Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 233 of 259
Found at i:73114257 original size:19 final size:19
Alignment explanation
Indices: 73114235--73114271 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
73114225 GAGGATAGAT
* *
73114235 TTGAGAGAAAATAATAATA
1 TTGAAAGAAAAAAATAATA
73114254 TTGAAAGAAAAAAATAAT
1 TTGAAAGAAAAAAATAAT
73114272 TTTACTAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (19 bp):
TTGAAAGAAAAAAATAATA
Found at i:73120753 original size:20 final size:21
Alignment explanation
Indices: 73120730--73120783 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 21
73120720 TTTTTTTCTT
73120730 ATTTTTATTAAAATTTAAT-A
1 ATTTTTATTAAAATTTAATAA
*
73120750 ATTTTTA-T-AAATTTATTAA
1 ATTTTTATTAAAATTTAATAA
*
73120769 ATTTTT-TTATAATTT
1 ATTTTTATTAAAATTT
73120784 TTTTTGTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 8 0.28
19 9 0.31
20 12 0.41
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTTTATTAAAATTTAATAA
Found at i:73120773 original size:58 final size:58
Alignment explanation
Indices: 73120654--73120763 Score: 134
Period size: 58 Copynumber: 1.9 Consensus size: 58
73120644 TTTTTTATGC
* * * *
73120654 ATTTTATAA-TTTTTTATTATTTTTATAAAAATTCACAATTTTTTTTACATTTTCATG
1 ATTTTATAATTTTTTTATTATTTTTATAAAAATTCACAAATTTTTATAAATTTTCATA
* * *
73120711 ATTTTATAATTTTTTTCTTATTTTTATTAAAATTTA-ATAATTTTTATAAATTT
1 ATTTTATAATTTTTTTATTATTTTTATAAAAATTCACA-AATTTTTATAAATTT
73120764 ATTAAATTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
57 10 0.22
58 35 0.78
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.62
Consensus pattern (58 bp):
ATTTTATAATTTTTTTATTATTTTTATAAAAATTCACAAATTTTTATAAATTTTCATA
Found at i:73121007 original size:12 final size:12
Alignment explanation
Indices: 73120978--73121006 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
73120968 TTTGAAGACC
73120978 TTTTTTATGCAT
1 TTTTTTATGCAT
73120990 TTTTTTATGC-T
1 TTTTTTATGCAT
73121001 TTTTTT
1 TTTTTT
73121007 TTTTAAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.10, C:0.07, G:0.07, T:0.76
Consensus pattern (12 bp):
TTTTTTATGCAT
Found at i:73121156 original size:14 final size:14
Alignment explanation
Indices: 73121139--73121165 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
73121129 AAAAAATTAT
73121139 AAATAAATATTAAG
1 AAATAAATATTAAG
73121153 AAATAAATATTAA
1 AAATAAATATTAA
73121166 CCCACAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (14 bp):
AAATAAATATTAAG
Found at i:73127977 original size:21 final size:21
Alignment explanation
Indices: 73127951--73127991 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
73127941 AGACGAACAA
* *
73127951 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
73127972 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
73127992 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:73139820 original size:29 final size:30
Alignment explanation
Indices: 73139780--73139854 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 30
73139770 AGTAAATTAA
73139780 TTTAATAA-AAAATTAATA-AG-AACTTAAAT
1 TTTAA-AATAAAATTAATATAGAAAC-TAAAT
*
73139809 TTTAAAATAAAA-AAATATAGAAACTAAAT
1 TTTAAAATAAAATTAATATAGAAACTAAAT
73139838 TTCTAAAAGTAAAATTA
1 TT-TAAAA-TAAAATTA
73139855 TTAATGATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
28 6 0.16
29 18 0.47
30 8 0.21
31 5 0.13
32 1 0.03
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (30 bp):
TTTAAAATAAAATTAATATAGAAACTAAAT
Found at i:73146289 original size:14 final size:14
Alignment explanation
Indices: 73146270--73146301 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
73146260 AGGTCATTTA
73146270 GCCCAACCAAACTG
1 GCCCAACCAAACTG
73146284 GCCCAACCAAACTG
1 GCCCAACCAAACTG
73146298 GCCC
1 GCCC
73146302 GGTGATTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:73147120 original size:3 final size:3
Alignment explanation
Indices: 73147107--73147138 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
73147097 CAAACAAGTA
*
73147107 AAT ATT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
73147139 AAGTTACAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:73147233 original size:3 final size:3
Alignment explanation
Indices: 73147215--73147249 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
73147205 CTAACAAGTA
* *
73147215 AAT ATT AAT TAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
73147250 AAGTTACAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:73147290 original size:111 final size:108
Alignment explanation
Indices: 73147099--73147317 Score: 402
Period size: 111 Copynumber: 2.0 Consensus size: 108
73147089 TGGCATGCCA
73147099 AACAAGTAAATATTAATAATAATAATAATAATAATAATAAAAGTTACAACTCAGCCCTAGCTTCC
1 AACAAGTAAATATTAATAATAATAATAATAATAATAATAAAAGTTACAACTCAGCCCTAGCTTCC
73147164 CATCTTAATCACTCTATTTAAAAGTCAAATCCCACGATTCTCT
66 CATCTTAATCACTCTATTTAAAAGTCAAATCCCACGATTCTCT
73147207 AACAAGTAAATATTAATTATAATAATAATAATAATAATAATAAAAGTTACAACTCAGCCCTAGCT
1 AACAAGTAAATATT-A--ATAATAATAATAATAATAATAATAAAAGTTACAACTCAGCCCTAGCT
*
73147272 TCCCATCTTAATCACTCTATTTAAGAGTCAAATCCCACGATTCTCT
63 TCCCATCTTAATCACTCTATTTAAAAGTCAAATCCCACGATTCTCT
73147318 TTCTAAGCCA
Statistics
Matches: 107, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
108 14 0.13
109 1 0.01
111 92 0.86
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.31
Consensus pattern (108 bp):
AACAAGTAAATATTAATAATAATAATAATAATAATAATAAAAGTTACAACTCAGCCCTAGCTTCC
CATCTTAATCACTCTATTTAAAAGTCAAATCCCACGATTCTCT
Found at i:73147635 original size:12 final size:10
Alignment explanation
Indices: 73147607--73147663 Score: 62
Period size: 10 Copynumber: 5.5 Consensus size: 10
73147597 AATAATATTT
73147607 ATTTTTATAA
1 ATTTTTATAA
73147617 ATTTTTATAA
1 ATTTTTATAA
*
73147627 ATTTTTTTATA
1 ATTTTTATA-A
*
73147638 ATTTATTGT-A
1 ATTT-TTATAA
73147648 ATTTTTATAA
1 ATTTTTATAA
73147658 CATTTT
1 -ATTTT
73147664 ATATTTCTCG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
9 3 0.08
10 24 0.60
11 10 0.25
12 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (10 bp):
ATTTTTATAA
Found at i:73147653 original size:22 final size:22
Alignment explanation
Indices: 73147603--73147653 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
73147593 ATATAATAAT
73147603 ATTTATTTTTATAAATTTTTATA
1 ATTT-TTTTTATAAATTTTTATA
* *
73147626 AATTTTTTTAT-AATTTATTGTA
1 ATTTTTTTTATAAATTT-TTATA
73147648 ATTTTT
1 ATTTTT
73147654 ATAACATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 5 0.21
22 16 0.67
23 3 0.12
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
ATTTTTTTTATAAATTTTTATA
Found at i:73153387 original size:22 final size:23
Alignment explanation
Indices: 73153336--73153394 Score: 93
Period size: 23 Copynumber: 2.5 Consensus size: 23
73153326 ATATTAAAAT
73153336 GAAAAAATTATATTTTTACCATC
1 GAAAAAATTATATTTTTACCATC
73153359 GAAAAAATTATATTTTTACCATC
1 GAAAAAATTATATTTTTACCATC
73153382 -ATAAAAATATATA
1 GA-AAAAAT-TATA
73153395 ATTTAACTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
22 1 0.03
23 29 0.85
24 4 0.12
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.37
Consensus pattern (23 bp):
GAAAAAATTATATTTTTACCATC
Found at i:73159508 original size:12 final size:12
Alignment explanation
Indices: 73159491--73159526 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
73159481 AAAAACCCGC
73159491 CCTGCCCCTGCT
1 CCTGCCCCTGCT
73159503 CCTGCCCCTGCT
1 CCTGCCCCTGCT
*
73159515 CCTGCTCCTGCT
1 CCTGCCCCTGCT
73159527 ACAACATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.00, C:0.56, G:0.17, T:0.28
Consensus pattern (12 bp):
CCTGCCCCTGCT
Found at i:73159513 original size:18 final size:18
Alignment explanation
Indices: 73159490--73159525 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
73159480 AAAAAACCCG
73159490 CCCTGCCCCTGCTCCTGC
1 CCCTGCCCCTGCTCCTGC
*
73159508 CCCTGCTCCTGCTCCTGC
1 CCCTGCCCCTGCTCCTGC
73159526 TACAACATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.58, G:0.17, T:0.25
Consensus pattern (18 bp):
CCCTGCCCCTGCTCCTGC
Found at i:73159526 original size:6 final size:6
Alignment explanation
Indices: 73159491--73159526 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
73159481 AAAAACCCGC
* *
73159491 CCTGCC CCTGCT CCTGCC CCTGCT CCTGCT CCTGCT
1 CCTGCT CCTGCT CCTGCT CCTGCT CCTGCT CCTGCT
73159527 ACAACATTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.56, G:0.17, T:0.28
Consensus pattern (6 bp):
CCTGCT
Found at i:73161883 original size:15 final size:15
Alignment explanation
Indices: 73161865--73161897 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
73161855 ACTCAAAAGG
73161865 TAAGTATTGAAAAAT
1 TAAGTATTGAAAAAT
*
73161880 TAAGTGTTGAAAAAT
1 TAAGTATTGAAAAAT
73161895 TAA
1 TAA
73161898 ATACTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (15 bp):
TAAGTATTGAAAAAT
Found at i:73166045 original size:14 final size:14
Alignment explanation
Indices: 73166026--73166055 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
73166016 TATCATATTA
73166026 ATCTATAATACTAT
1 ATCTATAATACTAT
73166040 ATCTATAATACTAT
1 ATCTATAATACTAT
73166054 AT
1 AT
73166056 TTATTAATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (14 bp):
ATCTATAATACTAT
Found at i:73172184 original size:10 final size:10
Alignment explanation
Indices: 73172155--73172235 Score: 51
Period size: 10 Copynumber: 8.0 Consensus size: 10
73172145 AATGAAAAAA
73172155 AAATATT-TT
1 AAATATTATT
73172164 AAATAATTATT
1 AAAT-ATTATT
73172175 AAATATTATTT
1 AAATATTA-TT
73172186 AAAATATT-TT
1 -AAATATTATT
* *
73172196 AAA-ATTGTA
1 AAATATTATT
*
73172205 AAAGAGTTATT
1 AAATA-TTATT
* *
73172216 AAAAATTATA
1 AAATATTATT
*
73172226 AAATAATATT
1 AAATATTATT
73172236 TAACTTTTGT
Statistics
Matches: 57, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
8 3 0.05
9 11 0.19
10 21 0.37
11 15 0.26
12 7 0.12
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (10 bp):
AAATATTATT
Found at i:73172238 original size:21 final size:21
Alignment explanation
Indices: 73172188--73172238 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
73172178 TATTATTTAA
* *
73172188 AATATTTTAAAATTGTAAAAG
1 AATATTTAAAAATTATAAAAG
* *
73172209 AGT-TATTAAAAATTATAAAAT
1 AATAT-TTAAAAATTATAAAAG
73172230 AATATTTAA
1 AATATTTAA
73172239 CTTTTGTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
20 1 0.04
21 21 0.91
22 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (21 bp):
AATATTTAAAAATTATAAAAG
Found at i:73172290 original size:19 final size:19
Alignment explanation
Indices: 73172260--73172310 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
73172250 TTTGAAAATT
73172260 TTATTAAAAAATT-CAAATAA
1 TTATT-AAAAATTGCAAA-AA
*
73172280 TTATTAAAAATTGTAAAAA
1 TTATTAAAAATTGCAAAAA
*
73172299 TTATTTAAAATT
1 TTATTAAAAATT
73172311 TGTGAATTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 20 0.71
20 8 0.29
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (19 bp):
TTATTAAAAATTGCAAAAA
Found at i:73172306 original size:20 final size:21
Alignment explanation
Indices: 73172260--73172313 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
73172250 TTTGAAAATT
* *
73172260 TTATTAAAAAATT-CAAATAA
1 TTATTTAAAAATTGTAAATAA
73172280 TTA-TTAAAAATTGTAAA-AA
1 TTATTTAAAAATTGTAAATAA
*
73172299 TTATTTAAAATTTGT
1 TTATTTAAAAATTGT
73172314 GAATTGGTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (21 bp):
TTATTTAAAAATTGTAAATAA
Found at i:73172574 original size:19 final size:19
Alignment explanation
Indices: 73172540--73172602 Score: 74
Period size: 20 Copynumber: 3.3 Consensus size: 19
73172530 TTTTGTTAAT
73172540 TATTTACAACTTTTAATAA
1 TATTTACAACTTTTAATAA
*
73172559 GTATTTACTA-TTTTAATAA
1 -TATTTACAACTTTTAATAA
* *
73172578 TATTTAAAAATTTTAAATAA
1 TATTTACAACTTTT-AATAA
73172598 TATTT
1 TATTT
73172603 TATTATTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 7 0.18
19 13 0.34
20 18 0.47
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.51
Consensus pattern (19 bp):
TATTTACAACTTTTAATAA
Found at i:73172592 original size:38 final size:40
Alignment explanation
Indices: 73172540--73172617 Score: 99
Period size: 38 Copynumber: 2.0 Consensus size: 40
73172530 TTTTGTTAAT
* *
73172540 TATTTACAACTTTT-AATAAGTA-TTTACTA-TTTTAATAA
1 TATTTAAAAATTTTAAATAA-TATTTTACTATTTTTAATAA
*
73172578 TATTTAAAAATTTTAAATAATATTTTATTATTTTTAATAA
1 TATTTAAAAATTTTAAATAATATTTTACTATTTTTAATAA
73172618 ACTTTTTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
38 14 0.41
39 11 0.32
40 9 0.26
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (40 bp):
TATTTAAAAATTTTAAATAATATTTTACTATTTTTAATAA
Found at i:73172610 original size:20 final size:19
Alignment explanation
Indices: 73172550--73172617 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
73172540 TATTTACAAC
*
73172550 TTTTAATAAGTA-TTTACTA
1 TTTTAATAA-TATTTTAATA
* *
73172569 TTTTAATAATATTTAAAAA
1 TTTTAATAATATTTTAATA
*
73172588 TTTTAAATAATATTTTATTA
1 TTTT-AATAATATTTTAATA
73172608 TTTTTAATAA
1 -TTTTAATAA
73172618 ACTTTTTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 2 0.05
19 17 0.43
20 17 0.43
21 4 0.10
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (19 bp):
TTTTAATAATATTTTAATA
Found at i:73172671 original size:18 final size:20
Alignment explanation
Indices: 73172639--73172684 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
73172629 TTTAAAAACG
*
73172639 TTTTAAAAATATTT-A-TTT
1 TTTTACAAATATTTAAGTTT
73172657 TTTTGACAAAT-TTTAAGTTT
1 TTTT-ACAAATATTTAAGTTT
73172677 TTTTACAA
1 TTTTACAA
73172685 TTATATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 7 0.29
19 10 0.42
20 7 0.29
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (20 bp):
TTTTACAAATATTTAAGTTT
Found at i:73174563 original size:15 final size:14
Alignment explanation
Indices: 73174528--73174569 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
73174518 TATCAAAATT
73174528 AATTAAA-ATATAAA
1 AATTAAATAT-TAAA
*
73174542 AATTAAATTTTAAA
1 AATTAAATATTAAA
73174556 AATATAAATATTAA
1 AAT-TAAATATTAA
73174570 CACATTAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 14 0.58
15 10 0.42
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATTAAATATTAAA
Found at i:73180925 original size:22 final size:22
Alignment explanation
Indices: 73180897--73180941 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
73180887 TGTTTTCTTC
73180897 TTCAAAAGCCATAAAGTTCAGA
1 TTCAAAAGCCATAAAGTTCAGA
*
73180919 TTCAAAAGCCATGAAGTTCAGA
1 TTCAAAAGCCATAAAGTTCAGA
73180941 T
1 T
73180942 ACCAAATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (22 bp):
TTCAAAAGCCATAAAGTTCAGA
Found at i:73182947 original size:29 final size:30
Alignment explanation
Indices: 73182902--73182982 Score: 83
Period size: 31 Copynumber: 2.7 Consensus size: 30
73182892 AAATTTAATC
*
73182902 AAATTAAAATACTATGTATAAAAT-TACATA
1 AAATTAAAAT-TTATGTATAAAATATACATA
* *
73182932 AAATTAAAATTTATGTATAGCATTATACATA
1 AAATTAAAATTTATGTATA-AAATATACATA
* * *
73182963 AAATCAAAATTCATGGATAA
1 AAATTAAAATTTATGTATAA
73182983 TTTTGATATT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
29 8 0.19
30 12 0.29
31 22 0.52
ACGTcount: A:0.53, C:0.07, G:0.06, T:0.33
Consensus pattern (30 bp):
AAATTAAAATTTATGTATAAAATATACATA
Found at i:73184676 original size:20 final size:20
Alignment explanation
Indices: 73184647--73184684 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
73184637 GGTAGATTTT
*
73184647 TTGATGTGTTTAGATAATGA
1 TTGATATGTTTAGATAATGA
*
73184667 TTGATATGTTTAGTTAAT
1 TTGATATGTTTAGATAAT
73184685 TTATTTTGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (20 bp):
TTGATATGTTTAGATAATGA
Found at i:73189518 original size:47 final size:47
Alignment explanation
Indices: 73189409--73189519 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
73189399 CCGGGATAAG
* *
73189409 CACATAGTGCTTTATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
73189456 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
73189503 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
73189520 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:73190292 original size:4 final size:4
Alignment explanation
Indices: 73190283--73190358 Score: 53
Period size: 4 Copynumber: 17.8 Consensus size: 4
73190273 CCCTTTTCTA
* ** * *
73190283 TTTC TTTC TTTC TTTC CTTC TTTC TTTC TCAC GTTTGC TCTC TGTAAC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC T-T-TC
*
73190331 ATTTC TATC TTTC TTTC TTTC TTTC TTT
1 -TTTC TTTC TTTC TTTC TTTC TTTC TTT
73190359 TTTTTTAACT
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
4 47 0.85
5 4 0.07
6 3 0.05
7 1 0.02
ACGTcount: A:0.07, C:0.26, G:0.04, T:0.63
Consensus pattern (4 bp):
TTTC
Found at i:73191299 original size:106 final size:106
Alignment explanation
Indices: 73191114--73191327 Score: 419
Period size: 106 Copynumber: 2.0 Consensus size: 106
73191104 AATAACTTCG
*
73191114 TAAGGCCCAATAAAACGAGGACTTAATTTTCCTTTTTGACCAAATCTTAGAATTTTCTTCCAATG
1 TAAGGCCCAATAAAACGAGGACTTAATTTTCCTTTTTGACCAAATCTTAGAATTTTCTTCCAAGG
73191179 TGAAACCTTTAAAAATACTTTATCCCCGACTGAATATTCAA
66 TGAAACCTTTAAAAATACTTTATCCCCGACTGAATATTCAA
73191220 TAAGGCCCAATAAAACGAGGACTTAATTTTCCTTTTTGACCAAATCTTAGAATTTTCTTCCAAGG
1 TAAGGCCCAATAAAACGAGGACTTAATTTTCCTTTTTGACCAAATCTTAGAATTTTCTTCCAAGG
73191285 TGAAACCTTTAAAAATACTTTATCCCCGACTGAATATTCAA
66 TGAAACCTTTAAAAATACTTTATCCCCGACTGAATATTCAA
73191326 TA
1 TA
73191328 TCTCGTCGTT
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 107 1.00
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.34
Consensus pattern (106 bp):
TAAGGCCCAATAAAACGAGGACTTAATTTTCCTTTTTGACCAAATCTTAGAATTTTCTTCCAAGG
TGAAACCTTTAAAAATACTTTATCCCCGACTGAATATTCAA
Found at i:73196061 original size:39 final size:39
Alignment explanation
Indices: 73196038--73196146 Score: 175
Period size: 39 Copynumber: 2.8 Consensus size: 39
73196028 TCCCAGCACG
* *
73196038 TAGCCTGCGGACCTCAAGTCCGGATATATTTCTAGCATA
1 TAGCCTGCGGATCTCATGTCCGGATATATTTCTAGCATA
*
73196077 TAGTCTGCGGATCTCATGTCCGGATATATTTCTAGCATA
1 TAGCCTGCGGATCTCATGTCCGGATATATTTCTAGCATA
*
73196116 TAGCTTGCGGATCTCATGTCCGGATAT-TTTC
1 TAGCCTGCGGATCTCATGTCCGGATATATTTC
73196147 AATCTCATCC
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
38 4 0.06
39 61 0.94
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (39 bp):
TAGCCTGCGGATCTCATGTCCGGATATATTTCTAGCATA
Found at i:73200014 original size:47 final size:47
Alignment explanation
Indices: 73199905--73200015 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
73199895 CCGGGATAAG
* * *
73199905 CACATAGTGCTTCATTGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
73199952 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
73199999 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
73200016 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:73200788 original size:4 final size:4
Alignment explanation
Indices: 73200779--73200858 Score: 61
Period size: 4 Copynumber: 18.8 Consensus size: 4
73200769 CCCTTTTCTA
* ** * *
73200779 TTTC TTTC TTTC TTTC CTTC TTTC TTTC TCAC GTTTGC TCTC TGTAAC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC T-T-TC
*
73200827 ATTTC TATC TTTC TTTC TTTC TTTC TTTC TTT
1 -TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
73200859 TTAACTTACT
Statistics
Matches: 59, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
4 51 0.86
5 4 0.07
6 3 0.05
7 1 0.02
ACGTcount: A:0.06, C:0.26, G:0.04, T:0.64
Consensus pattern (4 bp):
TTTC
Found at i:73203485 original size:17 final size:15
Alignment explanation
Indices: 73203463--73203496 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 15
73203453 ATTCCATTGC
73203463 TTCTTCTTCCGTTTTCT
1 TTCTTCTT-C-TTTTCT
73203480 TTCTTCTTCTTTTCT
1 TTCTTCTTCTTTTCT
73203495 TT
1 TT
73203497 TTGCTCGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 1 0.06
17 8 0.47
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (15 bp):
TTCTTCTTCTTTTCT
Found at i:73204305 original size:14 final size:15
Alignment explanation
Indices: 73204280--73204308 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
73204270 TTTCCAATTC
73204280 TTTTTTGCTTTCTCA
1 TTTTTTGCTTTCTCA
73204295 TTTTTTG-TTTCTCA
1 TTTTTTGCTTTCTCA
73204309 ATCCGATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.07, C:0.17, G:0.07, T:0.69
Consensus pattern (15 bp):
TTTTTTGCTTTCTCA
Found at i:73207382 original size:14 final size:14
Alignment explanation
Indices: 73207363--73207391 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
73207353 AGCAGATGGT
73207363 TAAGACTTTTAGAC
1 TAAGACTTTTAGAC
73207377 TAAGACTTTTAGAC
1 TAAGACTTTTAGAC
73207391 T
1 T
73207392 TTAGATGTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (14 bp):
TAAGACTTTTAGAC
Found at i:73213456 original size:3 final size:3
Alignment explanation
Indices: 73213448--73213480 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
73213438 GTGAAAATAG
73213448 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
73213481 TACTTTACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:73225956 original size:39 final size:39
Alignment explanation
Indices: 73225897--73226036 Score: 217
Period size: 39 Copynumber: 3.6 Consensus size: 39
73225887 ATCGTGATCT
* * *
73225897 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
73225936 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAATG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
73225975 AAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACA
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
73226014 GAAGCCCGAGGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
73226037 TCATCAGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 92 1.00
ACGTcount: A:0.38, C:0.24, G:0.26, T:0.12
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:73225995 original size:19 final size:18
Alignment explanation
Indices: 73225895--73226036 Score: 99
Period size: 18 Copynumber: 7.4 Consensus size: 18
73225885 ACATCGTGAT
* *
73225895 CTGAAGCCCGAAGTCTAG
1 CTGAAGCCCGAAGGCTAA
**
73225913 CTGAAGCACATAAGTGCTAAA
1 CTGAAGC-CCGAAG-GCT-AA
*
73225934 CGGAAGCCCGAAGGCTAA
1 CTGAAGCCCGAAGGCTAA
73225952 CTGAAGCACAC-AAGTGCTAA
1 CTGAAGC-C-CGAAG-GCTAA
*
73225972 ATGAAAGCCCGAAGGCTAA
1 CTG-AAGCCCGAAGGCTAA
73225991 CTGAAGCACAC-AAGTGCTAAA
1 CTGAAGC-C-CGAAG-GCT-AA
* *
73226012 CAGAAGCCCGAGGGCTAA
1 CTGAAGCCCGAAGGCTAA
73226030 CTGAAGC
1 CTGAAGC
73226037 TCATCAGAGC
Statistics
Matches: 98, Mismatches: 13, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
18 27 0.28
19 27 0.28
20 25 0.26
21 19 0.19
ACGTcount: A:0.37, C:0.25, G:0.25, T:0.13
Consensus pattern (18 bp):
CTGAAGCCCGAAGGCTAA
Found at i:73229113 original size:26 final size:26
Alignment explanation
Indices: 73229077--73229130 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
73229067 TTTAAATACG
*
73229077 TGAATGCCTATGATAATTCTTGAACA
1 TGAATGCCTATGATAAATCTTGAACA
73229103 TGAATGCCTATGATAAATCTTGAACA
1 TGAATGCCTATGATAAATCTTGAACA
73229129 TG
1 TG
73229131 CTAGTAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (26 bp):
TGAATGCCTATGATAAATCTTGAACA
Found at i:73230157 original size:46 final size:46
Alignment explanation
Indices: 73230051--73230221 Score: 227
Period size: 46 Copynumber: 3.6 Consensus size: 46
73230041 TTTGACATGA
* * * *
73230051 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTC-T--T-ATTC-TTTTCATGTCACGT
73230101 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
* * *
73230147 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
73230193 TGCCATGGTATCTTTCAACCATGGTCTTA
1 TGCCATGGTATCTTTCAACCATGGTCTTA
73230222 CACATTTCAT
Statistics
Matches: 113, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
45 5 0.04
46 83 0.73
47 1 0.01
49 1 0.01
50 23 0.20
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.43
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
Found at i:73230228 original size:46 final size:46
Alignment explanation
Indices: 73230099--73230236 Score: 231
Period size: 46 Copynumber: 3.0 Consensus size: 46
73230089 TTTCTGTCAT
* * *
73230099 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
73230145 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
**
73230191 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
73230237 AGAGCCCACT
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 87 1.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
Found at i:73232337 original size:17 final size:17
Alignment explanation
Indices: 73232315--73232348 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
73232305 ATTTTTTTCC
*
73232315 TTTTTCCTTCTTTCTTT
1 TTTTTCCTTCCTTCTTT
73232332 TTTTTCCTTCCTTCTTT
1 TTTTTCCTTCCTTCTTT
73232349 CTTTCCCCTG
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:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTCCTTCCTTCTTT
Found at i:73238816 original size:18 final size:18
Alignment explanation
Indices: 73238793--73238838 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
73238783 TTTAAAAAAA
*
73238793 TATAAATTTTGGAATTTT
1 TATAAATTTTGGAACTTT
*
73238811 TATAAATATTTTGAACTTT
1 TATAAAT-TTTGGAACTTT
73238830 TA-AAATTTT
1 TATAAATTTT
73238839 TTGTTGAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 3 0.12
18 11 0.44
19 11 0.44
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (18 bp):
TATAAATTTTGGAACTTT
Found at i:73239111 original size:29 final size:28
Alignment explanation
Indices: 73239058--73239117 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
73239048 TAATTTTTAA
* *
73239058 ATTTTTAAAAATACAAAATTATAAAACT
1 ATTTTTAAAAATAAAAAATCATAAAACT
*
73239086 ATTTTTAAAAATAAAAAATCATTAAAATT
1 ATTTTTAAAAATAAAAAATCA-TAAAACT
73239115 ATT
1 ATT
73239118 AAAAATTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (28 bp):
ATTTTTAAAAATAAAAAATCATAAAACT
Found at i:73239480 original size:3 final size:3
Alignment explanation
Indices: 73239472--73239502 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
73239462 ATAGTTTTGA
73239472 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
73239503 ATTTTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:73252084 original size:23 final size:24
Alignment explanation
Indices: 73252049--73252095 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
73252039 TTTTTTAATT
*
73252049 AAATTTGATATTAATTTTCTTTAA
1 AAATTCGATATTAATTTTCTTTAA
* *
73252073 AAATTCGA-ATTACTTTTTTTTAA
1 AAATTCGATATTAATTTTCTTTAA
73252096 CAAAAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.53
Consensus pattern (24 bp):
AAATTCGATATTAATTTTCTTTAA
Found at i:73252207 original size:34 final size:34
Alignment explanation
Indices: 73252169--73252235 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
73252159 CATATAATTC
73252169 ATATTAACATGACACTAAATATTTTATATACCAT
1 ATATTAACATGACACTAAATATTTTATATACCAT
73252203 ATATTAACATGACACTAAATATTTTATATACCA
1 ATATTAACATGACACTAAATATTTTATATACCA
73252236 CGTCAACAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.37
Consensus pattern (34 bp):
ATATTAACATGACACTAAATATTTTATATACCAT
Found at i:73258335 original size:6 final size:6
Alignment explanation
Indices: 73258320--73258416 Score: 176
Period size: 6 Copynumber: 16.2 Consensus size: 6
73258310 ATAATTTAAA
* *
73258320 ACATTT ACATAC ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
73258368 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
73258416 A
1 A
73258417 TGCCCTTCTC
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 88 1.00
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (6 bp):
ACATAT
Found at i:73264444 original size:46 final size:46
Alignment explanation
Indices: 73264392--73264711 Score: 453
Period size: 46 Copynumber: 7.0 Consensus size: 46
73264382 AGTGTGCTCT
*
73264392 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
73264438 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
73264484 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
73264530 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** * *
73264576 ATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
73264622 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
73264668 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
73264712 TCATATCAAA
Statistics
Matches: 255, Mismatches: 18, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 254 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:73265018 original size:16 final size:17
Alignment explanation
Indices: 73264997--73265029 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
73264987 ATAATGGTGC
73264997 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
73265013 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
73265030 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:73270653 original size:12 final size:12
Alignment explanation
Indices: 73270636--73270664 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
73270626 AAGCTACATG
73270636 TTAAAACTAAAA
1 TTAAAACTAAAA
73270648 TTAAAACTAAAA
1 TTAAAACTAAAA
73270660 TTAAA
1 TTAAA
73270665 TGATGTGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (12 bp):
TTAAAACTAAAA
Found at i:73276803 original size:15 final size:15
Alignment explanation
Indices: 73276783--73276812 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
73276773 AAGGAAAATG
73276783 TTAACTCCGTTTAAT
1 TTAACTCCGTTTAAT
73276798 TTAACTCCGTTTAAT
1 TTAACTCCGTTTAAT
73276813 CTTCAGAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (15 bp):
TTAACTCCGTTTAAT
Found at i:73278388 original size:17 final size:18
Alignment explanation
Indices: 73278362--73278396 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
73278352 TGTTTCTTAA
73278362 ATATAATTTTAAA-AAAC
1 ATATAATTTTAAATAAAC
*
73278379 ATATATTTTTAAATAAAC
1 ATATAATTTTAAATAAAC
73278397 GAGTATAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (18 bp):
ATATAATTTTAAATAAAC
Found at i:73280077 original size:22 final size:23
Alignment explanation
Indices: 73280035--73280079 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
73280025 ATTAGTTTTA
*
73280035 AGAGTTCTAATTTATTGTTAAAT
1 AGAGTTCTAATTTATAGTTAAAT
73280058 AGAGTT-TAA-TTATAGATTAAAT
1 AGAGTTCTAATTTATAG-TTAAAT
73280080 TATTTGTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 9 0.45
23 6 0.30
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.44
Consensus pattern (23 bp):
AGAGTTCTAATTTATAGTTAAAT
Found at i:73280143 original size:19 final size:19
Alignment explanation
Indices: 73280098--73280144 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
73280088 CTAAATTTTA
**
73280098 TATTATTTTATTATGAATT
1 TATTATTTTATTAAAAATT
73280117 TATATATTTT-TTAAAAATT
1 TAT-TATTTTATTAAAAATT
73280136 TCATTATTT
1 T-ATTATTT
73280145 GAGTGTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
TATTATTTTATTAAAAATT
Found at i:73282095 original size:70 final size:70
Alignment explanation
Indices: 73281982--73282122 Score: 210
Period size: 70 Copynumber: 2.0 Consensus size: 70
73281972 TGTTATATCT
* * *
73281982 CATCAATATTTCATCTAGTACATACAATTGGTTTCAATTTAACTAGACACATGTGCATGCCATTC
1 CATCAATACTTCATCTAGTACATAAAATTGGTTTCAATTTAACTAGACACATGTGCAAGCCATTC
73282047 TAAAA
66 TAAAA
* * * * *
73282052 CATCAGTACTTCATCTAGTATATAAAATTGGTTTTAGTTTAACTAGACGCATGTGCAAGCCATTC
1 CATCAATACTTCATCTAGTACATAAAATTGGTTTCAATTTAACTAGACACATGTGCAAGCCATTC
73282117 TAAAA
66 TAAAA
73282122 C
1 C
73282123 TAGATTAAAC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
70 63 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (70 bp):
CATCAATACTTCATCTAGTACATAAAATTGGTTTCAATTTAACTAGACACATGTGCAAGCCATTC
TAAAA
Found at i:73282140 original size:33 final size:33
Alignment explanation
Indices: 73282098--73282164 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
73282088 GTTTAACTAG
73282098 ACGCATGTGCAAGCCATTCTAAAACTAGATTAA
1 ACGCATGTGCAAGCCATTCTAAAACTAGATTAA
73282131 ACGCATGTGCAAGCCATTCTAAAACTAGATTAA
1 ACGCATGTGCAAGCCATTCTAAAACTAGATTAA
73282164 A
1 A
73282165 AGCGTATTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (33 bp):
ACGCATGTGCAAGCCATTCTAAAACTAGATTAA
Found at i:73291234 original size:23 final size:23
Alignment explanation
Indices: 73291168--73291234 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 23
73291158 GAGATGTTAT
73291168 TTGAATAA-T-TGTATCTCTTAC
1 TTGAATAATTATGTATCTCTTAC
* * * * *
73291189 TTCAATAATTATATTTATGTTAC
1 TTGAATAATTATGTATCTCTTAC
* *
73291212 TTGAATAATTATGTCTCTTTTAC
1 TTGAATAATTATGTATCTCTTAC
73291235 AGATAAGATT
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
21 7 0.21
22 1 0.03
23 26 0.76
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.51
Consensus pattern (23 bp):
TTGAATAATTATGTATCTCTTAC
Found at i:73300454 original size:27 final size:25
Alignment explanation
Indices: 73300424--73300510 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 25
73300414 TGTATAATTA
*
73300424 AATTAAATTTAAAATTTAAATATATAT
1 AATTAAA-TT-AAATTAAAATATATAT
*
73300451 AATTATATTAAATTAAAAAATATATAT
1 AATTAAATTAAATT--AAAATATATAT
73300478 AATTATACATTAAATTAAAATTTATATAT
1 AATTA-A-ATTAAATTAAAA--TATATAT
73300507 AATT
1 AATT
73300511 TTAAAATTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
25 5 0.10
26 2 0.04
27 25 0.49
29 19 0.37
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (25 bp):
AATTAAATTAAATTAAAATATATAT
Found at i:73300464 original size:25 final size:26
Alignment explanation
Indices: 73300435--73300510 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 26
73300425 ATTAAATTTA
*
73300435 AAATTTAAATATATATAATTAT-ATT
1 AAATTAAAATATATATAATTATAATT
73300460 AAATTAAAAAATATATATAATTATACATT
1 AAATT--AAAATATATATAATTATA-ATT
73300489 AAATTAAAATTTATATATAATT
1 AAATTAAAA--TATATATAATT
73300511 TTAAAATTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
25 5 0.11
27 20 0.45
29 19 0.43
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (26 bp):
AAATTAAAATATATATAATTATAATT
Found at i:73300489 original size:29 final size:27
Alignment explanation
Indices: 73300441--73300510 Score: 104
Period size: 29 Copynumber: 2.5 Consensus size: 27
73300431 TTTAAAATTT
73300441 AAATATATATAATTATATTAAATTAAA
1 AAATATATATAATTATATTAAATTAAA
73300468 AAATATATATAATTATACATTAAATTAAA
1 AAATATATATAATTAT--ATTAAATTAAA
**
73300497 ATTTATATATAATT
1 AAATATATATAATT
73300511 TTAAAATTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 16 0.41
29 23 0.59
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (27 bp):
AAATATATATAATTATATTAAATTAAA
Found at i:73305679 original size:5 final size:6
Alignment explanation
Indices: 73305666--73305706 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
73305656 ATAATTTAAT
*
73305666 AAATAA AAATAA AAATTTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
73305707 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:73305694 original size:20 final size:21
Alignment explanation
Indices: 73305658--73305701 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
73305648 AATTAAAAAT
73305658 AATTTAATAAATAAAAATAAA
1 AATTTAATAAATAAAAATAAA
*
73305679 AATTTAA-AACTAAAAATAAA
1 AATTTAATAAATAAAAATAAA
73305699 AAT
1 AAT
73305702 AAAAAACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AATTTAATAAATAAAAATAAA
Found at i:73305707 original size:20 final size:20
Alignment explanation
Indices: 73305669--73305708 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
73305659 ATTTAATAAA
**
73305669 TAAAAATAAAAATTTAAAAC
1 TAAAAATAAAAATAAAAAAC
73305689 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
73305709 ATATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:73305784 original size:9 final size:9
Alignment explanation
Indices: 73305726--73305783 Score: 55
Period size: 9 Copynumber: 6.6 Consensus size: 9
73305716 TTTATACAAA
73305726 TAATTCGGT
1 TAATTCGGT
73305735 TAATTCGGT
1 TAATTCGGT
* *
73305744 TAATTTGGG
1 TAATTCGGT
**
73305753 TAATTAAG-
1 TAATTCGGT
*
73305761 TAATTCGGG
1 TAATTCGGT
*
73305770 TAATTTGGT
1 TAATTCGGT
73305779 TAATT
1 TAATT
73305784 TTATATTTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
8 6 0.15
9 34 0.85
ACGTcount: A:0.28, C:0.05, G:0.22, T:0.45
Consensus pattern (9 bp):
TAATTCGGT
Found at i:73306610 original size:11 final size:11
Alignment explanation
Indices: 73306596--73306631 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
73306586 ATATCCAAAC
73306596 AATAATAATAA
1 AATAATAATAA
*
73306607 AATAATAGTAA
1 AATAATAATAA
*
73306618 AATAATAATGA
1 AATAATAATAA
73306629 AAT
1 AAT
73306632 GGTAGCAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (11 bp):
AATAATAATAA
Found at i:73306641 original size:22 final size:22
Alignment explanation
Indices: 73306596--73306643 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
73306586 ATATCCAAAC
*
73306596 AATAATAATAAAATAATAGTAA
1 AATAATAATAAAATAATAGCAA
* **
73306618 AATAATAATGAAATGGTAGCAA
1 AATAATAATAAAATAATAGCAA
73306640 AATA
1 AATA
73306644 GTGAGAAAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.62, C:0.02, G:0.10, T:0.25
Consensus pattern (22 bp):
AATAATAATAAAATAATAGCAA
Found at i:73311640 original size:17 final size:17
Alignment explanation
Indices: 73311618--73311650 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
73311608 AACTGTCGAG
73311618 AAGTTATTCAAGGAATA
1 AAGTTATTCAAGGAATA
73311635 AAGTTATTCAAGGAAT
1 AAGTTATTCAAGGAAT
73311651 GTAATTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.30
Consensus pattern (17 bp):
AAGTTATTCAAGGAATA
Found at i:73311751 original size:630 final size:615
Alignment explanation
Indices: 73310064--73313075 Score: 3367
Period size: 630 Copynumber: 4.8 Consensus size: 615
73310054 ACATCTTAGA
* * * * *
73310064 CAGAATCTCCCTATAGTTTATTCTAATAGCACAGTATATCATCACAATTATGCCCTACAAAATAA
1 CAGAATCCCCCTATAATTTATTCTAATAGCACAATATATCATCACAATTGTACCCTACAAAATAA
* * * ** * ** * * *
73310129 CAATATAGAATACGAAAAATTTAAGGAGGCTCGGCAAATTATGCCTACATCCTCAAACAATACCC
66 AAATAAAGAACAC-AAAAATTTATCGAGGCTCGACAAATTACACCTACGTCATCAAACAATACCA
*
73310194 AATATATTTCATTA-AAAATGATATAAGTGGGATTTTGCTATTTCAACAATTCAAGATACCAGTA
130 AATATATTTCATTACAAAA-GATAAAAGTGGGA--TT-C-A-TT-----A-T-----TA-C--T-
* * * * *
73310258 CCTTT-T-TTTTTGGAAACTTTGCCATAACCATCTTCCCACGTGAATGGAGCTACAGAAGGACTA
174 -TTTTCTATTTTTGGAAACTTTGCCATAATCATCTTCCCACATGAATGGAGCTACAAAAGG-CTC
* * *
73310321 AATTAATGCACTTTCAGGATGTCCTTTGTTTTAGGAGCATAATGAAAC-T-GTCGAAAAGTTATT
237 AATTAATGCACTTTCAGAATGTCCTTTGTGTTAGGAGCATAACGAAACTTCGTCGAAAAGTTATT
* * * * *
73310384 CAAGAAATGTAATTTTGTTAGGTAATTTGGTTTTGATGTCATCTGTCACTCAAATTGGATAAGTT
302 CAAGGAATGTAATTTTGTTAGGTAGTTTGGTTTTGATGCCATCTGTCACTCAGATTGGATGAGTT
** * *
73310449 ACATCACATGACGTTA-TTGCAAAATCTACAGGGTTGACTTGATACAGTTGATGCTATTAGTGA-
367 ACGCCACATGACGTTACTT-CAAAATCTATAGGGTTGACTTGATACAATTGATGCTATTAGTGAC
* *
73310512 ACAGATCAC-AGGTTCT-TACTTATCTTATTGTCGGCTTATAAATCTTTTGGAAAGTTAAAAATG
431 ACAGATCACGA-GTTCTCTACTTATCTTATTGTCGGCTTATGAATCATTTGGAAAGTTAAAAATG
* ** *
73310575 AAAAGATATTTAATCATATCACTCATAATCCTATTAGCATTGAATTAATAAGCTTTCAACGAACA
495 AAAAGATATTTAATCATATCACTCATAATCCTATTAGCAGTGAATTAATAATATTTCAACGACCA
* * *
73310640 TTCTAAATGCCTTTAATCATACTAAATATGAATGTTTTAAA-CCTAACCTCCTATA-
560 TTCTAAATGCCTTCAATCAGACTAAATCTGAATGTTTTAAAGCCTAACCTCCTA-AG
* * * *
73310695 CAGAATCTCCTTATAATTTATTCTAATAACACAATATATCATCACAATTGTACCCTACAAAATAG
1 CAGAATCCCCCTATAATTTATTCTAATAGCACAATATATCATCACAATTGTACCCTACAAAATAA
* ** *
73310760 CAATACTGAACACGAAAAATTTAAT-AAGGCTCGACAAATTACACCTACGTCATCAAACAATA--
66 AAATAAAGAACAC-AAAAATTT-ATCGAGGCTCGACAAATTACACCTACGTCATCAAACAATACC
** * *
73310822 GTA-ATATCTCATTACAAAAGATAAAGTGAGATTGTGTTATTTCAACAATTCAAGATATTGGTAC
129 AAATATATTTCATTACAAAAGATAAA---AG--TG-G-GA-TT---C-A-T-----TA-T--TAC
* * * *
73310886 TTTTT-TATTTTTGGAAACTTTGTCATAATCATCTTCCTACATGAATGAAGCTACAGAAGGACTC
173 TTTTTCTATTTTTGGAAACTTTGCCATAATCATCTTCCCACATGAATGGAGCTACAAAAGG-CTC
* * *
73310950 AATTAATGCACTTTCATAATGTCCTTTATGTTAGGAGCATAACGAAA-TT-GTCGAGAAGTTATT
237 AATTAATGCACTTTCAGAATGTCCTTTGTGTTAGGAGCATAACGAAACTTCGTCGAAAAGTTATT
* * *
73311013 CAAGGAATGTAATTTTGTTAGGTAGTTTGGTTTTGATGCCATCTATCACTCAGAGTCGATGAGTT
302 CAAGGAATGTAATTTTGTTAGGTAGTTTGGTTTTGATGCCATCTGTCACTCAGATTGGATGAGTT
* * * * * *
73311078 ACGCCACATAACGTTGCTTCAAAATTTATAGGGTTGACTTGATATAATTGATGCTATTAATAACA
367 ACGCCACATGACGTTACTTCAAAATCTATAGGGTTGACTTGATACAATTGATGCTATTAGTGACA
* *
73311143 CAGATCACGAGTTCTCTACCTATCTTATTGTCAGCTTATGAATCATTTGGAAAGTTAAAAATGAA
432 CAGATCACGAGTTCTCTACTTATCTTATTGTCGGCTTATGAATCATTTGGAAAGTTAAAAATGAA
* *
73311208 ATGATATTTAATCATATCTCTCATAATCCTATTAGCAGTGAATTAATAATATTTCAACGACCATT
497 AAGATATTTAATCATATCACTCATAATCCTATTAGCAGTGAATTAATAATATTTCAACGACCATT
* * * **
73311273 CTCAATGTCTTCAATCAGACTAAATCTGAATATTTTAAAGCCTAACCTTTTAAG
562 CTAAATGCCTTCAATCAGACTAAATCTGAATGTTTTAAAGCCTAACCTCCTAAG
* * * * *
73311327 TAGATTCCCCCTATAATTTATTCTAATAGCACAACATATCATCACAATTGTGCACTACAAAATAA
1 CAGAATCCCCCTATAATTTATTCTAATAGCACAATATATCATCACAATTGTACCCTACAAAATAA
* *
73311392 AAATAAAGAACACAAGAAATTTATTGAGGCTCGACAAATTACACCTGCGTCATCAAACAATACCA
66 AAATAAAGAACACAA-AAATTTATCGAGGCTCGACAAATTACACCTACGTCATCAAACAATACCA
* *
73311457 AATATATTTGATTACAAAAGATAAAAGTGGGATTC-TTA-TACTTTTTCTATTTTTGGAAATTTT
130 AATATATTTCATTACAAAAGATAAAAGTGGGATTCATTATTACTTTTTCTATTTTTGGAAACTTT
* *
73311520 GCCATAATCGTCTTCCCACATGAATGGAGGTACAAAATGGCTCAATTAATGCACTTTCAGAATGT
195 GCCATAATCATCTTCCCACATGAATGGAGCTACAAAA-GGCTCAATTAATGCACTTTCAGAATGT
*
73311585 CCTTTGTGTCAGGAGCATAACGAAACTGTCGAGAAGTTATTCAAGGAATAAAGTTATTCAAGGAA
259 CCTTTGTGTTAGGAGCATAACGAAACT-TC-----G----TC---G-A-AAAGTTATTCAAGGAA
* * *
73311650 TGTAATTTTGTTAGATAGTATGGTTTGGATGCCATCTGTCACTCAGATTGGATGAGTTACGCCAC
309 TGTAATTTTGTTAGGTAGTTTGGTTTTGATGCCATCTGTCACTCAGATTGGATGAGTTACGCCAC
*
73311715 ATGACATTACTTCAAAATCTATAGGGTTGACTTGATACAATTGATGCTATTAGTGACACAGATCA
374 ATGACGTTACTTCAAAATCTATAGGGTTGACTTGATACAATTGATGCTATTAGTGACACAGATCA
* * *
73311780 CGAGTTCTCTACCTATCTTATTGTCAGCTTATGAATCATTTGGAAAGTTAAAAATGAAATGATAT
439 CGAGTTCTCTACTTATCTTATTGTCGGCTTATGAATCATTTGGAAAGTTAAAAATGAAAAGATAT
* * *
73311845 TTAATCTTATCACTCATAATCCTATTAACAGT-AGATTAATAATATTTCAACGACCATTCTCAAT
504 TTAATCATATCACTCATAATCCTATTAGCAGTGA-ATTAATAATATTTCAACGACCATTCTAAAT
*
73311909 GCCTTCAATCAGACCAAATCTGAATGTTTTAAAGCCTAACCTCCTAAG
568 GCCTTCAATCAGACTAAATCTGAATGTTTTAAAGCCTAACCTCCTAAG
* *
73311957 CAGATTCCCCCTATAATTTATTCTAATAGCACAATATATCATCACAATTGTGCCCTACAAAATAA
1 CAGAATCCCCCTATAATTTATTCTAATAGCACAATATATCATCACAATTGTACCCTACAAAATAA
* * * *
73312022 CAATAAAGAACATAAAAAATTTATCGAGGCTCGAAAAATTACACCTGCGTCATCAAACAATACCA
66 AAATAAAGAACA-CAAAAATTTATCGAGGCTCGACAAATTACACCTACGTCATCAAACAATACCA
* * *
73312087 AATATATTTCATTCCAAAAGATATAAGTGGGATTC-TT-GTACTTTTTCTATTTTTGGAAACTTT
130 AATATATTTCATTACAAAAGATAAAAGTGGGATTCATTATTACTTTTTCTATTTTTGGAAACTTT
* * *
73312150 GCCATAATGATCTTCCCACATGAATGGAGCTATAGAATGGCTCAATTAATGCACTTTCAGAATGT
195 GCCATAATCATCTTCCCACATGAATGGAGCTACA-AAAGGCTCAATTAATGCACTTTCAGAATGT
* * * *
73312215 CCTTTGTGTTAGAAGCATAACGAAAC--CGTCGAGAAGTTATTCAAGGAATGTAATTTTGCTAGA
259 CCTTTGTGTTAGGAGCATAACGAAACTTCGTCGAAAAGTTATTCAAGGAATGTAATTTTGTTAGG
* * * *
73312278 TAGTTTGGTTTGGATGCCACCTGTCACTCAGATTGGGTGAGTTACGCCACATGACATTACTTCAA
324 TAGTTTGGTTTTGATGCCATCTGTCACTCAGATTGGATGAGTTACGCCACATGACGTTACTTCAA
* * * * * * *
73312343 AATCTTTAGGGTTGACTTGATACAATTAATGTTGTTAGTGACACAGACCACGAGTTATTTACTTA
389 AATCTATAGGGTTGACTTGATACAATTGATGCTATTAGTGACACAGATCACGAGTTCTCTACTTA
* * *
73312408 TCTTATTGTCGGATTATGGATCATTGGGAAAGTTAAAAATGAAAAGATATTTAATCATATCACTC
454 TCTTATTGTCGGCTTATGAATCATTTGGAAAGTTAAAAATGAAAAGATATTTAATCATATCACTC
* * *
73312473 ATAATCCTATTAGCACTGAATTAATAAGT-TTTCAATGACCATTCTAAATGCCTTCAATTAGACT
519 ATAATCCTATTAGCAGTGAATTAATAA-TATTTCAACGACCATTCTAAATGCCTTCAATCAGACT
* * *
73312537 AAATCT-AGTGTTTTAAAACCTAACATCCT-AG
583 AAATCTGAATGTTTTAAAGCCTAACCTCCTAAG
* * *
73312568 ATAGAATCTCCCTATAATTTATTCTAATAGCACAAAATATCATCACAATTGTACCCTACAAAA-A
1 -CAGAATCCCCCTATAATTTATTCTAATAGCACAATATATCATCACAATTGTACCCTACAAAATA
* * ** * *
73312632 AACAATAATGAACATGAAAAATTTGA-CGAGGCTCGACAAATTATGCATACGTCATTAAACAATA
65 AA-AATAAAGAACA-CAAAAATTT-ATCGAGGCTCGACAAATTACACCTACGTCATCAAACAATA
*
73312696 CCAAATATATTTCTTTACAAAAGATAAAAGTGGGATTCTGTTATTTCAAAAATTCAAGATACTAG
127 CCAAATATATTTCATTACAAAAGATAAAAGTGGGATTC----A-TT-----A-T-----TACT--
* * * *
73312761 TACTTT-TTTTTTTGGAAACTTTGTCACAATCATTTTCCCACATGAATGGAGCTACAAAAGGCTC
174 T--TTTCTATTTTTGGAAACTTTGCCATAATCATCTTCCCACATGAATGGAGCTACAAAAGGCTC
* * *
73312825 AATTAATGCACTTTCAGAATGTCCTTTGTGTTAGGAGTATAATGAAAC-T-GTCGAGAAGTTATT
237 AATTAATGCACTTTCAGAATGTCCTTTGTGTTAGGAGCATAACGAAACTTCGTCGAAAAGTTATT
* * * * *
73312888 CAATGAATGTAATTTTGCTAGGTAATTTGGTTTTGATGCCATCTATCACTCAAATTGGATGAGTT
302 CAAGGAATGTAATTTTGTTAGGTAGTTTGGTTTTGATGCCATCTGTCACTCAGATTGGATGAGTT
* * ** * * *
73312953 ACGTCACATGATGTTACCGCAAAATCTACAAGGTTGACTTGATACAATT-AGTGCTATTGGTGAC
367 ACGCCACATGACGTTACTTCAAAATCTATAGGGTTGACTTGATACAATTGA-TGCTATTAGTGAC
* *
73313017 ACAGATCACGAGTTATTTACTTATCTTATTGTCGGCTTAT-AGATCATTTGGAAAGTTAA
431 ACAGATCACGAGTTCTCTACTTATCTTATTGTCGGCTTATGA-ATCATTTGGAAAGTTAA
73313076 TAATCTTTCA
Statistics
Matches: 2077, Mismatches: 222, Indels: 163
0.84 0.09 0.07
Matches are distributed among these distances:
611 4 0.00
612 171 0.08
613 361 0.17
614 6 0.00
615 2 0.00
616 2 0.00
618 4 0.00
621 2 0.00
622 1 0.00
624 1 0.00
625 2 0.00
627 3 0.00
628 21 0.01
629 222 0.11
630 581 0.28
631 258 0.12
632 350 0.17
633 49 0.02
634 8 0.00
635 21 0.01
636 7 0.00
641 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (615 bp):
CAGAATCCCCCTATAATTTATTCTAATAGCACAATATATCATCACAATTGTACCCTACAAAATAA
AAATAAAGAACACAAAAATTTATCGAGGCTCGACAAATTACACCTACGTCATCAAACAATACCAA
ATATATTTCATTACAAAAGATAAAAGTGGGATTCATTATTACTTTTTCTATTTTTGGAAACTTTG
CCATAATCATCTTCCCACATGAATGGAGCTACAAAAGGCTCAATTAATGCACTTTCAGAATGTCC
TTTGTGTTAGGAGCATAACGAAACTTCGTCGAAAAGTTATTCAAGGAATGTAATTTTGTTAGGTA
GTTTGGTTTTGATGCCATCTGTCACTCAGATTGGATGAGTTACGCCACATGACGTTACTTCAAAA
TCTATAGGGTTGACTTGATACAATTGATGCTATTAGTGACACAGATCACGAGTTCTCTACTTATC
TTATTGTCGGCTTATGAATCATTTGGAAAGTTAAAAATGAAAAGATATTTAATCATATCACTCAT
AATCCTATTAGCAGTGAATTAATAATATTTCAACGACCATTCTAAATGCCTTCAATCAGACTAAA
TCTGAATGTTTTAAAGCCTAACCTCCTAAG
Found at i:73322958 original size:18 final size:18
Alignment explanation
Indices: 73322940--73323022 Score: 62
Period size: 18 Copynumber: 4.6 Consensus size: 18
73322930 TTTTTAGAAT
73322940 TTTTTTAAATTTTAT-AA
1 TTTTTTAAATTTTATAAA
* *
73322957 TTTTTTAAAATATATAAA
1 TTTTTTAAATTTTATAAA
* ** *
73322975 ATTTAGAATTTTTATAAA
1 TTTTTTAAATTTTATAAA
* *
73322993 TATTTTGAATTTTA-AAA
1 TTTTTTAAATTTTATAAA
73323010 TTTATTTTAAATT
1 -TT-TTTTAAATT
73323023 ATTCTGTAAT
Statistics
Matches: 47, Mismatches: 16, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
17 16 0.34
18 23 0.49
19 8 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTTTTAAATTTTATAAA
Found at i:73322972 original size:17 final size:17
Alignment explanation
Indices: 73322940--73322973 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
73322930 TTTTTAGAAT
* *
73322940 TTTTTTAAATTTTATAA
1 TTTTTTAAAATATATAA
73322957 TTTTTTAAAATATATAA
1 TTTTTTAAAATATATAA
73322974 AATTTAGAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTTTAAAATATATAA
Found at i:73322997 original size:19 final size:18
Alignment explanation
Indices: 73322969--73323005 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
73322959 TTTTAAAATA
73322969 TATAAAATTTAGAATTTT
1 TATAAAATTTAGAATTTT
*
73322987 TATAAATATTTTGAATTTT
1 TATAAA-ATTTAGAATTTT
73323006 AAAATTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (18 bp):
TATAAAATTTAGAATTTT
Found at i:73323192 original size:23 final size:23
Alignment explanation
Indices: 73323146--73323197 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
73323136 ACTCAAAACC
* *
73323146 CAAATTACTTATTCGAGTTTACT
1 CAAATTACTTATTCGAATTAACT
*
73323169 CGAATTACTTGATTC-AATTAACT
1 CAAATTACTT-ATTCGAATTAACT
73323192 CAAATT
1 CAAATT
73323198 TTAATTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.40
Consensus pattern (23 bp):
CAAATTACTTATTCGAATTAACT
Found at i:73324699 original size:8 final size:9
Alignment explanation
Indices: 73324678--73324702 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
73324668 TTGAAAGTTA
73324678 AAAAATTTT
1 AAAAATTTT
73324687 AAAAATTTT
1 AAAAATTTT
73324696 AAAAATT
1 AAAAATT
73324703 GGTAGACCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AAAAATTTT
Found at i:73337413 original size:24 final size:24
Alignment explanation
Indices: 73337376--73337477 Score: 80
Period size: 24 Copynumber: 4.0 Consensus size: 24
73337366 AGCTTTTGCA
*
73337376 AGCCAAATATCGAGAAGCTCATGCG
1 AGCC-AATATCGAGAAGCTCATGAG
* *
73337401 AGCCAATATCGAGTAGCTCCA-AAG
1 AGCCAATATCGAGAAGCT-CATGAG
*
73337425 AGCCATTAATCGAGAAGCTCATGAG
1 AGCCAAT-ATCGAGAAGCTCATGAG
** *
73337450 AAAGCCTTTTATCAAGAAGCTCATGAG
1 --AGCC-AATATCGAGAAGCTCATGAG
73337477 A
1 A
73337478 AAGCCTTTTA
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
24 22 0.35
25 19 0.30
27 20 0.32
28 2 0.03
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (24 bp):
AGCCAATATCGAGAAGCTCATGAG
Found at i:73337531 original size:27 final size:27
Alignment explanation
Indices: 73337437--73337525 Score: 151
Period size: 27 Copynumber: 3.3 Consensus size: 27
73337427 CCATTAATCG
73337437 AGAAGCTCATGAGAAAGCCTTTTATCA
1 AGAAGCTCATGAGAAAGCCTTTTATCA
73337464 AGAAGCTCATGAGAAAGCCTTTTATCA
1 AGAAGCTCATGAGAAAGCCTTTTATCA
* *
73337491 GGAAGCTCATGAGAAAGCCTTTTATCG
1 AGAAGCTCATGAGAAAGCCTTTTATCA
*
73337518 GGAAGCTC
1 AGAAGCTC
73337526 CGGAGAGCTA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (27 bp):
AGAAGCTCATGAGAAAGCCTTTTATCA
Found at i:73337581 original size:49 final size:50
Alignment explanation
Indices: 73337485--73337658 Score: 147
Period size: 50 Copynumber: 3.5 Consensus size: 50
73337475 AGAAAGCCTT
* * * * **
73337485 TTATCAGGAAGCTCATGAGAAAGCCTTTTATCGGGAAGCTCCGGAGAGCTAA
1 TTATCGGGAAGCTCATGAG--AGCCATATAACGGGAAGCTCAAGAGAGCTAA
* * *
73337537 TTATTGGGAAGCTCAT-ACGAGCCATA-AACGGGAAGCTTAAGAGAG-TCA
1 TTATCGGGAAGCTCATGA-GAGCCATATAACGGGAAGCTCAAGAGAGCTAA
** * *
73337585 TTAATCGGGAAGCTTGTGAGAGCCATATAACGGGATGCTCATGAGAGCTAA
1 TT-ATCGGGAAGCTCATGAGAGCCATATAACGGGAAGCTCAAGAGAGCTAA
* * *
73337636 ATAACGGGAAGCTCGTGAGAGCC
1 TTATCGGGAAGCTCATGAGAGCC
73337659 TATTATTGGG
Statistics
Matches: 98, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
48 4 0.04
49 34 0.35
50 41 0.42
51 4 0.04
52 15 0.15
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (50 bp):
TTATCGGGAAGCTCATGAGAGCCATATAACGGGAAGCTCAAGAGAGCTAA
Found at i:73337605 original size:25 final size:24
Alignment explanation
Indices: 73337542--73337656 Score: 88
Period size: 25 Copynumber: 4.7 Consensus size: 24
73337532 GCTAATTATT
* *
73337542 GGGAAGCTCAT-ACGAGCCATAAAC
1 GGGAAGCTCATGA-GAGTCATTAAC
* *
73337566 GGGAAGCTTAAGAGAGTCATTAATC
1 GGGAAGCTCATGAGAGTCATTAA-C
** *
73337591 GGGAAGCTTGTGAGAGCCATATAAC
1 GGGAAGCTCATGAGAGTCAT-TAAC
* * *
73337616 GGGATGCTCATGAGAGCTAAATAAC
1 GGGAAGCTCATGAGAG-TCATTAAC
*
73337641 GGGAAGCTCGTGAGAG
1 GGGAAGCTCATGAGAG
73337657 CCTATTATTG
Statistics
Matches: 72, Mismatches: 15, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
24 17 0.24
25 51 0.71
26 4 0.06
ACGTcount: A:0.34, C:0.17, G:0.31, T:0.18
Consensus pattern (24 bp):
GGGAAGCTCATGAGAGTCATTAAC
Found at i:73337644 original size:50 final size:51
Alignment explanation
Indices: 73337528--73337683 Score: 144
Period size: 50 Copynumber: 3.1 Consensus size: 51
73337518 GGAAGCTCCG
* * * * * *
73337528 GAGAGCT-AATTATTGGGAAGCTCAT-ACGAGCCATA-AACGGGAAGCTTAA
1 GAGAGCTAAATAATCGGGAAGCTCGTGA-GAGCCATATAACGGGATGCTCAT
* * *
73337577 GAGAG-TCATTAATCGGGAAGCTTGTGAGAGCCATATAACGGGATGCTCAT
1 GAGAGCTAAATAATCGGGAAGCTCGTGAGAGCCATATAACGGGATGCTCAT
**
73337627 GAGAGCTAAATAA-CGGGAAGCTCGTGAGAGCC-TATTATTGGGATGCTCAT
1 GAGAGCTAAATAATCGGGAAGCTCGTGAGAGCCATA-TAACGGGATGCTCAT
*
73337677 AAGAGCT
1 GAGAGCT
73337684 GTGGTGTGTC
Statistics
Matches: 88, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
48 1 0.01
49 28 0.32
50 54 0.61
51 5 0.06
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (51 bp):
GAGAGCTAAATAATCGGGAAGCTCGTGAGAGCCATATAACGGGATGCTCAT
Found at i:73337657 original size:25 final size:25
Alignment explanation
Indices: 73337590--73337658 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
73337580 AGTCATTAAT
* *
73337590 CGGGAAGCTTGTGAGAGCCATATAA
1 CGGGAAGCTCGTGAGAGCCAAATAA
* * *
73337615 CGGGATGCTCATGAGAGCTAAATAA
1 CGGGAAGCTCGTGAGAGCCAAATAA
73337640 CGGGAAGCTCGTGAGAGCC
1 CGGGAAGCTCGTGAGAGCC
73337659 TATTATTGGG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.30, C:0.19, G:0.33, T:0.17
Consensus pattern (25 bp):
CGGGAAGCTCGTGAGAGCCAAATAA
Found at i:73340775 original size:13 final size:14
Alignment explanation
Indices: 73340754--73340782 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
73340744 TGAAAAATGA
73340754 ATTAGAAAATATTT
1 ATTAGAAAATATTT
73340768 ATTA-AAAATATTT
1 ATTAGAAAATATTT
73340781 AT
1 AT
73340783 GAAGTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Found at i:73353046 original size:2 final size:2
Alignment explanation
Indices: 73353039--73353065 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
73353029 CTTCAAAAGA
73353039 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
73353066 ATTACATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:73359141 original size:13 final size:14
Alignment explanation
Indices: 73359125--73359160 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
73359115 CAATCTCATA
73359125 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
73359138 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
73359151 TCTC-ATTTCA
1 TCTCAATTTCA
73359161 TTCCAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:73359150 original size:18 final size:19
Alignment explanation
Indices: 73359112--73359152 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
73359102 TGGTTCATGT
73359112 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
73359131 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
73359149 TTTC
1 TTTC
73359153 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:73359341 original size:21 final size:21
Alignment explanation
Indices: 73359316--73359400 Score: 80
Period size: 21 Copynumber: 4.0 Consensus size: 21
73359306 TGATCAGTAT
*
73359316 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * *
73359337 ACGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* *
73359358 ACGACACACGAGGTGCCTGAAA
1 ACGACACACAAAGTGCCT-AAA
*
73359380 TACGACACATAAAGTGCCTAA
1 -ACGACACACAAAGTGCCTAA
73359401 TCGGTAAAGC
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
21 34 0.65
22 3 0.06
23 15 0.29
ACGTcount: A:0.39, C:0.26, G:0.21, T:0.14
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:73359366 original size:23 final size:22
Alignment explanation
Indices: 73359314--73359388 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 22
73359304 CCTGATCAGT
** *
73359314 ATACGACACATAAAGTGCCT-A
1 ATACGACACACGAGGTGCCTGA
*
73359335 AAACGACACACGAGGTGCCTG-
1 ATACGACACACGAGGTGCCTGA
73359356 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTG-A
73359379 ATACGACACA
1 ATACGACACA
73359389 TAAAGTGCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
21 36 0.78
23 10 0.22
ACGTcount: A:0.39, C:0.27, G:0.21, T:0.13
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:73359796 original size:15 final size:15
Alignment explanation
Indices: 73359771--73359828 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
73359761 TCATATATAT
73359771 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
73359787 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
73359802 AATAATTTCAATCAA
1 TATAAATTCAATCAA
73359817 TATAAATTCAAT
1 TATAAATTCAAT
73359829 AAAACAGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:73359813 original size:30 final size:28
Alignment explanation
Indices: 73359774--73359832 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
73359764 TATATATTAT
73359774 ATAATTCAATCAATATAAATTCAATCAAA
1 ATAATTCAATCAATATAAATTCAAT-AAA
73359803 ATAATTTCAATCAATATAAATTCAATAAA
1 ATAA-TTCAATCAATATAAATTCAATAAA
73359832 A
1 A
73359833 CAGATATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (28 bp):
ATAATTCAATCAATATAAATTCAATAAA
Found at i:73359991 original size:2 final size:2
Alignment explanation
Indices: 73359984--73360033 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
73359974 ATATCTCATT
73359984 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
73360026 CA CA CA CA
1 CA CA CA CA
73360034 TATATATATA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:73360038 original size:2 final size:2
Alignment explanation
Indices: 73360033--73360070 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
73360023 ACACACACAC
* *
73360033 AT AT AT AT AT AC AT AT AT AT AT AT AT TT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
73360071 ATTCAATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:73360871 original size:13 final size:13
Alignment explanation
Indices: 73360853--73360880 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
73360843 CCTCTTTTTA
73360853 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
73360866 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
73360879 TT
1 TT
73360881 TATATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (13 bp):
TTCTTTTGTTTCT
Found at i:73377637 original size:21 final size:21
Alignment explanation
Indices: 73377611--73377651 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
73377601 AGACGAGCAA
* *
73377611 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
73377632 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
73377652 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:73382083 original size:68 final size:68
Alignment explanation
Indices: 73381973--73382103 Score: 226
Period size: 68 Copynumber: 1.9 Consensus size: 68
73381963 TACTATTGAT
* * *
73381973 AGAGTTACGGTGATAGAGTGGATGATATTCGACAAAAGTGACTTAATGACAAAAATATTATATGA
1 AGAGTTACGATGATAGAATGGATGATATTCGACAAAAATGACTTAATGACAAAAATATTATATGA
73382038 TGA
66 TGA
*
73382041 AGAGTTACGATGATAGAATGGATGATATTCGATAAAAATGACTTAATGACAAAAATATTATAT
1 AGAGTTACGATGATAGAATGGATGATATTCGACAAAAATGACTTAATGACAAAAATATTATAT
73382104 AACGGACGTG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 59 1.00
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.29
Consensus pattern (68 bp):
AGAGTTACGATGATAGAATGGATGATATTCGACAAAAATGACTTAATGACAAAAATATTATATGA
TGA
Found at i:73384140 original size:15 final size:16
Alignment explanation
Indices: 73384113--73384143 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
73384103 TAGTCATTAA
73384113 TATTTATATATTTTTT
1 TATTTATATATTTTTT
73384129 TATTTA-ATATTTTTT
1 TATTTATATATTTTTT
73384144 AGTTAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TATTTATATATTTTTT
Found at i:73385187 original size:50 final size:50
Alignment explanation
Indices: 73385128--73385227 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
73385118 AAATGCATTT
73385128 AAACAATTGTAACTTGTAGCATGCTTTTGAAAGATGGCCTAATCTAGATA
1 AAACAATTGTAACTTGTAGCATGCTTTTGAAAGATGGCCTAATCTAGATA
73385178 AAACAATTGTAACTTGTAGCATGCTTTTGAAAGATGGCCTAATCTAGATA
1 AAACAATTGTAACTTGTAGCATGCTTTTGAAAGATGGCCTAATCTAGATA
73385228 GTTGTTGACA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (50 bp):
AAACAATTGTAACTTGTAGCATGCTTTTGAAAGATGGCCTAATCTAGATA
Found at i:73387196 original size:72 final size:71
Alignment explanation
Indices: 73387099--73387238 Score: 244
Period size: 72 Copynumber: 2.0 Consensus size: 71
73387089 GTAACAATTG
73387099 ACGAGATTCTGATTTTAAAATTAGAAAAGCGAAAGGATTTAAGTACAAAGATAAAATTTAATAAT
1 ACGAGATTCTGATTTTAAAATTAGAAAAGCGAAAGGATTTAAGTACAAAGATAAAATTTAA-AAT
73387164 TTTAATC
65 TTTAATC
* * *
73387171 ACGAGATTCTGATTTTTAAATTAGAAAAGCGAAAGGGTTTAAGTACAAAGATAAAATTTTAAATT
1 ACGAGATTCTGATTTTAAAATTAGAAAAGCGAAAGGATTTAAGTACAAAGATAAAATTTAAAATT
73387236 TTA
66 TTA
73387239 TCTAAGTATA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
71 7 0.11
72 58 0.89
ACGTcount: A:0.46, C:0.06, G:0.15, T:0.33
Consensus pattern (71 bp):
ACGAGATTCTGATTTTAAAATTAGAAAAGCGAAAGGATTTAAGTACAAAGATAAAATTTAAAATT
TTAATC
Found at i:73387893 original size:370 final size:375
Alignment explanation
Indices: 73387224--73387927 Score: 971
Period size: 370 Copynumber: 1.9 Consensus size: 375
73387214 TACAAAGATA
* *
73387224 AAATTTTAAATTTTATCTAAGTATAATAACCAATAACATATATATTTTTTTATAATAATGAAAGA
1 AAATTTTAAATCTTATCTAAGTATAATAACCAATAACATATATATTTTTTTATAATAATAAAAGA
** * * *
73387289 AATTACAAATAATATGTTTTAATCAAATAAAAATAACATTAATAATTGTAGTAAACAAGGATTGG
66 AACGACAAATAACATGTTTTAACCAAATAAAAATAACATTAATAATGGTAGTAAACAAGGATTGG
*
73387354 TTTGAGTGTCATTCGATAAATGATCTATAATTACCATTTTTAGTCATCTATTAAAAGCTAACAGT
131 GTTGAGTGTCATTCGATAAATGATCTATAATTACCATTTTTAGTCATCTATTAAAAGCTAACAGT
* * * * * *
73387419 TGTTACTGTAGACTACCATAAGGTTAATATCATATCATGTCATTCTTCGTGTAAAATGTCAATTA
196 CGTTACTCTAAACTACCATAAGGTAAATATCATATCATGACATTCTTAGTGTAAAATGTCAATTA
* * * *
73387484 TAGTAAACCTCATGTGAGAGTAGTCTAATTAATATGTCAAGTTTGTAAAT-TTGATGAAAATACT
261 TAGTAAACCTCATGTGAGAGAAGTCTAATTAACATGTCAAGTATGTAAATCTTGATGAAAATACC
73387548 AAGAATTTTATTGATGGAGCTTGTGTTTTAACCATTTAAGTAGAGAGACT
326 AAGAATTTTATTGATGGAGCTTGTGTTTTAACCATTTAAGTAGAGAGACT
* *
73387598 AAATTTTAAATCTTATCTAATTATAATAACCAAT-A-ATATA-GTTTTTTTATAATAATAAAAGA
1 AAATTTTAAATCTTATCTAAGTATAATAACCAATAACATATATATTTTTTTATAATAATAAAAGA
* *
73387660 AACGACAAATAACATGTTTTAACCAAGTTAAAAA-AA-ATTAATAATGGTAG-AGAACACA-TAT
66 AACGACAAATAACATGTTTTAACCAA-ATAAAAATAACATTAATAATGGTAGTA-AACA-AGGAT
* * * *
73387721 TGGGTTGCGTGTCATTTGATAAATGATTTTTAATTACCATTTTTAG-CAATCTATTTAAAA-CTA
128 TGGGTTGAGTGTCATTCGATAAATGATCTATAATTACCATTTTTAGTC-ATCTA-TTAAAAGCTA
** * * *
73387784 TTAGTCGTTACTCTAAACTACCATAAGGTAAATATCATATCATAGACTTTCTTATTGTAAGAT-T
191 ACAGTCGTTACTCTAAACTACCATAAGGTAAATATCATATCAT-GACATTCTTAGTGTAAAATGT
* *
73387848 CAATTATAGTCAATCTCATGTGAGAGAAGTCTAATTAACATGTCAAGTATGTAAATCTTGATGAA
255 CAATTATAGTAAACCTCATGTGAGAGAAGTCTAATTAACATGTCAAGTATGTAAATCTTGATGAA
*
73387913 AATACCAATAATTTT
320 AATACCAAGAATTTT
73387928 GCTCATGGGG
Statistics
Matches: 289, Mismatches: 34, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
369 2 0.01
370 157 0.54
371 86 0.30
372 11 0.04
373 1 0.00
374 32 0.11
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (375 bp):
AAATTTTAAATCTTATCTAAGTATAATAACCAATAACATATATATTTTTTTATAATAATAAAAGA
AACGACAAATAACATGTTTTAACCAAATAAAAATAACATTAATAATGGTAGTAAACAAGGATTGG
GTTGAGTGTCATTCGATAAATGATCTATAATTACCATTTTTAGTCATCTATTAAAAGCTAACAGT
CGTTACTCTAAACTACCATAAGGTAAATATCATATCATGACATTCTTAGTGTAAAATGTCAATTA
TAGTAAACCTCATGTGAGAGAAGTCTAATTAACATGTCAAGTATGTAAATCTTGATGAAAATACC
AAGAATTTTATTGATGGAGCTTGTGTTTTAACCATTTAAGTAGAGAGACT
Found at i:73388172 original size:43 final size:43
Alignment explanation
Indices: 73388124--73388208 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
73388114 CAATGCGGAT
73388124 TGGGTTGAGTGTTATTTGATAAATGAATTGTAATTACCATTTC
1 TGGGTTGAGTGTTATTTGATAAATGAATTGTAATTACCATTTC
73388167 TGGGTTGAGTGTTATTTGATAAATGAATTGTAATTACCATTT
1 TGGGTTGAGTGTTATTTGATAAATGAATTGTAATTACCATTT
73388209 ATAGTCATCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (43 bp):
TGGGTTGAGTGTTATTTGATAAATGAATTGTAATTACCATTTC
Found at i:73391510 original size:812 final size:805
Alignment explanation
Indices: 73388167--73391846 Score: 4022
Period size: 812 Copynumber: 4.6 Consensus size: 805
73388157 TTACCATTTC
* * *
73388167 TGGGTTGAGTGTTATTTGATAAATGAAT-TGTAATTACCATTTATAGTCATCTATTAAAAGCTAA
1 TGGGTTGAGTGTCATTTGATAAATG-ATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTAA
* * * * * * *
73388231 TAGCCTTTACTCTAGACTACCATGAGGCTAATAGCAAATCATAGTCTTTATTCATGTAAGATGTC
65 TAGTCGTTACTCTAGACTACCATAAGGTTAATA-TATATCATAGTCTTTCTTCATGTAAGATGTC
* * * * * *
73388296 AATTATAATCAACCTCATGTGAGAGTAGTCTAATCAATATGTTAAGTTTTCAAATTTTGATGAAA
129 AATTATAGTCAACC-CATGTGAGAGTAGTCTAATTAACATGTCAAGTTTTTAAATCTTGATGAAA
** * * * * * * * * * *
73388361 ATATTAATAATTTTAGTGATGAGACTATGATTTTTTCAATTAGAAGAGTGATATGGCTTAAGTTT
193 ATACCAATAATTTTACTGATGGGGCTATGA-TTTTTAAACTAGAAAAGCGAGAGGGCTTATGTTT
* * * * * *
73388426 TAACCATTTAAGTATAAAAACTAAATTTTAAATCTTTTCTAAGTATAATGA-CAGATAACAATTT
257 TAGCCATTTAAGTATATAGACTAAATTTTAAATCTTATCTAAGTATAAAGAGCA-ATAAC-ATAT
* * * * * ** * * * *
73388490 TTTTTAGAATAACAAAAGAAA-TTCCA-AATTGCATGTTTTAACC--AAAAAATAAAATTAATAA
320 TTTTAATAACAAAAAAAAAAACAACAATAATAGCATGTTTTAACCAAAAAAAATAACATCAATAA
* * * * * * * *
73388551 TGGTATCGAACACGGATTGGTTTGAGTGTCATTTGATAAATGATCTATAACTATCATTTTTTGTC
385 TGGTAGC-AACGCGGATTGGGTTGAGTGTCATTTGATAAATGATCTGTAATTACCATTTTTAGCC
* * * * *
73388616 ATCTATTAAAAG-TCAATAGTCGTTACTCTAGACTACCATAAGGTTAATACCACATCATCGTCTT
449 ATCTATTAAAAGCT-AATAGCCGTTACTCTAGACTACCATAATGTTAATATCATATCATAGTCTT
* * * * * *
73388680 TCATCATGTAATATGCCAATTATAGTAAAACTCATGTGAGAGTAGTCTAA-TAACATGTCAAGTT
513 TCTTCATGTAAGATGTCAATTATAGTCAATCTCATGTGAGAGTAGGCTAATTAACATGTCAAGTT
* * * * * * *
73388744 TGAAAATTTTAATGAAAATACTAATAATTTTATTGATGGGGATGTGATTCTTAAACCAG-AAAGG
578 TGAAAATTTTGATGAAAATACCAATAATTTTACTAAT-GGGATGTGATTTTTAAACAAGAAAACG
* * *
73388808 CGAGAGGGC-ATATGTTTTAGA-CATTTTAA-TATATAGATTAAATTTTAAATCTTATCTAAGTA
642 CGAGAGGGCTA-ATGTTTTA-ACCA-TTTAAGTTTATAGACTAAATTTTAAATATTATCTAAGTA
* * * ** *
73388870 T-AAGCACCAACAAC--ACA-TTTTTTATAATAACAAAAGAAATGACTAATAATATGTTTTAACC
704 TAAAG-ACCAATAACATATATTTTTTTATAATAACCAAAGAAACAACTAATAACATGTTTTAACC
* * * *
73388931 AAGTAAAAATAACATTAATGATGGTAGCGAACACAAAT
768 AAGTAAAAATAACATCAATAATGGTAGCCAACACGAAT
* *
73388969 TGGGTTGAGTGTCATTTGATAAATGATATGTAATTACCATTTTTAGCCATCTACTAAAAGCTAAT
1 TGGGTTGAGTGTCATTTGATAAATGATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTAAT
* * * * * * *
73389034 AGTTGTTACTCTAGATTACCATAACGTTAATAACATATCATGGTTTTTCTTCATGTTAGATGTCA
66 AGTCGTTACTCTAGACTACCATAAGGTTAAT-ATATATCATAGTCTTTCTTCATGTAAGATGTCA
* *
73389099 ATTATAGTCAACCTCATGTGAGAGTAGTCTAATAAACATGTCAAGTTTTTATATCTTGATGAAAA
130 ATTATAGTCAACC-CATGTGAGAGTAGTCTAATTAACATGTCAAGTTTTTAAATCTTGATGAAAA
* *
73389164 TACC---------A---A------TA--ATTTTTAAACTAGAAAAGCGAAATGGCTTATGTTTTA
194 TACCAATAATTTTACTGATGGGGCTATGATTTTTAAACTAGAAAAGCGAGAGGGCTTATGTTTTA
* * ** *
73389209 GCCATTTAAGTATTATATACTAAAATTTAAATCTTATCTAAGTATATGGACCAATAACATATTTT
259 GCCATTTAAGTA-TATAGACTAAATTTTAAATCTTATCTAAGTATAAAGAGCAATAACATA-TTT
* * ** * * *
73389274 TTTATAATAACGAAAGAAA-AA-AATAATAGTATGTTTTAACCAATTAAAAATAACATCAATAAT
322 TTAATAACAAAAAAAAAAACAACAATAATAGCATGTTTTAACCAA-AAAAAATAACATCAATAAT
* * ** *
73389337 GGTAACCAATGCAAATTGGGTTGAGTGTCATTTGATAAATGATATGTAATTACCATTTTTAGCCA
386 GGT-AGCAACGCGGATTGGGTTGAGTGTCATTTGATAAATGATCTGTAATTACCATTTTTAGCCA
* ** * *
73389402 TGTATTAAAAGCTAATAGTAGTTACTCTAGACTACCATATTGTTAATATTATATCATAGTCTTTC
450 TCTATTAAAAGCTAATAGCCGTTACTCTAGACTACCATAATGTTAATATCATATCATAGTCTTTC
* * *
73389467 TTCATGTTAGATGTCAAATATAGTCAATCTCATGTGAGAGTAGGCTAATTAACATGTCAAGTTCG
515 TTCATGTAAGATGTCAATTATAGTCAATCTCATGTGAGAGTAGGCTAATTAACATGTCAAGTTTG
* * *
73389532 AAAATTTTGATGAAAATACCAATACTTTTACTCATGGGATGTGATTTTTAAACAAGAAAA-GCAA
580 AAAATTTTGATGAAAATACCAATAATTTTACTAATGGGATGTGATTTTTAAACAAGAAAACGCGA
* * * * *
73389596 GAGGGCTTATGTTTTAGCCATTTAAGTTTATAGACTAAAGTTCAAGTATTATCTAAGTATAAAGA
645 GAGGGCTAATGTTTTAACCATTTAAGTTTATAGACTAAATTTTAAATATTATCTAAGTATAAAGA
* * * *
73389661 TCAATAACATGTATTTTTTTATAATAACCAAAGAAACAACTAATAGCATGTTTTAACCAAATAAA
710 CCAATAACATATATTTTTTTATAATAACCAAAGAAACAACTAATAACATGTTTTAACCAAGTAAA
* **
73389726 AATAACATCACTAATGGTAGCCAATGCGTAA-
775 AATAACATCAATAATGGTAGCCAACACG-AAT
*
73389757 TGGGTTGAGTGTCATTTGTTAAATGATCTGT-ATATACCATTTTTAGCCATCTATTAAAAGCTAA
1 TGGGTTGAGTGTCATTTGATAAATGATCTGTAAT-TACCATTTTTAGCCATCTATTAAAAGCTAA
* * * * *
73389821 TAGTCGTTACTCTAGACAATCATAAGGTTAATATCATATCAGAGTCTTTATCCATGTAAGATGTC
65 TAGTCGTTACTCTAGACTACCATAAGGTTAATAT-ATATCATAGTCTTTCTTCATGTAAGATGTC
* * * * * *
73389886 AATTATAGTCAAACTCATGTGAGAGTAGTCTAAATAACATGTCAAGTTTGTAAATATCGACGAAA
129 AATTATAGTC-AACCCATGTGAGAGTAGTCTAATTAACATGTCAAGTTTTTAAATCTTGATGAAA
* * * * *
73389951 AAACCAATAATTTTACTCATGGGGCTATGATTTTTAAACTACAAAAGCAAGAGGGTTTATGTTTT
193 ATACCAATAATTTTACTGATGGGGCTATGATTTTTAAACTAGAAAAGCGAGAGGGCTTATGTTTT
* *
73390016 AGCCATTTAAGTTTATAGACTAAATTTTAAATATTATCTAAGTATAAAGA-CGAATAACAT-TTT
258 AGCCATTTAAGTATATAGACTAAATTTTAAATCTTATCTAAGTATAAAGAGC-AATAACATATTT
* ** * * * *
73390079 TT-ATAATAATGAAAGAAACAAC--TAATATCGTGTTTTAACCAAATAAAAATAACATTAATAAT
322 TTAATAACAAAAAAAAAAACAACAATAATAGCATGTTTTAACCAAA-AAAAATAACATCAATAAT
* * * *
73390141 GGTAGTCTACGCTGATTGGGTTAAGTGTCATTTG-TAAAATAATCTGTAATTACCATTTTTAGCC
386 GGTAG-CAACGCGGATTGGGTTGAGTGTCATTTGAT-AAATGATCTGTAATTACCATTTTTAGCC
* *
73390205 ATCTATTAAAAGCTAATAGCCGTTACTCTAGACTACCATAACGTTAATATTATATCATAGTCTTT
449 ATCTATTAAAAGCTAATAGCCGTTACTCTAGACTACCATAATGTTAATATCATATCATAGTCTTT
* *
73390270 CTTCATGTAAGATGTCAATTATAGTCAATCTCATGTGAGAGTAGGCCAATTAACATGTCAAATTT
514 CTTCATGTAAGATGTCAATTATAGTCAATCTCATGTGAGAGTAGGCTAATTAACATGTCAAGTTT
* * ** **
73390335 GAAATTTTTGATGAAAATACCAATAATTTTACTCATGGGATGTGATTTTTAAATGAGAAAAAACG
579 GAAAATTTTGATGAAAATACCAATAATTTTACTAATGGGATGTGATTTTTAAACAAGAAAACGCG
* *
73390400 AG-GGAGAACTTATGTTTTAGCCATTTAAGTTTATAGACTAAATTTTAAATATTATCTAAGTATA
644 AGAGG-G--CTAATGTTTTAACCATTTAAGTTTATAGACTAAATTTTAAATATTATCTAAGTATA
* ** *
73390464 AAGACCAATAACATATATTTTTCTATAATAACCAAAGAAACAACTAATTGCATGATTTAACCAA-
706 AAGACCAATAACATATATTTTTTTATAATAACCAAAGAAACAACTAATAACATGTTTTAACCAAG
* * *
73390528 TAAAAAAAACATCAATAATGGTAACCAACGC-AGAT
771 TAAAAATAACATCAATAATGGTAGCCAACACGA-AT
* *
73390563 TGGGTTGAGTGTCATTTGATAAATAATCTGTAATTATCATTTTTAGCCATCTATTAAAAGCTAAT
1 TGGGTTGAGTGTCATTTGATAAATGATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTAAT
* * * * *
73390628 AGCCGTTACTTTAGACTACCATAATGTTAATATCATATCATAGTTTTTCTTCATGTAAGATGTTA
66 AGTCGTTACTCTAGACTACCATAAGGTTAATAT-ATATCATAGTCTTTCTTCATGTAAGATGTCA
* * * * *
73390693 ATTATAGTCAACCCAATGTGAGAGTAGTTTAATTAAGATGTAAACTTTTTAAATTTTGATGAAAA
130 ATTATAGTCAACCC-ATGTGAGAGTAGTCTAATTAACATGTCAAGTTTTTAAATCTTGATGAAAA
* * * *
73390758 TACCAATAATTTTACTGATGGGGCTTTGATTTTTAAATTAGTAAAGCGATAGGGCTTATGTTTTA
194 TACCAATAATTTTACTGATGGGGCTATGATTTTTAAACTAGAAAAGCGAGAGGGCTTATGTTTTA
* * *
73390823 GCCATTTAAGTATATAGACTAAATTTTAAATCTTATTTAAGTATAAATAGCAATAATATATATAT
259 GCCATTTAAGTATATAGACTAAATTTTAAATCTTATCTAAGTATAAAGAGCAATAACATAT-T-T
*
73390888 TGGTAATAACAAAAAAAAAAACAACAACTAATGGCATGTTTTAA-CAAAAAAAAT-ACATCAATA
322 T--TAATAACAAAAAAAAAAACAACAA-TAATAGCATGTTTTAACCAAAAAAAATAACATCAATA
*
73390951 ATTGTAGGCAACGCGGATTGGGTTGAGTGTCATTT-ATTAAATGATCTGTAATTACCATTTTCTA
384 ATGGTA-GCAACGCGGATTGGGTTGAGTGTCATTTGA-TAAATGATCTGTAATTACCATTTT-TA
* *
73391015 GCCATCTATTAAAAGCTAATAACCGTTACTCTAGACTACCAAAATGTTAATATCATATCATAGTC
446 GCCATCTATTAAAAGCTAATAGCCGTTACTCTAGACTACCATAATGTTAATATCATATCATAGTC
* *
73391080 TTTCTTCATGTAAGATGTCAATTATAGTTAA-CTTCATGTGAGAGTAGTCTAATTAACATGTCAA
511 TTTCTTCATGTAAGATGTCAATTATAGTCAATC-TCATGTGAGAGTAGGCTAATTAACATGTCAA
** * ** * * ** *
73391144 GTTTTTAAATTTTGACT-AAAATACTAATAATTTTACTAAAAAGGCTGTGACTTTTAAATTAGTA
575 GTTTGAAAATTTTGA-TGAAAATACCAATAATTTTACT-AATGGGATGTGATTTTTAAACAAGAA
* * * * * *
73391208 AA-GTGAGAGGCCTAATGTTTTAACTATTTAAGTATGA-AGACTAAATTTTAAATCTTATCTAAT
638 AACGCGAGAGGGCTAATGTTTTAACCATTTAAGT-TTATAGACTAAATTTTAAATATTATCTAAG
* * * * *
73391271 TATAATGACCAATGACATATTTTTTTTTATAATAACGAAAGAAACAATTAATAACATGTTTTAAC
702 TATAAAGACCAATAACATATATTTTTTTATAATAACCAAAGAAACAACTAATAACATGTTTTAAC
** * * ** * *
73391336 CAAGTAAAAGGAACATGAAAAATGACATCAAACACGAAT
767 CAAGTAAAAATAACATCAATAATGGTAGCCAACACGAAT
** * * *
73391375 TCAGTCGAGTGTCATTTGATTAATGATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTTAT
1 TGGGTTGAGTGTCATTTGATAAATGATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTAAT
*
73391440 AGTCGTTACTCTAGACTACCATAAGGTTAATAGTATATTATAGTCTTTCTTCATGTAAGATGTCA
66 AGTCGTTACTCTAGACTACCATAAGGTTAATA-TATATCATAGTCTTTCTTCATGTAAGATGTCA
* * * * * *
73391505 ATTATAGTCAAACTCATGTGAGTGCAATCTAATTAACAAGTCAAGTTTGTAAATCTTGATGAAAA
130 ATTATAGTC-AACCCATGTGAGAGTAGTCTAATTAACATGTCAAGTTTTTAAATCTTGATGAAAA
* * * * *
73391570 TACTAATAATTTTACTGATGGGGCTGTGATTTTTAAACAACAAAAGTGAGAGGGCTTATGTTTTA
194 TACCAATAATTTTACTGATGGGGCTATGATTTTTAAACTAGAAAAGCGAGAGGGCTTATGTTTTA
* * * * * * *
73391635 GCCATTTAAGTATAGAGACTTAATTTTTAATATTATCTAAGTATAGAGATCAATAATATATATTT
259 GCCATTTAAGTATATAGACTAAATTTTAAATCTTATCTAAGTATAAAGAGCAATAACATAT-TTT
* * * * * *
73391700 TTATAATAACAAAAGAAAGAAC--TAATAGCATGTTTTAAACAAATAAAAATAACATCAATAATG
323 TAATAACAAAAAAAAAAACAACAATAATAGCATGTTTTAACCAAA-AAAAATAACATCAATAATG
* * *
73391763 GTAGCAAACGCGGATTGGGTTGAGTGTAATTTGATAAATGATCTGTAACTACCATTTTTACCCAT
387 GTAGC-AACGCGGATTGGGTTGAGTGTCATTTGATAAATGATCTGTAATTACCATTTTTAGCCAT
* *
73391828 ATATTAAAAGCTACTAGCC
451 CTATTAAAAGCTAATAGCC
73391847 TCCAGTTCTA
Statistics
Matches: 2455, Mismatches: 337, Indels: 166
0.83 0.11 0.06
Matches are distributed among these distances:
781 44 0.02
782 72 0.03
783 2 0.00
784 7 0.00
785 234 0.10
786 54 0.02
787 4 0.00
788 232 0.09
789 5 0.00
790 1 0.00
793 1 0.00
797 1 0.00
800 1 0.00
801 2 0.00
802 169 0.07
803 3 0.00
804 281 0.11
805 16 0.01
806 317 0.13
807 160 0.07
808 74 0.03
809 81 0.03
810 1 0.00
811 105 0.04
812 378 0.15
813 169 0.07
814 28 0.01
815 13 0.01
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.35
Consensus pattern (805 bp):
TGGGTTGAGTGTCATTTGATAAATGATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTAAT
AGTCGTTACTCTAGACTACCATAAGGTTAATATATATCATAGTCTTTCTTCATGTAAGATGTCAA
TTATAGTCAACCCATGTGAGAGTAGTCTAATTAACATGTCAAGTTTTTAAATCTTGATGAAAATA
CCAATAATTTTACTGATGGGGCTATGATTTTTAAACTAGAAAAGCGAGAGGGCTTATGTTTTAGC
CATTTAAGTATATAGACTAAATTTTAAATCTTATCTAAGTATAAAGAGCAATAACATATTTTTAA
TAACAAAAAAAAAAACAACAATAATAGCATGTTTTAACCAAAAAAAATAACATCAATAATGGTAG
CAACGCGGATTGGGTTGAGTGTCATTTGATAAATGATCTGTAATTACCATTTTTAGCCATCTATT
AAAAGCTAATAGCCGTTACTCTAGACTACCATAATGTTAATATCATATCATAGTCTTTCTTCATG
TAAGATGTCAATTATAGTCAATCTCATGTGAGAGTAGGCTAATTAACATGTCAAGTTTGAAAATT
TTGATGAAAATACCAATAATTTTACTAATGGGATGTGATTTTTAAACAAGAAAACGCGAGAGGGC
TAATGTTTTAACCATTTAAGTTTATAGACTAAATTTTAAATATTATCTAAGTATAAAGACCAATA
ACATATATTTTTTTATAATAACCAAAGAAACAACTAATAACATGTTTTAACCAAGTAAAAATAAC
ATCAATAATGGTAGCCAACACGAAT
Found at i:73391539 original size:405 final size:405
Alignment explanation
Indices: 73389172--73391846 Score: 3263
Period size: 406 Copynumber: 6.6 Consensus size: 405
73389162 AATACCAATA
* * * *
73389172 ATTTTTAAACTAGAAAAGCGAAATGGCTTATGTTTTAGCCATTTAAGTATTATATACTAAAATTT
1 ATTTTTAAACTAGAAAAGCGAGAGGGCTTATGTTTTAGCCATTTAAGTATTATAGACTAAATTTT
* ** * *
73389237 AAATCTTATCTAAGTATATGGACCAATAAC--ATATTTTTTTATAATAACGAAAGAAAAAAATAA
66 AAATATTATCTAAGTATAAAGACCAATAACATATATTTTTTTATAATAACGAAAGAAACAACTAA
* * * * *
73389300 TAGTATGTTTTAACCAATTAAAAATAACATCAATAATGGTAACCAATGCAAATTGGGTTGAGTGT
131 TAGCATGTTTTAACCAAATAAAAATAACATCAATAATGGTAGCCAACGCGAATTGGGTTGAGTGT
* * **
73389365 CATTTGATAAATGATATGTAATTACCATTTTTAGCCATGTATTAAAAGCTAATAGTAGTTACTCT
196 CATTTGATAAATGATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTAATAGCCGTTACTCT
* * * * *
73389430 AGACTACCATATTGTTAATATTATATCATAGTCTTTCTTCATGTTAGATGTCAAATATAGTCAAT
261 AGACTACCATAATGTTAATATCATATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCAAA
* * * *
73389495 CTCATGTGAGAGTAGGCTAATTAACATGTCAAGTTCGAAAATTTTGATGAAAATACCAATACTTT
326 CTCATGTGAGAGTAGTCTAATTAACATGTCAAGTTTGTAAATTTTGATGAAAATACCAATAATTT
* * *
73389560 TACTCATGGGATGTG
391 TACTAAGGGGCTGTG
* * * *
73389575 ATTTTTAAACAAGAAAAGCAAGAGGGCTTATGTTTTAGCCATTTAAGT-TTATAGACTAAAGTTC
1 ATTTTTAAACTAGAAAAGCGAGAGGGCTTATGTTTTAGCCATTTAAGTATTATAGACTAAATTTT
* * * *
73389639 AAGTATTATCTAAGTATAAAGATCAATAACATGTATTTTTTTATAATAACCAAAGAAACAACTAA
66 AAATATTATCTAAGTATAAAGACCAATAACATATATTTTTTTATAATAACGAAAGAAACAACTAA
* *
73389704 TAGCATGTTTTAACCAAATAAAAATAACATCACTAATGGTAGCCAATGCGTAA-TGGGTTGAGTG
131 TAGCATGTTTTAACCAAATAAAAATAACATCAATAATGGTAGCCAACGCG-AATTGGGTTGAGTG
* *
73389768 TCATTTGTTAAATGATCTGT-ATATACCATTTTTAGCCATCTATTAAAAGCTAATAGTCGTTACT
195 TCATTTGATAAATGATCTGTAAT-TACCATTTTTAGCCATCTATTAAAAGCTAATAGCCGTTACT
* * * * * *
73389832 CTAGACAATCATAAGGTTAATATCATATCAGAGTCTTTATCCATGTAAGATGTCAATTATAGTCA
259 CTAGACTACCATAATGTTAATATCATATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCA
* * * * *
73389897 AACTCATGTGAGAGTAGTCTAAATAACATGTCAAGTTTGTAAATATCGACGAAAAAACCAATAAT
324 AACTCATGTGAGAGTAGTCTAATTAACATGTCAAGTTTGTAAATTTTGATGAAAATACCAATAAT
* *
73389962 TTTACTCATGGGGCTATG
389 TTTACT-AAGGGGCTGTG
* * *
73389980 ATTTTTAAACTACAAAAGCAAGAGGGTTTATGTTTTAGCCATTTAAGT-TTATAGACTAAATTTT
1 ATTTTTAAACTAGAAAAGCGAGAGGGCTTATGTTTTAGCCATTTAAGTATTATAGACTAAATTTT
* *
73390044 AAATATTATCTAAGTATAAAGACGAATAAC----A-TTTTTTATAATAATGAAAGAAACAACTAA
66 AAATATTATCTAAGTATAAAGACCAATAACATATATTTTTTTATAATAACGAAAGAAACAACTAA
* * * * * *
73390104 TATCGTGTTTTAACCAAATAAAAATAACATTAATAATGGTAGTCTACGCTG-ATTGGGTTAAGTG
131 TAGCATGTTTTAACCAAATAAAAATAACATCAATAATGGTAGCCAACGC-GAATTGGGTTGAGTG
*
73390168 TCATTTG-TAAAATAATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTAATAGCCGTTACT
195 TCATTTGAT-AAATGATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTAATAGCCGTTACT
* *
73390232 CTAGACTACCATAACGTTAATATTATATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCA
259 CTAGACTACCATAATGTTAATATCATATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCA
* * * *
73390297 ATCTCATGTGAGAGTAGGCCAATTAACATGTCAAATTTG-AAATTTTTGATGAAAATACCAATAA
324 AACTCATGTGAGAGTAGTCTAATTAACATGTCAAGTTTGTAAA-TTTTGATGAAAATACCAATAA
* * *
73390361 TTTTACTCATGGGATGTG
388 TTTTACTAAGGGGCTGTG
*
73390379 ATTTTTAAA-TGAGAAAAAACGAG-GGAGAACTTATGTTTTAGCCATTTAAGT-TTATAGACTAA
1 ATTTTTAAACT-AG-AAAAGCGAGAGG-G--CTTATGTTTTAGCCATTTAAGTATTATAGACTAA
* *
73390441 ATTTTAAATATTATCTAAGTATAAAGACCAATAACATATATTTTTCTATAATAACCAAAGAAACA
61 ATTTTAAATATTATCTAAGTATAAAGACCAATAACATATATTTTTTTATAATAACGAAAGAAACA
* * * *
73390506 ACTAATTGCATGATTTAACC-AATAAAAAAAACATCAATAATGGTAACCAACGC-AGATTGGGTT
126 ACTAATAGCATGTTTTAACCAAATAAAAATAACATCAATAATGGTAGCCAACGCGA-ATTGGGTT
* *
73390569 GAGTGTCATTTGATAAATAATCTGTAATTATCATTTTTAGCCATCTATTAAAAGCTAATAGCCGT
190 GAGTGTCATTTGATAAATGATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTAATAGCCGT
* * *
73390634 TACTTTAGACTACCATAATGTTAATATCATATCATAGTTTTTCTTCATGTAAGATGTTAATTATA
255 TACTCTAGACTACCATAATGTTAATATCATATCATAGTCTTTCTTCATGTAAGATGTCAATTATA
* * * * * *
73390699 GTC-AACCCAATGTGAGAGTAGTTTAATTAAGATGTAAACTTTTTAAATTTTGATGAAAATACCA
320 GTCAAACTC-ATGTGAGAGTAGTCTAATTAACATGTCAAGTTTGTAAATTTTGATGAAAATACCA
* *
73390763 ATAATTTTACTGATGGGGCTTTG
384 ATAATTTTACT-AAGGGGCTGTG
* * *
73390786 ATTTTTAAATTAGTAAAGCGATAGGGCTTATGTTTTAGCCATTTAAGTA-TATAGACTAAATTTT
1 ATTTTTAAACTAGAAAAGCGAGAGGGCTTATGTTTTAGCCATTTAAGTATTATAGACTAAATTTT
* * * * * ** * * ** *
73390850 AAATCTTATTTAAGTATAAATAGCAATAATATATATATTGGTAATAACAAAAAAAAAAACAACAA
66 AAATATTATCTAAGTATAAAGACCAATAACATATAT-TTTTTTAT-A-ATAACGAAAGA-AACAA
* * * *
73390915 CTAATGGCATGTTTTAA-CAAA-AAAAAT-ACATCAATAATTGTAGGCAACGCGGATTGGGTTGA
127 CTAATAGCATGTTTTAACCAAATAAAAATAACATCAATAATGGTAGCCAACGCGAATTGGGTTGA
*
73390977 GTGTCATTT-ATTAAATGATCTGTAATTACCATTTTCTAGCCATCTATTAAAAGCTAATAACCGT
192 GTGTCATTTGA-TAAATGATCTGTAATTACCATTTT-TAGCCATCTATTAAAAGCTAATAGCCGT
*
73391041 TACTCTAGACTACCAAAATGTTAATATCATATCATAGTCTTTCTTCATGTAAGATGTCAATTATA
255 TACTCTAGACTACCATAATGTTAATATCATATCATAGTCTTTCTTCATGTAAGATGTCAATTATA
* * *
73391106 GT-TAACTTCATGTGAGAGTAGTCTAATTAACATGTCAAGTTTTTAAATTTTGACT-AAAATACT
320 GTCAAAC-TCATGTGAGAGTAGTCTAATTAACATGTCAAGTTTGTAAATTTTGA-TGAAAATACC
**
73391169 AATAATTTTACTAAAAAGGCTGTG
383 AATAATTTTACT-AAGGGGCTGTG
* * * * * * * * *
73391193 ACTTTTAAATTAGTAAAGTGAGAGGCCTAATGTTTTAACTATTTAAGTATGA-AGACTAAATTTT
1 ATTTTTAAACTAGAAAAGCGAGAGGGCTTATGTTTTAGCCATTTAAGTATTATAGACTAAATTTT
* * * * * *
73391257 AAATCTTATCTAATTATAATGACCAATGACATATTTTTTTTTATAATAACGAAAGAAACAATTAA
66 AAATATTATCTAAGTATAAAGACCAATAACATATATTTTTTTATAATAACGAAAGAAACAACTAA
* * ** * * ** * * * ** *
73391322 TAACATGTTTTAACCAAGTAAAAGGAACATGAAAAATGACATCAAACACGAATTCAGTCGAGTGT
131 TAGCATGTTTTAACCAAATAAAAATAACATCAATAATGGTAGCCAACGCGAATTGGGTTGAGTGT
* * *
73391387 CATTTGATTAATGATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTTATAGTCGTTACTCT
196 CATTTGATAAATGATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTAATAGCCGTTACTCT
* *
73391452 AGACTACCATAAGGTTAATAGT-ATATTATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCAA
261 AGACTACCATAATGTTAATA-TCATATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCAA
* * * * * *
73391516 ACTCATGTGAGTGCAATCTAATTAACAAGTCAAGTTTGTAAATCTTGATGAAAATACTAATAATT
325 ACTCATGTGAGAGTAGTCTAATTAACATGTCAAGTTTGTAAATTTTGATGAAAATACCAATAATT
*
73391581 TTACTGATGGGGCTGTG
390 TTACT-AAGGGGCTGTG
* * * * *
73391598 ATTTTTAAACAACAAAAGTGAGAGGGCTTATGTTTTAGCCATTTAAGTA-TAGAGACTTAATTTT
1 ATTTTTAAACTAGAAAAGCGAGAGGGCTTATGTTTTAGCCATTTAAGTATTATAGACTAAATTTT
* * * * * *
73391662 TAATATTATCTAAGTATAGAGATCAAT-A-ATATATATTTTTATAATAACAAAAGAAAGAACTAA
66 AAATATTATCTAAGTATAAAGACCAATAACATATATTTTTTTATAATAACGAAAGAAACAACTAA
* * *
73391725 TAGCATGTTTTAAACAAATAAAAATAACATCAATAATGGTAGCAAACGCGGATTGGGTTGAGTGT
131 TAGCATGTTTTAACCAAATAAAAATAACATCAATAATGGTAGCCAACGCGAATTGGGTTGAGTGT
* * * * *
73391790 AATTTGATAAATGATCTGTAACTACCATTTTTACCCATATATTAAAAGCTACTAGCC
196 CATTTGATAAATGATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTAATAGCC
73391847 TCCAGTTCTA
Statistics
Matches: 1948, Mismatches: 275, Indels: 98
0.84 0.12 0.04
Matches are distributed among these distances:
398 1 0.00
399 23 0.01
400 260 0.13
401 4 0.00
402 104 0.05
403 194 0.10
404 339 0.17
405 334 0.17
406 348 0.18
407 315 0.16
408 26 0.01
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (405 bp):
ATTTTTAAACTAGAAAAGCGAGAGGGCTTATGTTTTAGCCATTTAAGTATTATAGACTAAATTTT
AAATATTATCTAAGTATAAAGACCAATAACATATATTTTTTTATAATAACGAAAGAAACAACTAA
TAGCATGTTTTAACCAAATAAAAATAACATCAATAATGGTAGCCAACGCGAATTGGGTTGAGTGT
CATTTGATAAATGATCTGTAATTACCATTTTTAGCCATCTATTAAAAGCTAATAGCCGTTACTCT
AGACTACCATAATGTTAATATCATATCATAGTCTTTCTTCATGTAAGATGTCAATTATAGTCAAA
CTCATGTGAGAGTAGTCTAATTAACATGTCAAGTTTGTAAATTTTGATGAAAATACCAATAATTT
TACTAAGGGGCTGTG
Found at i:73393171 original size:103 final size:101
Alignment explanation
Indices: 73393055--73393266 Score: 273
Period size: 103 Copynumber: 2.1 Consensus size: 101
73393045 AGAGGGCTTG
** * *
73393055 TGTTTTAGCCATTTAAGTATATAAACTAAAATTTAAATTTTATCTAAGTA-TAAAGACCAATAAC
1 TGTTTTAAACATTTAAGTATAGAAACTAAAATTTAAATATTATCTAAG-AGTAAAGACCAATAAC
* *
73393119 ATATTTTTTTTATAATAACGAAAGGAACAACTAATAGCA
65 ATA-TTTTTTTATAATAACGAAA-GAAAAACTAATAACA
* * * ** *
73393158 TGTTTTAAACATTTTAGTGTAGAGACTAACTTTTAAATATTATCTAAGAGTAATGACCAATAACA
1 TGTTTTAAACATTTAAGTATAGAAACTAAAATTTAAATATTATCTAAGAGTAAAGACCAATAACA
*
73393223 TATTTTTTTATAATAATGAAAGAAAAACTAATAACA
66 TATTTTTTTATAATAACGAAAGAAAAACTAATAACA
73393259 TGTTTTAA
1 TGTTTTAA
73393267 CCGAGTAAAA
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
101 21 0.22
102 19 0.20
103 55 0.58
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.37
Consensus pattern (101 bp):
TGTTTTAAACATTTAAGTATAGAAACTAAAATTTAAATATTATCTAAGAGTAAAGACCAATAACA
TATTTTTTTATAATAACGAAAGAAAAACTAATAACA
Found at i:73397888 original size:3 final size:3
Alignment explanation
Indices: 73397880--73397909 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
73397870 GGCCCCCTCT
*
73397880 GCA GCA GCA GCA GCA GCA GCA GCA ACA GCA
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA
73397910 ACCCCAGCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.33, G:0.30, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:73401184 original size:31 final size:31
Alignment explanation
Indices: 73401146--73401208 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
73401136 AATTGTACCA
* *
73401146 AATCAAAGTTTACCTTTAAAATTACACATTG
1 AATCAAAGTTTACATATAAAATTACACATTG
73401177 AATCAAAGTTTACATATAAAATTACACATTG
1 AATCAAAGTTTACATATAAAATTACACATTG
73401208 A
1 A
73401209 GTTTTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.33
Consensus pattern (31 bp):
AATCAAAGTTTACATATAAAATTACACATTG
Found at i:73401698 original size:19 final size:20
Alignment explanation
Indices: 73401664--73401707 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
73401654 TTTTTTTAAA
*
73401664 GTTATAAATTTTTATAAGTT
1 GTTATAAATATTTATAAGTT
73401684 GTTAT-AATATTTATAAGTT
1 GTTATAAATATTTATAAGTT
*
73401703 TTTAT
1 GTTAT
73401708 GAATGTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (20 bp):
GTTATAAATATTTATAAGTT
Found at i:73401716 original size:19 final size:19
Alignment explanation
Indices: 73401675--73401716 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
73401665 TTATAAATTT
*
73401675 TTATAAGTTGTTATAATAT
1 TTATAAGTTGTTATAATAG
*
73401694 TTATAAGTTTTTATGAAT-G
1 TTATAAGTTGTTAT-AATAG
73401713 TTAT
1 TTAT
73401717 TTTTAGTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (19 bp):
TTATAAGTTGTTATAATAG
Found at i:73401809 original size:46 final size:47
Alignment explanation
Indices: 73401665--73401809 Score: 109
Period size: 51 Copynumber: 3.0 Consensus size: 47
73401655 TTTTTTAAAG
* * * *
73401665 TTATAAATTTTTATAAGTTGTTATAATATTTATAAGTTTTTATGAATGTT
1 TTATAAGTTTCTACAAGTT-TTATAATATTTATAAGTTTATAT-AAT-TT
* * * ** *
73401715 ATTTTTAGTTTCTACAAGTTTATATAATTTTTAT-TTTTTA-ATACTTT
1 -TTATAAGTTTCTACAAGTTT-TATAATATTTATAAGTTTATATAATTT
*
73401762 TTATAAGTGTT-TACAA-TTTTATAATCTTTATAAGTTTATATAATTT
1 TTATAAGT-TTCTACAAGTTTTATAATATTTATAAGTTTATATAATTT
73401808 TT
1 TT
73401810 TTTAAATAAT
Statistics
Matches: 74, Mismatches: 16, Indels: 13
0.72 0.16 0.13
Matches are distributed among these distances:
44 11 0.15
45 7 0.09
46 19 0.26
47 4 0.05
48 2 0.03
49 2 0.03
50 4 0.05
51 25 0.34
ACGTcount: A:0.32, C:0.03, G:0.07, T:0.58
Consensus pattern (47 bp):
TTATAAGTTTCTACAAGTTTTATAATATTTATAAGTTTATATAATTT
Found at i:73401823 original size:23 final size:24
Alignment explanation
Indices: 73401791--73401838 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
73401781 TATAATCTTT
73401791 ATAAGTTTATATAATTTT-TTTTAA
1 ATAAGTTTATA-AATTTTATTTTAA
*
73401815 ATAA-TTTATAATTTTTATTTTAA
1 ATAAGTTTATAAATTTTATTTTAA
73401838 A
1 A
73401839 AAATACATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
ATAAGTTTATAAATTTTATTTTAA
Found at i:73402985 original size:44 final size:46
Alignment explanation
Indices: 73402889--73402988 Score: 152
Period size: 44 Copynumber: 2.2 Consensus size: 46
73402879 GCCTAAAATG
73402889 TTGGACTC-TAACTTGAATTGGGCCTGATTAAAAAGTATTTAGACATT
1 TTGGA-TCATAACTTGAATTGGGCCTGATT-AAAAGTATTTAGACATT
*
73402936 TTGGATCATAACTTGAATTGGGCCTGA-T-ATAGTATTTAGACATT
1 TTGGATCATAACTTGAATTGGGCCTGATTAAAAGTATTTAGACATT
73402980 TTGGATCAT
1 TTGGATCAT
73402989 TTGACTCTAA
Statistics
Matches: 51, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
44 24 0.47
46 3 0.06
47 24 0.47
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (46 bp):
TTGGATCATAACTTGAATTGGGCCTGATTAAAAGTATTTAGACATT
Found at i:73403380 original size:29 final size:30
Alignment explanation
Indices: 73403338--73403397 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
73403328 ATATTGGATC
* *
73403338 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATCAAAAGTTCAAGTATAAAATTGCACA
*
73403368 AAATC-AAAGTTCAAGTATACAATTGCACA
1 AAATCAAAAGTTCAAGTATAAAATTGCACA
73403397 A
1 A
73403398 TAAACCATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.50, C:0.15, G:0.08, T:0.27
Consensus pattern (30 bp):
AAATCAAAAGTTCAAGTATAAAATTGCACA
Found at i:73403442 original size:4 final size:4
Alignment explanation
Indices: 73403435--73403459 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
73403425 TATGTATCCC
73403435 TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT T
73403460 TAAAAGTAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:73414238 original size:28 final size:28
Alignment explanation
Indices: 73414198--73414259 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
73414188 TCACTATCAT
73414198 CCCCATAAGTTATAAAACTCTTCCTATA
1 CCCCATAAGTTATAAAACTCTTCCTATA
* * *
73414226 CCCCATAAGTTATGAGACTTTTCCTATA
1 CCCCATAAGTTATAAAACTCTTCCTATA
*
73414254 CGCCAT
1 CCCCAT
73414260 TAATATGGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (28 bp):
CCCCATAAGTTATAAAACTCTTCCTATA
Found at i:73415804 original size:30 final size:29
Alignment explanation
Indices: 73415760--73415816 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
73415750 TCCGAGCCTT
73415760 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATG-AAAAGTTTA
* * *
73415790 GGGGTAAAATTGTAATTTTGAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAGTT
73415817 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.40, C:0.02, G:0.25, T:0.33
Consensus pattern (29 bp):
GGGGCAAAAATGTAATTATGAAAAGTTTA
Found at i:73416046 original size:13 final size:13
Alignment explanation
Indices: 73416028--73416059 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
73416018 TTTCCAGCAA
73416028 TTATGAATTTATT
1 TTATGAATTTATT
73416041 TTATGAATTTATT
1 TTATGAATTTATT
*
73416054 TGATGA
1 TTATGA
73416060 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:73416267 original size:50 final size:50
Alignment explanation
Indices: 73416154--73416395 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
73416144 ATTTGGGTAA
* * *
73416154 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
73416210 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
73416260 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
73416310 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
73416360 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
73416396 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:73416343 original size:100 final size:103
Alignment explanation
Indices: 73416154--73416403 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
73416144 ATTTGGGTAA
73416154 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
73416219 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
73416260 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
73416322 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
73416360 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
73416404 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
Done.