Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 137 of 276
Found at i:44515529 original size:14 final size:14
Alignment explanation
Indices: 44515510--44515540 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
44515500 ACTAACATTA
44515510 AAACCAAACTAACC
1 AAACCAAACTAACC
*
44515524 AAACCAAATTAACC
1 AAACCAAACTAACC
44515538 AAA
1 AAA
44515541 TTGCATAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.29, G:0.00, T:0.10
Consensus pattern (14 bp):
AAACCAAACTAACC
Found at i:44517165 original size:37 final size:37
Alignment explanation
Indices: 44517113--44517189 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
44517103 GTCCGAAAGT
*
44517113 TAAAATGATGAAAAAGGTTTCACATAGCAAGGAGACA
1 TAAAATGATGAAAAAGGTTTCACATAGCAAGGAAACA
*
44517150 TAAAATGATGGAAAAGGTTTCACATAGCAAGGAAACA
1 TAAAATGATGAAAAAGGTTTCACATAGCAAGGAAACA
44517187 TAA
1 TAA
44517190 CCAGTGAAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.49, C:0.10, G:0.21, T:0.19
Consensus pattern (37 bp):
TAAAATGATGAAAAAGGTTTCACATAGCAAGGAAACA
Found at i:44520637 original size:12 final size:12
Alignment explanation
Indices: 44520622--44520666 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
44520612 TCCTCCAGCT
44520622 CCTCCACCTCCC
1 CCTCCACCTCCC
* *
44520634 CCTCCTCCTCCT
1 CCTCCACCTCCC
* *
44520646 CCTCCCCCTTCC
1 CCTCCACCTCCC
44520658 CCTCCACCT
1 CCTCCACCT
44520667 GTGCCGCCAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.04, C:0.71, G:0.00, T:0.24
Consensus pattern (12 bp):
CCTCCACCTCCC
Found at i:44520638 original size:24 final size:24
Alignment explanation
Indices: 44520606--44520662 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
44520596 GCGACATACT
*
44520606 TCCCCCTCCTCCAGCTCCTCCACC
1 TCCCCCTCCTCCACCTCCTCCACC
* *
44520630 TCCCCCTCCTCCTCCTCCTCCCCC
1 TCCCCCTCCTCCACCTCCTCCACC
*
44520654 TTCCCCTCC
1 TCCCCCTCC
44520663 ACCTGTGCCG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.04, C:0.70, G:0.02, T:0.25
Consensus pattern (24 bp):
TCCCCCTCCTCCACCTCCTCCACC
Found at i:44520641 original size:18 final size:19
Alignment explanation
Indices: 44520620--44520666 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
44520610 CCTCCTCCAG
44520620 CTCCTCCACCTCCCCC-TC
1 CTCCTCCACCTCCCCCTTC
*
44520638 CTCCTCCTCCTCCCCCTTC
1 CTCCTCCACCTCCCCCTTC
44520657 C-CCTCCACCT
1 CTCCTCCACCT
44520667 GTGCCGCCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 23 0.88
19 3 0.12
ACGTcount: A:0.04, C:0.70, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCCTCCACCTCCCCCTTC
Found at i:44523291 original size:20 final size:21
Alignment explanation
Indices: 44523254--44523297 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
44523244 CTTCTAGAGG
* * *
44523254 TTATTGGATTTGTTGTTTT-T
1 TTATTCGATTTATCGTTTTAT
44523274 TTATTCGATTTATCGTTTTAT
1 TTATTCGATTTATCGTTTTAT
44523295 TTA
1 TTA
44523298 CATTGAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.16, C:0.05, G:0.14, T:0.66
Consensus pattern (21 bp):
TTATTCGATTTATCGTTTTAT
Found at i:44526989 original size:12 final size:12
Alignment explanation
Indices: 44526948--44526989 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
44526938 GGACACATTA
44526948 CCGTGT-CTCAGC
1 CCGTGTCCTCA-C
*
44526960 CCGTGCCCTCAC
1 CCGTGTCCTCAC
*
44526972 CCGTGTCCTCAT
1 CCGTGTCCTCAC
44526984 CCGTGT
1 CCGTGT
44526990 AACTCTGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 22 0.85
13 4 0.15
ACGTcount: A:0.07, C:0.45, G:0.21, T:0.26
Consensus pattern (12 bp):
CCGTGTCCTCAC
Found at i:44534636 original size:12 final size:12
Alignment explanation
Indices: 44534619--44534651 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
44534609 CGACCCGCCC
44534619 ATATTAATTTTT
1 ATATTAATTTTT
44534631 ATATT-ATTTTT
1 ATATTAATTTTT
44534642 ATA-TAATTTT
1 ATATTAATTTT
44534652 AAAAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:44534676 original size:18 final size:18
Alignment explanation
Indices: 44534653--44534692 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
44534643 TATAATTTTA
*
44534653 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
44534671 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
44534689 AAAA
1 AAAA
44534693 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:44537136 original size:18 final size:18
Alignment explanation
Indices: 44537113--44537158 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
44537103 TTCCCGAAAA
* *
44537113 ATTTTATATCCTTCTGGG
1 ATTTTATATCATTCAGGG
*
44537131 ATTTTAAATCATTCAGGG
1 ATTTTATATCATTCAGGG
44537149 ATTTTCATAT
1 ATTTT-ATAT
44537159 AAATTTCACT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (18 bp):
ATTTTATATCATTCAGGG
Found at i:44539421 original size:72 final size:72
Alignment explanation
Indices: 44539335--44539478 Score: 279
Period size: 72 Copynumber: 2.0 Consensus size: 72
44539325 AATTACAATT
44539335 CTTTGTAATTACAAGAGTATAGTTACTACCCTAGTAATTACACAATCATTTAATTACTACGTGCT
1 CTTTGTAATTACAAGAGTATAGTTACTACCCTAGTAATTACACAATCATTTAATTACTACGTGCT
44539400 GTCCAAA
66 GTCCAAA
*
44539407 CTTTGTAATTACAAGAGTATAGTTACTACCCTAGTAATTACACATTCATTTAATTACTACGTGCT
1 CTTTGTAATTACAAGAGTATAGTTACTACCCTAGTAATTACACAATCATTTAATTACTACGTGCT
44539472 GTCCAAA
66 GTCCAAA
44539479 TAGACTTTTG
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.35
Consensus pattern (72 bp):
CTTTGTAATTACAAGAGTATAGTTACTACCCTAGTAATTACACAATCATTTAATTACTACGTGCT
GTCCAAA
Found at i:44539831 original size:30 final size:29
Alignment explanation
Indices: 44539773--44539861 Score: 88
Period size: 30 Copynumber: 3.0 Consensus size: 29
44539763 TGAGAATCCT
* *
44539773 TTATTTAAGCACTTTCGAAAATGTTTGACCC
1 TTATTTAAGCA-TTT-TAAAAGGTTTGACCC
*
44539804 TTATTTAAGCATTTTAAAAAGGTTTGACTC
1 TTATTTAAGCATTTT-AAAAGGTTTGACCC
* * * *
44539834 ATATTTAACCATTTTGAAGGGTTTGACC
1 TTATTTAAGCATTTTAAAAGGTTTGACC
44539862 TTCATTTGAG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
29 10 0.20
30 28 0.57
31 11 0.22
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (29 bp):
TTATTTAAGCATTTTAAAAGGTTTGACCC
Found at i:44553631 original size:13 final size:14
Alignment explanation
Indices: 44553603--44553634 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
44553593 AGGAATAATT
44553603 AAAGAATAATATAA
1 AAAGAATAATATAA
44553617 AAAGAATAA-ATAA
1 AAAGAATAATATAA
44553630 AAAGA
1 AAAGA
44553635 GATGGACGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (14 bp):
AAAGAATAATATAA
Found at i:44560160 original size:33 final size:32
Alignment explanation
Indices: 44560122--44560189 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
44560112 GTTTTAAAAA
44560122 TTTTAATATAATTTAATATAAAAATAATTAATC
1 TTTTAATATAATTTAATATAAAAAT-ATTAATC
* *
44560155 TTTTAATGTAATTTAATATAAAAATATTATTC
1 TTTTAATATAATTTAATATAAAAATATTAATC
44560187 TTT
1 TTT
44560190 ATATATTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 9 0.27
33 24 0.73
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (32 bp):
TTTTAATATAATTTAATATAAAAATATTAATC
Found at i:44563537 original size:46 final size:45
Alignment explanation
Indices: 44563487--44563662 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
44563477 TGGTTGAGCA
44563487 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
44563533 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * *
44563580 TCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*
44563626 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44563663 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 65 0.60
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:44563643 original size:93 final size:93
Alignment explanation
Indices: 44563484--44563654 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
44563474 GGATGGTTGA
* * *
44563484 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCGAACGTCCGAACTCGTTGAGT
44563549 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
44563577 GCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCGAACGTCC-GAACTCGTTGAG
44563641 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
44563655 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:44568178 original size:50 final size:50
Alignment explanation
Indices: 44568086--44568180 Score: 127
Period size: 50 Copynumber: 1.9 Consensus size: 50
44568076 GACTGAATAG
* * * *
44568086 TTTATTTTTATTTTTTAGCTTCAAAACAATCCAACCATATAAACTTATTC
1 TTTATTTTCATTTTTGAGCTTCAAAACAATCCAACAACATAAACTTATTC
* * *
44568136 TTTATTTTCATTTTTGGGCTTCAAAACAGTCCAATAACATAAACT
1 TTTATTTTCATTTTTGAGCTTCAAAACAATCCAACAACATAAACT
44568181 CATTATTCCG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 38 1.00
ACGTcount: A:0.34, C:0.18, G:0.05, T:0.43
Consensus pattern (50 bp):
TTTATTTTCATTTTTGAGCTTCAAAACAATCCAACAACATAAACTTATTC
Found at i:44568926 original size:23 final size:25
Alignment explanation
Indices: 44568900--44568946 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
44568890 TATCATTCAT
*
44568900 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
44568923 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
44568947 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:44569267 original size:46 final size:46
Alignment explanation
Indices: 44569207--44570251 Score: 1784
Period size: 46 Copynumber: 22.9 Consensus size: 46
44569197 TTTGACGTGA
* * * * * * *
44569207 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATAGTCTTACACA-TTTCATATCAGGT
* ** * * *
44569253 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
* *
44569299 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
* *
44569345 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
* *****
44569391 TGCCATGGTATCTTTCAACCATGGTCTTACACACAGGTTATCAGGT
1 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
44569437 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
44569483 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
44569529 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
44569575 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
44569621 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
44569667 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
44569713 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
44569759 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
44569805 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
44569851 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
44569897 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
44569943 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
44569989 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
44570035 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
44570081 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
44570127 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
*
44570173 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
* *
44570211 TGCCATGGTATCTTTCAACCATGGTCTTAAACATTTCATAT
1 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATAT
44570252 TAGAGAGCAC
Statistics
Matches: 964, Mismatches: 26, Indels: 18
0.96 0.03 0.02
Matches are distributed among these distances:
38 33 0.03
39 1 0.00
40 3 0.00
41 1 0.00
43 1 0.00
44 3 0.00
45 5 0.01
46 917 0.95
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
Found at i:44574678 original size:17 final size:17
Alignment explanation
Indices: 44574656--44574709 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
44574646 ACAAATGGTC
44574656 GTGTCACTAGGCCGTGT
1 GTGTCACTAGGCCGTGT
44574673 GTGTCAC-A---CG-GT
1 GTGTCACTAGGCCGTGT
44574685 CGTGTCACTAGGCCGTGT
1 -GTGTCACTAGGCCGTGT
44574703 GTGTCAC
1 GTGTCAC
44574710 ACGGTCGTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
12 2 0.06
13 9 0.29
14 1 0.03
16 1 0.03
17 16 0.52
18 2 0.06
ACGTcount: A:0.13, C:0.26, G:0.33, T:0.28
Consensus pattern (17 bp):
GTGTCACTAGGCCGTGT
Found at i:44574686 original size:30 final size:30
Alignment explanation
Indices: 44574652--44574719 Score: 136
Period size: 30 Copynumber: 2.3 Consensus size: 30
44574642 AATGACAAAT
44574652 GGTCGTGTCACTAGGCCGTGTGTGTCACAC
1 GGTCGTGTCACTAGGCCGTGTGTGTCACAC
44574682 GGTCGTGTCACTAGGCCGTGTGTGTCACAC
1 GGTCGTGTCACTAGGCCGTGTGTGTCACAC
44574712 GGTCGTGT
1 GGTCGTGT
44574720 GATAGCCCGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.12, C:0.25, G:0.35, T:0.28
Consensus pattern (30 bp):
GGTCGTGTCACTAGGCCGTGTGTGTCACAC
Found at i:44574718 original size:17 final size:17
Alignment explanation
Indices: 44574668--44574720 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
44574658 GTCACTAGGC
44574668 CGTGTGTGTCACACGGT
1 CGTGTGTGTCACACGGT
*
44574685 C----GTGTCACTA-GGC
1 CGTGTGTGTCAC-ACGGT
44574698 CGTGTGTGTCACACGGT
1 CGTGTGTGTCACACGGT
44574715 CGTGTG
1 CGTGTG
44574721 ATAGCCCGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
13 10 0.36
14 1 0.04
16 1 0.04
17 16 0.57
ACGTcount: A:0.11, C:0.25, G:0.36, T:0.28
Consensus pattern (17 bp):
CGTGTGTGTCACACGGT
Found at i:44586408 original size:12 final size:12
Alignment explanation
Indices: 44586393--44586428 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
44586383 TAGAAATGAT
44586393 AAAAGAACCTTA
1 AAAAGAACCTTA
*
44586405 AAAACAACTCTTA
1 AAAAGAAC-CTTA
44586418 AAAAGAACCTT
1 AAAAGAACCTT
44586429 CTACGAGCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.56, C:0.19, G:0.06, T:0.19
Consensus pattern (12 bp):
AAAAGAACCTTA
Found at i:44600706 original size:30 final size:30
Alignment explanation
Indices: 44600672--44600944 Score: 196
Period size: 30 Copynumber: 9.1 Consensus size: 30
44600662 TGACTAATGG
* *
44600672 AAAGGGATAGCTTCGATTATTGAATTATGA
1 AAAGGGATAGCTTCGACTATCGAATTATGA
** * *
44600702 AAAGGGATAG-TTTTAGGTATCGAATTATAA
1 AAAGGGATAGCTTCGA-CTATCGAATTATGA
* ** * *
44600732 AAATGGATAGCGACAACCATCGAATTATGA
1 AAAGGGATAGCTTCGACTATCGAATTATGA
* * *
44600762 AAAGGGATGGCTTCGGCTATCAAATTATGA
1 AAAGGGATAGCTTCGACTATCGAATTATGA
** **
44600792 AAATTGACGGCTTC-AGCTATCGAATTATGA
1 AAAGGGATAGCTTCGA-CTATCGAATTATGA
* *
44600822 AAAGGGATAGCTTCGGCTATCAAATTATGA
1 AAAGGGATAGCTTCGACTATCGAATTATGA
* * * * * *
44600852 AAAGGGAT-GGTGACGACCATTGAATTTTTA
1 AAAGGGATAGCT-TCGACTATCGAATTATGA
* *
44600882 AAAGGGATGGCTTCGACTATC-AAGATATGGA
1 AAAGGGATAGCTTCGACTATCGAA-TTAT-GA
* *
44600913 AAAGGG-TAGCTTCAACTATCGAACTATGA
1 AAAGGGATAGCTTCGACTATCGAATTATGA
44600942 AAA
1 AAA
44600945 AGGGTGGCAA
Statistics
Matches: 184, Mismatches: 50, Indels: 19
0.73 0.20 0.08
Matches are distributed among these distances:
29 12 0.07
30 160 0.87
31 12 0.07
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.27
Consensus pattern (30 bp):
AAAGGGATAGCTTCGACTATCGAATTATGA
Found at i:44600769 original size:60 final size:60
Alignment explanation
Indices: 44600693--44600904 Score: 228
Period size: 60 Copynumber: 3.5 Consensus size: 60
44600683 TTCGATTATT
* * * * *
44600693 GAATTATGAAAAGGGATAGTTTTAGG-TATCGAATTATAAAAATGGATAGCGACAACCATC
1 GAATTATGAAAAGGGATAG-CTTCGGCTATCAAATTATGAAAATGGATGGCGACAACCATC
* * * ** * *
44600753 GAATTATGAAAAGGGATGGCTTCGGCTATCAAATTATGAAAATTGACGGCTTCAGCTATC
1 GAATTATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAATGGATGGCGACAACCATC
* * * *
44600813 GAATTATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATT
1 GAATTATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAATGGATGGCGACAACCATC
* * * *
44600873 GAATTTTTAAAAGGGATGGCTTCGACTATCAA
1 GAATTATGAAAAGGGATAGCTTCGGCTATCAA
44600905 GATATGGAAA
Statistics
Matches: 124, Mismatches: 27, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
59 4 0.03
60 120 0.97
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (60 bp):
GAATTATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAATGGATGGCGACAACCATC
Found at i:44614380 original size:206 final size:206
Alignment explanation
Indices: 44614000--44614775 Score: 1248
Period size: 206 Copynumber: 3.8 Consensus size: 206
44613990 AAATTTGCTT
*
44614000 CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* * * * *
44614065 GCGAAAACCAAATCAACTATGTCTTCGATTTGGTCCTTGTAAGCACAAGGATACCAAACCATCTC
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTT
* * * * *
44614130 GGATCTGCTTCAGTCTAATCATCTAAAGGTTAGATCTACTATGTGTCTGCCCTCCTTCGAATATG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCTTCGAATATG
44614195 GAGACGCCAAA
196 GAGACGCCAAA
44614206 CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
*
44614271 GGGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTT
* * *
44614336 GGATCTGCTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTTTTCCCTCCGTCGAATATG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCTTCGAATATG
44614401 GAGACGCCAAA
196 GAGACGCCAAA
* *
44614412 CTTCGATTTTTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
*
44614477 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTT
* *
44614542 GGATCTACTTCAGTACAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCT-CTGTCGAATAT
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCT-TCGAATAT
*
44614606 GGAGATGCCAAA
195 GGAGACGCCAAA
* ** * *
44614618 CTTCGATTTGTTCTCTGACAATACAGAGATGCTGAATCATCTTAGGTTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* * * * *
44614683 GTGAAAGCCAAATCATCTATGCCTTTGATTTGTTCCTTGTAAGCCCAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTT
*
44614748 GAATCTGCTTCAGTATAAACATCTGAAG
131 GGATCTGCTTCAGTATAAACATCTGAAG
44614776 CCCAGATCTG
Statistics
Matches: 533, Mismatches: 36, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
205 1 0.00
206 532 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCTTCGAATATG
GAGACGCCAAA
Found at i:44617189 original size:42 final size:42
Alignment explanation
Indices: 44617142--44617233 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
44617132 TGGCCCATAG
* ** *
44617142 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
* *
44617184 GCCCATTTCAATATTATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
44617226 GCCCATTT
1 GCCCATTT
44617234 GGAGAGACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:44617456 original size:26 final size:26
Alignment explanation
Indices: 44617366--44617500 Score: 190
Period size: 26 Copynumber: 5.3 Consensus size: 26
44617356 CTGGAGGCCT
44617366 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
44617390 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
44617415 AGCCC-TTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
44617440 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
44617466 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
44617492 AGCCCTTTT
1 AGCCCTTTT
44617501 GCACTTCCTC
Statistics
Matches: 99, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
23 5 0.05
24 21 0.21
25 22 0.22
26 51 0.52
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:44617496 original size:52 final size:51
Alignment explanation
Indices: 44617366--44617500 Score: 224
Period size: 52 Copynumber: 2.7 Consensus size: 51
44617356 CTGGAGGCCT
44617366 AGCCTCTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
44617415 AGCCC-TTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-A
44617466 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
44617501 GCACTTCCTC
Statistics
Matches: 81, Mismatches: 0, Indels: 7
0.92 0.00 0.08
Matches are distributed among these distances:
47 3 0.04
48 4 0.05
49 14 0.17
50 25 0.31
51 6 0.07
52 29 0.36
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (51 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
Found at i:44617575 original size:20 final size:20
Alignment explanation
Indices: 44617550--44617636 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
44617540 TTATGAATAC
44617550 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
44617570 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
44617590 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
44617610 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
44617630 ATCATGT
1 ATCATGT
44617637 ATATCATATC
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:44618406 original size:27 final size:27
Alignment explanation
Indices: 44618345--44618408 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
44618335 GACATATTCA
44618345 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACCATACAAGGGTATTACGG
* * *
44618372 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAAGGG-TATTACGG
*
44618399 TCTTTTTACC
1 TCATTTTACC
44618409 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGTATTACGG
Found at i:44618511 original size:27 final size:27
Alignment explanation
Indices: 44618462--44618559 Score: 101
Period size: 27 Copynumber: 3.6 Consensus size: 27
44618452 GTAAATCTAC
*
44618462 AAACCAAGGGTATTTC-AGCAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
44618489 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
*
44618515 AGAAAGTCAAGGGTATTTCTATAATTTTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
* *
44618545 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
44618560 TGGTAATTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
26 1 0.02
27 32 0.52
28 7 0.11
29 20 0.33
30 1 0.02
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:44618642 original size:81 final size:81
Alignment explanation
Indices: 44618526--44618682 Score: 228
Period size: 81 Copynumber: 1.9 Consensus size: 81
44618516 GAAAGTCAAG
* ** *
44618526 GGTATTTCTATAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGG
1 GGTATTTCGATAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGG
44618590 TAATTTCACAAACCAGT
65 TAATTTCACAAACCAGT
*
44618607 GGTATTTCGATAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
1 GGTATTTCGATAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGG
*
44618671 TAATTTTACAAA
65 TAATTTCACAAA
44618683 TTAGGGGCAT
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 1 0.01
81 65 0.96
82 2 0.03
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
GGTATTTCGATAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGT
AATTTCACAAACCAGT
Found at i:44618715 original size:54 final size:54
Alignment explanation
Indices: 44618550--44618735 Score: 216
Period size: 54 Copynumber: 3.4 Consensus size: 54
44618540 TTTGTAAATC
* * * *
44618550 AGGGGTATTTTGGTAATTTTACAAATT-GAGGGTATTTCGGTAATTTCACAAACC
1 AGGGGTATTTCGGTAATTTTACAAATTAG-GGGTATTTTGGTAATTTTACAAACT
* * *
44618604 AGTGGTATTTCGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTCGGTAATTTTACAAATTAGGGGTATTTTGGTAATTTTACAAACT
* * *
44618658 AGGGGTATTTTGGTAATTTTACAAATTAGGGGCATTTTGGTAATTTTATTC-TA-T
1 AGGGGTATTTCGGTAATTTTACAAATTAGGGGTATTTTGGTAATTTTA--CAAACT
* *
44618712 AGGGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTCGGTAATTTTACAA
44618736 TCGAGGGTAA
Statistics
Matches: 113, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
54 110 0.97
55 2 0.02
56 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (54 bp):
AGGGGTATTTCGGTAATTTTACAAATTAGGGGTATTTTGGTAATTTTACAAACT
Found at i:44618721 original size:27 final size:27
Alignment explanation
Indices: 44618550--44618705 Score: 215
Period size: 27 Copynumber: 5.8 Consensus size: 27
44618540 TTTGTAAATC
44618550 AGGGGTATTTTGGTAATTTTACAAA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
* * * *
44618576 TGAGGGTATTTCGGTAATTTCACAAACC
1 AG-GGGTATTTTGGTAATTTTACAAACT
* * *
44618604 AGTGGTATTTCGATAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
44618631 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
*
44618658 AGGGGTATTTTGGTAATTTTACAAATT
1 AGGGGTATTTTGGTAATTTTACAAACT
*
44618685 AGGGGCATTTTGGTAATTTTA
1 AGGGGTATTTTGGTAATTTTA
44618706 TTCTATAGGG
Statistics
Matches: 114, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 112 0.98
28 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:44618742 original size:27 final size:27
Alignment explanation
Indices: 44618546--44618742 Score: 177
Period size: 27 Copynumber: 7.3 Consensus size: 27
44618536 TAATTTTGTA
44618546 AATC-AGGGGTATTTTGGTAATTTTAC
1 AATCTAGGGGTATTTTGGTAATTTTAC
* *
44618572 AAAT-T-GAGGGTATTTCGGTAATTTCAC
1 -AATCTAG-GGGTATTTTGGTAATTTTAC
* * * * *
44618599 AAACCAGTGGTATTTCGATAATTTTAC
1 AATCTAGGGGTATTTTGGTAATTTTAC
*
44618626 AAACTAGGGGTATTTTGGTAATTTTAC
1 AATCTAGGGGTATTTTGGTAATTTTAC
*
44618653 AAACTAGGGGTATTTTGGTAATTTTAC
1 AATCTAGGGGTATTTTGGTAATTTTAC
* *
44618680 AAAT-TAGGGGCATTTTGGTAATTTTAT
1 -AATCTAGGGGTATTTTGGTAATTTTAC
** * ** *
44618707 TCTATAGGGGTATTTCAGTAATTTCAC
1 AATCTAGGGGTATTTTGGTAATTTTAC
*
44618734 AATCGAGGG
1 AATCTAGGG
44618743 TAAAATGATA
Statistics
Matches: 139, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
26 4 0.03
27 132 0.95
28 3 0.02
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (27 bp):
AATCTAGGGGTATTTTGGTAATTTTAC
Found at i:44618764 original size:27 final size:27
Alignment explanation
Indices: 44618734--44618931 Score: 270
Period size: 27 Copynumber: 7.3 Consensus size: 27
44618724 GTAATTTCAC
* *
44618734 AATCGAGGGTAAAATGATAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
44618761 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
44618788 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
44618815 AATCGAGGGTAAAATGGTAATTATATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * * *
44618842 AATTGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
44618869 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
44618896 AATCGCGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTATA
44618923 AATCGAGGG
1 AATCGAGGG
44618932 CATTTCAGTA
Statistics
Matches: 148, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 148 1.00
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:44624055 original size:8 final size:8
Alignment explanation
Indices: 44624042--44624066 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
44624032 AGTAATTCTA
44624042 TGCATGAT
1 TGCATGAT
44624050 TGCATGAT
1 TGCATGAT
44624058 TGCATGAT
1 TGCATGAT
44624066 T
1 T
44624067 ATTTTATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (8 bp):
TGCATGAT
Found at i:44624843 original size:30 final size:30
Alignment explanation
Indices: 44624809--44624869 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
44624799 TTCCCGAGCC
44624809 TAGGGGCAAAAGTGTAAATATTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATTCAAAAGTT
* * * *
44624839 TAGGGGCAAAATTGTAATTTTTCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATTCAAAAGTT
44624869 T
1 T
44624870 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATTCAAAAGTT
Found at i:44625763 original size:64 final size:65
Alignment explanation
Indices: 44625637--44625763 Score: 150
Period size: 64 Copynumber: 1.9 Consensus size: 65
44625627 TACTATGTGT
* * * * *
44625637 ACACCATGTAGACAAGAGATCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
1 ACACCATGTAGAC-AGAGAGCTACGAGATAAATG-AGCTAGGTCACATGCGTGGTACCAAGTGAA
44625702 GG
64 GG
* *
44625704 ACACCATGTAGAC-GAGAGCTACGAGATAAACTG-GCTAGGTCACATGGGTGGTACTAAGTG
1 ACACCATGTAGACAGAGAGCTACGAGATAAA-TGAGCTAGGTCACATGCGTGGTACCAAGTG
44625764 TTCGCCATGT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
64 23 0.44
65 14 0.27
66 2 0.04
67 13 0.25
ACGTcount: A:0.31, C:0.18, G:0.30, T:0.21
Consensus pattern (65 bp):
ACACCATGTAGACAGAGAGCTACGAGATAAATGAGCTAGGTCACATGCGTGGTACCAAGTGAAGG
Found at i:44631704 original size:45 final size:46
Alignment explanation
Indices: 44631612--44631719 Score: 200
Period size: 45 Copynumber: 2.4 Consensus size: 46
44631602 GCCTCGTCTA
*
44631612 GATGCGTCTGGATTAGTTCTTTTAGAGCCCCCCACGGAATGCATTG
1 GATGCGTCTGGATTAGTTCTTTTAGAGCCCCCCACAGAATGCATTG
44631658 GATGCGTCTGGATTAGTTCTTTTAGAG-CCCCCACAGAATGCATTG
1 GATGCGTCTGGATTAGTTCTTTTAGAGCCCCCCACAGAATGCATTG
44631703 GATGCGTCTGGATTAGT
1 GATGCGTCTGGATTAGT
44631720 CACCCTTTTC
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
45 34 0.56
46 27 0.44
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.31
Consensus pattern (46 bp):
GATGCGTCTGGATTAGTTCTTTTAGAGCCCCCCACAGAATGCATTG
Found at i:44633923 original size:18 final size:19
Alignment explanation
Indices: 44633875--44633927 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 19
44633865 ACAATATATA
* *
44633875 ATATATAATAACAAAAATT
1 ATATATAAGAATAAAAATT
* *
44633894 -TATAAAAGAATAATAATT
1 ATATATAAGAATAAAAATT
44633912 ATATATAA-AATAAAAA
1 ATATATAAGAATAAAAA
44633928 ANNNNNNNNN
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
18 21 0.78
19 6 0.22
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
ATATATAAGAATAAAAATT
Found at i:44640136 original size:24 final size:24
Alignment explanation
Indices: 44640104--44640149 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
44640094 CAGATATCAT
44640104 GCTCAGTTAGACACCTTACAATTA
1 GCTCAGTTAGACACCTTACAATTA
44640128 GCTCAGTTAGACACCTTACAAT
1 GCTCAGTTAGACACCTTACAAT
44640150 CAGGTCACGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (24 bp):
GCTCAGTTAGACACCTTACAATTA
Found at i:44641650 original size:45 final size:45
Alignment explanation
Indices: 44641596--44641916 Score: 290
Period size: 45 Copynumber: 6.8 Consensus size: 45
44641586 TATGAGAGCT
44641596 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATATGTGTC
* *
44641641 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATATGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATATGTGTC
* * * *
44641686 AGTGTAAGACAATGTCTGGGACATGGCATTGGCAC-CGATA-GATGAAAGC
1 AGTGTAAGACCATGTCTGGGACATGGCA-TCG-ACTTGATATG-TG---TC
* * *
44641735 TAGTGTAAGACCATTTTTGGGACATGACATC-AGCTTGATATGTGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGA-CTTGATATGTGTC
* * * *
44641781 AGTGTAAGACCATGTCTGGGACATGGACATTGGCAC-CGATAGATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGG-CA-TCG-ACTTGAT--AT--GTGTC
* *
44641832 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGATATACGAGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGATAT----GTGTC
*
44641882 AGTGTAAGACCATGTCTGGGACATGACATCGACTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTT
44641917 TGATGGATGA
Statistics
Matches: 226, Mismatches: 28, Indels: 40
0.77 0.10 0.14
Matches are distributed among these distances:
45 93 0.41
46 11 0.05
47 6 0.03
48 4 0.02
49 17 0.08
50 66 0.29
51 29 0.13
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (45 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATATGTGTC
Found at i:44641772 original size:95 final size:95
Alignment explanation
Indices: 44641641--44641906 Score: 397
Period size: 95 Copynumber: 2.7 Consensus size: 95
44641631 GATATGTGTC
* *
44641641 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATATGTCAGTGTAAGACAATGTCTGGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCTTGATATATGTCAGTGTAAGACCATGTCTGGG
44641706 ACATGGCATTGGCACCGATAGATGAAAGCT
66 ACATGGCATTGGCACCGATAGATGAAAGCT
* * * *
44641736 AGTGTAAGACCATTTTTGGGACATGACATCAGCTTGATATGTGTCAGTGTAAGACCATGTCTGGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCTTGATATATGTCAGTGTAAGACCATGTCTGGG
* *
44641801 ACATGGACATTGGCACCGATAGATGAGAGCC
66 ACATGG-CATTGGCACCGATAGATGAAAGCT
*
44641832 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGATATACGAGAGTCAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CTTGATAT---A-TGTCAGTGTAAGACCATGT
44641897 CTGGGACATG
61 CTGGGACATG
44641907 ACATCGACTT
Statistics
Matches: 152, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
95 65 0.43
96 51 0.34
97 8 0.05
101 28 0.18
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (95 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCTTGATATATGTCAGTGTAAGACCATGTCTGGG
ACATGGCATTGGCACCGATAGATGAAAGCT
Found at i:44641859 original size:140 final size:137
Alignment explanation
Indices: 44641587--44641916 Score: 360
Period size: 140 Copynumber: 2.3 Consensus size: 137
44641577 CTAGGGAGAT
* *
44641587 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATATGTGTCAGTGTAAGACC
1 ATGAAAGCTAGTGTAAGACCATGTCTGGGACATGACATCGACTTGATATGTGTCAGTGTAAGACC
** * *
44641652 ATGTCTGGGACATGGCATCGGCTTGATATATGTCAGTGTAAGACAATGTCTGGGACATGGCATTG
66 ATGTCTGGGACATGGCATCGGCCCGATATAAGCCAGTGTAAGACAATGTCTGGGA-A--GCATTG
44641717 GCACCGATAG
128 GCACCGATAG
* *
44641727 ATGAAAGCTAGTGTAAGACCATTTTTGGGACATGACATC-AGCTTGATATGTGTCAGTGTAAGAC
1 ATGAAAGCTAGTGTAAGACCATGTCTGGGACATGACATCGA-CTTGATATGTGTCAGTGTAAGAC
* *
44641791 CATGTCTGGGACATGGACATTGGCACCGATAGATGAGAGCCAGTGTAAGACCATGTCTGGGACAT
65 CATGTCTGGGACATGG-CATCGGC-CCGAT--AT-A-AGCCAGTGTAAGACAATGTCTGGGA-A-
** * *
44641856 GGCATCAGC-CTTGATAT
122 -GCATTGGCAC-CGATAG
* *
44641873 ACGAGAG-TCAGTGTAAGACCATGTCTGGGACATGACATCGACTT
1 ATGAAAGCT-AGTGTAAGACCATGTCTGGGACATGACATCGACTT
44641917 TGATGGATGA
Statistics
Matches: 162, Mismatches: 18, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
139 1 0.01
140 74 0.46
141 6 0.04
142 3 0.02
144 2 0.01
145 3 0.02
146 72 0.44
147 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (137 bp):
ATGAAAGCTAGTGTAAGACCATGTCTGGGACATGACATCGACTTGATATGTGTCAGTGTAAGACC
ATGTCTGGGACATGGCATCGGCCCGATATAAGCCAGTGTAAGACAATGTCTGGGAAGCATTGGCA
CCGATAG
Found at i:44641902 original size:146 final size:140
Alignment explanation
Indices: 44641592--44641916 Score: 413
Period size: 146 Copynumber: 2.3 Consensus size: 140
44641582 GAGATATGAG
*
44641592 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATATGTGTCAGTGTAAGACCATGTC
1 AGCTAGTGTAAGACCATGTCTGGGACATGACATCGACTTGATATGTGTCAGTGTAAGACCATGTC
** * * **
44641657 TGGGACATGGCATCGGCTTGATATATGTCAGTGTAAGACAATGTCTGGGACATGGCATTGGCACC
66 TGGGACATGGCATCGGCCCGATATAAGCCAGTGTAAGACAATGTCTGGGACATGGCATCAGCACC
*
44641722 GATAGATGAA
131 GATAGACGAA
* *
44641732 AGCTAGTGTAAGACCATTTTTGGGACATGACATC-AGCTTGATATGTGTCAGTGTAAGACCATGT
1 AGCTAGTGTAAGACCATGTCTGGGACATGACATCGA-CTTGATATGTGTCAGTGTAAGACCATGT
* *
44641796 CTGGGACATGGACATTGGCACCGATAGATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
65 CTGGGACATGG-CATCGGC-CCGAT--AT-A-AGCCAGTGTAAGACAATGTCTGGGACATGGCAT
* * *
44641861 CAGC-CTTGATATACGAG
124 CAGCAC-CGATAGACGAA
44641878 AG-TCAGTGTAAGACCATGTCTGGGACATGACATCGACTT
1 AGCT-AGTGTAAGACCATGTCTGGGACATGACATCGACTT
44641917 TGATGGATGA
Statistics
Matches: 158, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
139 1 0.01
140 70 0.44
141 6 0.04
142 3 0.02
144 2 0.01
145 3 0.02
146 72 0.46
147 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (140 bp):
AGCTAGTGTAAGACCATGTCTGGGACATGACATCGACTTGATATGTGTCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCCCGATATAAGCCAGTGTAAGACAATGTCTGGGACATGGCATCAGCACC
GATAGACGAA
Found at i:44655222 original size:44 final size:44
Alignment explanation
Indices: 44655173--44655304 Score: 230
Period size: 44 Copynumber: 3.0 Consensus size: 44
44655163 AAAAAATGAA
44655173 AAACCTATTCT-AAAAATGGGAAGAAAAGAAAAAGAAAAGAAAAG
1 AAACCTA-TCTAAAAAATGGGAAGAAAAGAAAAAGAAAAGAAAAG
44655217 AAACCTATCTAAAAAATGGGAAGAAAAGAAAAAGAAAAGAAAAG
1 AAACCTATCTAAAAAATGGGAAGAAAAGAAAAAGAAAAGAAAAG
*
44655261 AAACCTATCTAAAAAATGGAAAGAAAAGAAAAAGAAAAAGAAAA
1 AAACCTATCTAAAAAATGGGAAGAAAAGAAAAAG-AAAAGAAAA
44655305 TAAAATAAAA
Statistics
Matches: 85, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
43 3 0.04
44 73 0.86
45 9 0.11
ACGTcount: A:0.67, C:0.07, G:0.17, T:0.10
Consensus pattern (44 bp):
AAACCTATCTAAAAAATGGGAAGAAAAGAAAAAGAAAAGAAAAG
Found at i:44655332 original size:28 final size:28
Alignment explanation
Indices: 44655245--44655334 Score: 78
Period size: 28 Copynumber: 3.2 Consensus size: 28
44655235 GGAAGAAAAG
*
44655245 AAAAAGAAAAGAAAAGAAACCT-ATCTA
1 AAAAATAAAAGAAAAGAAACCTAATCTA
* *** *
44655272 AAAAATGGAAAGAAAAGAAAAAGAA--AA
1 AAAAAT-AAAAGAAAAGAAACCTAATCTA
*
44655299 AGAAAATAAAATAAAAGAAACCTAATCTA
1 A-AAAATAAAAGAAAAGAAACCTAATCTA
44655328 AAAAATA
1 AAAAATA
44655335 TGGGAAGGAA
Statistics
Matches: 46, Mismatches: 12, Indels: 9
0.69 0.18 0.13
Matches are distributed among these distances:
27 20 0.43
28 23 0.50
29 3 0.07
ACGTcount: A:0.71, C:0.07, G:0.11, T:0.11
Consensus pattern (28 bp):
AAAAATAAAAGAAAAGAAACCTAATCTA
Found at i:44665706 original size:55 final size:53
Alignment explanation
Indices: 44665627--44665828 Score: 162
Period size: 55 Copynumber: 3.7 Consensus size: 53
44665617 TTAAGGATAC
*
44665627 CATGTAAGACCATG-CAAAGGCATGGAAATTGGTAAGGTTTCTAAGGCCAGGAAAT
1 CATGTAAGACCATGTC-AAGACATGG-AATTGGTAA-GTTTCTAAGGCCAGGAAAT
* * * **
44665682 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGG-CA-GAGGT
1 CATGTAAGACCATGTCAAGACATGGAATTGGTAAGTT--TCTAAGGCCAGGAAAT
* * * * * * * *
44665735 CCCATGTAAGACCATGCCAAGGCATGGCATTAGTGAG-TTCATAAGGCAAGGATAC
1 --CATGTAAGACCATGTCAAGACATGGAATTGGTAAGTTTC-TAAGGCCAGGAAAT
44665790 CATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC
1 CATGTAAGACCATGTCAAGACATGG-AATTGGTAAGTTTC
44665829 AAAAGGATAC
Statistics
Matches: 116, Mismatches: 21, Indels: 21
0.73 0.13 0.13
Matches are distributed among these distances:
52 1 0.01
53 39 0.34
54 15 0.13
55 60 0.52
56 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (53 bp):
CATGTAAGACCATGTCAAGACATGGAATTGGTAAGTTTCTAAGGCCAGGAAAT
Found at i:44665825 original size:108 final size:110
Alignment explanation
Indices: 44665626--44665826 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
44665616 TTTAAGGATA
* * *
44665626 CCATGTAAGACCATGCAAAGGCATGGAAATTGGTAAGGTTTCTAAGGCCAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCAAAGGCATGGAAATTAGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
44665691 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAGAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAGAGGTC
* * * *
44665736 CCATGTAAGACCATGCCAAGGCATGG-CATTAGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCAAAGGCATGGAAATTAGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
44665798 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
44665827 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.58
109 6 0.07
110 25 0.31
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCAAAGGCATGGAAATTAGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAGAGGTC
Found at i:44670692 original size:24 final size:24
Alignment explanation
Indices: 44670665--44670825 Score: 105
Period size: 24 Copynumber: 6.6 Consensus size: 24
44670655 CAATCGATTT
44670665 CGCACACATAGTGCTATTCAAATC
1 CGCACACATAGTGCTATTCAAATC
* * * *
44670689 CGCACACTTAGTGCCATGCTAA-C
1 CGCACACATAGTGCTATTCAAATC
* **
44670712 C-TACACATGTAGTGCCT-TAGAAATC
1 CGCACACA--TAGTG-CTATTCAAATC
* **
44670737 CACACACTCATA-TTATCATTCAAATC
1 CGCACA--CATAGTGCT-ATTCAAATC
* *
44670763 AGCACACATAGTGCTATTCAATTC
1 CGCACACATAGTGCTATTCAAATC
*
44670787 CGCACACATAGTGCCATTCAAAATC
1 CGCACACATAGTGCTATTC-AAATC
*
44670812 CGCACACTTAGTGC
1 CGCACACATAGTGC
44670826 CAATGTCATT
Statistics
Matches: 102, Mismatches: 24, Indels: 21
0.69 0.16 0.14
Matches are distributed among these distances:
22 4 0.04
23 2 0.02
24 56 0.55
25 23 0.23
26 15 0.15
28 2 0.02
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.25
Consensus pattern (24 bp):
CGCACACATAGTGCTATTCAAATC
Found at i:44677261 original size:24 final size:24
Alignment explanation
Indices: 44677234--44677394 Score: 103
Period size: 24 Copynumber: 6.6 Consensus size: 24
44677224 CAACCGATTT
*
44677234 CGCACACATAGTGTTATTCAAATC
1 CGCACACATAGTGCTATTCAAATC
* * * * *
44677258 CGCACACTTAGTGCCATGCTAACC
1 CGCACACATAGTGCTATTCAAATC
* **
44677282 CGCACACGTAGTGCCT-TAGAAATC
1 CGCACACATAGTG-CTATTCAAATC
* * *
44677306 CACACAC-TCGT-CTTGACACTCAAATC
1 CGCACACATAGTGC-T---ATTCAAATC
* *
44677332 AGCACACATAGTGCTATTCAATTC
1 CGCACACATAGTGCTATTCAAATC
*
44677356 CGCACACATAGTGCCATTCAAAATC
1 CGCACACATAGTGCTATTC-AAATC
*
44677381 CGCACACTTAGTGC
1 CGCACACATAGTGC
44677395 CAATGTCATT
Statistics
Matches: 102, Mismatches: 26, Indels: 17
0.70 0.18 0.12
Matches are distributed among these distances:
21 1 0.01
22 1 0.01
23 3 0.03
24 64 0.63
25 18 0.18
26 10 0.10
27 4 0.04
28 1 0.01
ACGTcount: A:0.30, C:0.32, G:0.14, T:0.24
Consensus pattern (24 bp):
CGCACACATAGTGCTATTCAAATC
Found at i:44680249 original size:42 final size:43
Alignment explanation
Indices: 44680162--44680309 Score: 126
Period size: 42 Copynumber: 3.4 Consensus size: 43
44680152 AATGCCGACA
* * **
44680162 TCCCAGAC-GTGGTCTTACATGTAATTCAGTATCGATGCCTCTG
1 TCCCAGACAG-GGTCTTACATGTAATTCAATATCGAAGCCAATG
*
44680205 TCCCAGATAGGGTCTTACATG-AATTCAA-ATACGAAGCCAATG
1 TCCCAGACAGGGTCTTACATGTAATTCAATAT-CGAAGCCAATG
* * **
44680247 TCCCAGACATGGTCTTACACGTAAATCTCAA-ATC-AAGGCCTGTG
1 TCCCAGACAGGGTCTTACATGT-AAT-TCAATATCGAA-GCCAATG
*
44680291 TCCCAGACACGGTCTTACA
1 TCCCAGACAGGGTCTTACA
44680310 CGATATCTCA
Statistics
Matches: 88, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
41 2 0.02
42 32 0.36
43 20 0.23
44 28 0.32
45 6 0.07
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
TCCCAGACAGGGTCTTACATGTAATTCAATATCGAAGCCAATG
Found at i:44681891 original size:41 final size:41
Alignment explanation
Indices: 44681846--44681930 Score: 127
Period size: 41 Copynumber: 2.1 Consensus size: 41
44681836 CCGTGTCACC
* *
44681846 CAAGTCAGTGAGTTACAC-GGCAGAGACATGGTCGTGTGTCT
1 CAAGTCAGTGAGTTACACGGGCAGAGACA-GGCCGTATGTCT
*
44681887 CAAGTCAGTGAGTTACACGGGCAGGGACAGGCCGTATGTCT
1 CAAGTCAGTGAGTTACACGGGCAGAGACAGGCCGTATGTCT
44681928 CAA
1 CAA
44681931 TTTCAAAAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 31 0.77
42 9 0.22
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.21
Consensus pattern (41 bp):
CAAGTCAGTGAGTTACACGGGCAGAGACAGGCCGTATGTCT
Found at i:44687186 original size:47 final size:47
Alignment explanation
Indices: 44687117--44687235 Score: 229
Period size: 47 Copynumber: 2.5 Consensus size: 47
44687107 GCCCCTAAGT
*
44687117 GAACTCGGACTCAACTCAACGAGTTTAGATGCCTAGTTACATCTCAC
1 GAACTCAGACTCAACTCAACGAGTTTAGATGCCTAGTTACATCTCAC
44687164 GAACTCAGACTCAACTCAACGAGTTTAGATGCCTAGTTACATCTCAC
1 GAACTCAGACTCAACTCAACGAGTTTAGATGCCTAGTTACATCTCAC
44687211 GAACTCAGACTCAACTCAACGAGTT
1 GAACTCAGACTCAACTCAACGAGTT
44687236 CGGACATTCG
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (47 bp):
GAACTCAGACTCAACTCAACGAGTTTAGATGCCTAGTTACATCTCAC
Found at i:44687742 original size:30 final size:30
Alignment explanation
Indices: 44687708--44687767 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
44687698 ATTTAATACG
*
44687708 AACTTTGGTAAAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
44687738 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
44687768 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:44688071 original size:22 final size:22
Alignment explanation
Indices: 44688046--44688088 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
44688036 TTATTGCTAA
*
44688046 CATAAGCTTAATCGAGCTACCG
1 CATAAGCCTAATCGAGCTACCG
44688068 CATAAGCCTAATCGAGCTACC
1 CATAAGCCTAATCGAGCTACC
44688089 AGGATTCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.21
Consensus pattern (22 bp):
CATAAGCCTAATCGAGCTACCG
Found at i:44694538 original size:46 final size:46
Alignment explanation
Indices: 44694214--44694518 Score: 547
Period size: 46 Copynumber: 6.6 Consensus size: 46
44694204 ATCATAAAAT
44694214 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAG
44694260 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAG
44694306 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAG
44694352 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAG
* * *
44694398 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAG
* * *
44694444 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAG
*
44694490 TGAACTCGGACTCAACTCAACGAGTTCGG
1 TGAACTCGGACTCAACTCAACGAGCTCGG
44694519 ATGCTCAACC
Statistics
Matches: 256, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 256 1.00
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.20
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAG
Found at i:44698256 original size:61 final size:61
Alignment explanation
Indices: 44698185--44698307 Score: 219
Period size: 61 Copynumber: 2.0 Consensus size: 61
44698175 TACCAATGAT
* *
44698185 TAAATTTGTTATTATGTCAATTTTAGAATGGCCATGTTAACCAAAAAGAACTAAAAAAGGG
1 TAAATTTGTTATTATATCAATTTTAGAACGGCCATGTTAACCAAAAAGAACTAAAAAAGGG
*
44698246 TAAATTTGTTATTATATCAATTTTAGAACGGCCATGTTAACCAAAATGAACTAAAAAAGGG
1 TAAATTTGTTATTATATCAATTTTAGAACGGCCATGTTAACCAAAAAGAACTAAAAAAGGG
44698307 T
1 T
44698308 TTAATACATA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (61 bp):
TAAATTTGTTATTATATCAATTTTAGAACGGCCATGTTAACCAAAAAGAACTAAAAAAGGG
Found at i:44700387 original size:22 final size:23
Alignment explanation
Indices: 44700360--44700404 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
44700350 GGGTATCTAC
44700360 AAATCAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
44700382 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
44700405 TATCATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:44700400 original size:23 final size:21
Alignment explanation
Indices: 44700357--44700420 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 21
44700347 AAAGGGTATC
*
44700357 TACAAATCAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
44700378 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
44700401 TACATATCATAT-T-TAAGAT
1 TACAAATCATATCTCTAAGAT
44700420 T
1 T
44700421 GCATATCTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 7 0.18
20 1 0.03
21 3 0.08
22 17 0.44
23 11 0.28
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:44700408 original size:17 final size:17
Alignment explanation
Indices: 44700386--44700436 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 17
44700376 ATTACAAAAT
44700386 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
* *
44700403 CATATCATATTTAAGATTG
1 CATATC-T-TCTAAGATTA
*
44700422 CATATCTTCGAAGAT
1 CATATCTTCTAAGAT
44700437 CATGTTTCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 12 0.43
18 2 0.07
19 14 0.50
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:44700419 original size:19 final size:21
Alignment explanation
Indices: 44700370--44700427 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 21
44700360 AAATCAAATC
*
44700370 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-ATATCATA-CT
44700393 TCTAAGATTACATATCATA-T
1 TCTAAGATTACATATCATACT
*
44700413 T-TAAGATTGCATATC
1 TCTAAGATTACATATC
44700428 TTCGAAGATC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
20 2 0.06
22 7 0.21
23 11 0.33
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.38
Consensus pattern (21 bp):
TCTAAGATTACATATCATACT
Found at i:44700528 original size:15 final size:15
Alignment explanation
Indices: 44700508--44700539 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
44700498 TCCGATTAGG
44700508 CCAAATGACCTCTTT
1 CCAAATGACCTCTTT
44700523 CCAAATGACCTCTTT
1 CCAAATGACCTCTTT
44700538 CC
1 CC
44700540 CTCTTGATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.38, G:0.06, T:0.31
Consensus pattern (15 bp):
CCAAATGACCTCTTT
Found at i:44701903 original size:32 final size:32
Alignment explanation
Indices: 44701862--44701926 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
44701852 AGTACGATGT
44701862 ATACCTGGATGGCCAGCTCATTTGGAATCATG
1 ATACCTGGATGGCCAGCTCATTTGGAATCATG
44701894 ATACCTGGATGGCCAGCTCATTTGGAATCATG
1 ATACCTGGATGGCCAGCTCATTTGGAATCATG
44701926 A
1 A
44701927 CATTCCTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.28
Consensus pattern (32 bp):
ATACCTGGATGGCCAGCTCATTTGGAATCATG
Found at i:44705480 original size:22 final size:23
Alignment explanation
Indices: 44705448--44705490 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
44705438 GGGTATCTAC
*
44705448 AAATCAAATC-TCTAATATTATA
1 AAATCAAATCTTCTAAGATTATA
*
44705470 AAATCATATCTTCTAAGATTA
1 AAATCAAATCTTCTAAGATTA
44705491 CATATCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTATA
Found at i:44705496 original size:17 final size:17
Alignment explanation
Indices: 44705474--44705524 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 17
44705464 ATTATAAAAT
44705474 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
*
44705491 CATATCAGATCTAAGATTA
1 CATATC--TTCTAAGATTA
*
44705510 CATATCTTCGAAGAT
1 CATATCTTCTAAGAT
44705525 CATGTTTCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 13 0.45
19 16 0.55
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:44711940 original size:38 final size:38
Alignment explanation
Indices: 44711886--44711967 Score: 146
Period size: 38 Copynumber: 2.2 Consensus size: 38
44711876 CATTCGAATG
*
44711886 TTGATTTGGGTTTAAAAGATTCGCATCCAATTTGACCA
1 TTGATTTGGGTCTAAAAGATTCGCATCCAATTTGACCA
44711924 TTGATTTGGGTCTAAAAGATTCGCATCCAATTTGACCA
1 TTGATTTGGGTCTAAAAGATTCGCATCCAATTTGACCA
*
44711962 TAGATT
1 TTGATT
44711968 CACTAGGGCC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (38 bp):
TTGATTTGGGTCTAAAAGATTCGCATCCAATTTGACCA
Found at i:44725326 original size:21 final size:21
Alignment explanation
Indices: 44725300--44725368 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
44725290 GTATGAGGAG
*
44725300 GGCACACAGTCGTGTGACTAA
1 GGCACACAGCCGTGTGACTAA
* *
44725321 GGCACACACCCGTGTGGAGT--
1 GGCACACAGCCGTGT-GACTAA
44725341 GGCACACAGCCGTGTGACTGAA
1 GGCACACAGCCGTGTGACT-AA
44725363 -GCACAC
1 GGCACAC
44725369 CCATGTGGAC
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
19 3 0.08
20 14 0.36
21 19 0.49
22 3 0.08
ACGTcount: A:0.26, C:0.29, G:0.30, T:0.14
Consensus pattern (21 bp):
GGCACACAGCCGTGTGACTAA
Found at i:44732178 original size:26 final size:27
Alignment explanation
Indices: 44732110--44732178 Score: 74
Period size: 26 Copynumber: 2.6 Consensus size: 27
44732100 ATAATATTAT
44732110 ATATTTAAATTTTTATTAGTTATATTTTA
1 ATATTTAAA-TTTTA-TAGTTATATTTTA
*
44732139 ATATTTAAA--ATATAGTTTATATTTTA
1 ATATTTAAATTTTATAG-TTATATTTTA
44732165 A-A-TTAAATTTTATA
1 ATATTTAAATTTTATA
44732179 ATTAATTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
24 5 0.14
25 4 0.11
26 17 0.49
29 9 0.26
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (27 bp):
ATATTTAAATTTTATAGTTATATTTTA
Found at i:44734662 original size:29 final size:29
Alignment explanation
Indices: 44734620--44734677 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
44734610 TATCAACTTT
44734620 TCCGAAAGGAGCCAACGAATTCCCTTCCC
1 TCCGAAAGGAGCCAACGAATTCCCTTCCC
*
44734649 TCCGACAGGAGCCAACGAATTCCCTTCCC
1 TCCGAAAGGAGCCAACGAATTCCCTTCCC
44734678 AGATATGGCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.26, C:0.40, G:0.17, T:0.17
Consensus pattern (29 bp):
TCCGAAAGGAGCCAACGAATTCCCTTCCC
Found at i:44738614 original size:27 final size:27
Alignment explanation
Indices: 44738555--44738637 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 27
44738545 TATTTAACAT
*
44738555 AAATAAAATATAAAACAATTTGAAATA
1 AAATAAAATATAAAACAATTTCAAATA
*
44738582 AAATAAAATATAAAGCAA-TTCAAA-A
1 AAATAAAATATAAAACAATTTCAAATA
* * * *
44738607 ATAGATAATATATGATACAATTTAAAATA
1 A-A-ATAAAATATAAAACAATTTCAAATA
44738636 AA
1 AA
44738638 TAATATCTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
25 2 0.04
26 6 0.13
27 29 0.64
28 6 0.13
29 2 0.04
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.27
Consensus pattern (27 bp):
AAATAAAATATAAAACAATTTCAAATA
Found at i:44738641 original size:26 final size:26
Alignment explanation
Indices: 44738546--44738712 Score: 106
Period size: 26 Copynumber: 6.5 Consensus size: 26
44738536 TGTAAAAAAT
*
44738546 ATTTAACATAAATAAAATATAAAACA
1 ATTTAAAATAAATAAAATATAAAACA
* *
44738572 ATTTGAAATAAAATAAAATATAAAGCA
1 ATTTAAAAT-AAATAAAATATAAAACA
* * * * *
44738599 ATTCAAAAATAGATAATATATGATACA
1 ATT-TAAAATAAATAAAATATAAAACA
* * * *
44738626 ATTTAAAATAAATAATATCTAACATA
1 ATTTAAAATAAATAAAATATAAAACA
* * * *
44738652 ATTTAAAGTGAAT--AATATGAGACA
1 ATTTAAAATAAATAAAATATAAAACA
** * *
44738676 ATTTAGTATAAATAACATATAAGA-A
1 ATTTAAAATAAATAAAATATAAAACA
*
44738701 ATTTAAGATAAA
1 ATTTAAAATAAA
44738713 ATATAAAACC
Statistics
Matches: 106, Mismatches: 31, Indels: 9
0.73 0.21 0.06
Matches are distributed among these distances:
24 15 0.14
25 11 0.10
26 42 0.40
27 34 0.32
28 4 0.04
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (26 bp):
ATTTAAAATAAATAAAATATAAAACA
Found at i:44740464 original size:44 final size:44
Alignment explanation
Indices: 44740350--44740664 Score: 276
Period size: 44 Copynumber: 7.0 Consensus size: 44
44740340 TAGGATTTGT
* * * *
44740350 GACTCGTAACTTTAATCTATTCCACTGCAACTTTAGGGAAATAA
1 GACTTGTAACTTTAATCTACTCCACTGCAACTTCAGGGAGATAA
*
44740394 GA-TTCGCTAACTTTATTCTACTCCACTGCAACTTCAGGGAGATAA
1 GACTT-G-TAACTTTAATCTACTCCACTGCAACTTCAGGGAGATAA
* * *
44740439 GACTTGTAACTTTAACCTGCTCCACTGCAACTTCAGGAAGATAA
1 GACTTGTAACTTTAATCTACTCCACTGCAACTTCAGGGAGATAA
* ** * * *
44740483 TG-TTTGTGGCTTTAATTTGCTCCACTGCAACTTTAGGGAGATAA
1 -GACTTGTAACTTTAATCTACTCCACTGCAACTTCAGGGAGATAA
* * * *
44740527 AATTTGTAGCCTGTCTTCAATCTACTCCAATGCAACTTCAGGGAGATAA
1 GACTTGTA-AC--T-TT-AATCTACTCCACTGCAACTTCAGGGAGATAA
* **
44740576 GACTTGTAA-TTTCAACCTGTTCCACTGCAACTTCAGGGAGATAA
1 GACTTGTAACTTT-AATCTACTCCACTGCAACTTCAGGGAGATAA
** * * * * *
44740620 GGTTTGTAGCTTCAATCTACCCCATTACAACTTCAGGGAGATAA
1 GACTTGTAACTTTAATCTACTCCACTGCAACTTCAGGGAGATAA
44740664 G
1 G
44740665 TTTTGCCAAG
Statistics
Matches: 220, Mismatches: 40, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
43 1 0.00
44 139 0.63
45 42 0.19
46 2 0.01
47 1 0.00
48 2 0.01
49 33 0.15
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (44 bp):
GACTTGTAACTTTAATCTACTCCACTGCAACTTCAGGGAGATAA
Found at i:44740470 original size:89 final size:88
Alignment explanation
Indices: 44740350--44740526 Score: 207
Period size: 89 Copynumber: 2.0 Consensus size: 88
44740340 TAGGATTTGT
* * *
44740350 GACTCGTAACTTTAATCTATTCCACTGCAACTTTAGGGAA-ATAA-GATTCGCTAACTTT-ATTC
1 GACTCGTAACTTTAACCTACTCCACTGCAACTTCA-GGAAGATAATG-TTCG-TAACTTTAATT-
44740412 TACTCCACTGCAACTTCAGGGAGATAA
62 TACTCCACTGCAACTTCAGGGAGATAA
* * * ** *
44740439 GACTTGTAACTTTAACCTGCTCCACTGCAACTTCAGGAAGATAATGTTTGTGGCTTTAATTTGCT
1 GACTCGTAACTTTAACCTACTCCACTGCAACTTCAGGAAGATAATGTTCGTAACTTTAATTTACT
*
44740504 CCACTGCAACTTTAGGGAGATAA
66 CCACTGCAACTTCAGGGAGATAA
44740527 AATTTGTAGC
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
88 34 0.45
89 40 0.53
90 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (88 bp):
GACTCGTAACTTTAACCTACTCCACTGCAACTTCAGGAAGATAATGTTCGTAACTTTAATTTACT
CCACTGCAACTTCAGGGAGATAA
Found at i:44740573 original size:137 final size:137
Alignment explanation
Indices: 44740410--44740663 Score: 384
Period size: 137 Copynumber: 1.9 Consensus size: 137
44740400 CTAACTTTAT
*
44740410 TCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTT-AACCTGCTCCACTGCAACTTCA
1 TCTACTCCAATGCAACTTCAGGGAGATAAGACTTGTAA-TTTCAACCTGCTCCACTGCAACTTCA
* * * * * * * *
44740474 GGAAGATAATGTTTGTGGCTTTAATTTGCTCCACTGCAACTTTAGGGAGATAAAATTTGTAGCCT
65 GGAAGATAAGGTTTGTAGCTTCAATCTACCCCACTACAACTTCAGGGAGATAAAATTTGTAGCCT
44740539 GTCTTCAA
130 GTCTTCAA
*
44740547 TCTACTCCAATGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTGTTCCACTGCAACTTCAG
1 TCTACTCCAATGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTGCTCCACTGCAACTTCAG
* *
44740612 GGAGATAAGGTTTGTAGCTTCAATCTACCCCATTACAACTTCAGGGAGATAA
66 GAAGATAAGGTTTGTAGCTTCAATCTACCCCACTACAACTTCAGGGAGATAA
44740664 GTTTTGCCAA
Statistics
Matches: 104, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
136 3 0.03
137 101 0.97
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (137 bp):
TCTACTCCAATGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTGCTCCACTGCAACTTCAG
GAAGATAAGGTTTGTAGCTTCAATCTACCCCACTACAACTTCAGGGAGATAAAATTTGTAGCCTG
TCTTCAA
Found at i:44741513 original size:15 final size:15
Alignment explanation
Indices: 44741493--44741522 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
44741483 CCCTTATTCT
44741493 TGTTAATTCAGAGAG
1 TGTTAATTCAGAGAG
44741508 TGTTAATTCAGAGAG
1 TGTTAATTCAGAGAG
44741523 GACAAGACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (15 bp):
TGTTAATTCAGAGAG
Found at i:44748821 original size:19 final size:20
Alignment explanation
Indices: 44748789--44748832 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
44748779 GGGTCTTTTC
* *
44748789 ATGAAATTTAATGCATATG-
1 ATGAAATGTAATGCAGATGA
*
44748808 ATGAAATGTCATGCAGATGA
1 ATGAAATGTAATGCAGATGA
44748828 ATGAA
1 ATGAA
44748833 TGCAAAGAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (20 bp):
ATGAAATGTAATGCAGATGA
Found at i:44752533 original size:26 final size:25
Alignment explanation
Indices: 44752504--44752644 Score: 90
Period size: 27 Copynumber: 5.4 Consensus size: 25
44752494 TGTGAAAAAG
44752504 ATTTAACATAAATAAAATATAAAACA
1 ATTTAA-ATAAATAAAATATAAAACA
*
44752530 ATTTGAAATAAAATAAAATATAAAGCA
1 ATTT-AAAT-AAATAAAATATAAAACA
* * * *
44752557 ATTCAAAAATAAATAATATATGACACA
1 ATT--TAAATAAATAAAATATAAAACA
* * *
44752584 ATTTAAAGTGAAT--AATATGAGACA
1 ATTTAAA-TAAATAAAATATAAAACA
* * *
44752608 ATTTAGTATAAATAACATATAAGA-A
1 ATTTA-AATAAATAAAATATAAAACA
44752633 ATTTAAGATAAA
1 ATTTAA-ATAAA
44752645 ATATAAAACC
Statistics
Matches: 91, Mismatches: 15, Indels: 19
0.73 0.12 0.15
Matches are distributed among these distances:
24 18 0.20
25 15 0.16
26 17 0.19
27 37 0.41
28 4 0.04
ACGTcount: A:0.59, C:0.06, G:0.07, T:0.28
Consensus pattern (25 bp):
ATTTAAATAAATAAAATATAAAACA
Found at i:44756094 original size:38 final size:38
Alignment explanation
Indices: 44756043--44756244 Score: 289
Period size: 38 Copynumber: 5.3 Consensus size: 38
44756033 ATATTCGATG
44756043 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
44756081 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
44756119 TATATCCGGGCTT-AATGACCCGCAGGCTTCGTGCCGGTAA
1 TATATCCGGG-TTAAAT--CCCGCAGGCTTCGTGCTGGTAT
*
44756159 AATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
44756197 TATATCCGGGATAAATCTCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
44756235 TATATTCGGG
1 TATATCCGGG
44756245 CCTTCGTGCC
Statistics
Matches: 147, Mismatches: 13, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
38 112 0.76
39 4 0.03
40 31 0.21
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:44756148 original size:78 final size:76
Alignment explanation
Indices: 44756043--44756244 Score: 273
Period size: 78 Copynumber: 2.6 Consensus size: 76
44756033 ATATTCGATG
44756043 TATATCCGGGTTAA-ATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCT
1 TATATCCGGGTTAATA-CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCT
44756107 TCGTGCTAGTAT
65 TCGTGCTAGTAT
* **
44756119 TATATCCGGGCTTAATGACCCGCAGGCTTCGTGCCGGTAAAATATCCGGGTTAAATCCCGCAGGC
1 TATATCCGGG-TTAAT-ACCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGC
*
44756184 TTCGTGCTGGTAT
64 TTCGTGCTAGTAT
* * * * *
44756197 TATATCCGGGATAA-ATCTCGCAGGCCTAGTGCTGGTATTATATTCGGG
1 TATATCCGGGTTAATA-CCCGCAGGCTTCGTGCTGGTATTATATCCGGG
44756245 CCTTCGTGCC
Statistics
Matches: 110, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
75 1 0.01
76 35 0.32
77 7 0.06
78 66 0.60
79 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (76 bp):
TATATCCGGGTTAATACCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTT
CGTGCTAGTAT
Found at i:44756314 original size:43 final size:43
Alignment explanation
Indices: 44756237--44756318 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
44756227 GCTGGTATTA
* **
44756237 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
44756280 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
44756319 AATGATATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.12, C:0.26, G:0.34, T:0.28
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
Found at i:44756702 original size:45 final size:42
Alignment explanation
Indices: 44756635--44756742 Score: 110
Period size: 45 Copynumber: 2.5 Consensus size: 42
44756625 TTGACTTGAT
* * * *
44756635 TATTCAGGCCTTTGAGCTTAGCAAACTATAATGCTGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGT--GA-AC
**
44756680 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
44756722 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
44756743 ACAGGCGAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.24
44 7 0.13
45 32 0.58
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
Found at i:44765384 original size:18 final size:18
Alignment explanation
Indices: 44765340--44765378 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
44765330 TTCTTCAGGG
44765340 TATCATTCTTCTTTCTCC
1 TATCATTCTTCTTTCTCC
44765358 TATCATTCTTCTTTCTCC
1 TATCATTCTTCTTTCTCC
44765376 TAT
1 TAT
44765379 GGTTCTCCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.13, C:0.31, G:0.00, T:0.56
Consensus pattern (18 bp):
TATCATTCTTCTTTCTCC
Found at i:44769062 original size:15 final size:15
Alignment explanation
Indices: 44769042--44769072 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
44769032 ATGTTTATCG
44769042 ATACTTGATAAGACA
1 ATACTTGATAAGACA
44769057 ATACTTGATAAGACA
1 ATACTTGATAAGACA
44769072 A
1 A
44769073 AGTAAATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (15 bp):
ATACTTGATAAGACA
Found at i:44769313 original size:16 final size:17
Alignment explanation
Indices: 44769294--44769338 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
44769284 CGGGATTTCC
44769294 TTCTTTTTCTCTCC-CT
1 TTCTTTTTCTCTCCTCT
*
44769310 TTCTTTCTC-CTTCCTCT
1 TTCTTTTTCTC-TCCTCT
44769327 TTC-TTTTCTCTC
1 TTCTTTTTCTCTC
44769339 TTTTTCGCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
15 1 0.04
16 17 0.71
17 6 0.25
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (17 bp):
TTCTTTTTCTCTCCTCT
Found at i:44773033 original size:32 final size:32
Alignment explanation
Indices: 44772997--44773061 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
44772987 CCATTGGTTG
*
44772997 TGTTGCGACATTGAAGGCAGTCTTGGAATTCT
1 TGTTGCGACATTGAAGGCAATCTTGGAATTCT
44773029 TGTTGCGACATTGAAGGCAATCTTGGAATTCT
1 TGTTGCGACATTGAAGGCAATCTTGGAATTCT
44773061 T
1 T
44773062 ACTCTATCCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.35
Consensus pattern (32 bp):
TGTTGCGACATTGAAGGCAATCTTGGAATTCT
Found at i:44781787 original size:56 final size:56
Alignment explanation
Indices: 44781696--44781834 Score: 206
Period size: 56 Copynumber: 2.5 Consensus size: 56
44781686 AAGACCATGG
* * ** *
44781696 CTTCGATATGTGATGTGCGAGTAAGACCATGTTTTATACGTTGGCATCGATTTATGA
1 CTTCGATATATG-TGTGCGAGTAAGACAACATTTTATACGTTGGCATCGATATATGA
*
44781753 CTTCGATATATGTGTGCGAGTAAGACAACATTTTATACGTTGGCATCGATATGTGA
1 CTTCGATATATGTGTGCGAGTAAGACAACATTTTATACGTTGGCATCGATATATGA
*
44781809 CTCCGATATATGTGTGCGAGTAAGAC
1 CTTCGATATATGTGTGCGAGTAAGAC
44781835 CCTGTATGGG
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
56 64 0.85
57 11 0.15
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (56 bp):
CTTCGATATATGTGTGCGAGTAAGACAACATTTTATACGTTGGCATCGATATATGA
Found at i:44781853 original size:56 final size:55
Alignment explanation
Indices: 44781699--44781864 Score: 162
Period size: 56 Copynumber: 2.9 Consensus size: 55
44781689 ACCATGGCTT
* * * *
44781699 CGATATGTGATGTGCGAGTAAGAC-CA-TGTTTTATACGTTGGCATCGATTTATGACTT
1 CGATATATG-TGTGCGAGTAAGACACACTG---TATACGTTGGCATCGATATGTGACTC
* *
44781756 CGATATATGTGTGCGAGTAAGACAACATTTTATACGTTGGCATCGATATGTGACTC
1 CGATATATGTGTGCGAGTAAGAC-ACACTGTATACGTTGGCATCGATATGTGACTC
44781812 CGATATATGTGTGCGAGTAAGAC-C-CTGTATGGGACAG-TGGCATCGATATGTGA
1 CGATATATGTGTGCGAGTAAGACACACTGTAT---AC-GTTGGCATCGATATGTGA
44781865 TTACATGTAA
Statistics
Matches: 95, Mismatches: 7, Indels: 15
0.81 0.06 0.13
Matches are distributed among these distances:
53 4 0.04
54 1 0.01
56 78 0.82
57 9 0.09
58 2 0.02
59 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32
Consensus pattern (55 bp):
CGATATATGTGTGCGAGTAAGACACACTGTATACGTTGGCATCGATATGTGACTC
Found at i:44784690 original size:23 final size:23
Alignment explanation
Indices: 44784660--44784705 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
44784650 ACACGCCCAT
* *
44784660 GTGCCAAGGTTGTGTGCATCACA
1 GTGCCAAGGCTGTATGCATCACA
*
44784683 GTGCCAAGGCTGTATGCCTCACA
1 GTGCCAAGGCTGTATGCATCACA
44784706 CGGTCACCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.24
Consensus pattern (23 bp):
GTGCCAAGGCTGTATGCATCACA
Found at i:44800168 original size:26 final size:26
Alignment explanation
Indices: 44800130--44800200 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
44800120 TCTTTTACAT
* * *
44800130 CTTGCTCATACGAGCTGTGAAATGAGT
1 CTTGCTCACACGAGCTATGAAAT-AGG
44800157 C-TGCTCACACGAGCTATGAAATAGG
1 CTTGCTCACACGAGCTATGAAATAGG
**
44800182 CTTGCTCACATAAGCTATG
1 CTTGCTCACACGAGCTATG
44800201 GGTCGGAATG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
25 3 0.08
26 34 0.89
27 1 0.03
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
CTTGCTCACACGAGCTATGAAATAGG
Found at i:44802756 original size:16 final size:18
Alignment explanation
Indices: 44802725--44802757 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
44802715 ATGTTAAATT
44802725 GAATGTTGTGTTTGTATA
1 GAATGTTGTGTTTGTATA
44802743 GAATG-TGT-TTTGTAT
1 GAATGTTGTGTTTGTAT
44802758 TTATGTGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.52
Consensus pattern (18 bp):
GAATGTTGTGTTTGTATA
Found at i:44808958 original size:19 final size:19
Alignment explanation
Indices: 44808931--44808968 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
44808921 GCCTCTGCCA
44808931 CCCACCATAATCAAATTTG
1 CCCACCATAATCAAATTTG
*
44808950 CCCATCATAATCAAATTTG
1 CCCACCATAATCAAATTTG
44808969 TATTAACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.29, G:0.05, T:0.29
Consensus pattern (19 bp):
CCCACCATAATCAAATTTG
Found at i:44809426 original size:20 final size:19
Alignment explanation
Indices: 44809386--44809431 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
44809376 GTTTTGGGGG
*
44809386 TTTGG-GGGAAGTAAAATT
1 TTTGGAGGGAAGTAAAAGT
*
44809404 TTTGGAGGGAATGTAAAGGT
1 TTTGGAGGGAA-GTAAAAGT
44809424 TTT-GAGGG
1 TTTGGAGGG
44809432 GGTTGGGGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.21
19 10 0.42
20 9 0.38
ACGTcount: A:0.28, C:0.00, G:0.39, T:0.33
Consensus pattern (19 bp):
TTTGGAGGGAAGTAAAAGT
Found at i:44819744 original size:29 final size:29
Alignment explanation
Indices: 44819697--44819752 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
44819687 CGCTGATAGC
*
44819697 TGAAACACAACACCGTCAATATTCACCCT
1 TGAAACACAACACCATCAATATTCACCCT
*
44819726 TGAAACACAACACTATCAATATTCACC
1 TGAAACACAACACCATCAATATTCACC
44819753 TTTCTCCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.41, C:0.32, G:0.05, T:0.21
Consensus pattern (29 bp):
TGAAACACAACACCATCAATATTCACCCT
Found at i:44825196 original size:20 final size:20
Alignment explanation
Indices: 44825171--44825210 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
44825161 GTTTGCAAGT
*
44825171 GGTCGAACTAGGTACGTTTC
1 GGTCGAACCAGGTACGTTTC
44825191 GGTCGAACCAGGTACGTTTC
1 GGTCGAACCAGGTACGTTTC
44825211 AAGCCTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.28
Consensus pattern (20 bp):
GGTCGAACCAGGTACGTTTC
Found at i:44829106 original size:40 final size:40
Alignment explanation
Indices: 44829052--44829276 Score: 292
Period size: 40 Copynumber: 5.6 Consensus size: 40
44829042 CTTGCACAAG
* * *
44829052 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
44829092 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
44829132 GCCTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
44829172 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * *
44829212 GCCTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAAT
44829253 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
44829277 CATTCGAATA
Statistics
Matches: 162, Mismatches: 18, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
39 3 0.02
40 129 0.80
41 27 0.17
42 3 0.02
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:44829928 original size:38 final size:38
Alignment explanation
Indices: 44829877--44829958 Score: 164
Period size: 38 Copynumber: 2.2 Consensus size: 38
44829867 ACCTACGGCT
44829877 GAACATACACATCAACTTATGTACTCATTCATGTGGCC
1 GAACATACACATCAACTTATGTACTCATTCATGTGGCC
44829915 GAACATACACATCAACTTATGTACTCATTCATGTGGCC
1 GAACATACACATCAACTTATGTACTCATTCATGTGGCC
44829953 GAACAT
1 GAACAT
44829959 GCATGTCTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (38 bp):
GAACATACACATCAACTTATGTACTCATTCATGTGGCC
Found at i:44833301 original size:37 final size:37
Alignment explanation
Indices: 44833251--44833440 Score: 344
Period size: 37 Copynumber: 5.1 Consensus size: 37
44833241 TTATTACGAA
* * * *
44833251 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
44833288 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
44833325 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
44833362 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
44833399 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
44833436 GTCTT
1 GTCTT
44833441 TAGAGCTCGG
Statistics
Matches: 149, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 149 1.00
ACGTcount: A:0.26, C:0.34, G:0.19, T:0.21
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
Found at i:44833734 original size:49 final size:47
Alignment explanation
Indices: 44833559--44833783 Score: 326
Period size: 47 Copynumber: 4.7 Consensus size: 47
44833549 CCTTTCGGGA
* * * * * *
44833559 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44833606 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44833653 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44833700 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
44833749 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
44833784 AGAATCCTAA
Statistics
Matches: 164, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.01
47 117 0.71
49 46 0.28
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:44833760 original size:96 final size:94
Alignment explanation
Indices: 44833559--44833783 Score: 335
Period size: 96 Copynumber: 2.4 Consensus size: 94
44833549 CCTTTCGGGA
* * * *
44833559 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCTTATCACATATATACAC
*
44833624 TTTCACATTCATCACATCGGCCATTAGGT
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
44833653 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCTTATCACA--TATATAC
44833718 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
44833749 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATCCATCACAT
44833784 AGAATCCTAA
Statistics
Matches: 118, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
94 50 0.42
95 1 0.01
96 67 0.57
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:44834835 original size:42 final size:42
Alignment explanation
Indices: 44834771--44834853 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
44834761 CTCTTTCCCC
*
44834771 TATCCGAAATTTGTGCCTCTTTTTGTCCTTGAGCTTAATTAT
1 TATCCGAAATTTGTGCCCCTTTTTGTCCTTGAGCTTAATTAT
44834813 TATCCGAAATTTGTGCCCCTTTTTGTCCTTGAGCTTAATTA
1 TATCCGAAATTTGTGCCCCTTTTTGTCCTTGAGCTTAATTA
44834854 AACAAATTCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.46
Consensus pattern (42 bp):
TATCCGAAATTTGTGCCCCTTTTTGTCCTTGAGCTTAATTAT
Found at i:44837321 original size:47 final size:47
Alignment explanation
Indices: 44837267--44837460 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
44837257 TTAGGATTTT
** * *
44837267 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
44837314 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
44837361 ATGTGATGAATGTGAGCAAGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
44837408 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
44837455 ATGTGA
1 ATGTGA
44837461 AATATGTATG
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:44837367 original size:22 final size:22
Alignment explanation
Indices: 44837296--44837367 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
44837286 GTATATATGA
44837296 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
44837318 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
44837343 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
44837365 GAT
1 GAT
44837368 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:44837493 original size:48 final size:48
Alignment explanation
Indices: 44837430--44837622 Score: 233
Period size: 48 Copynumber: 3.8 Consensus size: 48
44837420 TGAACATGCA
*
44837430 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
44837478 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * * * *
44837526 CATATGTGGTAAAGCTGAATGGTCAATATGAAATATATATATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGG-C----T--AATGT-GA-A-ATATGTATGAGATATG
*
44837584 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
44837623 GGCGATGTGC
Statistics
Matches: 123, Mismatches: 12, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
48 73 0.59
49 2 0.02
50 1 0.01
51 3 0.02
53 2 0.02
55 4 0.03
56 1 0.01
57 2 0.02
58 35 0.28
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:44837876 original size:37 final size:37
Alignment explanation
Indices: 44837768--44837876 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
44837758 GGAAATATAT
*
44837768 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
44837805 TACGGGTAAGACCCAATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
44837842 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
44837877 CGTCTGAGCT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:44842217 original size:6 final size:6
Alignment explanation
Indices: 44842206--44842240 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
44842196 AGATTTCCAA
* *
44842206 AAATGG AAATGG AAATGG AAATGA AAATTG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG
44842241 ATCCATTTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.54, C:0.00, G:0.26, T:0.20
Consensus pattern (6 bp):
AAATGG
Found at i:44856107 original size:2 final size:2
Alignment explanation
Indices: 44856100--44856167 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
44856090 ATATCACATT
44856100 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
44856142 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
44856168 TATACATATA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:44857867 original size:18 final size:18
Alignment explanation
Indices: 44857833--44857867 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44857823 GCCTATTCTG
*
44857833 TTTCTTTTCTTTGTTTCA
1 TTTCTTTTCTTTCTTTCA
*
44857851 TTTCTTTTTTTTCTTTC
1 TTTCTTTTCTTTCTTTC
44857868 TTTATTTCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTCTTTTCTTTCTTTCA
Found at i:44857901 original size:5 final size:5
Alignment explanation
Indices: 44857876--44857915 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
44857866 TCTTTATTTC
*
44857876 ATATA TATATA TTAGTA ATATA ATATA ATATA ATATA ATA
1 ATATA -ATATA ATA-TA ATATA ATATA ATATA ATATA ATA
44857916 ATAAGATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
5 22 0.71
6 9 0.29
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:44859671 original size:15 final size:17
Alignment explanation
Indices: 44859639--44859672 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
44859629 TGTTGATACT
44859639 TATGAATGTGAGTTTGG
1 TATGAATGTGAGTTTGG
44859656 TATGAAT-TGA-TTTGG
1 TATGAATGTGAGTTTGG
44859671 TA
1 TA
44859673 AATTATGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 3 0.18
17 7 0.41
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.44
Consensus pattern (17 bp):
TATGAATGTGAGTTTGG
Found at i:44866712 original size:22 final size:21
Alignment explanation
Indices: 44866671--44866712 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
44866661 CAAGGTTAAA
*
44866671 TAAGTAAATCAATAATAAACT
1 TAAGTAAATCAATAAAAAACT
44866692 TAAGTTAAAT-AATAACAAAAC
1 TAAG-TAAATCAATAA-AAAAC
44866713 AATGTATCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.60, C:0.10, G:0.05, T:0.26
Consensus pattern (21 bp):
TAAGTAAATCAATAAAAAACT
Found at i:44878226 original size:46 final size:46
Alignment explanation
Indices: 44878157--44878976 Score: 1282
Period size: 46 Copynumber: 17.8 Consensus size: 46
44878147 TAACTAGACA
* * * * *
44878157 TCCGAGCTCATTGAGTTGAGTCCGGGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* **
44878203 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG--GCGGGT-
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44878246 TAC-ATGA-TTGCTTGATTTTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGA--ACTCG-TTGA--GTTGAGTCCGAGTTCACTTATGGATGCGAATG
44878295 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
44878341 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
44878387 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
44878433 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
44878479 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
44878525 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
44878571 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
44878617 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
44878663 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
44878709 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
44878755 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
44878801 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
44878847 TCCGAACTCGTTGAGTTGAGTCC-AGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* * **
44878893 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
44878939 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
44878977 CGGGTTACAT
Statistics
Matches: 727, Mismatches: 27, Indels: 40
0.92 0.03 0.05
Matches are distributed among these distances:
42 1 0.00
43 4 0.01
44 9 0.01
45 7 0.01
46 682 0.94
47 6 0.01
48 12 0.02
49 5 0.01
50 1 0.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:44884241 original size:42 final size:42
Alignment explanation
Indices: 44884182--44884346 Score: 195
Period size: 42 Copynumber: 3.9 Consensus size: 42
44884172 ATTAGGGTTA
44884182 ATGAGACTACGTGTAAGACCATATCTGGGATATGGCATCAAT
1 ATGAGACTACGTGTAAGACCATATCTGGGATATGGCATCAAT
* * *
44884224 ATGAGGCTACGTGTAAGACCATATCTAGGATATGGCATAAAT
1 ATGAGACTACGTGTAAGACCATATCTGGGATATGGCATCAAT
** * * *
44884266 ATGAGACTTTGTGTAAGACCGTAGCTGGGCTATTGGCATCAAT
1 ATGAGACTACGTGTAAGACCATATCTGGGATA-TGGCATCAAT
* * * ** *
44884309 CTGATATTACAAGTAAGACCATATATGGGATATGGCAT
1 ATGAGACTACGTGTAAGACCATATCTGGGATATGGCAT
44884347 TGGTACGGTA
Statistics
Matches: 100, Mismatches: 22, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
42 70 0.70
43 30 0.30
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (42 bp):
ATGAGACTACGTGTAAGACCATATCTGGGATATGGCATCAAT
Found at i:44884340 original size:85 final size:84
Alignment explanation
Indices: 44884182--44884346 Score: 204
Period size: 85 Copynumber: 2.0 Consensus size: 84
44884172 ATTAGGGTTA
* * **
44884182 ATGAGACTACGTGTAAGACCATATCTGGGATATGGCATCAATATGAGGCTACGTGTAAGACCATA
1 ATGAGACTACGTGTAAGACCATAGCTGGGATATGGCATCAATATGAGACTACAAGTAAGACCATA
*
44884247 TCTAGGATATGGCATAAAT
66 TATAGGATATGGCATAAAT
** * * * * *
44884266 ATGAGACTTTGTGTAAGACCGTAGCTGGGCTATTGGCATCAATCTGATATTACAAGTAAGACCAT
1 ATGAGACTACGTGTAAGACCATAGCTGGGATA-TGGCATCAATATGAGACTACAAGTAAGACCAT
*
44884331 ATATGGGATATGGCAT
65 ATATAGGATATGGCAT
44884347 TGGTACGGTA
Statistics
Matches: 67, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
84 27 0.40
85 40 0.60
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (84 bp):
ATGAGACTACGTGTAAGACCATAGCTGGGATATGGCATCAATATGAGACTACAAGTAAGACCATA
TATAGGATATGGCATAAAT
Found at i:44887452 original size:21 final size:22
Alignment explanation
Indices: 44887428--44887468 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
44887418 TTTGCATTTA
*
44887428 TCAAATCCAAACATA-AGTCAT
1 TCAAATACAAACATATAGTCAT
*
44887449 TCAAATACAATCATATAGTC
1 TCAAATACAAACATATAGTC
44887469 CCTAACACGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.46, C:0.22, G:0.05, T:0.27
Consensus pattern (22 bp):
TCAAATACAAACATATAGTCAT
Found at i:44893128 original size:40 final size:40
Alignment explanation
Indices: 44893084--44893315 Score: 324
Period size: 40 Copynumber: 5.8 Consensus size: 40
44893074 ATAACCACAA
44893084 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
44893124 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
44893164 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
44893204 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
44893244 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
44893284 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
44893316 CATTCAAATG
Statistics
Matches: 165, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
39 6 0.04
40 152 0.92
41 7 0.04
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:44893191 original size:80 final size:80
Alignment explanation
Indices: 44893064--44893314 Score: 432
Period size: 80 Copynumber: 3.1 Consensus size: 80
44893054 TCTTCGGAAT
* * * * * * *
44893064 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
44893128 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
44893143 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
44893208 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
44893223 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
44893288 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
44893303 TTAGCCCGGATA
1 TTAGCCCGGATA
44893315 TCATTCAAAT
Statistics
Matches: 164, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
79 4 0.02
80 160 0.98
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:44896603 original size:28 final size:28
Alignment explanation
Indices: 44896570--44896659 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
44896560 ATCATTCAAC
44896570 CAATATGCCATATAAGGCACCTCAACAG
1 CAATATGCCATATAAGGCACCTCAACAG
* ** *
44896598 CAATAT-CAATAATCCAATATCA-TTCAAC--
1 CAATATGCCAT-AT--AA-GGCACCTCAACAG
44896626 CAATATGCCATATAAGGCACCTCAACAG
1 CAATATGCCATATAAGGCACCTCAACAG
44896654 CAATAT
1 CAATAT
44896660 CAAAATGACG
Statistics
Matches: 46, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
25 2 0.04
26 7 0.15
27 3 0.07
28 22 0.48
29 3 0.07
30 7 0.15
31 2 0.04
ACGTcount: A:0.42, C:0.27, G:0.09, T:0.22
Consensus pattern (28 bp):
CAATATGCCATATAAGGCACCTCAACAG
Done.