61792271 AAGTTAAATTACAAAATAGATTGA
1 AAGTTAAATTACAAAATAGAATGA
61792295 AAGTTAAATTACAAAATAGAATGA
1 AAGTTAAATTACAAAATAGAATGA
61792319 AA
1 AA
61792321 CATAGCTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.58, C:0.04, G:0.12, T:0.26
Consensus pattern (24 bp):
AAGTTAAATTACAAAATAGAATGA
Found at i:61793874 original size:18 final size:18
Alignment explanation
Indices: 61793851--61793909 Score: 109
Period size: 18 Copynumber: 3.3 Consensus size: 18
61793841 TTCTTGGCCG
61793851 TGTGTGATTTCGAAAGCC
1 TGTGTGATTTCGAAAGCC
61793869 TGTGTGATTTCGAAAGCC
1 TGTGTGATTTCGAAAGCC
*
61793887 TGTGTGATTTCAAAAGCC
1 TGTGTGATTTCGAAAGCC
61793905 TGTGT
1 TGTGT
61793910 TCCATGAGTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.36
Consensus pattern (18 bp):
TGTGTGATTTCGAAAGCC
Found at i:61808026 original size:44 final size:45
Alignment explanation
Indices: 61807976--61808171 Score: 145
Period size: 43 Copynumber: 4.5 Consensus size: 45
61807966 AGCCCCATCT
* *
61807976 CCCTAAGCAGTAGGGTAACAG-GCTAAATTTACAAGATCTTAACC
1 CCCTAAGCAGTAGGGAAACAGAGCGAAATTTACAAGATCTTAACC
* * * * * * *
61808020 CCCTAAGCAGTAGGGAAACAGATCGAAA-GT-GATGAGCCTAAAC
1 CCCTAAGCAGTAGGGAAACAGAGCGAAATTTACAAGATCTTAACC
* * * *
61808063 CCCTAAGCAGTAGGGAAACAGATCGAAAGTAACAAGCT-TTAA-C
1 CCCTAAGCAGTAGGGAAACAGAGCGAAATTTACAAGATCTTAACC
* * * * * *
61808106 CCCTAAGCAGTAAGGTAACA-AGCTTAATTTTA-AAGATCTTATCA
1 CCCTAAGCAGTAGGGAAACAGAGC-GAAATTTACAAGATCTTAACC
* *
61808150 CCCTAAGCAGTAGAGAAGCAGA
1 CCCTAAGCAGTAGGGAAACAGA
61808172 TCAAAAGACG
Statistics
Matches: 115, Mismatches: 30, Indels: 13
0.73 0.19 0.08
Matches are distributed among these distances:
42 6 0.05
43 62 0.54
44 40 0.35
45 7 0.06
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.19
Consensus pattern (45 bp):
CCCTAAGCAGTAGGGAAACAGAGCGAAATTTACAAGATCTTAACC
Found at i:61808078 original size:43 final size:43
Alignment explanation
Indices: 61808019--61808117 Score: 153
Period size: 43 Copynumber: 2.3 Consensus size: 43
61808009 AGATCTTAAC
* **
61808019 CCCCTAAGCAGTAGGGAAACAGATCGAAAGTGATGAGCCTAAA
1 CCCCTAAGCAGTAGGGAAACAGATCGAAAGTAACAAGCCTAAA
* *
61808062 CCCCTAAGCAGTAGGGAAACAGATCGAAAGTAACAAGCTTTAA
1 CCCCTAAGCAGTAGGGAAACAGATCGAAAGTAACAAGCCTAAA
61808105 CCCCTAAGCAGTA
1 CCCCTAAGCAGTA
61808118 AGGTAACAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.15
Consensus pattern (43 bp):
CCCCTAAGCAGTAGGGAAACAGATCGAAAGTAACAAGCCTAAA
Found at i:61808320 original size:179 final size:179
Alignment explanation
Indices: 61808106--61808477 Score: 654
Period size: 179 Copynumber: 2.1 Consensus size: 179
61808096 AAGCTTTAAC
* *
61808106 CCCTAAGCAGTAAGGTAACAAGCTTAATTTTAAAGATCTTATCACCCTAAGCAGTAGAGAAGCAG
1 CCCTAAGCAGTAGGGTAACAAGCTGAATTTTAAAGATCTTATCACCCTAAGCAGTAGAGAAGCAG
*
61808171 ATCAAAAGACGGTGAATCTTGCCCTCCTGAAGTTGCAGTGAAGCAGATTCAAACCACCAGGCCTT
66 ATCAAAAGACGGTGAATCTTGCCCTCCTGAAGTTACAGTGAAGCAGATTCAAACCACCAGGCCTT
61808236 AACCCCCTAAGCAGTAGGGAAACAGGCTAAAGATCTACAGATCTTATCA
131 AACCCCCTAAGCAGTAGGGAAACAGGCTAAAGATCTACAGATCTTATCA
* *
61808285 CCCTACGCAGTAGGGTAACAAGCTGAATTTTAAAGATCTTATCACCCTAAGCAGTAGGGAAGCAG
1 CCCTAAGCAGTAGGGTAACAAGCTGAATTTTAAAGATCTTATCACCCTAAGCAGTAGAGAAGCAG
* * *
61808350 ATCAAAAGATGGTGAATCTTGCCCTCCTGAAGTTACAGTTAAGCATATTCAAACCACCAGGCCTT
66 ATCAAAAGACGGTGAATCTTGCCCTCCTGAAGTTACAGTGAAGCAGATTCAAACCACCAGGCCTT
*
61808415 AACCCCCTAAGCAGTAGGGAAACAGGCTGAAGATCTACAGATCTTATCA
131 AACCCCCTAAGCAGTAGGGAAACAGGCTAAAGATCTACAGATCTTATCA
*
61808464 CCCTAAGTAGTAGG
1 CCCTAAGCAGTAGG
61808478 ATAATAGGTT
Statistics
Matches: 182, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
179 182 1.00
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (179 bp):
CCCTAAGCAGTAGGGTAACAAGCTGAATTTTAAAGATCTTATCACCCTAAGCAGTAGAGAAGCAG
ATCAAAAGACGGTGAATCTTGCCCTCCTGAAGTTACAGTGAAGCAGATTCAAACCACCAGGCCTT
AACCCCCTAAGCAGTAGGGAAACAGGCTAAAGATCTACAGATCTTATCA
Found at i:61808511 original size:43 final size:44
Alignment explanation
Indices: 61808412--61808527 Score: 119
Period size: 43 Copynumber: 2.6 Consensus size: 44
61808402 ACCACCAGGC
* *
61808412 CTTAACCCCCTAAGCAGTAGGGAAACAGGCTGAAGATCTACAGAT
1 CTTAACCCCCTAAGAAGTA-GGAAACAGGCTGAAGATCCACAGAT
* * * * * *
61808457 CTTATCACCCTAAGTAGTAGGATAATAGGTTG-A-ATCCATAGAT
1 CTTAACCCCCTAAGAAGTAGGA-AACAGGCTGAAGATCCACAGAT
61808500 CTTAACCCCCTAAGAAGTAGGGAAACAG
1 CTTAACCCCCTAAGAAGTA-GGAAACAG
61808528 ATCAAAGGTG
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
43 28 0.48
44 7 0.12
45 23 0.40
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (44 bp):
CTTAACCCCCTAAGAAGTAGGAAACAGGCTGAAGATCCACAGAT
Found at i:61808653 original size:44 final size:44
Alignment explanation
Indices: 61808603--61808748 Score: 125
Period size: 44 Copynumber: 3.3 Consensus size: 44
61808593 TCGCCCTATA
61808603 CAGTAGGGAAACAGATCAAAGACGATGAGCCTTAAACCCCTAAG
1 CAGTAGGGAAACAGATCAAAGACGATGAGCCTTAAACCCCTAAG
* * * * ** * * *
61808647 CAGTAGGGTAATAGGCTGAATTTACAAT-A-TCTTAACCCCCTAAG
1 CAGTAGGGAAACA-GATCAA-AGACGATGAGCCTTAAACCCCTAAG
** * *
61808691 CAGTAGGGAAACAGATCAAAGGTGATGGGCCTTAAACCCCTATG
1 CAGTAGGGAAACAGATCAAAGACGATGAGCCTTAAACCCCTAAG
* *
61808735 TAGTAGGGTAACAG
1 CAGTAGGGAAACAG
61808749 GCTGAAAATT
Statistics
Matches: 74, Mismatches: 24, Indels: 8
0.70 0.23 0.08
Matches are distributed among these distances:
42 2 0.03
43 4 0.05
44 59 0.80
45 5 0.07
46 4 0.05
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (44 bp):
CAGTAGGGAAACAGATCAAAGACGATGAGCCTTAAACCCCTAAG
Found at i:61808776 original size:88 final size:88
Alignment explanation
Indices: 61808505--61808777 Score: 293
Period size: 88 Copynumber: 3.1 Consensus size: 88
61808495 TAGATCTTAA
* ** *
61808505 CCCCCTAAGAAGTAGGGAAACAGATCAAAGGTGACAAGCCTTAACCCCCTAAGTAGTAGGGTAAC
1 CCCCCTAAGCAGTAGGGAAACAGATCAAAGGTGATGAGCCTTAAACCCCTAAGTAGTAGGGTAAC
* * * **
61808570 AGGCTGAAGATT-TGTAGATCTCAT
66 AGGCTGAAAATTACG-A-ATATTTT
* ** *
61808594 CGCCCTATA-CAGTAGGGAAACAGATCAAAGACGATGAGCCTTAAACCCCTAAGCAGTAGGGTAA
1 CCCCCTA-AGCAGTAGGGAAACAGATCAAAGGTGATGAGCCTTAAACCCCTAAGTAGTAGGGTAA
* * *
61808658 TAGGCTG-AATTTAC-AATATCTTAA
65 CAGGCTGAAAATTACGAATAT-TT-T
* *
61808682 CCCCCTAAGCAGTAGGGAAACAGATCAAAGGTGATGGGCCTTAAACCCCTATGTAGTAGGGTAAC
1 CCCCCTAAGCAGTAGGGAAACAGATCAAAGGTGATGAGCCTTAAACCCCTAAGTAGTAGGGTAAC
*
61808747 AGGCTGAAAATTACGAATGTTTT
66 AGGCTGAAAATTACGAATATTTT
*
61808770 CTCCCTAA
1 CCCCCTAA
61808778 AATTGTAGTG
Statistics
Matches: 150, Mismatches: 27, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
86 3 0.02
87 2 0.01
88 72 0.48
89 68 0.45
90 5 0.03
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (88 bp):
CCCCCTAAGCAGTAGGGAAACAGATCAAAGGTGATGAGCCTTAAACCCCTAAGTAGTAGGGTAAC
AGGCTGAAAATTACGAATATTTT
Found at i:61808859 original size:44 final size:44
Alignment explanation
Indices: 61808809--61808915 Score: 110
Period size: 44 Copynumber: 2.4 Consensus size: 44
61808799 AGCCATTAAC
*
61808809 CTTATCTCCTTGAAGTTTCAGCAGAG-AAGATCGAAACTACAAGT
1 CTTATCTCCTTGAAGTTGCAGCAGAGCAAG-TCGAAACTACAAGT
* ** **
61808853 CTTATCT-CTCTAAAGTTGCAGTGGAGCAAGTCGAAGTTACAAGT
1 CTTATCTCCT-TGAAGTTGCAGCAGAGCAAGTCGAAACTACAAGT
* *
61808897 CTTATTTCCTTGAAATTGC
1 CTTATCTCCTTGAAGTTGC
61808916 GGTGGAGCAG
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
43 2 0.04
44 44 0.86
45 5 0.10
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (44 bp):
CTTATCTCCTTGAAGTTGCAGCAGAGCAAGTCGAAACTACAAGT
Found at i:61809728 original size:21 final size:20
Alignment explanation
Indices: 61809676--61809721 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
61809666 CATTAAAAAC
61809676 AAAAAATATAAAAAGGGGAG
1 AAAAAATATAAAAAGGGGAG
61809696 AAAAAATATAAAAAGGGGAG
1 AAAAAATATAAAAAGGGGAG
61809716 AAAAAA
1 AAAAAA
61809722 CCTTAAATCA
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:0.70, C:0.00, G:0.22, T:0.09
Consensus pattern (20 bp):
AAAAAATATAAAAAGGGGAG
Found at i:61831105 original size:50 final size:51
Alignment explanation
Indices: 61831028--61831156 Score: 172
Period size: 50 Copynumber: 2.5 Consensus size: 51
61831018 GACCATGGCA
* *
61831028 ACAAGTGATAAGCGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGGACAAA-TG
* *
61831079 A-AAGTGATAAGTGATTGCTTTGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGGACAAATG
* * *
61831129 ACAAGTGAAAAGTGGTAGCTTTAGCTAC
1 ACAAGTGATAAGTGATAGCTTTGGCTAC
61831157 CTGATCAGTG
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
50 42 0.62
51 26 0.38
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGGACAAATG
Found at i:61831170 original size:31 final size:31
Alignment explanation
Indices: 61831132--61831280 Score: 208
Period size: 31 Copynumber: 4.8 Consensus size: 31
61831122 ACAAATGACA
*
61831132 AGTGAAAAGTGGTAGCTTTAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* *
61831163 AGTGAAAAGTGGTAGCTTCAACTACTTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* *
61831194 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* * *
61831225 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* *
61831256 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCAGCTAC
61831281 GAGTGACAAG
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 107 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
Found at i:61831375 original size:47 final size:48
Alignment explanation
Indices: 61831305--61831430 Score: 152
Period size: 47 Copynumber: 2.7 Consensus size: 48
61831295 AAGTGATTTC
* *
61831305 CGTATAATACCATATCTGGGATATGGCATCGATGTGATATATGCT-ACT
1 CGTATAAGACCATATCTGGGATATGGCATCGATGTGAGATATG-TGACT
*
61831353 -GTATAAGACCATATCTGGGATATGGCATC-A-GTGAGATATGTGATT
1 CGTATAAGACCATATCTGGGATATGGCATCGATGTGAGATATGTGACT
* * * *
61831398 CGTGTAAGACCATAGCTGGGCTATCGCATCGAT
1 CGTATAAGACCATATCTGGGATATGGCATCGAT
61831431 ATATGAATAT
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
44 1 0.01
45 11 0.16
46 26 0.39
47 29 0.43
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.30
Consensus pattern (48 bp):
CGTATAAGACCATATCTGGGATATGGCATCGATGTGAGATATGTGACT
Found at i:61831427 original size:46 final size:42
Alignment explanation
Indices: 61831352--61831515 Score: 134
Period size: 42 Copynumber: 3.8 Consensus size: 42
61831342 TATATGCTAC
* * *
61831352 TGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGAT-
1 TGTATAAGACCATAGCTGGGCTATGGCATC---GAGATATG-AATA
* * *
61831397 TCGTGTAAGACCATAGCTGGGCTATCGCATCGATATATGAATA
1 T-GTATAAGACCATAGCTGGGCTATGGCATCGAGATATGAATA
* * * *
61831440 TGTATAAGACCATAGCTGGGCTATGGCAT-AATTATGTGAAGA
1 TGTATAAGACCATAGCTGGGCTATGGCATCGA-GATATGAATA
* * **
61831482 TGTGTAAGACCATAGTTGAACTATGGCATCGAGA
1 TGTATAAGACCATAGCTGGGCTATGGCATCGAGA
61831516 AAACGAAGTA
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
41 1 0.01
42 62 0.63
43 9 0.09
45 1 0.01
46 25 0.26
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (42 bp):
TGTATAAGACCATAGCTGGGCTATGGCATCGAGATATGAATA
Found at i:61831506 original size:42 final size:42
Alignment explanation
Indices: 61831399--61831511 Score: 138
Period size: 42 Copynumber: 2.7 Consensus size: 42
61831389 TATGTGATTC
* * *
61831399 GTGTAAGACCATAGCTGGGCTATCGCATCGATATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCAATATATGAAGAT
* *
61831441 GTATAAGACCATAGCTGGGCTATGGCAT-AATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCAA-TATATGAAGAT
* **
61831483 GTGTAAGACCATAGTTGAACTATGGCATC
1 GTGTAAGACCATAGCTGGGCTATGGCATC
61831512 GAGAAAACGA
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
41 1 0.02
42 59 0.98
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCAATATATGAAGAT
Found at i:61835912 original size:50 final size:51
Alignment explanation
Indices: 61835835--61835963 Score: 172
Period size: 50 Copynumber: 2.5 Consensus size: 51
61835825 GACCATGGCA
*
61835835 ACAAGTGATAAGCGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
* * *
61835886 A-AAGTGATAAGTGATTGCTTTGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
61835936 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
61835964 CTGATCAGTG
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
50 42 0.63
51 25 0.37
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:61835977 original size:31 final size:31
Alignment explanation
Indices: 61835939--61836087 Score: 226
Period size: 31 Copynumber: 4.8 Consensus size: 31
61835929 ACAAATGACA
*
61835939 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
** *
61835970 AGTGAAAAGTGGTAGCTTTAGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
61836001 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
61836032 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
61836063 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
61836088 GAGTGACAAG
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 108 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:61836187 original size:47 final size:48
Alignment explanation
Indices: 61836112--61836237 Score: 161
Period size: 47 Copynumber: 2.7 Consensus size: 48
61836102 AAGTGATTTC
*
61836112 CGTATAAGACCATATCTGGGATATGGCATCGATGTGATATATGCT-ACT
1 CGTATAAGACCATATCTGGGATATGGCATCGATGTGAGATATG-TGACT
* *
61836160 -GTATCAGACCATATCTGGGATATGGCATC-A-GTGAGATATGTGATT
1 CGTATAAGACCATATCTGGGATATGGCATCGATGTGAGATATGTGACT
* * *
61836205 CGTGTAAGACCATAGCTGGGCTATGGCATCGAT
1 CGTATAAGACCATATCTGGGATATGGCATCGAT
61836238 ATATGAATAT
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
44 1 0.01
45 11 0.16
46 26 0.39
47 29 0.43
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (48 bp):
CGTATAAGACCATATCTGGGATATGGCATCGATGTGAGATATGTGACT
Found at i:61836264 original size:42 final size:43
Alignment explanation
Indices: 61836206--61836320 Score: 171
Period size: 42 Copynumber: 2.7 Consensus size: 43
61836196 TATGTGATTC
*
61836206 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
61836248 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
61836290 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
61836321 GAAAATGAAG
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 64 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:61837467 original size:34 final size:33
Alignment explanation
Indices: 61837428--61837494 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
61837418 TTGAAAGAGA
61837428 GTTTGTCTCTAAAAAAGGAAGTGGTAGAAGAGTT
1 GTTTGTCTCTAAAAAA-GAAGTGGTAGAAGAGTT
61837462 GTTTGTCTCTAAAAAAGAAGTGGTAGAAGAGTT
1 GTTTGTCTCTAAAAAAGAAGTGGTAGAAGAGTT
61837495 CAACTCAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 17 0.52
34 16 0.48
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.30
Consensus pattern (33 bp):
GTTTGTCTCTAAAAAAGAAGTGGTAGAAGAGTT
Found at i:61840298 original size:43 final size:43
Alignment explanation
Indices: 61840198--61840290 Score: 132
Period size: 43 Copynumber: 2.2 Consensus size: 43
61840188 CTAGATAGGA
* * * * *
61840198 TCTTACACAAAATCATAATACGATGACAATGTCCCAGACATGG
1 TCTTACACATAATCAAAATACAATGACAATATCCCAGACAAGG
*
61840241 TCTTACACATAATCAAAATACAATGCCAATATCCCAGACAAGG
1 TCTTACACATAATCAAAATACAATGACAATATCCCAGACAAGG
61840284 TCTTACA
1 TCTTACA
61840291 TGTAATCACA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.41, C:0.25, G:0.11, T:0.24
Consensus pattern (43 bp):
TCTTACACATAATCAAAATACAATGACAATATCCCAGACAAGG
Found at i:61856967 original size:54 final size:53
Alignment explanation
Indices: 61856892--61857088 Score: 150
Period size: 54 Copynumber: 3.7 Consensus size: 53
61856882 AGGATACTAA
* *
61856892 GTAAGACCATG-CTAAGGCATGGCATTGGTAAGTTTTACAAGGCAAGGAAATCAT
1 GTAAGACCATGTC-AAGACATGGCAATGGTAAG-TTTACAAGGCAAGGAAATCAT
** * ** *
61856946 GTAAGACCATGTCAAGACATGGCTTTGATAA-ACTACAA--TAAGGAAATATCCCAT
1 GTAAGACCATGTCAAGACATGGCAATGGTAAGTTTACAAGGCAAGG-AA-AT--CAT
* * * * * * * * *
61857000 ATAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAGGATACCAC
1 GTAAGACCATGTCAAGACATGGCAATGGTAAGTTTACAAGGCAAGGAAATCAT
*
61857053 GTAAGACCATGTCAAGACATGGTAATGGTAAGTTTA
1 GTAAGACCATGTCAAGACATGGCAATGGTAAGTTTA
61857089 AAAAGAAAAG
Statistics
Matches: 108, Mismatches: 27, Indels: 17
0.71 0.18 0.11
Matches are distributed among these distances:
50 4 0.04
51 2 0.02
52 7 0.06
53 32 0.30
54 53 0.49
55 5 0.05
56 1 0.01
57 4 0.04
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (53 bp):
GTAAGACCATGTCAAGACATGGCAATGGTAAGTTTACAAGGCAAGGAAATCAT
Found at i:61869087 original size:46 final size:46
Alignment explanation
Indices: 61869037--61869209 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
61869027 TGGTTGAGCA
*
61869037 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
61869083 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
61869130 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
61869176 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
61869210 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 59 0.55
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:61869193 original size:93 final size:93
Alignment explanation
Indices: 61869034--61869204 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
61869024 GGATGGTTGA
*
61869034 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
61869099 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
61869127 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC-GAACTCGTTGAG
61869191 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
61869205 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:61876630 original size:46 final size:46
Alignment explanation
Indices: 61876580--61876752 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
61876570 ATGGTGAGCA
*
61876580 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
61876626 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
61876673 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTTTGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
61876719 -CCTGAGCTCGTTGACTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
61876753 GGGGCAGGTT
Statistics
Matches: 105, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 57 0.54
47 29 0.28
48 2 0.02
50 6 0.06
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:61876738 original size:93 final size:93
Alignment explanation
Indices: 61876577--61876747 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
61876567 AGGATGGTGA
* *
61876577 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGACT
61876642 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
61876670 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTTTGGATGCAAACG-CCTGAGCTCGTTGAC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC-GAACTCGTTGAC
61876734 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
61876748 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGACT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:61881564 original size:40 final size:39
Alignment explanation
Indices: 61881499--61881617 Score: 161
Period size: 40 Copynumber: 3.1 Consensus size: 39
61881489 CCGAAAGGAT
*
61881499 ATTTGTGCGAGTTATTATTCCGGGTTAAGTCCCGAAGGC
1 ATTTGTGCGAGTTATAATTCCGGGTTAAGTCCCGAAGGC
* *
61881538 CTTTGTGCGAGATACTAATTCCGGGTTAAGTCCCGAAGGC
1 ATTTGTGCGAGTTA-TAATTCCGGGTTAAGTCCCGAAGGC
* * *
61881578 ATTCGTGCGATTTA-AAATCCGGGTT-AGTCCCGAAGGC
1 ATTTGTGCGAGTTATAATTCCGGGTTAAGTCCCGAAGGC
61881615 ATT
1 ATT
61881618 GAATGAGTTA
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
37 15 0.21
38 10 0.14
39 12 0.17
40 34 0.48
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (39 bp):
ATTTGTGCGAGTTATAATTCCGGGTTAAGTCCCGAAGGC
Found at i:61889312 original size:40 final size:40
Alignment explanation
Indices: 61889228--61889411 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
61889218 TTGAATGCTG
* * * *
61889228 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
61889267 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
61889308 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
61889348 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
61889388 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
61889412 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:61889365 original size:80 final size:81
Alignment explanation
Indices: 61889228--61889408 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
61889218 TTGAATGCTG
* * *
61889228 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
61889292 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
61889308 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
61889369 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
61889388 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
61889409 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:61889432 original size:39 final size:38
Alignment explanation
Indices: 61889309--61889458 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
61889299 GTTATTAATT
* ** * *
61889309 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
61889349 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
61889388 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
61889428 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
61889459 GAGCTAATCC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:61896894 original size:68 final size:68
Alignment explanation
Indices: 61896745--61896902 Score: 153
Period size: 68 Copynumber: 2.3 Consensus size: 68
61896735 CTAGCCGATT
* * * *
61896745 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACTCATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
*
61896810 TTTA
65 TTAA
* * *
61896814 TCTCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
61896876 CTATATAA
63 C-AT-TAA
61896884 TATCTCGTAGC-CTTCTTGT
1 TATCTCGTAGCTC-TCTTGT
61896903 ACACATGATG
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 6 0.08
70 8 0.11
71 26 0.35
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAT
TAA
Found at i:61898851 original size:13 final size:13
Alignment explanation
Indices: 61898833--61898857 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61898823 CCAAGCACAC
61898833 GCCCGTGTCCTTA
1 GCCCGTGTCCTTA
61898846 GCCCGTGTCCTT
1 GCCCGTGTCCTT
61898858 CATATGGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.40, G:0.24, T:0.32
Consensus pattern (13 bp):
GCCCGTGTCCTTA
Found at i:61901423 original size:39 final size:39
Alignment explanation
Indices: 61901380--61901480 Score: 123
Period size: 39 Copynumber: 2.6 Consensus size: 39
61901370 ACCATCTCGA
* * * *
61901380 AGCCTGCGGAAGTTTAG-CCTGGACATATTTCCAGCACGT
1 AGCCTGCGGAACTTAAGTCC-GGACATAATTCCAGCACAT
* *
61901419 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGAACTTAAGTCCGGACATAATTCCAGCACAT
*
61901458 AGCCTGCGGACCTTAAGTCCGGA
1 AGCCTGCGGAACTTAAGTCCGGA
61901481 TATACATCAC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 53 0.96
40 2 0.04
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
AGCCTGCGGAACTTAAGTCCGGACATAATTCCAGCACAT
Found at i:61901481 original size:39 final size:39
Alignment explanation
Indices: 61901408--61901484 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
61901398 CTGGACATAT
*
61901408 TTCCAGCACGTAGCCTGCGGACCTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
61901447 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATA
61901485 CATCACTGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
Found at i:61909248 original size:39 final size:39
Alignment explanation
Indices: 61909205--61909330 Score: 198
Period size: 39 Copynumber: 3.2 Consensus size: 39
61909195 GGACTTTAGC
* * * *
61909205 CCGGACATATTTCCAGCACATAGCCTACGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
61909244 CCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
61909283 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
61909322 CTGGATATA
1 CCGGATATA
61909331 CATCACTGAA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:61914334 original size:48 final size:47
Alignment explanation
Indices: 61914261--61914366 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 47
61914251 TAAAGTACCA
*
61914261 ATGCCATGTTCCCAACATGGCCTTACA-TGA-ATCCACATATCATCGTTG
1 ATGCCATG-TCCCAACATGGCCTTACACTGACA--CACATATCATCGTCG
* *
61914309 ATGCCATGTCCCAGACATGGTCTTACACTGACACACATATTATCGTCG
1 ATGCCATGTCCCA-ACATGGCCTTACACTGACACACATATCATCGTCG
61914357 ATGCCATGTC
1 ATGCCATGTC
61914367 TGGACACTAG
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
47 5 0.10
48 43 0.83
49 3 0.06
50 1 0.02
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.28
Consensus pattern (47 bp):
ATGCCATGTCCCAACATGGCCTTACACTGACACACATATCATCGTCG
Found at i:61916913 original size:43 final size:43
Alignment explanation
Indices: 61916792--61916952 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
61916782 GTACAATGCT
* * *
61916792 ATATCCCAGATATGGTCTTACATGTTATCAC-ATATTGATGCCA
1 ATATCCCAGACATGGTCTTACATGTAATCACAATA-CGATGCCA
* * * * * * *
61916835 CT-GCCCTAGACAGGGTCTTAAAGGAAATCATAATACGATGCCA
1 ATATCCC-AGACATGGTCTTACATGTAATCACAATACGATGCCA
* * * *
61916878 ATATCCCAGACATGGTCTTACACGTCATCACAATACAATACCA
1 ATATCCCAGACATGGTCTTACATGTAATCACAATACGATGCCA
* *
61916921 ATGTCCCATACATGGTCTTACATGTAATCACA
1 ATATCCCAGACATGGTCTTACATGTAATCACA
61916953 TCTCGATAAC
Statistics
Matches: 91, Mismatches: 24, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
42 3 0.03
43 82 0.90
44 6 0.07
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (43 bp):
ATATCCCAGACATGGTCTTACATGTAATCACAATACGATGCCA
Found at i:61920758 original size:25 final size:25
Alignment explanation
Indices: 61920688--61920796 Score: 125
Period size: 26 Copynumber: 4.4 Consensus size: 25
61920678 CTGGAGGCCT
61920688 AGCCTCTTTTAAT-AACTGGGGCA-A
1 AGCC-CTTTTAATAAACTGGGGCATA
* *
61920712 AGCCCTTTTGATAAACTAGGGCA-A
1 AGCCCTTTTAATAAACTGGGGCATA
* *
61920736 ATCCCTTTTCAATAAACCGGGGCATA
1 AGCCCTTTT-AATAAACTGGGGCATA
*
61920762 AGCCTTTTTCAATAAACTGGGGCATA
1 AGCCCTTTT-AATAAACTGGGGCATA
61920788 AGCCCTTTT
1 AGCCCTTTT
61920797 GCACTTCCTC
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
23 7 0.10
24 22 0.31
25 11 0.15
26 32 0.44
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCATA
Found at i:61920873 original size:20 final size:20
Alignment explanation
Indices: 61920845--61920931 Score: 122
Period size: 20 Copynumber: 4.3 Consensus size: 20
61920835 TTATGAAAAC
*
61920845 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
*
61920865 ATTATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
61920885 ATCATGTGCATTTTATACAT
1 ATCATGTGCATATCATACAT
61920905 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
61920925 ATCATGT
1 ATCATGT
61920932 ATACCATATC
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
20 57 0.97
21 2 0.03
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:61920889 original size:40 final size:40
Alignment explanation
Indices: 61920845--61920931 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 40
61920835 TTATGAAAAC
*
61920845 ATCATGTGCATTTCATACATATTATGTGCATATCATA-CA
1 ATCATGTGCATTTCATACATATCATGTGCATATCATATCA
*
61920884 TATCATGTGCATTTTATACATATCATGTGCATATCATATCA
1 -ATCATGTGCATTTCATACATATCATGTGCATATCATATCA
61920925 ATCATGT
1 ATCATGT
61920932 ATACCATATC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
40 42 0.95
41 2 0.05
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.40
Consensus pattern (40 bp):
ATCATGTGCATTTCATACATATCATGTGCATATCATATCA
Found at i:61920995 original size:25 final size:25
Alignment explanation
Indices: 61920967--61921014 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
61920957 ATAATTAAAC
* * *
61920967 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
61920992 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
61921015 CATACTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:61928881 original size:26 final size:26
Alignment explanation
Indices: 61928794--61928928 Score: 181
Period size: 26 Copynumber: 5.3 Consensus size: 26
61928784 CTGGAGGCTT
61928794 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
* *
61928818 AGCCCTTTT-GATAAACTAGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
*
61928842 ATCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
61928868 AGGCCTTTTCAATAAACCGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
61928894 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
61928920 AGCCCTTTT
1 AGCCCTTTT
61928929 GCACTTCCTC
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
23 7 0.07
24 22 0.22
25 12 0.12
26 57 0.58
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:61929002 original size:20 final size:20
Alignment explanation
Indices: 61928977--61929063 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
61928967 TTATGAAAAC
*
61928977 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
61928997 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
61929017 ATCATGTGCATTTTATACAT
1 ATCATGTGCATATCATACAT
61929037 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
61929057 ATCATGT
1 ATCATGT
61929064 ATACCATATC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 59 0.97
21 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:61929008 original size:11 final size:11
Alignment explanation
Indices: 61928977--61929052 Score: 56
Period size: 11 Copynumber: 7.5 Consensus size: 11
61928967 TTATGAAAAC
61928977 ATCATGTGCAT
1 ATCATGTGCAT
* *
61928988 TTCA--TACAT
1 ATCATGTGCAT
61928997 ATCATGTGCAT
1 ATCATGTGCAT
*
61929008 ATCA--TACAT
1 ATCATGTGCAT
61929017 ATCATGTGCAT
1 ATCATGTGCAT
* * *
61929028 -T-TTATACAT
1 ATCATGTGCAT
61929037 ATCATGTGCAT
1 ATCATGTGCAT
61929048 ATCAT
1 ATCAT
61929053 ATCAATCATG
Statistics
Matches: 47, Mismatches: 12, Indels: 12
0.66 0.17 0.17
Matches are distributed among these distances:
9 20 0.43
10 2 0.04
11 25 0.53
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:61929021 original size:40 final size:40
Alignment explanation
Indices: 61928977--61929063 Score: 149
Period size: 40 Copynumber: 2.2 Consensus size: 40
61928967 TTATGAAAAC
61928977 ATCATGTGCATTTCATACATATCATGTGCATATCATA-CA
1 ATCATGTGCATTTCATACATATCATGTGCATATCATATCA
*
61929016 TATCATGTGCATTTTATACATATCATGTGCATATCATATCA
1 -ATCATGTGCATTTCATACATATCATGTGCATATCATATCA
61929057 ATCATGT
1 ATCATGT
61929064 ATACCATATC
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 43 0.96
41 2 0.04
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.39
Consensus pattern (40 bp):
ATCATGTGCATTTCATACATATCATGTGCATATCATATCA
Found at i:61936416 original size:40 final size:40
Alignment explanation
Indices: 61936361--61936440 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
61936351 TTGAAAGTGT
*
61936361 AAAGTTTTGATAATGCCTCGAGCCCTGTTCTGGTGTTGGA
1 AAAGTTTCGATAATGCCTCGAGCCCTGTTCTGGTGTTGGA
* *
61936401 AAAGTTTCGGTAATGCCTCGAGCCCTGTTTTGGTGTTGGA
1 AAAGTTTCGATAATGCCTCGAGCCCTGTTCTGGTGTTGGA
61936441 TACGGGTGAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.19, C:0.17, G:0.29, T:0.35
Consensus pattern (40 bp):
AAAGTTTCGATAATGCCTCGAGCCCTGTTCTGGTGTTGGA
Found at i:61945997 original size:38 final size:38
Alignment explanation
Indices: 61945944--61946020 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
61945934 CATGTCTGGG
*
61945944 ACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACC
1 ACATGCATCGACCACATTATGAGAGCCAGTGTAAGACC
61945982 ACATGCATCGACCACATTATGAGAGCCAGTGTAAGACC
1 ACATGCATCGACCACATTATGAGAGCCAGTGTAAGACC
61946020 A
1 A
61946021 TGTCTGGGAC
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:0.34, C:0.26, G:0.22, T:0.18
Consensus pattern (38 bp):
ACATGCATCGACCACATTATGAGAGCCAGTGTAAGACC
Found at i:61946103 original size:46 final size:46
Alignment explanation
Indices: 61946002--61946130 Score: 170
Period size: 46 Copynumber: 2.8 Consensus size: 46
61945992 ACCACATTAT
* * *
61946002 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGAC
1 GAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGAC
*
61946050 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAC
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAC
* *
61946096 GTA-AGCTAGTGTAAGACTTGTCTAGGACATGCATC
1 G-AGAGCTAGTGTAAGACATGTCTGGGACATGCATC
61946131 AGCTACAAGA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
46 44 0.59
47 15 0.20
48 15 0.20
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.22
Consensus pattern (46 bp):
GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAC
Found at i:61946460 original size:23 final size:23
Alignment explanation
Indices: 61946415--61946461 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
61946405 AATGAGTAAG
* *
61946415 TTATACTTATGCCTACCTTGGTA
1 TTATACTTATGCCTACATCGGTA
61946438 TTATACTTATGCCTACATCGGTA
1 TTATACTTATGCCTACATCGGTA
61946461 T
1 T
61946462 ATTGTTGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (23 bp):
TTATACTTATGCCTACATCGGTA
Found at i:61953734 original size:43 final size:44
Alignment explanation
Indices: 61953663--61953797 Score: 166
Period size: 43 Copynumber: 3.1 Consensus size: 44
61953653 TATCGAAATG
* * * *
61953663 TGATATTCGGGCTTCGGGCCTAGCAGGCTATAATGTCGATGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
61953707 TGATA-TCGGGCTTTGAGCTTAGTAGGCTATGATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
*
61953750 T-ATTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGA-TATTCG-GGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
61953795 TGA
1 TGA
61953798 AATGTTATGT
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
42 1 0.01
43 34 0.45
44 8 0.11
45 32 0.42
46 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (44 bp):
TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:61953779 original size:45 final size:43
Alignment explanation
Indices: 61953680--61953797 Score: 148
Period size: 45 Copynumber: 2.7 Consensus size: 43
61953670 CGGGCTTCGG
* * *
61953680 GCCTAGCAGGCTATAATGTCGATGAAATGATATCGGGCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGCCTTTGA
* * *
61953723 GCTTAGTAGGCTATGATGCCGGTGAAAT-ATTATTCGAGCCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA-TA-TCG-GCCTTTGA
61953768 GCCTAGCAGGCTATAATGCCGGTGAAATGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA
61953798 AATGTTATGT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
42 1 0.02
43 25 0.40
44 3 0.05
45 32 0.52
46 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (43 bp):
GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGCCTTTGA
Found at i:61954126 original size:38 final size:38
Alignment explanation
Indices: 61954084--61954226 Score: 205
Period size: 38 Copynumber: 3.8 Consensus size: 38
61954074 CTTAAAGACT
61954084 GCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCC
1 GCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCC
* * *
61954122 GCAGGCTTTGTGCTGGTAATATATCCGAGTTAATTCCC
1 GCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCC
* *
61954160 GTAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCC
1 GCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCC
* * * *
61954198 GCAGGCCTAGTGCTGGTATTATATTCGGG
1 GCAGGCTTCGTGCTGGTAATATATCCGGG
61954227 CCTTTGAGCC
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 93 1.00
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (38 bp):
GCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCC
Found at i:61954269 original size:45 final size:45
Alignment explanation
Indices: 61954219--61954343 Score: 198
Period size: 45 Copynumber: 2.8 Consensus size: 45
61954209 GCTGGTATTA
*
61954219 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
* * *
61954264 TATTCGGACCTTTGGGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
61954309 TATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCC
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCC
61954344 TATGAAATGA
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
44 4 0.05
45 69 0.95
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
Found at i:61954361 original size:45 final size:44
Alignment explanation
Indices: 61954222--61954377 Score: 134
Period size: 45 Copynumber: 3.5 Consensus size: 44
61954212 GGTATTATAT
* * * * * *
61954222 TCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACACTAT
1 TCGGGCC-TCGAGCCTAGCAGGCTATAATGCCGATGAAATACTAA
* * * * * *
61954267 TCGGACCTTTGGGCCTAGCAGGCTATAATGCCGGTGAGATACTAT
1 TCGGGCC-TCGAGCCTAGCAGGCTATAATGCCGATGAAATACTAA
* *
61954312 TCGGGCTTTCGAGCCTAGCAGGCTATAATGCCTATGAAATGA-TAA
1 TCGGGC-CTCGAGCCTAGCAGGCTATAATGCCGATGAAAT-ACTAA
*
61954357 TCGGGCCTCGATCCTAGCAGG
1 TCGGGCCTCGAGCCTAGCAGG
61954378 TGAAATGCCG
Statistics
Matches: 95, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
44 13 0.14
45 81 0.85
46 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (44 bp):
TCGGGCCTCGAGCCTAGCAGGCTATAATGCCGATGAAATACTAA
Found at i:61966717 original size:37 final size:37
Alignment explanation
Indices: 61966658--61966803 Score: 229
Period size: 37 Copynumber: 3.9 Consensus size: 37
61966648 AGCTCAGACG
* *
61966658 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
61966695 AAATCTCCATACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
61966732 TACTCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
61966769 TAATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
61966804 ATATATTTCC
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:61967018 original size:47 final size:47
Alignment explanation
Indices: 61966966--61967245 Score: 380
Period size: 47 Copynumber: 6.0 Consensus size: 47
61966956 TTTCACACTA
* * * *
61966966 GCCATTCGGCTTTACCACATATATGAATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCACCACATTG
* * *
61967013 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCACCACATTG
* * * *
61967060 GCCGTTTGGCCTTATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCACCACATTG
* *
61967107 GCCATTTGGCCTTATCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCACCACATTG
* * *
61967154 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCAACACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCACCACATTG
* ** *
61967201 GCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCACCACAT
61967246 AAAATCCTAA
Statistics
Matches: 206, Mismatches: 27, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 206 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCACCACATTG
Found at i:61967165 original size:141 final size:140
Alignment explanation
Indices: 61966958--61967246 Score: 470
Period size: 141 Copynumber: 2.0 Consensus size: 140
61966948 CCTACATATT
*
61966958 TCACACTAGCCATTCGGCTTTACCACATATATGAATGTTCATATTCACCACATTGGCCATTCGGC
1 TCACA-TAGCCATTCGGCCTTACCACATATATGAATGTTCATATTCACCACATTGGCCATTCGGC
* * * * *
61967023 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCGTTTGGCCTTATCACATATATGCAT
65 CTTATCACACATATGCATGCTCACATTCAACACATTGGCCATTCGGCCTTATCACATATATACAC
*
61967088 GTTCACATTCA
130 ATTCACATTCA
* * *
61967099 TCACATAGGCCATTTGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
1 TCACATA-GCCATTCGGCCTTACCACATATATGAATGTTCATATTCACCACATTGGCCATTCGGC
61967164 CTTATCACACATATGCATGCTCACATTCAACACATTGGCCATTCGGCCTTATCACATATATACAC
65 CTTATCACACATATGCATGCTCACATTCAACACATTGGCCATTCGGCCTTATCACATATATACAC
61967229 ATTCACATTCA
130 ATTCACATTCA
61967240 TCACATA
1 TCACATA
61967247 AAATCCTAAA
Statistics
Matches: 137, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
140 2 0.01
141 135 0.99
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.32
Consensus pattern (140 bp):
TCACATAGCCATTCGGCCTTACCACATATATGAATGTTCATATTCACCACATTGGCCATTCGGCC
TTATCACACATATGCATGCTCACATTCAACACATTGGCCATTCGGCCTTATCACATATATACACA
TTCACATTCA
Found at i:61970739 original size:40 final size:40
Alignment explanation
Indices: 61970707--61971095 Score: 613
Period size: 40 Copynumber: 9.8 Consensus size: 40
61970697 CCAGCATGAT
* * * *
61970707 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
61970747 TGCTCTTCGGG-TTTAGCAC-GATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
61970785 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
61970825 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** *
61970865 TGCTCTTTTGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
61970905 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
61970945 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
61970985 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
61971025 TGCTCTTCGGGACTTAG-CCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
61971064 TGCTCTTCGGGACTTATCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
61971096 CTCAATTTTC
Statistics
Matches: 328, Mismatches: 18, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
38 27 0.08
39 49 0.15
40 252 0.77
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:61972407 original size:36 final size:36
Alignment explanation
Indices: 61972360--61972497 Score: 208
Period size: 36 Copynumber: 3.9 Consensus size: 36
61972350 AGCTCAGACG
* *
61972360 AAATCTCCACACGAAGTTATCGGGTCTTACCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCGGACA
*
61972396 AAATCTCCACACGTAGTCATCGGGTCTTACCCGAC-
1 AAATCTCCACACGTAGTCATCGGGTCTTACCGGACA
*
61972431 ATA-CTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTA-CCGGACA
*
61972467 TAATCTCCACACGTAGTCATCGGGTCTTACC
1 AAATCTCCACACGTAGTCATCGGGTCTTACC
61972498 CGGAATATAT
Statistics
Matches: 92, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
34 25 0.27
35 7 0.08
36 35 0.38
37 25 0.27
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (36 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCGGACA
Found at i:61972482 original size:71 final size:70
Alignment explanation
Indices: 61972364--61972499 Score: 236
Period size: 71 Copynumber: 1.9 Consensus size: 70
61972354 CAGACGAAAT
*
61972364 CTCCACACGAAGTTATCGGGTCTTACCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 CTCCACACGAAGTCATCGGGTCTTACCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
61972429 ACATA
66 ACATA
* *
61972434 CTCCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTAGTCATCGGGTCTTACCC
1 CTCCACACGAAGTCATCGGGTCTTA-CCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCC
61972499 G
65 G
61972500 GAATATATTT
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
70 23 0.37
71 39 0.63
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (70 bp):
CTCCACACGAAGTCATCGGGTCTTACCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
ACATA
Found at i:61972484 original size:37 final size:37
Alignment explanation
Indices: 61972361--61972501 Score: 227
Period size: 37 Copynumber: 3.9 Consensus size: 37
61972351 GCTCAGACGA
* * *
61972361 AATCTCCACACGAAGTTATCGGGTCTTA-CCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
61972397 AATCTCCACACGTAGTCATCGGGTCTTACCC-GACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
61972433 -A-CTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
61972468 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
61972502 ATATATTTCC
Statistics
Matches: 98, Mismatches: 3, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
34 28 0.29
35 6 0.06
36 31 0.32
37 33 0.34
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:61972816 original size:46 final size:47
Alignment explanation
Indices: 61972706--61972985 Score: 396
Period size: 46 Copynumber: 6.1 Consensus size: 47
61972696 TATATATATT
* * * *
61972706 TCACATTGACCATTC-GCTTTACCACATATATGCATGTTCATA-T--
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
61972749 TCACATT-GCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
61972795 TCACATTGGCCATTCGG-CTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
61972841 TCACATTGGCCATTC-GCCTTATCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
61972887 -CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
61972933 TCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
61972980 TCACAT
1 TCACAT
61972986 AAAATCCTAA
Statistics
Matches: 212, Mismatches: 17, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
42 6 0.03
43 29 0.14
44 1 0.00
45 15 0.07
46 105 0.50
47 56 0.26
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:61972866 original size:21 final size:21
Alignment explanation
Indices: 61972794--61972867 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 21
61972784 GCTCACATTC
*
61972794 ATCACATTGGCCATTCGGCTT
1 ATCACATTGGCCATTCGCCTT
* * *
61972815 ATCACATATATG-CATGTTCACATT
1 ATCACAT-T-GGCCA--TTCGCCTT
61972839 CATCACATTGGCCATTCGCCTT
1 -ATCACATTGGCCATTCGCCTT
61972861 ATCACAT
1 ATCACAT
61972868 ATATGCATGT
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
21 14 0.35
22 9 0.22
23 2 0.05
24 8 0.20
25 7 0.17
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (21 bp):
ATCACATTGGCCATTCGCCTT
Found at i:61972927 original size:138 final size:136
Alignment explanation
Indices: 61972706--61972985 Score: 472
Period size: 138 Copynumber: 2.0 Consensus size: 136
61972696 TATATATATT
*
61972706 TCACATTGACCATTCGCTTTACCACATATATGCATGTTCATATTCACATTGCCATTCGGCCTTAT
1 TCACATTGACCATTCGCCTTACCACATATATGCATGTTCATATTCACATTGCCATTCGGCCTTAT
* **
61972771 CACACATATGCATGCTCACATTCATCACATTGGCCATTCGG-CTTATCACATATATGCATGTTCA
66 CACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACATTCA
61972835 CATTCA
131 CATTCA
* *
61972841 TCACATTGGCCATTCGCCTTATCACATATATGCATGTTCATATTCACACATTGGCCATTCGGCCT
1 TCACATTGACCATTCGCCTTACCACATATATGCATGTTCATATT--CACATT-GCCATTCGGCCT
61972906 TATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACAT
63 TATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACAT
61972971 TCACATTCA
128 TCACATTCA
61972980 TCACAT
1 TCACAT
61972986 AAAATCCTAA
Statistics
Matches: 135, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
135 41 0.30
137 6 0.04
138 56 0.41
139 32 0.24
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (136 bp):
TCACATTGACCATTCGCCTTACCACATATATGCATGTTCATATTCACATTGCCATTCGGCCTTAT
CACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACATTCA
CATTCA
Found at i:61979855 original size:31 final size:31
Alignment explanation
Indices: 61979817--61979876 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
61979807 TGGTAAATTG
61979817 TATCTTTCATGAGGGAAACAACACATTTTTT
1 TATCTTTCATGAGGGAAACAACACATTTTTT
61979848 TATCTTTCATGAGGGAAACAACACATTTT
1 TATCTTTCATGAGGGAAACAACACATTTT
61979877 ACACACTCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (31 bp):
TATCTTTCATGAGGGAAACAACACATTTTTT
Found at i:61985256 original size:151 final size:151
Alignment explanation
Indices: 61985065--61985366 Score: 604
Period size: 151 Copynumber: 2.0 Consensus size: 151
61985055 ATAATGGCTA
61985065 TTATTTATTTTGGTAAATGTATATGACGTGCCTTCTATGGATGAATTAATTTCATTTGCGATGGA
1 TTATTTATTTTGGTAAATGTATATGACGTGCCTTCTATGGATGAATTAATTTCATTTGCGATGGA
61985130 ATTAGCATATTGAAATGATCTTGTGTAGGTTGTGCAAAATGGGTAACAAAATGGCTTGGAAGATA
66 ATTAGCATATTGAAATGATCTTGTGTAGGTTGTGCAAAATGGGTAACAAAATGGCTTGGAAGATA
61985195 GCCTAGTTTGTCCACACGGGC
131 GCCTAGTTTGTCCACACGGGC
61985216 TTATTTATTTTGGTAAATGTATATGACGTGCCTTCTATGGATGAATTAATTTCATTTGCGATGGA
1 TTATTTATTTTGGTAAATGTATATGACGTGCCTTCTATGGATGAATTAATTTCATTTGCGATGGA
61985281 ATTAGCATATTGAAATGATCTTGTGTAGGTTGTGCAAAATGGGTAACAAAATGGCTTGGAAGATA
66 ATTAGCATATTGAAATGATCTTGTGTAGGTTGTGCAAAATGGGTAACAAAATGGCTTGGAAGATA
61985346 GCCTAGTTTGTCCACACGGGC
131 GCCTAGTTTGTCCACACGGGC
61985367 AAGACACACG
Statistics
Matches: 151, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
151 151 1.00
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (151 bp):
TTATTTATTTTGGTAAATGTATATGACGTGCCTTCTATGGATGAATTAATTTCATTTGCGATGGA
ATTAGCATATTGAAATGATCTTGTGTAGGTTGTGCAAAATGGGTAACAAAATGGCTTGGAAGATA
GCCTAGTTTGTCCACACGGGC
Found at i:61985812 original size:46 final size:46
Alignment explanation
Indices: 61985745--61985837 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
61985735 ACCTAGCTAA
61985745 AGTACGAGTCTAGCCATACATGCCATATATATATCGATAGTGTGAC
1 AGTACGAGTCTAGCCATACATGCCATATATATATCGATAGTGTGAC
61985791 AGTACGAGTCTAGCCATACATGCCATATATATATCGATAGTGTGAC
1 AGTACGAGTCTAGCCATACATGCCATATATATATCGATAGTGTGAC
61985837 A
1 A
61985838 ATTCCTGACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (46 bp):
AGTACGAGTCTAGCCATACATGCCATATATATATCGATAGTGTGAC
Found at i:61988578 original size:75 final size:75
Alignment explanation
Indices: 61988455--61988604 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
61988445 TCATGATAGC
61988455 TACACCGATAACAAGGCTACTGCAGAAAGATGTCAAGTTCGAATGGACAGAAGAGTGTGAACAGA
1 TACACCGATAACAAGGCTACTGCAGAAAGATGTCAAGTTCGAATGGACAGAAGAGTGTGAACAGA
61988520 ACTTCGAGAA
66 ACTTCGAGAA
61988530 TACACCGATAACAAGGCTACTGCAGAAAGATGTCAAGTTCGAATGGACAGAAGAGTGTGAACAGA
1 TACACCGATAACAAGGCTACTGCAGAAAGATGTCAAGTTCGAATGGACAGAAGAGTGTGAACAGA
61988595 ACTTCGAGAA
66 ACTTCGAGAA
61988605 ATTAAAGGCT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.17
Consensus pattern (75 bp):
TACACCGATAACAAGGCTACTGCAGAAAGATGTCAAGTTCGAATGGACAGAAGAGTGTGAACAGA
ACTTCGAGAA
Found at i:61989636 original size:62 final size:60
Alignment explanation
Indices: 61989518--61989641 Score: 221
Period size: 62 Copynumber: 2.0 Consensus size: 60
61989508 TTATTTTATT
*
61989518 ATTATTTGAGGTTCATGATATTTGCATGATTGTGTGAAATTTCGTTATGAAATTCTATGC
1 ATTATTTGAGGTTCATGATATATGCATGATTGTGTGAAATTTCGTTATGAAATTCTATGC
61989578 ATTATTTGAGGTTCATGATATGATGCATGATTGTGTGAAAATTTCGTTATGAAATTCTATGC
1 ATTATTTGAGGTTCATGATAT-ATGCATGATTGTGTG-AAATTTCGTTATGAAATTCTATGC
61989640 AT
1 AT
61989642 ATAGTGCTTA
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
60 21 0.34
61 14 0.23
62 26 0.43
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (60 bp):
ATTATTTGAGGTTCATGATATATGCATGATTGTGTGAAATTTCGTTATGAAATTCTATGC
Found at i:61990062 original size:31 final size:31
Alignment explanation
Indices: 61990027--61990089 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
61990017 ATGTTTTATG
61990027 ATAGAATATAAGGTTTTAAATTATGTTAGAC
1 ATAGAATATAAGGTTTTAAATTATGTTAGAC
61990058 ATAGAATATAAGGTTTTAAATTATGTTAGAC
1 ATAGAATATAAGGTTTTAAATTATGTTAGAC
61990089 A
1 A
61990090 CACTTGTGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (31 bp):
ATAGAATATAAGGTTTTAAATTATGTTAGAC
Found at i:61990251 original size:31 final size:31
Alignment explanation
Indices: 61990216--61990275 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
61990206 TTTTATGATT
61990216 GAATATAAGGTTTTAAATTATGTTAGACATA
1 GAATATAAGGTTTTAAATTATGTTAGACATA
61990247 GAATATAAGGTTTTAAATTATGTTAGACA
1 GAATATAAGGTTTTAAATTATGTTAGACA
61990276 ACTTGTGCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.42, C:0.03, G:0.17, T:0.38
Consensus pattern (31 bp):
GAATATAAGGTTTTAAATTATGTTAGACATA
Found at i:61990259 original size:186 final size:185
Alignment explanation
Indices: 61989945--61990319 Score: 732
Period size: 186 Copynumber: 2.0 Consensus size: 185
61989935 AAGCTCCATA
61989945 CTTATGCTAGTAATAATTTAAGTTAGGGTTCATATTTGGAAAAATACCCATAGGTGAAAAGTGTT
1 CTTATGCTAGTAATAATTTAAGTTAGGGTTCATATTTGGAAAAATACCCATAGGTGAAAAGTGTT
61990010 TATTTTGATGTTTTATGATAGAATATAAGGTTTTAAATTATGTTAGACATAGAATATAAGGTTTT
66 TATTTTGATGTTTTATGATAGAATATAAGGTTTTAAATTATGTTAGACATAGAATATAAGGTTTT
61990075 AAATTATGTTAGACACACTTGTGCTACTCGGTTTTAAGTGAAAACGAGTAAAAGGG
131 AAATTATGTTAGACA-ACTTGTGCTACTCGGTTTTAAGTGAAAACGAGTAAAAGGG
61990131 CTTATGCTAGTAATAATTTAAGTTAGGGTTCATATTTGGAAAAATACCCATAGGTGAAAAGTGTT
1 CTTATGCTAGTAATAATTTAAGTTAGGGTTCATATTTGGAAAAATACCCATAGGTGAAAAGTGTT
*
61990196 TATTTTGATGTTTTATGATTGAATATAAGGTTTTAAATTATGTTAGACATAGAATATAAGGTTTT
66 TATTTTGATGTTTTATGATAGAATATAAGGTTTTAAATTATGTTAGACATAGAATATAAGGTTTT
61990261 AAATTATGTTAGACAACTTGTGCTACTCGGTTTTAAGTGAAAACGAGTAAAAGGG
131 AAATTATGTTAGACAACTTGTGCTACTCGGTTTTAAGTGAAAACGAGTAAAAGGG
61990316 CTTA
1 CTTA
61990320 ATCGTAAAAA
Statistics
Matches: 188, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
185 44 0.23
186 144 0.77
ACGTcount: A:0.35, C:0.07, G:0.20, T:0.38
Consensus pattern (185 bp):
CTTATGCTAGTAATAATTTAAGTTAGGGTTCATATTTGGAAAAATACCCATAGGTGAAAAGTGTT
TATTTTGATGTTTTATGATAGAATATAAGGTTTTAAATTATGTTAGACATAGAATATAAGGTTTT
AAATTATGTTAGACAACTTGTGCTACTCGGTTTTAAGTGAAAACGAGTAAAAGGG
Found at i:61995253 original size:46 final size:46
Alignment explanation
Indices: 61995203--61995399 Score: 288
Period size: 46 Copynumber: 4.2 Consensus size: 46
61995193 ACAGGACATA
61995203 TAAGTCCATATCAGATATATGGCTTTGGAGACAGGAATGAGCCATG
1 TAAGTCCATATCAGATATATGGCTTTGGAGACAGGAATGAGCCATG
61995249 TAAGTCCATATCAGATATATGGCTTTGGAGACAGGAATGAGCCATG
1 TAAGTCCATATCAGATATATGGCTTTGGAGACAGGAATGAGCCATG
61995295 TAAGTCCATAAT-AGATATATGGCTTTGGAGACAGGAATGAGCCATG
1 TAAGTCCAT-ATCAGATATATGGCTTTGGAGACAGGAATGAGCCATG
* * * * **
61995341 TAAGCCCATATTAGATATATATATGGCATTGGAGACAGGAATAATTCATG
1 TAAGTCCATATCAG----ATATATGGCTTTGGAGACAGGAATGAGCCATG
61995391 TAAGTCCAT
1 TAAGTCCAT
61995400 GTCGAAGACA
Statistics
Matches: 139, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
45 2 0.01
46 99 0.71
47 2 0.01
50 36 0.26
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (46 bp):
TAAGTCCATATCAGATATATGGCTTTGGAGACAGGAATGAGCCATG
Found at i:61998464 original size:55 final size:54
Alignment explanation
Indices: 61998349--61998467 Score: 132
Period size: 55 Copynumber: 2.2 Consensus size: 54
61998339 CTTAAATTTT
* * * *
61998349 TAAA-TCAGTATTGTCCACGGTTAAGCCACACGGACGTGTGCCATAGCCGTGTC
1 TAAAGTCAGTATTGCCCACGGGTAAGCCACACGGACGTGTGCCATAGCCGGGCC
* * * * *
61998402 TATAAGTCAGTATTGCCCACGGGTAGGCCACACGGGCGTGTGTCATGGTCGGGCCC
1 TA-AAGTCAGTATTGCCCACGGGTAAGCCACACGGACGTGTGCCATAGCCGGG-CC
61998458 TAAAGTCAGT
1 TAAAGTCAGT
61998468 GTCCCACACG
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
53 2 0.04
54 2 0.04
55 47 0.87
56 3 0.06
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.24
Consensus pattern (54 bp):
TAAAGTCAGTATTGCCCACGGGTAAGCCACACGGACGTGTGCCATAGCCGGGCC
Found at i:61999872 original size:47 final size:47
Alignment explanation
Indices: 61999784--61999961 Score: 156
Period size: 47 Copynumber: 3.8 Consensus size: 47
61999774 AGGTAAGGTA
61999784 CCGATGCCATGTCCCAGACATAGTCTTACACT-G-ACTATCATCTCGTAG
1 CCGATGCCATGTCCCAGACATAGTCTTACACTAGCAC--TCATCTCGT-G
* *
61999832 CTGATG-CATGTCCTAGACAT-GTCTTACACATAGCACTCATCTCAGTG
1 CCGATGCCATGTCCCAGACATAGTCTTACAC-TAGCACTCATCTC-GTG
* * * * * *
61999879 CCGATGCCATGTCCTAGACATGGTTTTACAATAGC-TTCCATAATGCG-G
1 CCGATGCCATGTCCCAGACATAGTCTTACACTAGCACT-CAT-CT-CGTG
61999927 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCAC
1 CCGATGCCATGTCCCAGACATAGTCTTACACTAGCAC
61999962 ACACAAGTGA
Statistics
Matches: 109, Mismatches: 11, Indels: 21
0.77 0.08 0.15
Matches are distributed among these distances:
46 20 0.18
47 41 0.38
48 36 0.33
49 11 0.10
50 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATAGTCTTACACTAGCACTCATCTCGTG
Found at i:62000306 original size:30 final size:30
Alignment explanation
Indices: 62000265--62000323 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
62000255 AAATTCACAT
*
62000265 CCTTGGTAAAATGACCATTTTGCCCTTAGA
1 CCTTGGGAAAATGACCATTTTGCCCTTAGA
62000295 CCTTGGGAAAATGACCATTTTGCCCTTAG
1 CCTTGGGAAAATGACCATTTTGCCCTTAG
62000324 GCTCAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (30 bp):
CCTTGGGAAAATGACCATTTTGCCCTTAGA
Found at i:62000659 original size:12 final size:12
Alignment explanation
Indices: 62000642--62000666 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
62000632 CAAAAATGTA
62000642 AAAATCATCAAG
1 AAAATCATCAAG
62000654 AAAATCATCAAG
1 AAAATCATCAAG
62000666 A
1 A
62000667 TCACTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:62002305 original size:126 final size:126
Alignment explanation
Indices: 62002080--62002326 Score: 343
Period size: 126 Copynumber: 2.0 Consensus size: 126
62002070 GTACACAGGT
* *
62002080 GTGTGCCTTGGCCGTGTGACATTATGAGCATGCTGACATCAAAAACAAAATACCCAGGTTTTTGC
1 GTGTGCCTTGGCCGTGTGACATTATGAGCATGCTGACATCAAAAACAAAATACCCAGGATTTTAC
** * * * *
62002145 ACATGGGCTAGGACATGAGCATGTCATGGTCGTGTGAGGGACCCAGGCCAATGACATGGGC
66 ACACAGGCAAGGACACGAGCATGTCATGGCCGTGTGAGGGACACAGGCCAATGACATGGGC
* *
62002206 GTGTGCCTTGGCCGCT-TGACATTATGAGCTTGCTGACATCAGAAACAAAATACCCAGGATTTTA
1 GTGTGCCTTGGCCG-TGTGACATTATGAGCATGCTGACATCAAAAACAAAATACCCAGGATTTTA
* * ** *
62002270 CACACATGCAAGGACACGGGTGTGTCGTGGCCGTGTGAGGGACACAGGCCAATGACA
65 CACACAGGCAAGGACACGAGCATGTCATGGCCGTGTGAGGGACACAGGCCAATGACA
62002327 CTAGCATGTG
Statistics
Matches: 105, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
126 104 0.99
127 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (126 bp):
GTGTGCCTTGGCCGTGTGACATTATGAGCATGCTGACATCAAAAACAAAATACCCAGGATTTTAC
ACACAGGCAAGGACACGAGCATGTCATGGCCGTGTGAGGGACACAGGCCAATGACATGGGC
Found at i:62005092 original size:27 final size:27
Alignment explanation
Indices: 62005014--62005256 Score: 274
Period size: 27 Copynumber: 9.0 Consensus size: 27
62005004 TTGTTTTTCA
62005014 CTTATGTGGTAAAATGACTATTTTGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
* *
62005041 CTTTTTGTGGTAAAATGATTATTTTGCC
1 C-TTATGTGGTAAAATGACTATTTTGCC
* * *
62005069 CTTATGTAGTAAAATAACTGTTTTG-C
1 CTTATGTGGTAAAATGACTATTTTGCC
* *
62005095 CTT-TGTGGTAAAATGATTGTTTTGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
* * *
62005121 CTTTTATGGTAAAATGACTATTTTGGC
1 CTTATGTGGTAAAATGACTATTTTGCC
* *
62005148 CTTATGTGGTAAAATTACTATTTTGCT
1 CTTATGTGGTAAAATGACTATTTTGCC
* * *
62005175 CTTATGTGGAAAAATAACTATTTTGCT
1 CTTATGTGGTAAAATGACTATTTTGCC
* * * *
62005202 CTTTTGTGGTAAAATGATTGTTTCGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
* *
62005229 CTTATATGGTAAATTGACTATTTTGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
62005256 C
1 C
62005257 CCATGTGATA
Statistics
Matches: 179, Mismatches: 34, Indels: 6
0.82 0.16 0.03
Matches are distributed among these distances:
25 18 0.10
26 8 0.04
27 128 0.72
28 25 0.14
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (27 bp):
CTTATGTGGTAAAATGACTATTTTGCC
Found at i:62005216 original size:81 final size:80
Alignment explanation
Indices: 62005014--62005255 Score: 317
Period size: 81 Copynumber: 3.0 Consensus size: 80
62005004 TTGTTTTTCA
*
62005014 CTTATGTGGTAAAATGACTATTTTGCCCTTTTTGTGGTAAAATGATTATTTTGCCCTTATGTAGT
1 CTTATGTGGTAAAATGACTATTTTGCCC-TTTTGTGGTAAAATGATTATTTTGCCCTTATGTGGT
* *
62005079 AAAATAACTGTTTTGC
65 AAAATTACTATTTTGC
* * * * *
62005095 CTT-TGTGGTAAAATGATTGTTTTGCCCTTTTATGGTAAAATGACTATTTTGGCCTTATGTGGTA
1 CTTATGTGGTAAAATGACTATTTTGCCCTTTTGTGGTAAAATGATTATTTTGCCCTTATGTGGTA
62005159 AAATTACTATTTTGC
66 AAATTACTATTTTGC
* * * * * *
62005174 TCTTATGTGGAAAAATAACTATTTTGCTCTTTTGTGGTAAAATGATTGTTTCGCCCTTATATGGT
1 -CTTATGTGGTAAAATGACTATTTTGCCCTTTTGTGGTAAAATGATTATTTTGCCCTTATGTGGT
62005239 -AAATTGACTATTTTGC
65 AAAATT-ACTATTTTGC
62005255 C
1 C
62005256 CCCATGTGAT
Statistics
Matches: 139, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
79 46 0.33
80 31 0.22
81 62 0.45
ACGTcount: A:0.25, C:0.12, G:0.18, T:0.45
Consensus pattern (80 bp):
CTTATGTGGTAAAATGACTATTTTGCCCTTTTGTGGTAAAATGATTATTTTGCCCTTATGTGGTA
AAATTACTATTTTGC
Found at i:62005254 original size:54 final size:53
Alignment explanation
Indices: 62005000--62005255 Score: 307
Period size: 54 Copynumber: 4.8 Consensus size: 53
62004990 AATTGATAAC
* *
62005000 ATGATTGTTTTTCACTTATGTGGTAAAATGACTATTTTGCCCTTTTTGTGGTAAA
1 ATGATTGTTTTGCCCTTATGTGGTAAAATGACTATTTTG-CC-TTTTGTGGTAAA
* * * *
62005055 ATGATTATTTTGCCCTTATGTAGTAAAATAACTGTTTTGCC-TTTGTGGTAAA
1 ATGATTGTTTTGCCCTTATGTGGTAAAATGACTATTTTGCCTTTTGTGGTAAA
* * *
62005107 ATGATTGTTTTGCCCTTTTATGGTAAAATGACTATTTTGGCCTTATGTGGTAAA
1 ATGATTGTTTTGCCCTTATGTGGTAAAATGACTATTTT-GCCTTTTGTGGTAAA
* * * * * *
62005161 ATTACTATTTTGCTCTTATGTGGAAAAATAACTATTTTGCTCTTTTGTGGTAAA
1 ATGATTGTTTTGCCCTTATGTGGTAAAATGACTATTTTGC-CTTTTGTGGTAAA
* * *
62005215 ATGATTGTTTCGCCCTTATATGGTAAATTGACTATTTTGCC
1 ATGATTGTTTTGCCCTTATGTGGTAAAATGACTATTTTGCC
62005256 CCCATGTGAT
Statistics
Matches: 167, Mismatches: 31, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
52 43 0.26
53 6 0.04
54 85 0.51
55 33 0.20
ACGTcount: A:0.25, C:0.12, G:0.18, T:0.45
Consensus pattern (53 bp):
ATGATTGTTTTGCCCTTATGTGGTAAAATGACTATTTTGCCTTTTGTGGTAAA
Found at i:62005606 original size:18 final size:18
Alignment explanation
Indices: 62005583--62005619 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
62005573 GGACTTGCAT
*
62005583 ACTGTTTACTGTTACTGC
1 ACTGTTTAATGTTACTGC
*
62005601 ACTGTTTAATTTTACTGC
1 ACTGTTTAATGTTACTGC
62005619 A
1 A
62005620 ATGGGCCAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.46
Consensus pattern (18 bp):
ACTGTTTAATGTTACTGC
Found at i:62008919 original size:27 final size:27
Alignment explanation
Indices: 62008875--62009116 Score: 292
Period size: 27 Copynumber: 9.0 Consensus size: 27
62008865 GCCTAATTGA
* * *
62008875 TAAAATGATTCTTTTGCCCTTACGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* * *
62008902 TAAAATGATTATTCTGCCCTTATGAGG
1 TAAAATGACTATTTTGCCCTTATGTGG
*
62008929 TAAAATGACTATTTTGCCTTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* *
62008956 TAAAATGACTGTTTTACCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
62008983 TAAAATGAC-AGTTTTGCCCTTATGTGG
1 TAAAATGACTA-TTTTGCCCTTATGTGG
62009010 TAAAATGAC-AGTTTTGCCCTTATGTGG
1 TAAAATGACTA-TTTTGCCCTTATGTGG
* * * *
62009037 TAAAATGATTGTTTTACTCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
*
62009064 TAAAATGACTATTTTGCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* *
62009091 TAAATTGACTGTTTTGACCC-TATGTG
1 TAAAATGACTATTTTG-CCCTTATGTG
62009117 TTATATGTTT
Statistics
Matches: 187, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 184 0.98
28 3 0.02
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGG
Found at i:62013837 original size:16 final size:16
Alignment explanation
Indices: 62013794--62013872 Score: 77
Period size: 16 Copynumber: 4.9 Consensus size: 16
62013784 ACCTAAAAAT
**
62013794 AAAAGAAATTGGTAGA
1 AAAAGAAATTGAAAGA
*
62013810 AGAAAAAAATTGAAAGA
1 A-AAAGAAATTGAAAGA
*
62013827 AAAAGAAATTGAAAAA
1 AAAAGAAATTGAAAGA
* ***
62013843 AAAAGAGAGAAAAAGA
1 AAAAGAAATTGAAAGA
62013859 AAAAGAAATTGAAA
1 AAAAGAAATTGAAA
62013873 ACGAGGAAAA
Statistics
Matches: 48, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
16 35 0.73
17 13 0.27
ACGTcount: A:0.70, C:0.00, G:0.19, T:0.11
Consensus pattern (16 bp):
AAAAGAAATTGAAAGA
Found at i:62013840 original size:26 final size:26
Alignment explanation
Indices: 62013811--62013860 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
62013801 ATTGGTAGAA
**
62013811 GAAAAAAATTGAAAGAAAAAGAAATT
1 GAAAAAAAAAGAAAGAAAAAGAAATT
*
62013837 GAAAAAAAAAGAGAGAAAAAGAAA
1 GAAAAAAAAAGAAAGAAAAAGAAA
62013861 AAGAAATTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (26 bp):
GAAAAAAAAAGAAAGAAAAAGAAATT
Found at i:62013866 original size:26 final size:26
Alignment explanation
Indices: 62013809--62013901 Score: 71
Period size: 26 Copynumber: 3.5 Consensus size: 26
62013799 AAATTGGTAG
** *
62013809 AAGAAAAAAATTGAAAGAAAAAGAAA
1 AAGAAAAAAAAAGAGAGAAAAAGAAA
**
62013835 TTGAAAAAAAAAGAGAGAAAAAGAAA
1 AAGAAAAAAAAAGAGAGAAAAAGAAA
* * *
62013861 AAGAAATTGAAAACGAG-GAAAAAGAGA
1 AAGAAA--AAAAAAGAGAGAAAAAGAAA
**
62013888 GTGAAAAAAAAAGA
1 AAGAAAAAAAAAGA
62013902 CAATGTGAAA
Statistics
Matches: 51, Mismatches: 14, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
25 6 0.12
26 25 0.49
27 13 0.25
28 7 0.14
ACGTcount: A:0.71, C:0.01, G:0.20, T:0.08
Consensus pattern (26 bp):
AAGAAAAAAAAAGAGAGAAAAAGAAA
Found at i:62013899 original size:37 final size:33
Alignment explanation
Indices: 62013820--62013911 Score: 89
Period size: 37 Copynumber: 2.6 Consensus size: 33
62013810 AGAAAAAAAT
*
62013820 TGAAAGAAAAAGAAATTG-AAAAAAAAAGAGAG
1 TGAAAAAAAAAGAAATTGAAAAAAAAAAGAGAG
*
62013852 -AAAAAGAAAAAGAAATTGAAAACGAGGAAAAAGAGAG
1 TGAAAA-AAAAAGAAATTGAAAA--A--AAAAAGAGAG
62013889 TGAAAAAAAAAGACAATGTGAAA
1 TGAAAAAAAAAGA-AAT-TGAAA
62013912 GGTGAATGTT
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
31 3 0.06
32 12 0.25
33 3 0.06
35 1 0.02
37 17 0.35
38 7 0.15
39 5 0.10
ACGTcount: A:0.67, C:0.02, G:0.22, T:0.09
Consensus pattern (33 bp):
TGAAAAAAAAAGAAATTGAAAAAAAAAAGAGAG
Found at i:62016893 original size:47 final size:47
Alignment explanation
Indices: 62016839--62017196 Score: 583
Period size: 47 Copynumber: 7.6 Consensus size: 47
62016829 TATTTGAATA
62016839 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
62016886 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGCTG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
62016933 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
62016982 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
62017029 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
62017076 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * *
62017123 AATGTGAAAGTGTATATATGTGATAGGGCCGAA-GTGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATG-GCCGATGTGATG
* *
62017170 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
62017197 TCCCGAAGGG
Statistics
Matches: 295, Mismatches: 13, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 250 0.85
49 44 0.15
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:62020727 original size:5 final size:5
Alignment explanation
Indices: 62020711--62020742 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
62020701 CTCCAAAATC
*
62020711 ACCAA ACTAA ACCAA ACCAA ACCAA ACCAA AC
1 ACCAA ACCAA ACCAA ACCAA ACCAA ACCAA AC
62020743 TAGTATGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.59, C:0.38, G:0.00, T:0.03
Consensus pattern (5 bp):
ACCAA
Found at i:62024000 original size:27 final size:27
Alignment explanation
Indices: 62023970--62024143 Score: 197
Period size: 27 Copynumber: 6.4 Consensus size: 27
62023960 TGAGTCCGCT
* * * *
62023970 CACTCAGTGCTATATAATCAACTCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
* *
62023997 CACTTAGTGCTACGTAATCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
62024024 CACTTAGTGCTACATAGTCAAACTCGCA
1 CACTTAGTGCTACATAGTCAAA-TCGCA
** * *
62024052 CACTTAGTGCCGCATGGTCAATTCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
* **
62024079 CACTTAGTGC-ATCATATTCATTTCGCA
1 CACTTAGTGCTA-CATAGTCAAATCGCA
*
62024106 CACTTAGTGCAACATAGTCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
62024133 CACTTAGTGCT
1 CACTTAGTGCT
62024144 GTACAATTTA
Statistics
Matches: 126, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CACTTAGTGCTACATAGTCAAATCGCA
Found at i:62024112 original size:82 final size:81
Alignment explanation
Indices: 62023987--62024142 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
62023977 TGCTATATAA
* *
62023987 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
62024052 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
62024069 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
62024133 CACTTAGTGC
65 CACTTAGTGC
62024143 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:62032042 original size:27 final size:27
Alignment explanation
Indices: 62032012--62032185 Score: 197
Period size: 27 Copynumber: 6.4 Consensus size: 27
62032002 TGAGTCCGCT
* * * *
62032012 CACTCAGTGCTATATAATCAACTCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
* *
62032039 CACTTAGTGCTACGTAATCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
62032066 CACTTAGTGCTACATAGTCAAACTCGCA
1 CACTTAGTGCTACATAGTCAAA-TCGCA
** * *
62032094 CACTTAGTGCCGCATGGTCAATTCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
* **
62032121 CACTTAGTGC-ATCATATTCATTTCGCA
1 CACTTAGTGCTA-CATAGTCAAATCGCA
*
62032148 CACTTAGTGCAACATAGTCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
62032175 CACTTAGTGCT
1 CACTTAGTGCT
62032186 GTACAATTTA
Statistics
Matches: 126, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CACTTAGTGCTACATAGTCAAATCGCA
Found at i:62032154 original size:82 final size:81
Alignment explanation
Indices: 62032029--62032184 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
62032019 TGCTATATAA
* *
62032029 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
62032094 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
62032111 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
62032175 CACTTAGTGC
65 CACTTAGTGC
62032185 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:62034056 original size:12 final size:12
Alignment explanation
Indices: 62033965--62034057 Score: 50
Period size: 12 Copynumber: 7.7 Consensus size: 12
62033955 GTACTTTACT
62033965 AATTTAATATTA
1 AATTTAATATTA
* * * *
62033977 AAGTGATTATCTT
1 AATTTAATAT-TA
62033990 AATGTTAA-ATTA
1 AAT-TTAATATTA
*
62034002 AATTAAATATTA
1 AATTTAATATTA
62034014 AATTTATAAATATTA
1 AA-TT-T-AATATTA
*
62034029 AA--T-ATAGTA
1 AATTTAATATTA
*
62034038 GATTTAATATTA
1 AATTTAATATTA
62034050 AATTTAAT
1 AATTTAAT
62034058 CTAATATTTA
Statistics
Matches: 58, Mismatches: 14, Indels: 18
0.64 0.16 0.20
Matches are distributed among these distances:
9 6 0.10
11 5 0.09
12 29 0.50
13 7 0.12
14 2 0.03
15 9 0.16
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.45
Consensus pattern (12 bp):
AATTTAATATTA
Found at i:62038686 original size:40 final size:40
Alignment explanation
Indices: 62038631--62038842 Score: 315
Period size: 40 Copynumber: 5.4 Consensus size: 40
62038621 ATGATAACCA
62038631 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
62038671 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
*
62038711 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
* * *
62038751 GGCTAAGTCCCGAAGGCAATTGTCCGAGTTACTATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
* * *
62038790 GGCTAAGT-CCGAA-GCATTTGAGCGAGTAACTATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
**
62038827 GGCTAAACCCCGAAGG
1 GGCTAAGTCCCGAAGG
62038843 TACTTGGTTG
Statistics
Matches: 159, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
37 26 0.16
38 10 0.06
39 9 0.06
40 114 0.72
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
Found at i:62044126 original size:43 final size:43
Alignment explanation
Indices: 62044079--62044174 Score: 120
Period size: 43 Copynumber: 2.2 Consensus size: 43
62044069 TCTAGGACGT
* * * *
62044079 TGGCATCGATTTGAGATATCGTGTAAGATCGTGTCTGGGACAC
1 TGGCATCGATTAGAGATATCGTGTAAGACCCTATCTGGGACAC
* * *
62044122 TGGCATCAATTAGAGATTTCGTGTAAGACCCTATCTGGGACAG
1 TGGCATCGATTAGAGATATCGTGTAAGACCCTATCTGGGACAC
*
62044165 TGACATCGAT
1 TGGCATCGAT
62044175 ATGTGATTAC
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (43 bp):
TGGCATCGATTAGAGATATCGTGTAAGACCCTATCTGGGACAC
Found at i:62044266 original size:90 final size:90
Alignment explanation
Indices: 62044144--62044317 Score: 267
Period size: 90 Copynumber: 1.9 Consensus size: 90
62044134 GAGATTTCGT
* * *
62044144 GTAAGACCCTATCTGGGACAGTGACATCGATATGTGATTACATGTAAGACTACATCTAGGATGTT
1 GTAAGACCCTATCTGAGACAGTGACATCGATATGTGATTACATGTAAGACCACATCTAGGAAGTT
62044209 GGCATTGTACAATATGTGTTTATGA
66 GGCATTGTACAATATGTGTTTATGA
* * * * * *
62044234 GTAAGACCCTGTCTGAGACAGTGGCATTGATATGTGATTACATGTAAGACCACGTTTGGGAAGTT
1 GTAAGACCCTATCTGAGACAGTGACATCGATATGTGATTACATGTAAGACCACATCTAGGAAGTT
62044299 GGCATTGTACAATATGTGT
66 GGCATTGTACAATATGTGT
62044318 GACAATCCGA
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
90 75 1.00
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (90 bp):
GTAAGACCCTATCTGAGACAGTGACATCGATATGTGATTACATGTAAGACCACATCTAGGAAGTT
GGCATTGTACAATATGTGTTTATGA
Found at i:62044302 original size:43 final size:43
Alignment explanation
Indices: 62044155--62044305 Score: 112
Period size: 43 Copynumber: 3.4 Consensus size: 43
62044145 TAAGACCCTA
* * * *
62044155 TCTGGGACAG-TGACATCGATATGTGATTACATGTAAGACTACA
1 TCTGGGA-AGTTGGCATTGATATGTGATTACATGTAAGACCACG
* * * *
62044198 TCTAGGATGTTGGCATTGTACAATATGTGTTTATGA-GTAAGACC-CTG
1 TCTGGGAAGTTGGCATTG----ATATGTGATTA-CATGTAAGACCAC-G
*
62044245 TCTGAGACAG-TGGCATTGATATGTGATTACATGTAAGACCACG
1 TCTGGGA-AGTTGGCATTGATATGTGATTACATGTAAGACCACG
*
62044288 TTTGGGAAGTTGGCATTG
1 TCTGGGAAGTTGGCATTG
62044306 TACAATATGT
Statistics
Matches: 82, Mismatches: 15, Indels: 22
0.69 0.13 0.18
Matches are distributed among these distances:
42 4 0.05
43 44 0.54
44 1 0.01
46 1 0.01
47 30 0.37
48 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (43 bp):
TCTGGGAAGTTGGCATTGATATGTGATTACATGTAAGACCACG
Found at i:62054645 original size:6 final size:6
Alignment explanation
Indices: 62054634--62054662 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
62054624 TTCAAACTAC
62054634 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
62054663 TAATAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:62059765 original size:43 final size:43
Alignment explanation
Indices: 62059712--62059797 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
62059702 GATCTATGTG
* *
62059712 GCATCCGAGCTCGTTGAGAGGTCTAAGTTCATTATGGATGCGA
1 GCATCCGAGCTCGTTAAGAGGTCTAAGTTCATAATGGATGCGA
* * *
62059755 GCATCCGAGCTTGTTAAGAGGTTTGAGTTCATAATGGATGCGA
1 GCATCCGAGCTCGTTAAGAGGTCTAAGTTCATAATGGATGCGA
62059798 TTCATGTAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.29
Consensus pattern (43 bp):
GCATCCGAGCTCGTTAAGAGGTCTAAGTTCATAATGGATGCGA
Found at i:62061992 original size:32 final size:32
Alignment explanation
Indices: 62061954--62062029 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 32
62061944 CCTTTAGTAG
* *
62061954 CGGTATTATAATTGGCACAAAGCCATCGGTAA
1 CGGTATTATAATTGGCACAAAGCCATAGGCAA
* ** *
62061986 CTGTATTATGTTTGGCACATAGCCATAGGCAA
1 CGGTATTATAATTGGCACAAAGCCATAGGCAA
*
62062018 CGGTAATATAAT
1 CGGTATTATAAT
62062030 CGACACACAA
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (32 bp):
CGGTATTATAATTGGCACAAAGCCATAGGCAA
Found at i:62062065 original size:12 final size:12
Alignment explanation
Indices: 62062048--62062073 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
62062038 AACCTTGGGT
62062048 AAGTATGATCGA
1 AAGTATGATCGA
62062060 AAGTATGATCGA
1 AAGTATGATCGA
62062072 AA
1 AA
62062074 CTAAGTCATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (12 bp):
AAGTATGATCGA
Found at i:62062552 original size:27 final size:26
Alignment explanation
Indices: 62062479--62062552 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 26
62062469 TAGGCCAAGT
62062479 CAGTCATTTACCC-ACAAGGGCAAAA
1 CAGTCATTTACCCTACAAGGGCAAAA
* ***
62062504 CAGTCATTTTACTCTTTTAGGGCAAAA
1 CAGTCA-TTTACCCTACAAGGGCAAAA
*
62062531 CGGTCATTATACCCTACAAGGG
1 CAGTCATT-TACCCTACAAGGG
62062553 TATTTCGGTA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
25 6 0.16
26 8 0.22
27 23 0.62
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (26 bp):
CAGTCATTTACCCTACAAGGGCAAAA
Found at i:62062579 original size:27 final size:27
Alignment explanation
Indices: 62062549--62062600 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
62062539 ATACCCTACA
*
62062549 AGGGTATTTCGGTAATTTCAAAAATTG
1 AGGGTATTTCGATAATTTCAAAAATTG
* *
62062576 AGGGTATTTTGATAATTTCACAAAT
1 AGGGTATTTCGATAATTTCAAAAAT
62062601 CAGGGGTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTCAAAAATTG
Found at i:62062607 original size:27 final size:27
Alignment explanation
Indices: 62062549--62062612 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
62062539 ATACCCTACA
* *
62062549 AGGGTATTTCGGTAATTTCAAAAATTG
1 AGGGTATTTCGATAATTTCAAAAATAG
* *
62062576 AGGGTATTTTGATAATTTCACAAATCAG
1 AGGGTATTTCGATAATTTCAAAAAT-AG
62062604 -GGGTATTTC
1 AGGGTATTTC
62062613 AATCATTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTCAAAAATAG
Found at i:62065456 original size:46 final size:47
Alignment explanation
Indices: 62065381--62065645 Score: 210
Period size: 46 Copynumber: 5.7 Consensus size: 47
62065371 TGTAACCCGC
* * *
62065381 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCAGG-TGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGGATGTTCGCAT
* * * *
62065427 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTC-GGATGGCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGGAT-GTTCGCAT
* * * **
62065473 ACATTTCA-TGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCAGGATGTTCGCAT
* * **
62065520 CCATAAGTGAACTCGGACTTAACTCAACTAGTTC-GGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGGATG--T--TCGCAT
* * *
62065570 -C-TCA-CGAACTCGGACTCAACTCAACAAGTTCAGGCA--TTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGG-ATGTTCGCAT
62065613 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
62065646 TGGATGCCCA
Statistics
Matches: 170, Mismatches: 34, Indels: 30
0.73 0.15 0.13
Matches are distributed among these distances:
43 4 0.02
44 1 0.01
45 7 0.04
46 86 0.51
47 59 0.35
48 7 0.04
49 2 0.01
50 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGGATGTTCGCAT
Found at i:62065496 original size:47 final size:46
Alignment explanation
Indices: 62065434--62065652 Score: 177
Period size: 47 Copynumber: 4.7 Consensus size: 46
62065424 CATCCGTAAG
*
62065434 TGAACTCGGACTCAACTCAACGAGTTCGGATGGCTAGTTACATTTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGAT-GCTAGTTACATATCA
* * *
62065481 TGAACTCGGACTCAACTCAACGAGCTCGGA--C-A-TTCGCATCCATAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTAGTT-ACAT--ATCA
* * *
62065526 GTGAACTCGGACTTAACTCAACTAGTTCGGATGCCTAGTTACATCTCA
1 -TGAACTCGGACTCAACTCAACGAGTTCGGATG-CTAGTTACATATCA
* * *
62065574 CGAACTCGGACTCAACTCAACAAGTTCAGGCATTCGC-A--TCCATA--A
1 TGAACTCGGACTCAACTCAACGAGTTC-GG-A-T-GCTAGTTACATATCA
*
62065619 GTGAACTCGGACTCAACTCAACGAGTTTGGATGC
1 -TGAACTCGGACTCAACTCAACGAGTTCGGATGC
62065653 CCAAATATCC
Statistics
Matches: 140, Mismatches: 18, Indels: 33
0.73 0.09 0.17
Matches are distributed among these distances:
42 4 0.03
43 5 0.04
44 2 0.01
45 5 0.04
46 51 0.36
47 57 0.41
48 4 0.03
49 3 0.02
50 6 0.04
51 3 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTAGTTACATATCA
Found at i:62065504 original size:93 final size:93
Alignment explanation
Indices: 62065388--62065653 Score: 408
Period size: 93 Copynumber: 2.9 Consensus size: 93
62065378 CGCCCATAAG
* ** *
62065388 CGAACTCAGACTCAACTCAACGAGCTCAGGTGTTCGCATCCGTAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
62065453 ACGAGTTCGGATGGCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
62065481 TGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTTAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
*
62065545 AACTAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
* *
62065574 CGAACTCGGACTCAACTCAACAAGTTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
62065639 ACGAGTTTGGATGCC
66 ACGAGTTCGGATGCC
62065654 CAAATATCCT
Statistics
Matches: 156, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
92 2 0.01
93 152 0.97
94 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:62067960 original size:15 final size:15
Alignment explanation
Indices: 62067912--62067980 Score: 61
Period size: 15 Copynumber: 4.7 Consensus size: 15
62067902 TAAAGATAAC
*
62067912 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
* *
62067926 AAGAAATCCA-AGATT
1 AAGAAACCCAGA-ATA
*
62067941 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
* *
62067956 AAGAAATCTAGAATA
1 AAGAAACCCAGAATA
62067971 AAGAAACCCA
1 AAGAAACCCA
62067981 AGATACGATA
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
14 9 0.21
15 32 0.76
16 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.14, T:0.12
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:62067976 original size:30 final size:30
Alignment explanation
Indices: 62067912--62067980 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
62067902 TAAAGATAAC
* *
62067912 AAGAAAACC-GAATAAAGAAATCCAAGATT
1 AAGAAACCCAGAATAAAGAAATCCAAGATA
* *
62067941 GAGAAACCCAGAATAAAGAAAT-CTAGAATA
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATA
62067971 AAGAAACCCA
1 AAGAAACCCA
62067981 AGATACGATA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 10 0.30
30 23 0.70
ACGTcount: A:0.58, C:0.16, G:0.14, T:0.12
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATA
Found at i:62078366 original size:40 final size:40
Alignment explanation
Indices: 62078303--62078519 Score: 323
Period size: 40 Copynumber: 5.5 Consensus size: 40
62078293 CAACCAAGTA
* * * *
62078303 CCTTCGGG-TTTAG-CCGGATATAGTTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
** *
62078341 CC-TCGGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTC-GGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
*
62078381 CCTTCGGGACTTAGCCCGAAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
62078421 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
*
62078461 CCTTCGGGACTTAGCCCGAAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
62078501 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
62078520 TTATCATCCG
Statistics
Matches: 163, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
37 2 0.01
38 5 0.03
39 4 0.02
40 150 0.92
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
Found at i:62080773 original size:30 final size:30
Alignment explanation
Indices: 62080737--62080804 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
62080727 TGTGTCTTAG
*
62080737 CCGTGTGTGACACACGATCACGTTACACGA
1 CCGTGTGTAACACACGATCACGTTACACGA
*
62080767 CCGTGTGTAACAGACGATCACGTTACACGA
1 CCGTGTGTAACACACGATCACGTTACACGA
*
62080797 CTGTGTGT
1 CCGTGTGT
62080805 CCCTTGGGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.24
Consensus pattern (30 bp):
CCGTGTGTAACACACGATCACGTTACACGA
Found at i:62083175 original size:19 final size:19
Alignment explanation
Indices: 62083138--62083175 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
62083128 TTATTTATGG
**
62083138 TCATATACTTTCATGTATA
1 TCATATACTTTCACATATA
62083157 TCATATACTTTCACATATA
1 TCATATACTTTCACATATA
62083176 AACTTATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.18, G:0.03, T:0.45
Consensus pattern (19 bp):
TCATATACTTTCACATATA
Found at i:62084358 original size:24 final size:25
Alignment explanation
Indices: 62084325--62084371 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
62084315 AATTAACATC
*
62084325 ACATAGCTC-AAATATTCATCAATG
1 ACATAACTCAAAATATTCATCAATG
62084349 ACATAACTCAAAATATTCATCAA
1 ACATAACTCAAAATATTCATCAA
62084372 ATAAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.47, C:0.21, G:0.04, T:0.28
Consensus pattern (25 bp):
ACATAACTCAAAATATTCATCAATG
Found at i:62084384 original size:25 final size:25
Alignment explanation
Indices: 62084334--62084384 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
62084324 CACATAGCTC
* *
62084334 AAATATTCATCAATGACATAACTCA
1 AAATATTCATCAATGAAAAAACTCA
*
62084359 AAATATTCATCAAAT-AAAAAATTCA
1 AAATATTCATC-AATGAAAAAACTCA
62084384 A
1 A
62084385 GCATGGGCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 19 0.86
26 3 0.14
ACGTcount: A:0.55, C:0.16, G:0.02, T:0.27
Consensus pattern (25 bp):
AAATATTCATCAATGAAAAAACTCA
Done.