Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 290 of 311
Found at i:94345196 original size:31 final size:31
Alignment explanation
Indices: 94345158--94345233 Score: 107
Period size: 31 Copynumber: 2.5 Consensus size: 31
94345148 CATTTACAGT
* * *
94345158 AAAGGCTTTGTCCTAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
94345189 AAAGGCTTCGGCCCAGTGGTATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
94345220 AAAGGCTTCGGCCC
1 AAAGGCTTCGGCCC
94345234 CGTATATACT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:94348137 original size:40 final size:40
Alignment explanation
Indices: 94348077--94348260 Score: 235
Period size: 40 Copynumber: 4.6 Consensus size: 40
94348067 TATTCGAATG
* * *
94348077 ATATCCGGGTTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * * *
94348117 ATATCCGGACTAAGATCCGAAGACATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGACT
* *
94348157 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * *
94348197 ATATCTGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
94348237 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
94348261 CTTGTGTGAG
Statistics
Matches: 122, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 119 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:94348565 original size:22 final size:22
Alignment explanation
Indices: 94348523--94348566 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
94348513 AAAATGTGCA
* *
94348523 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
94348545 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
94348567 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:94354933 original size:9 final size:9
Alignment explanation
Indices: 94354919--94355083 Score: 99
Period size: 9 Copynumber: 17.9 Consensus size: 9
94354909 AGGGATTATC
94354919 TTATGTAAA
1 TTATGTAAA
94354928 TTATGTAAGA
1 TTATGTAA-A
94354938 -TATGATATATA
1 TTATG-TA-A-A
94354949 TTTATGT--A
1 -TTATGTAAA
**
94354957 TTATGTAGG
1 TTATGTAAA
94354966 TTATGTAAA
1 TTATGTAAA
*
94354975 TTATGTAAG
1 TTATGTAAA
* **
94354984 TTATTTATC
1 TTATGTAAA
94354993 TTATGTAAA
1 TTATGTAAA
94355002 TTATGTAAGA
1 TTATGTAA-A
94355012 -TATGATACATCA
1 TTATG-TA-A--A
94355024 TTATGT--A
1 TTATGTAAA
*
94355031 TTATGTAAG
1 TTATGTAAA
94355040 TTATGTAAA
1 TTATGTAAA
*
94355049 TTATGTAAG
1 TTATGTAAA
* **
94355058 TTATTTATC
1 TTATGTAAA
94355067 TTATGTAAA
1 TTATGTAAA
94355076 TTATGTAA
1 TTATGTAA
94355084 GATATGATAT
Statistics
Matches: 121, Mismatches: 21, Indels: 28
0.71 0.12 0.16
Matches are distributed among these distances:
7 13 0.11
8 1 0.01
9 87 0.72
10 6 0.05
11 3 0.02
12 3 0.02
13 8 0.07
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.47
Consensus pattern (9 bp):
TTATGTAAA
Found at i:94355035 original size:74 final size:74
Alignment explanation
Indices: 94354914--94355104 Score: 339
Period size: 74 Copynumber: 2.6 Consensus size: 74
94354904 ATAAAAGGGA
* *
94354914 TTATCTTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAGGTTATGTAAATTAT
1 TTATCTTATGTAAATTATGTAAGATATGATACATATTTATGTATTATGTAAGTTATGTAAATTAT
94354979 GTAAGTTAT
66 GTAAGTTAT
94354988 TTATCTTATGTAAATTATGTAAGATATGATACATCA-TTATGTATTATGTAAGTTATGTAAATTA
1 TTATCTTATGTAAATTATGTAAGATATGATACAT-ATTTATGTATTATGTAAGTTATGTAAATTA
94355052 TGTAAGTTAT
65 TGTAAGTTAT
*
94355062 TTATCTTATGTAAATTATGTAAGATATGATATATATTTATGTA
1 TTATCTTATGTAAATTATGTAAGATATGATACATATTTATGTA
94355105 CTGTGATTGT
Statistics
Matches: 112, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
73 1 0.01
74 110 0.98
75 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.14, T:0.48
Consensus pattern (74 bp):
TTATCTTATGTAAATTATGTAAGATATGATACATATTTATGTATTATGTAAGTTATGTAAATTAT
GTAAGTTAT
Found at i:94355311 original size:14 final size:14
Alignment explanation
Indices: 94355292--94355336 Score: 74
Period size: 14 Copynumber: 3.3 Consensus size: 14
94355282 TAAAATAAAA
94355292 TAAAATAAAATATT
1 TAAAATAAAATATT
*
94355306 TAAAATAAAACATT
1 TAAAATAAAATATT
94355320 TAAAATAAAAT-TT
1 TAAAATAAAATATT
94355333 TAAA
1 TAAA
94355337 TACAATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
13 6 0.21
14 23 0.79
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAAATAAAATATT
Found at i:94355394 original size:119 final size:119
Alignment explanation
Indices: 94355227--94355663 Score: 681
Period size: 119 Copynumber: 3.8 Consensus size: 119
94355217 AATAATGAAT
*
94355227 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCATGATTAAAATAAAA
1 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCCTGATTAAAATAAAA
94355292 TAAAATAAAATATTTAAAATAAAACATTTAAAATAAAATTTTAAATACAATTTA
66 TAAAATAAAATATTTAAAATAAAACATTTAAAATAAAATTTTAAATACAATTTA
94355346 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCCTGATTAAAATAAAA
1 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCCTGATTAAAATAAAA
*
94355411 TAAAATAAAATATTTAAAATAAAATATTTAAAATAAAATTTTAAATACAATTTA
66 TAAAATAAAATATTTAAAATAAAACATTTAAAATAAAATTTTAAATACAATTTA
94355465 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCCTGATTAAAATAAAA
1 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCCTGATTAAAATAAAA
94355530 TAAAATAAAATATTTAAAAT--AA-ATTT----T-AAA---T----ACAATTTA
66 TAAAATAAAATATTTAAAATAAAACATTTAAAATAAAATTTTAAATACAATTTA
* * * *
94355569 ATTTAATTAGGTAATTTAAAATTAAAATAAAAGTAGACAAAATATTTATCGTGATTAAATTAAAA
1 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCCTGATTAAAATAAAA
* * *
94355634 TAAAATAATATCTTCAAAATAAAAC-TTTAA
66 TAAAATAAAATATTTAAAATAAAACATTTAA
94355664 TTACAATTTA
Statistics
Matches: 304, Mismatches: 9, Indels: 21
0.91 0.03 0.06
Matches are distributed among these distances:
104 86 0.28
106 5 0.02
108 1 0.00
111 3 0.01
112 1 0.00
116 4 0.01
117 2 0.01
119 202 0.66
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (119 bp):
ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCCTGATTAAAATAAAA
TAAAATAAAATATTTAAAATAAAACATTTAAAATAAAATTTTAAATACAATTTA
Found at i:94355407 original size:104 final size:105
Alignment explanation
Indices: 94355306--94355682 Score: 515
Period size: 104 Copynumber: 3.5 Consensus size: 105
94355296 ATAAAATATT
94355306 TAAAATAAAACATTTAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAA
1 TAAAATAAAACATTTAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAA
94355371 AATAAAAGTAGACAAAATATTTTTCCTGATTAAAATAAAATAAAATAAAATA
66 AATAAAAGTAGACAAAATATTTTTCCTG------AT----TAAAAT-AAA-A
*
94355423 TTTAAAATAAAATATTTAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAAT
1 --TAAAATAAAACATTTAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAAT
94355488 AAAATAAAAGTAGACAAAATATTTTTCCTGATTAAAATAAAA
64 AAAATAAAAGTAGACAAAATATTTTTCCTGATTAAAATAAAA
* *
94355530 TAAAATAAAATATTTAAAAT-AAATTTTAAATACAATTTAATTTAATTAGGTAATTTAAAATTAA
1 TAAAATAAAACATTTAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAA
* * *
94355594 AATAAAAGTAGACAAAATATTTATCGTGATTAAATTAAAA
66 AATAAAAGTAGACAAAATATTTTTCCTGATTAAAATAAAA
* * * *
94355634 TAAAATAATATC-TTCAAAATAAAACTTTAATTACAATTTAATTTAATTA
1 TAAAATAA-AACATTTAAAATAAAATTTTAAATACAATTTAATTTAATTA
94355683 ATAAGGTTAA
Statistics
Matches: 246, Mismatches: 10, Indels: 18
0.90 0.04 0.07
Matches are distributed among these distances:
104 95 0.39
105 47 0.19
107 1 0.00
108 3 0.01
109 6 0.02
113 2 0.01
119 92 0.37
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.36
Consensus pattern (105 bp):
TAAAATAAAACATTTAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAA
AATAAAAGTAGACAAAATATTTTTCCTGATTAAAATAAAA
Found at i:94355457 original size:12 final size:14
Alignment explanation
Indices: 94355411--94355455 Score: 83
Period size: 14 Copynumber: 3.3 Consensus size: 14
94355401 TAAAATAAAA
94355411 TAAAATAAAATATT
1 TAAAATAAAATATT
94355425 TAAAATAAAATATT
1 TAAAATAAAATATT
94355439 TAAAATAAAAT-TT
1 TAAAATAAAATATT
94355452 TAAA
1 TAAA
94355456 TACAATTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
13 6 0.19
14 25 0.81
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TAAAATAAAATATT
Found at i:94355462 original size:12 final size:12
Alignment explanation
Indices: 94355413--94355463 Score: 57
Period size: 14 Copynumber: 3.9 Consensus size: 12
94355403 AAATAAAATA
94355413 AAATAAAATATTT
1 AAATAAAAT-TTT
94355426 AAAATAAAATATTT
1 -AAATAAAAT-TTT
94355440 AAAATAAAATTTT
1 -AAATAAAATTTT
*
94355453 AAATACAATTT
1 AAATAAAATTT
94355464 AATTTAATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
12 10 0.28
13 3 0.08
14 23 0.64
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (12 bp):
AAATAAAATTTT
Found at i:94360122 original size:16 final size:16
Alignment explanation
Indices: 94360097--94360127 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
94360087 TTATTTAATA
*
94360097 TATAATTTAAAAAAAG
1 TATAAATTAAAAAAAG
94360113 TATAAATTAAAAAAA
1 TATAAATTAAAAAAA
94360128 TCACTTATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
TATAAATTAAAAAAAG
Found at i:94360260 original size:16 final size:16
Alignment explanation
Indices: 94360239--94360292 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
94360229 AGAATTAGAT
94360239 AAAATTTGAAATCTTG
1 AAAATTTGAAATCTTG
94360255 AAAA-TT---A--TTG
1 AAAATTTGAAATCTTG
*
94360265 AAAATTTGAAATCTTT
1 AAAATTTGAAATCTTG
94360281 AAAATTTGAAAT
1 AAAATTTGAAAT
94360293 TATTTAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
10 7 0.23
11 2 0.06
12 1 0.03
14 1 0.03
15 2 0.06
16 18 0.58
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (16 bp):
AAAATTTGAAATCTTG
Found at i:94360552 original size:22 final size:21
Alignment explanation
Indices: 94360527--94360592 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 21
94360517 TAAACCATAT
*
94360527 ACCCTTAACCCTTAACCCTTGG
1 ACCCTTAACCCTTAACCCTT-A
*
94360549 ACCCTTAACTCCTAAACCCTTA
1 ACCCTTAAC-CCTTAACCCTTA
* *
94360571 ACCTTTAACCTTTAACCCTTA
1 ACCCTTAACCCTTAACCCTTA
94360592 A
1 A
94360593 ATCATAAACC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
21 11 0.29
22 17 0.45
23 10 0.26
ACGTcount: A:0.29, C:0.38, G:0.03, T:0.30
Consensus pattern (21 bp):
ACCCTTAACCCTTAACCCTTA
Found at i:94360590 original size:15 final size:15
Alignment explanation
Indices: 94360527--94360590 Score: 62
Period size: 15 Copynumber: 4.4 Consensus size: 15
94360517 TAAACCATAT
94360527 ACCC-TTAACCCTTA
1 ACCCTTTAACCCTTA
**
94360541 ACCCTTGGACCCTTA
1 ACCCTTTAACCCTTA
*
94360556 ACTCC-TAAACCCTTA
1 AC-CCTTTAACCCTTA
*
94360571 A-CCTTTAACCTTTA
1 ACCCTTTAACCCTTA
94360585 ACCCTT
1 ACCCTT
94360591 AAATCATAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
13 2 0.05
14 13 0.32
15 23 0.57
16 2 0.05
ACGTcount: A:0.27, C:0.39, G:0.03, T:0.31
Consensus pattern (15 bp):
ACCCTTTAACCCTTA
Found at i:94360658 original size:15 final size:14
Alignment explanation
Indices: 94360638--94360671 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
94360628 AACCATAAAT
*
94360638 CATAATCCCTAAGTC
1 CATAATCCATAA-TC
94360653 CATAATCCATAATC
1 CATAATCCATAATC
94360667 CATAA
1 CATAA
94360672 ACCTTGAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.41, C:0.29, G:0.03, T:0.26
Consensus pattern (14 bp):
CATAATCCATAATC
Found at i:94360661 original size:7 final size:7
Alignment explanation
Indices: 94360638--94360671 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
94360628 AACCATAAAT
94360638 CATAATC
1 CATAATC
*
94360645 CCTAAGTC
1 CATAA-TC
94360653 CATAATC
1 CATAATC
94360660 CATAATC
1 CATAATC
94360667 CATAA
1 CATAA
94360672 ACCTTGAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.41, C:0.29, G:0.03, T:0.26
Consensus pattern (7 bp):
CATAATC
Found at i:94360711 original size:15 final size:14
Alignment explanation
Indices: 94360691--94360730 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
94360681 TATTAACTCA
94360691 TAAACCATAAACCCC
1 TAAACCATAAA-CCC
*
94360706 TAAACCTTAAACCC
1 TAAACCATAAACCC
94360720 TAAACCCATAA
1 TAAA-CCATAA
94360731 TTCATAAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.17
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:94360738 original size:22 final size:22
Alignment explanation
Indices: 94360688--94360745 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
94360678 AGATATTAAC
*
94360688 TCATAAACCATAAACCCCTAAA
1 TCATAAACCATAAACCCATAAA
* * * *
94360710 CCTTAAACCCTAAACCCATAAT
1 TCATAAACCATAAACCCATAAA
*
94360732 TCATAAACCTTAAA
1 TCATAAACCATAAA
94360746 ATATTAACTC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (22 bp):
TCATAAACCATAAACCCATAAA
Found at i:94360805 original size:14 final size:14
Alignment explanation
Indices: 94360689--94360811 Score: 57
Period size: 14 Copynumber: 8.4 Consensus size: 14
94360679 GATATTAACT
*
94360689 CATAAACCATAAACC
1 CATAAACCTTAAA-C
*
94360704 CCTAAACCTTAAAC
1 CATAAACCTTAAAC
* * **
94360718 CCTAAACCCATAATT
1 CATAAA-CCTTAAAC
*
94360733 CATAAACCTTAAAA
1 CATAAACCTTAAAC
* *
94360747 TATTAACTCATCATAAAC
1 CATAAAC-C-T--TAAAC
*
94360765 CATAAACCCTAAAC
1 CATAAACCTTAAAC
* ** *
94360779 TATATTCCCTAAAC
1 CATAAACCTTAAAC
94360793 CATAAACCTTAAAC
1 CATAAACCTTAAAC
*
94360807 TATAA
1 CATAA
94360812 TGATAAGTAA
Statistics
Matches: 80, Mismatches: 23, Indels: 11
0.70 0.20 0.10
Matches are distributed among these distances:
14 47 0.59
15 22 0.28
16 1 0.01
17 1 0.01
18 9 0.11
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.24
Consensus pattern (14 bp):
CATAAACCTTAAAC
Found at i:94361175 original size:41 final size:41
Alignment explanation
Indices: 94361104--94361300 Score: 270
Period size: 41 Copynumber: 4.8 Consensus size: 41
94361094 TTTGAAAAAA
* * * * *
94361104 CGCCGCTATAAAT-AGAGCAATAGCGACGTTTTTCAAAAAG
1 CGCCGCTATAGATCTGAGCATTAGCGGCGTTTTTCATAAAG
*
94361144 CGCCGCTATAGATCTGAGCATTAGCGGCGTTTTTCTTAAAG
1 CGCCGCTATAGATCTGAGCATTAGCGGCGTTTTTCATAAAG
*
94361185 CGCCGCTATATATCTGAGCATTAGCGGCGTTTTTCATAAAG
1 CGCCGCTATAGATCTGAGCATTAGCGGCGTTTTTCATAAAG
** * *
94361226 AACCGCTATAGATTTGAGCATTAGCGACGTTTTTCATAAAG
1 CGCCGCTATAGATCTGAGCATTAGCGGCGTTTTTCATAAAG
* *
94361267 TGCCGCTATAGATCTGAGCATTAGCGGCGCTTTT
1 CGCCGCTATAGATCTGAGCATTAGCGGCGTTTTT
94361301 GGCAAAACGC
Statistics
Matches: 138, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 12 0.09
41 126 0.91
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (41 bp):
CGCCGCTATAGATCTGAGCATTAGCGGCGTTTTTCATAAAG
Found at i:94361414 original size:41 final size:39
Alignment explanation
Indices: 94361363--94361469 Score: 142
Period size: 39 Copynumber: 2.7 Consensus size: 39
94361353 CTTTACTTTT
*
94361363 GCGGCATTTTTTTACAAACGCCGCTAATGCCCGATCTGTA
1 GCGGCGTTTTTTTA-AAACGCCGCTAATGCCCGATCTGTA
* * *
94361403 GCGGCGTTTTTTTAAAGCGCCGCTAATGCTCGATCTTTA
1 GCGGCGTTTTTTTAAAACGCCGCTAATGCCCGATCTGTA
*
94361442 GCGGCGTTTTTACTTTAAACGCCGCTAA
1 GCGGCGTTTTT--TTAAAACGCCGCTAA
94361470 AAATGCCGCG
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
39 33 0.56
40 13 0.22
41 13 0.22
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (39 bp):
GCGGCGTTTTTTTAAAACGCCGCTAATGCCCGATCTGTA
Found at i:94362855 original size:19 final size:19
Alignment explanation
Indices: 94362833--94362889 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 19
94362823 AAGAAATATT
94362833 AAAATAATTTTTAAAATTC
1 AAAATAATTTTTAAAATTC
* *
94362852 AAAAT-ATTTATAAAAATTT
1 AAAATAATTT-TTAAAATTC
94362871 AAAATTTATATTTTTAAAA
1 AAAA--TA-ATTTTTAAAA
94362890 AATTATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
18 4 0.13
19 16 0.53
21 1 0.03
22 5 0.17
23 4 0.13
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAATAATTTTTAAAATTC
Found at i:94362879 original size:17 final size:17
Alignment explanation
Indices: 94362857--94362907 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
94362847 AATTCAAAAT
94362857 ATTTATAAAAATTTAAA
1 ATTTATAAAAATTTAAA
**
94362874 ATTTAT--ATTTTTAAAA
1 ATTTATAAAAATTT-AAA
*
94362890 AATTATAAAAATTTAAA
1 ATTTATAAAAATTTAAA
94362907 A
1 A
94362908 AAAATTCTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 6
0.70 0.14 0.16
Matches are distributed among these distances:
15 4 0.15
16 8 0.31
17 10 0.38
18 4 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTTATAAAAATTTAAA
Found at i:94362888 original size:23 final size:26
Alignment explanation
Indices: 94362855--94362904 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
94362845 AAAATTCAAA
94362855 ATATTTAT-AAAAATT-T-AAAATTT
1 ATATTTATAAAAAATTATAAAAATTT
*
94362878 ATATTTTTAAAAAATTATAAAAATTT
1 ATATTTATAAAAAATTATAAAAATTT
94362904 A
1 A
94362905 AAAAAAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 7 0.30
24 7 0.30
25 1 0.04
26 8 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
ATATTTATAAAAAATTATAAAAATTT
Found at i:94363015 original size:17 final size:17
Alignment explanation
Indices: 94362993--94363031 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
94362983 CATATTAAAG
*
94362993 TATTTTATTTTTAAAAT
1 TATTTTATTTTGAAAAT
*
94363010 TATTTTGTTTTGAAAAT
1 TATTTTATTTTGAAAAT
94363027 T-TTTT
1 TATTTT
94363032 CAAATACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (17 bp):
TATTTTATTTTGAAAAT
Found at i:94365029 original size:46 final size:45
Alignment explanation
Indices: 94364976--94365150 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
94364966 TATTTGGGCA
94364976 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
94365022 TCCGAACTCGTTGAGTTGAGT-CGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
94365068 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
94365114 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
94365151 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 8 0.07
46 85 0.78
47 8 0.07
48 3 0.03
49 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:94365129 original size:92 final size:93
Alignment explanation
Indices: 94364972--94365142 Score: 299
Period size: 92 Copynumber: 1.8 Consensus size: 93
94364962 AGGATATTTG
* *
94364972 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
94365037 TTGAGT-CGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
94365064 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
94365129 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
94365143 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 67 0.91
93 7 0.09
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:94368098 original size:15 final size:15
Alignment explanation
Indices: 94368078--94368146 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
94368068 GTATCTTGGG
94368078 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
94368093 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
94368108 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
94368123 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
94368138 TTTCTTTAT
1 TTTCTTTAT
94368147 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:94368147 original size:30 final size:30
Alignment explanation
Indices: 94368069--94368156 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
94368059 CATAGTATCG
* * * *
94368069 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
94368099 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
94368129 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
94368157 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:94373357 original size:18 final size:17
Alignment explanation
Indices: 94373316--94373350 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
94373306 CAAATATTAC
94373316 TATTTATGTATTTTTTA
1 TATTTATGTATTTTTTA
94373333 TATTTAT-TATTTTTTA
1 TATTTATGTATTTTTTA
94373349 TA
1 TA
94373351 GATTTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
TATTTATGTATTTTTTA
Found at i:94375131 original size:20 final size:19
Alignment explanation
Indices: 94375095--94375133 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
94375085 AATCAAGTTA
**
94375095 AATAAAGAAATTTAAAAAT
1 AATAAAGAAATAAAAAAAT
94375114 AATAATAGAAATAAAAAAAT
1 AATAA-AGAAATAAAAAAAT
94375134 TGAAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (19 bp):
AATAAAGAAATAAAAAAAT
Found at i:94375278 original size:52 final size:53
Alignment explanation
Indices: 94375220--94375343 Score: 137
Period size: 53 Copynumber: 2.4 Consensus size: 53
94375210 TAAGTGATTA
94375220 AAATAATATGGCGGCACCAAAAAATAA-TTTTTTA-TTTAATTTAT-ATACCTCC
1 AAATAATATGGCGGCACCAAAAAATAATTTTTTTAGTTT-ATTT-TGATACCTCC
* * * * * *
94375272 AAATAATGTGTCGTCACCAAAAGATAATTTTTTTAGTTTATTTTGGTGCCTCC
1 AAATAATATGGCGGCACCAAAAAATAATTTTTTTAGTTTATTTTGATACCTCC
* *
94375325 AAATAACATGGCAGCACCA
1 AAATAATATGGCGGCACCA
94375344 CAAATATTAA
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
52 24 0.41
53 31 0.53
54 3 0.05
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (53 bp):
AAATAATATGGCGGCACCAAAAAATAATTTTTTTAGTTTATTTTGATACCTCC
Found at i:94382467 original size:14 final size:14
Alignment explanation
Indices: 94382447--94382499 Score: 79
Period size: 14 Copynumber: 3.8 Consensus size: 14
94382437 TCACCAAACT
* *
94382447 GAAAATGACTTCCG
1 GAAAATGATTTCTG
*
94382461 AAAAATGATTTCTG
1 GAAAATGATTTCTG
94382475 GAAAATGATTTCTG
1 GAAAATGATTTCTG
94382489 GAAAATGATTT
1 GAAAATGATTT
94382500 ACTTTTCTAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (14 bp):
GAAAATGATTTCTG
Found at i:94382974 original size:15 final size:15
Alignment explanation
Indices: 94382954--94383005 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
94382944 ACTACAAAAC
94382954 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
94382969 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
94382988 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
94383003 ATT
1 ATT
94383006 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:94385369 original size:46 final size:47
Alignment explanation
Indices: 94385203--94385457 Score: 122
Period size: 46 Copynumber: 5.5 Consensus size: 47
94385193 GTATAATGCT
* * * * *
94385203 GATGCCATGTCCCAGACATGGTCTTACATTAACTCTCACATATC-CGTGTC
1 GATGCCATGTCCCAGACAT-GTCTTACACTAGCTCT--CATCTCAAG-GCC
* * * * **
94385253 AATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATTTTGTA-GCC
1 GATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCA-TCTCAAGGCC
* * *
94385299 GATG-CATGT---AGACAAGTCTCACACTAG-TTTACATCTCAAGGCC
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCAAGGCC
* * * *
94385342 GTTG-CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCGATGCC
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCC
* * **
94385388 GATGCCATGTCCCAAACATGGTCTTACACT-GACTCTCATAAT-GTGGCC
1 GATGCCATGTCCCAGACAT-GTCTTACACTAG-CTCTCAT-CTCAAGGCC
*
94385436 GATG-CATGTCCCCGACATGTCT
1 GATGCCATGTCCCAGACATGTCT
94385458 CTGCCAATGC
Statistics
Matches: 159, Mismatches: 33, Indels: 30
0.72 0.15 0.14
Matches are distributed among these distances:
41 9 0.06
42 9 0.06
43 13 0.08
45 5 0.03
46 39 0.25
47 30 0.19
48 25 0.16
49 1 0.01
50 28 0.18
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCC
Found at i:94385444 original size:47 final size:47
Alignment explanation
Indices: 94385338--94385457 Score: 122
Period size: 47 Copynumber: 2.6 Consensus size: 47
94385328 TACATCTCAA
* * * *
94385338 GGCCGTTGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCGAT
1 GGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCATATCGAT
94385385 -GCCGATGCCATGTCCCAAACATGGTCTTACACT-GACTCTCATAAT-G-T
1 GGCCGATG-CATGTCCCAAACAT-GTCTTACACTAG-CTCTCAT-ATCGAT
**
94385432 GGCCGATGCATGTCCCCGACATGTCT
1 GGCCGATGCATGTCCCAAACATGTCT
94385458 CTGCCAATGC
Statistics
Matches: 62, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
46 10 0.16
47 27 0.44
48 24 0.39
49 1 0.02
ACGTcount: A:0.20, C:0.32, G:0.21, T:0.28
Consensus pattern (47 bp):
GGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCATATCGAT
Found at i:94390976 original size:28 final size:28
Alignment explanation
Indices: 94390936--94390991 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
94390926 TTACAAAGAG
94390936 AAAATTAGAATTGAAAGAAATAAGCCTT
1 AAAATTAGAATTGAAAGAAATAAGCCTT
94390964 AAAATTAGAATTGAAAGAAATAAGCCTT
1 AAAATTAGAATTGAAAGAAATAAGCCTT
94390992 TCATTACATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.54, C:0.07, G:0.14, T:0.25
Consensus pattern (28 bp):
AAAATTAGAATTGAAAGAAATAAGCCTT
Found at i:94396321 original size:29 final size:30
Alignment explanation
Indices: 94396264--94396321 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
94396254 TGGAAGTTTT
* *
94396264 GGCACTAAGTGTGCGATTTAAACTAGCTTG
1 GGCACTAAGTGTGCAATTTAAACCAGCTTG
94396294 GGCACTAAGTGTGCAATTT-AACCAGCTT
1 GGCACTAAGTGTGCAATTTAAACCAGCTT
94396322 CGGCTATTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (30 bp):
GGCACTAAGTGTGCAATTTAAACCAGCTTG
Found at i:94403462 original size:47 final size:40
Alignment explanation
Indices: 94403364--94403477 Score: 142
Period size: 47 Copynumber: 2.7 Consensus size: 40
94403354 GCCCCTAAGT
*
94403364 GAACTC-GACTCAACTCAACGAGCTCGG-GCGTTACATCA
1 GAACTCGGACTCAACTCAACGAGTTCGGAGCGTTACATCA
94403402 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCA
1 GAACTCGGACTCAACTCAACGAGTTCGGA-G-C--GTTACA--TCA
94403448 CGAACTCGGACTCAACTCAACGAGTTCGGA
1 -GAACTCGGACTCAACTCAACGAGTTCGGA
94403478 CATTTCGCAT
Statistics
Matches: 66, Mismatches: 1, Indels: 9
0.87 0.01 0.12
Matches are distributed among these distances:
38 6 0.09
39 20 0.30
41 1 0.02
42 1 0.02
44 6 0.09
46 3 0.05
47 29 0.44
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (40 bp):
GAACTCGGACTCAACTCAACGAGTTCGGAGCGTTACATCA
Found at i:94409054 original size:46 final size:43
Alignment explanation
Indices: 94408911--94409046 Score: 132
Period size: 47 Copynumber: 3.0 Consensus size: 43
94408901 CTCGCCCCTA
94408911 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATTT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCA-TT
* * * *
94408958 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATT
94409004 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT
94409047 CCTAGTGACA
Statistics
Matches: 75, Mismatches: 8, Indels: 14
0.77 0.08 0.14
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 29 0.39
47 30 0.40
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (43 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATT
Found at i:94464851 original size:5 final size:5
Alignment explanation
Indices: 94464841--94464872 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
94464831 GGCTTTGTGA
94464841 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
94464873 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:94464866 original size:9 final size:9
Alignment explanation
Indices: 94464842--94464872 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
94464832 GCTTTGTGAA
94464842 AAATAAAAT
1 AAATAAAAT
94464851 AAAATAAAAT
1 -AAATAAAAT
94464861 AAATAAAAT
1 AAATAAAAT
94464870 AAA
1 AAA
94464873 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:94468661 original size:40 final size:40
Alignment explanation
Indices: 94468631--94468763 Score: 198
Period size: 40 Copynumber: 3.3 Consensus size: 40
94468621 GCTACTCGTT
*
94468631 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCA
*
94468671 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCA
* *
94468711 CAAATGCCTTCGGGACTTAACCCGAATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCG-GTTATAGTAACTCGCA
94468751 CAAATGCCTTCGG
1 CAAATGCCTTCGG
94468764 ATCTTAGTCC
Statistics
Matches: 88, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
40 86 0.98
41 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCA
Found at i:94468743 original size:80 final size:81
Alignment explanation
Indices: 94468631--94468814 Score: 241
Period size: 80 Copynumber: 2.3 Consensus size: 81
94468621 GCTACTCGTT
* *
94468631 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
94468695 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
94468711 CAAATGCCTTCGGGACTTAACCCGAATT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCG-ATTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
94468775 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
94468792 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
94468815 GACATCATTC
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
79 3 0.03
80 78 0.86
81 10 0.11
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:94472540 original size:5 final size:5
Alignment explanation
Indices: 94472530--94472561 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
94472520 CAATTTGTGA
94472530 AAAAT AAAAT AAAAT -AAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
94472562 GAACACACGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:94472550 original size:14 final size:14
Alignment explanation
Indices: 94472531--94472561 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
94472521 AATTTGTGAA
94472531 AAATAAAATAAAAT
1 AAATAAAATAAAAT
94472545 AAATAAAATAAAAT
1 AAATAAAATAAAAT
94472559 AAA
1 AAA
94472562 GAACACACGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:94474202 original size:17 final size:19
Alignment explanation
Indices: 94474160--94474203 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
94474150 ATGAAATTTT
*
94474160 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
94474179 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
94474197 AA-TATTA
1 AATTATTA
94474204 CTGTAAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:94476695 original size:11 final size:11
Alignment explanation
Indices: 94476679--94476732 Score: 62
Period size: 11 Copynumber: 5.3 Consensus size: 11
94476669 CATGTTATGT
94476679 ATGATATGCAC
1 ATGATATGCAC
*
94476690 ATGATATG--T
1 ATGATATGCAC
94476699 ATGATATGCAC
1 ATGATATGCAC
*
94476710 ATGATATG--T
1 ATGATATGCAC
94476719 ATGATATGCAC
1 ATGATATGCAC
94476730 ATG
1 ATG
94476733 GTGTATTCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
9 16 0.46
11 19 0.54
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.33
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:94476697 original size:20 final size:20
Alignment explanation
Indices: 94476668--94476732 Score: 121
Period size: 20 Copynumber: 3.2 Consensus size: 20
94476658 ATTTTGATAA
*
94476668 ACATGTTATGTATGATATGC
1 ACATGATATGTATGATATGC
94476688 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
94476708 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
94476728 ACATG
1 ACATG
94476733 GTGTATTCAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.35
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:94476702 original size:9 final size:9
Alignment explanation
Indices: 94476674--94476726 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
94476664 ATAAACATGT
94476674 TATGTATGA
1 TATGTATGA
*
94476683 TATGCACATGA
1 TATG--TATGA
94476694 TATGTATGA
1 TATGTATGA
*
94476703 TATGCACATGA
1 TATG--TATGA
94476714 TATGTATGA
1 TATGTATGA
94476723 TATG
1 TATG
94476727 CACATGGTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.38
Consensus pattern (9 bp):
TATGTATGA
Found at i:94476866 original size:24 final size:24
Alignment explanation
Indices: 94476782--94476885 Score: 167
Period size: 23 Copynumber: 4.4 Consensus size: 24
94476772 AAGGAAGTGC
94476782 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
94476806 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
94476829 -GAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
94476852 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
94476876 AAAAGAGGCT
1 AAAAG-GGCT
94476886 AGGCCTCTAG
Statistics
Matches: 75, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
23 45 0.60
24 26 0.35
25 4 0.05
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:94477128 original size:31 final size:31
Alignment explanation
Indices: 94477093--94477156 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
94477083 CGTTTACAGT
94477093 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
94477124 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
94477155 AA
1 AA
94477157 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:94483622 original size:3 final size:3
Alignment explanation
Indices: 94483614--94483655 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
94483604 AATAGAATTG
94483614 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
94483656 AGGGACTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:94487264 original size:12 final size:12
Alignment explanation
Indices: 94487247--94487272 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
94487237 AATATTTGTG
94487247 GAAGGAGATCCA
1 GAAGGAGATCCA
94487259 GAAGGAGATCCA
1 GAAGGAGATCCA
94487271 GA
1 GA
94487273 GATGGCAGTA
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:0.42, C:0.15, G:0.35, T:0.08
Consensus pattern (12 bp):
GAAGGAGATCCA
Found at i:94490569 original size:22 final size:21
Alignment explanation
Indices: 94490539--94490604 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
94490529 TACAAATTAA
94490539 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
94490561 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
94490582 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
94490601 ATCT
1 ATCT
94490605 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:94490591 original size:19 final size:19
Alignment explanation
Indices: 94490556--94490634 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
94490546 AGATTACAAG
94490556 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
94490577 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
94490596 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
94490613 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
94490632 ATC
1 ATC
94490635 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:94490598 original size:14 final size:15
Alignment explanation
Indices: 94490578--94490634 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
94490568 AGATTGCATA
94490578 TCATATCTAAGATTG
1 TCATATCTAAGATTG
94490593 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
94490612 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
94490629 -CATATC
1 TCATATC
94490635 CTTAAAGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:94490620 original size:36 final size:39
Alignment explanation
Indices: 94490556--94490634 Score: 128
Period size: 36 Copynumber: 2.1 Consensus size: 39
94490546 AGATTACAAG
94490556 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTG-ATATCATATCTAAGATTGCAT
94490596 ATCATATC-T-AAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
94490632 ATC
1 ATC
94490635 CTTAAAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 23 0.59
38 7 0.18
39 1 0.03
40 8 0.21
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (39 bp):
ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
Found at i:94491353 original size:220 final size:220
Alignment explanation
Indices: 94490958--94491971 Score: 1501
Period size: 220 Copynumber: 4.6 Consensus size: 220
94490948 TGTCATGTTG
* * ** * ** * *
94490958 ATGTTTTCGATCTTCTCTCCGTCGAATACAGAGATGTCAAATCTGCTACCTTCGATTCGTTC-CT
1 ATGTCTTCGATCTACTCTCCGTCGAATATGGAGATGCCAAATCTG-TTTCTTCAATTTGTTCTC-
* * * *
94491022 TGACAATATAGAGATGTCAAATCATCTTGGATCTGCTTCAGCGTAAACACCTGAAGGTCAGATCT
64 TGACAATACAGAGATGCCAAATCATCTTGGATCTACTTCAGTGTAAACACCTGAAGGTCAGATCT
* * * * *
94491087 GTTATGTCTTCGATTTGTTTCTTGTAAACACAATG-ATGCTAAATCATCTTGGATCTGCTTCAAT
129 GCTATGTCTTCGATTTGCTCCTTGTAAACACAA-GAATGCCAAATCATCTTGGATCTGCTTCGAT
* *
94491151 GTGAAAATATCCGAAGGTCAGATCTGCT
193 GTGAAAACATCCAAAGGTCAGATCTGCT
* * * *
94491179 ATGTCTTCGATCTGCTCTCTGTCGAATATGGAGATGCCAAATCTGTTTATTCAATTTGTTCTCTA
1 ATGTCTTCGATCTACTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCAATTTGTTCTCTG
* * *
94491244 ACAATACAGAGATGTCAAATCATCTTAGATCTACTTCAATGTAAACACCTGAAGGTCAGATCTGC
66 ACAATACAGAGATGCCAAATCATCTTGGATCTACTTCAGTGTAAACACCTGAAGGTCAGATCTGC
* *
94491309 TATGTCTTTGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATATTGGATCTGCTTCGATGTG
131 TATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCGATGTG
*
94491374 AAAACATCCAAAGGTCAGATCTGTT
196 AAAACATCCAAAGGTCAGATCTGCT
* *
94491399 ATGTCTTCGATCTGCTCTTCGTCGAATATGGAGATGCCAAATCTGTTTCTTCAATTTGTTCTCTG
1 ATGTCTTCGATCTACTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCAATTTGTTCTCTG
94491464 ACAATACAGAGATGCCAAATCATCTTGGATCTACTTCAGTGTAAACACCTGAAGGTCAGATCTGC
66 ACAATACAGAGATGCCAAATCATCTTGGATCTACTTCAGTGTAAACACCTGAAGGTCAGATCTGC
*
94491529 TATGTCTTCGATTTGCTCATTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCGATGTG
131 TATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCGATGTG
*
94491594 AAAACATCCAAAGGTCAGATTTGCT
196 AAAACATCCAAAGGTCAGATCTGCT
** * **
94491619 ATGTCTTTAATCTACTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTAGG
1 ATGTCTTCGATCTACTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCAATTTGTTCTCTG
* * * *
94491684 ACAATACAAAGATGCCAAATCATCTTGGATCTGCTTCAGTGTAAACACCTAAAGGTCAGATCTAC
66 ACAATACAGAGATGCCAAATCATCTTGGATCTACTTCAGTGTAAACACCTGAAGGTCAGATCTGC
*
94491749 TATGTCTTTGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCGATGTG
131 TATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCGATGTG
* * *
94491814 AAAACATTCAAAGGTCAGATTTACT
196 AAAACATCCAAAGGTCAGATCTGCT
* * *
94491839 ATGTCTTCGATCTACTCTCCGTCGAATATGGAGCTGCTAAATCTATTTCTTCAATTTGTTCTCTG
1 ATGTCTTCGATCTACTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCAATTTGTTCTCTG
** * *
94491904 ACAATACAGAGATGCCAAATCATCTTGGATCTACTTCAGCATGAACACCTGAAGGCCAGATCTGC
66 ACAATACAGAGATGCCAAATCATCTTGGATCTACTTCAGTGTAAACACCTGAAGGTCAGATCTGC
94491969 TAT
131 TAT
94491972 ACTTTAACCT
Statistics
Matches: 721, Mismatches: 70, Indels: 5
0.91 0.09 0.01
Matches are distributed among these distances:
219 1 0.00
220 680 0.94
221 40 0.06
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.33
Consensus pattern (220 bp):
ATGTCTTCGATCTACTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCAATTTGTTCTCTG
ACAATACAGAGATGCCAAATCATCTTGGATCTACTTCAGTGTAAACACCTGAAGGTCAGATCTGC
TATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCGATGTG
AAAACATCCAAAGGTCAGATCTGCT
Found at i:94493020 original size:8 final size:8
Alignment explanation
Indices: 94493002--94493068 Score: 55
Period size: 9 Copynumber: 7.8 Consensus size: 8
94492992 GGCCTCTCCA
94493002 TTTTTTC-
1 TTTTTTCT
94493009 TTTTTTCTT
1 TTTTTTC-T
94493018 TTTTTGTCT
1 TTTTT-TCT
*
94493027 TTTTTTATT
1 TTTTTT-CT
*
94493036 TTTATTTTT
1 TTT-TTTCT
94493045 TTCTTTTCT
1 TT-TTTTCT
94493054 TTTTTTCCT
1 TTTTTT-CT
94493063 TTTTTT
1 TTTTTT
94493069 TAAATAGATG
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
7 7 0.14
8 5 0.10
9 33 0.65
10 6 0.12
ACGTcount: A:0.03, C:0.10, G:0.01, T:0.85
Consensus pattern (8 bp):
TTTTTTCT
Found at i:94497095 original size:29 final size:29
Alignment explanation
Indices: 94497037--94497095 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
94497027 AATACATAAA
* * *
94497037 ATATATATAAAATATATAAAAGAATTAGT
1 ATATATAGAAAATATATAAAAAAATGAGT
94497066 ATATATAGAAAATATA-AAATAAAATGAGT
1 ATATATAGAAAATATATAAA-AAAATGAGT
94497095 A
1 A
94497096 ATTGTTAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 3 0.12
29 23 0.88
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (29 bp):
ATATATAGAAAATATATAAAAAAATGAGT
Found at i:94497477 original size:26 final size:24
Alignment explanation
Indices: 94497448--94497497 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
94497438 TGATAGATAA
94497448 TATATAAAAAAACATATAATAAATGT
1 TATAT-AAAAAA-ATATAATAAATGT
* *
94497474 TATATAATAAAATATAATATATGT
1 TATATAAAAAAATATAATAAATGT
94497498 AGGAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 12 0.55
25 5 0.23
26 5 0.23
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (24 bp):
TATATAAAAAAATATAATAAATGT
Found at i:94500257 original size:67 final size:67
Alignment explanation
Indices: 94500149--94500336 Score: 324
Period size: 67 Copynumber: 2.8 Consensus size: 67
94500139 AACACTCAGT
* * * * *
94500149 ACCACCCATGTGACCTAGCCA-ATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
1 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
94500213 GA
66 GA
94500215 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
1 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
94500280 GA
66 GA
94500282 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGT
1 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGT
94500337 ACACATAGTA
Statistics
Matches: 116, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
66 18 0.16
67 98 0.84
ACGTcount: A:0.21, C:0.32, G:0.18, T:0.30
Consensus pattern (67 bp):
ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
GA
Found at i:94516942 original size:40 final size:40
Alignment explanation
Indices: 94516887--94517081 Score: 293
Period size: 40 Copynumber: 4.9 Consensus size: 40
94516877 ACTTGAGGTA
*
94516887 TTATCCGGGCTTAAAGACCCGCAGGCTTCGTGTTGGAATG
1 TTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATG
*
94516927 TTATCCGGGCTTAAAGACCTGCAGGCTTCGTGCTGGAATG
1 TTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATG
* * * *
94516967 TTATCCAGGCTTAAAAACCCGCAGGCTTTGTGCTGGAATT
1 TTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATG
*
94517007 TTATCTGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATG
1 TTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATG
* * *
94517047 TTATCCGGGC-TAGAGACCCGCAGGCTACGAGCTGG
1 TTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGG
94517082 TATTATACCG
Statistics
Matches: 139, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 22 0.16
40 117 0.84
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.26
Consensus pattern (40 bp):
TTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATG
Found at i:94520470 original size:21 final size:21
Alignment explanation
Indices: 94520432--94520471 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
94520422 ATTACTCCAA
*
94520432 AGAAGCCGGTTGATTCATCTC
1 AGAAGCCGGTTCATTCATCTC
94520453 AGAAGCCGGATTCA-TCATC
1 AGAAGCCGG-TTCATTCATC
94520472 AAGACTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (21 bp):
AGAAGCCGGTTCATTCATCTC
Found at i:94520939 original size:43 final size:43
Alignment explanation
Indices: 94520892--94520978 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
94520882 TAGAGAAAGG
94520892 TCTCAATTATTCAATCTAGAGATTAGACGTTATTAGTCTTGAA
1 TCTCAATTATTCAATCTAGAGATTAGACGTTATTAGTCTTGAA
*
94520935 TCTCAATTATTCAATCTAGGGATTAGACGTTATTAGTCTTGAA
1 TCTCAATTATTCAATCTAGAGATTAGACGTTATTAGTCTTGAA
94520978 T
1 T
94520979 AGGGATAATA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (43 bp):
TCTCAATTATTCAATCTAGAGATTAGACGTTATTAGTCTTGAA
Found at i:94522395 original size:43 final size:43
Alignment explanation
Indices: 94522343--94522712 Score: 623
Period size: 43 Copynumber: 8.6 Consensus size: 43
94522333 TCGGCATTAC
*
94522343 GCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
94522386 GCCTGCTAGGCACGAATGCCCGAATACACATCACCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
94522429 GCCTGCTAGGCACAAAGGCCCGAATACACATCACAGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
94522472 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
94522515 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
94522558 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACAAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
94522601 GCCTGCTAGGCACGAAGGCCCGAATATACATCACCGGCACAAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
94522644 GCCTGCTAGGAACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
94522687 GCCTGCTAGGCATGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
94522713 TAATACCAGC
Statistics
Matches: 307, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 307 1.00
ACGTcount: A:0.32, C:0.32, G:0.25, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:94522753 original size:38 final size:38
Alignment explanation
Indices: 94522705--94522828 Score: 149
Period size: 38 Copynumber: 3.2 Consensus size: 38
94522695 GGCATGAAGG
* * * *
94522705 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
94522743 CCCTGATATAATACCAGCACGAAGCCTGCGAGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** *
94522781 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
94522820 GCCCGGATA
1 -CCCGGATA
94522829 CACATCAAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
38 60 0.82
39 5 0.07
40 8 0.11
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:94524672 original size:25 final size:25
Alignment explanation
Indices: 94524638--94524687 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
94524628 ACACAACATG
94524638 TTAGCCGATTTTCCCCTCTTAGCAT
1 TTAGCCGATTTTCCCCTCTTAGCAT
94524663 TTAGCCGATTTTCCCCTCTTAGCAT
1 TTAGCCGATTTTCCCCTCTTAGCAT
94524688 CTAAGGCACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.16, C:0.32, G:0.12, T:0.40
Consensus pattern (25 bp):
TTAGCCGATTTTCCCCTCTTAGCAT
Found at i:94534699 original size:6 final size:6
Alignment explanation
Indices: 94534688--94534732 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
94534678 ATTTGTTTTG
* *
94534688 TTTTAT TTTTAT TTTTAT TTTTAC TTTTAT GTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
94534733 CTTAGACTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:94537451 original size:14 final size:14
Alignment explanation
Indices: 94537428--94537458 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
94537418 TGTCACGTTC
*
94537428 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
94537442 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
94537456 TTA
1 TTA
94537459 AAATAATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:94538546 original size:7 final size:7
Alignment explanation
Indices: 94538536--94538601 Score: 53
Period size: 7 Copynumber: 8.6 Consensus size: 7
94538526 AAAGTTAAAA
94538536 TATATAT
1 TATATAT
94538543 TATAATAT
1 TAT-ATAT
94538551 TATAATAT
1 TAT-ATAT
*
94538559 TATATCT
1 TATATAT
94538566 TA-ATTAT
1 TATA-TAT
94538573 TAAGTATAT
1 T-A-TATAT
94538582 ATATTATAT
1 -TA-TATAT
94538591 TATATAT
1 TATATAT
94538598 TATA
1 TATA
94538602 ATAAGTAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
6 1 0.02
7 20 0.40
8 18 0.36
9 9 0.18
10 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (7 bp):
TATATAT
Found at i:94538552 original size:8 final size:8
Alignment explanation
Indices: 94538539--94538604 Score: 50
Period size: 8 Copynumber: 8.4 Consensus size: 8
94538529 GTTAAAATAT
94538539 ATATTATA
1 ATATTATA
94538547 ATATTATA
1 ATATTATA
94538555 ATATTAT-
1 ATATTATA
*
94538562 ATCTTA-A
1 ATATTATA
*
94538569 TTATTA-A
1 ATATTATA
*
94538576 GTATATATATT
1 --ATAT-TATA
94538587 ATATTAT-
1 ATATTATA
94538594 ATATTATA
1 ATATTATA
94538602 ATA
1 ATA
94538605 AGTAAATATA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
7 17 0.36
8 21 0.45
9 7 0.15
10 2 0.04
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (8 bp):
ATATTATA
Found at i:94538571 original size:27 final size:26
Alignment explanation
Indices: 94538536--94538604 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 26
94538526 AAAGTTAAAA
94538536 TATATATTATAATATTATAATATTATAT
1 TATATATTATAATA-TAT-ATATTATAT
94538564 CT-TA-ATTATTAAGTATATATATTATAT
1 -TATATATTA-TAA-TATATATATTATAT
94538591 TATATATTATAATA
1 TATATATTATAATA
94538605 AGTAAATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 12 0.33
29 3 0.08
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (26 bp):
TATATATTATAATATATATATTATAT
Found at i:94538614 original size:30 final size:32
Alignment explanation
Indices: 94538546--94538614 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
94538536 TATATATTAT
* *
94538546 AATATTATAATATTATATCTTAATTATTAAGTA
1 AATA-TATAATATTATATATTAATTAATAAGTA
* *
94538579 TATATATTATATTATATATT-A-TAATAAGTA
1 AATATATAATATTATATATTAATTAATAAGTA
94538609 AATATA
1 AATATA
94538615 ATAAATAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 13 0.42
31 1 0.03
32 14 0.45
33 3 0.10
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (32 bp):
AATATATAATATTATATATTAATTAATAAGTA
Found at i:94538741 original size:53 final size:54
Alignment explanation
Indices: 94538665--94538771 Score: 171
Period size: 53 Copynumber: 2.0 Consensus size: 54
94538655 AAATAGAAAG
94538665 AAAAAGAAAAAGAAAAAGAAGGAAGGAGAAAGACACAAAGATAAGGATTTCAAT
1 AAAAAGAAAAAGAAAAAGAAGGAAGGAGAAAGACACAAAGATAAGGATTTCAAT
* * * *
94538719 AAAAA-AAAAAGAGAAAGGAGGAAGGAGAAAGACACAAAGCTAGGGATTTCAAT
1 AAAAAGAAAAAGAAAAAGAAGGAAGGAGAAAGACACAAAGATAAGGATTTCAAT
94538772 TGTTCAAAGC
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
53 44 0.90
54 5 0.10
ACGTcount: A:0.60, C:0.07, G:0.24, T:0.09
Consensus pattern (54 bp):
AAAAAGAAAAAGAAAAAGAAGGAAGGAGAAAGACACAAAGATAAGGATTTCAAT
Found at i:94540603 original size:5 final size:5
Alignment explanation
Indices: 94540593--94540620 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
94540583 TTGTGTGTTC
94540593 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
94540621 CACAATTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:94544873 original size:17 final size:17
Alignment explanation
Indices: 94544841--94544880 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
94544831 AAAAAAGAAT
94544841 AAAAAATATTACCCCAA
1 AAAAAATATTACCCCAA
94544858 AAAAACATATTA-CCCAA
1 AAAAA-ATATTACCCCAA
94544875 AAAAAA
1 AAAAAA
94544881 GAGGGGGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.05
17 15 0.68
18 6 0.27
ACGTcount: A:0.65, C:0.20, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAAAATATTACCCCAA
Found at i:94559981 original size:6 final size:6
Alignment explanation
Indices: 94559970--94559998 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
94559960 CGTTTGTTTA
94559970 ATTTTT ATTTTT ATTTTT ATTTTT -TTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
94559999 GGCTTGGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
ATTTTT
Found at i:94562400 original size:15 final size:15
Alignment explanation
Indices: 94562380--94562440 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
94562370 TTAATTGAAA
94562380 AATTATAATTACAAT
1 AATTATAATTACAAT
94562395 AATTATAATATTATTCGATCAT
1 AATTAT-A-ATTA--C-A--AT
94562417 AAATTATAATTACAAT
1 -AATTATAATTACAAT
94562433 AATTATAA
1 AATTATAA
94562441 AAATAATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 16
0.70 0.00 0.30
Matches are distributed among these distances:
15 14 0.37
16 3 0.08
17 4 0.11
18 1 0.03
19 2 0.05
20 1 0.03
21 4 0.11
22 3 0.08
23 6 0.16
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.41
Consensus pattern (15 bp):
AATTATAATTACAAT
Found at i:94563330 original size:88 final size:88
Alignment explanation
Indices: 94563177--94563346 Score: 295
Period size: 88 Copynumber: 1.9 Consensus size: 88
94563167 TCATATATAG
* * **
94563177 TAATCACTACGAATAATGTTGTGACTATTACATAGTAATCTAAGAAACATACTCATAGCGGGTCA
1 TAATCACTACGAATAATGTTGTGACCATTACATAGTAATCCAAGAAACATACTCATAGCAAGTCA
94563242 GTCCAATCAAGTGGCACTCATGA
66 GTCCAATCAAGTGGCACTCATGA
*
94563265 TAATCACTACGAATAATGTTGTGACCATTACCTAGTAATCCAAGAAACATACTCATAGCAAGTCA
1 TAATCACTACGAATAATGTTGTGACCATTACATAGTAATCCAAGAAACATACTCATAGCAAGTCA
94563330 GTCCAATCAAGTGGCAC
66 GTCCAATCAAGTGGCAC
94563347 CATTGTTTAG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 77 1.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (88 bp):
TAATCACTACGAATAATGTTGTGACCATTACATAGTAATCCAAGAAACATACTCATAGCAAGTCA
GTCCAATCAAGTGGCACTCATGA
Found at i:94568406 original size:5 final size:5
Alignment explanation
Indices: 94568396--94568428 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
94568386 TTGTGTGCTC
*
94568396 TTTAT TTTAT TTTAT TTCAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
94568429 CAAAATATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:94571211 original size:14 final size:14
Alignment explanation
Indices: 94571192--94571225 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
94571182 ATGCCGGAGG
94571192 TCAAACAACATGCT
1 TCAAACAACATGCT
*
94571206 TCAAACAACATGTT
1 TCAAACAACATGCT
94571220 TCAAAC
1 TCAAAC
94571226 TTTCCTCTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.44, C:0.26, G:0.06, T:0.24
Consensus pattern (14 bp):
TCAAACAACATGCT
Found at i:94588023 original size:45 final size:45
Alignment explanation
Indices: 94587959--94588050 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
94587949 AATTGGAGTG
94587959 TTAGGCATCTACCTCAATGTGGGAAAGAAGTGTTCATAAAGGCTA
1 TTAGGCATCTACCTCAATGTGGGAAAGAAGTGTTCATAAAGGCTA
94588004 TTAGGCATCTACCTCAATGTGGGAAAGAAGTGTTCATAAAGGCTA
1 TTAGGCATCTACCTCAATGTGGGAAAGAAGTGTTCATAAAGGCTA
94588049 TT
1 TT
94588051 CTTCAGTATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (45 bp):
TTAGGCATCTACCTCAATGTGGGAAAGAAGTGTTCATAAAGGCTA
Found at i:94591289 original size:29 final size:29
Alignment explanation
Indices: 94591256--94591317 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
94591246 ATTTTTGGGT
*
94591256 AAAGTATACCAAC-AATCACTAAAC-TTCGA
1 AAAGT-TA-CAACTAATCACTAAACGTTAGA
94591285 AAAGTTACAACTTAATCACTAAACGTTAGA
1 AAAGTTACAAC-TAATCACTAAACGTTAGA
94591315 AAA
1 AAA
94591318 ATAATAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 4 0.14
28 2 0.07
29 16 0.55
30 7 0.24
ACGTcount: A:0.50, C:0.19, G:0.08, T:0.23
Consensus pattern (29 bp):
AAAGTTACAACTAATCACTAAACGTTAGA
Found at i:94595888 original size:88 final size:88
Alignment explanation
Indices: 94595780--94595961 Score: 301
Period size: 88 Copynumber: 2.1 Consensus size: 88
94595770 TTTTCTTACA
94595780 TTAATCACCACGTATCAAAAAGTTTATAGTTTAAAACGTTTCCACCGACCATCGAACGTATCAAA
1 TTAATCACCACGTATCAAAAAGTTTATAGTTTAAAACGTTTCCACCGACCATCGAACGTATCAAA
*
94595845 ATATATTTCCTTTCAAATAGTTT
66 ATATATTTCCTTTCAAATAGCTT
* * * *
94595868 TTAATCACCACGTATCAAAAAGTTTATATTTTAAAACGTTTCCACCGACTATTGAACGTATCGAA
1 TTAATCACCACGTATCAAAAAGTTTATAGTTTAAAACGTTTCCACCGACCATCGAACGTATCAAA
*
94595933 ATATATTTTCTTTCAAATAGCTT
66 ATATATTTCCTTTCAAATAGCTT
*
94595956 TCAATC
1 TTAATC
94595962 TGCTATCATA
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 87 1.00
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.36
Consensus pattern (88 bp):
TTAATCACCACGTATCAAAAAGTTTATAGTTTAAAACGTTTCCACCGACCATCGAACGTATCAAA
ATATATTTCCTTTCAAATAGCTT
Found at i:94597752 original size:4 final size:4
Alignment explanation
Indices: 94597743--94597767 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
94597733 TCCTTGTAAG
94597743 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
94597768 AAGATGATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:94600010 original size:6 final size:6
Alignment explanation
Indices: 94600003--94600066 Score: 83
Period size: 6 Copynumber: 10.7 Consensus size: 6
94599993 CGAGGCTGAA
* * *
94600003 GCTCAA GCTCAA GCTCAG GCACAG GCTCAG GCTCAG GCTCAG GCTCAG
1 GCTCAG GCTCAG GCTCAG GCTCAG GCTCAG GCTCAG GCTCAG GCTCAG
* *
94600051 GCTCAA GCTCTG GCTC
1 GCTCAG GCTCAG GCTC
94600067 GATACAACAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.20, C:0.34, G:0.28, T:0.17
Consensus pattern (6 bp):
GCTCAG
Found at i:94600060 original size:18 final size:18
Alignment explanation
Indices: 94599995--94600066 Score: 81
Period size: 18 Copynumber: 4.0 Consensus size: 18
94599985 GCTGAGGCCG
* *
94599995 AGGCTGAAGCTCAAGCTC
1 AGGCTCAAGCTCAGGCTC
* * *
94600013 AAGCTCAGGCACAGGCTC
1 AGGCTCAAGCTCAGGCTC
*
94600031 AGGCTCAGGCTCAGGCTC
1 AGGCTCAAGCTCAGGCTC
*
94600049 AGGCTCAAGCTCTGGCTC
1 AGGCTCAAGCTCAGGCTC
94600067 GATACAACAA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.22, C:0.32, G:0.29, T:0.17
Consensus pattern (18 bp):
AGGCTCAAGCTCAGGCTC
Found at i:94600733 original size:12 final size:12
Alignment explanation
Indices: 94600700--94600749 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
94600690 AGTATTAAGT
*
94600700 ATGAGGATGAGG
1 ATGAGGATGGGG
94600712 ATGAGGATGGGG
1 ATGAGGATGGGG
*
94600724 ATGGGGATGGGG
1 ATGAGGATGGGG
*
94600736 TTGA-GATGGCGG
1 ATGAGGATGG-GG
94600748 AT
1 AT
94600750 ATGGATTTGC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
11 5 0.16
12 27 0.84
ACGTcount: A:0.24, C:0.02, G:0.54, T:0.20
Consensus pattern (12 bp):
ATGAGGATGGGG
Found at i:94605559 original size:17 final size:17
Alignment explanation
Indices: 94605533--94605566 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
94605523 TATATAATTG
*
94605533 AAATATGTTATAATATA
1 AAATAAGTTATAATATA
94605550 AAATAAGTTATAATATA
1 AAATAAGTTATAATATA
94605567 TTAAGTAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
AAATAAGTTATAATATA
Found at i:94607007 original size:24 final size:24
Alignment explanation
Indices: 94606980--94607031 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
94606970 TTAGTAAGTC
*
94606980 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
94607004 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
94607028 AAAT
1 AAAT
94607032 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:94608977 original size:24 final size:24
Alignment explanation
Indices: 94608950--94609001 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
94608940 TTAGTAAGTC
*
94608950 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
94608974 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
94608998 AAAT
1 AAAT
94609002 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:94609187 original size:24 final size:24
Alignment explanation
Indices: 94609160--94609222 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
94609150 GAAATGATTT
94609160 TGGCATTATGTGTGCGAATTTGAA
1 TGGCATTATGTGTGCGAATTTGAA
*
94609184 TGGCATTATGTGTGCGAATTTGTA
1 TGGCATTATGTGTGCGAATTTGAA
* *
94609208 TGGCAGTCTGTGTGC
1 TGGCATTATGTGTGC
94609223 AGATTAGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.19, C:0.11, G:0.32, T:0.38
Consensus pattern (24 bp):
TGGCATTATGTGTGCGAATTTGAA
Found at i:94615084 original size:19 final size:19
Alignment explanation
Indices: 94615049--94615146 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
94615039 AGATTACAAG
94615049 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
*
94615070 ATCGTATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
94615089 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
94615106 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
94615125 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
94615144 ATC
1 ATC
94615147 CTTAAAGATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.66
20 1 0.01
21 7 0.10
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:94615118 original size:36 final size:37
Alignment explanation
Indices: 94615049--94615146 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
94615039 AGATTACAAG
*
94615049 ATCATATCTTCAAGATTGCATATCGTATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
94615089 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
94615125 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
94615147 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
39 1 0.02
40 8 0.15
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:94615769 original size:44 final size:44
Alignment explanation
Indices: 94615719--94616469 Score: 531
Period size: 44 Copynumber: 17.3 Consensus size: 44
94615709 TCGAAATAGA
* *
94615719 GATGCCAGATCTGTTATCTTTGATTTGTTCCCTATAAACACAGG
1 GATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
94615763 GATGCC--A-----TATCTTCGATTTGTTCCCTATAAACACAGG
1 GATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
* ** * ** * *
94615800 GATG--ACATGCTGAAATCTTCGATCTGCTTTGCTATAAGCATAGG
1 GATGCCAGAT-CTGCTATCTTCGATTTG-TTCCCTATAAACACAGG
* *
94615844 AATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
1 GATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
* * * *
94615888 GATACCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
1 GATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
** * ** * *
94615932 GATGCC--ATGCTGAAATCTTTGATTTGCTTTGCTGTAATCACAGG
1 GATGCCAGAT-CTGCTATCTTCGATTTG-TTCCCTATAAACACAGG
* *
94615976 AATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
1 GATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
* * *
94616020 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
1 GATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
** * * * *
94616064 GATGCCATG-T-TGAAATCTTCGATCTGCTTCGCTGTAATCACA-G
1 GATGCCA-GATCTGCTATCTTCGATTTG-TTCCCTATAAACACAGG
** *
94616107 GAGTGTTAGATCTGTTATCTTCGATTTGTTCCCTATAAACACAGG
1 GA-TGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
** * * * * *
94616152 GATGCCATG-T-TGAAATCTTCGATCTGCTTCGCTGTAAGCACAGA
1 GATGCCA-GATCTGCTATCTTCGATTTG-TTCCCTATAAACACAGG
* * *
94616196 G-TGTCAGATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
1 GATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
** * ** * * *
94616239 GATGCCATG-T-TGAAATCTTCGATCTGCTTCGTTGTAAGCACAGA
1 GATGCCA-GATCTGCTATCTTCGATTTG-TTCCCTATAAACACAGG
* * * * *
94616283 G-TGTCAGATCTACTATCTTCAATCTGTTCCCTATAAATACAGG
1 GATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
* * * *
94616326 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACATG
1 GATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
** * ** * * **
94616370 GATGCC--ATGCTGAAATCTTCAATCTACTTCGCTGTAGGCACA-G
1 GATGCCAGAT-CTGCTATCTTCGAT-TTGTTCCCTATAAACACAGG
* *
94616413 GAGTGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGG
1 GA-TGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
*
94616458 GATGCCAAATCT
1 GATGCCAGATCT
94616470 TGTTTCTCTG
Statistics
Matches: 537, Mismatches: 133, Indels: 74
0.72 0.18 0.10
Matches are distributed among these distances:
37 34 0.06
42 7 0.01
43 112 0.21
44 317 0.59
45 60 0.11
46 7 0.01
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.32
Consensus pattern (44 bp):
GATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGG
Found at i:94615783 original size:37 final size:37
Alignment explanation
Indices: 94615733--94615803 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
94615723 CCAGATCTGT
*
94615733 TATCTTTGATTTGTTCCCTATAAACACAGGGATGCCA
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCA
94615770 TATCTTCGATTTGTTCCCTATAAACACAGGGATG
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATG
94615804 ACATGCTGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (37 bp):
TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCA
Found at i:94616194 original size:132 final size:132
Alignment explanation
Indices: 94615724--94616158 Score: 677
Period size: 132 Copynumber: 3.3 Consensus size: 132
94615714 ATAGAGATGC
* * * *
94615724 CAGATCTGTTATCTTTGATTTGTTCCCTATAAACACAGGGATGCC--A-----TATCTTCGATTT
1 CAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
* * * *
94615782 GTTCCCTATAAACACAGGGATGACATGCTGAAATCTTCGATCTGCTTTGCTATAAGCATAGGAAT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTTGCTGTAATCACAGGAAT
94615847 GT
131 GT
*
94615849 CAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATACCAAATCTGCTATCTTCAACTT
1 CAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
* *
94615914 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTTGATTTGCTTTGCTGTAATCACAGGAAT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTTGCTGTAATCACAGGAAT
94615979 GT
131 GT
94615981 CAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
1 CAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
* * *
94616046 GTTCCCTATAAACACAGGGATGCCATGTTGAAATCTTCGATCTGCTTCGCTGTAATCACAGGAGT
66 GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTTGCTGTAATCACAGGAAT
94616111 GT
131 GT
* *
94616113 TAGATCTGTTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCA
1 CAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCA
94616159 TGTTGAAATC
Statistics
Matches: 284, Mismatches: 19, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
125 42 0.15
127 1 0.00
132 241 0.85
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (132 bp):
CAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTT
GTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTTGCTGTAATCACAGGAAT
GT
Found at i:94616345 original size:131 final size:132
Alignment explanation
Indices: 94616203--94616469 Score: 446
Period size: 131 Copynumber: 2.0 Consensus size: 132
94616193 AGAGTGTCAG
* * *
94616203 ATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGTTGAAATCTTCGATCTGCTT
1 ATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCAATCTACTT
* *
94616268 CGTTGTAAGCACA-GAGTGTCAGATCTACTATCTTCAATCTGTTCCCTATAAATACAGGGATGCC
66 CGCTGTAAGCACAGGAGTGTCAGATCTACTATCTTCAATCTGTTCCCTATAAACACAGGGATGCC
94616332 AA
131 AA
*
94616334 ATCTGCTATCTTCAACTTGTTCCCTATAAACACATGGATGCCATGCTGAAATCTTCAATCTACTT
1 ATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCAATCTACTT
* * *
94616399 CGCTGTAGGCACAGGAGTGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCC
66 CGCTGTAAGCACAGGAGTGTCAGATCTACTATCTTCAATCTGTTCCCTATAAACACAGGGATGCC
94616464 AA
131 AA
94616466 ATCT
1 ATCT
94616470 TGTTTCTCTG
Statistics
Matches: 126, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
131 72 0.57
132 54 0.43
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (132 bp):
ATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCAATCTACTT
CGCTGTAAGCACAGGAGTGTCAGATCTACTATCTTCAATCTGTTCCCTATAAACACAGGGATGCC
AA
Found at i:94617397 original size:17 final size:17
Alignment explanation
Indices: 94617352--94617400 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
94617342 GCCTCTCCAT
*
94617352 TTTTTC-TTTTTTATTC
1 TTTTTCTTTTTTTTTTC
* *
94617368 TTTTTATTATTTTTTTC
1 TTTTTCTTTTTTTTTTC
94617385 TTTTTCTTTTTTTTTT
1 TTTTTCTTTTTTTTTT
94617401 TGAAATAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 5 0.19
17 22 0.81
ACGTcount: A:0.06, C:0.08, G:0.00, T:0.86
Consensus pattern (17 bp):
TTTTTCTTTTTTTTTTC
Found at i:94623080 original size:19 final size:19
Alignment explanation
Indices: 94623056--94623143 Score: 153
Period size: 19 Copynumber: 4.7 Consensus size: 19
94623046 ATCATACCTT
94623056 TAAGATTGCATATCATATC
1 TAAGATTGCATATCATATC
*
94623075 TAAGATTGGATATCATATC
1 TAAGATTGCATATCATATC
94623094 TAAGATTGCATATCATATC
1 TAAGATTGCATATCATATC
94623113 TAAGATTG--TATCATATC
1 TAAGATTGCATATCATATC
94623130 TAAGATTGCATATC
1 TAAGATTGCATATC
94623144 CTTAAAGATT
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
17 17 0.26
19 48 0.74
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:94624317 original size:131 final size:131
Alignment explanation
Indices: 94624162--94624442 Score: 298
Period size: 131 Copynumber: 2.1 Consensus size: 131
94624152 CGGAATCGTA
* *
94624162 CCCTAACGTGCAGGGTTGCAATTTCTCGTCTGCTT-AAAAAAATCAAATATCCCTTCAAAATTTC
1 CCCTATCGTGCTGGGTTGCAATTTCTCGTCTG-TTCAAAAAAATCAAATATCCCTTCAAAATTTC
* *
94624226 ACTCATATCCT-TTAAAAATCCTTT-AAAATGAAGGCAATACTCGGGGTTTGACAATTCGAGAAT
65 ACTCATAT-CTATTAAAAA-CCTTTCAAAACGAAGGCAATACTCGAGGTTTGACAATTCGAGAAT
94624289 CATG
128 CATG
** * * * * * *** *
94624293 CCCTATCGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATATTCCTTTAGGTTTTTA
1 CCCTATCGTGCTGGGTTGCAATTTCTCGTCTGTTCAAAAAAATCAAATATCCCTTCAAAATTTCA
* * * ** * * * *
94624358 CTCATGTTTATTAAAAACCTTTCAAAACGAAGGCGATGTTCGATGTTTGGCAATTTGAGAATCGT
66 CTCATATCTATTAAAAACCTTTCAAAACGAAGGCAATACTCGAGGTTTGACAATTCGAGAATCAT
94624423 G
131 G
94624424 CCCTATCGTGCTGGGTTGC
1 CCCTATCGTGCTGGGTTGC
94624443 GCTTTTTTAT
Statistics
Matches: 122, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
130 8 0.07
131 114 0.93
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (131 bp):
CCCTATCGTGCTGGGTTGCAATTTCTCGTCTGTTCAAAAAAATCAAATATCCCTTCAAAATTTCA
CTCATATCTATTAAAAACCTTTCAAAACGAAGGCAATACTCGAGGTTTGACAATTCGAGAATCAT
G
Found at i:94625392 original size:16 final size:16
Alignment explanation
Indices: 94625371--94625427 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
94625361 AAAAGAATAT
94625371 CATTACAGTTCTATTC
1 CATTACAGTTCTATTC
**
94625387 CATTACAACTCTATTC
1 CATTACAGTTCTATTC
* *
94625403 AATTACAG-CCTTATTC
1 CATTACAGTTC-TATTC
94625419 CATTACAGT
1 CATTACAGT
94625428 GAACCAAACG
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
15 1 0.03
16 32 0.97
ACGTcount: A:0.30, C:0.26, G:0.05, T:0.39
Consensus pattern (16 bp):
CATTACAGTTCTATTC
Found at i:94627376 original size:22 final size:21
Alignment explanation
Indices: 94627350--94627390 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
94627340 TATGTTCATT
94627350 TAAAT-TTAATTATTAAAATATG
1 TAAATATTAA-TA-TAAAATATG
94627372 TAAATATTAATATAAAATA
1 TAAATATTAATATAAAATA
94627391 ATATATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 7 0.39
23 4 0.22
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
TAAATATTAATATAAAATATG
Found at i:94635661 original size:22 final size:22
Alignment explanation
Indices: 94635623--94635664 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
94635613 TGTAAATTTA
*
94635623 ATTATAAAGTATATTATAAAAT
1 ATTATAAAATATATTATAAAAT
94635645 ATTATAAAATA-ATTTATAAA
1 ATTATAAAATATA-TTATAAA
94635665 CAAACAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
ATTATAAAATATATTATAAAAT
Found at i:94638317 original size:29 final size:30
Alignment explanation
Indices: 94638258--94638315 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
94638248 TCCGAGCCTT
*
94638258 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
94638288 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
94638316 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:94638545 original size:13 final size:13
Alignment explanation
Indices: 94638527--94638558 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
94638517 TTTCCAGCAA
94638527 TTATGAATTTATT
1 TTATGAATTTATT
94638540 TTATGAATTTATT
1 TTATGAATTTATT
*
94638553 TGATGA
1 TTATGA
94638559 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:94638766 original size:50 final size:50
Alignment explanation
Indices: 94638653--94638894 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
94638643 ATTTGGGTAA
* * *
94638653 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
94638709 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
94638759 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
94638809 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
94638859 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
94638895 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:94638842 original size:100 final size:103
Alignment explanation
Indices: 94638653--94638902 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
94638643 ATTTGGGTAA
94638653 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
94638718 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
94638759 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
94638821 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
94638859 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
94638903 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:94645897 original size:29 final size:30
Alignment explanation
Indices: 94645838--94645895 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
94645828 TCCGAGCCTT
*
94645838 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
94645868 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
94645896 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:94646125 original size:13 final size:13
Alignment explanation
Indices: 94646107--94646138 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
94646097 TTTCCAGCAA
94646107 TTATGAATTTATT
1 TTATGAATTTATT
94646120 TTATGAATTTATT
1 TTATGAATTTATT
*
94646133 TGATGA
1 TTATGA
94646139 TGATCAAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:94646343 original size:50 final size:50
Alignment explanation
Indices: 94646235--94646471 Score: 287
Period size: 50 Copynumber: 4.6 Consensus size: 50
94646225 GGGTAAAGAA
* *
94646235 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--GAGAGG
*
94646291 TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAGAGG
* * * *
94646341 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCGCCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAGAGG
* * * **
94646391 TCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACGAGAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACGAG-AGG
94646442 TCCCATGTAAGACCATGTCTGGGACATGGC
1 TCCCATGTAAGACCATGTCTGGGACATGGC
94646472 TTTGGCATGT
Statistics
Matches: 160, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 89 0.56
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 35 0.22
ACGTcount: A:0.25, C:0.25, G:0.30, T:0.20
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAGAGG
Found at i:94646418 original size:100 final size:104
Alignment explanation
Indices: 94646234--94646478 Score: 347
Period size: 100 Copynumber: 2.4 Consensus size: 104
94646224 TGGGTAAAGA
* *
94646234 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCCCTGT
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAGCC---AGATCATGAGAGGTCCCCTAT
* *
94646299 AAGACCATGTCTGGGACATGGCATGGGCACCGA-GACGAG-AG
63 AAGACCATGTCTGGGACATGGCATGGGCACC-ATCACGAGAAC
* * *
94646340 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGC-GCC-GA-GATGAGAGGTCCCCTATAAG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAGCCAGATCATGAGAGGTCCCCTATAAG
94646402 ACCATGTCTGGGACATGGCATGGGCACCATCACGAGAAC
66 ACCATGTCTGGGACATGGCATGGGCACCATCACGAGAAC
*
94646441 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
94646479 TGTTATTATC
Statistics
Matches: 127, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.40
101 38 0.30
105 2 0.02
106 35 0.28
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.21
Consensus pattern (104 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAGCCAGATCATGAGAGGTCCCCTATAAG
ACCATGTCTGGGACATGGCATGGGCACCATCACGAGAAC
Found at i:94651853 original size:27 final size:27
Alignment explanation
Indices: 94651817--94651894 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 27
94651807 TGTGGGCCAC
*
94651817 ACCATATGCGCCTCTGAGATAGGCACA
1 ACCATTTGCGCCTCTGAGATAGGCACA
* * *
94651844 ATCATTTGCGTCTCTGAGATAGACACA
1 ACCATTTGCGCCTCTGAGATAGGCACA
*
94651871 ACCATTTGCGCCTCTGAGAAAGGC
1 ACCATTTGCGCCTCTGAGATAGGC
94651895 TCGATTAGTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (27 bp):
ACCATTTGCGCCTCTGAGATAGGCACA
Found at i:94653400 original size:27 final size:29
Alignment explanation
Indices: 94653370--94653423 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
94653360 TATGATTATT
*
94653370 ATAAATATTATAA-AACTTA-AAAAAATC
1 ATAAATATCATAAGAACTTATAAAAAATC
*
94653397 ATAAATATCATAAGAATTTATAAAAAA
1 ATAAATATCATAAGAACTTATAAAAAA
94653424 GACTATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 12 0.52
28 5 0.22
29 6 0.26
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.30
Consensus pattern (29 bp):
ATAAATATCATAAGAACTTATAAAAAATC
Found at i:94653519 original size:21 final size:20
Alignment explanation
Indices: 94653478--94653522 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
94653468 TAAAATACTT
* *
94653478 AAAAATTTATAAATGATATA
1 AAAAATTTAGAAATGAAATA
*
94653498 AAAAATTTAGAAATTACAATA
1 AAAAATTTAGAAATGA-AATA
94653519 AAAA
1 AAAA
94653523 GATATTTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.29
Consensus pattern (20 bp):
AAAAATTTAGAAATGAAATA
Found at i:94654576 original size:17 final size:17
Alignment explanation
Indices: 94654533--94654592 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
94654523 GTTTTATGTT
*
94654533 TTTTATAATTTACTAGAA
1 TTTTATAATTTA-TATAA
* *
94654551 CTGTTATAAGTTT-TATAT
1 -TTTTATAA-TTTATATAA
94654569 TTTTATAATTTATATAA
1 TTTTATAATTTATATAA
94654586 TTTTATA
1 TTTTATA
94654593 TATATTTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
16 3 0.09
17 18 0.53
18 3 0.09
19 7 0.21
20 3 0.09
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (17 bp):
TTTTATAATTTATATAA
Found at i:94654579 original size:9 final size:9
Alignment explanation
Indices: 94654554--94654612 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
94654544 ACTAGAACTG
*
94654554 TTATAAGTT
1 TTATAATTT
94654563 TTAT-ATTT
1 TTATAATTT
94654571 TTATAATTT
1 TTATAATTT
*
94654580 ATATAA-TT
1 TTATAATTT
94654588 TTATATATATT
1 TTATA-AT-TT
*
94654599 TAATAAATTT
1 TTAT-AATTT
94654609 TTAT
1 TTAT
94654613 GCTTTTTAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
8 13 0.32
9 14 0.35
10 5 0.12
11 7 0.17
12 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (9 bp):
TTATAATTT
Found at i:94654604 original size:19 final size:19
Alignment explanation
Indices: 94654567--94654612 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
94654557 TAAGTTTTAT
94654567 ATTTTTATAATTTATAT-A
1 ATTTTTATAATTTATATAA
94654585 ATTTTATATATATTTA-ATAA
1 ATTTT-TATA-ATTTATATAA
94654605 ATTTTTAT
1 ATTTTTAT
94654613 GCTTTTTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 5 0.20
19 9 0.36
20 11 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTTATAATTTATATAA
Done.