Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 158 of 171
Found at i:47102513 original size:19 final size:20
Alignment explanation
Indices: 47102456--47102514 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
47102446 TATATATATA
*
47102456 TATATATTTATTTAAAAAATT
1 TATATATTT-TTTAAGAAATT
* *
47102477 TAGAT-TTTTTTCAG-AATT
1 TATATATTTTTTAAGAAATT
47102495 TATATATTTTTT-AGAAATT
1 TATATATTTTTTAAGAAATT
47102514 T
1 T
47102515 TAATTTCATT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 10 0.31
19 15 0.47
20 3 0.09
21 4 0.12
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (20 bp):
TATATATTTTTTAAGAAATT
Found at i:47103521 original size:218 final size:218
Alignment explanation
Indices: 47103137--47103652 Score: 908
Period size: 218 Copynumber: 2.4 Consensus size: 218
47103127 GAAGAAAACT
* *
47103137 AGAAAA-TGCGGTGAACGTGGATCGAACACGTGACCTTCAGATCTTCAGTCTGACGCTCTCCCAA
1 AGAAAATTGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACGCTCTCCCAA
* *
47103201 CTGAGCTATCCCCGCAATTACGTTTTACCCTTGGTAAACCATAAATATTTAATGTGAAATGTTGA
66 CTGAGCTATCCCCGCAATTACATTTTACCCTTAGTAAACCATAAATATTTAATGTGAAATGTTGA
*
47103266 AAAAAGAAAAAACAACTGAGCTATCCCCTCAATTACTTTTTACCTTTAGTAAACGGCTAATATTT
131 AAAAAGAAAAAACAACTGAGCTATCCCCTCAATTACTTTTTACCTTTAGTAAACAGCTAATATTT
47103331 AATTTGAAATTTCGGAAAAGAAA
196 AATTTGAAATTTCGGAAAAGAAA
47103354 AGAAAATTGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACGCTCTCCCAA
1 AGAAAATTGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACGCTCTCCCAA
** * *
47103419 CTGAGCTATCCCCGCAATTACATTTTATTCTTAGTAAACGATAAATATTTAATGTGAAATTTTGA
66 CTGAGCTATCCCCGCAATTACATTTTACCCTTAGTAAACCATAAATATTTAATGTGAAATGTTGA
* *
47103484 AAAAGGAAAAAACAACTGAGCTATCCCCTCAATTACTTTTTACCTTTAGTAAACAGTTAATATTT
131 AAAAAGAAAAAACAACTGAGCTATCCCCTCAATTACTTTTTACCTTTAGTAAACAGCTAATATTT
47103549 AATTTGAAATTTCGGAAAAGAAA
196 AATTTGAAATTTCGGAAAAGAAA
* *
47103572 AGAAAATTGTGGTGAGCGTGGATCGAACAAGCGACCTTCAGATCTTCAGTCTGACGCTCTCCCAA
1 AGAAAATTGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACGCTCTCCCAA
47103637 CTGAGCTATCCCCGCA
66 CTGAGCTATCCCCGCA
47103653 TGCATTTTTA
Statistics
Matches: 285, Mismatches: 13, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
217 6 0.02
218 279 0.98
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (218 bp):
AGAAAATTGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACGCTCTCCCAA
CTGAGCTATCCCCGCAATTACATTTTACCCTTAGTAAACCATAAATATTTAATGTGAAATGTTGA
AAAAAGAAAAAACAACTGAGCTATCCCCTCAATTACTTTTTACCTTTAGTAAACAGCTAATATTT
AATTTGAAATTTCGGAAAAGAAA
Found at i:47103568 original size:80 final size:79
Alignment explanation
Indices: 47103416--47103572 Score: 210
Period size: 80 Copynumber: 2.0 Consensus size: 79
47103406 GACGCTCTCC
*
47103416 CAACTGAGCTATCCCCGCAATTACATTTTATTCTTAGTAAACGATAAATATTTAATGTGAAATTT
1 CAACTGAGCTATCCCCGCAATTACATTTTACTCTTAGTAAACGATAAATATTTAATGTGAAATTT
*
47103481 TGAAAAAGGAAAAAA
66 CGAAAAA-GAAAAAA
* * * *
47103496 CAACTGAGCTATCCCCTCAATTACTTTTTAC-CTTTAGTAAAC-AGTTAATATTTAATTTGAAAT
1 CAACTGAGCTATCCCCGCAATTACATTTTACTC-TTAGTAAACGA-TAAATATTTAATGTGAAAT
*
47103559 TTCGGAAAAGAAAA
64 TTCGAAAAAGAAAA
47103573 GAAAATTGTG
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
79 7 0.10
80 61 0.90
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.33
Consensus pattern (79 bp):
CAACTGAGCTATCCCCGCAATTACATTTTACTCTTAGTAAACGATAAATATTTAATGTGAAATTT
CGAAAAAGAAAAAA
Found at i:47115295 original size:22 final size:22
Alignment explanation
Indices: 47115247--47115298 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
47115237 AGCATGTAAA
* *
47115247 GTGCTCTCTGTTTAGCACATTT
1 GTGCTCTCTGTATAGCACACTT
*
47115269 GTGCTCTTTGTATAGCAC-CTT
1 GTGCTCTCTGTATAGCACACTT
47115290 GATGCTCTC
1 G-TGCTCTC
47115299 CGTTCATTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.13, C:0.25, G:0.19, T:0.42
Consensus pattern (22 bp):
GTGCTCTCTGTATAGCACACTT
Found at i:47119792 original size:50 final size:50
Alignment explanation
Indices: 47119720--47119818 Score: 146
Period size: 50 Copynumber: 2.0 Consensus size: 50
47119710 CCAAAATTTA
* * * *
47119720 GTTATTTCAACTATATTGAATGATAACT-AACCTATGGATATTTTAAAAAT
1 GTTACTTCAACTACATTAAATGATAACTCAA-CTATGAATATTTTAAAAAT
47119770 GTTACTTCAACTACATTAAATGATAACTCAACTATGAATATTTTAAAAA
1 GTTACTTCAACTACATTAAATGATAACTCAACTATGAATATTTTAAAAA
47119819 AGCGGTGAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 42 0.95
51 2 0.05
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.37
Consensus pattern (50 bp):
GTTACTTCAACTACATTAAATGATAACTCAACTATGAATATTTTAAAAAT
Found at i:47123401 original size:16 final size:18
Alignment explanation
Indices: 47123362--47123395 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47123352 TAAGTTTATA
47123362 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
47123379 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
47123396 AATTTAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:47126140 original size:14 final size:14
Alignment explanation
Indices: 47126118--47126147 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
47126108 CATTAGTTGG
47126118 TATTCTTATTAGGT
1 TATTCTTATTAGGT
*
47126132 TATTTTTATTAGGT
1 TATTCTTATTAGGT
47126146 TA
1 TA
47126148 GCAAATACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.03, G:0.13, T:0.60
Consensus pattern (14 bp):
TATTCTTATTAGGT
Found at i:47143401 original size:31 final size:31
Alignment explanation
Indices: 47143363--47143438 Score: 152
Period size: 31 Copynumber: 2.5 Consensus size: 31
47143353 TTTTACAAAT
47143363 GGATTAATTTGCTCTTGGGTCTACCGTATAA
1 GGATTAATTTGCTCTTGGGTCTACCGTATAA
47143394 GGATTAATTTGCTCTTGGGTCTACCGTATAA
1 GGATTAATTTGCTCTTGGGTCTACCGTATAA
47143425 GGATTAATTTGCTC
1 GGATTAATTTGCTC
47143439 ATTTTTGTAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.39
Consensus pattern (31 bp):
GGATTAATTTGCTCTTGGGTCTACCGTATAA
Found at i:47146499 original size:31 final size:31
Alignment explanation
Indices: 47146461--47146539 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
47146451 TTAATATAAT
*
47146461 ATTTGGTACCTGAACTTGATACTTTTTCTTA
1 ATTTGGTACCTGAACTTGATACTTTTTCCTA
47146492 ATTTGGTACCTGAACTTGATACTTTTTCCTA
1 ATTTGGTACCTGAACTTGATACTTTTTCCTA
*
47146523 ATTTGGTACCTAAACTT
1 ATTTGGTACCTGAACTT
47146540 TTTTGGACCC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.46
Consensus pattern (31 bp):
ATTTGGTACCTGAACTTGATACTTTTTCCTA
Found at i:47147683 original size:17 final size:17
Alignment explanation
Indices: 47147663--47147695 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
47147653 CTTTTAAATT
47147663 TTTTAAAATT-TTAAAAA
1 TTTT-AAATTATTAAAAA
47147680 TTTTAAATTATTAAAA
1 TTTTAAATTATTAAAA
47147696 GTAATACTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTAAATTATTAAAAA
Found at i:47147788 original size:22 final size:22
Alignment explanation
Indices: 47147730--47147789 Score: 75
Period size: 23 Copynumber: 2.7 Consensus size: 22
47147720 TTAAAATGAT
* *
47147730 AAAATTTTAATTTAATATTTTA
1 AAAATTATAATTTAATATTATA
* *
47147752 AAAATTATATTTTTATTATTATA
1 AAAATTATA-ATTTAATATTATA
47147775 AAAATTATAATTTAA
1 AAAATTATAATTTAA
47147790 ATTCGTCTCC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
22 12 0.39
23 19 0.61
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AAAATTATAATTTAATATTATA
Found at i:47151651 original size:14 final size:13
Alignment explanation
Indices: 47151617--47151659 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
47151607 AAACTCGAAC
47151617 CTCAAACCTTAAA
1 CTCAAACCTTAAA
*
47151630 CTCAAAACTTTAAA
1 CTC-AAACCTTAAA
*
47151644 TCTCAAACCTCAAA
1 -CTCAAACCTTAAA
47151658 CT
1 CT
47151660 TTGAATCCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
13 5 0.20
14 17 0.68
15 3 0.12
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.26
Consensus pattern (13 bp):
CTCAAACCTTAAA
Found at i:47151658 original size:21 final size:20
Alignment explanation
Indices: 47151626--47151679 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
47151616 CCTCAAACCT
47151626 TAAACTCAAAACTTTAAAT-C
1 TAAACTC-AAACTTTAAATCC
*
47151646 TCAAACCTCAAACTTTGAATCC
1 T-AAA-CTCAAACTTTAAATCC
47151668 TAAACTCAAACT
1 TAAACTCAAACT
47151680 CAAACCCTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 9 0.30
21 16 0.53
22 5 0.17
ACGTcount: A:0.44, C:0.26, G:0.02, T:0.28
Consensus pattern (20 bp):
TAAACTCAAACTTTAAATCC
Found at i:47151690 original size:26 final size:28
Alignment explanation
Indices: 47151640--47151691 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
47151630 CTCAAAACTT
**
47151640 TAAATCTCAAACCTCAAACTTTGAATCC
1 TAAATCTCAAACCTCAAACCCTGAATCC
47151668 TAAA-CTCAAA-CTCAAACCCTGAAT
1 TAAATCTCAAACCTCAAACCCTGAAT
47151692 TTAAATTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
27 6 0.27
28 4 0.18
ACGTcount: A:0.42, C:0.29, G:0.04, T:0.25
Consensus pattern (28 bp):
TAAATCTCAAACCTCAAACCCTGAATCC
Found at i:47151768 original size:34 final size:35
Alignment explanation
Indices: 47151694--47151768 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 35
47151684 CCCTGAATTT
* * * *
47151694 AAATTATCAAAATTATGTATTAATGACATGGGAAA
1 AAATTAGCAAAATTATATATCAATGACATGAGAAA
47151729 AAATTAGCAAAATTATATATCAATGACAT-AGAAA
1 AAATTAGCAAAATTATATATCAATGACATGAGAAA
47151763 AAATTA
1 AAATTA
47151769 CTGAAATATT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 10 0.28
35 26 0.72
ACGTcount: A:0.53, C:0.07, G:0.11, T:0.29
Consensus pattern (35 bp):
AAATTAGCAAAATTATATATCAATGACATGAGAAA
Found at i:47152485 original size:126 final size:126
Alignment explanation
Indices: 47152313--47152565 Score: 425
Period size: 126 Copynumber: 2.0 Consensus size: 126
47152303 AATCTTCTTC
*
47152313 CTTCTCTCCCAAGTCACTCCTCTACTCTTCCTTTATCCTATTCCTCTTAATCATCGACTCTCTGC
1 CTTCTCTCCCAAGTCACTCCTCTACTCTTCCTTTATCCTATTCCTCTTAATCATCGACTCTCCGC
* * * *
47152378 TCTATACGAATGAACTAAACACCACGTTCCTTTCCTTCTCCTTTTTGTTAACACTAGGTGT
66 TCTATACGAACGAACTAAACACCACATTCCTCTCCTTCTCCTCTTTGTTAACACTAGGTGT
*
47152439 CTTCTCTCCCAAGTCACTCCTCTACTCTTCCTTTATCCTCTTCCTCTTAATCATCGACTCTCCGC
1 CTTCTCTCCCAAGTCACTCCTCTACTCTTCCTTTATCCTATTCCTCTTAATCATCGACTCTCCGC
* * *
47152504 TGTATACGAGCGAACTAAACACCACATTCCTCTCTTTCTCCTCTTTGTTAACACTAGGTGT
66 TCTATACGAACGAACTAAACACCACATTCCTCTCCTTCTCCTCTTTGTTAACACTAGGTGT
47152565 C
1 C
47152566 AACCATCATA
Statistics
Matches: 118, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 118 1.00
ACGTcount: A:0.19, C:0.35, G:0.08, T:0.38
Consensus pattern (126 bp):
CTTCTCTCCCAAGTCACTCCTCTACTCTTCCTTTATCCTATTCCTCTTAATCATCGACTCTCCGC
TCTATACGAACGAACTAAACACCACATTCCTCTCCTTCTCCTCTTTGTTAACACTAGGTGT
Found at i:47153843 original size:28 final size:30
Alignment explanation
Indices: 47153779--47153843 Score: 89
Period size: 28 Copynumber: 2.2 Consensus size: 30
47153769 ACTTTCGAGG
*
47153779 AATTTGGGGATCAAAATTGAAATTTTTGGAA
1 AATTT-GGGATCAAAATTGAAATCTTTGGAA
*
47153810 AATTTGGGATTAAAATTG-AA-CTTTGGAA
1 AATTTGGGATCAAAATTGAAATCTTTGGAA
47153838 AATTTG
1 AATTTG
47153844 AGGGCGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
28 13 0.41
29 2 0.06
30 12 0.38
31 5 0.16
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.37
Consensus pattern (30 bp):
AATTTGGGATCAAAATTGAAATCTTTGGAA
Found at i:47153912 original size:30 final size:30
Alignment explanation
Indices: 47153831--47154020 Score: 101
Period size: 30 Copynumber: 6.4 Consensus size: 30
47153821 AAAATTGAAC
* * *
47153831 TTTGGAAAATTTGAGGGCGAAAAT-GTGATT
1 TTTGGAAAGTTTGGGGGC-AAAATGGTAATT
* * * *
47153861 TTTAG-ATGTTCGGGGGTAAAATGGTAA-T
1 TTTGGAAAGTTTGGGGGCAAAATGGTAATT
47153889 TTTGGAAAAGTTTGGGGGCAAAATGGTAATCTT
1 TTTGG-AAAGTTTGGGGGCAAAATGGTAA--TT
* * **
47153922 TTTGGACA--TTCGGGATAAAATGGTAATT
1 TTTGGAAAGTTTGGGGGCAAAATGGTAATT
* * *
47153950 TTTGG-ATGTTTGGGGGAAAAATGG-AAAT
1 TTTGGAAAGTTTGGGGGCAAAATGGTAATT
* * *
47153978 TTTGGAGAAGTTCGAGGGTCAAAAT-GTGATT
1 TTTGGA-AAGTTTG-GGGGCAAAATGGTAATT
47154009 TTTGTG-AAGTTT
1 TTTG-GAAAGTTT
47154021 AAGGGTTAAA
Statistics
Matches: 119, Mismatches: 28, Indels: 26
0.69 0.16 0.15
Matches are distributed among these distances:
28 25 0.21
29 22 0.18
30 49 0.41
31 14 0.12
32 3 0.03
33 6 0.05
ACGTcount: A:0.30, C:0.04, G:0.31, T:0.35
Consensus pattern (30 bp):
TTTGGAAAGTTTGGGGGCAAAATGGTAATT
Found at i:47154012 original size:31 final size:30
Alignment explanation
Indices: 47153975--47154039 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
47153965 GAAAAATGGA
* *
47153975 AATTTTGGAGAAGTTCGAGGGTCAAAATGT
1 AATTTTTGAGAAGTTCAAGGGTCAAAATGT
* * * *
47154005 GATTTTTGTGAAGTTTAAGGGTTAAAATGT
1 AATTTTTGAGAAGTTCAAGGGTCAAAATGT
47154035 AATTT
1 AATTT
47154040 CGGGGAAGTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.03, G:0.26, T:0.38
Consensus pattern (30 bp):
AATTTTTGAGAAGTTCAAGGGTCAAAATGT
Found at i:47154037 original size:89 final size:88
Alignment explanation
Indices: 47153850--47154039 Score: 204
Period size: 89 Copynumber: 2.1 Consensus size: 88
47153840 TTTGAGGGCG
* * * *
47153850 AAAATGTGATTTTTAGATGTTCGGGGGTAAAATGGTAATTTTGGAAAAGTTTGGGGGCAAAATGG
1 AAAATGTAATTTTTAGATGTTCGGGGGAAAAATGGAAATTTTGGAAAAGTTCGGGGGCAAAATGG
* *
47153915 TAATCTTTTTGGACATTCGGGAT
66 TAATCTTTTTGAACATTAGGGAT
* * * *
47153938 AAAATGGTAATTTTTGGATGTTTGGGGGAAAAATGGAAATTTTGGAGAAGTTCGAGGGTCAAAAT
1 AAAAT-GTAATTTTTAGATGTTCGGGGGAAAAATGGAAATTTTGGAAAAGTTCG-GGGGCAAAAT
* ** *
47154003 -GTGAT-TTTTGTGAAGTTTAAGGGTT
64 GGTAATCTTTT-TGAACATT-AGGGAT
47154028 AAAATGTAATTT
1 AAAATGTAATTT
47154040 CGGGGAAGTT
Statistics
Matches: 84, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
88 9 0.11
89 57 0.68
90 18 0.21
ACGTcount: A:0.32, C:0.04, G:0.29, T:0.36
Consensus pattern (88 bp):
AAAATGTAATTTTTAGATGTTCGGGGGAAAAATGGAAATTTTGGAAAAGTTCGGGGGCAAAATGG
TAATCTTTTTGAACATTAGGGAT
Found at i:47156661 original size:117 final size:115
Alignment explanation
Indices: 47156290--47156825 Score: 404
Period size: 117 Copynumber: 4.6 Consensus size: 115
47156280 TTGGCTGATA
* *
47156290 GTAATCTGCCCAAGCTCGGGGTAAAAGATCGAATGGCTGCAATCTGCCTTAGGCTCGAGGTAAGA
1 GTAATCTGCCCAGGCTCGGGGTAAAAGATCGAATGGCTGCAATCTGCCCTAGGCTCGAGGTAAGA
* * *
47156355 GATTAGTTGATGGTGATCTGTCCCAAGCTCGGGGTAAAAGATCGAATGGCT
66 GATTA-CTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGGCT
** * *
47156406 ACAATCTGCCCTAGGCTC-GGGTAAGAGATTGACTGATGG-TG--ATCTGCCCTAGGCTC-AGGG
1 GTAATCTGCCC-AGGCTCGGGGTAAAAGATCGA---ATGGCTGCAATCTGCCCTAGGCTCGA-GG
* * * * * * * * * *
47156466 TAAAAGA-T-CGGATGGTTGCAATTTACCCCAAACTTGGGGTAAGAGATTGG-TTGAT
61 TAAGAGATTACTGATGG-TG--ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGGCT
* * * * * * *
47156521 GGTGATCCGCCACTGGCTCGGGGTAAAAGATTGAATGGTTACAATCTGCCCCAGGCTCGAGGTAA
1 -GTAATCTGCC-CAGGCTCGGGGTAAAAGATCGAATGGCTGCAATCTGCCCTAGGCTCGAGGTAA
47156586 GAGATTGACTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGGCT
64 GAGATT-ACTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGGCT
* * * * * *
47156639 GTAATCTGCCTCAGGTTTGGGGTAAGAGATCGGATGGCTGTAATCTGCCCTAGGCTCGGGGTAAG
1 GTAATCTGCC-CAGGCTCGGGGTAAAAGATCGAATGGCTGCAATCTGCCCTAGGCTCGAGGTAAG
* * * * * ** * * * ** *
47156704 AGATTGAATGGTTGTAATTTGCCATAGGCTCGGGGTAAGAGATTGCCTGACT
65 AGATT-ACTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGGCT
* * * * * * * *
47156756 GTGATTTGCCCCAAGCTCGGGGTAAAAGATCGGATGACTGCAATCTGCCCCAAGCTTGAGGTAAG
1 GTAATCTG-CCCAGGCTCGGGGTAAAAGATCGAATGGCTGCAATCTGCCCTAGGCTCGAGGTAAG
47156821 AGATT
65 AGATT
47156826 GGCTGACTGC
Statistics
Matches: 324, Mismatches: 76, Indels: 39
0.74 0.17 0.09
Matches are distributed among these distances:
113 5 0.02
114 6 0.02
115 6 0.02
116 76 0.23
117 210 0.65
118 9 0.03
119 6 0.02
120 6 0.02
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (115 bp):
GTAATCTGCCCAGGCTCGGGGTAAAAGATCGAATGGCTGCAATCTGCCCTAGGCTCGAGGTAAGA
GATTACTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGGCT
Found at i:47156835 original size:39 final size:39
Alignment explanation
Indices: 47156253--47156834 Score: 336
Period size: 39 Copynumber: 15.0 Consensus size: 39
47156243 GGATGGTTAC
* * *
47156253 AATCTGCCTCTGGCTCGGGGTAAGAGATTGGCTGA-TAGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGATGACT-GT
* * * * * *
47156292 AATCTG-CCCAAGCTCGGGGTAAAAGATCGAATGGCTGC
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGATGACTGT
** * * *
47156330 AATCTGCCTTAGGCTCGAGGTAAGAGATTAGTTGA-TGGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGATGACT-GT
* * * * * * * **
47156369 GATCTGTCCCAAGCTCGGGGTAAAAGATCGAATGGCTAC
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGATGACTGT
*
47156408 AATCTGCCCTAGGCTC-GGGTAAGAGATT-GACTGA-TGGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGA-TGACT-GT
* * * * * ** *
47156446 GATCTGCCCTAGGCTCAGGGTAAAAGATCGGATGGTTGC
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGATGACTGT
* * ** * *
47156485 AATTTACCCCAAACTTGGGGTAAGAGATTGGTTGA-TGGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGATGACT-GT
* * * * * * ** **
47156524 GATCCGCCACTGGCTCGGGGTAAAAGATTGAATGGTTAC
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGATGACTGT
*
47156563 AATCTGCCCCAGGCTCGAGGTAAGAGATT-GACTGA-TGGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGA-TGACT-GT
* * * * *
47156602 GATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGGCTGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGATGACTGT
* * * * *
47156641 AATCTGCCTCAGGTTTGGGGTAAGAGATCGGATGGCTGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGATGACTGT
* * **
47156680 AATCTGCCCTAGGCTCGGGGTAAGAGATTGAATGGTTGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGATGACTGT
* ** **
47156719 AATTTGCCATAGGCTCGGGGTAAGAGATTGCCTGACTGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGATGACTGT
* * * * * *
47156758 GATTTGCCCCAAGCTCGGGGTAAAAGATCGGATGACTGC
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGATGACTGT
* * * *
47156797 AATCTGCCCCAAGCTTGAGGTAAGAGATTGGCTGACTG
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGATGACTG
47156835 CGATTTGTCC
Statistics
Matches: 400, Mismatches: 128, Indels: 30
0.72 0.23 0.05
Matches are distributed among these distances:
37 2 0.00
38 58 0.14
39 332 0.83
40 8 0.02
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (39 bp):
AATCTGCCCCAGGCTCGGGGTAAGAGATTGGATGACTGT
Found at i:47156852 original size:156 final size:156
Alignment explanation
Indices: 47156240--47156864 Score: 708
Period size: 156 Copynumber: 4.0 Consensus size: 156
47156230 TAGGTAAGAT
* * * *
47156240 ATTGGATGGTTACAATCTGCCTCT-GGCTCGGGGTAAGAGATTGGCTGATAGTAATCTG-CCCAA
1 ATTGAATGGTTACAATCTGCC-CTAGGCTCGGGGTAAGAGATTGACTGATGGTGATCTGCCCCAA
* ** * * *
47156303 GCTCGGGGTAAAAGATCGAATGGCTGCAATCTGCCTTAGGCTCGAGGTAAGAGATTAGTTGATGG
65 GCTCGGGGTAAAAGATCGGATGGCTGCAATCTGCCCCAAGCTTGAGGTAAGAGATTGGTTGATGG
* *
47156368 TGATCTGTCCCAAGCTCGGGGTAAAAG
130 TGATCTGTCCTATGCTCGGGGTAAAAG
* * * *
47156395 ATCGAATGGCTACAATCTGCCCTAGGCTC-GGGTAAGAGATTGACTGATGGTGATCTGCCCTAGG
1 ATTGAATGGTTACAATCTGCCCTAGGCTCGGGGTAAGAGATTGACTGATGGTGATCTGCCCCAAG
* * * * * *
47156459 CTCAGGGTAAAAGATCGGATGGTTGCAATTTACCCCAAACTTGGGGTAAGAGATTGGTTGATGGT
66 CTCGGGGTAAAAGATCGGATGGCTGCAATCTGCCCCAAGCTTGAGGTAAGAGATTGGTTGATGGT
*
47156524 GATCCG-CC-ACTGGCTCGGGGTAAAAG
131 GATCTGTCCTA-T-GCTCGGGGTAAAAG
* *
47156550 ATTGAATGGTTACAATCTGCCCCAGGCTCGAGGTAAGAGATTGACTGATGGTGATCTGCCCCAAG
1 ATTGAATGGTTACAATCTGCCCTAGGCTCGGGGTAAGAGATTGACTGATGGTGATCTGCCCCAAG
* * * * * * * *
47156615 CTCGGGGTAAAAGATCGGATGGCTGTAATCTGCCTCAGGTTTGGGGTAAGAGATCGGATGGCT-G
66 CTCGGGGTAAAAGATCGGATGGCTGCAATCTGCCCCAAGCTTGAGGTAAGAGATTGG-TTGATGG
* * * *
47156679 TAATCTGCCCTAGGCTCGGGGTAAGAG
130 TGATCTGTCCTATGCTCGGGGTAAAAG
** * * * *
47156706 ATTGAATGGTTGTAATTTGCCATAGGCTCGGGGTAAGAGATTGCCTGACT-GTGATTTGCCCCAA
1 ATTGAATGGTTACAATCTGCCCTAGGCTCGGGGTAAGAGATTGACTGA-TGGTGATCTGCCCCAA
* *
47156770 GCTCGGGGTAAAAGATCGGATGACTGCAATCTGCCCCAAGCTTGAGGTAAGAGATTGGCTGACT-
65 GCTCGGGGTAAAAGATCGGATGGCTGCAATCTGCCCCAAGCTTGAGGTAAGAGATTGGTTGA-TG
* *
47156834 GCGATTTGTCCTATGCTCGGGTGTAAAAG
129 GTGATCTGTCCTATGCTCGGG-GTAAAAG
47156863 AT
1 AT
47156865 CAAAATCTTC
Statistics
Matches: 391, Mismatches: 68, Indels: 20
0.82 0.14 0.04
Matches are distributed among these distances:
153 1 0.00
154 29 0.07
155 126 0.32
156 220 0.56
157 14 0.04
158 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.26
Consensus pattern (156 bp):
ATTGAATGGTTACAATCTGCCCTAGGCTCGGGGTAAGAGATTGACTGATGGTGATCTGCCCCAAG
CTCGGGGTAAAAGATCGGATGGCTGCAATCTGCCCCAAGCTTGAGGTAAGAGATTGGTTGATGGT
GATCTGTCCTATGCTCGGGGTAAAAG
Found at i:47156854 original size:78 final size:78
Alignment explanation
Indices: 47156252--47156831 Score: 583
Period size: 78 Copynumber: 7.5 Consensus size: 78
47156242 TGGATGGTTA
* * * * *
47156252 CAATCTGCCTCTGGCTCGGGGTAAGAGATTGGCTGATAGTAATCTG-CCCAAGCTCGGGGTAAAA
1 CAATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAA
47156316 GATCGAATGGCTG
66 GATCGAATGGCTG
** * * *
47156329 CAATCTGCCTTAGGCTCGAGGTAAGAGATTAGTTGATGGTGATCTGTCCCAAGCTCGGGGTAAAA
1 CAATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAA
*
47156394 GATCGAATGGCTA
66 GATCGAATGGCTG
* * * * *
47156407 CAATCTGCCCTAGGCTCG-GGTAAGAGATTGACTGATGGTGATCTGCCCTAGGCTCAGGGTAAAA
1 CAATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAA
* *
47156471 GATCGGATGGTTG
66 GATCGAATGGCTG
* * ** * * * * * **
47156484 CAATTTACCCCAAACTTGGGGTAAGAGATTGGTTGATGGTGATCCGCCACTGGCTCGGGGTAAAA
1 CAATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAA
* * *
47156549 GATTGAATGGTTA
66 GATCGAATGGCTG
*
47156562 CAATCTGCCCCAGGCTCGAGGTAAGAGATTGACTGATGGTGATCTGCCCCAAGCTCGGGGTAAAA
1 CAATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAA
*
47156627 GATCGGATGGCTG
66 GATCGAATGGCTG
* * * * * * * * * * * *
47156640 TAATCTGCCTCAGGTTTGGGGTAAGAGATCGGATGGCT-GTAATCTGCCCTAGGCTCGGGGTAAG
1 CAATCTGCCCCAGGCTCGAGGTAAGAGATTGGCT-GATGGTGATCTGCCCCAAGCTCGGGGTAAA
* *
47156704 AGATTGAATGGTTG
65 AGATCGAATGGCTG
* * ** * * *
47156718 TAATTTGCCATAGGCTCGGGGTAAGAGATTGCCTGACT-GTGATTTGCCCCAAGCTCGGGGTAAA
1 CAATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTGA-TGGTGATCTGCCCCAAGCTCGGGGTAAA
* *
47156782 AGATCGGATGACTG
65 AGATCGAATGGCTG
* *
47156796 CAATCTGCCCCAAGCTTGAGGTAAGAGATTGGCTGA
1 CAATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTGA
47156832 CTGCGATTTG
Statistics
Matches: 406, Mismatches: 93, Indels: 7
0.80 0.18 0.01
Matches are distributed among these distances:
77 101 0.25
78 303 0.75
79 2 0.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (78 bp):
CAATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAA
GATCGAATGGCTG
Found at i:47156914 original size:41 final size:41
Alignment explanation
Indices: 47156868--47156948 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
47156858 AAAAGATCAA
*
47156868 AATCTTCATTCTG-CACTTCTTGATTAAG-GTTAAAAGACTGG
1 AATCTTCAATCTGTC-CTTCTTGATTAAGAG-TAAAAGACTGG
47156909 AATCTTCAATCTGTCCTTCTTGATTAAGAGTAAAAGACTG
1 AATCTTCAATCTGTCCTTCTTGATTAAGAGTAAAAGACTG
47156949 AATGATGATG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
41 35 0.95
42 2 0.05
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (41 bp):
AATCTTCAATCTGTCCTTCTTGATTAAGAGTAAAAGACTGG
Found at i:47157309 original size:49 final size:48
Alignment explanation
Indices: 47157190--47157681 Score: 229
Period size: 49 Copynumber: 10.0 Consensus size: 48
47157180 TGTTTTCTAA
* * * * *
47157190 GGTATAGGGTTTGCCACTGCGACCTCAACCTTTCCCTT-AATATATTCTAA
1 GGTATA-GGTTCGCCATTGCGGCCTCAACCTTTCCCTTCAA-ATCTTC-AT
* * *
47157240 GGTACTAGGTTCGTCATTGCGGCCTCAACCTTTCCTTTGAAATCTTCAT
1 GGTA-TAGGTTCGCCATTGCGGCCTCAACCTTTCCCTTCAAATCTTCAT
* * *
47157289 GGTATAGGGTTCGCCATTGCGGCCTCAACCTTTCCCATCACATCTTCTT
1 GGTATA-GGTTCGCCATTGCGGCCTCAACCTTTCCCTTCAAATCTTCAT
* * *
47157338 AGG-ATCAGGTTCACCATTGCGGCCTCAACCTTTCCCTTCATATCTTTAT
1 -GGTAT-AGGTTCGCCATTGCGGCCTCAACCTTTCCCTTCAAATCTTCAT
* * * * * * * *
47157387 GGTACCAGGTTCGCCGTTACGGCCTCGACCTTTCCCATCACATCTTTTAA
1 GGTA-TAGGTTCGCCATTGCGGCCTCAACCTTTCCCTTCAAATC-TTCAT
** * * * ** * ** **
47157437 GGTATCAGAATCACCGTCGCAACCTCAATCTTTCCCTTCGTATCTTTGT
1 GGTAT-AGGTTCGCCATTGCGGCCTCAACCTTTCCCTTCAAATCTTCAT
** * * * ** *
47157486 GGTACCGAGTTCACCGTTGCGGCTTCAACCTTT-CCTATCACCTCTTCTAA
1 GGTATAG-GTTCGCCATTGCGGCCTCAACCTTTCCCT-TCAAATCTTC-AT
** * * **
47157536 GGTACT-GGATTCATCGTCGCGGCCTCAATCC-TTCCCTTCATCTCTTCAT
1 GGTA-TAGG-TTCGCCATTGCGGCCTCAA-CCTTTCCCTTCAAATCTTCAT
* * * * * * *
47157585 GGTATCGGGTTTGCAATTGCGGCCTCAACCTTTCTCATCACATCTTCTT
1 GGTAT-AGGTTCGCCATTGCGGCCTCAACCTTTCCCTTCAAATCTTCAT
** * * * *
47157634 AGGTACCGGGTTCACCATTGTGGCCTTAACCTTTCCCTTCACATCTTC
1 -GGTA-TAGGTTCGCCATTGCGGCCTCAACCTTTCCCTTCAAATCTTC
47157682 TAAGGTACCG
Statistics
Matches: 340, Mismatches: 81, Indels: 42
0.73 0.17 0.09
Matches are distributed among these distances:
48 11 0.03
49 176 0.52
50 144 0.42
51 9 0.03
ACGTcount: A:0.18, C:0.31, G:0.17, T:0.34
Consensus pattern (48 bp):
GGTATAGGTTCGCCATTGCGGCCTCAACCTTTCCCTTCAAATCTTCAT
Found at i:47157489 original size:99 final size:98
Alignment explanation
Indices: 47157258--47157691 Score: 388
Period size: 99 Copynumber: 4.4 Consensus size: 98
47157248 GTTCGTCATT
* * * * * **
47157258 GCGGCCTCAACCTTTCCTTTGAAATCTTCATGGTATAGGGTTCGCCATTGCGGCCTCAACCTTTC
1 GCGGCCTCAATCTTTCCCTTCATATCTTTATGGTA-CCGGTTCGCCATTGCGGCCTCAACCTTTC
* * *
47157323 CCATCACATCTTCTTAGG-ATCAGGTTCACCATT
65 CCATCACATCTTCTTAGGTATCAGATTCACCGTC
* * * *
47157356 GCGGCCTCAACCTTTCCCTTCATATCTTTATGGTACCAGGTTCGCCGTTACGGCCTCGACCTTTC
1 GCGGCCTCAATCTTTCCCTTCATATCTTTATGGTACC-GGTTCGCCATTGCGGCCTCAACCTTTC
*
47157421 CCATCACATCTT-TTAAGGTATCAGAATCACCGTC
65 CCATCACATCTTCTT-AGGTATCAGATTCACCGTC
** * * * * *
47157455 GCAACCTCAATCTTTCCCTTCGTATCTTTGTGGTACCGAGTTCACCGTTGCGGCTTCAACCTTTC
1 GCGGCCTCAATCTTTCCCTTCATATCTTTATGGTACCG-GTTCGCCATTGCGGCCTCAACCTTTC
* * * * *
47157520 CTATCACCTCTTCTAAGGTA-CTGGATTCATCGTC
65 CCATCACATCTTCTTAGGTATC-AGATTCACCGTC
* * * * * *
47157554 GCGGCCTCAATCCTTCCCTTCATCTCTTCATGGTATCGGGTTTGCAATTGCGGCCTCAACCTTTC
1 GCGGCCTCAATCTTTCCCTTCATATCTTTATGGTA-CCGGTTCGCCATTGCGGCCTCAACCTTTC
* * * * * *
47157619 TCATCACATCTTCTTAGGTACCGGGTTCACCATT
65 CCATCACATCTTCTTAGGTATCAGATTCACCGTC
* * * * *
47157653 GTGGCCTTAACCTTTCCCTTCACATCTTCTAAGGTACCG
1 GCGGCCTCAATCTTTCCCTTCATATCTT-TATGGTACCG
47157692 AATTCACCGT
Statistics
Matches: 269, Mismatches: 58, Indels: 17
0.78 0.17 0.05
Matches are distributed among these distances:
97 2 0.01
98 72 0.27
99 186 0.69
100 9 0.03
ACGTcount: A:0.18, C:0.32, G:0.17, T:0.33
Consensus pattern (98 bp):
GCGGCCTCAATCTTTCCCTTCATATCTTTATGGTACCGGTTCGCCATTGCGGCCTCAACCTTTCC
CATCACATCTTCTTAGGTATCAGATTCACCGTC
Found at i:47157558 original size:50 final size:49
Alignment explanation
Indices: 47157258--47157817 Score: 244
Period size: 49 Copynumber: 11.3 Consensus size: 49
47157248 GTTCGTCATT
* * * ** * * * *
47157258 GCGGCCTCAACCTTTCCTTTGAAATCTTC-ATGGTATAGGGTTCGCCATT
1 GCGGCCTCAACCTTTCC-TTCACATCTTCTAAGGTACCGGATTCACCGTC
* * * * *
47157307 GCGGCCTCAACCTTTCCCATCACATCTTCTTAGG-ATCAGG-TTCACCATT
1 GCGGCCTCAACCTTT-CCTTCACATCTTCTAAGGTA-CCGGATTCACCGTC
* * * *
47157356 GCGGCCTCAACCTTTCCCTTCATATCTT-TATGGTACCAGG-TTCGCCGTT
1 GCGGCCTCAACCTTT-CCTTCACATCTTCTAAGGTACC-GGATTCACCGTC
* * * * * * *
47157405 ACGGCCTCGACCTTTCCCATCACATCTTTTAAGGTATCAGAATCACCGTC
1 GCGGCCTCAACCTTT-CCTTCACATCTTCTAAGGTACCGGATTCACCGTC
** * ** ** *
47157455 GCAACCTCAATCTTTCCCTTCGTATCTT-TGTGGTACC-GAGTTCACCGTT
1 GCGGCCTCAACCTTT-CCTTCACATCTTCTAAGGTACCGGA-TTCACCGTC
* * * *
47157504 GCGGCTTCAACCTTTCCTATCACCTCTTCTAAGGTACTGGATTCATCGTC
1 GCGGCCTCAACCTTTCCT-TCACATCTTCTAAGGTACCGGATTCACCGTC
* * * * ** ** *
47157554 GCGGCCTCAATCCTTCCCTTCATC-TCTTC-ATGGTATCGGGTTTGCAATT
1 GCGGCCTCAA-CCTTTCCTTCA-CATCTTCTAAGGTACCGGATTCACCGTC
* * * * *
47157603 GCGGCCTCAACCTTTCTCATCACATCTTCTTAGGTACCGGGTTCACCATT
1 GCGGCCTCAACCTTTC-CTTCACATCTTCTAAGGTACCGGATTCACCGTC
* * *
47157653 GTGGCCTTAACCTTTCCCTTCACATCTTCTAAGGTACCGAATTCACCGTC
1 GCGGCCTCAACCTTT-CCTTCACATCTTCTAAGGTACCGGATTCACCGTC
* * * * * * * * *
47157703 GCGACATCAATCCTTTCCTTCGTC-TCTTC-ATGATACCGGGTTCATCATT
1 GCGGCCTCAA-CCTTTCCTTC-ACATCTTCTAAGGTACCGGATTCACCGTC
* * * * ****
47157752 GC-GACTCAACCTTTCCCATCACATCTTTTTAGGTATTATATTCACCGTC
1 GCGGCCTCAACCTTT-CCTTCACATCTTCTAAGGTACCGGATTCACCGTC
47157801 GCGGCCTCAATCCTTTC
1 GCGGCCTCAA-CCTTTC
47157818 TTGTCAAACC
Statistics
Matches: 380, Mismatches: 107, Indels: 47
0.71 0.20 0.09
Matches are distributed among these distances:
47 6 0.02
48 27 0.07
49 178 0.47
50 147 0.39
51 22 0.06
ACGTcount: A:0.18, C:0.32, G:0.16, T:0.34
Consensus pattern (49 bp):
GCGGCCTCAACCTTTCCTTCACATCTTCTAAGGTACCGGATTCACCGTC
Found at i:47157665 original size:149 final size:147
Alignment explanation
Indices: 47157486--47157786 Score: 383
Period size: 149 Copynumber: 2.0 Consensus size: 147
47157476 GTATCTTTGT
* * * * *
47157486 GGTACCGAGTTCACCGTTGCGGCTTCAACCTTT-CCTATCACCTCTTCTAAGGTACTGGATTCAT
1 GGTACCGAGTTCACCATTGCGGCTTCAACCTTTCCCT-TCACATCTTCTAAGGTACCGAATTCAC
* * * * *
47157550 CGTCGCGGCCTCAATCCTTCCCTTCATCTCTTCATGGTATCGGGTTTGCA-ATTGCGGCCTCAAC
65 CGTCGCGACATCAATCCTTCCCTTCATCTCTTCATGATACCGGG-TT-CACATTGC-GACTCAAC
*
47157614 CTTTCTCATCACATCTTCTTA
127 CTTTCCCATCACATCTTCTTA
* *
47157635 GGTACCGGGTTCACCATTGTGGCCTT-AACCTTTCCCTTCACATCTTCTAAGGTACCGAATTCAC
1 GGTACCGAGTTCACCATTGCGG-CTTCAACCTTTCCCTTCACATCTTCTAAGGTACCGAATTCAC
* *
47157699 CGTCGCGACATCAATCCTTTCCTTCGTCTCTTCATGATACCGGGTTCATCATTGCGACTCAACCT
65 CGTCGCGACATCAATCCTTCCCTTCATCTCTTCATGATACCGGGTTCA-CATTGCGACTCAACCT
*
47157764 TTCCCATCACATCTTTTTA
129 TTCCCATCACATCTTCTTA
47157783 GGTA
1 GGTA
47157787 TTATATTCAC
Statistics
Matches: 132, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
147 2 0.02
148 32 0.24
149 92 0.70
150 6 0.05
ACGTcount: A:0.18, C:0.32, G:0.16, T:0.34
Consensus pattern (147 bp):
GGTACCGAGTTCACCATTGCGGCTTCAACCTTTCCCTTCACATCTTCTAAGGTACCGAATTCACC
GTCGCGACATCAATCCTTCCCTTCATCTCTTCATGATACCGGGTTCACATTGCGACTCAACCTTT
CCCATCACATCTTCTTA
Found at i:47158626 original size:22 final size:23
Alignment explanation
Indices: 47158600--47158662 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 23
47158590 TTCACCTCGA
47158600 CCTCTCCTTTTTCTTT-TTTTTT
1 CCTCTCCTTTTTCTTTCTTTTTT
* *
47158622 CCTCTTCTTTTTTTTTCTTTTTT
1 CCTCTCCTTTTTCTTTCTTTTTT
47158645 --T-T-CTTTTTCTTTCTTTTT
1 CCTCTCCTTTTTCTTTCTTTTT
47158663 ATTTATTCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.41
20 1 0.03
21 1 0.03
22 14 0.38
23 6 0.16
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (23 bp):
CCTCTCCTTTTTCTTTCTTTTTT
Found at i:47158634 original size:15 final size:14
Alignment explanation
Indices: 47158609--47158662 Score: 72
Period size: 15 Copynumber: 3.6 Consensus size: 14
47158599 ACCTCTCCTT
47158609 TTTCTTTTTTTTTCC
1 TTTCTTTTTTTTT-C
47158624 TCTTCTTTTTTTTTC
1 T-TTCTTTTTTTTTC
*
47158639 TTTTTTTTCTTTTTC
1 TTTCTTTT-TTTTTC
47158654 TTTCTTTTT
1 TTTCTTTTT
47158663 ATTTATTCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
14 7 0.20
15 16 0.46
16 12 0.34
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTCTTTTTTTTTC
Found at i:47158644 original size:9 final size:9
Alignment explanation
Indices: 47158630--47158662 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
47158620 TTCCTCTTCT
47158630 TTTTTTTTC
1 TTTTTTTTC
47158639 TTTTTTTTC
1 TTTTTTTTC
47158648 TTTTTCTTTC
1 TTTTT-TTTC
47158658 TTTTT
1 TTTTT
47158663 ATTTATTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:47158647 original size:25 final size:26
Alignment explanation
Indices: 47158606--47158662 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
47158596 TCGACCTCTC
47158606 CTTTTTCTTTTTTTTTCCTCTTCTTT
1 CTTTTTCTTTTTTTTTCCTCTTCTTT
* * *
47158632 TTTTTTC-TTTTTTTTCTTTTTCTTT
1 CTTTTTCTTTTTTTTTCCTCTTCTTT
47158657 CTTTTT
1 CTTTTT
47158663 ATTTATTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 21 0.78
26 6 0.22
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (26 bp):
CTTTTTCTTTTTTTTTCCTCTTCTTT
Found at i:47159480 original size:22 final size:22
Alignment explanation
Indices: 47159445--47159488 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
47159435 TTCGTCTTGA
47159445 CTTTCCTTTCTTCTCTTTCTTTT
1 CTTTCCTTTCTTCTCTTT-TTTT
*
47159468 CTTT-CTTTTTTCTCTTTTTTT
1 CTTTCCTTTCTTCTCTTTTTTT
47159489 ATTGGGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 12 0.60
23 4 0.20
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (22 bp):
CTTTCCTTTCTTCTCTTTTTTT
Found at i:47163750 original size:30 final size:30
Alignment explanation
Indices: 47163725--47163789 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
47163715 ATTTTTGAGG
47163725 AATTTGGGATCAAAATTGAAATTTTTGGAA
1 AATTTGGGATCAAAATTGAAATTTTTGGAA
* *
47163755 AATTTGGGATTAAAATTG-AACTTTTGGAA
1 AATTTGGGATCAAAATTGAAATTTTTGGAA
47163784 AATTTG
1 AATTTG
47163790 AGGTCGAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.38
Consensus pattern (30 bp):
AATTTGGGATCAAAATTGAAATTTTTGGAA
Found at i:47163810 original size:30 final size:29
Alignment explanation
Indices: 47163725--47163812 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 29
47163715 ATTTTTGAGG
*
47163725 AATTTGGGATCAAAATTGAAATTTTTGGAA
1 AATTTGGGATGAAAATTG-AATTTTTGGAA
* *
47163755 AATTTGGGATTAAAATTGAACTTTTGGAA
1 AATTTGGGATGAAAATTGAATTTTTGGAA
47163784 AATTTGAGG-TCGAAAATGTG-ATTTTTGGA
1 AATTTG-GGAT-GAAAAT-TGAATTTTTGGA
47163813 CGTTCAGGGG
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
29 17 0.33
30 32 0.63
31 2 0.04
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (29 bp):
AATTTGGGATGAAAATTGAATTTTTGGAA
Found at i:47163856 original size:29 final size:28
Alignment explanation
Indices: 47163796--47164018 Score: 157
Period size: 29 Copynumber: 7.7 Consensus size: 28
47163786 TTTGAGGTCG
*
47163796 AAAAT-GTGATTTTTGGACGTTCAGGGGT
1 AAAATGGTAATTTTTGGACGTTC-GGGGT
*
47163824 -AAATGGTAATTTTTGGATGTTCGTGGGT
1 AAAATGGTAATTTTTGGACGTTCG-GGGT
* * * *
47163852 TAAATTGTAGTTTTTGGACATTCGAGGGT
1 AAAATGGTAATTTTTGGACGTTCG-GGGT
* * *
47163881 AAAATGGT-AGTTTTGGAAAAGTTTGGGGT
1 AAAATGGTAATTTTTGG--ACGTTCGGGGT
* **
47163910 CAAAATGGTAATCTTTTTGGACATTCGGGAC
1 -AAAATGGTAA--TTTTTGGACGTTCGGGGT
* *
47163941 AAAATGGTAATTTTTGGATGTTCGGGAGC
1 AAAATGGTAATTTTTGGACGTTCGGG-GT
* * *
47163970 AAAATGATAATTTTTGGATGTTCGGAGGCA
1 AAAATGGTAATTTTTGGACGTTCGG-GG-T
*
47164000 AAAAT-ATAATTTTTGGACG
1 AAAATGGTAATTTTTGGACG
47164019 AACAAGGGCA
Statistics
Matches: 157, Mismatches: 26, Indels: 23
0.76 0.13 0.11
Matches are distributed among these distances:
27 5 0.03
28 39 0.25
29 72 0.46
30 28 0.18
31 7 0.04
33 6 0.04
ACGTcount: A:0.29, C:0.07, G:0.28, T:0.36
Consensus pattern (28 bp):
AAAATGGTAATTTTTGGACGTTCGGGGT
Found at i:47163944 original size:30 final size:30
Alignment explanation
Indices: 47163910--47163984 Score: 100
Period size: 28 Copynumber: 2.5 Consensus size: 30
47163900 AGTTTGGGGT
47163910 CAAAATGGTAATCTTTTTGGACATTCGGGA-
1 CAAAATGGTAAT-TTTTTGGACATTCGGGAG
**
47163940 CAAAATGGTAA-TTTTTGGATGTTCGGGAG
1 CAAAATGGTAATTTTTTGGACATTCGGGAG
*
47163969 CAAAATGATAATTTTT
1 CAAAATGGTAATTTTT
47163985 GGATGTTCGG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
28 15 0.38
29 10 0.25
30 15 0.38
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (30 bp):
CAAAATGGTAATTTTTTGGACATTCGGGAG
Found at i:47164069 original size:30 final size:30
Alignment explanation
Indices: 47164022--47164174 Score: 122
Period size: 30 Copynumber: 5.1 Consensus size: 30
47164012 TTGGACGAAC
47164022 AAGGG-CAAAATGATAATTTTGGAAAAGTTT
1 AAGGGTCAAAAT-ATAATTTTGGAAAAGTTT
* *
47164052 AAGGGTCAAAATGTAATTTT-TACAAAG-TT
1 AAGGGTCAAAATATAATTTTGGA-AAAGTTT
* *
47164081 -AGAGGCCAAAATATGATTTATGTG--AAGTTT
1 AAG-GGTCAAAATATAATTT-TG-GAAAAGTTT
* *
47164111 AAGGGTTAAAATATAATTTTGGAGAAGTTT
1 AAGGGTCAAAATATAATTTTGGAAAAGTTT
* * *
47164141 AGGGGTTAAAATATAATTTT-TAGAAAGTTT
1 AAGGGTCAAAATATAATTTTGGA-AAAGTTT
47164171 AAGG
1 AAGG
47164175 ATTTTTTAAG
Statistics
Matches: 99, Mismatches: 13, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
28 3 0.03
29 22 0.22
30 66 0.67
31 8 0.08
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.34
Consensus pattern (30 bp):
AAGGGTCAAAATATAATTTTGGAAAAGTTT
Found at i:47164091 original size:89 final size:88
Alignment explanation
Indices: 47163994--47164169 Score: 203
Period size: 89 Copynumber: 2.0 Consensus size: 88
47163984 TGGATGTTCG
* *
47163994 GAGGCAAAAATATAATTTTTG-GACGAACAAGGG-CAAAATGATAATTTTGGAAAAGTTTAAGGG
1 GAGGC-AAAATATAATTTATGTGAAGAACAAGGGTCAAAAT-ATAATTTTGGAAAAGTTTAAGGG
*
47164057 TCAAAATGTAATTTTTACAAAGTTA
64 TCAAAATATAATTTTTACAAAGTTA
* *** * * *
47164082 GAGGCCAAAATATGATTTATGTGAAGTTTAAGGGTTAAAATATAATTTTGGAGAAGTTTAGGGGT
1 GAGG-CAAAATATAATTTATGTGAAGAACAAGGGTCAAAATATAATTTTGGAAAAGTTTAAGGGT
* *
47164147 TAAAATATAATTTTTAGAAAGTT
65 CAAAATATAATTTTTACAAAGTT
47164170 TAAGGATTTT
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
88 17 0.23
89 51 0.70
90 5 0.07
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.33
Consensus pattern (88 bp):
GAGGCAAAATATAATTTATGTGAAGAACAAGGGTCAAAATATAATTTTGGAAAAGTTTAAGGGTC
AAAATATAATTTTTACAAAGTTA
Found at i:47164931 original size:3 final size:3
Alignment explanation
Indices: 47164923--47164951 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
47164913 TTTTTGAGTT
47164923 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
47164952 TGCAAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:47165818 original size:14 final size:14
Alignment explanation
Indices: 47165784--47165821 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
47165774 AATTGGGCCC
47165784 AATTGAGTTTGTAA
1 AATTGAGTTTGTAA
*
47165798 AAATGAGTCTTGT-A
1 AATTGAGT-TTGTAA
47165812 AATTGAGTTT
1 AATTGAGTTT
47165822 AAAATTTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 2 0.10
14 15 0.71
15 4 0.19
ACGTcount: A:0.34, C:0.03, G:0.21, T:0.42
Consensus pattern (14 bp):
AATTGAGTTTGTAA
Found at i:47166176 original size:17 final size:15
Alignment explanation
Indices: 47166148--47166182 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
47166138 AGTTTATACT
47166148 AAAAAATTAAAATTA
1 AAAAAATTAAAATTA
47166163 AAAAAATATAAAAATTA
1 AAAAAAT-T-AAAATTA
47166180 AAA
1 AAA
47166183 TTGATGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 1 0.06
17 10 0.56
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAAAATTAAAATTA
Found at i:47169153 original size:14 final size:13
Alignment explanation
Indices: 47169129--47169176 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
47169119 CAAAATGTAC
47169129 AATATAATTAAAT
1 AATATAATTAAAT
47169142 AATATAAATTAAAT
1 AATAT-AATTAAAT
47169156 --TA-AATTAAAT
1 AATATAATTAAAT
*
47169166 AATTTAATTAA
1 AATATAATTAA
47169177 CTATTTACCC
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
10 8 0.27
12 3 0.10
13 11 0.37
14 8 0.27
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AATATAATTAAAT
Found at i:47169167 original size:19 final size:18
Alignment explanation
Indices: 47169134--47169176 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
47169124 TGTACAATAT
47169134 AATTAAATAATATAAATTA
1 AATTAAATAATAT-AATTA
*
47169153 AATTAAATTAA-ATAATTT
1 AATTAAA-TAATATAATTA
47169171 AATTAA
1 AATTAA
47169177 CTATTTACCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 10 0.45
19 9 0.41
20 3 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATTAAATAATATAATTA
Found at i:47176674 original size:48 final size:48
Alignment explanation
Indices: 47176603--47176698 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
47176593 GGTAGACAAG
*
47176603 TATGGCGTTTGATTTATGATAAGGATACCCTGTGTTTTAAGGTCCTTA
1 TATGGCGTTTGATTTATAATAAGGATACCCTGTGTTTTAAGGTCCTTA
47176651 TATGGCGTTTGATTTATAATAAGGATACCCTGTGTTTTAAGGTCCTTA
1 TATGGCGTTTGATTTATAATAAGGATACCCTGTGTTTTAAGGTCCTTA
47176699 GCTCAAAACA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.42
Consensus pattern (48 bp):
TATGGCGTTTGATTTATAATAAGGATACCCTGTGTTTTAAGGTCCTTA
Found at i:47178119 original size:22 final size:22
Alignment explanation
Indices: 47178094--47178140 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
47178084 CTCTATTTTT
*
47178094 ATAATGTTATTAGTTAGTTTAA
1 ATAATGTTATTAGTTAATTTAA
47178116 ATAATGTTATTAGTTAATTTAA
1 ATAATGTTATTAGTTAATTTAA
47178138 ATA
1 ATA
47178141 GTTAATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (22 bp):
ATAATGTTATTAGTTAATTTAA
Found at i:47181711 original size:17 final size:17
Alignment explanation
Indices: 47181679--47181712 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
47181669 ACTTGAGATT
*
47181679 TTTGAATTTATATTAAG
1 TTTGAATTAATATTAAG
*
47181696 TTTGAATTAATTTTAAG
1 TTTGAATTAATATTAAG
47181713 ATTTATTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (17 bp):
TTTGAATTAATATTAAG
Found at i:47181722 original size:17 final size:17
Alignment explanation
Indices: 47181702--47181764 Score: 58
Period size: 17 Copynumber: 3.7 Consensus size: 17
47181692 TAAGTTTGAA
47181702 TTAATTTTAAGATTT-AT
1 TTAATTTTAA-ATTTAAT
* **
47181719 TTAAATTTAAATTTGTT
1 TTAATTTTAAATTTAAT
47181736 TTGAA-TTTAAATTTAAT
1 TT-AATTTTAAATTTAAT
*
47181753 TTAATTTAAAAT
1 TTAATTTTAAAT
47181765 GATTTTAAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
16 6 0.16
17 30 0.79
18 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (17 bp):
TTAATTTTAAATTTAAT
Found at i:47181726 original size:6 final size:6
Alignment explanation
Indices: 47181717--47181791 Score: 50
Period size: 6 Copynumber: 13.2 Consensus size: 6
47181707 TTTAAGATTT
* * *
47181717 ATTTAA ATTTAA ATTT-G TTTTGA ATTTAA ATTT-A ATTT-A ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
* * * * *
47181762 A-ATGA TTTTAA ACTTAA ACTTAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A
47181792 ATGTCCATGT
Statistics
Matches: 53, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
5 15 0.28
6 38 0.72
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (6 bp):
ATTTAA
Found at i:47182578 original size:3 final size:3
Alignment explanation
Indices: 47182563--47182627 Score: 51
Period size: 3 Copynumber: 21.7 Consensus size: 3
47182553 AACGTTTTGT
* * * * *
47182563 TAA TAA CAA TAA TAA TAA TAT TAA TAA TAT TAA TAAA TAA TAT TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
* *
47182609 TAA TAA -AA AAA TAT TAA TA
1 TAA TAA TAA TAA TAA TAA TA
47182628 GCAAAAAATA
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
2 2 0.04
3 44 0.90
4 3 0.06
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:47182587 original size:9 final size:9
Alignment explanation
Indices: 47182570--47182614 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
47182560 TGTTAATAAC
*
47182570 AATAATAAT
1 AATATTAAT
47182579 AATATTAAT
1 AATATTAAT
47182588 AATATTAAT
1 AATATTAAT
47182597 AA-A-TAAT
1 AATATTAAT
*
47182604 ATTATTAAT
1 AATATTAAT
47182613 AA
1 AA
47182615 AAAAATATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
7 5 0.16
8 2 0.06
9 24 0.77
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AATATTAAT
Found at i:47182609 original size:16 final size:16
Alignment explanation
Indices: 47182564--47182627 Score: 69
Period size: 16 Copynumber: 4.0 Consensus size: 16
47182554 ACGTTTTGTT
* *
47182564 AATAACAATAATAATA
1 AATAATAATATTAATA
47182580 ATATTAATAATATTAATA
1 A-A-TAATAATATTAATA
*
47182598 AATAATATTATTAATA
1 AATAATAATATTAATA
47182614 AA-AA-AATATTAATA
1 AATAATAATATTAATA
47182628 GCAAAAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
14 9 0.21
15 2 0.05
16 16 0.38
17 2 0.05
18 13 0.31
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
AATAATAATATTAATA
Found at i:47183407 original size:29 final size:30
Alignment explanation
Indices: 47183375--47183539 Score: 239
Period size: 30 Copynumber: 5.6 Consensus size: 30
47183365 TACATGTTAA
47183375 CCCAAAACTTTTCCAAAATTATA-TTTGAC
1 CCCAAAACTTTTCCAAAATTATATTTTGAC
* *
47183404 CCCAAAAC-TTTCTAAAAATTACATTTTGAC
1 CCCAAAACTTTTC-CAAAATTATATTTTGAC
47183434 CCCAAAACTTTTCCAAAATTATATTTTGAC
1 CCCAAAACTTTTCCAAAATTATATTTTGAC
* * *
47183464 CTCAAAACCTTTCCAAAATTACATTTTGAC
1 CCCAAAACTTTTCCAAAATTATATTTTGAC
*
47183494 CCCAAAACTTTTCCAAAATCATATTTTGAC
1 CCCAAAACTTTTCCAAAATTATATTTTGAC
47183524 CCCAAAA--TTTCCAAAA
1 CCCAAAACTTTTCCAAAA
47183540 AATTGCATTT
Statistics
Matches: 122, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
28 13 0.11
29 16 0.13
30 89 0.73
31 4 0.03
ACGTcount: A:0.39, C:0.25, G:0.03, T:0.33
Consensus pattern (30 bp):
CCCAAAACTTTTCCAAAATTATATTTTGAC
Found at i:47183434 original size:30 final size:30
Alignment explanation
Indices: 47183361--47183593 Score: 207
Period size: 30 Copynumber: 7.8 Consensus size: 30
47183351 AATTGTCCAG
* *
47183361 AAATTACATGTT-AACCCAAAACTTT-TCCA
1 AAATTACATTTTGACCCCAAAACTTTCT-CA
* *
47183390 AAATTATA-TTTGACCCCAAAACTTTCTAA
1 AAATTACATTTTGACCCCAAAACTTTCTCA
47183419 AAATTACATTTTGACCCCAAAACTTT-TCCA
1 AAATTACATTTTGACCCCAAAACTTTCT-CA
* *
47183449 AAATTATATTTTGACCTCAAAACCTTTC-CA
1 AAATTACATTTTGACCCCAAAA-CTTTCTCA
47183479 AAATTACATTTTGACCCCAAAACTTT-TCCA
1 AAATTACATTTTGACCCCAAAACTTTCT-CA
* *
47183509 AAATCATATTTTGACCCCAAAA-TTTC-CAAA
1 AAATTACATTTTGACCCCAAAACTTTCTC--A
* * * *
47183539 AAATTGCATTTTTACCCCCGAAACTTTC-AA
1 AAATTACATTTTGA-CCCCAAAACTTTCTCA
*
47183569 AAATTACCATTTT-ACCCCCAAACTT
1 AAATTA-CATTTTGACCCCAAAACTT
47183594 CCCTAAATCC
Statistics
Matches: 170, Mismatches: 20, Indels: 28
0.78 0.09 0.13
Matches are distributed among these distances:
28 3 0.02
29 45 0.26
30 101 0.59
31 17 0.10
32 4 0.02
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.33
Consensus pattern (30 bp):
AAATTACATTTTGACCCCAAAACTTTCTCA
Found at i:47183490 original size:60 final size:59
Alignment explanation
Indices: 47183356--47183593 Score: 279
Period size: 60 Copynumber: 4.0 Consensus size: 59
47183346 CCCTAAATTG
* *
47183356 TCCAGAAATTACATGTT-AACCCAAAACTTTTCCAAAATTATA-TTTGACCCCAAAACTT
1 TCCA-AAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTGACCCCAAAACTT
* *
47183414 TCTAAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTGACCTCAAAACCTT
1 TC-CAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTGACCCCAAAA-CTT
*
47183475 TCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATCATATTTTGACCCCAAAA-TT
1 TCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTGACCCCAAAACTT
* * * * * *
47183533 TCCAAAAAATTGCATTTTTACCCCCGAAAC-TTTCAAAAATTACCATTTT-ACCCCCAAACTT
1 TCC--AAAATTACATTTTGA-CCCCAAAACTTTTCCAAAATTA-TATTTTGACCCCAAAACTT
47183594 CCCTAAATCC
Statistics
Matches: 157, Mismatches: 14, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
58 18 0.11
59 25 0.16
60 94 0.60
61 20 0.13
ACGTcount: A:0.38, C:0.26, G:0.04, T:0.33
Consensus pattern (59 bp):
TCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTGACCCCAAAACTT
Found at i:47183542 original size:90 final size:91
Alignment explanation
Indices: 47183375--47183593 Score: 245
Period size: 90 Copynumber: 2.4 Consensus size: 91
47183365 TACATGTTAA
* * *
47183375 CCCAAAACTTTTCCAAAATTATA-TTTGACCCCAAAAC-TTTCTAAAAATTACATTTTGACCCCA
1 CCCAAAACCTTTCCAAAATTACATTTTGACCCCAAAACTTTTCTAAAAATCACATTTTGACCCCA
*
47183438 AAACTTTTCCAAAATTATATTTTGA-C
66 AAAC-TTTCCAAAATTACATTTTGACC
* * *
47183464 CTCAAAACCTTTCCAAAATTACATTTTGACCCCAAAACTTTTC-CAAAATCATATTTTGACCCCA
1 CCCAAAACCTTTCCAAAATTACATTTTGACCCCAAAACTTTTCTAAAAATCACATTTTGACCCCA
* *
47183528 AAA-TTTCCAAAAAATTGCATTTTTACC
66 AAACTTTCC--AAAATTACATTTTGACC
* * *
47183555 CCCGAAA-CTTTCAAAAATTACCATTTT-ACCCCCAAACTT
1 CCCAAAACCTTTCCAAAATTA-CATTTTGACCCCAAAACTT
47183594 CCCTAAATCC
Statistics
Matches: 111, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
88 5 0.05
89 20 0.18
90 70 0.63
91 16 0.14
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.33
Consensus pattern (91 bp):
CCCAAAACCTTTCCAAAATTACATTTTGACCCCAAAACTTTTCTAAAAATCACATTTTGACCCCA
AAACTTTCCAAAATTACATTTTGACC
Found at i:47183601 original size:29 final size:29
Alignment explanation
Indices: 47183548--47183610 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
47183538 AAAATTGCAT
*
47183548 TTTTACCCCCGAAACTTTCAAAAATTACCA
1 TTTTACCCCCGAAACTTCCAAAAA-TACCA
** *
47183578 TTTTACCCCC-AAACTTCCCTAAATCCCA
1 TTTTACCCCCGAAACTTCCAAAAATACCA
47183606 TTTTA
1 TTTTA
47183611 AACCCTAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 9 0.31
29 10 0.34
30 10 0.34
ACGTcount: A:0.32, C:0.33, G:0.02, T:0.33
Consensus pattern (29 bp):
TTTTACCCCCGAAACTTCCAAAAATACCA
Found at i:47196270 original size:76 final size:77
Alignment explanation
Indices: 47196143--47196289 Score: 233
Period size: 76 Copynumber: 1.9 Consensus size: 77
47196133 CACAAGATCA
* **
47196143 TTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTTTTTA-TCTCTGAAATTGAAGTA
1 TTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTTACTCTCTGAAATTGAAGTA
47196207 AGAGCGACATCT
66 AGAGCGACATCT
* *
47196219 TTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGCCTTTGTCTCTCTGAAATTGAAGT
1 TTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTT-ACTCTCTGAAATTGAAGT
47196284 AAGAGC
65 AAGAGC
47196290 AAGATGAAGC
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
76 42 0.66
78 22 0.34
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.34
Consensus pattern (77 bp):
TTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTTACTCTCTGAAATTGAAGTA
AGAGCGACATCT
Found at i:47196369 original size:91 final size:91
Alignment explanation
Indices: 47196211--47197038 Score: 1363
Period size: 91 Copynumber: 9.1 Consensus size: 91
47196201 GAAGTAAGAG
*
47196211 CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGCCTTTGTCTCTCTGAA
1 CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAA
47196276 ATTGAAGTAAGAGCAAGATGAAGCAC
66 ATTGAAGTAAGAGCAAGATGAAGCAC
*
47196302 CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTAAA
1 CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAA
* *
47196367 ATTGAAGTAAGAGCTAGATAAAGCATC
66 ATTGAAGTAAGAGCAAGATGAAGCA-C
** * *
47196394 AAACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTAGATAACAAGCCTTTGTCTCTCTGAA
1 CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAA
47196459 ATTGAAGTAAGAGCAAGATGAAGCAC
66 ATTGAAGTAAGAGCAAGATGAAGCAC
* * *
47196485 CGACATTTTTTCCTATCTTCTTGAAATTGAAGTAGAACTGGATATCAAGCCTTTGTCTCTCTGAA
1 CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAA
* *
47196550 GTTGAAGTAAGAGCTAGATGAAGCAC
66 ATTGAAGTAAGAGCAAGATGAAGCAC
* * *
47196576 CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGATTGGTTATCAAGCCTTTGTCCCTCTGA
1 CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAG-CTGGATATCAAGCCTTTGTCTCTCTGA
47196641 AATTGAAGTAAGAGCAAGATGAAGCAC
65 AATTGAAGTAAGAGCAAGATGAAGCAC
47196668 CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAA
1 CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAA
* *
47196733 GTTGAAGTAAGAGCTAGATGAAGCAC
66 ATTGAAGTAAGAGCAAGATGAAGCAC
*
47196759 CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGACTGGATATCAAGCCTTTGTCCCTCTGA
1 CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAG-CTGGATATCAAGCCTTTGTCTCTCTGA
47196824 AATTGAAGTAAGAGCAAGATGAAGCAC
65 AATTGAAGTAAGAGCAAGATGAAGCAC
47196851 CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAA
1 CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAA
47196916 ATTGAAGTAAGAGCAAGATGAAGCAC
66 ATTGAAGTAAGAGCAAGATGAAGCAC
* * * * * *
47196942 CGACATCTTTTCCTATCCTTTTGAAGTT-ATAGTAAAGATGGATATCAAGTCTTTATCTCTCTGA
1 CGACATCTTTTCCTATCCTCTTGAAATTGA-AGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGA
* *
47197006 AATTGAAGTAAGAGCAAGAT-AAACCC
65 AATTGAAGTAAGAGCAAGATGAAGCAC
47197032 CGACATC
1 CGACATC
47197039 AAACCCTACT
Statistics
Matches: 688, Mismatches: 45, Indels: 9
0.93 0.06 0.01
Matches are distributed among these distances:
90 12 0.02
91 418 0.61
92 258 0.38
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (91 bp):
CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAA
ATTGAAGTAAGAGCAAGATGAAGCAC
Found at i:47196528 original size:183 final size:182
Alignment explanation
Indices: 47196211--47197038 Score: 1381
Period size: 183 Copynumber: 4.5 Consensus size: 182
47196201 GAAGTAAGAG
*
47196211 CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGCCTTTGTCTCTCTGAA
1 CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAA
47196276 ATTGAAGTAAGAGCAAGATGAAGCACCGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCT
66 ATTGAAGTAAGAGCAAGATGAAGCACCGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCT
* *
47196341 GGATATCAAGCCTTTGTCTCTCTAAAATTGAAGTAAGAGCTAGATAAAGCATC
131 GGATATCAAGCCTTTGTCTCTCTGAAATTGAAGTAAGAGCTAGATGAAGCA-C
** * *
47196394 AAACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTAGATAACAAGCCTTTGTCTCTCTGAA
1 CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAA
* * *
47196459 ATTGAAGTAAGAGCAAGATGAAGCACCGACATTTTTTCCTATCTTCTTGAAATTGAAGTAGAACT
66 ATTGAAGTAAGAGCAAGATGAAGCACCGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCT
*
47196524 GGATATCAAGCCTTTGTCTCTCTGAAGTTGAAGTAAGAGCTAGATGAAGCAC
131 GGATATCAAGCCTTTGTCTCTCTGAAATTGAAGTAAGAGCTAGATGAAGCAC
* * *
47196576 CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGATTGGTTATCAAGCCTTTGTCCCTCTGA
1 CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAG-CTGGATATCAAGCCTTTGTCTCTCTGA
47196641 AATTGAAGTAAGAGCAAGATGAAGCACCGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGC
65 AATTGAAGTAAGAGCAAGATGAAGCACCGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGC
*
47196706 TGGATATCAAGCCTTTGTCTCTCTGAAGTTGAAGTAAGAGCTAGATGAAGCAC
130 TGGATATCAAGCCTTTGTCTCTCTGAAATTGAAGTAAGAGCTAGATGAAGCAC
*
47196759 CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGACTGGATATCAAGCCTTTGTCCCTCTGA
1 CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAG-CTGGATATCAAGCCTTTGTCTCTCTGA
47196824 AATTGAAGTAAGAGCAAGATGAAGCACCGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGC
65 AATTGAAGTAAGAGCAAGATGAAGCACCGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGC
*
47196889 TGGATATCAAGCCTTTGTCTCTCTGAAATTGAAGTAAGAGCAAGATGAAGCAC
130 TGGATATCAAGCCTTTGTCTCTCTGAAATTGAAGTAAGAGCTAGATGAAGCAC
* * * * * *
47196942 CGACATCTTTTCCTATCCTTTTGAAGTT-ATAGTAAAGATGGATATCAAGTCTTTATCTCTCTGA
1 CGACATCTTTTCCTATCCTCTTGAAATTGA-AGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGA
* *
47197006 AATTGAAGTAAGAGCAAGAT-AAACCCCGACATC
65 AATTGAAGTAAGAGCAAGATGAAGCACCGACATC
47197039 AAACCCTACT
Statistics
Matches: 611, Mismatches: 32, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
181 11 0.02
182 80 0.13
183 520 0.85
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (182 bp):
CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAA
ATTGAAGTAAGAGCAAGATGAAGCACCGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCT
GGATATCAAGCCTTTGTCTCTCTGAAATTGAAGTAAGAGCTAGATGAAGCAC
Found at i:47196719 original size:274 final size:273
Alignment explanation
Indices: 47196211--47197038 Score: 1363
Period size: 274 Copynumber: 3.0 Consensus size: 273
47196201 GAAGTAAGAG
* *
47196211 CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGCCTTTGTCTCTCTGAA
1 CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAACTGGATATCAAGCCTTTGTCTCTCTGAA
47196276 ATTGAAGTAAGAGCAAGATGAAGCACCGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCT
66 ATTGAAGTAAGAGCAAGATGAAGCACCGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCT
* * * **
47196341 GGATATCAAGCCTTTGTCTCTCTAAAATTGAAGTAAGAGCTAGATAAAGCATCAAACATCTTTTC
131 GGATATCAAGCCTTTGTCTCTCTGAAATTGAAGTAAGAGCAAGATGAAGCA-CCGACATCTTTTC
* *
47196406 CTATCCTCTTGAAATTGAAGTAGAGCTAGATAACAAGCCTTTGTCTCTCTGAAATTGAAGTAAGA
195 CTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAAATTGAAGTAAGA
47196471 GCAAGATGAAGCAC
260 GCAAGATGAAGCAC
* *
47196485 CGACATTTTTTCCTATCTTCTTGAAATTGAAGTAGAACTGGATATCAAGCCTTTGTCTCTCTGAA
1 CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAACTGGATATCAAGCCTTTGTCTCTCTGAA
* * *
47196550 GTTGAAGTAAGAGCTAGATGAAGCACCGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGAT
66 ATTGAAGTAAGAGCAAGATGAAGCACCGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAG-C
* *
47196615 TGGTTATCAAGCCTTTGTCCCTCTGAAATTGAAGTAAGAGCAAGATGAAGCACCGACATCTTTTC
130 TGGATATCAAGCCTTTGTCTCTCTGAAATTGAAGTAAGAGCAAGATGAAGCACCGACATCTTTTC
*
47196680 CTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAAGTTGAAGTAAGA
195 CTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAAATTGAAGTAAGA
*
47196745 GCTAGATGAAGCAC
260 GCAAGATGAAGCAC
*
47196759 CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGACTGGATATCAAGCCTTTGTCCCTCTGA
1 CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGA-ACTGGATATCAAGCCTTTGTCTCTCTGA
47196824 AATTGAAGTAAGAGCAAGATGAAGCACCGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGC
65 AATTGAAGTAAGAGCAAGATGAAGCACCGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGC
47196889 TGGATATCAAGCCTTTGTCTCTCTGAAATTGAAGTAAGAGCAAGATGAAGCACCGACATCTTTTC
130 TGGATATCAAGCCTTTGTCTCTCTGAAATTGAAGTAAGAGCAAGATGAAGCACCGACATCTTTTC
* * * * * *
47196954 CTATCCTTTTGAAGTT-ATAGTAAAGATGGATATCAAGTCTTTATCTCTCTGAAATTGAAGTAAG
195 CTATCCTCTTGAAATTGA-AGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAAATTGAAGTAAG
* *
47197018 AGCAAGAT-AAACCC
259 AGCAAGATGAAGCAC
47197032 CGACATC
1 CGACATC
47197039 AAACCCTACT
Statistics
Matches: 515, Mismatches: 36, Indels: 7
0.92 0.06 0.01
Matches are distributed among these distances:
273 12 0.02
274 367 0.71
275 136 0.26
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (273 bp):
CGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAACTGGATATCAAGCCTTTGTCTCTCTGAA
ATTGAAGTAAGAGCAAGATGAAGCACCGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCT
GGATATCAAGCCTTTGTCTCTCTGAAATTGAAGTAAGAGCAAGATGAAGCACCGACATCTTTTCC
TATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAAATTGAAGTAAGAG
CAAGATGAAGCAC
Found at i:47196825 original size:41 final size:42
Alignment explanation
Indices: 47196775--47196924 Score: 121
Period size: 41 Copynumber: 3.4 Consensus size: 42
47196765 CTTTTCCTAT
47196775 CCTCTTGAAATTGAAGTAGAGACTGGATATCAAGCCTTTGTC
1 CCTCTTGAAATTGAAGTAGAGACTGGATATCAAGCCTTTGTC
** * *
47196817 CCTC-TGAAATTGAAGTA-AGAGCAAGATGAAGCACCGACATCTTT-TCC
1 CCTCTTGAAATTGAAGTAGAGA-CTGGAT--ATCA-AG-C--CTTTGT-C
47196864 TATCCTCTTGAAATTGAAGTAGAG-CTGGATATCAAGCCTTTGTC
1 ---CCTCTTGAAATTGAAGTAGAGACTGGATATCAAGCCTTTGTC
*
47196908 TCTC-TGAAATTGAAGTA
1 CCTCTTGAAATTGAAGTA
47196925 AGAGCAAGAT
Statistics
Matches: 85, Mismatches: 9, Indels: 30
0.69 0.07 0.24
Matches are distributed among these distances:
40 16 0.19
41 20 0.24
42 4 0.05
43 3 0.04
44 6 0.07
45 2 0.02
46 2 0.02
47 6 0.07
48 3 0.04
50 8 0.09
51 13 0.15
52 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (42 bp):
CCTCTTGAAATTGAAGTAGAGACTGGATATCAAGCCTTTGTC
Found at i:47197335 original size:6 final size:6
Alignment explanation
Indices: 47197324--47197398 Score: 50
Period size: 6 Copynumber: 13.2 Consensus size: 6
47197314 TTTAAGATTT
* * *
47197324 ATTTAA ATTTAA ATTT-G TTTTGA ATTTAA ATTT-A A-TTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
* * * * *
47197369 A-ATGA TTTTAA ACTTAA ACTTAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A
47197399 ATGTCCATGT
Statistics
Matches: 52, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
4 2 0.04
5 9 0.17
6 41 0.79
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (6 bp):
ATTTAA
Found at i:47197371 original size:17 final size:16
Alignment explanation
Indices: 47197314--47197369 Score: 67
Period size: 17 Copynumber: 3.4 Consensus size: 16
47197304 TTGAATTACT
47197314 TTTAAGATTTATTTAAA
1 TTTAA-ATTTATTTAAA
* *
47197331 TTTAAATTTGTTTTGAA
1 TTTAAATTT-ATTTAAA
*
47197348 TTTAAATTTAATTAAA
1 TTTAAATTTATTTAAA
47197364 TTTAAA
1 TTTAAA
47197370 ATGATTTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
16 14 0.42
17 19 0.58
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:47197386 original size:33 final size:33
Alignment explanation
Indices: 47197315--47197391 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 33
47197305 TGAATTACTT
* * * *
47197315 TTAAGATTTATTTAAATTTAAATTTGTTTTGAAT
1 TTAA-ATTTAATTAAATTTAAATATGTTTTAAAC
47197349 TTAAATTTAATTAAATTTAAA-ATGATTTTAAAC
1 TTAAATTTAATTAAATTTAAATATG-TTTTAAAC
*
47197382 TTAAACTTAA
1 TTAAATTTAA
47197392 ATTTAAAATG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 2 0.05
33 31 0.84
34 4 0.11
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (33 bp):
TTAAATTTAATTAAATTTAAATATGTTTTAAAC
Found at i:47198195 original size:9 final size:9
Alignment explanation
Indices: 47198183--47198220 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
47198173 TAACAATAAT
47198183 ATAATATTA
1 ATAATATTA
47198192 ATAATATTA
1 ATAATATTA
47198201 ATAA-A-TA
1 ATAATATTA
*
47198208 ATATTATTA
1 ATAATATTA
47198217 ATAA
1 ATAA
47198221 AAAAACATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
7 5 0.20
8 2 0.08
9 18 0.72
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
ATAATATTA
Found at i:47198211 original size:22 final size:23
Alignment explanation
Indices: 47198177--47198219 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
47198167 TGTTAATAAC
47198177 AATAATATAATATTAATAATATT
1 AATAATATAATATTAATAATATT
*
47198200 AATAA-ATAATATTATTAATA
1 AATAATATAATATTAATAATA
47198220 AAAAAACATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AATAATATAATATTAATAATATT
Found at i:47198215 original size:16 final size:16
Alignment explanation
Indices: 47198177--47198233 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
47198167 TGTTAATAAC
*
47198177 AATAATA-TAAT-ATT
1 AATAATATTAATAAAT
47198191 AATAATATTAATAAAT
1 AATAATATTAATAAAT
*
47198207 AATATTATTAATAAA-
1 AATAATATTAATAAAT
*
47198222 AA-AACATTAATA
1 AATAATATTAATA
47198234 GCAAAAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
14 15 0.41
15 6 0.16
16 16 0.43
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
AATAATATTAATAAAT
Found at i:47199175 original size:30 final size:29
Alignment explanation
Indices: 47199120--47199326 Score: 175
Period size: 30 Copynumber: 6.9 Consensus size: 29
47199110 GTAAGTCCCT
* *
47199120 AAATTGTCCAGAAATTACATGTTGACCCTAA
1 AAATTTTCCA-AAATTACATTTTGACCC-AA
* *
47199151 AAATTTTCCAAAATTATATTTTGACCCCA
1 AAATTTTCCAAAATTACATTTTGACCCAA
* *
47199180 AAACTTTCTAAAAATTACATTTTGACCCCAA
1 AAATTTTC-CAAAATTACATTTTGA-CCCAA
*
47199211 AACTTTTCCAAAATTACATTTTGACCCCAA
1 AAATTTTCCAAAATTACATTTTGA-CCCAA
* * * *
47199241 AACTTTTCCAAAATCATATTTTGACCCCA
1 AAATTTTCCAAAATTACATTTTGACCCAA
* * **
47199270 AAA-TTTCCAAAAAATTGCATTTTTACCCCG
1 AAATTTTCC--AAAATTACATTTTGACCCAA
* *
47199300 AAACTTTCAAAAATTACCATTTT-ACCC
1 AAATTTTCCAAAATTA-CATTTTGACCC
47199327 CTAAACTTCC
Statistics
Matches: 148, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
28 5 0.03
29 24 0.16
30 96 0.65
31 23 0.16
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (29 bp):
AAATTTTCCAAAATTACATTTTGACCCAA
Found at i:47199224 original size:60 final size:60
Alignment explanation
Indices: 47199131--47199334 Score: 238
Period size: 60 Copynumber: 3.4 Consensus size: 60
47199121 AATTGTCCAG
* * * *
47199131 AAATTACATGTTGACCCTAAAAATTTTCCAAAATTATATTTTGACCCCAAAACTTTCTAA
1 AAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTCTAA
*
47199191 AAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTT-TCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTCT-AA
* * * * *
47199251 AAATCATATTTTGACCCCAAAA--TTTCCAAAAAATTGCATTTTTACCCCGAAACTTTC-AA
1 AAATTACATTTTGACCCCAAAACTTTTCC--AAAATTACATTTTGACCCCAAAACTTTCTAA
*
47199310 AAATTACCATTTT-ACCCCTAAACTT
1 AAATTA-CATTTTGACCCCAAAACTT
47199335 CCCTAAATCC
Statistics
Matches: 123, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
58 5 0.04
59 15 0.12
60 102 0.83
61 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.34
Consensus pattern (60 bp):
AAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTCTAA
Found at i:47199284 original size:90 final size:89
Alignment explanation
Indices: 47199126--47199334 Score: 278
Period size: 90 Copynumber: 2.3 Consensus size: 89
47199116 CCCTAAATTG
* * * * *
47199126 TCCAGAAATTACATGTTGACCCTAAAAATTTTCCAAAATTATATTTTGACCCCAAAACTTTCTAA
1 TCCA-AAATTACATTTTGACCCCAAAACTTTTCCAAAATCATATTTTGACCCCAAAACTTTCAAA
47199191 AAATTACATTTTGACCCCAAAACTTT
65 AAATTACATTTTGACCCCAAAAC-TT
47199217 TCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATCATATTTTGACCCCAAAA-TTTCCAAA
1 TCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATCATATTTTGACCCCAAAACTTT-CAAA
* * *
47199281 AAATTGCATTTTTACCCCGAAACTT
65 AAATTACATTTTGACCCCAAAACTT
* *
47199306 TCAAAAATTACCATTTT-ACCCCTAAACTT
1 TCCAAAATTA-CATTTTGACCCCAAAACTT
47199335 CCCTAAATCC
Statistics
Matches: 106, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
89 25 0.24
90 77 0.73
91 4 0.04
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.33
Consensus pattern (89 bp):
TCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATCATATTTTGACCCCAAAACTTTCAAAA
AATTACATTTTGACCCCAAAACTT
Found at i:47199342 original size:29 final size:28
Alignment explanation
Indices: 47199168--47199351 Score: 79
Period size: 30 Copynumber: 6.2 Consensus size: 28
47199158 CCAAAATTAT
* *
47199168 ATTTTGACCCCAAAACTTTCTAAAAATTA-C
1 ATTTT-ACCCCGAAAC-TTCCAAAAA-TACC
* *
47199198 ATTTTGACCCCAAAACTTTTCCAAAATTA-C
1 ATTTT-ACCCCGAAAC--TTCCAAAAATACC
* *
47199228 ATTTTGACCCCAAAACTTTTCC-AAAAT-CAT
1 ATTTT-ACCCCGAAAC--TTCCAAAAATAC-C
* * **
47199258 ATTTTGACCCCAAAATTTCCAAAAAATTGC
1 ATTTT-ACCCCGAAACTTCC-AAAAATACC
*
47199288 ATTTTTACCCCGAAACTTTCAAAAATTACC
1 A-TTTTACCCCGAAACTTCCAAAAA-TACC
* ** *
47199318 ATTTTACCCCTAAACTTCCCTAAATCCC
1 ATTTTACCCCGAAACTTCCAAAAATACC
47199346 ATTTTA
1 ATTTTA
47199352 AACCCCGATT
Statistics
Matches: 129, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
28 13 0.10
29 28 0.22
30 76 0.59
31 12 0.09
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (28 bp):
ATTTTACCCCGAAACTTCCAAAAATACC
Found at i:47210207 original size:19 final size:19
Alignment explanation
Indices: 47210174--47210236 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
47210164 TTTTTAAAAC
*
47210174 TATAAA-TTTTGGAATTTT
1 TATAAATTTTTTGAATTTT
47210192 TATAAATTTTTTGAATTTT
1 TATAAATTTTTTGAATTTT
*
47210211 TGA-AAATTACTTTGAATTTTT
1 T-ATAAATT-TTTTGAA-TTTT
47210232 TATAA
1 TATAA
47210237 TTCTTGTTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
18 6 0.16
19 17 0.45
20 8 0.21
21 7 0.18
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (19 bp):
TATAAATTTTTTGAATTTT
Found at i:47210211 original size:20 final size:20
Alignment explanation
Indices: 47210174--47210236 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
47210164 TTTTTAAAAC
*
47210174 TATAAA-TTTTGGAA-TTTT
1 TATAAATTTTTTGAATTTTT
47210192 TATAAATTTTTTGAATTTTT
1 TATAAATTTTTTGAATTTTT
* *
47210212 GA-AAATTACTTTGAATTTTT
1 TATAAATT-TTTTGAATTTTT
47210232 TATAA
1 TATAA
47210237 TTCTTGTTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 6 0.16
19 12 0.32
20 17 0.46
21 2 0.05
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (20 bp):
TATAAATTTTTTGAATTTTT
Found at i:47216192 original size:2 final size:2
Alignment explanation
Indices: 47216185--47216230 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
47216175 AGAAATTTAA
47216185 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47216227 AT AT
1 AT AT
47216231 TTTAAAAAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47222948 original size:21 final size:21
Alignment explanation
Indices: 47222919--47222969 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
47222909 GGATCATGTA
* *
47222919 ATTTTGATTTATAAATTTTAT
1 ATTTGGATTTATAAACTTTAT
* *
47222940 GTTTGGATTTCTAAACTTTAT
1 ATTTGGATTTATAAACTTTAT
47222961 ATTTGGATT
1 ATTTGGATT
47222970 ATGCTATTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.04, G:0.12, T:0.57
Consensus pattern (21 bp):
ATTTGGATTTATAAACTTTAT
Found at i:47224902 original size:29 final size:29
Alignment explanation
Indices: 47224865--47225254 Score: 235
Period size: 29 Copynumber: 13.3 Consensus size: 29
47224855 CGGGGGCAAG
*
47224865 ATGGTAATTTTGGCGAAATCGGGGTTAAAA
1 ATGG-AATTTTGGTGAAATCGGGGTTAAAA
* * * * *
47224895 ATGAAATTTTTGAGAATTCAGGG-T-AAA
1 ATGGAATTTTGGTGAAATCGGGGTTAAAA
47224922 ATGGTAA-TTTGGTGAAATCGGGGTTAAAA
1 ATGG-AATTTTGGTGAAATCGGGGTTAAAA
47224951 ATGGAATTTT-G-GAAAGTTCGAGGG-T-AAA
1 ATGGAATTTTGGTGAAA--TCG-GGGTTAAAA
** *
47224979 ATGGTAATTTTCAATGAAATTGGGGTTAAAA
1 ATGG-AATTTT-GGTGAAATCGGGGTTAAAA
* * *
47225010 ATGGAATTTTGGAGAATTTGGGG-T-AAA
1 ATGGAATTTTGGTGAAATCGGGGTTAAAA
47225037 ATGGTAATTTTTGGTGAAATCGGGGTTAAAA
1 ATGG-AA-TTTTGGTGAAATCGGGGTTAAAA
47225068 ATGGAATTTT-G-GAAAGTTCGAGGG-T-AAA
1 ATGGAATTTTGGTGAAA--TCG-GGGTTAAAA
47225096 ATGGTAATTTTTGGTGAAATCGGGGTTAAAA
1 ATGG-AA-TTTTGGTGAAATCGGGGTTAAAA
* * * *
47225127 ATGGAATTTT--AGAAGGTTTGGGGGT-AAA
1 ATGGAATTTTGGTGAA--ATCGGGGTTAAAA
* * *
47225155 ATGATAATTTTTG-GAAGTTTCGGGGTTAAAA
1 ATG-GAATTTTGGTGAA--ATCGGGGTTAAAA
* *
47225186 ATGGAATTTT-G-GAAAGTTTGGGGGT-AAA
1 ATGGAATTTTGGTGAAA--TCGGGGTTAAAA
*
47225214 ATGGTAATTTTAGGTGAAATCGAGGTTAAAA
1 ATGG-AATTTT-GGTGAAATCGGGGTTAAAA
47225245 ATGGAATTTT
1 ATGGAATTTT
47225255 AGAAGGTTTA
Statistics
Matches: 287, Mismatches: 34, Indels: 78
0.72 0.09 0.20
Matches are distributed among these distances:
27 36 0.13
28 38 0.13
29 106 0.37
30 59 0.21
31 36 0.13
32 12 0.04
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (29 bp):
ATGGAATTTTGGTGAAATCGGGGTTAAAA
Found at i:47225011 original size:59 final size:58
Alignment explanation
Indices: 47224865--47225283 Score: 519
Period size: 59 Copynumber: 7.2 Consensus size: 58
47224855 CGGGGGCAAG
* * *
47224865 ATGGTAATTTTGGCGAAATCGGGGTTAAAAATGAAATTTTTGAGAA-TTC-AGGGTAAA
1 ATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGA-AAGTTCGAGGGTAAA
47224922 ATGGTAA-TTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAA
1 ATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAA
** * *
47224979 ATGGTAATTTTCAATGAAATTGGGGTTAAAAATGGAATTTTGGAGAA-TTTG-GGGTAAA
1 ATGGTAATTTT-GGTGAAATCGGGGTTAAAAATGGAATTTTGGA-AAGTTCGAGGGTAAA
47225037 ATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAA
1 ATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAA
* * * *
47225096 ATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGGTTTGGGGGTAAA
1 ATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAA
* * * * *
47225155 ATGATAATTTTTG-GAAGTTTCGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAA
1 ATGGTAATTTTGGTGAA--ATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAA
* * * *
47225214 ATGGTAATTTTAGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAGGTT-TAGGGGTAAA
1 ATGGTAATTTT-GGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGA-GGGTAAA
*
47225273 ATTGTAATTTT
1 ATGGTAATTTT
47225284 TGGAAGTTTT
Statistics
Matches: 320, Mismatches: 29, Indels: 24
0.86 0.08 0.06
Matches are distributed among these distances:
55 2 0.01
56 35 0.11
57 27 0.08
58 54 0.17
59 196 0.61
60 3 0.01
61 3 0.01
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.34
Consensus pattern (58 bp):
ATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAA
Found at i:47225281 original size:29 final size:29
Alignment explanation
Indices: 47225117--47225297 Score: 116
Period size: 30 Copynumber: 6.1 Consensus size: 29
47225107 TGGTGAAATC
*
47225117 GGGGTTAAAAATGGAATTTTAGAAGGTTTG
1 GGGG-TAAAAATGGAATTTTAGAAGGTTTA
* * *
47225147 GGGGT-AAAATGATAATTTTTGGAA-GTTTC
1 GGGGTAAAAATG-GAA-TTTTAGAAGGTTTA
* * *
47225176 GGGGTTAAAAATGGAATTTTGGAAAGTTTG
1 GGGG-TAAAAATGGAATTTTAGAAGGTTTA
** *** *
47225206 GGGGT-AAAATGGTAATTTTAGGTGAAATC
1 GGGGTAAAAATGG-AATTTTAGAAGGTTTA
*
47225235 GAGGTTAAAAATGGAATTTTAGAAGGTTTA
1 G-GGGTAAAAATGGAATTTTAGAAGGTTTA
* * * *
47225265 GGGGTAAAATTGTAATTTTTGGAAGTTTTA
1 GGGGTAAAAATGGAA-TTTTAGAAGGTTTA
47225295 GGG
1 GGG
47225298 TCAGAATGTA
Statistics
Matches: 117, Mismatches: 25, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
28 13 0.11
29 40 0.34
30 51 0.44
31 13 0.11
ACGTcount: A:0.33, C:0.01, G:0.31, T:0.35
Consensus pattern (29 bp):
GGGGTAAAAATGGAATTTTAGAAGGTTTA
Found at i:47225297 original size:30 final size:29
Alignment explanation
Indices: 47225117--47225311 Score: 107
Period size: 29 Copynumber: 6.6 Consensus size: 29
47225107 TGGTGAAATC
* * *
47225117 GGGGTTAAAAATGGAA-TTTTAGAAGGTTTG
1 GGGG-TAAAAATGTAATTTTTGGAA-GTTTA
*
47225147 GGGGT-AAAATGATAATTTTTGGAAGTTTC
1 GGGGTAAAAATG-TAATTTTTGGAAGTTTA
* *
47225176 GGGGTTAAAAATGGAA-TTTTGGAAAGTTTG
1 GGGG-TAAAAATGTAATTTTTGG-AAGTTTA
* * **
47225206 GGGGT-AAAATGGTAATTTTAGGTGAAATCGA
1 GGGGTAAAAAT-GTAATTTT-TG-GAAGTTTA
* * *
47225237 -GGTTAAAAATGGAA-TTTTAGAAGGTTTA
1 GGGGTAAAAATGTAATTTTTGGAA-GTTTA
*
47225265 GGGGTAAAATTGTAATTTTTGGAAGTTTTA
1 GGGGTAAAAATGTAATTTTTGGAAG-TTTA
* *
47225295 -GGGTCAGAATGTAATTT
1 GGGGTAAAAATGTAATTT
47225312 CCTAAAATTT
Statistics
Matches: 126, Mismatches: 25, Indels: 29
0.70 0.14 0.16
Matches are distributed among these distances:
27 3 0.02
28 13 0.10
29 50 0.40
30 44 0.35
31 15 0.12
32 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.30, T:0.35
Consensus pattern (29 bp):
GGGGTAAAAATGTAATTTTTGGAAGTTTA
Found at i:47225298 original size:29 final size:28
Alignment explanation
Indices: 47225148--47225345 Score: 89
Period size: 29 Copynumber: 6.8 Consensus size: 28
47225138 GAAGGTTTGG
**
47225148 GGGTAAAATGATAATTTTTGGAAGTTTCG
1 GGGTAAAATG-TAATTTTTGGAAGTTTTA
* **
47225177 GGGTTAAAAATGGAA-TTTTGGAAAGTTTGG
1 GGG-T-AAAATGTAATTTTTGG-AAGTTTTA
* * **
47225207 GGGTAAAATGGTAATTTTAGGTGAA-ATCGA
1 GGGTAAAAT-GTAATTTT-TG-GAAGTTTTA
* * * *
47225237 GGTTAAAAATGGAA-TTTTAGAAGGTTTA
1 GGGT-AAAATGTAATTTTTGGAAGTTTTA
47225265 GGGGTAAAATTGTAATTTTTGGAAGTTTTA
1 -GGGTAAAA-TGTAATTTTTGGAAGTTTTA
* * * *
47225295 GGGTCAGAATGTAATTTCCT-AAAATTTTA
1 GGGT-AAAATGTAATTT-TTGGAAGTTTTA
*
47225324 GGGTCAAAATGCAATTTTTGGA
1 GGGT-AAAATGTAATTTTTGGA
47225346 CTGTTTGAGG
Statistics
Matches: 128, Mismatches: 26, Indels: 30
0.70 0.14 0.16
Matches are distributed among these distances:
27 3 0.02
28 12 0.09
29 58 0.45
30 40 0.31
31 14 0.11
32 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.36
Consensus pattern (28 bp):
GGGTAAAATGTAATTTTTGGAAGTTTTA
Found at i:47225333 original size:118 final size:118
Alignment explanation
Indices: 47224865--47225334 Score: 421
Period size: 118 Copynumber: 4.0 Consensus size: 118
47224855 CGGGGGCAAG
* * * * *
47224865 ATGGTAATTTT-GGCGAAATCGGGGTTAAAAATGAAATTTTTGAGAA--TTCA-GGGTAAAATGG
1 ATGGTAATTTTAGGTGAAATCGAGGTTAAAAATGGAA-TTTT-AGAAGGTTTAGGGGTAAAATGA
* * * ** * *
47224926 TAA-TTTGGTGAA--ATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAA
64 TAATTTTTG-GAAGTTTCAGGGTTAAAAATGGAATTTCCGAAAATTTGAGGGTAAA
* * *
47224979 ATGGTAATTTTCA-ATGAAATTGGGGTTAAAAATGGAATTTTGGAGAA--TTT-GGGGTAAAATG
1 ATGGTAATTTT-AGGTGAAATCGAGGTTAAAAATGGAATTTT--AGAAGGTTTAGGGGTAAAATG
* * * ** * *
47225040 GTAATTTTTGGTGAA--ATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAA
63 ATAATTTTT-G-GAAGTTTCAGGGTTAAAAATGGAATTTCCGAAAATTTGAGGGTAAA
* * *
47225096 ATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGGTTTGGGGGTAAAATGATA
1 ATGGTAATTTTAGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAGGTTTAGGGGTAAAATGATA
* ** * *
47225161 ATTTTTGGAAGTTTCGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAA
66 ATTTTTGGAAGTTTCAGGGTTAAAAATGGAATTTCCGAAAATTTGAGGGTAAA
47225214 ATGGTAATTTTAGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAGGTTTAGGGGTAAAATTG-T
1 ATGGTAATTTTAGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAGGTTTAGGGGTAAAA-TGAT
* * * * * *
47225278 AATTTTTGGAAGTTTTAGGG-TCAGAATGTAATTTCCTAAAATTTTAGGGTCAAA
65 AATTTTTGGAAGTTTCAGGGTTAAAAATGGAATTTCCGAAAATTTGAGGGT-AAA
47225332 ATG
1 ATG
47225335 CAATTTTTGG
Statistics
Matches: 315, Mismatches: 27, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
114 15 0.05
115 45 0.14
116 6 0.02
117 108 0.34
118 139 0.44
119 2 0.01
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (118 bp):
ATGGTAATTTTAGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAGGTTTAGGGGTAAAATGATA
ATTTTTGGAAGTTTCAGGGTTAAAAATGGAATTTCCGAAAATTTGAGGGTAAA
Found at i:47226412 original size:19 final size:18
Alignment explanation
Indices: 47226383--47226431 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
47226373 ATATATATTA
47226383 ATTAATATTATTAGTACT
1 ATTAATATTATTAGTACT
* *
47226401 ATTAATTATTATTATTATT
1 ATTAA-TATTATTAGTACT
47226420 ATTAAATATTAT
1 ATT-AATATTAT
47226432 GATGAACTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 5 0.19
19 20 0.74
20 2 0.07
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (18 bp):
ATTAATATTATTAGTACT
Found at i:47227099 original size:6 final size:6
Alignment explanation
Indices: 47227090--47227167 Score: 74
Period size: 6 Copynumber: 13.0 Consensus size: 6
47227080 ATTTTTAATG
* *
47227090 TTTAAA TTTAGTA TTTAAA TGTAAA TTTAAA TAATTAAA TTTAAA TTTAAGA
1 TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA T--TTAAA TTTAAA TTTAA-A
47227142 --TAAA TTTAAA TTTAAA --TAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
47227168 ATCAATTTAA
Statistics
Matches: 60, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
4 5 0.08
5 3 0.05
6 40 0.67
7 6 0.10
8 6 0.10
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (6 bp):
TTTAAA
Found at i:47227147 original size:17 final size:16
Alignment explanation
Indices: 47227092--47227167 Score: 84
Period size: 16 Copynumber: 4.6 Consensus size: 16
47227082 TTTTAATGTT
*
47227092 TAAATTTAGTATTTAAA
1 TAAATTTA-AATTTAAA
*
47227109 TGTAAATTTAAA--TAAT
1 --TAAATTTAAATTTAAA
47227125 TAAATTTAAATTTAAGA
1 TAAATTTAAATTTAA-A
47227142 TAAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
47227158 TAAATTTAAA
1 TAAATTTAAA
47227168 ATCAATTTAA
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
14 10 0.20
16 17 0.33
17 15 0.29
18 1 0.02
19 8 0.16
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:47227169 original size:17 final size:17
Alignment explanation
Indices: 47227125--47227167 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
47227115 TTTAAATAAT
47227125 TAAATTTAAATTTAAGA
1 TAAATTTAAATTTAAGA
47227142 TAAATTTAAATTTAA-A
1 TAAATTTAAATTTAAGA
47227158 TAAATTTAAA
1 TAAATTTAAA
47227168 ATCAATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
TAAATTTAAATTTAAGA
Found at i:47227184 original size:27 final size:27
Alignment explanation
Indices: 47227131--47227185 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
47227121 TAATTAAATT
* *
47227131 TAAATTTAAGATAAATTTAAATTTAAA
1 TAAATTTAAAATAAATTTAAATCTAAA
* *
47227158 TAAATTTAAAATCAATTTAACTCTAAA
1 TAAATTTAAAATAAATTTAAATCTAAA
47227185 T
1 T
47227186 TAAAACAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (27 bp):
TAAATTTAAAATAAATTTAAATCTAAA
Found at i:47227722 original size:23 final size:25
Alignment explanation
Indices: 47227679--47227738 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 25
47227669 ATTCTCTTTT
*
47227679 TTTTTTTGTTTTAAGCAA-TTTAA-
1 TTTTTTTCTTTTAAGCAATTTTAAC
*
47227702 TTTTTTTCTTTTATG-ATATTTTAAC
1 TTTTTTTCTTTTAAGCA-ATTTTAAC
*
47227727 TTTTTTTTTTTT
1 TTTTTTTCTTTT
47227739 TTTTCGTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 1 0.03
23 14 0.45
24 5 0.16
25 11 0.35
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.72
Consensus pattern (25 bp):
TTTTTTTCTTTTAAGCAATTTTAAC
Found at i:47228626 original size:12 final size:12
Alignment explanation
Indices: 47228611--47228636 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
47228601 ATCGTTACAC
47228611 TTTTAACGATAA
1 TTTTAACGATAA
47228623 TTTTAACGATAA
1 TTTTAACGATAA
47228635 TT
1 TT
47228637 AACGGTTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (12 bp):
TTTTAACGATAA
Found at i:47230011 original size:5 final size:5
Alignment explanation
Indices: 47230001--47230037 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
47229991 CTAGTATATG
* *
47230001 ATTTT ATTTT ATTTT ATTTT ATTGT ATTGT ATTTT AT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT AT
47230038 AATTTTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (5 bp):
ATTTT
Found at i:47240574 original size:42 final size:42
Alignment explanation
Indices: 47240527--47240616 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
47240517 TTAATTTTTT
* * *
47240527 TTTAAAATTTTAATTCATGATTAAATTTTAATTTAGTTTAAG
1 TTTAAAATTTTAATTCAAGATTAAATTTTAATTAAGTTTAAA
* ** * *
47240569 TTTAAACTTTTCTTTTAAGTTTAAATTTTAATTAAGTTTAAA
1 TTTAAAATTTTAATTCAAGATTAAATTTTAATTAAGTTTAAA
47240611 TTTAAA
1 TTTAAA
47240617 TTGAATTTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (42 bp):
TTTAAAATTTTAATTCAAGATTAAATTTTAATTAAGTTTAAA
Found at i:47240587 original size:19 final size:17
Alignment explanation
Indices: 47240558--47240613 Score: 67
Period size: 19 Copynumber: 3.1 Consensus size: 17
47240548 TAAATTTTAA
47240558 TTTAGTTTAAGTTTAAACT
1 TTTA-TTTAAGTTTAAA-T
*
47240577 TTTCTTTTAAGTTTAAAT
1 TTT-ATTTAAGTTTAAAT
*
47240595 TTTAATTAAGTTTAAAT
1 TTTATTTAAGTTTAAAT
47240612 TT
1 TT
47240614 AAATTGAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 14 0.42
18 4 0.12
19 15 0.45
ACGTcount: A:0.32, C:0.04, G:0.07, T:0.57
Consensus pattern (17 bp):
TTTATTTAAGTTTAAAT
Found at i:47240605 original size:17 final size:17
Alignment explanation
Indices: 47240564--47240630 Score: 73
Period size: 17 Copynumber: 3.8 Consensus size: 17
47240554 TTAATTTAGT
**
47240564 TTAAGTTTAAACTTTTCTT
1 TTAAGTTTAAA-TTTT-AA
47240583 TTAAGTTTAAATTTTAA
1 TTAAGTTTAAATTTTAA
*
47240600 TTAAGTTTAAATTTAAA
1 TTAAGTTTAAATTTTAA
47240617 TTGAA-TTTAAATTT
1 TT-AAGTTTAAATTT
47240631 AAAATTAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
17 27 0.61
18 6 0.14
19 11 0.25
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (17 bp):
TTAAGTTTAAATTTTAA
Found at i:47240616 original size:6 final size:6
Alignment explanation
Indices: 47240582--47240638 Score: 55
Period size: 6 Copynumber: 9.8 Consensus size: 6
47240572 AAACTTTTCT
* * * *
47240582 TTTAAG TTTAAA TTTTAA -TTAAG TTTAAA TTTAAA -TTGAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
47240628 TTTAAA ATTAA
1 TTTAAA TTTAA
47240639 TTAAAAAGTC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
5 7 0.17
6 34 0.83
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (6 bp):
TTTAAA
Found at i:47240626 original size:23 final size:23
Alignment explanation
Indices: 47240582--47240638 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
47240572 AAACTTTTCT
* * *
47240582 TTTAAGTTTAAATTTTAATTAAG
1 TTTAAATTTAAATTTGAATTAAA
47240605 TTTAAATTTAAA-TTGAATTTAAA
1 TTTAAATTTAAATTTGAA-TTAAA
*
47240628 TTTAAAATTAA
1 TTTAAATTTAA
47240639 TTAAAAAGTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 4 0.14
23 25 0.86
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (23 bp):
TTTAAATTTAAATTTGAATTAAA
Found at i:47240640 original size:17 final size:17
Alignment explanation
Indices: 47240583--47240638 Score: 78
Period size: 17 Copynumber: 3.2 Consensus size: 17
47240573 AACTTTTCTT
*
47240583 TTAAGTTTAAATTTTAA
1 TTAAGTTTAAATTTAAA
47240600 TTAAGTTTAAATTTAAA
1 TTAAGTTTAAATTTAAA
47240617 TTGAA-TTTAAATTTAAAA
1 TT-AAGTTTAAATTT-AAA
47240635 TTAA
1 TTAA
47240639 TTAAAAAGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
17 29 0.81
18 7 0.19
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.48
Consensus pattern (17 bp):
TTAAGTTTAAATTTAAA
Found at i:47241267 original size:12 final size:11
Alignment explanation
Indices: 47241250--47241308 Score: 54
Period size: 12 Copynumber: 5.5 Consensus size: 11
47241240 AACATGTATC
47241250 TAATAAATATA
1 TAATAAATATA
47241261 GTAATAAATATA
1 -TAATAAATATA
*
47241273 T-ATTAATA-A
1 TAATAAATATA
*
47241282 TAAT-AAT-CA
1 TAATAAATATA
47241291 TAATAAATATA
1 TAATAAATATA
47241302 GTAATAA
1 -TAATAA
47241309 TGATAGTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
9 10 0.25
10 11 0.28
11 2 0.05
12 17 0.43
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (11 bp):
TAATAAATATA
Found at i:47242526 original size:30 final size:30
Alignment explanation
Indices: 47242490--47242620 Score: 144
Period size: 30 Copynumber: 4.4 Consensus size: 30
47242480 GGACTGTTCA
* *
47242490 AAAATTACATTTTGACCTCTAAACTTTCCT
1 AAAATTACATTTTGACCCCCAAACTTTCCT
* *
47242520 AAAATTATATTTTGACCACCAAACTTTTCC-
1 AAAATTACATTTTGACCCCCAAAC-TTTCCT
* *
47242550 AAAATTAGATTTTGACCCCAAAACTTT-CT
1 AAAATTACATTTTGACCCCCAAACTTTCCT
*
47242579 AAAATTACCATTTT-ACCCCCAAAC-TTCCC
1 AAAATTA-CATTTTGACCCCCAAACTTTCCT
*
47242608 AAAATTCCATTTT
1 AAAATTACATTTT
47242621 TAACCCTAAT
Statistics
Matches: 87, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
28 9 0.10
29 26 0.30
30 47 0.54
31 5 0.06
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCCAAACTTTCCT
Found at i:47242592 original size:60 final size:58
Alignment explanation
Indices: 47242490--47242620 Score: 165
Period size: 60 Copynumber: 2.2 Consensus size: 58
47242480 GGACTGTTCA
* * * *
47242490 AAAATTACATTTTGACCTCTAAACTTTCCTAAAATTATATTTTGACCACCAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTCCTAAAATTACATTTT-ACCACCAAAC-TTCCC
* *
47242550 AAAATTAGATTTTGACCCCAAAACTTT-CTAAAATTACCATTTTACCCCCAAACTTCCC
1 AAAATTACATTTTGACCCCAAAACTTTCCTAAAATTA-CATTTTACCACCAAACTTCCC
*
47242608 AAAATTCCATTTT
1 AAAATTACATTTT
47242621 TAACCCTAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
58 15 0.24
59 18 0.29
60 29 0.47
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (58 bp):
AAAATTACATTTTGACCCCAAAACTTTCCTAAAATTACATTTTACCACCAAACTTCCC
Found at i:47242621 original size:29 final size:29
Alignment explanation
Indices: 47242490--47242744 Score: 95
Period size: 30 Copynumber: 8.6 Consensus size: 29
47242480 GGACTGTTCA
* * * * *
47242490 AAAATTACATTTTGACCTCTAAACTTTCCT
1 AAAATTCCATTTTTACCCCCAAAC-TTCCC
** * * *
47242520 AAAATTATATTTTGACCACCAAACTTTTCC
1 AAAATTCCATTTTTACCCCCAAAC-TTCCC
** * * * *
47242550 AAAATTAGATTTTGACCCCAAAACTTTCT
1 AAAATTCCATTTTTACCCCCAAACTTCCC
47242579 AAAATTACCA-TTTTACCCCCAAACTTCCC
1 AAAATT-CCATTTTTACCCCCAAACTTCCC
* * * *
47242608 AAAATTCCATTTTTAACCCTAATTCTACCC
1 AAAATTCCATTTTTACCCCCAA-ACTTCCC
* * *
47242638 AAAATTACCA-TTTTACCCCTC-GACTTTCT
1 AAAATT-CCATTTTTACCCC-CAAACTTCCC
* * * * **
47242667 AAAATCCCATTTTTAACCTCGATTTTACCC
1 AAAATTCCATTTTTACCCCCAAACTT-CCC
* * *
47242697 AAAATTACCA-TTTTACCCTCGAACTTTCC
1 AAAATT-CCATTTTTACCCCCAAACTTCCC
* *
47242726 AAAATCCTCATTTTGACCC
1 AAAATTC-CATTTTTACCC
47242745 AATTTCAACC
Statistics
Matches: 173, Mismatches: 41, Indels: 22
0.73 0.17 0.09
Matches are distributed among these distances:
28 8 0.05
29 67 0.39
30 92 0.53
31 6 0.03
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (29 bp):
AAAATTCCATTTTTACCCCCAAACTTCCC
Found at i:47242642 original size:59 final size:57
Alignment explanation
Indices: 47242579--47242774 Score: 216
Period size: 59 Copynumber: 3.4 Consensus size: 57
47242569 AAAACTTTCT
* *
47242579 AAAATTACCATTTTACCCCCAAACTTCCCAAAATTCCATTTTTAACCCTAATTCTACCC
1 AAAATTACCATTTTACCCCC-AACTTTCCAAAATCCCATTTTTAACCCTAATT-TACCC
* * * *
47242638 AAAATTACCATTTTACCCCTCGACTTTCTAAAATCCCATTTTTAACCTCGATTTTACCC
1 AAAATTACCATTTTACCCC-CAACTTTCCAAAATCCCATTTTTAACC-CTAATTTACCC
* * *
47242697 AAAATTACCATTTTACCCTCGAACTTTCCAAAATCCTCA-TTTTGACCC-AATTTCAACC
1 AAAATTACCATTTTACCC-CCAACTTTCCAAAATCC-CATTTTTAACCCTAATTT-ACCC
* *
47242755 AAAATTACCGTTTTGCCCCC
1 AAAATTACCATTTTACCCCC
47242775 GGGTATCCAA
Statistics
Matches: 117, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
57 5 0.04
58 20 0.17
59 84 0.72
60 8 0.07
ACGTcount: A:0.31, C:0.32, G:0.03, T:0.34
Consensus pattern (57 bp):
AAAATTACCATTTTACCCCCAACTTTCCAAAATCCCATTTTTAACCCTAATTTACCC
Found at i:47242652 original size:30 final size:29
Alignment explanation
Indices: 47242548--47242657 Score: 98
Period size: 29 Copynumber: 3.8 Consensus size: 29
47242538 CCAAACTTTT
* * **
47242548 CCAAAATTA-GATTTTGACCCCAAAACTTT
1 CCAAAATTACCATTTT-ACCCCTAAACTAC
* * *
47242577 CTAAAATTACCATTTTACCCCCAAACTTC
1 CCAAAATTACCATTTTACCCCTAAACTAC
* *
47242606 CCAAAATT-CCATTTTTAACCCTAATTCTAC
1 CCAAAATTACCA-TTTTACCCCTAA-ACTAC
47242636 CCAAAATTACCATTTTACCCCT
1 CCAAAATTACCATTTTACCCCT
47242658 CGACTTTCTA
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
28 3 0.04
29 36 0.54
30 25 0.37
31 3 0.04
ACGTcount: A:0.35, C:0.31, G:0.02, T:0.33
Consensus pattern (29 bp):
CCAAAATTACCATTTTACCCCTAAACTAC
Found at i:47242711 original size:30 final size:29
Alignment explanation
Indices: 47242579--47242718 Score: 108
Period size: 30 Copynumber: 4.8 Consensus size: 29
47242569 AAAACTTTCT
* * **
47242579 AAAATTACCATTTTACCCCCAAACTTCCC
1 AAAATTACCATTTTACCCTCGATTTTCCC
* *
47242608 AAAATT-CCATTTTTAACCCT-AATTCTACCC
1 AAAATTACCA-TTTT-ACCCTCGATT-TTCCC
* *
47242638 AAAATTACCATTTTACCCCTCGACTTT-CT
1 AAAATTACCATTTTA-CCCTCGATTTTCCC
* *
47242667 AAAA-TCCCATTTTTAACCTCGATTTTACCC
1 AAAATTACCA-TTTTACCCTCGATTTT-CCC
47242697 AAAATTACCATTTTACCCTCGA
1 AAAATTACCATTTTACCCTCGA
47242719 ACTTTCCAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 19
0.73 0.12 0.16
Matches are distributed among these distances:
28 16 0.18
29 23 0.26
30 39 0.45
31 9 0.10
ACGTcount: A:0.32, C:0.31, G:0.02, T:0.34
Consensus pattern (29 bp):
AAAATTACCATTTTACCCTCGATTTTCCC
Found at i:47270982 original size:92 final size:92
Alignment explanation
Indices: 47270825--47272131 Score: 2341
Period size: 92 Copynumber: 14.2 Consensus size: 92
47270815 CCACGACGAT
*
47270825 GAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAAATGAATTTTCAAATGTCAATTCTTATCCT
1 GAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAATTTTCAAATGTCAATTCTTATCCT
*
47270890 CTTGAAGTTATAGTAAAGATGGATAAC
66 CTTGAAGTTATAGTAAAGTTGGATAAC
* *
47270917 GAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATAAATTTTCAAATGAT-AGTTCTTATCC
1 GAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAATTTTCAAATG-TCAATTCTTATCC
47270981 TCTTGAAGTTATAGTAAAGTTGGATAAC
65 TCTTGAAGTTATAGTAAAGTTGGATAAC
47271009 GAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAATTTTCAAATGTCAATTCTTATCCT
1 GAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAATTTTCAAATGTCAATTCTTATCCT
47271074 CTTGAAGTTATAGTAAAGTTGGATAAC
66 CTTGAAGTTATAGTAAAGTTGGATAAC
47271101 GAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAATTTTCAAATGTCAATTCTTATCCT
1 GAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAATTTTCAAATGTCAATTCTTATCCT
*
47271166 CTTGAAGTTATAGTAAAGATGGATAAC
66 CTTGAAGTTATAGTAAAGTTGGATAAC
47271193 GAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAATTTTCAAATGAT-AATTCTTATCC
1 GAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAATTTTCAAATG-TCAATTCTTATCC
*
47271257 TCTTGAAGTTATAGTAAAGTTGGATAAG
65 TCTTGAAGTTATAGTAAAGTTGGATAAC
* *
47271285 GAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATAAATTTTCAAATAAT-AATTCTTATCC
1 GAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAATTTTCAAAT-GTCAATTCTTATCC
*
47271349 TCTTGAAGTTATAGTAAAGTTGGACAAC
65 TCTTGAAGTTATAGTAAAGTTGGATAAC
*
47271377 GAATCTTTATCTCTCTAAAGTTATAGTAAGAGCAAGATGAATTTTCAAATGTCAATTCTTATCCT
1 GAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAATTTTCAAATGTCAATTCTTATCCT
* *
47271442 CTTGAAGTTATAGTAAAGATGGACAAC
66 CTTGAAGTTATAGTAAAGTTGGATAAC
*
47271469 GAATCTTTATCTCTCTGAAGCTATAGTAAGAGCAAGATGAATTTTCAAATGTCAATTCTTATCCT
1 GAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAATTTTCAAATGTCAATTCTTATCCT
* *
47271534 CTTGAATTTATAGTAAAGATGGATAAC
66 CTTGAAGTTATAGTAAAGTTGGATAAC
47271561 GAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAATTTTCAAATGTCAATTCTTATCCT
1 GAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAATTTTCAAATGTCAATTCTTATCCT
*
47271626 CTTGAAGTTATAGTAAAGTTGGATAAG
66 CTTGAAGTTATAGTAAAGTTGGATAAC
47271653 GAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAATTTTCAAATGTCAATTCTTATCCT
1 GAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAATTTTCAAATGTCAATTCTTATCCT
*
47271718 CTTGAATTTATAGTAAAGTTGGATAAC
66 CTTGAAGTTATAGTAAAGTTGGATAAC
*
47271745 GAATCTTTATCTCTCTAAAGTTATAGTAAGAGCAAGATGAATTTTCAAATGTCAATTCTTATCCT
1 GAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAATTTTCAAATGTCAATTCTTATCCT
*
47271810 CTTGAAGTTATAGTAAAGTTGGATAAG
66 CTTGAAGTTATAGTAAAGTTGGATAAC
*
47271837 GAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGAAGAATTTTCAAATGTCAATTCTTATCCT
1 GAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAATTTTCAAATGTCAATTCTTATCCT
*
47271902 CTTGAAGTTATAGTAAAGTTGGATGAC
66 CTTGAAGTTATAGTAAAGTTGGATAAC
* *
47271929 GAATCTTTATCTCTCTGAAGTTATAGTAAGAGTAAGATGAATTTTCAAATGTTAATTCTTATCCT
1 GAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAATTTTCAAATGTCAATTCTTATCCT
47271994 CTTGAAGTTATAGTAAAGTTGGATAAC
66 CTTGAAGTTATAGTAAAGTTGGATAAC
*
47272021 GAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAGTTTTCAAATGTCAATTCTTATCCT
1 GAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAATTTTCAAATGTCAATTCTTATCCT
47272086 CTTGAAGTTATAGTAAAGTTGGATAAC
66 CTTGAAGTTATAGTAAAGTTGGATAAC
*
47272113 GAATCTTTATCTATCTGAA
1 GAATCTTTATCTCTCTGAA
47272132 AATAAAACCT
Statistics
Matches: 1168, Mismatches: 42, Indels: 10
0.96 0.03 0.01
Matches are distributed among these distances:
91 2 0.00
92 1164 1.00
93 2 0.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (92 bp):
GAATCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAATTTTCAAATGTCAATTCTTATCCT
CTTGAAGTTATAGTAAAGTTGGATAAC
Found at i:47272464 original size:23 final size:23
Alignment explanation
Indices: 47272438--47272497 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
47272428 TAATTCATGA
*
47272438 TTAAATTTTAATTTAGTTTAAGT
1 TTAAATTTTAATTTAGTTTAAAT
*
47272461 TTAAATTTTAATTAAGTTTAAAT
1 TTAAATTTTAATTTAGTTTAAAT
*
47272484 TT-AATTTGAATTTA
1 TTAAATTTTAATTTA
47272498 AATTTAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (23 bp):
TTAAATTTTAATTTAGTTTAAAT
Found at i:47272498 original size:23 final size:23
Alignment explanation
Indices: 47272441--47272512 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
47272431 TTCATGATTA
*
47272441 AATTTTAATTT-AGTTTAAGTTT
1 AATTTTAATTTAAGTTTAAATTT
47272463 AAATTTTAA-TTAAGTTTAAATTT
1 -AATTTTAATTTAAGTTTAAATTT
* * *
47272486 AATTTGAATTTAAATTTAAAATT
1 AATTTTAATTTAAGTTTAAATTT
47272509 AATT
1 AATT
47272513 AAAAAGTCCA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.21
23 34 0.79
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (23 bp):
AATTTTAATTTAAGTTTAAATTT
Found at i:47272503 original size:6 final size:6
Alignment explanation
Indices: 47272438--47272510 Score: 62
Period size: 6 Copynumber: 12.7 Consensus size: 6
47272428 TAATTCATGA
* * * * *
47272438 TTAAAT TTTAAT TT-AGT TTAAGT TTAAAT TTTAA- TTAAGT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* *
47272484 TT-AAT TTGAAT TTAAAT TTAAAA TTAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAA
47272511 TTAAAAAGTC
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
5 12 0.22
6 43 0.78
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.52
Consensus pattern (6 bp):
TTAAAT
Found at i:47272504 original size:17 final size:17
Alignment explanation
Indices: 47272447--47272504 Score: 75
Period size: 17 Copynumber: 3.4 Consensus size: 17
47272437 ATTAAATTTT
*
47272447 AATTTAGTTTAAGTTTA
1 AATTTAATTTAAGTTTA
47272464 AATTTTAA-TTAAGTTTA
1 AA-TTTAATTTAAGTTTA
47272481 AATTTAATTTGAA-TTTA
1 AATTTAATTT-AAGTTTA
47272498 AATTTAA
1 AATTTAA
47272505 AATTAATTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
16 5 0.14
17 26 0.70
18 6 0.16
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (17 bp):
AATTTAATTTAAGTTTA
Found at i:47272512 original size:17 final size:17
Alignment explanation
Indices: 47272455--47272510 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
47272445 TTAATTTAGT
*
47272455 TTAAGTTTAAATTTTAA
1 TTAAGTTTAAATTTAAA
*
47272472 TTAAGTTTAAATTTAAT
1 TTAAGTTTAAATTTAAA
47272489 TTGAA-TTTAAATTTAAAA
1 TT-AAGTTTAAATTT-AAA
47272507 TTAA
1 TTAA
47272511 TTAAAAAGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 28 0.82
18 6 0.18
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (17 bp):
TTAAGTTTAAATTTAAA
Found at i:47273136 original size:12 final size:11
Alignment explanation
Indices: 47273119--47273177 Score: 54
Period size: 12 Copynumber: 5.5 Consensus size: 11
47273109 AACATGTATC
47273119 TAATAAATATA
1 TAATAAATATA
47273130 GTAATAAATATA
1 -TAATAAATATA
*
47273142 T-ATTAATA-A
1 TAATAAATATA
*
47273151 TAAT-AAT-CA
1 TAATAAATATA
47273160 TAATAAATATA
1 TAATAAATATA
47273171 GTAATAA
1 -TAATAA
47273178 TGATAGTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
9 10 0.25
10 11 0.28
11 2 0.05
12 17 0.43
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (11 bp):
TAATAAATATA
Found at i:47274377 original size:30 final size:30
Alignment explanation
Indices: 47274327--47274615 Score: 286
Period size: 30 Copynumber: 9.7 Consensus size: 30
47274317 CTCTGAAAGT
* * *
47274327 CCCAAGACTGTTCAAAAATTATATTTTGAC
1 CCCAAAACTTTTCCAAAATTATATTTTGAC
** * *
47274357 CCTTAAACTTTTCTAAAATTATATTTTAAC
1 CCCAAAACTTTTCCAAAATTATATTTTGAC
* *
47274387 CCCAAAACTTCTT-AAAAATTATATTTTAAC
1 CCCAAAACTT-TTCCAAAATTATATTTTGAC
*
47274417 CACC-AAACTTTTCCAAAATTATATTTTAACC
1 C-CCAAAACTTTTCCAAAATTATATTTTGA-C
**
47274448 CCCAAAACTTTTTAAAAATTATATTTTGAC
1 CCCAAAACTTTTCCAAAATTATATTTTGAC
**
47274478 CCCTTAACTTTTCCAAAATTATATTTT-AGC
1 CCCAAAACTTTTCCAAAATTATATTTTGA-C
*
47274508 CCCAAAAC-TTTCTAAAAATTATATTTTGAC
1 CCCAAAACTTTTC-CAAAATTATATTTTGAC
* *
47274538 CCCTAAACTTTTCCAAAATTAGATTTTGAC
1 CCCAAAACTTTTCCAAAATTATATTTTGAC
* * *
47274568 CCCAAAAC-TTTCAAAAATTACCATTTTAAC
1 CCCAAAACTTTTCCAAAATTA-TATTTTGAC
*
47274598 CCC-AAAC-TTCCCAAAATT
1 CCCAAAACTTTTCCAAAATT
47274616 CCATTTTTAA
Statistics
Matches: 220, Mismatches: 29, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
29 31 0.14
30 156 0.71
31 33 0.15
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.37
Consensus pattern (30 bp):
CCCAAAACTTTTCCAAAATTATATTTTGAC
Found at i:47274487 original size:121 final size:119
Alignment explanation
Indices: 47274327--47274587 Score: 384
Period size: 121 Copynumber: 2.2 Consensus size: 119
47274317 CTCTGAAAGT
* *
47274327 CCCAAGACTGTTCAAAAATTATATTTTGACCCTTAAACTTTTCTAAAATTATATTTTAACCCCAA
1 CCCAAAACT-TTCAAAAATTATATTTTGACCCTTAAACTTTTCCAAAATTATATTTTAACCCCAA
*
47274392 AAC-TTCTTAAAAATTATATTTTAACCACC-AAACTTTTCCAAAATTATATTTTAACC
65 AACTTTC-TAAAAATTATATTTTAACC-CCTAAACTTTTCCAAAATTAGATTTTAA-C
* *
47274448 CCCAAAACTTTTTAAAAATTATATTTTGACCCCTT-AACTTTTCCAAAATTATATTTTAGCCCCA
1 CCCAAAAC-TTTCAAAAATTATATTTTGA-CCCTTAAACTTTTCCAAAATTATATTTTAACCCCA
* *
47274512 AAACTTTCTAAAAATTATATTTTGACCCCTAAACTTTTCCAAAATTAGATTTTGAC
64 AAACTTTCTAAAAATTATATTTTAACCCCTAAACTTTTCCAAAATTAGATTTTAAC
47274568 CCCAAAACTTTCAAAAATTA
1 CCCAAAACTTTCAAAAATTA
47274588 CCATTTTAAC
Statistics
Matches: 128, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
119 11 0.09
120 11 0.09
121 97 0.76
122 9 0.07
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (119 bp):
CCCAAAACTTTCAAAAATTATATTTTGACCCTTAAACTTTTCCAAAATTATATTTTAACCCCAAA
ACTTTCTAAAAATTATATTTTAACCCCTAAACTTTTCCAAAATTAGATTTTAAC
Found at i:47274594 original size:60 final size:60
Alignment explanation
Indices: 47274327--47274628 Score: 366
Period size: 60 Copynumber: 5.0 Consensus size: 60
47274317 CTCTGAAAGT
* * *
47274327 CCCAAGACTGTTCAAAAATTATATTTTGACCCTTAAACTTTTCTAAAATTATATTTTAA-C
1 CCCAAAACT-TTCAAAAATTATATTTTGACCCCTAAACTTTTCCAAAATTATATTTTAACC
* *
47274387 CCCAAAACTTCTTAAAAATTATATTTTAACCACC-AAACTTTTCCAAAATTATATTTTAACC
1 CCCAAAACTT-TCAAAAATTATATTTTGACC-CCTAAACTTTTCCAAAATTATATTTTAACC
* * *
47274448 CCCAAAACTTTTTAAAAATTATATTTTGACCCCTTAACTTTTCCAAAATTATATTTT-AGC
1 CCCAAAAC-TTTCAAAAATTATATTTTGACCCCTAAACTTTTCCAAAATTATATTTTAACC
* *
47274508 CCCAAAACTTTCTAAAAATTATATTTTGACCCCTAAACTTTTCCAAAATTAGATTTTGA-C
1 CCCAAAACTTTC-AAAAATTATATTTTGACCCCTAAACTTTTCCAAAATTATATTTTAACC
* * *
47274568 CCCAAAACTTTCAAAAATTACCATTTTAACCCC-AAAC-TTCCCAAAATTCCAT-TTTTAACC
1 CCCAAAACTTTCAAAAATTA-TATTTTGACCCCTAAACTTTTCCAAAATT--ATATTTTAACC
47274628 C
1 C
47274629 TAATTCTACC
Statistics
Matches: 215, Mismatches: 16, Indels: 22
0.85 0.06 0.09
Matches are distributed among these distances:
58 10 0.05
59 21 0.10
60 130 0.60
61 52 0.24
62 2 0.01
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.37
Consensus pattern (60 bp):
CCCAAAACTTTCAAAAATTATATTTTGACCCCTAAACTTTTCCAAAATTATATTTTAACC
Found at i:47274641 original size:30 final size:30
Alignment explanation
Indices: 47274581--47274653 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
47274571 AAAACTTTCA
*
47274581 AAAATTACCA-TTTTAACCCCAAACTTCCC
1 AAAATTACCATTTTTAACCCCAAACTACCC
* *
47274610 AAAATT-CCATTTTTAACCCTAATTCTACCC
1 AAAATTACCATTTTTAACCCCAA-ACTACCC
47274640 AAAATTACCATTTT
1 AAAATTACCATTTT
47274654 ACCCCTCGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 3 0.08
29 17 0.45
30 11 0.29
31 7 0.18
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (30 bp):
AAAATTACCATTTTTAACCCCAAACTACCC
Found at i:47274672 original size:30 final size:28
Alignment explanation
Indices: 47274341--47274674 Score: 195
Period size: 30 Copynumber: 11.2 Consensus size: 28
47274331 AGACTGTTCA
* * *
47274341 AAAATTATATTTTGACCCTTAAACTTTTCT
1 AAAATTACATTTT-ACCCCTAAAC-TTTCC
* * **
47274371 AAAATTATATTTTAACCCCAAAACTTCTTA
1 AAAATTACATTTT-ACCCCTAAACTT-TCC
*
47274401 AAAATTATATTTTAACCACC-AAACTTTTCC
1 AAAATTACATTTT-ACC-CCTAAAC-TTTCC
* * **
47274431 AAAATTATATTTTAACCCCCAAAACTTTTTA
1 AAAATTACATTTT-A-CCCCTAAAC-TTTCC
* *
47274462 AAAATTATATTTTGACCCCTTAACTTTTCC
1 AAAATTACATTTT-ACCCCTAAAC-TTTCC
* * *
47274492 AAAATTATATTTTAGCCCCAAAACTTTCTA
1 AAAATTACATTTTA-CCCCTAAACTTTC-C
*
47274522 AAAATTATATTTTGACCCCTAAACTTTTCC
1 AAAATTACATTTT-ACCCCTAAAC-TTTCC
* * *
47274552 AAAATTAGATTTTGACCCCAAAACTTTCA
1 AAAATTACATTTT-ACCCCTAAACTTTCC
*
47274581 AAAATTACCATTTTAACCCC-AAACTTCCC
1 AAAATTA-CATTTT-ACCCCTAAACTTTCC
* * * **
47274610 AAAATTCCATTTTTAACCCTAATTCTACCC
1 AAAATTACA-TTTTACCCCTAA-ACTTTCC
*
47274640 AAAATTACCATTTTACCCCTCGAACTTTCC
1 AAAATTA-CATTTTACCCCT-AAACTTTCC
47274670 AAAAT
1 AAAAT
47274675 CCTCGTTTTG
Statistics
Matches: 253, Mismatches: 36, Indels: 30
0.79 0.11 0.09
Matches are distributed among these distances:
28 6 0.02
29 37 0.15
30 174 0.69
31 36 0.14
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.37
Consensus pattern (28 bp):
AAAATTACATTTTACCCCTAAACTTTCC
Found at i:47274703 original size:59 final size:59
Alignment explanation
Indices: 47274581--47274718 Score: 147
Period size: 59 Copynumber: 2.3 Consensus size: 59
47274571 AAAACTTTCA
* *
47274581 AAAATTACCATTTTAACCCCAAACTTCCCAAAATTCCATTTTTAACCCTAATTCTACCC
1 AAAATTACCATTTTACCCCCAAACTTCCCAAAATTCCATTTTTAACCCTAATTCTAACC
* * * * *
47274640 AAAATTACCATTTTACCCCTCGAACTTTCCAAAA-TCC-TCGTTTTGACCC-AATTTTAACG
1 AAAATTACCATTTTACCCC-CAAACTTCCCAAAATTCCAT--TTTTAACCCTAATTCTAACC
**
47274699 AAAATTACTGTTTTACCCCC
1 AAAATTACCATTTTACCCCC
47274719 GGGTATCCAA
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
58 2 0.03
59 45 0.67
60 20 0.30
ACGTcount: A:0.33, C:0.30, G:0.04, T:0.33
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCAAACTTCCCAAAATTCCATTTTTAACCCTAATTCTAACC
Found at i:47276545 original size:18 final size:17
Alignment explanation
Indices: 47276509--47276541 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
47276499 ATCACTCATT
*
47276509 ATTTTAATAGCATTTTC
1 ATTTTAATAACATTTTC
47276526 ATTTTAATAACATTTT
1 ATTTTAATAACATTTT
47276542 TCATATCAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.09, G:0.03, T:0.55
Consensus pattern (17 bp):
ATTTTAATAACATTTTC
Found at i:47284624 original size:27 final size:27
Alignment explanation
Indices: 47284586--47284657 Score: 137
Period size: 27 Copynumber: 2.7 Consensus size: 27
47284576 GCAGATATAG
47284586 ATTAAT-TAGTTTATTAATTAAGTTTA
1 ATTAATCTAGTTTATTAATTAAGTTTA
47284612 ATTAATCTAGTTTATTAATTAAGTTTA
1 ATTAATCTAGTTTATTAATTAAGTTTA
47284639 ATTAATCTAGTTTATTAAT
1 ATTAATCTAGTTTATTAAT
47284658 CATTATTCTA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 6 0.13
27 39 0.87
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (27 bp):
ATTAATCTAGTTTATTAATTAAGTTTA
Found at i:47284658 original size:13 final size:12
Alignment explanation
Indices: 47284586--47284657 Score: 90
Period size: 13 Copynumber: 5.5 Consensus size: 12
47284576 GCAGATATAG
47284586 ATTAATTAGTTT
1 ATTAATTAGTTT
47284598 ATTAATTAAGTTT
1 ATTAATT-AGTTT
47284611 AATTAATCTAGTTT
1 -ATTAAT-TAGTTT
47284625 ATTAATTAAGTTT
1 ATTAATT-AGTTT
47284638 AATTAATCTAGTTT
1 -ATTAAT-TAGTTT
47284652 ATTAAT
1 ATTAAT
47284658 CATTATTCTA
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
12 8 0.15
13 22 0.41
14 22 0.41
15 2 0.04
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (12 bp):
ATTAATTAGTTT
Done.