Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 142 of 345
Found at i:48023741 original size:22 final size:23
Alignment explanation
Indices: 48023715--48023757 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
48023705 TTATGAATTG
48023715 ATTTATTT-TTTAAATGTTTGTA
1 ATTTATTTGTTTAAATGTTTGTA
*
48023737 ATTTATTTGTTTAACTGTTTG
1 ATTTATTTGTTTAAATGTTTG
48023758 AAACAAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.23, C:0.02, G:0.12, T:0.63
Consensus pattern (23 bp):
ATTTATTTGTTTAAATGTTTGTA
Found at i:48027434 original size:29 final size:29
Alignment explanation
Indices: 48027401--48027599 Score: 73
Period size: 29 Copynumber: 6.8 Consensus size: 29
48027391 ATGTTGCCAT
48027401 AAAGGCTTCCTTTTAATAGAGATAGCTAC
1 AAAGGCTTCCTTTTAATAGAGATAGCTAC
* * * * * * **
48027430 AAAGGTTTCCATTAAACAAAGATAGGTGT
1 AAAGGCTTCCTTTTAATAGAGATAGCTAC
* * * *
48027459 AAGGGTTTCTTTTTAATAGAGATCATC-AC
1 AAAGGCTTCCTTTTAATAGAGAT-AGCTAC
* ** *
48027488 AAAGGCATTCCTTTAACATTCAGTACTTGCTAC
1 AAAGGC-TTCCTTTTA-ATAGAG-A-TAGCTAC
* * *
48027521 AAAGGCTTTCC-CTT--TAGAGTATTGCCAC
1 AAAGGC-TTCCTTTTAATAGAG-ATAGCTAC
* * * * *
48027549 ATAGGCTTTCTTTTAATAGAAATTGCCAC
1 AAAGGCTTCCTTTTAATAGAGATAGCTAC
* *
48027578 AAAGGCTTTCTTTTACTAGAGA
1 AAAGGCTTCCTTTTAATAGAGA
48027600 CCGCCACAAA
Statistics
Matches: 122, Mismatches: 39, Indels: 18
0.68 0.22 0.10
Matches are distributed among these distances:
27 3 0.02
28 13 0.11
29 74 0.61
30 12 0.10
31 4 0.03
32 3 0.02
33 13 0.11
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (29 bp):
AAAGGCTTCCTTTTAATAGAGATAGCTAC
Found at i:48027605 original size:29 final size:29
Alignment explanation
Indices: 48027544--48027615 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
48027534 TTAGAGTATT
* **
48027544 GCCACATAGGCTTTCTTTTAATAGAAATT
1 GCCACAAAGGCTTTCTTTTAATAGAAACC
* *
48027573 GCCACAAAGGCTTTCTTTTACTAGAGACC
1 GCCACAAAGGCTTTCTTTTAATAGAAACC
*
48027602 GCCACAAAAGCTTT
1 GCCACAAAGGCTTT
48027616 GTTACGAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (29 bp):
GCCACAAAGGCTTTCTTTTAATAGAAACC
Found at i:48028939 original size:83 final size:83
Alignment explanation
Indices: 48028740--48028943 Score: 284
Period size: 83 Copynumber: 2.5 Consensus size: 83
48028730 AAATTGAAGA
* * * * * *
48028740 CACACGACCAGGTCATACGCCCTTGTGCTAGGCCGTGTGGTCGATTTAAAATTTATGGTTTTTCA
1 CACACGCCCAGGGCACACGCCCATGTGCTAGGCTGTGTGGTCGATTTAAAATTTATGATTTTTCA
*
48028805 TAAAATAGGTGTAGACTT
66 TAAAATAGGTGCAGACTT
* * *
48028823 CACACGCCCAGGGCACATGCTCGTGTGCTAGGCTGTGTGGTCGATTTAAAATTTATGATTTTTCA
1 CACACGCCCAGGGCACACGCCCATGTGCTAGGCTGTGTGGTCGATTTAAAATTTATGATTTTTCA
*
48028888 TAAAATAGGTGCAGGCTT
66 TAAAATAGGTGCAGACTT
*
48028906 CACACGCCTAGGGCACACGCCCATG-GCTGAGGCTGTGT
1 CACACGCCCAGGGCACACGCCCATGTGCT-AGGCTGTGT
48028944 CATCCACACG
Statistics
Matches: 106, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
82 3 0.03
83 103 0.97
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (83 bp):
CACACGCCCAGGGCACACGCCCATGTGCTAGGCTGTGTGGTCGATTTAAAATTTATGATTTTTCA
TAAAATAGGTGCAGACTT
Found at i:48032647 original size:43 final size:42
Alignment explanation
Indices: 48032595--48032686 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 42
48032585 TTATATGGGA
* * * * *
48032595 TCTCGTATCGACGCCAATAGCCCAGCTATGGTCTTACACGAAG
1 TCTCATATCGACACC-ATAGCCAAGATATGGTCTTACACAAAG
* *
48032638 TCTCATATCGATACCATATCCAAGATATGGTCTTACACAAAG
1 TCTCATATCGACACCATAGCCAAGATATGGTCTTACACAAAG
*
48032680 TTTCATA
1 TCTCATA
48032687 ATGATGCCAT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 29 0.71
43 12 0.29
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (42 bp):
TCTCATATCGACACCATAGCCAAGATATGGTCTTACACAAAG
Found at i:48032673 original size:42 final size:42
Alignment explanation
Indices: 48032621--48032713 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 42
48032611 ATAGCCCAGC
*
48032621 TATGGTCTTACACGAAGTCTCAT-ATCGATACCATATCCAAGA
1 TATGGTCTTACACAAAGTCTCATAAT-GATACCATATCCAAGA
* * **
48032663 TATGGTCTTACACAAAGTTTCATAATGATGCCATATCCTCGA
1 TATGGTCTTACACAAAGTCTCATAATGATACCATATCCAAGA
48032705 TATGGTCTT
1 TATGGTCTT
48032714 CATGTAATCT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
42 43 0.96
43 2 0.04
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (42 bp):
TATGGTCTTACACAAAGTCTCATAATGATACCATATCCAAGA
Found at i:48039948 original size:40 final size:40
Alignment explanation
Indices: 48039894--48040077 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
48039884 CACGCACAAG
* * * **
48039894 GCCTTTGGGTCTTAGCCCGGATATGGTCACTAGCGTAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* *
48039934 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* *
48039974 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
48040014 GCCTTC-GGATCTTAGTCTGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAAT
48040054 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
48040078 CATTCGAATA
Statistics
Matches: 121, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 3 0.02
40 114 0.94
41 4 0.03
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:48047931 original size:40 final size:40
Alignment explanation
Indices: 48047877--48048060 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
48047867 CTCGCACAAG
* * * *
48047877 GCCTTTGGGTCTTAGCCCGGATATGGTCACCAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACCAGCACAAAT
* * *
48047917 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACCAGCACAAAT
*
48047957 GCCTTC-GGATCTTAGCCCGGATATAG-CAACTC-GAACAAAT
1 GCCTTCGGGA-CTTAGCCCGGATATAGTC-AC-CAGCACAAAT
* * * *
48047997 GCCTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCACCAGCACAAAT
48048037 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
48048061 CATTCGAATA
Statistics
Matches: 121, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 4 0.03
40 113 0.93
41 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACCAGCACAAAT
Found at i:48047975 original size:80 final size:80
Alignment explanation
Indices: 48047841--48048060 Score: 220
Period size: 80 Copynumber: 2.8 Consensus size: 80
48047831 ACCCAAGCAT
** * * * * *
48047841 CTTCGGAAT-TTAG-CCGGATATAACCACTCGCAC-AAGGCCTTTGGGTCTTAGCCCGGATATGG
1 CTTCGG-ATCTTAGCCCGGATATAGTCACTAGCACAAAAGCCTTCGGATCTTAGCCCGGATATAG
* *
48047903 TC-AC-CAGCATAAATGC
65 -CAACTC-GAACAAATGC
* **
48047919 CTTCGGGA-CTTAGCCCGGATATAGTCGCTAGCACAATTGCCTTCGGATCTTAGCCCGGATATAG
1 CTTC-GGATCTTAGCCCGGATATAGTCACTAGCACAAAAGCCTTCGGATCTTAGCCCGGATATAG
48047983 CAACTCGAACAAATGC
65 CAACTCGAACAAATGC
* *
48047999 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGA-CTTAGCCCGGATAT
1 CTTCGGATCTTAGCCCGGATATAGTCACTAGCACAAAAGCCTTC-GGATCTTAGCCCGGATAT
48048061 CATTCGAATA
Statistics
Matches: 118, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
78 9 0.08
79 22 0.19
80 83 0.70
81 4 0.03
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGATCTTAGCCCGGATATAGTCACTAGCACAAAAGCCTTCGGATCTTAGCCCGGATATAGC
AACTCGAACAAATGC
Found at i:48050218 original size:25 final size:25
Alignment explanation
Indices: 48050155--48050243 Score: 81
Period size: 25 Copynumber: 3.6 Consensus size: 25
48050145 ACGTGTAACC
48050155 TGCCACAAAAGCTTCCCAAATAAAT
1 TGCCACAAAAGCTTCCCAAATAAAT
** * * *
48050180 TTTCATAAAGGCTTCCCAAGTAAAT
1 TGCCACAAAAGCTTCCCAAATAAAT
* *
48050205 TGCCACAAATGCTTCCGAAA-AAATT
1 TGCCACAAAAGCTTCCCAAATAAA-T
* *
48050230 TGCTACAAAGGCTT
1 TGCCACAAAAGCTT
48050244 GGTTTTGTTT
Statistics
Matches: 50, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
24 3 0.06
25 47 0.94
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (25 bp):
TGCCACAAAAGCTTCCCAAATAAAT
Found at i:48059344 original size:28 final size:28
Alignment explanation
Indices: 48059313--48059481 Score: 143
Period size: 27 Copynumber: 6.1 Consensus size: 28
48059303 AAAGGAACCA
*
48059313 TTTGTGGTGATCTATAAAAAATGAAGTC
1 TTTGTGGCGATCTATAAAAAATGAAGTC
** *
48059341 TTTGTGGCGATCT-TTGAAAAGGAAGTC
1 TTTGTGGCGATCTATAAAAAATGAAGTC
* *
48059368 TTTGTGGCGATCTAT-TAAAAGGAAG-C
1 TTTGTGGCGATCTATAAAAAATGAAGTC
* * *
48059394 ATTTGTGGTGATCTATGAAAAAATAAAGTA
1 -TTTGTGGCGATCTAT-AAAAAATGAAGTC
* *
48059424 TTTATGGCTATCTATTAAAAAA-GAAG-C
1 TTTGTGGCGATCTA-TAAAAAATGAAGTC
* *
48059451 ATTTGTGGCGATCTAT-GAAAATGAAGCC
1 -TTTGTGGCGATCTATAAAAAATGAAGTC
48059479 TTT
1 TTT
48059482 TTGGAAAACT
Statistics
Matches: 114, Mismatches: 18, Indels: 19
0.75 0.12 0.13
Matches are distributed among these distances:
26 5 0.04
27 55 0.48
28 29 0.25
29 24 0.21
30 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.34
Consensus pattern (28 bp):
TTTGTGGCGATCTATAAAAAATGAAGTC
Found at i:48059436 original size:29 final size:28
Alignment explanation
Indices: 48059372--48059471 Score: 94
Period size: 28 Copynumber: 3.6 Consensus size: 28
48059362 GAAGTCTTTG
* ** *
48059372 TGGCGATCTAT-TAAAAGGAAGCATTTG
1 TGGCGATCTATGAAAAAAAAAGCATTTA
* *
48059399 TGGTGATCTATGAAAAAATAAAGTATTTA
1 TGGCGATCTATGAAAAAA-AAAGCATTTA
* * * *
48059428 TGGCTATCTATTAAAAAAGAAGCATTTG
1 TGGCGATCTATGAAAAAAAAAGCATTTA
48059456 TGGCGATCTATGAAAA
1 TGGCGATCTATGAAAA
48059472 TGAAGCCTTT
Statistics
Matches: 57, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
27 10 0.18
28 25 0.44
29 22 0.39
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.31
Consensus pattern (28 bp):
TGGCGATCTATGAAAAAAAAAGCATTTA
Found at i:48061616 original size:13 final size:13
Alignment explanation
Indices: 48061600--48061652 Score: 70
Period size: 13 Copynumber: 4.1 Consensus size: 13
48061590 TTTAAACCAA
48061600 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
48061613 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* * *
48061626 ACTTTACCACAGC
1 ACTTTTCAAAAGC
48061639 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
48061652 A
1 A
48061653 TTGCCAAACT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.38, C:0.28, G:0.08, T:0.26
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:48063281 original size:58 final size:58
Alignment explanation
Indices: 48063183--48063326 Score: 141
Period size: 58 Copynumber: 2.5 Consensus size: 58
48063173 TCATTATAGG
* * * * * *
48063183 AAGGATTTAGCCCGAACTGGTAATCATGATATAATACCTCTCGAGTATACGTTATGAT-T
1 AAGGATTTAGCCTGGACTGGTAATCCTAATATAATACCTCT-GAGCATACATTAT-ATAT
* *
48063242 -AGGTTTTAGCCTGGACTGGTAATCCTAATTTAGAT-CCTCTGAGCATACATTATATAT
1 AAGGATTTAGCCTGGACTGGTAATCCTAATATA-ATACCTCTGAGCATACATTATATAT
* *
48063299 AAAGGATTTAGGCTAGACTGGTAATCCT
1 -AAGGATTTAGCCTGGACTGGTAATCCT
48063327 GTTATACGAT
Statistics
Matches: 70, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
56 2 0.03
57 12 0.17
58 31 0.44
59 25 0.36
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (58 bp):
AAGGATTTAGCCTGGACTGGTAATCCTAATATAATACCTCTGAGCATACATTATATAT
Found at i:48072259 original size:42 final size:41
Alignment explanation
Indices: 48072191--48072339 Score: 115
Period size: 42 Copynumber: 3.5 Consensus size: 41
48072181 AGCTCGTACA
* * *
48072191 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATC-AATATCG
1 ATGCC-ACGTCCCAGACGTGGACTTACACGAAATCAAATA-CG
48072233 ATGCCACTGTCCCAGACAG-GGACTTACACGAAATCAAATACG
1 ATGCCAC-GTCCCAGAC-GTGGACTTACACGAAATCAAATACG
* * * * *
48072275 ATGCCAACGTCCTAGAAGTGGTCTTACACATAAATCATAAGT-TG
1 ATGCC-ACGTCCCAGACGTGGACTTACAC-GAAATCA-AA-TACG
*
48072319 ATGCCAACATCCCAGACGTGG
1 ATGCC-ACGTCCCAGACGTGG
48072340 TTTTACCCGT
Statistics
Matches: 88, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
41 3 0.03
42 50 0.57
43 13 0.15
44 21 0.24
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.22
Consensus pattern (41 bp):
ATGCCACGTCCCAGACGTGGACTTACACGAAATCAAATACG
Found at i:48079791 original size:42 final size:42
Alignment explanation
Indices: 48079683--48079825 Score: 137
Period size: 43 Copynumber: 3.3 Consensus size: 42
48079673 AGCTCGTACA
* * * * *
48079683 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAAAAGTGGTCTCACATGAAATCAAATA-CG
* * *
48079726 ATGTCACCGTCCCAGATAG-GGTCTCACATGAAATCAAATACG
1 ATGCCAACGTCCCA-AAAGTGGTCTCACATGAAATCAAATACG
*
48079768 ATGCCAACGTCCCAAAAGTGGTCTCACACGAAAATCATAAGT-CG
1 ATGCCAACGTCCCAAAAGTGGTCTCACATG-AAATCA-AA-TACG
*
48079812 ATGCCAATGTCCCA
1 ATGCCAACGTCCCA
48079826 GACGTGGTTT
Statistics
Matches: 82, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
41 3 0.04
42 24 0.29
43 36 0.44
44 18 0.22
45 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAAAAGTGGTCTCACATGAAATCAAATACG
Found at i:48109771 original size:26 final size:26
Alignment explanation
Indices: 48109722--48109797 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
48109712 ACAAATTTTC
** * *
48109722 TCAAAATTTTACCATGTGTAAAATCG
1 TCAAAATTTTACTGTGGGTAAAATCA
*
48109748 TCAAAATTTTACTGTGGGTTAAATCA
1 TCAAAATTTTACTGTGGGTAAAATCA
** *
48109774 TCAAAAAATTACTGGGGGTAAAAT
1 TCAAAATTTTACTGTGGGTAAAAT
48109798 AGGGATGATA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (26 bp):
TCAAAATTTTACTGTGGGTAAAATCA
Found at i:48112590 original size:13 final size:13
Alignment explanation
Indices: 48112550--48112597 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
48112540 ACATTTTGGT
* *
48112550 TTATTTTTTCTGT
1 TTATTTTTTTTGA
48112563 TTAATTTTTAATTTGA
1 TT-ATTTTT--TTTGA
48112579 TTATTTTTTTTGA
1 TTATTTTTTTTGA
48112592 TTATTT
1 TTATTT
48112598 CAGGTGTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
13 13 0.43
14 6 0.20
15 6 0.20
16 5 0.17
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.73
Consensus pattern (13 bp):
TTATTTTTTTTGA
Found at i:48131754 original size:11 final size:11
Alignment explanation
Indices: 48131738--48131762 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
48131728 TGACTACCCC
48131738 TTTTTTTTTCT
1 TTTTTTTTTCT
48131749 TTTTTTTTTCT
1 TTTTTTTTTCT
48131760 TTT
1 TTT
48131763 GGTAGGGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:48135525 original size:6 final size:6
Alignment explanation
Indices: 48135498--48135576 Score: 54
Period size: 6 Copynumber: 12.8 Consensus size: 6
48135488 TACCAAAATT
* * * * *
48135498 AGAATC AAAATG AGAATT AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
*
48135547 AGTATC AGGTAA-C AGAATC AGAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
48135577 GTGAATGCAA
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
5 3 0.05
6 46 0.82
7 5 0.09
8 2 0.04
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:48135539 original size:25 final size:25
Alignment explanation
Indices: 48135510--48135576 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
48135500 AATCAAAATG
* * *
48135510 AGAATTAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
48135535 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
48135560 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
48135577 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:48135723 original size:26 final size:26
Alignment explanation
Indices: 48135694--48135791 Score: 101
Period size: 26 Copynumber: 3.8 Consensus size: 26
48135684 AGCATGGCTG
* **
48135694 CCAGAACAGATATTGTGACAAAGTTA
1 CCAGAACAGATATTGTGGCAAAGCCA
* *
48135720 CCAGATACAGATATTGTGGTAGAGCCA
1 CCAGA-ACAGATATTGTGGCAAAGCCA
*
48135747 CCAGAACAGATAATGTGGCAAAGCCA
1 CCAGAACAGATATTGTGGCAAAGCCA
*
48135773 CTA-AACAGA-ATATGTGGCA
1 CCAGAACAGATAT-TGTGGCA
48135792 CAAAGCCATC
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
24 1 0.02
25 13 0.22
26 25 0.42
27 21 0.35
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAAAGCCA
Found at i:48137164 original size:46 final size:46
Alignment explanation
Indices: 48137113--48137284 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
48137103 GGTTGAGCAT
*
48137113 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* * * * *
48137159 TCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCAC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--C
*
48137206 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
*
48137252 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
48137285 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.58
47 27 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
Found at i:48138745 original size:22 final size:22
Alignment explanation
Indices: 48138717--48138781 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
48138707 GCAAATACAT
*
48138717 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
48138739 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
48138761 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
48138782 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:48139617 original size:27 final size:27
Alignment explanation
Indices: 48139221--48139610 Score: 478
Period size: 27 Copynumber: 14.4 Consensus size: 27
48139211 TAATTTTACC
*
48139221 CAAGGGTATCTCGGTAATTCTACCCTA
1 CAAGGGTATTTCGGTAATTCTACCCTA
* * *
48139248 CAGGGGTATTTCAGTATTTCTACCCTA
1 CAAGGGTATTTCGGTAATTCTACCCTA
* *
48139275 TAAGGGTATTTCGGTAATTCTATCCTA
1 CAAGGGTATTTCGGTAATTCTACCCTA
*
48139302 C-AGAGGTATTTCAGTAATTCTACCCTA
1 CAAG-GGTATTTCGGTAATTCTACCCTA
* * *
48139329 CAGGGGTATTTTGGTATTTCTACCCTA
1 CAAGGGTATTTCGGTAATTCTACCCTA
* *
48139356 CAAGGGTATTTCGATATTTCTACCCTA
1 CAAGGGTATTTCGGTAATTCTACCCTA
*
48139383 CAAGGTTATTTCGGTAATTCTACCCTA
1 CAAGGGTATTTCGGTAATTCTACCCTA
* * *
48139410 TAGGGGTATTTCAGTAATTCTACCCTA
1 CAAGGGTATTTCGGTAATTCTACCCTA
* * *
48139437 CAGGGGTA-TTCTGGTATTTCTAGCCTA
1 CAAGGGTATTTC-GGTAATTCTACCCTA
* * * *
48139464 TAAGGGTATTTCGATATTTTTACCCTA
1 CAAGGGTATTTCGGTAATTCTACCCTA
*
48139491 CAAGGGTATTTCTGTAATTCTACCCTA
1 CAAGGGTATTTCGGTAATTCTACCCTA
* * * *
48139518 TAGGGGTATTTCAGTAATTCTACTCTA
1 CAAGGGTATTTCGGTAATTCTACCCTA
*
48139545 CAAGGGTATTTCGGTATTTCTACCCTA
1 CAAGGGTATTTCGGTAATTCTACCCTA
48139572 CAAGGGTATTTCGGTAATTCTACCCTA
1 CAAGGGTATTTCGGTAATTCTACCCTA
*
48139599 CAGGGGTATTTC
1 CAAGGGTATTTC
48139611 AATAATTTTG
Statistics
Matches: 308, Mismatches: 51, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
26 5 0.02
27 299 0.97
28 4 0.01
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTCTACCCTA
Found at i:48139632 original size:27 final size:27
Alignment explanation
Indices: 48139602--48139859 Score: 206
Period size: 27 Copynumber: 9.6 Consensus size: 27
48139592 TACCCTACAG
* *
48139602 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCAGTAATTTTATAAATCGA
*** * *
48139629 GGGTAAAAC-GATAATTTTATAAATTGG
1 GGGTATTTCAG-TAATTTTATAAATCGA
* *
48139656 GGGTACTTT-GGTAATTTTACAAATCGA
1 GGGTA-TTTCAGTAATTTTATAAATCGA
* *
48139683 GGGTATCTCAGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTATAAATCGA
* *
48139710 GGGTATCTCAGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTATAAATCGA
* *
48139737 GGGTATTTTAGTAATTTTA-CAATCGA
1 GGGTATTTCAGTAATTTTATAAATCGA
*
48139763 TGGTATTTC-GATAATTTTATAAATCGA
1 GGGTATTTCAG-TAATTTTATAAATCGA
* ** *
48139790 GGATATTTGGGTAATTTTATAAACCG-
1 GGGTATTTCAGTAATTTTATAAATCGA
* * * *
48139816 GATGTACTTT-AGTAATTTTACAACT-GG
1 G-GGTA-TTTCAGTAATTTTATAAATCGA
48139843 GGGTATTTCAGTAATTT
1 GGGTATTTCAGTAATTT
48139860 GGTAAACTAA
Statistics
Matches: 188, Mismatches: 32, Indels: 23
0.77 0.13 0.09
Matches are distributed among these distances:
25 4 0.02
26 36 0.19
27 143 0.76
28 5 0.03
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTATAAATCGA
Found at i:48139787 original size:53 final size:54
Alignment explanation
Indices: 48139666--48139859 Score: 200
Period size: 53 Copynumber: 3.6 Consensus size: 54
48139656 GGGTACTTTG
*
48139666 GTAATTTTACAAATCGAGGGTATCTCAGTAATTTTACAAATCGAGGGTATCTCA
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATCTCA
* * *
48139720 GTAATTTTACAAATCGAGGGTATTTTAGTAATTTTAC-AATCGATGGTATTTC-
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATCTCA
* * ** * * * *
48139772 GATAATTTTATAAATCGAGGATATTTGGGTAATTTTATAAACCG-GATGTA-CTTTA
1 G-TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAG-GGTATC-TCA
* *
48139827 GTAATTTTACAACT-GGGGGTATTTCAGTAATTT
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTT
48139860 GGTAAACTAA
Statistics
Matches: 115, Mismatches: 20, Indels: 11
0.79 0.14 0.08
Matches are distributed among these distances:
52 1 0.01
53 59 0.51
54 54 0.47
55 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (54 bp):
GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATCTCA
Found at i:48139804 original size:80 final size:78
Alignment explanation
Indices: 48139602--48139859 Score: 257
Period size: 80 Copynumber: 3.2 Consensus size: 78
48139592 TACCCTACAG
* * * * * *
48139602 GGGTATTTCAATAATTTTGTAAATCGAGGGTAAAACGATAATTTTATAAATTGGGGGTACTTTGG
1 GGGTATTTC-ATAATTTTATAAATCGAGGGTATATCGGTAATTTTATAAA-TCGGGGTACTTTAG
48139667 TAATTTTACAAATCGA
64 TAATTTTAC-AATCGA
* * * * * *
48139683 GGGTATCTCAGTAATTTTACAAATCGAGGGTATCTCAGTAATTTTACAAATCGAGGGTATTTTAG
1 GGGTATTTCA-TAATTTTATAAATCGAGGGTATATCGGTAATTTTATAAATCG-GGGTACTTTAG
48139748 TAATTTTACAATCGA
64 TAATTTTACAATCGA
* * * * * *
48139763 TGGTATTTCGATAATTTTATAAATCGAGGATATTTGGGTAATTTTATAAACCGGATGTACTTTAG
1 GGGTATTTC-ATAATTTTATAAATCGAGGGTATATCGGTAATTTTATAAATCGG-GGTACTTTAG
*
48139828 TAATTTTACAA-CTGG
64 TAATTTTACAATC-GA
48139843 GGGTATTTCAGTAATTT
1 GGGTATTTCA-TAATTT
48139860 GGTAAACTAA
Statistics
Matches: 146, Mismatches: 25, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
79 3 0.02
80 85 0.58
81 58 0.40
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (78 bp):
GGGTATTTCATAATTTTATAAATCGAGGGTATATCGGTAATTTTATAAATCGGGGTACTTTAGTA
ATTTTACAATCGA
Found at i:48141833 original size:17 final size:18
Alignment explanation
Indices: 48141811--48141844 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48141801 GGCCTTAGCC
48141811 CATTA-CAGAATAAGAAA
1 CATTACCAGAATAAGAAA
*
48141828 CATTACCAGAATTAGAA
1 CATTACCAGAATAAGAA
48141845 TCAAAATCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.21
Consensus pattern (18 bp):
CATTACCAGAATAAGAAA
Found at i:48141844 original size:6 final size:6
Alignment explanation
Indices: 48141834--48141919 Score: 68
Period size: 6 Copynumber: 14.0 Consensus size: 6
48141824 GAAACATTAC
* * * *
48141834 CAGAAT TAGAAT CAAAAT CAGAAT TAGAAT CAGAAT CAG-GT GACAGAAT
1 CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT --CAGAAT
* *
48141883 TAGAAT CAGTAT CAAGTAA- CAGAAT CAGAAT CAGAAT
1 CAGAAT CAGAAT C-AG-AAT CAGAAT CAGAAT CAGAAT
48141920 GTGAATGCAA
Statistics
Matches: 62, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
5 3 0.05
6 51 0.82
7 6 0.10
8 2 0.03
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (6 bp):
CAGAAT
Found at i:48141886 original size:25 final size:25
Alignment explanation
Indices: 48141835--48141919 Score: 102
Period size: 25 Copynumber: 3.4 Consensus size: 25
48141825 AAACATTACC
*
48141835 AGAATTAGAATCAA--AATCAGAATT
1 AGAATCAGAATCAAGTAA-CAGAATT
* *
48141859 AGAATCAGAATCAGGTGACAGAATT
1 AGAATCAGAATCAAGTAACAGAATT
* *
48141884 AGAATCAGTATCAAGTAACAGAATC
1 AGAATCAGAATCAAGTAACAGAATT
48141909 AGAATCAGAAT
1 AGAATCAGAAT
48141920 GTGAATGCAA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
24 12 0.24
25 38 0.75
26 1 0.02
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATCAAGTAACAGAATT
Found at i:48142077 original size:27 final size:26
Alignment explanation
Indices: 48142037--48142124 Score: 79
Period size: 26 Copynumber: 3.4 Consensus size: 26
48142027 AGCATGGCTG
* * **
48142037 CCAGAACAAATATTGTGATAGAGGTA
1 CCAGAACAGATATTGTGACAGAGCCA
*
48142063 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* * *
48142090 CCAGAACAGATAATGTGGCAAAGCCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
48142116 CTA-AACAGA
1 CCAGAACAGA
48142125 ATACGTGGCA
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
25 6 0.11
26 26 0.49
27 21 0.40
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:48142106 original size:26 final size:26
Alignment explanation
Indices: 48142062--48142124 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
48142052 TGATAGAGGT
* *
48142062 ACCAGATACAGATATTGTGGCAGAGCC
1 ACCAGA-ACAGATAATGTGGCAAAGCC
48142089 ACCAGAACAGATAATGTGGCAAAGCC
1 ACCAGAACAGATAATGTGGCAAAGCC
*
48142115 ACTA-AACAGA
1 ACCAGAACAGA
48142125 ATACGTGGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 6 0.18
26 21 0.64
27 6 0.18
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.14
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAAAGCC
Found at i:48142132 original size:25 final size:26
Alignment explanation
Indices: 48142062--48142134 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 26
48142052 TGATAGAGGT
** *
48142062 ACCAGATACAGATATTGTGGCAGAGCC
1 ACCAGA-ACAGATAACGTGGCAAAGCC
*
48142089 ACCAGAACAGATAATGTGGCAAAGCC
1 ACCAGAACAGATAACGTGGCAAAGCC
*
48142115 ACTA-AACAGA-ATACGTGGCA
1 ACCAGAACAGATA-ACGTGGCA
48142135 CAAAGCCATC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.02
25 13 0.32
26 21 0.51
27 6 0.15
ACGTcount: A:0.40, C:0.22, G:0.23, T:0.15
Consensus pattern (26 bp):
ACCAGAACAGATAACGTGGCAAAGCC
Found at i:48142303 original size:22 final size:22
Alignment explanation
Indices: 48142275--48142339 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
48142265 GCAAATACGT
*
48142275 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
48142297 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
* *
48142319 TTGGCGCAAAACCATAATCAG
1 TTGGCACAAAGCCATAATCAG
48142340 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:48143259 original size:27 final size:27
Alignment explanation
Indices: 48142767--48143252 Score: 582
Period size: 27 Copynumber: 18.0 Consensus size: 27
48142757 GAGGCAAAAT
* * *
48142767 GGTAATTTTA-CCTCACAAGAGTATCTC
1 GGTAATTCTACCCT-ACAAGGGTATTTC
48142794 GGTAATTCTACCCTACATA-GGTATTTC
1 GGTAATTCTACCCTACA-AGGGTATTTC
* * *
48142821 GGTATTTTTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
48142848 GGTAATTCTATCCC-ACAAGGGTATTTC
1 GGTAATTCTA-CCCTACAAGGGTATTTC
* *
48142875 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
48142902 GGTATTTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
48142929 GATATTTCTACCCTACAAGGTTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
48142956 GGTAATTCTACCCTATAGGGGTATTTA
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
48142983 TGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
48143010 GGTATTTCTAGCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
48143037 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
48143064 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
48143091 GATATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
48143118 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * **
48143145 AGTAATTCTACTCTACAAATGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
48143172 GGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
48143199 AGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
48143226 GGTAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
48143253 AATAATTTTG
Statistics
Matches: 392, Mismatches: 62, Indels: 10
0.84 0.13 0.02
Matches are distributed among these distances:
26 4 0.01
27 381 0.97
28 7 0.02
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:48143272 original size:27 final size:27
Alignment explanation
Indices: 48143243--48143500 Score: 170
Period size: 27 Copynumber: 9.7 Consensus size: 27
48143233 CTACCCTATA
* * *
48143243 AGGGTATTTCAATAATTTTGTAAATCA
1 AGGGTATTTCAGTAATTTTATAAATCG
*** * * *
48143270 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTATTTCAGTAATTTTATAAATCG
* * * * *
48143297 GGGGTACTTT-GGTAATTTTACAAGTTG
1 AGGGTA-TTTCAGTAATTTTATAAATCG
* *
48143324 AGGGTATTTCAATAATTTTAAAAATC-
1 AGGGTATTTCAGTAATTTTATAAATCG
*
48143350 ATGGGTATTTCAGTAATTTTACAAATCG
1 A-GGGTATTTCAGTAATTTTATAAATCG
* *
48143378 AGGGTATTTTAGTAATTTTA-CAATCG
1 AGGGTATTTCAGTAATTTTATAAATCG
* *
48143404 ATGGTATTTC-GATAATTTTACAAATCG
1 AGGGTATTTCAG-TAATTTTATAAATCG
* ** *
48143431 AGGATATTTGGGTAATTTTATAAACCG
1 AGGGTATTTCAGTAATTTTATAAATCG
* * *
48143458 GGGGTACTTT-GGTAA-TTTATAACT-G
1 AGGGTA-TTTCAGTAATTTTATAAATCG
*
48143483 AGGGTATTTTAGTAATTT
1 AGGGTATTTCAGTAATTT
48143501 GGTAAACTAA
Statistics
Matches: 181, Mismatches: 40, Indels: 21
0.75 0.17 0.09
Matches are distributed among these distances:
24 3 0.02
25 11 0.06
26 34 0.19
27 128 0.71
28 5 0.03
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTATAAATCG
Found at i:48143340 original size:54 final size:54
Alignment explanation
Indices: 48143281--48143500 Score: 198
Period size: 54 Copynumber: 4.1 Consensus size: 54
48143271 GGGTAAAACG
* * * *
48143281 GTAATTCTGTAAATCGGGGGTACTTT-GGTAATTTTACAAGTTGAGGGTATTTCA
1 GTAATTTTATAAATCGGGGGTA-TTTCGGTAATTTTACAAATCGAGGGTATTTCA
* * ** * *
48143335 ATAATTTTAAAAATCATGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTA
1 GTAATTTTATAAATCGGGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCA
* ** * * **
48143389 GTAATTTTA-CAATCGATGGTATTTCGATAATTTTACAAATCGAGGATATTTGG
1 GTAATTTTATAAATCGGGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCA
* * * *
48143442 GTAATTTTATAAACCGGGGGTACTTT-GGTAA-TTTATAACT-GAGGGTATTTTA
1 GTAATTTTATAAATCGGGGGTA-TTTCGGTAATTTTACAAATCGAGGGTATTTCA
48143494 GTAATTT
1 GTAATTT
48143501 GGTAAACTAA
Statistics
Matches: 133, Mismatches: 30, Indels: 8
0.78 0.18 0.05
Matches are distributed among these distances:
52 16 0.12
53 54 0.41
54 60 0.45
55 3 0.02
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (54 bp):
GTAATTTTATAAATCGGGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCA
Found at i:48143366 original size:81 final size:79
Alignment explanation
Indices: 48143243--48143500 Score: 266
Period size: 81 Copynumber: 3.2 Consensus size: 79
48143233 CTACCCTATA
** *** * *
48143243 AGGGTATTTCAATAATTTTGTAAATCAAGGGTAAAACGGTAATTCTGTAAATCGGGGGTACTTTG
1 AGGGTATTTCAATAATTTTAAAAATC-AGGGTATTTCGGTAATTTTATAAATCGGGGGTACTTTG
48143308 GTAATTTTACAAGTTG
65 GTAATTTTACAA-TTG
* * * * *
48143324 AGGGTATTTCAATAATTTTAAAAATCATGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTA
1 AGGGTATTTCAATAATTTTAAAAATCA-GGGTATTTCGGTAATTTTATAAATCGGGGGTACTTTG
*
48143389 GTAATTTTACAATCG
65 GTAATTTTACAATTG
* * * * * *
48143404 ATGGTATTTCGATAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAACCGGGGGTACTTTG
1 AGGGTATTTCAATAATTTTAAAAATC-AGGGTATTTCGGTAATTTTATAAATCGGGGGTACTTTG
* *
48143469 GTAA-TTTATAACTG
65 GTAATTTTACAATTG
* *
48143483 AGGGTATTTTAGTAATTT
1 AGGGTATTTCAATAATTT
48143501 GGTAAACTAA
Statistics
Matches: 144, Mismatches: 31, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
79 21 0.15
80 59 0.41
81 64 0.44
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (79 bp):
AGGGTATTTCAATAATTTTAAAAATCAGGGTATTTCGGTAATTTTATAAATCGGGGGTACTTTGG
TAATTTTACAATTG
Found at i:48143427 original size:53 final size:53
Alignment explanation
Indices: 48143308--48143450 Score: 173
Period size: 53 Copynumber: 2.7 Consensus size: 53
48143298 GGGTACTTTG
* * *
48143308 GTAATTTTACAAGTTGAGGGTATTTCAATAATTTTAAAAATCATGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTT-AAAATCATGGGTATTTCA
* *
48143362 GTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAATCGAT-GGTATTTC-
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTAAAATC-ATGGGTATTTCA
* **
48143414 GATAATTTTACAAATCGAGGATATTTGGGTAATTTTA
1 G-TAATTTTACAAATCGAGGGTATTTCAGTAATTTTA
48143451 TAAACCGGGG
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
52 1 0.01
53 45 0.57
54 33 0.42
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (53 bp):
GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTAAAATCATGGGTATTTCA
Found at i:48143446 original size:80 final size:81
Alignment explanation
Indices: 48143291--48143500 Score: 239
Period size: 80 Copynumber: 2.6 Consensus size: 81
48143281 GTAATTCTGT
* *
48143291 AAATCGGGGGTACTTTGGTAATTTTACAAGTTGAGGGTATTTCAATAATTTTAAAAATCATGGGT
1 AAATCGGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTAAAAATCATGGAT
48143356 ATTTCAGTAATTTTAC
66 ATTTCAGTAATTTTAC
* * * * * *
48143372 AAATCGAGGGTATTTTAGTAATTTTACAA-TCGATGGTATTTCGATAATTTTACAAATCGA-GGA
1 AAATCGGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTAAAAATC-ATGGA
** *
48143435 TATTTGGGTAATTTTAT
65 TATTTCAGTAATTTTAC
* * * * *
48143452 AAACCGGGGGTACTTTGGTAA-TTTATAACT-GAGGGTATTTTAGTAATTT
1 AAATCGGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTT
48143501 GGTAAACTAA
Statistics
Matches: 107, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
79 21 0.20
80 59 0.55
81 27 0.25
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (81 bp):
AAATCGGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTAAAAATCATGGAT
ATTTCAGTAATTTTAC
Found at i:48143568 original size:27 final size:27
Alignment explanation
Indices: 48143538--48143601 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
48143528 TAACAATACG
**
48143538 AATGGGCTTAAAACCCTTCTCGGCCCA
1 AATGGGCCCAAAACCCTTCTCGGCCCA
* *
48143565 AATGGGCCCAAAGCCCTTCTCGGTCCA
1 AATGGGCCCAAAACCCTTCTCGGCCCA
48143592 AATGGGCCCA
1 AATGGGCCCA
48143602 CACGCTCGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.25, C:0.34, G:0.22, T:0.19
Consensus pattern (27 bp):
AATGGGCCCAAAACCCTTCTCGGCCCA
Found at i:48145397 original size:30 final size:33
Alignment explanation
Indices: 48145327--48145398 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 33
48145317 AGGCAAGGCT
*
48145327 GTGTGATCCACACGGGCAAGGTCAAAATGGGTC
1 GTGTGAGCCACACGGGCAAGGTCAAAATGGGTC
* *
48145360 ATGTGAGCCACACGGGC-AGGTC-ACATGGG-C
1 GTGTGAGCCACACGGGCAAGGTCAAAATGGGTC
48145390 GTGTGAGCC
1 GTGTGAGCC
48145399 CATGTTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 9 0.26
31 6 0.17
32 5 0.14
33 15 0.43
ACGTcount: A:0.24, C:0.24, G:0.36, T:0.17
Consensus pattern (33 bp):
GTGTGAGCCACACGGGCAAGGTCAAAATGGGTC
Found at i:48146541 original size:15 final size:14
Alignment explanation
Indices: 48146504--48146541 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
48146494 TAAATTATAT
48146504 ATTAT-TTTATTAA
1 ATTATATTTATTAA
*
48146517 ATTGTATTTAGTTAA
1 ATTATATTTA-TTAA
48146532 ATTATATTTA
1 ATTATATTTA
48146542 ATAATAATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 4 0.19
14 4 0.19
15 13 0.62
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (14 bp):
ATTATATTTATTAA
Found at i:48146710 original size:44 final size:46
Alignment explanation
Indices: 48146651--48146738 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 46
48146641 TATTACATCT
* *
48146651 ATTCTATTCAACCAAACACA-AGAA-TACT-ATTACATCTCTATTTC
1 ATTCCATTCAACCAAACA-ATAGAATTACTGATTACAGCTCTATTTC
* *
48146695 ATTCCATTGAACCAAACAATTGAATTACTGATTACAGCTCTATT
1 ATTCCATTCAACCAAACAATAGAATTACTGATTACAGCTCTATT
48146739 CTGTTATAGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
43 1 0.03
44 19 0.51
45 4 0.11
46 13 0.35
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.34
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAATAGAATTACTGATTACAGCTCTATTTC
Found at i:48150519 original size:31 final size:31
Alignment explanation
Indices: 48150449--48150527 Score: 79
Period size: 32 Copynumber: 2.5 Consensus size: 31
48150439 TTATTATTTG
** *
48150449 AAAACAAACTAAAAAAAAAAAAACAGATCCA
1 AAAACAAACCCAAAAAAAAAAAACAGAGCCA
**
48150480 AAAGACAAACCCAAAAAAAAAAAACA-AGGCTT
1 AAA-ACAAACCCAAAAAAAAAAAACAGA-GCCA
48150512 AAAACAAAGCCCAAAA
1 AAAACAAA-CCCAAAA
48150528 TATCAAGTCT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
31 9 0.22
32 31 0.77
ACGTcount: A:0.70, C:0.19, G:0.06, T:0.05
Consensus pattern (31 bp):
AAAACAAACCCAAAAAAAAAAAACAGAGCCA
Found at i:48151379 original size:16 final size:16
Alignment explanation
Indices: 48151358--48151388 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48151348 TTCACTATTA
*
48151358 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
48151374 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
48151389 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:48153299 original size:12 final size:12
Alignment explanation
Indices: 48153277--48153302 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48153267 CAAGAGAAAG
48153277 TTGTAGAGAATT
1 TTGTAGAGAATT
48153289 TTGTAGAGAATT
1 TTGTAGAGAATT
48153301 TT
1 TT
48153303 TTATTTGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (12 bp):
TTGTAGAGAATT
Found at i:48157216 original size:48 final size:48
Alignment explanation
Indices: 48157164--48157294 Score: 172
Period size: 48 Copynumber: 2.7 Consensus size: 48
48157154 AGGGGATTCC
*
48157164 ATGTAAGACCATGTCTAGGACATGGCATTGGCATCGACCTACAATCCA
1 ATGTAAGACCATGTCTAGGACATGGCATTGGCATCGACATACAATCCA
* * *** *
48157212 ATGTAAGACAATGTCTAGGACATGGCATTGGCATCGATATGTGATCCT
1 ATGTAAGACCATGTCTAGGACATGGCATTGGCATCGACATACAATCCA
* * *
48157260 ATGTAAGACCATATCTAGGATATGGAATTGGCATC
1 ATGTAAGACCATGTCTAGGACATGGCATTGGCATC
48157295 CTACCATGTA
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 72 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (48 bp):
ATGTAAGACCATGTCTAGGACATGGCATTGGCATCGACATACAATCCA
Found at i:48161961 original size:32 final size:32
Alignment explanation
Indices: 48161918--48161981 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
48161908 AAAGAGTGCA
*
48161918 TATGAGAAAGGTTCCATATGCTTTGGTAGTTG
1 TATGAGAAAGGTTCCATATGCTTCGGTAGTTG
*
48161950 TATGAGTAAGGTTCCATATGCTTCGGTAGTTG
1 TATGAGAAAGGTTCCATATGCTTCGGTAGTTG
48161982 GAAGCCATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.23, C:0.11, G:0.28, T:0.38
Consensus pattern (32 bp):
TATGAGAAAGGTTCCATATGCTTCGGTAGTTG
Found at i:48166165 original size:16 final size:16
Alignment explanation
Indices: 48166144--48166174 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48166134 TTCACTATTA
*
48166144 TGTCTTTTGTATTTTT
1 TGTCTTTTATATTTTT
48166160 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
48166175 ACAAGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.06, G:0.10, T:0.74
Consensus pattern (16 bp):
TGTCTTTTATATTTTT
Found at i:48167596 original size:5 final size:5
Alignment explanation
Indices: 48167586--48167612 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
48167576 ATATTATAAT
48167586 ATTTA ATTTA ATTTA ATTTA ATTTA AT
1 ATTTA ATTTA ATTTA ATTTA ATTTA AT
48167613 ACTTATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTTA
Found at i:48167625 original size:39 final size:41
Alignment explanation
Indices: 48167577--48167677 Score: 104
Period size: 39 Copynumber: 2.6 Consensus size: 41
48167567 ATTATTATAA
*
48167577 TATTATAATATTTAATTTAATTTAATTTAAT-TT-AA-TACT
1 TATTTTAATATTTAATTTAATTTAATTTAATATTAAAGTA-T
* * *
48167616 TATTTTAATA-GTATTTTTA-TTAATTTAATATTAAAGTAT
1 TATTTTAATATTTAATTTAATTTAATTTAATATTAAAGTAT
* *
48167655 TATCTTAATATTAAATTTAATTT
1 TATTTTAATATTTAATTTAATTT
48167678 TAGAAGATAA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
37 10 0.21
38 8 0.17
39 21 0.44
40 7 0.15
41 2 0.04
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (41 bp):
TATTTTAATATTTAATTTAATTTAATTTAATATTAAAGTAT
Found at i:48175909 original size:6 final size:6
Alignment explanation
Indices: 48175897--48175929 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
48175887 AAAAAGAAAA
*
48175897 AGGGTT AGTGTT AGGGTT AGGGTT AGGGTT AGG
1 AGGGTT AGGGTT AGGGTT AGGGTT AGGGTT AGG
48175930 TGTAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.18, C:0.00, G:0.48, T:0.33
Consensus pattern (6 bp):
AGGGTT
Found at i:48179306 original size:40 final size:40
Alignment explanation
Indices: 48179222--48179405 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
48179212 TTGAATGCTG
* * * *
48179222 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
48179261 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
48179302 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
48179342 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
48179382 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
48179406 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:48179359 original size:80 final size:81
Alignment explanation
Indices: 48179222--48179402 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
48179212 TTGAATGCTG
* * *
48179222 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
48179286 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
48179302 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
48179363 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
48179382 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
48179403 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:48179426 original size:39 final size:38
Alignment explanation
Indices: 48179303--48179452 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
48179293 GTTATTAATT
* ** * *
48179303 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
48179343 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
48179382 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
48179422 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
48179453 GAGCTAAATC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:48191874 original size:79 final size:78
Alignment explanation
Indices: 48191657--48191920 Score: 327
Period size: 79 Copynumber: 3.3 Consensus size: 78
48191647 GCTCCTCGTT
* * *
48191657 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCACAAATGCCTTC-GGACTTAGCCCGG
*
48191722 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
48191737 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGA
*
48191802 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * *
48191816 CAAATGCCTTC-GGATCTTAGTCCGGATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTAGTAACTCGCACAAATGCCTTCGGA-CTTAGCCCGG
* * *
48191880 -ATATGGTCACTTAGCA
64 AAT-TAGTAAC-TCGCA
48191896 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48191921 CATCATTCAA
Statistics
Matches: 161, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
78 30 0.19
79 73 0.45
80 57 0.35
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:48191920 original size:40 final size:40
Alignment explanation
Indices: 48191657--48191920 Score: 333
Period size: 40 Copynumber: 6.7 Consensus size: 40
48191647 GCTCCTCGTT
* *
48191657 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
48191697 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
48191737 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
48191777 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* *
48191816 CAAATGCCTTC-GGATCTTAGTCCGGAT-TAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTCGCA
* * * *
48191855 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
48191896 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48191921 CATCATTCAA
Statistics
Matches: 204, Mismatches: 13, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
38 2 0.01
39 71 0.35
40 120 0.59
41 11 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:48193688 original size:39 final size:39
Alignment explanation
Indices: 48193551--48193735 Score: 210
Period size: 40 Copynumber: 4.7 Consensus size: 39
48193541 TCGGATGATA
* * **
48193551 ACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAAT
1 ACCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGTTACT-AT
* * * * *
48193591 TCTGGGCTAAGTCCCGAAGACATTCGTGCGAGCTACTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
* *
48193630 ATCCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTATTAT
1 A-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
*
48193670 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
*
48193709 AACCGAGCTAAGTCCCGAAGGCATTTG
1 -ACCGGGCTAAGTCCCGAAGGCATTTG
48193736 AGCTAGTGGA
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 37 0.30
40 83 0.68
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
Found at i:48193768 original size:79 final size:79
Alignment explanation
Indices: 48193548--48193758 Score: 241
Period size: 79 Copynumber: 2.7 Consensus size: 79
48193538 TGTTCGGATG
* * *
48193548 ATAACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATTCTGGGCTAAGTCCCGAAGA
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGAGCTAGTGGATATA-TC-CGGCTAAGTCCCGAAGG
*
48193611 CATTCGTGCGAGCTACT
63 CATTCGTGCAAGCTACT
* * * * *
48193628 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCGAGT-TAT-TATACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGATATAT-CC-GGCTAAGTCCCGAAGGC
* *
48193691 ATTTGTGCAAGTTACT
64 ATTCGTGCAAGCTACT
*
48193707 ATAACCGAGCTAAGTCCCGAAGGCATTTGAGCTAGTGGATATATCCGGCTAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGATATATCCGGCTAA
48193759 ACTCCGAAGG
Statistics
Matches: 108, Mismatches: 17, Indels: 13
0.78 0.12 0.09
Matches are distributed among these distances:
78 1 0.01
79 69 0.64
80 33 0.31
81 5 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGATATATCCGGCTAAGTCCCGAAGGCAT
TCGTGCAAGCTACT
Found at i:48201466 original size:39 final size:39
Alignment explanation
Indices: 48201331--48201511 Score: 220
Period size: 40 Copynumber: 4.6 Consensus size: 39
48201321 TCGGATGATA
* * * **
48201331 ACCGGACTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAAT
1 ACCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGTTACT-AT
* * * *
48201371 TCCGGGCTAAGTCCCGAAAGCATTCGTGCGAGCTACTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
*
48201410 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
1 A-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
*
48201450 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
48201489 AACCGGGCTAAGTCCCGAAGGCA
1 -ACCGGGCTAAGTCCCGAAGGCA
48201512 ATTGAGATAG
Statistics
Matches: 122, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 38 0.31
40 83 0.68
41 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (39 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
Found at i:48201548 original size:79 final size:80
Alignment explanation
Indices: 48201328--48201538 Score: 259
Period size: 79 Copynumber: 2.7 Consensus size: 80
48201318 TGTTCGGATG
* *
48201328 ATAACCGGACTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATTCCGGGCTAAGTCCCGAAAG
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGAGCTAGTGGCTATA-TCCGGGCTAAGTCCCGAAGG
*
48201391 CATTCGTGCGAGCTACT
64 CATTCGTGCAAGCTACT
* * * ***
48201408 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGGCTAAGTCCCGAAGGCA
* *
48201472 TTTGTGCAAGTTACT
66 TTCGTGCAAGCTACT
* *
48201487 ATAACCGGGCTAAGTCCCGAAGGCAATTGAGATAGTGGCTATATCC-GGCTAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGGCTAA
48201539 ACTCCGAAGG
Statistics
Matches: 109, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 73 0.67
80 33 0.30
81 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGGCTAAGTCCCGAAGGCA
TTCGTGCAAGCTACT
Found at i:48206322 original size:39 final size:39
Alignment explanation
Indices: 48206268--48206509 Score: 367
Period size: 39 Copynumber: 6.2 Consensus size: 39
48206258 GAAATGTGTA
48206268 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* *
48206307 TGGAAATATATCCGGGCCAAAGACCCGCAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
*
48206346 TGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* * * *
48206385 TGGAAATGTATCCGGGCTAAAGTCTCGTAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* *
48206424 TGGAAATATATCCGGGCCAAAGACCCGCAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* * *
48206463 TGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
*
48206502 TGGTAATA
1 TGGAAATA
48206510 AAATTTCGGG
Statistics
Matches: 182, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 182 1.00
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (39 bp):
TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
Found at i:48206474 original size:117 final size:117
Alignment explanation
Indices: 48206268--48206509 Score: 421
Period size: 117 Copynumber: 2.1 Consensus size: 117
48206258 GAAATGTGTA
48206268 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGCTGGAAATATATCCGGGCCAAAGACCC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGCTGGAAATATATCCGGGCCAAAGACCC
48206333 GCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTTGTGC
66 GCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* * * *
48206385 TGGAAATGTATCCGGGCTAAAGTCTCGTAGGCTTTGTGCTGGAAATATATCCGGGCCAAAGACCC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGCTGGAAATATATCCGGGCCAAAGACCC
* *
48206450 GCAGGCTTCGTGCTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTTGTGC
66 GCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTTGTGC
*
48206502 TGGTAATA
1 TGGAAATA
48206510 AAATTTCGGG
Statistics
Matches: 117, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
117 117 1.00
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (117 bp):
TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGCTGGAAATATATCCGGGCCAAAGACCC
GCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTTGTGC
Found at i:48212314 original size:39 final size:39
Alignment explanation
Indices: 48212260--48212535 Score: 418
Period size: 39 Copynumber: 7.2 Consensus size: 39
48212250 GAAATGTGTA
48212260 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* *
48212299 TGGAAATATATCCGGGCCAAAGACCCGCAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
*
48212338 TGGAAATGTATCC-GGCT-AAGACCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* *
48212375 TGGAAATGTAT-C-GGCTAAAGTCCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* *
48212412 TGGAAATATATCCGGGCCAAAGACCCGCAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
*
48212451 TGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* *
48212490 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG-
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
*
48212528 TGGTAATA
1 TGGAAATA
48212536 AAATTTCGGG
Statistics
Matches: 218, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
36 5 0.02
37 59 0.27
38 10 0.05
39 144 0.66
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (39 bp):
TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
Found at i:48212439 original size:113 final size:117
Alignment explanation
Indices: 48212260--48212535 Score: 490
Period size: 113 Copynumber: 2.4 Consensus size: 117
48212250 GAAATGTGTA
* *
48212260 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGCTGGAAATATATCCGGGCCAAAGACCC
1 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGAAATATATCCGGGCCAAAGACCC
48212325 GCAGGCTTCGTGCTGGAAATGTATCC-GGCT-AAGACCCGCAGGCTTTGTGC
66 GCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTTGTGC
48212375 TGGAAATGTAT-C-GGCTAAAGTCCCGCAGGCTTTGTGCTGGAAATATATCCGGGCCAAAGACCC
1 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGAAATATATCCGGGCCAAAGACCC
48212438 GCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTTGTGC
66 GCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTTGTGC
*
48212490 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG-TGGTAATA
1 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGAAATA
48212536 AAATTTCGGG
Statistics
Matches: 154, Mismatches: 3, Indels: 7
0.94 0.02 0.04
Matches are distributed among these distances:
113 76 0.49
114 5 0.03
115 41 0.27
116 8 0.05
117 24 0.16
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (117 bp):
TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGAAATATATCCGGGCCAAAGACCC
GCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTTGTGC
Found at i:48214737 original size:16 final size:16
Alignment explanation
Indices: 48214716--48214746 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48214706 CTATGCATGC
*
48214716 AAAATATAAAAGACAA
1 AAAATACAAAAGACAA
48214732 AAAATACAAAAGACA
1 AAAATACAAAAGACA
48214747 TAGTAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.10, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAA
Found at i:48225111 original size:27 final size:27
Alignment explanation
Indices: 48225072--48225176 Score: 120
Period size: 27 Copynumber: 3.9 Consensus size: 27
48225062 CATAATGCCG
* *
48225072 TGGTCCAGGTTGTTGATCACCATGGCT
1 TGGTACAGATTGTTGATCACCATGGCT
** *
48225099 TGGTACAGATTGTTGATCACTGTGGTT
1 TGGTACAGATTGTTGATCACCATGGCT
** * *
48225126 TGACATAGGTTGTTGATCACCATGGCT
1 TGGTACAGATTGTTGATCACCATGGCT
*
48225153 TAGTACAGATTGTTGATCACCATG
1 TGGTACAGATTGTTGATCACCATG
48225177 AATCGGCAAA
Statistics
Matches: 61, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (27 bp):
TGGTACAGATTGTTGATCACCATGGCT
Found at i:48225192 original size:54 final size:54
Alignment explanation
Indices: 48225080--48225207 Score: 159
Period size: 54 Copynumber: 2.4 Consensus size: 54
48225070 CGTGGTCCAG
* ** ** * * *
48225080 GTTGTTGATCACCATGGCTTGGTACAGATTGTTGATCACTGTGGTTTGACATAG
1 GTTGTTGATCACCATGGCTTAGTACAGATTGTTGATCACCATGAATCGACAAAA
*
48225134 GTTGTTGATCACCATGGCTTAGTACAGATTGTTGATCACCATGAATCGGCAAAA
1 GTTGTTGATCACCATGGCTTAGTACAGATTGTTGATCACCATGAATCGACAAAA
48225188 GTTGTTGA-CGACCATGGCTT
1 GTTGTTGATC-ACCATGGCTT
48225208 GATCTTAAAC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.02
54 63 0.98
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (54 bp):
GTTGTTGATCACCATGGCTTAGTACAGATTGTTGATCACCATGAATCGACAAAA
Found at i:48225321 original size:27 final size:27
Alignment explanation
Indices: 48225291--48225380 Score: 63
Period size: 27 Copynumber: 3.3 Consensus size: 27
48225281 AGTTGGTAAT
* * * *
48225291 ATGGTTTGACATAGGTTGTTGATCATC
1 ATGGCTTGACACAGATTGTTGATCACC
**
48225318 ATGGCTTGGTACAGATTGTTGATCACC
1 ATGGCTTGACACAGATTGTTGATCACC
* * * * * * *
48225345 ATGGATCGGCAAAGGTTGTCGATGACC
1 ATGGCTTGACACAGATTGTTGATCACC
48225372 ATGGCTTGA
1 ATGGCTTGA
48225381 TCTTAAATTA
Statistics
Matches: 47, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (27 bp):
ATGGCTTGACACAGATTGTTGATCACC
Found at i:48225406 original size:171 final size:171
Alignment explanation
Indices: 48225121--48225463 Score: 596
Period size: 171 Copynumber: 2.0 Consensus size: 171
48225111 TTGATCACTG
48225121 TGGTTTGACATAGGTTGTTGATCACCATGGCTTAGTACAGATTGTTGATCACCATGAATCGGCAA
1 TGGTTTGACATAGGTTGTTGATCACCATGGCTTAGTACAGATTGTTGATCACCATGAATCGGCAA
*
48225186 AAGTTGTTGACGACCATGGCTTGATCTTAAACGAGGTCTCTTCCTCCTAGGTAGTTTTGCCACTC
66 AAGTTGTCGACGACCATGGCTTGATCTTAAACGAGGTCTCTTCCTCCTAGGTAGTTTTGCCACTC
*
48225251 GCTCATTGATTTGTACTGGATGGGGATCATAGTTGGTAATA
131 GCTCATTGATTTGTACTGGATGGGAATCATAGTTGGTAATA
* * *
48225292 TGGTTTGACATAGGTTGTTGATCATCATGGCTTGGTACAGATTGTTGATCACCATGGATCGGCAA
1 TGGTTTGACATAGGTTGTTGATCACCATGGCTTAGTACAGATTGTTGATCACCATGAATCGGCAA
* * ** *
48225357 AGGTTGTCGATGACCATGGCTTGATCTTAAATTAGGTCTCTTCCTCCTAGGTTGTTTTGCCACTC
66 AAGTTGTCGACGACCATGGCTTGATCTTAAACGAGGTCTCTTCCTCCTAGGTAGTTTTGCCACTC
48225422 GCTCATTGATTTGTACTGGATGGGAATCATAGTTGGTAATA
131 GCTCATTGATTTGTACTGGATGGGAATCATAGTTGGTAATA
48225463 T
1 T
48225464 AAGCCACAGG
Statistics
Matches: 162, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
171 162 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.35
Consensus pattern (171 bp):
TGGTTTGACATAGGTTGTTGATCACCATGGCTTAGTACAGATTGTTGATCACCATGAATCGGCAA
AAGTTGTCGACGACCATGGCTTGATCTTAAACGAGGTCTCTTCCTCCTAGGTAGTTTTGCCACTC
GCTCATTGATTTGTACTGGATGGGAATCATAGTTGGTAATA
Found at i:48227140 original size:2 final size:2
Alignment explanation
Indices: 48227133--48227168 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
48227123 CAGTGAAGTT
48227133 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
48227169 GAAGAGGTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:48227544 original size:15 final size:16
Alignment explanation
Indices: 48227506--48227546 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
48227496 TAGGACTTTC
*
48227506 TCGAGTTCAAATTTTT
1 TCGAGCTCAAATTTTT
48227522 TC-AGGCTCAAA-TTTT
1 TCGA-GCTCAAATTTTT
48227537 TCGAGCTCAA
1 TCGAGCTCAA
48227547 GCTTTCTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.39
Consensus pattern (16 bp):
TCGAGCTCAAATTTTT
Found at i:48227584 original size:16 final size:16
Alignment explanation
Indices: 48227502--48227592 Score: 69
Period size: 16 Copynumber: 5.8 Consensus size: 16
48227492 GAACTAGGAC
*
48227502 TTTCTCGAGTTCAAAT
1 TTTCTCGAGCTCAAAT
*
48227518 TTTTTC-AGGCTCAAAT
1 TTTCTCGA-GCTCAAAT
**
48227534 TTT-TCGAGCTCAAGC
1 TTTCTCGAGCTCAAAT
* * * *
48227549 TTTCTCAAACTTAAAC
1 TTTCTCGAGCTCAAAT
*
48227565 TTTCTCGGGCTCAAAT
1 TTTCTCGAGCTCAAAT
*
48227581 TTTCTCGGGCTC
1 TTTCTCGAGCTC
48227593 GGGCCCTATT
Statistics
Matches: 59, Mismatches: 13, Indels: 6
0.76 0.17 0.08
Matches are distributed among these distances:
15 12 0.20
16 47 0.80
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (16 bp):
TTTCTCGAGCTCAAAT
Found at i:48231513 original size:37 final size:36
Alignment explanation
Indices: 48231471--48231574 Score: 95
Period size: 37 Copynumber: 2.8 Consensus size: 36
48231461 AAAGATAAAC
48231471 ATTAAATTTAATTTAATATTAAGATAATTATTTTAAT
1 ATTAAATTTAATTTAATATTAAGATAATTA-TTTAAT
** * *
48231508 ATTAAATTAATAAAATACTATTAAGATAAGTATTTAAT
1 ATTAAATT--TAATTTAATATTAAGATAATTATTTAAT
*
48231546 -TT-AATTTAATATTAAACTATTAAAATAAT
1 ATTAAATTTAAT-TT-AA-TATTAAGATAAT
48231575 ATCATTTTTG
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
34 3 0.06
35 1 0.02
36 5 0.09
37 20 0.38
38 6 0.11
39 18 0.34
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (36 bp):
ATTAAATTTAATTTAATATTAAGATAATTATTTAAT
Found at i:48233600 original size:16 final size:16
Alignment explanation
Indices: 48233579--48233614 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
48233569 CTAAGAGCCT
48233579 GAAAATAAGAAGGAAA
1 GAAAATAAGAAGGAAA
*
48233595 GAAAATAAGAATGAAA
1 GAAAATAAGAAGGAAA
48233611 GAAA
1 GAAA
48233615 CTATGTAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.22, T:0.08
Consensus pattern (16 bp):
GAAAATAAGAAGGAAA
Found at i:48234134 original size:11 final size:11
Alignment explanation
Indices: 48234118--48234147 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
48234108 AATAGCTTGA
48234118 TAAATATGTTT
1 TAAATATGTTT
48234129 TAAATATGTTT
1 TAAATATGTTT
48234140 TAAA-ATGT
1 TAAATATGT
48234148 GGAATGGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.21
11 15 0.79
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (11 bp):
TAAATATGTTT
Found at i:48248717 original size:50 final size:50
Alignment explanation
Indices: 48248660--48248759 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
48248650 GACAAATACC
48248660 ATAAAATGGAAAAAACATTTTCATGTAAATGCATATTTGATGTGTTTATA
1 ATAAAATGGAAAAAACATTTTCATGTAAATGCATATTTGATGTGTTTATA
48248710 ATAAAATGGAAAAAACATTTTCATGTAAATGCATATTTGATGTGTTTATA
1 ATAAAATGGAAAAAACATTTTCATGTAAATGCATATTTGATGTGTTTATA
48248760 TATGATATAT
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:0.42, C:0.06, G:0.14, T:0.38
Consensus pattern (50 bp):
ATAAAATGGAAAAAACATTTTCATGTAAATGCATATTTGATGTGTTTATA
Found at i:48255793 original size:18 final size:18
Alignment explanation
Indices: 48255770--48255809 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
48255760 AGAATGGATG
48255770 AAAGAATAAAATTAAAGA
1 AAAGAATAAAATTAAAGA
*
48255788 AAAGAATAAAATTAGAGA
1 AAAGAATAAAATTAAAGA
48255806 AAAG
1 AAAG
48255810 GATTATAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (18 bp):
AAAGAATAAAATTAAAGA
Found at i:48258931 original size:40 final size:40
Alignment explanation
Indices: 48258878--48259058 Score: 266
Period size: 40 Copynumber: 4.6 Consensus size: 40
48258868 ACTACTTGCT
*
48258878 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
48258918 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
48258958 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCG--
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
48258996 C--ATGCCTTCGGGACTTAGCCCGGA-ATAAG-ACACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATAT-AGTA-ACTCGCA
48259034 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
48259059 TTATCATCCG
Statistics
Matches: 130, Mismatches: 5, Indels: 12
0.88 0.03 0.08
Matches are distributed among these distances:
35 3 0.02
36 28 0.22
38 2 0.02
40 97 0.75
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:48259047 original size:76 final size:78
Alignment explanation
Indices: 48258878--48259057 Score: 260
Period size: 76 Copynumber: 2.3 Consensus size: 78
48258868 ACTACTTGCT
**
48258878 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCG-AC-AATGCCTTCGGGACTTAGCCCGG
* *
48258943 ATATAGTAACTCGTA
64 ATATAGTAACTAGCA
48258958 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCG-C-ATGCCTTCGGGACTTAGCCCGGA-
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGACAATGCCTTCGGGACTTAGCCCGGAT
48259020 ATAAG-ACACTAGCA
66 AT-AGTA-ACTAGCA
48259034 CAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
48259058 GTTATCATCC
Statistics
Matches: 94, Mismatches: 4, Indels: 8
0.89 0.04 0.08
Matches are distributed among these distances:
75 3 0.03
76 54 0.57
78 1 0.01
80 36 0.38
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGACAATGCCTTCGGGACTTAGCCCGGAT
ATAGTAACTAGCA
Found at i:48268613 original size:66 final size:66
Alignment explanation
Indices: 48268455--48268613 Score: 189
Period size: 67 Copynumber: 2.4 Consensus size: 66
48268445 CATTATGATG
* * * * * *
48268455 TAGCTAGGTCGCATGGGTGATACT-A-TGTGTACACTATGTAGACAAGAGAGCTACGGGATATAT
1 TAGCTAGGTCGCATGGGTGGTACTAAGTGAGGACACCATGTAGACAAGAGAGCTACGAGATATAA
*
48268518 G
66 C
* * *
48268519 TAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATA-A
1 TAGCTAGGTCGCATGGGTGGTACTAAGTG-AGGACACCATGTAGACAAGAGAGCTACGAGATATA
48268583 AC
65 AC
*
48268585 TAGCTAGGTCACATGGGTGGTACTAAGTG
1 TAGCTAGGTCGCATGGGTGGTACTAAGTG
48268614 TTCACTATGT
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
64 20 0.26
65 1 0.01
66 28 0.36
67 29 0.37
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.23
Consensus pattern (66 bp):
TAGCTAGGTCGCATGGGTGGTACTAAGTGAGGACACCATGTAGACAAGAGAGCTACGAGATATAA
C
Found at i:48273686 original size:20 final size:20
Alignment explanation
Indices: 48273661--48273701 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
48273651 TGAAACCAAT
* *
48273661 TTGATTAAAATCAAATCAAA
1 TTGATTAAAATAAAATAAAA
*
48273681 TTGATTAGAATAAAATAAAA
1 TTGATTAAAATAAAATAAAA
48273701 T
1 T
48273702 CAGGATATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
TTGATTAAAATAAAATAAAA
Found at i:48277050 original size:28 final size:28
Alignment explanation
Indices: 48277012--48277082 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
48277002 ATGGCTTGGC
*
48277012 ACACGCCCGTGTCCTTCACACGGCCATG
1 ACACGCCCGTGTCCTTCACACGGACATG
* *
48277040 ATACGCTCGTGTCCTTCACACGGACATG
1 ACACGCCCGTGTCCTTCACACGGACATG
48277068 ACACGCCCGTGTCCT
1 ACACGCCCGTGTCCT
48277083 AGCTCGTGTG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.18, C:0.39, G:0.21, T:0.21
Consensus pattern (28 bp):
ACACGCCCGTGTCCTTCACACGGACATG
Found at i:48279368 original size:37 final size:37
Alignment explanation
Indices: 48279318--48279396 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
48279308 TTATTACGAA
* *
48279318 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
48279355 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
48279392 GTCTT
1 GTCTT
48279397 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:48279592 original size:47 final size:47
Alignment explanation
Indices: 48279514--48279907 Score: 637
Period size: 47 Copynumber: 8.4 Consensus size: 47
48279504 CCCTTCGGGA
* * * * * * *
48279514 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48279561 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48279608 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48279655 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48279702 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48279749 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48279796 CTTATCACATATATACACTTTCCCATTCATCACATC-GCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48279842 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48279889 CTTATCACATATATACACT
1 CTTATCACATATATACACT
48279908 GTCTTGGCTG
Statistics
Matches: 325, Mismatches: 21, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 44 0.14
47 281 0.86
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:48295215 original size:12 final size:12
Alignment explanation
Indices: 48295198--48295224 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
48295188 ATTCCGAAGT
48295198 ATATATATATAC
1 ATATATATATAC
48295210 ATATATATATAC
1 ATATATATATAC
48295222 ATA
1 ATA
48295225 AGTACCCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:48295618 original size:14 final size:14
Alignment explanation
Indices: 48295599--48295629 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
48295589 GAAAGAAAGA
48295599 AGTGAGATGTATTG
1 AGTGAGATGTATTG
48295613 AGTGAGATGTATTG
1 AGTGAGATGTATTG
48295627 AGT
1 AGT
48295630 TGTTGATCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.35
Consensus pattern (14 bp):
AGTGAGATGTATTG
Found at i:48295754 original size:27 final size:28
Alignment explanation
Indices: 48295683--48295807 Score: 182
Period size: 27 Copynumber: 4.5 Consensus size: 28
48295673 CATGAGATTG
* * * *
48295683 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
48295712 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
48295740 GCACT-AGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
48295767 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
48295794 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
48295808 GACTTAATAT
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
27 51 0.57
28 21 0.23
29 18 0.20
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:48295773 original size:55 final size:56
Alignment explanation
Indices: 48295683--48295807 Score: 182
Period size: 55 Copynumber: 2.2 Consensus size: 56
48295673 CATGAGATTG
* *
48295683 GCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATA
* *
48295740 GCACT-AGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATA
*
48295794 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
48295808 GACTTAATAT
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
54 16 0.25
55 30 0.48
56 12 0.19
57 5 0.08
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (56 bp):
GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATA
Found at i:48295818 original size:27 final size:26
Alignment explanation
Indices: 48295711--48295820 Score: 123
Period size: 27 Copynumber: 4.0 Consensus size: 26
48295701 TAAATTGTAC
*
48295711 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACT-AGTGTGCGA-CTTGATTATAT
*
48295739 AGCACTAGTGTGCGAGTTTGATTATAT
1 AGCACTAGTGTGCGA-CTTGATTATAT
*
48295766 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACT-AGTGTGCGACTTGATTATAT
*
48295793 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACT-AGTGTGC-GACTTGATTATAT
48295820 A
1 A
48295821 CTTTTGAATC
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
27 57 0.75
28 19 0.25
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (26 bp):
AGCACTAGTGTGCGACTTGATTATAT
Found at i:48295819 original size:54 final size:55
Alignment explanation
Indices: 48295711--48295820 Score: 163
Period size: 55 Copynumber: 2.0 Consensus size: 55
48295701 TAAATTGTAC
* *
48295711 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAGTGTGCGAGCTTGAATATAT
48295766 AGCACTAAGTGTGCGAG-TTGATTATATAGCACTGAGTGTGCG-GACTT-AATATAT
1 AGCACTAAGTGTGCGAGTTTGATTATATAGCACT-AGTGTGCGAG-CTTGAATATAT
48295820 A
1 A
48295821 CTTTTGAATC
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
54 24 0.47
55 27 0.53
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAGTGTGCGAGCTTGAATATAT
Found at i:48303654 original size:12 final size:12
Alignment explanation
Indices: 48303637--48303663 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
48303627 ATTCCGAAGT
48303637 ATATATATATAC
1 ATATATATATAC
48303649 ATATATATATAC
1 ATATATATATAC
48303661 ATA
1 ATA
48303664 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:48304194 original size:27 final size:28
Alignment explanation
Indices: 48304110--48304207 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
48304100 CATGAGATTG
* * * *
48304110 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
48304139 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
48304167 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
48304194 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
48304208 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:48304218 original size:27 final size:27
Alignment explanation
Indices: 48304138--48304220 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
48304128 TAAATTGTAC
* *
48304138 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
48304166 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
48304193 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
48304220 A
1 A
48304221 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:48320939 original size:55 final size:54
Alignment explanation
Indices: 48320798--48320941 Score: 153
Period size: 55 Copynumber: 2.6 Consensus size: 54
48320788 ATTAGGGTTT
* * * * * *
48320798 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGC
1 AAGGAAACCATGTAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGA
* * * *
48320852 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGA
1 AAGGAAACCATGTAAGACCATGCCAAGGCATGGCATTGAT-AACTACTACAAGGA
* ** *
48320907 AATGATCCCATGTAAGACTATGCCAAGGCATGGCA
1 AAGGAAACCATGTAAGACCATGCCAAGGCATGGCA
48320942 ATGGTGAGTT
Statistics
Matches: 72, Mismatches: 17, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
54 34 0.47
55 38 0.53
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (54 bp):
AAGGAAACCATGTAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGA
Found at i:48320971 original size:53 final size:54
Alignment explanation
Indices: 48320801--48321004 Score: 221
Period size: 53 Copynumber: 3.8 Consensus size: 54
48320791 AGGGTTTAAG
* * * * *
48320801 GATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGCAAT
* * * * * * * *
48320855 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGAAAT
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCTATAAGGCAAT
* * * *
48320910 GATCCCATGTAAGACTATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGCAAT
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGCAAT
* *
48320963 GATACCATGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
48321005 TAAAAGGGAA
Statistics
Matches: 120, Mismatches: 29, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 45 0.38
54 34 0.28
55 41 0.34
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (54 bp):
GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGCAAT
Found at i:48324476 original size:27 final size:26
Alignment explanation
Indices: 48324428--48324479 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
48324418 GCGAGGTTGC
*
48324428 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
48324454 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
48324480 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:48325151 original size:27 final size:27
Alignment explanation
Indices: 48325121--48325235 Score: 97
Period size: 27 Copynumber: 4.3 Consensus size: 27
48325111 GGGGCAAAAT
*
48325121 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATCTC
* * *
48325148 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATCTC
* *
48325175 GAT-ATTTCTACCTTACAAGGGTATCTC
1 GGTAATTT-TACCCTACAAGGGTATCTC
** * * * *
48325202 AATAATTCTACCTTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATCTC
*
48325229 GATAATT
1 GGTAATT
48325236 CTACAACTTA
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
26 3 0.04
27 66 0.92
28 3 0.04
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATCTC
Found at i:48325199 original size:54 final size:54
Alignment explanation
Indices: 48325135--48325239 Score: 174
Period size: 54 Copynumber: 1.9 Consensus size: 54
48325125 ATTTTACCCC
** *
48325135 ACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCTT
1 ACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCGATAATTCTACCTT
*
48325189 ACAAGGGTATCTCAATAATTCTACCTTACAGGGGTATTTCGATAATTCTAC
1 ACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCGATAATTCTAC
48325240 AACTTATCCA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (54 bp):
ACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCGATAATTCTACCTT
Found at i:48325236 original size:27 final size:27
Alignment explanation
Indices: 48325139--48325239 Score: 139
Period size: 27 Copynumber: 3.7 Consensus size: 27
48325129 TACCCCACAA
* *
48325139 GGGTATCTCGGTAATTCTACCCTACAG
1 GGGTATCTCGATAATTCTACCTTACAG
* * *
48325166 GGGTATTTCGATATTTCTACCTTACAA
1 GGGTATCTCGATAATTCTACCTTACAG
*
48325193 GGGTATCTCAATAATTCTACCTTACAG
1 GGGTATCTCGATAATTCTACCTTACAG
*
48325220 GGGTATTTCGATAATTCTAC
1 GGGTATCTCGATAATTCTAC
48325240 AACTTATCCA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GGGTATCTCGATAATTCTACCTTACAG
Found at i:48327248 original size:27 final size:27
Alignment explanation
Indices: 48327046--48327240 Score: 282
Period size: 27 Copynumber: 7.2 Consensus size: 27
48327036 TGGTTTGTAA
*
48327046 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
48327073 AATTACTAAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
48327100 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
48327127 AATTATTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
48327154 AATTACCGAAATCCCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
48327181 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
48327208 AAATACTGAAATACCCCTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
48327235 AATTAC
1 AATTAC
48327241 CGAGATACAT
Statistics
Matches: 148, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 148 1.00
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:48331715 original size:58 final size:58
Alignment explanation
Indices: 48331595--48331737 Score: 146
Period size: 58 Copynumber: 2.5 Consensus size: 58
48331585 ATTGTATAAT
* ** * *
48331595 AGGATTACTAGTCCAGGCTAAATCCTTAATCATAATGTAAGCTCAAAGGAGCTCCATT
1 AGGATTACCAGTCCAGGCTAAATCCTTAATCATAACATAAGCTCAAAGGAGCTACATC
* * *
48331653 AGGATTACCAGTCCAGGCTAAATCC-TAATCATAACATATGCTCAAGAGGTA-TTATATC
1 AGGATTACCAGTCCAGGCTAAATCCTTAATCATAACATAAGCTCAA-AGG-AGCTACATC
* ** *
48331711 AGGATTACCCGTCTGGGATAAATCCTT
1 AGGATTACCAGTCCAGGCTAAATCCTT
48331738 TCTATAACAA
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
57 17 0.24
58 51 0.73
59 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (58 bp):
AGGATTACCAGTCCAGGCTAAATCCTTAATCATAACATAAGCTCAAAGGAGCTACATC
Found at i:48337540 original size:46 final size:46
Alignment explanation
Indices: 48337490--48337665 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
48337480 TGGTTGAGCA
48337490 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
48337536 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
48337581 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
48337629 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48337666 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:48337646 original size:93 final size:93
Alignment explanation
Indices: 48337487--48337658 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
48337477 GGATGGTTGA
* *
48337487 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
48337552 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
48337580 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
48337645 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
48337659 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:48345092 original size:46 final size:46
Alignment explanation
Indices: 48345042--48345217 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
48345032 TGGTTGAGCA
48345042 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
48345088 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
48345133 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
48345181 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48345218 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:48345198 original size:93 final size:93
Alignment explanation
Indices: 48345039--48345210 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
48345029 GGATGGTTGA
* *
48345039 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
48345104 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
48345132 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
48345197 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
48345211 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:48351078 original size:27 final size:27
Alignment explanation
Indices: 48351046--48351099 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
48351036 AGAAAACAAG
48351046 AAAATTTAAACAAAATGAACGAGATTT
1 AAAATTTAAACAAAATGAACGAGATTT
*
48351073 AAAATTTAAACAAAATGAATGAGATTT
1 AAAATTTAAACAAAATGAACGAGATTT
48351100 GATCCCGTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.56, C:0.06, G:0.11, T:0.28
Consensus pattern (27 bp):
AAAATTTAAACAAAATGAACGAGATTT
Found at i:48354819 original size:34 final size:34
Alignment explanation
Indices: 48354740--48354828 Score: 83
Period size: 34 Copynumber: 2.6 Consensus size: 34
48354730 CTGATACTAT
* * * **
48354740 ACTGAAATGGGCTAAGGCCCACACTAATTCTGTT
1 ACTGATATGGGCTAAGACCCACACTAATACTGCG
* *
48354774 ACTG-TATTGGGCTAAGATCCACACTGATACTGCG
1 ACTGATA-TGGGCTAAGACCCACACTAATACTGCG
48354808 ACTGATATGGGCTTAAG-CCCA
1 ACTGATATGGGC-TAAGACCCA
48354829 GACTGTTCAA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
33 1 0.02
34 37 0.84
35 6 0.14
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (34 bp):
ACTGATATGGGCTAAGACCCACACTAATACTGCG
Found at i:48356978 original size:27 final size:27
Alignment explanation
Indices: 48356948--48357384 Score: 515
Period size: 27 Copynumber: 16.2 Consensus size: 27
48356938 AAAGTACTCC
* *
48356948 CGATTTATAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
48356975 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
48357002 CGATTTTTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
48357029 CGATTTACAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
48357056 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
48357083 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
48357110 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
48357137 CAATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
48357164 CGATTTGTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
48357191 TGATTTACAGAATTACAGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
48357218 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
48357245 TGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
48357272 CGATTTGTAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
48357299 TGATTTACAGAATTACTAG-TTTACCCT
1 CGATTTACAGAATTAC-CGTTTTACCCT
* *
48357326 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
48357353 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
48357380 TGATT
1 CGATT
48357385 GTGAAATTAC
Statistics
Matches: 353, Mismatches: 47, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
26 5 0.01
27 343 0.97
28 5 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:48357093 original size:108 final size:108
Alignment explanation
Indices: 48356948--48357394 Score: 571
Period size: 108 Copynumber: 4.1 Consensus size: 108
48356938 AAAGTACTCC
* * * * *
48356948 CGATTTATAGAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC-GATTTTTAA
1 CGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTACAGTTTTACCCTCAG-TTTATAA
* *
48357012 AATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCT
65 AATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
* *
48357056 C-AGTT-TACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTATA
1 CGATTTGTA-A-AATTACCGTTTTACCCTCGATTTACAGAATTACAGTTTTACCCTCAGTTTATA
* * * *
48357119 GAATTACTATTTTACCCTCAATTTATAGAATTACCGTTTTACCCT
64 AAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
* * * *
48357164 CGATTTGTAAAATTACCATTTTACCCTTGATTTACAGAATTACAGTTTTACCCTCAGTTTACAGA
1 CGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTACAGTTTTACCCTCAGTTTATAAA
** * *
48357229 ATTACTGTTTTACCCTTGATTTATAGAATTACCGTTTTACCCT
66 ATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
* * *
48357272 CGATTTGTAAAATTATCGTTTTACCCTTGATTTACAGAATTACTAG-TTTACCCTCAGTTTACAA
1 CGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTAC-AGTTTTACCCTCAGTTTATAA
* *
48357336 AATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
65 AATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
* *
48357380 TGA-TTGTGAAATTAC
1 CGATTTGTAAAATTAC
48357395 TGAAATACCC
Statistics
Matches: 305, Mismatches: 28, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
106 2 0.01
107 13 0.04
108 281 0.92
109 7 0.02
110 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (108 bp):
CGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTACAGTTTTACCCTCAGTTTATAAA
ATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
Found at i:48357419 original size:27 final size:27
Alignment explanation
Indices: 48357389--48357584 Score: 221
Period size: 27 Copynumber: 7.3 Consensus size: 27
48357379 TTGATTGTGA
* *
48357389 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
48357416 AATTTCCGAAATACCCCTATAGGGTGG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
48357443 AATTACTGAAATATCCTTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
48357470 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
48357497 AATTATCGAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
48357524 AAATACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
48357551 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
48357578 AATTACC
1 AATTACC
48357585 ATTCTGCCCC
Statistics
Matches: 140, Mismatches: 29, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 140 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:48357844 original size:27 final size:28
Alignment explanation
Indices: 48357784--48357864 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 28
48357774 GAAGGAAGCG
*
48357784 TTCTGGTGGCTATGCCACAAATATC--TA
1 TTCTGGTGGCTCTGCCAC-AATATCTGTA
48357811 TTCTGGTGGCTCTGCCACAATATCTGTA
1 TTCTGGTGGCTCTGCCACAATATCTGTA
* * *
48357839 TT-TGGTGACTCTGTCACTATATCTGT
1 TTCTGGTGGCTCTGCCACAATATCTGT
48357865 TGACCGATCG
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
26 6 0.12
27 38 0.79
28 4 0.08
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAATATCTGTA
Found at i:48358198 original size:27 final size:27
Alignment explanation
Indices: 48358176--48358249 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
48358166 TAGGTGGGTT
*
48358176 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
48358203 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
48358230 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
48358250 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:48358384 original size:6 final size:6
Alignment explanation
Indices: 48358367--48358595 Score: 204
Period size: 6 Copynumber: 37.8 Consensus size: 6
48358357 TTGCATTCAC
* * * *
48358367 ATTCTA ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG ATTTTG
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
48358415 ATTCTG -TTACTG ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG
* * * *
48358464 ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
48358513 ATTCTG ATTCTG ATTCTG ATTCAG -TTACTA ATAT-TG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG
48358561 ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
48358596 CATTTTGGTT
Statistics
Matches: 182, Mismatches: 23, Indels: 36
0.76 0.10 0.15
Matches are distributed among these distances:
5 13 0.07
6 155 0.85
7 11 0.06
8 3 0.02
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:48358472 original size:61 final size:61
Alignment explanation
Indices: 48358367--48358602 Score: 273
Period size: 61 Copynumber: 3.8 Consensus size: 61
48358357 TTGCATTCAC
* * *
48358367 ATTCTAATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTTTGATT-CTGTTACTG
1 ATTCTGATTCTGATTCTGTCACTAATTCTGATTCTGATTCTGATTTTGATTACTGTTACTG
* **
48358427 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTG-TTACTAATACTG
1 ATTCTGATTCTGATTCTGTCAC-TAATTCTGATTCTGATTCTGATTTTGATTACTGTTACTG
*
48358488 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCAGTT-ACTAATATTGATT
1 ATTCTGATTCTGATTCTGTCA-CTAATTCTGATTCTGATTCTGATT---TTGA-T--TACTG-TT
48358552 -CTG
58 ACTG
* * *
48358555 ATTCTGATTCTGATTCTGTTACTGATTCTGATTCTGATTCTCATTTTG
1 ATTCTGATTCTGATTCTGTCACTAATTCTGATTCTGATTCTGATTTTG
48358603 GTTCCAATTC
Statistics
Matches: 151, Mismatches: 13, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
60 22 0.15
61 75 0.50
62 1 0.01
63 2 0.01
64 1 0.01
65 1 0.01
66 22 0.15
67 26 0.17
68 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (61 bp):
ATTCTGATTCTGATTCTGTCACTAATTCTGATTCTGATTCTGATTTTGATTACTGTTACTG
Found at i:48365589 original size:6 final size:6
Alignment explanation
Indices: 48365578--48365602 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
48365568 GGAGGAAGTG
48365578 TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT T
48365603 GAGACCAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:48365812 original size:34 final size:33
Alignment explanation
Indices: 48365739--48365813 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 33
48365729 CTGTACTAAA
* **
48365739 ATGGGCTAAGGCCCACACTGATTCTGTTACTGT
1 ATGGGCTAAGGCCCACACTGATACTGCGACTGT
*
48365772 ATTGGGCTAAGGCCCACACTGATACTGCGATTGAT
1 A-TGGGCTAAGGCCCACACTGATACTGCGACTG-T
48365807 ATGGGCT
1 ATGGGCT
48365814 TAAGCCTAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 1 0.03
34 33 0.92
35 2 0.06
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.28
Consensus pattern (33 bp):
ATGGGCTAAGGCCCACACTGATACTGCGACTGT
Found at i:48367019 original size:31 final size:31
Alignment explanation
Indices: 48366972--48367034 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
48366962 CGCATTGCCT
*
48366972 TAGTTCCTTGGCTAGATTGGCTAGGCAATCA
1 TAGTACCTTGGCTAGATTGGCTAGGCAATCA
*
48367003 TAGTACCTTGGTTAGATTGGCTAGGCAATCA
1 TAGTACCTTGGCTAGATTGGCTAGGCAATCA
48367034 T
1 T
48367035 CATATGTATC
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:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (31 bp):
TAGTACCTTGGCTAGATTGGCTAGGCAATCA
Done.